Origin IGS: ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttttgcaaatttacttctttttttgtacttttgttgcattaaatcaatttaatatacaatgaaaaaaatacttcttatgtgtgcagcgttattagcaacgtctattcatacgtttgcgggtgagcctcttaagttagaagag Mask Tandem Repeat Region ================================================ ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Find is-nt database================================================ Query_seq: PI1306:PI1307|PI1306:PI1307:dipeptidyl peptidase IV:possible Fe-S oxidoreductase:->->:1222513..1222656 144 ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1306:PI1307|PI1306:PI1307:dipeptidyl peptidase IV:possible Fe-S oxidoreductase:->->:1222513..1222656 144 ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1306:PI1307|PI1306:PI1307:dipeptidyl peptidase IV:possible Fe-S oxidoreductase:->->:1222513..1222656 144 ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Predict ORF larger than 30AA ================================================ ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca 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================================================ ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1306:PI1307|PI1306:PI1307:dipeptidyl peptidase IV:possible Fe-S oxidoreductase:->->:1222513..1222656 144 ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Intra-Species Hit: Count: 1 Min: 1 Max: 144 Len: 144 Subject: pint_PI1306_PI1307|dipeptidyl peptidase IV:possible Fe-S oxidoreductase|POSITIVE:POSITIVE|[1222513,1222656]|144 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 144 Query Start:1 Query End:144 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtannnnnnncattgtatattaaattgatttaatgcaacaaaagtacnnnnnnngaagtaaatttgcaaaaca ctcttctaacttaagaggctcacccgcaaacgtatgaatagacgttgctaataacgctgcacacataagaagtatttttttcattgtatattaaattgatttaatgcaacaaaagtacaaaaaaagaagtaaatttgcaaaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUUCUAACUUAAGAGGCUCACCCGCAAACGUAUGAAUAGACGUUGCUAAUAACGCUGCACACAUAAGAAGUAUUUUUUUCAUUGUAUAUUAAAUUGAUUUAAUGCAACAAAAGUACAAAAAAAGAAGUAAAUUUGCAAAACA (((((.......)))))........(((((..((((..(((.(((((....))))))))....)))).....(((((((((..((((((.((...(((........)))..)).))))))..)))))))))..)))))...... (-21.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUUGCAAAUUUACUUCUUUUUUUGUACUUUUGUUGCAUUAAAUCAAUUUAAUAUACAAUGAAAAAAAUACUUCUUAUGUGUGCAGCGUUAUUAGCAACGUCUAUUCAUACGUUUGCGGGUGAGCCUCUUAAGUUAGAAGAG (((...(((((..(((..........)))..))))).))).....(((((((((((((((..(((........)))...))))))..((.((((..(((((((........))).))))..))))))...))))))).)).... (-22.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 48 2 162 111 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 297 70 23 176 129 pint:PI0930|5end_alpha-L-fucosidase_precursor_860977..861207_POSITIVE 282 49 14 162 124 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 279 60 14 231 187 pint:PI2011|5end_hypothetical_protein_1970429..1970659_POSITIVE 274 49 8 108 66 pint:PI2029|5end_DNA_topoisomerase_I_1982775..1983005_POSITIVE 271 56 15 82 44 pint:PI0213|5end_conserved_hypothetical_protein_207065..207295_POSITIVE 267 59 16 160 114 pint:PI1806|5end_integral_membrane_transport_protein;_possible_sugar_transport_proteins_1740777..1741007_POSITIVE 263 59 17 91 32 pint:PI2169|5end_hypothetical_protein_2111706..2111936_POSITIVE 263 60 17 45 1 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 263 66 24 109 78 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 259 63 24 42 2 pint:PI1682|5end_aminoacyl-histidine_dipeptidase_1598303..1598533_POSITIVE 256 60 15 198 138 pint:PI1525|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1446758..1446988_POSITIVE 255 60 17 88 44 pint:PI0550|5end_possible_glycosyl_hydrolase_500650..500880_POSITIVE 252 60 11 37 1 pint:PI1551|5end_HesA/MoeB/ThiF_family_protein_1467787..1468017_POSITIVE 251 70 21 186 123 pint:PI0681|5end_hypothetical_protein_619000..619230_POSITIVE 251 70 21 158 95 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 250 60 16 101 46 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 249 60 15 64 32 pint:PI1724|5end_inosine-5'-monophosphate_dehydrogenase_1641075..1641305_POSITIVE 249 69 21 88 38 pint:PI0259|5end_conserved_protein_found_in_conjugation,_TraI_252355..252585_POSITIVE 249 60 20 57 18 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 48 2 131 80 pint:PI0251|3end_hypothetical_protein_247810..247960_POSITIVE 286 63 22 149 98 pint:PI0857|3end_hypothetical_protein_790986..791136_POSITIVE 274 49 8 55 13 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 270 57 14 123 84 pint:PI1146|3end_translation_initiation_factor_IF3_1073503..1073653_POSITIVE 270 57 13 86 34 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 263 66 24 125 94 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 255 60 17 49 5 pint:PI0549|3end_hypothetical_protein_500691..500841_POSITIVE 241 60 15 70 24 pint:PI2012|3end_hypothetical_protein_1971555..1971705_POSITIVE 241 63 22 53 11 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 239 48 3 71 26 pint:PI0055|3end_hypothetical_protein_55044..55194_POSITIVE 239 48 3 151 106 pint:PI0053|3end_hypothetical_protein_55124..55274_POSITIVE 238 61 23 149 113 pint:PI1498|3end_probable_membrane_associated_lipoprotein_1419988..1420138_POSITIVE 232 63 25 56 4 pint:PI2168|3end_hypothetical_protein_2111746..2111896_POSITIVE 232 52 18 92 39 pint:PI0783|3end_hypothetical_protein_723397..723547_POSITIVE 231 65 25 65 27 pint:PI1283|3end_ATP_synthase,_alpha_subunit_1199864..1200014_POSITIVE 231 47 15 142 116 pint:PI0929|3end_copper_homeostasis_protein_861048..861198_POSITIVE 231 43 10 128 92 pint:PI0694|3end_Na+/dicarboxylate_or_sulfate_symporter_631177..631327_POSITIVE 229 67 24 117 80 pint:PI0596|3end_hypothetical_protein_546608..546758_POSITIVE 221 63 25 70 28 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 220 60 15 87 43 pint:PI1736|3end_topoisomerase_IV,_subunit_A_1657090..1657240_POSITIVE