Origin IGS: acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa .........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 ttatggtcgtataacctttttcgagtgtttatttgtccgctattcatacaagcggtgattctttattatgcacttctcaaaagtaacatttttctattaaataaaagtctgtttgcttcaaaacattgcatggtttaacattcttttaatttaatttgttgtttacataagtatctacaatcagcgataaaacacaacatggtttgtaaagataattcccttaaaaagtaataactacgctttagtcttgcgaaagcggctgttttgcaatgcaagacctacgcttttgccccgtgtaaaagaggctcttttggagcggaaaacacaatcctgaaaaggtggtttttagaacccaccaccaaaaatatgaagtttttgt Mask Tandem Repeat Region ================================================ acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Find is-nt database================================================ Query_seq: PI1102:PI1103|PI1102:PI1103:conserved hypothetical protein:hypothetical protein:->->:1026308..1026686 379 acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1102:PI1103|PI1102:PI1103:conserved hypothetical protein:hypothetical protein:->->:1026308..1026686 379 acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1102:PI1103|PI1102:PI1103:conserved hypothetical protein:hypothetical protein:->->:1026308..1026686 379 acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 105 End: 242 ........................................................................................................ M H C K T A A F A R L K R S Y Y F L R E L S L Q T M L C F I A D C R Y L C K Q Q I K L K E C ......................................................................................................................................... Protein_Len: 37 Strand: - Start: 245 End: 355 .................................................................................................................................................................................................................................................... V M C H K S A F L S K N L L F I N S K L L A Y Y L I V A Q I F L P C I F M ........................ Protein_Len: 40 Strand: - Start: 49 End: 168 ................................................ S Q T K R E L L A E K V R P L L T P R A N C F L R K R L V L A Y N N S K L P I M ................................................................................................................................................................................................................... Protein_Len: 38 Strand: - Start: 2 End: 115 . L F K M N K T T P E L F W R K L I T N E A G F S G R K C P A F A Y T K C Q M ........................................................................................................................................................................................................................................................................ acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1102:PI1103|PI1102:PI1103:conserved hypothetical protein:hypothetical protein:->->:1026308..1026686 379 acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Intra-Species Hit: Count: 3 Min: 1 Max: 379 Len: 379 Subject: pint_PI1102_PI1103|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1026308,1026686]|379 HSP 1 e-value: 0.0 bit: 751.0 Len: 379 Query Start:1 Query End:379 Subject Strand: POSITIVE Subject Start: 1 Subject End: 379 acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa acaaaaacttcatatttttggtggtgggttctaaaaaccaccttttcaggattgtgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaaccatgttgtgttttatcgctgattgtagatacttatgtaaacaacaaattaaattaaaagaatgttaaaccatgcaatgttttgaagcaaacagacttttatttaatagaaaaatgttacttttgagaagtgcataataaagaatcaccgcttgtatgaatagcggacaaataaacactcgaaaaaggttatacgaccataa Subject: pint_PI1485_PI1486|hypothetical protein:alginate O-acetylation protein|POSITIVE:POSITIVE|[1405400,1405646]|247 HSP 1 e-value: 6.0E-14 bit: 79.8 Len: 123 Query Start:55 Query End:177 Subject Strand: POSITIVE Subject Start: 107 Subject End: 227 ......................................................tgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaa.......................................................................................................................................................................................................... ......................................................tgttttgcgttccaaaagcggctcttttgcacggt--aaaagcgtaggttttgcgttgcaaaacagccgctttcgcaatgtcaaaacgcagttatcagtttttaacagaattatctttacaaa.......................................................................................................................................................................................................... Subject: pint_PI2172_PI2174|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2114052,2114384]|333 HSP 1 e-value: 2.0E-11 bit: 71.9 Len: 123 Query Start:55 Query End:177 Subject Strand: POSITIVE Subject Start: 104 Subject End: 224 ......................................................tgttttccgctccaaaagagcctcttttacacggggcaaaagcgtaggtcttgcattgcaaaacagccgctttcgcaagactaaagcgtagttattactttttaagggaattatctttacaaa.......................................................................................................................................................................................................... ......................................................tgttttgcgttccaaaagcggctcttttgcacggt--aaaagcgtaggttttgcatcgtaaaagagccgctttcgcaacgtcaaagcgcagttatcagtttttaacagaattatctttacaaa.......................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAAAAACUUCAUAUUUUUGGUGGUGGGUUCUAAAAACCACCUUUUCAGGAUUGUGUUUUCCGCUCCAAAAGAGCCUCUUUUACACGGGGCAAAAGCGUAGGUCUUGCAUUGCAAAACAGCCGCUUUCGCAAGACUAAAGCGUAGUUAUUACUUUUUAAGGGAAUUAUCUUUACAAACCAUGUUGUGUUUUAUCGCUGAUUGUAGAUACUUAUGUAAACAACAAAUUAAAUUAAAAGAAUGUUAAACCAUGCAAUGUUUUGAAGCAAACAGACUUUUAUUUAAUAGAAAAAUGUUACUUUUGAGAAGUGCAUAAUAAAGAAUCACCGCUUGUAUGAAUAGCGGACAAAUAAACACUCGAAAAAGGUUAUACGACCAUAA ........(((....((((((.(((((..........)))))...))))))..((((((((((((........(((((........)))))..(((((..(((((((((..((.........))..).))))))))........((((((((((((((((((..................((((((....((((((.....)).)))).........)))))).(((((((.(((((..((((......(((...........)))))))..))))))))))))............))))))))))))).)))))..........)))))........)))))).....))))))..)))...((((....)))).... (-82.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUGGUCGUAUAACCUUUUUCGAGUGUUUAUUUGUCCGCUAUUCAUACAAGCGGUGAUUCUUUAUUAUGCACUUCUCAAAAGUAACAUUUUUCUAUUAAAUAAAAGUCUGUUUGCUUCAAAACAUUGCAUGGUUUAACAUUCUUUUAAUUUAAUUUGUUGUUUACAUAAGUAUCUACAAUCAGCGAUAAAACACAACAUGGUUUGUAAAGAUAAUUCCCUUAAAAAGUAAUAACUACGCUUUAGUCUUGCGAAAGCGGCUGUUUUGCAAUGCAAGACCUACGCUUUUGCCCCGUGUAAAAGAGGCUCUUUUGGAGCGGAAAACACAAUCCUGAAAAGGUGGUUUUUAGAACCCACCACCAAAAAUAUGAAGUUUUUGU ...((((......((((((((.((((((((.....((((((.....(((((((.(((....((((((..((........................((((((((((((..((((.(((.(((....)))...)))..))))..))))).)))))))..(((((.(((....)))...)))))..))))))))......))).)))))))..........((((..(((((.........)))))......(((((((((...(((((((...)))))))...)))))))))...........)))).........))))))))))))..))..))))))))(((((...))))).)))).(((((((.....))))))). (-78.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 780 130 84 61 17 pint:PI0638|5end_hypothetical_protein_582218..582448_POSITIVE 734 130 84 79 35 pint:PI1204|5end_hypothetical_protein_1124430..1124660_POSITIVE 727 170 121 65 16 pint:PI1041|5end_hypothetical_protein_960443..960673_POSITIVE 697 170 121 231 182 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 696 170 121 50 1 pint:PI1540|5end_hypothetical_protein_1461362..1461592_POSITIVE 678 130 84 216 172 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 672 160 111 99 50 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 666 140 92 133 85 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 666 140 92 50 2 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 664 130 84 230 186 pint:PI0887|5end_hypothetical_protein_817536..817766_POSITIVE 664 130 84 123 79 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 664 130 84 64 20 pint:PI0089|5end_hypothetical_protein_88162..88392_POSITIVE 662 130 84 216 172 pint:PI2046|5end_hypothetical_protein_1999030..1999260_POSITIVE 645 170 121 71 22 pint:PI1064|5end_hypothetical_protein_983071..983301_POSITIVE 621 170 121 185 136 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 613 140 92 220 172 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 608 140 92 93 45 pint:PI2022|5end_hypothetical_protein_1978631..1978861_POSITIVE 607 149 101 56 8 pint:PI2023|5end_hypothetical_protein_1978585..1978815_POSITIVE 606 130 84 175 131 pint:PI1804|5end_hypothetical_protein_1738109..1738339_POSITIVE 606 130 84 62 18 pint:PI1786|5end_hypothetical_protein_1718124..1718354_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 643 120 71 150 101 pint:PI0637|3end_hypothetical_protein_582397..582547_POSITIVE 592 130 84 116 72 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 592 130 84 89 45 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 589 130 85 138 95 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 589 130 85 47 4 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 562 116 71 151 106 pint:PI0638|3end_hypothetical_protein_582402..582552_POSITIVE 526 135 91 149 100 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 507 170 123 48 1 pint:PI1203|3end_conserved_hypothetical_protein_1124439..1124589_POSITIVE 506 148 101 134 84 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 487 127 86 150 109 pint:PI0755|3end_hypothetical_protein_686884..687034_POSITIVE 478 116 71 151 106 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 461 135 93 149 102 pint:PI2131|3end_hypothetical_protein_2080868..2081018_POSITIVE 459 177 138 40 1 pint:PI0010|3end_conserved_hypothetical_protein_11679..11829_POSITIVE 453 118 71 149 104 pint:PI1761|3end_hypothetical_protein_1684543..1684693_POSITIVE 450 135 93 149 102 pint:PI0158|3end_hypothetical_protein_151298..151448_POSITIVE 442 116 71 151 106 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 435 126 81 151 108 pint:PI1512|3end_hypothetical_protein_1429893..1430043_POSITIVE 422 116 71 151 106 pint:PI0081|3end_hypothetical_protein_80700..80850_POSITIVE 415 132 98 35 1 pint:PI0574|3end_hypothetical_protein_519444..519594_POSITIVE 410 130 84 138 94 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE