Origin IGS: taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtcgcagtgttaaaatatatgtataaatgtttagcgcaaaaacttgagcagaacaattgaaatagaatcgtgaaacaataaaaaggcaattaaatttcaaagaaaactctttcagattttaaaacctatgctcttgcaaagcaagacaataggttttacacggcaaaagagccgcttttgcaagccgaaacctacgcttttacaaggcatttttagttctatatactacctattttgtttcttttgcgaacaaacgtctaatattttattgcacaaagtatctatataaagttgtaattatttaatagataggggatgtacttgcacacgaatgctgcgattatttgcagataaatatcctatcgttcctaaaaatcgccttcctgccattgtttcacgctggaattttaacactattgtgtctttttctctaattaattaaagttttataacgaatgaacaaagaggagaaagtacttaataatgatgttcaattgttgttta Mask Tandem Repeat Region ================================================ taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Find is-nt database================================================ Query_seq: PI1300:PI1302|PI1300:PI1302:probable glycosyltransferase:hypothetical protein:->->:1214431..1214936 506 taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1300:PI1302|PI1300:PI1302:probable glycosyltransferase:hypothetical protein:->->:1214431..1214936 506 taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1300:PI1302|PI1300:PI1302:probable glycosyltransferase:hypothetical protein:->->:1214431..1214936 506 taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 70 End: 204 ..................................................................... M R E K D T I V L K F Q R E T M A G R R F L G T I G Y L S A N N R S I R V Q V H P L S I K .............................................................................................................................................................................................................................................................................................................. Protein_Len: 36 Strand: + Start: 283 End: 390 .......................................................................................................................................................................................................................................................................................... M E L K M P C K S V G F G L Q K R L F C R V K P I V L L C K S I G F K I .................................................................................................................... Protein_Len: 30 Strand: + Start: 416 End: 505 ............................................................................................................................................................................................................................................................................................................................................................................................................................... M P F Y C F T I L F Q L F C S S F C A K H L Y I Y F N T A T . Protein_Len: 39 Strand: + Start: 390 End: 506 ..................................................................................................................................................................................................................................................................................................................................................................................................... M K E F S L K F N C L F I V S R F Y F N C S A Q V F A L N I Y T Y I L T L R L Protein_Len: 40 Strand: - Start: 292 End: 411 ................................................................................................................................................................................................................................................................................................... F H R T F A Y T E A Q L L P E K A T Y F R N D Q K A L A Y T K F D S L T K K S M ............................................................................................... Protein_Len: 60 Strand: - Start: 219 End: 416 .......................................................................................................................................................................................................................... L I N S T Q E C F F C F L Y Y I S S F I G Q L L T P K P K C F R S K Q R T F G I T K S Q L L M P K L I Q F L K R Q F K M .......................................................................................... Protein_Len: 41 Strand: - Start: 74 End: 196 ......................................................................... L F L C L L T L I G A H F L P L F A I K L F S L I N I Q L Y D C C E H A L V D G M ...................................................................................................................................................................................................................................................................................................................... Protein_Len: 45 Strand: - Start: 66 End: 200 ................................................................. N I L S F S V I T N F N W R S V I A P L R N K P V I P Y K D A F L R L M R T C T C G R D M .................................................................................................................................................................................................................................................................................................................. taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 71 End: 100 ......................................................................TTAGAGAAAAAGACACAATAGTGTTAAAAT...................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 278 End: 307 .....................................................................................................................................................................................................................................................................................TTTTACAAGGCATTTTTAGTTCTATATACT....................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 88 HP_score: -8.9 Tail_Score: -4.16943 Start: 352 End: 380 Full_Region: TTTTGCCGTGTAAAA CCTATTGTCTTGC TTT GCAAGAGCATAGG TTTTAAAATCTGAAA ...............................................................................................................................................................................................................................................................................................................................................................CCTATTGTCTTGCTTTGCAAGAGCATAGG.............................................................................................................................. TransTerm Strand: - Conf: 85 HP_score: -8.9 Tail_Score: -4.07568 Start: 352 End: 380 Full_Region: tttcagattttaaaa cctatgctcttgc aaa gcaagacaatagg ttttacacggcaaaa ...............................................................................................................................................................................................................................................................................................................................................................cctatgctcttgcaaagcaagacaatagg.............................................................................................................................. Find igs database================================================ Query_seq: PI1300:PI1302|PI1300:PI1302:probable glycosyltransferase:hypothetical protein:->->:1214431..1214936 506 taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Intra-Species Hit: Count: 1 Min: 1 Max: 506 Len: 506 Subject: pint_PI1300_PI1302|probable glycosyltransferase:hypothetical protein|POSITIVE:POSITIVE|[1214431,1214936]|506 HSP 1 e-value: 0.0 bit: 1003.0 Len: 506 Query Start:1 Query End:506 Subject Strand: POSITIVE Subject Start: 1 Subject End: 506 taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta taaacaacaattgaacatcattattaagtactttctcctctttgttcattcgttataaaactttaattaattagagaaaaagacacaatagtgttaaaattccagcgtgaaacaatggcaggaaggcgatttttaggaacgataggatatttatctgcaaataatcgcagcattcgtgtgcaagtacatcccctatctattaaataattacaactttatatagatactttgtgcaataaaatattagacgtttgttcgcaaaagaaacaaaataggtagtatatagaactaaaaatgccttgtaaaagcgtaggtttcggcttgcaaaagcggctcttttgccgtgtaaaacctattgtcttgctttgcaagagcataggttttaaaatctgaaagagttttctttgaaatttaattgcctttttattgtttcacgattctatttcaattgttctgctcaagtttttgcgctaaacatttatacatatattttaacactgcgacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAACAAUUGAACAUCAUUAUUAAGUACUUUCUCCUCUUUGUUCAUUCGUUAUAAAACUUUAAUUAAUUAGAGAAAAAGACACAAUAGUGUUAAAAUUCCAGCGUGAAACAAUGGCAGGAAGGCGAUUUUUAGGAACGAUAGGAUAUUUAUCUGCAAAUAAUCGCAGCAUUCGUGUGCAAGUACAUCCCCUAUCUAUUAAAUAAUUACAACUUUAUAUAGAUACUUUGUGCAAUAAAAUAUUAGACGUUUGUUCGCAAAAGAAACAAAAUAGGUAGUAUAUAGAACUAAAAAUGCCUUGUAAAAGCGUAGGUUUCGGCUUGCAAAAGCGGCUCUUUUGCCGUGUAAAACCUAUUGUCUUGCUUUGCAAGAGCAUAGGUUUUAAAAUCUGAAAGAGUUUUCUUUGAAAUUUAAUUGCCUUUUUAUUGUUUCACGAUUCUAUUUCAAUUGUUCUGCUCAAGUUUUUGCGCUAAACAUUUAUACAUAUAUUUUAACACUGCGACUA .....(((...((((((.........................))))))...)))......((((((....))))))............((((((((((((.....((((((((((((((((.(((((.((((((((....((((((........((((........)))).....(((((....)))))..)))))).................((((((((..(((((((((.((((((..........))))))))))).............)))).)))))))).))))))))))))).........((((((((.((((....)))).((((((((......((((((((((..((((((...))))))..))))))))))......)))))))).......)))))))).))))).....))))))))))).............((((..((.(((....))).))..))))...........))))))))))))...... (-115.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCGCAGUGUUAAAAUAUAUGUAUAAAUGUUUAGCGCAAAAACUUGAGCAGAACAAUUGAAAUAGAAUCGUGAAACAAUAAAAAGGCAAUUAAAUUUCAAAGAAAACUCUUUCAGAUUUUAAAACCUAUGCUCUUGCAAAGCAAGACAAUAGGUUUUACACGGCAAAAGAGCCGCUUUUGCAAGCCGAAACCUACGCUUUUACAAGGCAUUUUUAGUUCUAUAUACUACCUAUUUUGUUUCUUUUGCGAACAAACGUCUAAUAUUUUAUUGCACAAAGUAUCUAUAUAAAGUUGUAAUUAUUUAAUAGAUAGGGGAUGUACUUGCACACGAAUGCUGCGAUUAUUUGCAGAUAAAUAUCCUAUCGUUCCUAAAAAUCGCCUUCCUGCCAUUGUUUCACGCUGGAAUUUUAACACUAUUGUGUCUUUUUCUCUAAUUAAUUAAAGUUUUAUAACGAAUGAACAAAGAGGAGAAAGUACUUAAUAAUGAUGUUCAAUUGUUGUUUA .......(((((((((((.......(((.(((((.((.(((....))).)).))))).))).........(((((((((((.....(((....((((((.(((((....))))).))))))((((((((((..((((((...))))))..))))))))))....(((((((.....)))))))..))).........((......(((((((((((((..........(((..(((((((..(((((((((...................))))).)))).......))))))).)))...........(((((((..(((....)))........((((((....)))))).......)))))))....)))))))).)))))...)).))))))))))).....)))))))))))...(((..(((((((((.....(((...(((....))).)))......)))))))))..)))..(((((..((.....))..))))).. (-117.01) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 584 355 313 48 6 pint:PI1829|5end_hypothetical_protein_1769255..1769485_POSITIVE 573 354 313 231 190 pint:PI1830|5end_conserved_hypothetical_protein_1769439..1769669_POSITIVE 544 345 301 64 15 pint:PI0037|5end_hypothetical_protein_39354..39584_POSITIVE 529 350 301 73 24 pint:PI2128|5end_hypothetical_protein_2076512..2076742_POSITIVE 525 350 305 48 3 pint:PI1666|5end_conserved_hypothetical_protein_1579231..1579461_POSITIVE 489 350 305 92 47 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 489 350 305 219 174 pint:PI0842|5end_5-formyltetrahydrofolate_cyclo-ligase_775533..775763_POSITIVE 489 350 305 92 47 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 487 355 314 209 167 pint:PI2003|5end_hypothetical_protein_1960823..1961053_POSITIVE 487 355 314 48 6 pint:PI2002|5end_hypothetical_protein_1960662..1960892_POSITIVE 487 355 314 48 6 pint:PI1694|5end_hypothetical_protein_1609717..1609947_POSITIVE 480 345 302 69 24 pint:PI0089|5end_hypothetical_protein_88162..88392_POSITIVE 479 350 301 224 170 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 477 350 301 197 148 pint:PI1870|5end_hypothetical_protein_1815302..1815532_POSITIVE 477 370 322 112 64 pint:PI1760|5end_hypothetical_protein_1684413..1684643_POSITIVE 464 344 302 127 83 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 464 344 302 127 83 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 458 370 322 84 36 pint:PI1702|5end_hypothetical_protein_1620587..1620817_POSITIVE 455 380 331 102 59 pint:PI1845|5end_hypothetical_protein_1791457..1791687_POSITIVE 448 350 301 69 15 pint:PI0926|5end_hypothetical_protein_856824..857054_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 607 147 104 62 19 pint:PI1020|3end_hypothetical_protein_938779..938929_POSITIVE 573 354 313 151 110 pint:PI1829|3end_hypothetical_protein_1769439..1769589_POSITIVE 548 350 301 147 98 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 489 350 305 147 102 pint:PI2131|3end_hypothetical_protein_2080868..2081018_POSITIVE 484 346 305 151 110 pint:PI1666|3end_conserved_hypothetical_protein_1579418..1579568_POSITIVE 481 355 313 130 88 pint:PI1814|3end_hypothetical_protein_1753233..1753383_POSITIVE 479 350 301 124 70 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 479 350 301 102 48 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 472 350 303 124 75 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 468 355 313 130 88 pint:PI0689|3end_hypothetical_protein_625877..626027_POSITIVE 461 345 302 121 76 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 461 370 322 105 57 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 461 370 322 145 97 pint:PI0061|3end_hypothetical_protein_60690..60840_POSITIVE 444 354 314 139 98 pint:PI1601|3end_hypothetical_protein_1530454..1530604_POSITIVE 435 359 314 142 88 pint:PI0200|3end_hypothetical_protein_191735..191885_POSITIVE 431 350 305 141 96 pint:PI1512|3end_hypothetical_protein_1429893..1430043_POSITIVE 426 355 313 130 88 pint:PI1340|3end_hypothetical_protein_1256872..1257022_POSITIVE 418 367 322 146 107 pint:PI1076|3end_hypothetical_protein_999065..999215_POSITIVE 417 370 327 46 3 pint:PI0996|3end_hypothetical_protein_920660..920810_POSITIVE 416 355 314 144 102 pint:PI1528|3end_hypothetical_protein_1449878..1450028_POSITIVE