AlignACE version 2.2 July 7, 1998 alignace -jprotein_targeting_sorting_and_translocation.orf -y -e Parameter values: expect = 10 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.38 maxlen = 30 weight = 0.8 exclude = 1 Purged sequences: YIL173W 600 bp YIL173W 1-4650 Input sequences: #1 YAL005C 600 bp YAL005C ssa1 1-1929 Heat shock protein of HSP70 family, cytoplasmic #2 YAL002W 600 bp YAL002W VPS8 1-3531 Vps8p is a membrane-associated hydrophilic protein which contains a C-terminal cysteine-rich region that conforms to the H2 variant of the RING finger Zn2+ binding motif. #3 YAR002C-A 300 bp YAR002C-A 1-660 #4 YBL069W 300 bp YBL069W AST1 1-987 #5 YBL040C 600 bp YBL040C ERD2 1-22, 120-757 encodes the HDEL receptor required for retention of ER proteins #6 YBL017C 600 bp YBL017C pep1 1-4740 carboxypeptidase Y sorting receptor in late Golgi\; Type I integral membrane protein 166aa cytoplasmic tail, 1300 aa lumenal domain #7 YBR097W 300 bp YBR097W vps15 1-4365 Myristoylated Serine\/threonine protein kinase involved in vacuolar protein sorting #8 YBR162W-A 600 bp YBR162W-A YSY6 1-198 Protein that participates in secretory pathway #9 YBR170C_YBR171W 323 bp YBR170C NPL4 1-1743 YBR171W SEC66 1-621 glycoprotein complexed with Sec62p and Sec63p in the Sec63 complex, an integral endoplasmic reticulum membrane protein complex required for translocation of presecretory proteins #10 YBR283C 600 bp YBR283C SSH1 1-1473 #11 YCL001W 377 bp YCL001W RER1 1-726 Protein involved in retention of membrane proteins, including Sec12p, in the ER\; localized to Golgi, where it may function in returning membrane proteins to the ER #12 YCR075C 477 bp YCR075C ERS1 1-783 Suppressor of ERD1 mutation\; seven transmembrane domain protein #13 YCR099C 600 bp YCR099C 1-468 #14 YCR100C 300 bp YCR100C 1-951 #15 YCR101C 600 bp YCR101C 1-549 #16 YDL217C 390 bp YDL217C TIM22 1-624 Mitochondrial inner membrane protein involved in import of proteins of the ADP\/ATP carrier (AAC) family #17 YDL212W 459 bp YDL212W SHR3 1-633 Integral membrane component of the endoplasmic reticulum #18 YDL092W 600 bp YDL092W SRP14 1-441 Signal recognition particle subunit #19 YDR005C 438 bp YDR005C 1-6, 87-1268 #20 YDR086C 300 bp YDR086C SSS1 1-243 endoplasmic reticulum protein that is part of the Sec61 trimeric complex and the Ssh1 trimeric complex #21 YDR117C 300 bp YDR117C 1-1698 #22 YDR185C 385 bp YDR185C 1-540 #23 YDR244W 300 bp YDR244W PEX5 1-1839 69-kDa protein containing tetratricopeptide repeat (TPR) #24 YDR292C 600 bp YDR292C SRP101 1-1866 signal recognition particle receptor - alpha subunit #25 YDR323C 405 bp YDR323C pep7 1-1548 cytosolic and peripheral membrane protein with three zinc fingers\; cysteine rich regions of amino acids are essential for function #26 YDR414C 350 bp YDR414C ERD1 1-1089 Protein required for retention of luminal ER proteins #27 YDR432W 300 bp YDR432W NPL3 1-1245 nuclear shuttling protein with an RNA recognition motif #28 YDR495C 300 bp YDR495C vps3 1-3036 Vacuolar sorting protein #29 YDR498C 600 bp YDR498C SEC20 1-1152 membrane glycoprotein, sorted by HDEL retrieval system #30 YER019C-A 600 bp YER019C-A SBH2 1-267 homologous to Sbh1p #31 YER087C-A 345 bp YER087C-A SBH1 1-249 homologous to Sbh2p #32 YER101C 600 bp YER101C AST2 1-1293 #33 YER110C 491 bp YER110C KAP123 1-3342 Karyopherin beta 4 #34 YGL206C 600 bp YGL206C chc1 1-4962 presumed vesicle coat protein #35 YGL153W 300 bp YGL153W PEX14 1-1026 Peroxisomal peripheral membrane protein (peroxin) involved in import of peroxisomal matrix proteins #36 YGL095C 510 bp YGL095C VPS45 1-1734 cytosolic and peripheral membrane protein #37 YGL002W 342 bp YGL002W 1-651 #38 YGR028W 300 bp YGR028W MSP1 1-1089 40 kDa putative membrane-spanning ATPase #39 YGR082W 300 bp YGR082W TOM20 1-552 20 kDa mitochondrial outer membrane protein import receptor #40 YHL031C 597 bp YHL031C GOS1 1-672 #41 YHR012W 360 bp YHR012W VPS29 1-48, 168-968 #42 YHR050W 300 bp YHR050W SMF2 1-1650 localized to mitochondrial membrane #43 YHR110W 300 bp YHR110W 1-639 #44 YIL076W 515 bp YIL076W SEC28 1-1080 epsilon-COP coatomer subunit Sec28p #45 YIL022W 600 bp YIL022W TIM44 1-1296 48.8 kDa protein involved in mitochondrial protein import #46 YJL222W 600 bp YJL222W 1-4650 #47 YJL154C 396 bp YJL154C vps35 1-2835 #48 YJL143W 427 bp YJL143W TIM17 1-477 16.5 kDa inner membrane protein required for import of mitochondrial precursor proteins #49 YJL054W 300 bp YJL054W TIM54 1-1437 Translocase for the insertion of proteins into the mitochondrial inner membrane. #50 YJL053W 300 bp YJL053W PEP8 1-1140 Vacuolar protein similar to mouse gene H58 #51 YJL034W 325 bp YJL034W KAR2 1-2049 Homologue of mammalian BiP (GPR78) protein\; member of the HSP70 gene family #52 YKL196C 300 bp YKL196C YKT6 1-603 v-SNARE #53 YKL154W 300 bp YKL154W 1-735 #54 YKL122C 600 bp YKL122C SRP21 1-504 component of signal recognition particle #55 YKL073W 300 bp YKL073W LHS1 1-2646 novel member of the Hsp70 family of molecular chaperones that localizes to the lumen of the endoplasmic reticulum: #56 YKR001C 509 bp YKR001C VPS1 1-2115 putative GTP-binding protein\; similar to mammalian Mx proteins #57 YKR014C 600 bp YKR014C YPT52 1-705 #58 YLL040C 416 bp YLL040C VPS13 1-9435 #59 YLR148W 300 bp YLR148W pep3 1-2757 vacuolar membrane protein #60 YLR168C 300 bp YLR168C MSF1' 1-693 #61 YLR191W 582 bp YLR191W PEX13 1-1161 Peroxisomal membrane protein that contains Src homology 3 (SH3) domain #62 YLR292C 400 bp YLR292C SEC72 1-582 protein involved in membrane protein insertion into the ER #63 YLR347C 563 bp YLR347C KAP95 1-2586 95 kDa structural and functional homolog of vertebrate karyopherin beta (importin 90) #64 YLR360W 372 bp YLR360W VPS38 1-1320 #65 YLR378C 600 bp YLR378C SEC61 1-1443 membrane component of ER protein translocation apparatus #66 YLR396C 300 bp YLR396C vps33 1-2076 #67 YLR417W 300 bp YLR417W VPS36 1-1701 defective in vacuolar protein sorting #68 YML105C 300 bp YML105C SEC65 1-822 signal recognition particle subunit, homologue of mammalian SRP19 #69 YML097C 300 bp YML097C VPS9 1-1356 required for Golgi to vacuole trafficking, shares similarity to mammalian ras inhibitors #70 YML062C 300 bp YML062C MFT1 1-1179 #71 YMR004W 302 bp YMR004W MVP1 1-1536 Protein required for sorting proteins to the vacuole #72 YMR018W 600 bp YMR018W 1-1545 #73 YMR035W 419 bp YMR035W imp2 1-534 Inner membrane protease (mitochondrial protein) #74 YMR060C 300 bp YMR060C TOM37 1-984 mitochondrial import receptor, heterodimerizes with Tom70p, preferentially recognizes the mature regions of precursor proteins associated with ATP-dependent cytosolic chaperones #75 YMR091C 300 bp YMR091C NPL6 1-1308 #76 YMR150C 567 bp YMR150C IMP1 1-573 Inner membrane protease (mitochondrial protein) #77 YMR197C 546 bp YMR197C VTI1 1-654 Vti1p is a v-SNARE that interacts with two t-SNARES, Sed5p and Pep12p #78 YMR203W 300 bp YMR203W TOM40 1-1164 Mitochondrial outer membrane protein\; forms the outer membrane import channel #79 YMR214W 300 bp YMR214W SCJ1 1-1215 dnaJ homolog #80 YNL131W 300 bp YNL131W TOM22 1-459 Mitochondrial import receptor complex protein #81 YNL121C 495 bp YNL121C TOM70 1-1854 70 kDa mitochondrial specialized import receptor of the outer membrane #82 YNL106C 399 bp YNL106C INP52 1-3552 inositol polyphosphate 5-phosphatase #83 YNL093W 493 bp YNL093W YPT53 1-663 rab5-like GTPase involved in vacuolar protein sorting and endocytosis #84 YNL070W 394 bp YNL070W TOM7 1-183 translocase of the outer mito. membrane #85 YNL064C 600 bp YNL064C ydj1 1-1230 yeast dnaJ homolog (nuclear envelope protein)\; heat shock protein #86 YNL054W 600 bp YNL054W VAC7 1-3498 #87 YNR006W 600 bp YNR006W VPS27 1-1869 hydrophilic protein\; has cysteine rich putative zinc finger esential for function #88 YNR017W 600 bp YNR017W MAS6 1-669 23 kDa mitochondrial inner membrane protein #89 YOL122C 600 bp YOL122C SMF1 1-1728 has been localized to both the plasma membrane and the mitochondrial membrane #90 YOL062C 300 bp YOL062C APM4 1-1476 Clathrin associated protein, medium subunit #91 YOR016C 327 bp YOR016C 1-624 #92 YOR020C 600 bp YOR020C HSP10 1-321 10 kDa mitochondrial heat shock protein #93 YOR036W 300 bp YOR036W pep12 1-867 integral membrane protein\; c-terminal TMD\; located in endosome #94 YOR045W 371 bp YOR045W TOM6 1-186 outer mitochondrial membrane protein, component of the mitochondiral protein translocation complex, associates with Isp42p #95 YOR069W 600 bp YOR069W VPS5 1-939 Sorting nexin I homologue #96 YOR089C 300 bp YOR089C vps21 1-633 small GTP-binding protein\; geranylgeranylated\; geranylgeranylation required for membrane association\; also involved in endocytosis post vesicle internalization #97 YOR132W 336 bp YOR132W vps17 1-1656 Peripheral membrane protein required for vacuolar protein sorting #98 YOR254C 300 bp YOR254C SEC63 1-1992 Protein involved in protein import into ER #99 YOR270C 484 bp YOR270C vph1 1-2523 Vacuolar H-ATPase 100 kDa subunit of membrane (V0) sector, essential for vacuolar acidification and vacuolar H-ATPase activity #100 YOR285W 425 bp YOR285W 1-420 #101 YOR286W 300 bp YOR286W 1-450 #102 YOR327C 600 bp YOR327C SNC2 1-348 vesicle-associated membrane protein (synaptobrevin) homolog #103 YOR329C 300 bp YOR329C SCD5 1-2619 #104 YOR357C 448 bp YOR357C GRD19 1-489 Grd19p that is epitope tagged with the HA epitope at the C-terminus is functional, migrates at 28 kDa, fractionates predominantly in the cytosolic fraction (however a minor amount associates with membranes), and shows diffuse cytosolic labeling when immunolocalized in wild-type yeast\; however, in vps27 mutant cells (a class E vps mutant, which accumulates a prevaculoar compartment), Grd19p-HA co-localizes with the vacuolar H+-ATPase in the prevaculoar compartment\; Grd19p contains PX domain, which is found in proteins such as human SNX1 (Sorting Nexin-1) (Ponting, C.P. 1996. Protein Science 5:2353-2357) #105 YPL259C 600 bp YPL259C APM1 1-1428 medium subunit of the clathrin-associated protein complex #106 YPL243W 483 bp YPL243W SRP68 1-1800 component of signal recognition particle #107 YPL210C 300 bp YPL210C SRP72 1-1941 component of signal recognition particle #108 YPL094C 300 bp YPL094C SEC62 1-852 membrane component of ER protein translocation apparatus #109 YPL045W 316 bp YPL045W vps16 1-2397 Vacuolar sorting protein #110 YPR047W 300 bp YPR047W MSF1 1-1425 alpha subunit of yeast mitochondrial phenylalanyl-tRNA synthetase #111 YPR088C 300 bp YPR088C 1-1626 Motif number 1 TCTGAGCCCTAAGAAAAAAAATTTCCTTGG 1 100 1 AAGAAAAAAA 0.885939 -501 AAAATGGCGGAAAAAAAAAATTCAGAAAAA 1 133 1 AAAAAAAAAA 0.955753 -468 TTTCCTGTGGAAAAAAAAAAAAGGGAACCT 2 177 1 AAAAAAAAAA 0.955753 -424 CTGTTACCGTAAAAAAAAAACGAATCGCGT 3 168 1 AAAAAAAAAA 0.955753 -133 TAATAAGTTGAAAAAAAAAAACACATCAGC 3 197 1 AAAAAAAAAA 0.955753 -104 AAATAAGGGTAGAAAAAAAAATTAGAAATT 5 245 0 AGAAAAAAAA 0.829543 -356 AGATGGCGACAAGAAAAAAAGCCACGTCAA 8 483 0 AAGAAAAAAA 0.885939 -118 TGAAAAAGTGAAAAAAAAAATGTCGGGTAG 10 314 1 AAAAAAAAAA 0.955753 -287 CCAAGCAAAGAAAAAAAAAAGAGCAAGCTT 10 488 0 AAAAAAAAAA 0.955753 -113 TCCTTGGAAAAGAAAAAAGACGACGATATA 14 20 1 AGAAAAAAGA 0.739391 -281 ATCGATTAAGAAGAAAAAAATCTTAGAAAA 17 93 1 AAGAAAAAAA 0.885939 -367 TCGGTAATGGAGGAAAAAAAAATTTTTTTA 19 17 1 AGGAAAAAAA 0.63636 -422 TTAACAAGAGAAAAAAAAGATAATTCAACT 19 234 1 AAAAAAAAGA 0.926431 -205 AAATGTTGCGAGGAAAAAAAGGCGACGTGT 20 123 0 AGGAAAAAAA 0.63636 -178 TTCAAAACGAAAAAAAAATAAAAAAAATGT 20 147 0 AAAAAAAATA 0.750506 -154 ACGTAAACCCAAAAAAAAAAATACAATATC 22 132 0 AAAAAAAAAA 0.955753 -254 TTGGGTGGCGAAAAAAAAGAATGTAAAAAA 27 179 0 AAAAAAAAGA 0.926431 -122 GAATTTTTTTAAAAAAAAAAGAGTCAGACA 29 64 0 AAAAAAAAAA 0.955753 -537 AAATGGAGGAAAAAAAAAAAGACGAAATCC 30 436 0 AAAAAAAAAA 0.955753 -165 CTTAAAATGAAAAAAAAATAAAAATAAAAA 31 19 1 AAAAAAAATA 0.750506 -327 GCGTTCCACGAAAAAAAATAGTTGAAGCGG 31 174 0 AAAAAAAATA 0.750506 -172 CCAAAAAAAAAAAAAAAAAATTTAAAAACT 33 54 0 AAAAAAAAAA 0.955753 -438 GATGAGGTCGAAAAAAAAAAAAAAAAAAAA 33 272 1 AAAAAAAAAA 0.955753 -220 AAAAAAAAAAAAAAAAAAAAAAAAATAGAA 33 282 1 AAAAAAAAAA 0.955753 -210 TTCAAGAGGTAAGAAAAAGAACACTCCGAT 38 23 0 AAGAAAAAGA 0.81911 -278 ACGAAAAACAAAAAAAAAGAGATAAAAAGA 40 514 1 AAAAAAAAGA 0.926431 -84 GAAACAGCAGAAAAAAAAGAAATCATATTA 42 123 1 AAAAAAAAGA 0.926431 -178 GAATATAATGAAAAAAAAAAAATCATTCCT 46 142 1 AAAAAAAAAA 0.955753 -459 CCCAACTGACAAAAAAAAGAAAGCGGACGG 46 513 0 AAAAAAAAGA 0.926431 -88 TAGGCGGAAAAAGAAAAAGAGAGTCGTTGA 47 18 0 AAGAAAAAGA 0.81911 -379 TTCAAAAGAAAAAAAAAAAATATAAAGACT 47 141 0 AAAAAAAAAA 0.955753 -256 CTGAAAAAAAAAAAAAAAAATAAAAAACGC 47 203 0 AAAAAAAAAA 0.955753 -194 GAAAAGAGAGAAAAAAAAAAAGAAGGTGGT 47 290 1 AAAAAAAAAA 0.955753 -107 GCCACCCAATAAGAAAAAAAGGGAAAAGGA 52 123 0 AAGAAAAAAA 0.885939 -178 TTATCAAAAAAAAAAAAAAACCAAAAAGAA 58 65 0 AAAAAAAAAA 0.955753 -352 CGACGTTGTAAGAAAAAAGATTAAATCACA 61 195 0 AGAAAAAAGA 0.739391 -388 GAACAAGAATAGAAAAAAAAATACCGAAAG 63 109 0 AGAAAAAAAA 0.829543 -455 GAGAGAACCAAGGAAAAAAAAATAAAAAAA 63 336 1 AGGAAAAAAA 0.63636 -228 AAAAAAAAATAAAAAAAAAAGAAAAATAAC 63 349 1 AAAAAAAAAA 0.955753 -215 GTGAAAGCAAAAGAAAAAAACATAGTTAAA 65 532 1 AAGAAAAAAA 0.885939 -69 CTTTTGAAAAAAAAAGAATGACTTTCA 67 284 0 AAAAAAAAGA 0.926431 -17 CGAACAATCTAAAAAAAAAAGTGTAATTGT 68 81 1 AAAAAAAAAA 0.955753 -220 TTGTAATCTGAAAAAAAAAAAAATATCAAT 68 205 1 AAAAAAAAAA 0.955753 -96 AACACATGCCAGAAAAAAAAGTGAGGAAGG 71 165 1 AGAAAAAAAA 0.829543 -138 TCTCCACTCAAAAAAAAAGAATAAAATAAA 72 546 0 AAAAAAAAGA 0.926431 -55 ATAAAAAATTAAAAAAAAAAAAAAAAAAAT 84 83 1 AAAAAAAAAA 0.955753 -312 AAAAAAAAAAAAAAAAAATACTCAAATACT 84 94 1 AAAAAAAATA 0.750506 -301 GAAAATACTGAAAAAAAAAAGACACCGACA 88 336 1 AAAAAAAAAA 0.955753 -265 AGACACCGACAAAAAAAAGAGAGAAAGGAA 88 355 1 AAAAAAAAGA 0.926431 -246 TCCATTGCAGAAAAAAAAAAAAAAAAGACC 88 457 1 AAAAAAAAAA 0.955753 -144 GCAGATAGAAAAAAAAAAAATAACCAAGAT 88 544 1 AAAAAAAAAA 0.955753 -57 GAATCTACAGAAAAAAAAGA 92 591 1 AAAAAAAAGA 0.926431 -10 CGAGAAAACCAAAAAAAAAAAAAACACGTA 96 106 0 AAAAAAAAAA 0.955753 -195 TCAGATAGATAAGAAAAAAAAATTAGTTAA 99 49 1 AAGAAAAAAA 0.885939 -436 CTAATGCGTCAAAAAAAAAATGGGCTAAAA 99 197 1 AAAAAAAAAA 0.955753 -288 ATGGGCTAAAAAAAAAAAAAGCAAAAAAAA 99 216 1 AAAAAAAAAA 0.955753 -269 AAAAAAAAGCAAAAAAAAGAAACTCAGATA 99 228 1 AAAAAAAAGA 0.926431 -257 AATTTGAATCAAAAAAAAAACATTTAAAGG 99 449 1 AAAAAAAAAA 0.955753 -36 AATATTCTCCAAAAAAAATACAAAAGCAAT 100 281 0 AAAAAAAATA 0.750506 -145 AGGAAGTATAAAAAAAAAAATACAAAACTT 101 213 1 AAAAAAAAAA 0.955753 -88 AGCGAGACAGAAGAAAAAGACCAACG 101 285 1 AAGAAAAAGA 0.81911 -16 GTTGCGACATAAAAAAAAAAGAATCACAAC 105 94 1 AAAAAAAAAA 0.955753 -507 gttcagttgaaaaaaaaaaagaaagtgaag 108 185 1 aaaaaaaaaa 0.955753 -116 atcaagaagtaaaaaaaaaaaggaagcaca 109 97 0 aaaaaaaaaa 0.955753 -220 cccaaaatcaaaaaaaaagaagtggaaaat 109 125 0 aaaaaaaaga 0.926431 -192 AATCTTCGAGAAAAAAAAAAGGTAGGAAAA 110 226 1 AAAAAAAAAA 0.955753 -75 CAACAAAGTGAAAAAAAATAGTGGTAAAAC 111 203 1 AAAAAAAATA 0.750506 -98 ********** Masking position 5 Map Score: 104.191 Number of sites scoring better than the average of aligned sites = 9305 Number in coding regions = 875 Number in noncoding regions = 8430 Number of orfs with sites within 600 bp upstream = 1645 Fraction of orfs with sites within 600 bp upstream = 0.264215 Motif number 2 ATGGCGGAAAAAAAAAATTCAGAAAAAGAAATAAAGCACGTGT 1 136 1 AAAAAAGAAA 0.803622 -465 ATCGGCGGCAAAAGGGAGAGAAAGAACCCAAAAAGAAGGGGGG 1 364 1 AAAGAAAAAA 0.765142 -237 ACAAATAGAGAAAATAAAACAACTTAAGTAAGAATTGGGAAAC 1 497 0 AAAAAAAAAA 0.934169 -104 ACATCAAAAGAAAAGTAATCAAGTATTACAAGAAACAAAAATT 1 549 1 AAAAAAAAAA 0.934169 -52 ATTCACGTACAAAAATAGAGAATATATAAAATAATAGGTTGAC 3 113 0 AAAAAAAAAA 0.934169 -188 GCATGGAGGAAAAAGAAAAGAGATGCGACAAGATGATTTAATG 4 39 0 AAAAAAGAAA 0.803622 -262 GCTTTTTGTCAAAATAATGAAAAATAAAGAAAATATATAAAAG 4 167 1 AAAAAAAAAA 0.934169 -134 GGAGAAATACAAAAGCTGTAAGGTTATCAAAAAGGAAGGCATA 7 261 1 AAAATAGAAA 0.5137 -40 TATAATATAAAAAAAAATTGAATGGAGATAAGAAGTTTAACTA 8 115 1 AAAAAAAAAA 0.934169 -486 AACAAATCTGAAAATAATGGAAGTGAAACAAGGCTAAGCAAGA 8 205 1 AAAAAAAAAG 0.803622 -396 GTACGACGAAAAAGCGTGGAAAAATAAACAAAACCAGCACTAA 8 350 1 AAAGTAAAAA 0.45681 -251 AAAGCTATGAAAAACCACCCAACCCAAGCAAAGAAAAAAAAAA 10 498 0 AAAAAAAAAG 0.803622 -103 ACTAAATATCACAATAAACAAAGTACTAAAATAAACACCCAT 12 10 0 ACAAAAAAAA 0.803622 -468 AGCTTTGAAAAAAAACTTTGAACTAAGAAAAGGTAAGAGATCC 15 562 1 AAAATAAAAG 0.5137 -39 CGGGTTGTGTAAAAACTCTGAAAAATATAAAAAGTTGATGAAA 17 342 1 AAAATAAAAA 0.785547 -118 ATTTCACTAAACAACTAACGAATACCAAAAAAATGATCCGTAT 18 143 1 ACAAAAAAAA 0.803622 -458 CTTTCATTTCAAAACGAAAAAAAAATAAAAAAAATGTTGCGAG 20 141 0 AAAAAAAAAA 0.934169 -160 ATTTATCAAAAAAAGTAATGAGATTTTCGAAGAAAGTTCATAA 22 214 1 AAAAAAGAAA 0.803622 -172 ATATAAATTGAAAAGTTGTAAATATTGAAAAGAAGGCTGCATT 24 214 0 AAAATAAAAA 0.785547 -387 TGTTTCCGGAAAAATTACCCAGCGCATAAAAAGTAAGCTTTCA 24 345 0 AAAAAAGAAG 0.541308 -256 ATACTTTGGGAAAACAATAGAATAATGAAAACATATGATCAGT 25 288 1 AAAAAAAAAA 0.934169 -118 TCGTCATCTGAAAATAACATAATCAATGAAAGAAATAGAGTCA 26 122 1 AAAAAAAAAA 0.934169 -229 AAGGCTACTCAAAAGAATAAAGTTACTATAAAATAT 27 4 0 AAAAAAGAAA 0.803622 -297 TGAAGGAATCAAAATTAAGCAATTACGCTAAAACCATAAGGAT 27 267 1 AAAAAAAAAA 0.934169 -34 CATGGTAAATACAATTACATAAAGAAAAGAAAAGCAACAAAAC 29 295 1 ACAAAAAAAA 0.803622 -306 AAGGCGCATAACAAACTATAAAGCCATTAAAGATT 29 576 1 ACAATAAAAA 0.5137 -25 TAACTGAATGAAAAAGTGAAAATGGAGGAAAAAAAAAAAGACG 30 442 0 AAAATAAAAA 0.785547 -159 GGGAAAACTTAAAATGAAAAAAAAATAAAAATAAAAAAATATC 31 12 1 AAAAAAAAAA 0.934169 -334 AATAAAAATAAAAAAATATCAACAACAAAAAGAAAAATGTGAA 31 35 1 AAAATAAAAA 0.785547 -311 GCGATGTCTGAAAATCATAAAATAGGATGAATAATGGCGATAG 32 447 0 AAAAAAAAAA 0.934169 -154 TGCTACCAAAAAAAAAAAAAAAAAATTTAAAAACTCTGATAAT 33 46 0 AAAAAAAAAA 0.934169 -446 GATGAGGTCGAAAAAAAAAAAAAAAAAAAAAAAAATAGAAACA 33 272 1 AAAAAAAAAA 0.934169 -220 GAATAAATACAAAGAGAATTAAGAAAAGTAAAAAGTGGAACTG 34 430 1 AAAGAAAAAA 0.765142 -171 CACTGGTTGGAAAAGTATACAAAAAATTCAAAAAAATTATAAA 36 56 1 AAAAAAAAAA 0.934169 -455 TTACCTCTTGAAAAAGAGGTAGTAAAGTCAATATAAATTCTTG 38 41 1 AAAAAAGAAA 0.803622 -260 CCTGATATATACAAAGATCAAATAAGTATAAAAGCTTTCAAAG 40 210 1 ACAAAAAAAA 0.803622 -388 ACTATTGAACAAAGATAACTAACTGATTGAACAAGAGTAGGCG 40 426 0 AAAGAAAAAA 0.765142 -172 AAGAGAACGAAAAACAAAAAAAAAGAGATAAAAAGACAAGGAA 40 508 1 AAAAAAAAAA 0.934169 -90 TCTCAAACGGAAAAGAATAAAACGCGAGAAAGAGACAGTGGAA 43 187 0 AAAAAAAAAA 0.934169 -114 AGACGAAGTGACAAAGAGGCAATAGTTCAAAAGAAAAAAAAAA 47 153 0 ACAAAAAAAG 0.541308 -244 CCTCAACTGAAAAAAAAAAAAAAAAATAAAAAACGCCCCTTTA 47 196 0 AAAAAAAAAA 0.934169 -201 CCACCTCAGTAAAGAGAAGAAAAGAGAGAAAAAAAAAAAGAAG 47 272 1 AAAGAAAAAA 0.765142 -125 TATTCTCATCAAAAGATGGAAAAGCTGTGAAAGAGTCAAGTTC 48 355 1 AAAATAAAAG 0.5137 -73 TTAAACTTGAAAAAGATGAGAAGAAAAGAAATAGTTAGGCTTT 53 195 1 AAAATAAAAA 0.785547 -106 GCAAAAGTTTAAAGACACTAAACTAGCTAAATAATTTCACTGT 56 98 0 AAAGAAAAAA 0.765142 -412 GTATTTATCAAAAAAAAAAAAAAACCAAAAAGAAAAAAGGAGA 58 56 0 AAAAAAAAAA 0.934169 -361 TAACGATTTCAAAAATATCAAATCTATAGAACGAAAGAAATAA 59 198 1 AAAAAAAAAG 0.803622 -103 CAGAGCGGTAAAAAGGAATGAATGTGAAAAATGTAAAGAATAT 60 150 1 AAAAAAAAAG 0.803622 -151 AGACTAAGATAAAATAATCGAGAATAATTAAAAGACGATA 60 271 1 AAAAAAGAAA 0.803622 -30 AACCAAGGAAAAAAAAATAAAAAAAAAAGAAAAATAACTGCGA 63 341 1 AAAAAAAAAA 0.934169 -223 TTAATTAGTTAAAAGATAGAAAATTCGAGAAAGGAAGAAAAAG 66 228 1 AAAATAAAAG 0.5137 -73 ATGGAGACTGAAAAACAAAAAAGCAGAGAAAAGGTCATCCAAG 67 200 1 AAAAAAAAAG 0.803622 -101 GAAGAAGTACACAATTTTTAAAGCGGCTGAAGAAGTGTACCAA 68 127 0 ACAATAAAAA 0.5137 -174 AAAATAATAAAAAAGAAAGAAAAGTGAAAAATATTAAGGCATC 69 144 0 AAAAAAAAAA 0.934169 -157 GGTACGAGAAACAAATTGGAAACGAATAAAAAAGTAAGAGAAG 72 76 0 ACAATAAAAA 0.5137 -525 CCACTCAAAAAAAAAGAATAAAATAAAATAAAACGGATAAGAG 72 530 0 AAAAAAAAAA 0.934169 -71 GAAAGCATAAAAAAGAACCGAACCACTTTAAAATCTAGCAAAT 73 174 0 AAAAAAAAAA 0.934169 -246 TATAAAGTAAACAATTACGTAACCTTAGAAAAATAGATATAAA 75 53 1 ACAAAAAAAA 0.803622 -248 ACCATCGTGCAAAACAATAAAAGACTACCAATAACCGACGTGA 78 265 1 AAAAAAAAAA 0.934169 -36 CGACCAGTGGAAAAGATCTTAAAGGAATTAAGAGGAACTCCAC 81 394 1 AAAATAAAAA 0.785547 -102 ATATGGTTAAAAAAAAAGGAAAGGAAGTAAATAAATAAGTATA 82 54 0 AAAAAAAAAA 0.934169 -346 AAAAAAAAAAAAAAATACTCAAATACTCAAATACGTATACATT 84 97 1 AAAAAAAAAA 0.934169 -298 TTCTACAACTAAAATCAAGTAGATACAGGAAAATATTCCATAA 86 492 1 AAAAAAGAAA 0.803622 -109 ATTCATTGAAAAAAAGAGAAAATACTGAAAAAAAAAAGACACC 88 319 1 AAAAAAAAAA 0.934169 -282 CAGATAGAAAAAAAAAAAATAACCAAGATAATATAGGTATACT 88 545 1 AAAAAAAAAA 0.934169 -56 TATCACGTCAAAAAACAGGAAACAGTGAAAAAAAAGTAGTCCA 91 142 0 AAAAAAAAAA 0.934169 -186 TTTAATGGAGAAAGAAAGCAAAGAAAAATAAAAGGTATTTTCT 92 15 0 AAAGAAAAAA 0.765142 -586 TCTCAAGAGAACAAAAACAAAACACAGACAAAATAATTGAAAA 94 339 1 ACAAAAAAAA 0.803622 -33 GAAAGCTGAAAAAGAGAATGAATTTGTTGAAGAGCCATTGGAC 95 112 1 AAAGAAAAAA 0.765142 -489 GTGCTATGGAAAAAAGTGTAAAGAAAACGAAAAAACCAGAAAA 97 137 0 AAAATAAAAA 0.785547 -200 AAAATGGGCTAAAAAAAAAAAAAGCAAAAAAAAGAAACTCAGA 99 213 1 AAAAAAAAAA 0.934169 -272 TTTGCGGAAGACAGGGAGAAAAAATAAAAAAAAAGTCACGCGT 102 327 0 ACAGAAAAAA 0.484406 -274 aaagaagtggaaaatcaagaagtaaaaaaaaaaaggaagcaca 109 97 0 aaaaaagaaa 0.803622 -220 CTTCGAGAAAAAAAAAAGGTAGGAAAATTAAGGAACTACTCAC 110 229 1 AAAAAAGAAG 0.541308 -72 **** * ** ** * Masking position 11 Map Score: 76.8337 Number of sites scoring better than the average of aligned sites = 2684 Number in coding regions = 593 Number in noncoding regions = 2091 Number of orfs with sites within 600 bp upstream = 895 Fraction of orfs with sites within 600 bp upstream = 0.143752 Motif number 3 GGCGGAAAAAAAAAATTCAGAAAAAGAAATAAAGCACG 1 138 1 AAAACAAAAA 0.835695 -463 GAAAGTTTACAACAATCCACAAGAACGAAAATGCCGTT 1 212 0 AAAACAAAAA 0.835695 -389 GTTGAAAAAAAAAAACACATCAGCAGAAATGTGTACAT 3 203 1 AAAACAACAA 0.630398 -98 TTTTTGTCAAAATAATGAAAAATAAAGAAAATATATAA 4 169 1 AAAAAAAAAA 0.932346 -132 ATAAGGGTAGAAAAAAAAATTAGAAATTGAGGAGGGGA 5 235 0 AAAAAAAAAT 0.789338 -366 CTAAGGGCAAAATAAAAAAGGAAAAAGAGTACGGTAGT 6 510 0 AAAAAAAAAA 0.932346 -91 TCAACATCATAAAAATGAAAAACAGATATATCTTAAGT 7 196 1 AAAAAAAAGA 0.891876 -105 CTTGCGAGAAAAGAAATAATTATAATATAAAAAAAAAT 8 95 1 AAAAAAAAAT 0.789338 -506 TATACTATCTAAAAACTAAATATCACAATAAACAAAGT 12 29 0 AAAAAAACAA 0.822107 -449 ACGGCTAGTCAAGAAGGAAACAACACCAACATCTCATA 13 553 1 AAAAAAACAA 0.822107 -48 TTTCAAAACGAAAAAAAAATAAAAAAAATGTTGCGAGG 20 140 0 AAAAAAAAAA 0.932346 -161 CGTAAACCCAAAAAAAAAAATACAATATCGGTTAAAGT 22 123 0 AAAAAAAAAT 0.789338 -263 TAAGAGTATAAATAACAAAAGACAATATAAATTGAAAA 24 243 0 AAAAAAAAAT 0.789338 -358 ACTTAAAATGAAAAAAAAATAAAAATAAAAAAATATCA 31 18 1 AAAAAAAAAA 0.932346 -328 AATTGCTACCAAAAAAAAAAAAAAAAAATTTAAAAACT 33 54 0 AAAAAAAAAA 0.932346 -438 ATTGTACGAAAACAAAGCACAATCGTAATAAAAGACAT 33 211 0 AAAACAACGA 0.505168 -281 AGGTCGAAAAAAAAAAAAAAAAAAAAAAAAATAGAAAC 33 276 1 AAAAAAAAAA 0.932346 -216 TTTATTAGTCAACAAAAAAGAATAGGCAAGACCCCGCA 33 367 1 AAAAAAAAGA 0.891876 -125 AGTTACTCTGAACAACTAATCAAAATATCTCCTTATTT 34 486 0 AAAAAAAAAT 0.789338 -115 ATTCAACTATAAAAATAAATTATCACGAAAGTTCTAAC 34 571 1 AAAAAAACAA 0.822107 -30 AAAGTATACAAAAAATTCAAAAAAATTATAAAATGTTA 36 67 1 AAAACAAAAA 0.835695 -444 TTCTTCGGGTAAGAAACCAATATCGACACAACAAGATA 37 205 1 AAAACAACGA 0.505168 -138 CACGTTTTCAAAAAAGGAAGAAGCAAGAACGAAAAGAG 38 246 1 AAAAAAACAA 0.822107 -55 GAGAACGAAAAACAAAAAAAAAGAGATAAAAAGACAAG 40 510 1 AAAAAAAAGA 0.891876 -88 GAAGGAAGAAAATAATGCAGAAGAGAAACAGCAGAAAA 42 99 1 AAAACAAAGA 0.752741 -202 CCGCGGAAATAAAAACACAGAAAAAGAAGGAAATAATG 44 143 1 AAAACAAAAA 0.835695 -373 ACGCTGAAACAAAAAGAAAAGAACACCACGACTAATAA 45 213 1 AAAAAAACAA 0.822107 -388 TTCAAAAGAAAAAAAAAAAATATAAAGACTGTTGATAG 47 133 0 AAAAAAAAAA 0.932346 -264 AACTGAAAAAAAAAAAAAAAAATAAAAAACGCCCCTTT 47 197 0 AAAAAAAAAA 0.932346 -200 GTGAATGGTGAAAAATTAAGAACAGTATTGCAGCAAAA 53 99 0 AAAAAAAAGT 0.691617 -202 AAAAAAAAAAAAAAACCAAAAAGAAAAAAGGAGAGTAA 58 52 0 AAAAAAAAAA 0.932346 -365 ATAAGGTACCAAGAAGTAAAAAGAGAAATATAGGGATA 59 271 1 AAAAAAAAGA 0.891876 -30 CAATGGAATGAAGAAGAAAGGAGAAGAATAAGATGAGA 60 16 1 AAAAAAAAAA 0.932346 -285 TTATAATTGCAACAAGAAAACACAAACTAACTGGTACT 62 118 1 AAAAAAAAAT 0.789338 -283 AAAAAAAAATAAAAAAAAAAGAAAAATAACTGCGAAGA 63 349 1 AAAAAAAAAA 0.932346 -215 TCTTTAAGCGAAAAATACAAGAAAAGAAACTGGAGAGT 63 404 0 AAAACAAAAA 0.835695 -160 CCGTAAGCCAAAAAAACAAGAAAAATGAAAGGAGTATG 64 168 0 AAAAAAAAAA 0.932346 -205 AAGTTGCCGAAAGAAAGAATGAGAGAGAACGACAAAGA 65 290 0 AAAAAAAAGA 0.891876 -311 GTGAAAGCAAAAGAAAAAAACATAGTTAAATATAGTAG 65 532 1 AAAAAAAAGA 0.891876 -69 GAGACTGAAAAACAAAAAAGCAGAGAAAAGGTCATCCA 67 203 1 AAAAAAAAGA 0.891876 -98 CCATTCGCGAAAAAAATAATAAAAAAGAAAGAAAAGTG 69 161 0 AAAAAAAAAA 0.932346 -140 CTCTTCATCAAACAACAAAGAACAGGAATCAACAGCC 69 274 1 AAAAAAAAGA 0.891876 -27 AACAAAGCGCAAGAAAGAAAGATAAAAAGGTGTCAAAG 70 146 0 AAAAAAAAAA 0.932346 -155 AAACAGTGGCAATAAATAAAGAAAAGGTCATCACTTTT 72 485 1 AAAAAAAAAT 0.789338 -116 CTCAAAAAAAAAGAATAAAATAAAATAAAACGGATAAG 72 532 0 AAAAAAAAAA 0.932346 -69 GCCAGAAGCTAAGAAAGCATAAAAAAGAACCGAACCAC 73 191 0 AAAACAAAAA 0.835695 -229 TTTACTTTTGAAGAAGGAAATACCATCTAGCAGAA 75 276 1 AAAAAAACAT 0.556834 -25 GATATCAAAAAATAATACAGTAAAGCCTTATTCTCGGA 77 225 1 AAAACAAAGT 0.452871 -322 AAAAATGGTAAACAAACAAATATCACTATGGACGATAT 77 365 1 AAAAAAACAA 0.822107 -182 AAAGGAAGTAAATAAATAAGTATAGAAATAAATAGAAG 82 40 0 AAAAAAAAGA 0.891876 -360 TTATATGGTTAAAAAAAAAGGAAAGGAAGTAAATAAAT 82 61 0 AAAAAAAAGA 0.891876 -339 GAATATACTAAAAAAAGAAAAACAAGCACTAGCCCTAG 82 157 0 AAAAAAAAAA 0.932346 -243 AAAAATTAAAAAAAAAAAAAAAAAAATACTCAAATACT 84 86 1 AAAAAAAAAA 0.932346 -309 TCATTTCTTGAAAAAGAAATGAAAAAATTTTCTATTTT 85 250 0 AAAAAAAAAT 0.789338 -351 AAGATATGGTAACAAATAACAAAAAAATAAATACGTAA 85 501 0 AAAAAAAAAT 0.789338 -100 CCTAAGAACAAAGAAATAAGAAGAACGAATCAATATAT 86 379 0 AAAAAAAAAA 0.932346 -222 TCCATTGCAGAAAAAAAAAAAAAAAAGACCATTTTCCT 88 457 1 AAAAAAAAAA 0.932346 -144 AAGCAGATAGAAAAAAAAAAAATAACCAAGATAATATA 88 542 1 AAAAAAAAAA 0.932346 -59 TCAAGAGAACAAAAACAAAACACAGACAAAATAATTGA 94 341 1 AAAAAAAAGA 0.891876 -31 GAGAAAACCAAAAAAAAAAAAAACACGTATGAGGTGAC 96 97 0 AAAAAAACAT 0.556834 -204 AAAGAAAACGAAAAAACCAGAAAAGTCATATATATCTT 97 123 0 AAAACAAAGA 0.752741 -214 CTAAGACGTTAATAACTCAAAATAGAAAAGAAGCATGA 98 60 0 AAAACAAAGA 0.752741 -241 CTAAAAAAAAAAAAAGCAAAAAAAAGAAACTCAGATAA 99 221 1 AAAAAAAAAA 0.932346 -264 CAAAGGGGATAACAAAAAAGTACAACTACAAATTTTTC 100 105 0 AAAAAAAAAA 0.932346 -321 AGACAGGGAGAAAAAATAAAAAAAAAGTCACGCGTATA 102 324 0 AAAAAAAAAT 0.789338 -277 ATTTGGCGAAAAAAAGTAAGTAGAAATAAATAAAAAAA 103 98 0 AAAAAAAAAA 0.932346 -203 TTGCGACATAAAAAAAAAAGAATCACAACTGAACGCAT 105 95 1 AAAAAAACAA 0.822107 -506 GAAAAGAGGAAAAAATGAACAAGAAAATTTAATCAAAT 107 170 0 AAAAAAAAAT 0.789338 -131 gttcagttgaaaaaaaaaaagaaagtgaagatcgtgtg 108 185 1 aaaaaaaaga 0.891876 -116 gaaatttatgaataaaaaaccataactaa 109 2 0 aaaaaaaaaa 0.932346 -315 aagtaaaaaaaaaaaggaagcacaagtaagtcgaaaac 109 83 0 aaaaaaaaaa 0.932346 -234 ** ** ** * ** * Masking position 9 Map Score: 82.8685 Number of sites scoring better than the average of aligned sites = 4413 Number in coding regions = 820 Number in noncoding regions = 3593 Number of orfs with sites within 600 bp upstream = 1244 Fraction of orfs with sites within 600 bp upstream = 0.199807 Motif number 4 AATTGGCGGCATTTAAATATATTTTGGGTTGC 15 469 0 ATTAAATAAT 0.663227 -132 GTATTAAGTAATGTATATACATATATATTGTC 18 182 1 ATTATATAAT 0.497757 -419 CTATTTTTGGATATATATACATCAATAAACAA 23 266 1 ATTATATAAT 0.497757 -35 TGCGTCAATTATATATATATATATATATATAT 46 474 1 ATTATATAAT 0.497757 -127 ATATATATATATATATATATATATATCCCGTC 46 486 1 ATTATATAAT 0.497757 -115 TCATATAGATATGTATATATATCATTGAATAC 48 191 1 ATTATATAAT 0.497757 -237 TATAAAACAGATTTAAATATATAACAAATAGT 62 165 1 ATTAAATAAT 0.663227 -236 GCAGATTTATATACATATAAACATAA 63 5 1 ATTATATAAT 0.497757 -559 ATACACTGTTATTTATATACATCGGGAGGGAG 83 11 1 ATTATATAAT 0.497757 -483 TCTCAAAATGATATAAATAAATCACGTCAAAC 84 190 1 ATTAAATAAT 0.663227 -205 AATCTATAATTTATATATATATACTACTAC 89 9 1 ATTATATAAT 0.497757 -592 TTAAACATTAATATATATATATGTGTAGTGAC 99 75 1 ATTATATAAT 0.497757 -410 GTGCGTCTTTATATATATATATTTTCTTCAAG 105 176 1 ATTATATAAT 0.497757 -425 ** ****** ** Masking position 7 Map Score: 1.94462 Number of sites scoring better than the average of aligned sites = 3356 Number in coding regions = 198 Number in noncoding regions = 3158 Number of orfs with sites within 600 bp upstream = 330 Fraction of orfs with sites within 600 bp upstream = 0.0530035 Motif number 5 AGAACATTCTAGAAAGAAAGCACACGGAAC 1 251 1 AGAAAGAAAG 0.68415 -350 GAACGTTCTGGAAAAAGAAGAATAATTTAA 1 333 0 GAAAAAGAAG 0.532508 -268 GAAAGAACCCAAAAAGAAGGGGGGCCATTT 1 383 1 AAAAAGAAGG 0.78735 -218 TAAGCACATCAAAAGAAAAGTAATCAAGTA 1 544 1 AAAAGAAAAG 0.738031 -57 TTTCACGATTAGAAGAAAAGGAAAATTTCA 2 93 1 AGAAGAAAAG 0.64183 -508 CTGTGGAAAAAAAAAAAAGGGAACCTCTGG 2 181 1 AAAAAAAAGG 0.828051 -420 GCATGGAGGAAAAAGAAAAGAGATGCGACA 4 52 0 AAAAGAAAAG 0.738031 -249 CTAAACTAGAGGAAAGAAGGCTTAAAACAT 6 284 0 GGAAAGAAGG 0.611332 -317 TGAGTACGGCGAAAAGAAGGAAAAACCAAG 6 339 1 GAAAAGAAGG 0.71205 -262 AGAAGCACAAAAAAAGGAGGCGAGTAGGTG 6 424 1 AAAAAGGAGG 0.587755 -177 AAGGTTATCAAAAAGGAAGGCATACAGTAT 7 280 1 AAAAGGAAGG 0.701945 -21 TCGCCAACGAAAAAGGAAAGTCGCCAACGC 8 394 1 AAAAGGAAAG 0.68415 -207 CGCCAACGCGAAAAGAAAAGAAAAAGCGAG 8 415 1 AAAAGAAAAG 0.738031 -186 GATGGCGACAAGAAAAAAAGCCACGTCAAG 8 482 0 AGAAAAAAAG 0.738031 -119 GGTAGCAATAAAAAGAAAGGTATCTCAACA 10 62 0 AAAAGAAAGG 0.753883 -539 CAAGCAAAGAAAAAAAAAAGAGCAAGCTTT 10 487 0 AAAAAAAAAG 0.815809 -114 ATGTCGAAAGGGAAGGAAAGAATTTATTGA 12 78 1 GGAAGGAAAG 0.479212 -400 TTCAATGACTAAAAAAAAGGTAGCGGATAA 15 514 0 AAAAAAAAGG 0.828051 -87 TTGAACCGGTAAAAGGAAAGCTGTGAACAT 18 259 1 AAAAGGAAAG 0.68415 -342 TTTAACAAGAGAAAAAAAAGATAATTCAAC 19 233 1 GAAAAAAAAG 0.747353 -206 ATGTTGCGAGGAAAAAAAGGCGACGTGTTT 20 121 0 GAAAAAAAGG 0.762822 -180 GCAAAGATTGGAAAAAGAGGGTTATAATCA 21 14 1 GAAAAAGAGG 0.553268 -287 TGTAAATATTGAAAAGAAGGCTGCATTATT 24 211 0 GAAAAGAAGG 0.71205 -390 TTTGGGTGGCGAAAAAAAAGAATGTAAAAA 27 180 0 GAAAAAAAAG 0.747353 -121 ATATATATTTAGAAGAGAGGAAATTATTTT 27 232 0 AGAAGAGAGG 0.428653 -69 GTTCCGATGGGAAAAAAAGGCAAGTTTAAC 28 170 1 GAAAAAAAGG 0.762822 -131 AATTTTTTTAAAAAAAAAAGAGTCAGACAG 29 63 0 AAAAAAAAAG 0.815809 -538 TTACATAAAGAAAAGAAAAGCAACAAAACA 29 309 1 AAAAGAAAAG 0.738031 -292 TACTGCACCGAAAAAAAAAGTTAATAAGCA 30 155 0 AAAAAAAAAG 0.815809 -446 AATGGAGGAAAAAAAAAAAGACGAAATCCA 30 435 0 AAAAAAAAAG 0.815809 -166 TTCACATTGGAAAAGGAAAGCATCATAAAA 31 225 1 AAAAGGAAAG 0.68415 -121 TTGAACGCAAAAAAAGGAGGTTTATAATAA 34 299 1 AAAAAGGAGG 0.587755 -302 TCTATTACCAGAAAAGAAGGTCTTACCCTT 36 227 1 GAAAAGAAGG 0.71205 -284 GATGAAGACTAGAAGGAAGGGTGACAAAAA 37 25 1 AGAAGGAAGG 0.59968 -318 CTTACCTCTTGAAAAAGAGGTAGTAAAGTC 38 40 1 GAAAAAGAGG 0.553268 -261 CACGTTTTCAAAAAAGGAAGAAGCAAGAAC 38 246 1 AAAAAGGAAG 0.567344 -55 ATAAGGATTCAAAAGAAAGGAAGCCCA 38 284 1 AAAAGAAAGG 0.753883 -17 TCTTGGTGGCAAAAAAAAGGTACTTCCTGA 40 116 0 AAAAAAAAGG 0.828051 -482 AACGAAAAACAAAAAAAAAGAGATAAAAAG 40 513 1 AAAAAAAAAG 0.815809 -85 AGAAACAGCAGAAAAAAAAGAAATCATATT 42 122 1 GAAAAAAAAG 0.747353 -179 CTTTTAATGTAGAAGAAAGGACAACTAAAA 43 130 0 AGAAGAAAGG 0.660827 -171 GTTTGAGACAAAAAAAGAGGAGCTTTGTAG 43 222 1 AAAAAAGAGG 0.64966 -79 AAAAACACAGAAAAAGAAGGAAATAATGTA 44 153 1 AAAAAGAAGG 0.78735 -363 TTATGGCCAAAAAAAGAAAGTTTCTAAAAA 45 165 0 AAAAAGAAAG 0.773005 -436 CGCTGAAACAAAAAGAAAAGAACACCACGA 45 214 1 AAAAGAAAAG 0.738031 -387 CCAGTGGGCGAAAAAGAAAGAGAAAAAAAC 45 391 0 AAAAAGAAAG 0.773005 -210 AACTGACAAAAAAAAGAAAGCGGACGGGAT 46 510 0 AAAAAGAAAG 0.773005 -91 CTCAGTAAAGAGAAGAAAAGAGAGAAAAAA 47 276 1 AGAAGAAAAG 0.64183 -121 AGAGAAAAAAAAAAAGAAGGTGGTGTATGT 47 296 1 AAAAAGAAGG 0.78735 -101 CACCCAATAAGAAAAAAAGGGAAAAGGAGC 52 121 0 GAAAAAAAGG 0.762822 -180 GAAAAAGATGAGAAGAAAAGAAATAGTTAG 53 203 1 AGAAGAAAAG 0.64183 -98 AAAGAAGTAGAAAAGGAAAGTTAATTGACA 55 95 0 AAAAGGAAAG 0.68415 -206 AAAACCAAAAAGAAAAAAGGAGAGTAAACA 58 49 0 AGAAAAAAGG 0.753883 -368 GGGAAAAGGCAGAAAAAAGGAAAATTAAGA 58 389 1 AGAAAAAAGG 0.753883 -28 AATGGAATGAAGAAGAAAGGAGAAGAATAA 60 17 1 AGAAGAAAGG 0.660827 -284 AGGGTAGGGAAAAAAGAAAGCTTGTTCTCG 62 19 0 AAAAAGAAAG 0.773005 -382 AAAAAAAATAAAAAAAAAAGAAAAATAACT 63 350 1 AAAAAAAAAG 0.815809 -214 TTATACTTTAGAAAAAAAGGAAACTCATAA 64 219 1 GAAAAAAAGG 0.762822 -154 ATTGAGGACTGAAAAAAAGGTTAGTTCGGA 65 468 0 GAAAAAAAGG 0.762822 -133 AGAAAATTCGAGAAAGGAAGAAAAAGCTGA 66 245 1 AGAAAGGAAG 0.454768 -56 CTTTTGAAAAAAAAAGAATGACTTTC 67 285 0 AAAAAAAAAG 0.815809 -16 GAACAATCTAAAAAAAAAAGTGTAATTGTC 68 82 1 AAAAAAAAAG 0.815809 -219 AAAAATAATAAAAAAGAAAGAAAAGTGAAA 69 158 0 AAAAAGAAAG 0.773005 -143 ACAAAGCGCAAGAAAGAAAGATAAAAAGGT 70 153 0 AGAAAGAAAG 0.68415 -148 ACACATGCCAGAAAAAAAAGTGAGGAAGGA 71 166 1 GAAAAAAAAG 0.747353 -137 AAAAAAGTGAGGAAGGAAGGTACAATGAAA 71 179 1 GGAAGGAAGG 0.500117 -124 CACTGAGGCGAAAAAAAAAGTA 71 291 1 AAAAAAAAAG 0.815809 -12 AATAGCCGCCAAAAGAAAAGCAATCAGAGC 72 308 1 AAAAGAAAAG 0.738031 -293 TTCTCCACTCAAAAAAAAAGAATAAAATAA 72 547 0 AAAAAAAAAG 0.815809 -54 CATAACTTGCAAAAAGAAGGAAGACACACA 73 35 0 AAAAAGAAGG 0.78735 -385 GTAATAATTAAGAAGAAAAGTGTAGCTTGT 74 132 0 AGAAGAAAAG 0.64183 -169 CAGTACACAGGAAAAAGAAGAGTAAATAAT 76 199 1 GAAAAAGAAG 0.532508 -369 TTAAGTGGAAGGAAAGAAAGAGTTTCATTG 81 291 1 GGAAAGAAAG 0.591277 -205 CACTCACCATAAAAGAGAAGCAAGATTCGG 81 437 1 AAAAGAGAAG 0.520346 -59 TATATGGTTAAAAAAAAAGGAAAGGAAGTA 82 68 0 AAAAAAAAGG 0.828051 -332 CCCTAGATATGGAAAAAAAGATATTAAAAC 82 133 0 GGAAAAAAAG 0.652965 -267 GAAATTTTCAGAAAAGGAGGCCGAGCAAGA 87 465 0 GAAAAGGAGG 0.48776 -136 AATCGCAAAAGGAAGAAAAGGAAATCGACG 88 289 1 GGAAGAAAAG 0.544793 -312 AAAATACTGAAAAAAAAAAGACACCGACAA 88 337 1 AAAAAAAAAG 0.815809 -264 CAGAAAAAAAAAAAAAAAAGACCATTTTCC 88 464 1 AAAAAAAAAG 0.815809 -137 AGGAAACAGTGAAAAAAAAGTAGTCCATAA 91 139 0 GAAAAAAAAG 0.747353 -189 TATTTAATGGAGAAAGAAAGCAAAGAAAAA 92 30 0 AGAAAGAAAG 0.68415 -571 GAAGGAATGGGAAAAAGAAGCTTGATTATG 92 468 1 GAAAAAGAAG 0.532508 -133 TGAATCTACAGAAAAAAAAGA 92 590 1 GAAAAAAAAG 0.747353 -11 AAAAGACAAAGAAAGAGAAGTGAGGTGAAA 96 175 1 GAAAGAGAAG 0.420132 -126 AACTCAAAATAGAAAAGAAGCATGAGAGCA 98 55 0 AGAAAAGAAG 0.520346 -246 TGGGCTAAAAAAAAAAAAAGCAAAAAAAAG 99 217 1 AAAAAAAAAG 0.815809 -268 GTTGCACTCAAGAAAAAAGGTTTTCCATAT 99 263 0 AGAAAAAAGG 0.753883 -222 GAGAAAAAATAAAAAAAAAGTCACGCGTAT 102 325 0 AAAAAAAAAG 0.815809 -276 TTGCGACATAAAAAAAAAAGAATCACAACT 105 95 1 AAAAAAAAAG 0.815809 -506 GATTCAATATGGAAAAAAAGAAAATTACAC 106 437 0 GGAAAAAAAG 0.652965 -47 CAAAGGCGAAAGAAAAGAGGAAAAAATGAA 107 189 0 AGAAAAGAGG 0.541181 -112 CTTTGTCGAAAGAAAAGAGGAAAACAAGCT 107 214 1 AGAAAAGAGG 0.541181 -87 gttgaaaaaaaaaaagaaagtgaagatcgt 108 190 1 aaaaagaaag 0.773005 -111 aagaagtaaaaaaaaaaaggaagcacaagt 109 94 0 aaaaaaaagg 0.828051 -223 tcccaaaatcaaaaaaaaagaagtggaaaa 109 126 0 aaaaaaaaag 0.815809 -191 aatcaatagaggaaaaaaggagagaaagga 109 252 1 ggaaaaaagg 0.671674 -65 agtgcgaaacaaaagggaggcctatccgtc 109 290 0 aaaagggagg 0.475581 -27 TCTTCGAGAAAAAAAAAAGGTAGGAAAATT 110 228 1 AAAAAAAAGG 0.828051 -73 GCAAGGATGCAGAAGAGAAGGGAAAGAAAA 111 257 1 AGAAGAGAAG 0.408295 -44 ********** Masking position 4 Map Score: 104.156 Number of sites scoring better than the average of aligned sites = 4471 Number in coding regions = 1315 Number in noncoding regions = 3156 Number of orfs with sites within 600 bp upstream = 1780 Fraction of orfs with sites within 600 bp upstream = 0.285898 Motif number 6 TCGGCGGCAAAAGGGAGAGAAAGAACCCAAA 1 365 1 AAGGAGAGAA 0.679658 -236 GCGATGAAGCAAGAGAGAAAAATAAGGGTAG 5 263 0 AAGGAGAAAA 0.843068 -338 AAAATAATGGAAGTGAAACAAGGCTAAGCAA 8 215 1 AAGGAAACAA 0.765444 -386 AGAGCTGAAAAAGTGAAAAAAAAAATGTCGG 10 309 1 AAGGAAAAAA 0.84833 -292 TTGACTAACTAAGGGAGAAAACTTCCATTTC 11 274 0 AAGGAGAAAA 0.843068 -104 CTTATTTAACAAGAGAAAAAAAAGATAATTC 19 229 1 AAGGAAAAAA 0.84833 -210 AGCACAAGGCAAGGGAAAAAGCCAAATTACA 22 38 1 AAGGAAAAAG 0.908297 -348 AATAATGCAGAAGAGAAACAGCAGAAAAAAA 42 109 1 AAGGAAACAG 0.852484 -192 GCGAAAAAGAAAGAGAAAAAAACACCCGGCC 45 383 0 AAGGAAAAAA 0.84833 -218 AAGAGAAGAAAAGAGAGAAAAAAAAAAAGAA 47 283 1 AAGGAGAAAA 0.843068 -114 GAGTAGTCTCAAGGGAAAAAGCGTATCAAAC 51 300 1 AAGGAAAAAG 0.908297 -26 TCTGTTCTTTAAGCGAAAAATACAAGAAAAG 63 416 0 AAGGAAAAAT 0.773921 -148 TGCAAATATAAAGAGAAAAAGGACAGATAAT 63 482 0 AAGGAAAAAG 0.908297 -82 AACAAGTGTGAAGAGAGAGAGAGATGTAAGG 65 207 0 AAGGAGAGAG 0.789789 -394 AGAACACGTAAAGCGAAAAATCTGGAGCGCT 65 250 0 AAGGAAAAAT 0.773921 -351 AAAGAAAGAAAAGTGAAAAATATTAAGGCAT 69 145 0 AAGGAAAAAT 0.773921 -156 CGATAGAAAAAAGTGAAACATTATCTAAATT 70 211 1 AAGGAAACAT 0.666364 -90 CGTTTGCAAAAAGTGAAAAAGGCGTCTTTTG 78 175 1 AAGGAAAAAG 0.908297 -126 TTTGAGACAGAAGAGAGAGAGGATTTAGATT 84 166 0 AAGGAGAGAG 0.789789 -229 CGACAAAAAAAAGAGAGAAAGGAACCTTTAC 88 361 1 AAGGAGAAAG 0.904882 -240 CGTAGAGCAAAAGGGAAACATTTGTTGCGTT 88 391 1 AAGGAAACAT 0.666364 -210 GAGGTGCAATAAGTGAGAAATAACAACTTTA 92 343 0 AAGGAGAAAT 0.766787 -258 CAACAAATGGAAGCGAGACAGAAGAAAAAGA 101 274 1 AAGGAGACAG 0.84734 -27 AACTTCAACTAAGCGAGAAAGGGTATCTCTA 105 385 1 AAGGAGAAAG 0.904882 -216 GAAGCTTTGGAAGAGAAACAGCTGATGATTC 106 137 1 AAGGAAACAG 0.852484 -347 GACATCAACAAAGTGAAAAAAAATAGTGGTA 111 198 1 AAGGAAAAAA 0.84833 -103 TGCAGAAGAGAAGGGAAAGAAAACACAGCAT 111 264 1 AAGGAAAGAA 0.688374 -37 *** ******* Masking position 6 Map Score: 17.5378 Number of sites scoring better than the average of aligned sites = 855 Number in coding regions = 371 Number in noncoding regions = 484 Number of orfs with sites within 600 bp upstream = 448 Fraction of orfs with sites within 600 bp upstream = 0.0719563 Motif number 7 AGCTAATACAGCAAACAAAAGTGTTATTAG 5 307 1 GCAAACAAAA 0.934577 -294 TCGCCAACGCGAAAAGAAAAGAAAAAGCGA 8 414 1 GAAAAGAAAA 0.756222 -187 CGCTTTCGTGGCAAAGAAAAGAGCTGAAAA 10 290 1 GCAAAGAAAA 0.902455 -311 CCCAACCCAAGCAAAGAAAAAAAAAAGAGC 10 494 0 GCAAAGAAAA 0.902455 -107 AAAACTAAAAGCAAACAAAAGCAAACGCGA 12 452 1 GCAAACAAAA 0.934577 -26 AGCCGGAGGAGAAACCAAAATATCCGTTGA 13 42 1 GAAACCAAAA 0.688975 -559 ACCTTCCTTGGAAAAGAAAAAAGACGACGA 14 16 1 GAAAAGAAAA 0.756222 -285 CCGCCAATTTGCAACCAAAAGATTATCCGC 15 492 1 GCAACCAAAA 0.868534 -109 TAAAGTAACGGCAACCAAAAACAATTATGG 17 220 0 GCAACCAAAA 0.868534 -240 GCTAGCTACGGAAAACAAAAATGTAAACCT 21 184 1 GAAAACAAAA 0.827284 -117 GTCGATTAGAGAAAAGAAAATGCGTTGCTT 22 311 0 GAAAAGAAAA 0.756222 -75 TATTATGGTTGCAACCAAAAAAAGGTAGTC 28 271 0 GCAACCAAAA 0.868534 -30 ATTACATAAAGAAAAGAAAAGCAACAAAAC 29 308 1 GAAAAGAAAA 0.756222 -293 CACAAACTCCGCAGCCAAAACAATATTTTG 40 296 1 GCAGCCAAAA 0.700501 -302 ACTTATCGCAGAAAACAAAATATCTAAAAA 57 68 0 GAAAACAAAA 0.827284 -533 AAACAAAAAAGCAGAGAAAAGGTCATCCAA 67 212 1 GCAGAGAAAA 0.766102 -89 GCGGCGCGGCGCAGACAAAACCCGAAGAGT 72 336 1 GCAGACAAAA 0.834912 -265 GTTACTGTGAGCAGACAAAAATATTGCAAG 75 204 1 GCAGACAAAA 0.834912 -97 GTATATTATTGCAAACAAAAACGGACCAAT 76 511 1 GCAAACAAAA 0.934577 -57 TTTTAAGTGTGCAAACAAAATGTGAGTTAC 88 199 1 GCAAACAAAA 0.934577 -402 GAGAAAGAAAGCAAAGAAAAATAAAAGGTA 92 21 0 GCAAAGAAAA 0.902455 -580 CGCCAAATGAGAAAACAAAAGTAAGTTGCC 103 128 1 GAAAACAAAA 0.827284 -173 gcagctcatcgcaaagaaaaattttcacct 108 141 0 gcaaagaaaa 0.902455 -160 ********** Masking position 7 Map Score: 18.1445 Number of sites scoring better than the average of aligned sites = 416 Number in coding regions = 234 Number in noncoding regions = 182 Number of orfs with sites within 600 bp upstream = 155 Fraction of orfs with sites within 600 bp upstream = 0.0248956 Motif number 8 TCTCCATTCAATTTTTTTTTATATTATAATTA 8 111 0 ATTTTTTTAT 0.845857 -490 GGCATCATCCAAATTTTTTTATTCGACCTCGT 24 144 1 AATTTTTTAT 0.739997 -457 ATGTGTGTGTATTTTTTTCTATTGTTAGCGCC 29 249 1 ATTTTTTTAT 0.845857 -352 TTTGTTGTTGATATTTTTTTATTTTTATTTTT 31 32 0 AATTTTTTAT 0.739997 -314 AATTTTTTTGAATTTTTTGTATACTTTTCCAA 36 62 0 ATTTTTTTAT 0.845857 -449 ACATATCTAAATTTTTTTTTATAGTGCGAGGG 57 530 1 ATTTTTTTAT 0.845857 -71 CAGCGGGCCAAATTTTTTTTATTTCCGAAGCC 61 434 1 ATTTTTTTAT 0.845857 -149 ATAATGTTTCACTTTTTTCTATCGAAGGAGGT 70 203 0 ATTTTTTTAT 0.845857 -98 ACAGTGTAAAACTTTTTTATATCTATTTTTCT 75 79 0 ATTTTTTTAT 0.845857 -222 TTTTTTTTTTAATTTTTTATATATACAAAATA 84 71 0 ATTTTTTTAT 0.845857 -324 GATAAAAGGGATATTTTTTTATAGCTTAGATA 96 269 0 AATTTTTTAT 0.739997 -32 TGGCAGATATTTTTTTATCCCTTCTCTC 110 283 0 AATTTTTTAT 0.739997 -18 * ****** *** No masking Map Score: -1.46784 Number of sites scoring better than the average of aligned sites = 357 Number in coding regions = 118 Number in noncoding regions = 239 Number of orfs with sites within 600 bp upstream = 141 Fraction of orfs with sites within 600 bp upstream = 0.022647 Motif number 9 TTTCTTCTAATCGTGAAAAAGTTATCCACC 2 81 0 TCGTGAAAAA 0.582704 -520 TCGCGTAATAAGTTGAAAAAAAAAAACACA 3 192 1 AGTTGAAAAA 0.829349 -109 ATTTTTATGATGTTGAAAAATAAGGGAAAT 7 182 0 TGTTGAAAAA 0.777849 -119 CAAAGAAAAGAGCTGAAAAAGTGAAAAAAA 10 301 1 AGCTGAAAAA 0.84065 -300 AATAATCACCTGAAAAAAACTAGGTTA 22 8 1 ACCTGAAAAA 0.791161 -378 TTTTCTTACCTCTTGAAAAAGAGGTAGTAA 38 36 1 TCTTGAAAAA 0.715459 -265 GCTTACCTCTTCTTGAAAAAAATCAGTAAA 43 37 0 TCTTGAAAAA 0.715459 -264 GGGTCTCGAGACCTGAAAAAAGCTTCATAG 46 553 1 ACCTGAAAAA 0.791161 -48 AGAAAGAAGAAGCTGAAAAACACA 47 383 1 AGCTGAAAAA 0.84065 -14 ATAGATAATGTGGTGAAAAATCCAAATTTT 49 179 1 TGGTGAAAAA 0.660386 -122 AAAAAGTGAATGGTGAAAAATTAAGAACAG 53 112 0 TGGTGAAAAA 0.660386 -189 CCATCATTAAACTTGAAAAAGATGAGAAGA 53 189 1 ACTTGAAAAA 0.777281 -112 CAATTCGTCCAGCTGAAAAAGATACGTCTG 54 327 1 AGCTGAAAAA 0.84065 -274 AATTAGCAAGTGCTGAAAAAATTCGAGATG 55 152 0 TGCTGAAAAA 0.791704 -149 AAAACGTTTCACTTGAAAAATCGTTCTAAT 56 142 1 ACTTGAAAAA 0.777281 -368 ATGCTGGCATACTTGAAAAACCATACGGAA 64 248 1 ACTTGAAAAA 0.777281 -125 TTAACTTCGATGCTGAAAAAATGTAATAAA 83 469 0 TGCTGAAAAA 0.791704 -25 ATTCCACATGAGGTGAAAAAACAAAGATGT 84 231 0 AGGTGAAAAA 0.729652 -164 CCTTTTCATTTCTTGAAAAAGAAATGAAAA 85 263 0 TCTTGAAAAA 0.715459 -338 GATGTACATAACTTGAAAAAACGTTAATCC 86 290 1 ACTTGAAAAA 0.777281 -311 CTTCGACCGCAGTTGAAAAAAATTTTCTAT 90 170 0 AGTTGAAAAA 0.829349 -131 CCTTAAAGAAAGCTGAAAAAGAGAATGAAT 95 105 1 AGCTGAAAAA 0.84065 -496 TCACAGCTTCTGTTGAAAAAAATATCCTTG 95 192 1 TGTTGAAAAA 0.777849 -409 cttttcgttcagttgaaaaaaaaaaagaaa 108 179 1 agttgaaaaa 0.829349 -122 ********** Masking position 6 Map Score: 13.2017 Number of sites scoring better than the average of aligned sites = 660 Number in coding regions = 446 Number in noncoding regions = 214 Number of orfs with sites within 600 bp upstream = 192 Fraction of orfs with sites within 600 bp upstream = 0.0308384 Motif number 10 * ** * ** * ** * No masking Map Score: -9.46265 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 11 AATAATGAAATTTTCCTTTTCTTCTAATCG 2 98 0 TTTTCCTTTT 0.812083 -503 ACCGTACTCTTTTTCCTTTTTTATTTTGCC 6 513 1 TTTTCCTTTT 0.812083 -88 ATCAGATTGTTTTTCCGCTTCCATCTTTGA 12 305 1 TTTTCCGCTT 0.611815 -173 CATCTGGTTCTTTTCCATATGTACGTAGAT 18 49 0 TTTTCCATAT 0.690692 -552 ATCTGTACTATTTTCCTTGTTTAATTTAAT 20 194 0 TTTTCCTTGT 0.705033 -107 GGCCTTAAAGTTTTCCTCATTCCGCTCATC 34 49 0 TTTTCCTCAT 0.646654 -552 TTAGTTTATTTTTTCCTTGTCTTTTTATCT 40 533 0 TTTTCCTTGT 0.705033 -65 GGAATTGGGCTTTTCCCTGTGTCTAGTTAG 40 559 0 TTTTCCCTGT 0.551099 -39 TAACCACTAATTTTCCGTATAGCGTTTATG 42 277 1 TTTTCCGTAT 0.670081 -24 CGTTTTATTCTTTTCCGTTTGAGACAAAAA 43 206 1 TTTTCCGTTT 0.733288 -95 CTGAACATGGTTTTCCGTATGGTTGCTACC 45 347 0 TTTTCCGTAT 0.670081 -254 ATTCGGCTCCTTTTCCCTTTTTTTCTTATT 52 116 1 TTTTCCCTTT 0.689404 -185 TTCATATTTGTTTTCCATATCTCTTATTTT 53 159 0 TTTTCCATAT 0.690692 -142 TTTTTCTGCCTTTTCCCTTTTGGTAGTCAC 58 376 0 TTTTCCCTTT 0.689404 -41 CTGTTCTTAATTTTCCTTTTTTCTGCCTTT 58 393 0 TTTTCCTTTT 0.812083 -24 TCATCCAAGTTTTTCCTTATTGCCCTTCCA 63 308 0 TTTTCCTTAT 0.761475 -256 TTAAGAAGCCTTTTCCATGTGAGGAAGCTT 67 94 1 TTTTCCATGT 0.625733 -207 GTGAAACCCTTTTTCCTCTTCGTTGATCCT 67 152 0 TTTTCCTCTT 0.712423 -149 GGCACTTGTTTTTTCCATTTTTTTCAGTAG 73 321 0 TTTTCCATTT 0.751416 -99 TTTAGGCGGCTTTTCCGTTTGGCTGAAGCA 77 161 0 TTTTCCGTTT 0.733288 -386 TAATATCTTTTTTTCCATATCTAGGGCTAG 82 137 1 TTTTCCATAT 0.690692 -263 CAAAAAGTCCTTTTCCCCATATATATTAGG 85 443 1 TTTTCCCCAT 0.484529 -158 AAAAAGACCATTTTCCTCTTCTACTCTCTT 88 478 1 TTTTCCTCTT 0.712423 -123 CATGAAAGGGTTTTCCATATTTTCTTTTA 94 10 0 TTTTCCATAT 0.690692 -362 AGAAAAAAGGTTTTCCATATCGACTTATCT 99 253 0 TTTTCCATAT 0.690692 -232 TATTTTCCTTGTGTAACCTTTA 99 473 0 TTTTCCTTGT 0.705033 -12 AATTTTCTTTTTTTCCATATTGAATCAAAA 106 441 1 TTTTCCATAT 0.690692 -43 CTTGTTCATTTTTTCCTCTTTTCTTTCGCC 107 185 1 TTTTCCTCTT 0.712423 -116 TTTCAGCTTGTTTTCCTCTTTTCTTTCGAC 107 218 0 TTTTCCTCTT 0.712423 -83 tacttcttgattttccacttcttttttttt 109 116 1 ttttccactt 0.634079 -201 TATCGTTTCATTTTCCTTTTCTACCTCAAC 110 49 0 TTTTCCTTTT 0.812083 -252 ********** Masking position 4 Map Score: 14.5453 Number of sites scoring better than the average of aligned sites = 1473 Number in coding regions = 799 Number in noncoding regions = 674 Number of orfs with sites within 600 bp upstream = 531 Fraction of orfs with sites within 600 bp upstream = 0.0852875 Motif number 12 *** **** *** No masking Map Score: -3.80666 Number of sites scoring better than the average of aligned sites = 0 Number in coding regions = 0 Number in noncoding regions = 0 Number of orfs with sites within 600 bp upstream = 0 Fraction of orfs with sites within 600 bp upstream = 0 Motif number 13 ACATGGCAAAAACGAGAAAGACATATAATC 2 137 1 AACGAGAAAG 0.916813 -464 TGCATAATTGAAGGAGAAAGTATACATGAA 11 309 0 AAGGAGAAAG 0.795887 -69 GCTTACAACTGAAGAGAAAGACGATGCATC 16 182 1 GAAGAGAAAG 0.65735 -209 TTTCTGAGAAAATGAGAAAGTAATCTAATG 17 50 0 AATGAGAAAG 0.715975 -410 AAATGAGAATGAGGAGAAAGAGAATCACTC 35 151 0 GAGGAGAAAG 0.839556 -150 AAAGGAGGAGGACGAGAAAGAAGAAGCTGA 47 369 1 GACGAGAAAG 0.93667 -28 AGAATTCTTTGGCGAGAAAGAAAATTTTCG 63 270 1 GGCGAGAAAG 0.864122 -294 CACCACCTTCACCGAGAAAGTCCAAATCTG 98 27 0 ACCGAGAAAG 0.720282 -274 CCTGAAAATAAACGAGAAAGAATTCTTTGA 100 380 0 AACGAGAAAG 0.916813 -46 GTTTCTGAAAGATGAGAAAGTTTCTGCC 105 9 0 GATGAGAAAG 0.77184 -592 ACTTCAACTAAGCGAGAAAGGGTATCTCTA 105 386 1 AGCGAGAAAG 0.825751 -215 ********** No masking Map Score: -4.11438 Number of sites scoring better than the average of aligned sites = 74 Number in coding regions = 51 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 23 Fraction of orfs with sites within 600 bp upstream = 0.00369419 Motif number 14 TAAGTGTAAAATATATATCTGCCGAGACCA 2 270 1 ATATATATCT 0.74631 -331 GTATTTGACAATATATATGTATATACATTA 18 190 0 ATATATATGT 0.826701 -411 ATACGCAGACATATATATGTAGTAATCACG 25 149 1 ATATATATGT 0.826701 -257 TGCGTCAATTATATATATATATATATATAT 46 474 1 ATATATATAT 0.472675 -127 ATATATATATATATATATATATATATATCC 46 484 1 ATATATATAT 0.472675 -117 TACAGATTTTATATATATGTATATGTGTGC 50 225 0 ATATATATGT 0.826701 -76 TTATGTCAATATATATATGTTTACTCTCCT 58 32 1 ATATATATGT 0.826701 -385 ATCTTGGATAATATATATGTATATATCTAT 86 52 1 ATATATATGT 0.826701 -549 TCTATAATTTATATATATATACTACTACTA 89 13 1 ATATATATAT 0.472675 -588 TTTTCTGCTGATATATATCTTTCTACCTAT 89 557 0 ATATATATCT 0.74631 -44 CAGAAAAGTCATATATATCTTATAACGAAA 97 114 0 ATATATATCT 0.74631 -223 ACATTAATATATATATATGTGTAGTGACTG 99 79 1 ATATATATGT 0.826701 -406 GCGTCTTTATATATATATATTTTCTTCAAG 105 178 1 ATATATATAT 0.472675 -423 ********** Masking position 5 Map Score: 1.68182 Number of sites scoring better than the average of aligned sites = 440 Number in coding regions = 47 Number in noncoding regions = 393 Number of orfs with sites within 600 bp upstream = 222 Fraction of orfs with sites within 600 bp upstream = 0.0356569 Motif number 15 ACTTAAGTTGTTTTATTTTCTCTATTTGTAAGATAAGCA 1 511 1 TTTATTTTTT 0.739779 -90 ATTATCTGTTATTTACTTGAATTTTTGTTTCTTGT 1 576 0 TTTATTTTAT 0.671941 -25 GCCATTTCATTAATATTTCATCAATTTTTTCACATATTA 9 213 0 TATATTTTTT 0.739779 -111 TTGTTTATTGTGATATTTAGTTTTTAGATAGTATACAGA 12 32 1 TATATTTTTT 0.739779 -446 GCGGAATCCTTTATATTTTTTGATAATCTTGAAATTTTA 12 382 1 TATATTTTAT 0.671941 -96 TTCCCTTTGTTTTTATTTCCTGCGAACATTAACAACTGC 24 65 1 TTTATTTTAT 0.671941 -536 AGATCCTTCATTTTATTTGTTGTCAGGTTTGGTATTGAT 33 328 1 TTTATTTTAT 0.671941 -164 TCAAGGAAGTTATTATTTTTTTAATGACTTATATCTGTC 38 108 1 TTTATTTTTT 0.739779 -193 TCAACAGTCTTTATATTTTTTTTTTTTCTTTTGAACTAT 47 136 1 TATATTTTTT 0.739779 -261 AAGGGGCGTTTTTTATTTTTTTTTTTTTTTTTCAGTTGA 47 198 1 TTTATTTTTT 0.739779 -199 TTGTCTAATATTATATTTTTTAGATCGTTTATGGATCGT 62 243 1 TATATTTTTT 0.739779 -158 AATAAAGAATTGTTATTTTTTTCATTAGTAACATATAAT 64 48 0 TTTATTTTTT 0.739779 -325 CTAACCTTTATGATATTTTATTTATGTATGTTCGTGTGA 66 168 0 TATATTTTTT 0.739779 -133 ATCCGTTTTATTTTATTTTATTCTTTTTTTTTGAGTGGA 72 535 1 TTTATTTTTT 0.739779 -66 CAGTTTGGCCTTTTATTTCGTTGTAGAATACTCTTTCAT 74 90 1 TTTATTTTAT 0.671941 -211 CGACTTCACATCTTATTTTATACCAACATACTCATTATA 85 144 0 TTTATTTTAT 0.671941 -457 ACCTGACCTATAATATTTCGTACAAAATTATAGAAGGCC 85 205 1 TATATTTTAT 0.671941 -396 GCGAGCATATTAATATTTCATGAATAGGTAGAAAGATAT 89 534 1 TATATTTTTT 0.739779 -67 CGTAGCCATTTATTATTTGATAGAAAATTTTTTTCAACT 90 151 1 TTTATTTTAT 0.671941 -150 TCGAACACCCTGATATTTCGTTATAAGATATATATGACT 97 99 1 TATATTTTAT 0.671941 -238 CTTATCTATCTGATATTTATTCTATAACTATATAAATTT 99 23 0 TATATTTTTT 0.739779 -462 AAACAGCCTTTAATATTTTATAGAAAGGTAAACTATCTG 102 500 1 TATATTTTAT 0.671941 -101 CACATTATAATATTATTTTTTTATTTATTTCTACTTACT 103 83 1 TTTATTTTTT 0.739779 -218 TATCCATTTCTAATATTTCATTACTCTTTTCGGCATCGT 107 121 1 TATATTTTTT 0.739779 -180 * ****** * * * Masking position 11 Map Score: 2.96734 Number of sites scoring better than the average of aligned sites = 909 Number in coding regions = 338 Number in noncoding regions = 571 Number of orfs with sites within 600 bp upstream = 365 Fraction of orfs with sites within 600 bp upstream = 0.0586251