Origin IGS: tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta .........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 taggtatgtttatgaaaaatatttacacttctttcgctatttccgcttatataataagctgcattgcagccaattttagttttaactgataataatattctgaaacgagtattcataacgtttgtttatcgacatttcagacgcttcataggtaacactttaacttttagcagacgccaatatcttttttcacataataataaggtaaatcatttttttttcttatctttgcataagatataatgaatcctcaaaaagacataca Mask Tandem Repeat Region ================================================ tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Find is-nt database================================================ Query_seq: PI1056:PI1057|PI1056:PI1057:cell-division ATP-binding protein:hypothetical protein:->->:977161..977425 265 tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1056:PI1057|PI1056:PI1057:cell-division ATP-binding protein:hypothetical protein:->->:977161..977425 265 tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1056:PI1057|PI1056:PI1057:cell-division ATP-binding protein:hypothetical protein:->->:977161..977425 265 tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 150 End: 263 ..................................................................................................................................................... M N T R F R I L L S V K T K I G C N A A Y Y I S G N S E R S V N I F H K H T .. Protein_Len: 59 Strand: - Start: 26 End: 202 ......................... I K H L S L F F F H N V K N N H S F L Y Q R R S F T L T N G I F R R F H R Y V F T I F V R K L I N N D T L V L I P Q M ............................................................... tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta 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================================================ tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 86 HP_score: -9.1 Tail_Score: -3.88232 Start: 196 End: 208 Full_Region: TTAAAACTAAAATTG GCTGC AAT GCAGC TTATTATATAAGCGG ...................................................................................................................................................................................................GCTGCAATGCAGC......................................................... Find igs database================================================ Query_seq: PI1056:PI1057|PI1056:PI1057:cell-division ATP-binding protein:hypothetical protein:->->:977161..977425 265 tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Intra-Species Hit: Count: 1 Min: 1 Max: 265 Len: 265 Subject: pint_PI1056_PI1057|cell-division ATP-binding protein:hypothetical protein|POSITIVE:POSITIVE|[977161,977425]|265 HSP 1 e-value: 1.0E-132 bit: 472.0 Len: 265 Query Start:1 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 265 tgtatgtctttttgaggattcattatatcttatgcaaagataagnnnnnnnnntgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta tgtatgtctttttgaggattcattatatcttatgcaaagataagaaaaaaaaatgatttaccttattattatgtgaaaaaagatattggcgtctgctaaaagttaaagtgttacctatgaagcgtctgaaatgtcgataaacaaacgttatgaatactcgtttcagaatattattatcagttaaaactaaaattggctgcaatgcagcttattatataagcggaaatagcgaaagaagtgtaaatatttttcataaacataccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUAUGUCUUUUUGAGGAUUCAUUAUAUCUUAUGCAAAGAUAAGAAAAAAAAAUGAUUUACCUUAUUAUUAUGUGAAAAAAGAUAUUGGCGUCUGCUAAAAGUUAAAGUGUUACCUAUGAAGCGUCUGAAAUGUCGAUAAACAAACGUUAUGAAUACUCGUUUCAGAAUAUUAUUAUCAGUUAAAACUAAAAUUGGCUGCAAUGCAGCUUAUUAUAUAAGCGGAAAUAGCGAAAGAAGUGUAAAUAUUUUUCAUAAACAUACCUA .((((((.....(((((..(((((...((((((......))))))......)))))....)))))......(((((((...((((((.((.((((((.........(((.(((.((((((....(((((((((......(((....))).........)))))))))......)))).)).))).)))..(((.((((((...)))))).))).....)))))).....(....)....)).))))))))))))).))))))... (-50.96) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUAUGUUUAUGAAAAAUAUUUACACUUCUUUCGCUAUUUCCGCUUAUAUAAUAAGCUGCAUUGCAGCCAAUUUUAGUUUUAACUGAUAAUAAUAUUCUGAAACGAGUAUUCAUAACGUUUGUUUAUCGACAUUUCAGACGCUUCAUAGGUAACACUUUAACUUUUAGCAGACGCCAAUAUCUUUUUUCACAUAAUAAUAAGGUAAAUCAUUUUUUUUUCUUAUCUUUGCAUAAGAUAUAAUGAAUCCUCAAAAAGACAUACA ...((((((((.(((((((.......((((.((((......................(((((...))))).....(((((....)))))............)))).))))........((((((((..............((.((....))))...............)))))))).........)))))))..........(((....(((((......((((((......))))))...)))))..))).....)))))))). (-41.05) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 438 260 216 188 141 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 384 256 215 198 155 pint:PI1253|5end_hypothetical_protein_1175516..1175746_POSITIVE 365 256 212 93 48 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 350 259 220 118 77 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 337 256 215 181 139 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 325 250 203 211 151 pint:PI0821|5end_conserved_hypothetical_protein_760063..760293_POSITIVE 317 260 218 161 110 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 311 259 211 109 60 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 310 259 211 213 164 pint:PI0886|5end_hypothetical_protein_817640..817870_POSITIVE 310 259 211 109 60 pint:PI0887|5end_hypothetical_protein_817536..817766_POSITIVE 304 252 215 144 105 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 294 259 219 161 119 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 292 260 221 124 88 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 292 256 215 219 176 pint:PI1065|5end_hypothetical_protein_983382..983612_POSITIVE 285 242 201 102 61 pint:PI1384|5end_conserved_hypothetical_protein_1305171..1305401_POSITIVE 274 260 220 137 95 pint:PI2024|5end_hypothetical_protein_1978804..1979034_POSITIVE 273 129 81 94 38 pint:PI0592|5end_DNA_mismatch_repair_protein_540795..541025_POSITIVE 271 256 219 224 185 pint:PI0286|5end_ISPg3-related_transposase_271833..272063_POSITIVE 267 110 65 198 152 pint:PI2013|5end_hypothetical_protein_1972329..1972559_POSITIVE 267 260 214 146 100 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 438 260 216 146 99 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 366 258 215 56 11 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 337 256 215 59 17 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 315 252 219 50 15 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 312 260 220 46 4 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 310 259 211 56 7 pint:PI0885|3end_hypothetical_protein_817563..817713_POSITIVE 295 256 219 42 2 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 294 259 219 57 15 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 292 256 215 81 38 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 274 260 220 85 43 pint:PI2023|3end_hypothetical_protein_1978832..1978982_POSITIVE 272 259 218 56 14 pint:PI1041|3end_hypothetical_protein_960675..960825_POSITIVE 266 240 192 118 74 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 263 238 193 54 5 pint:PI0604|3end_O-succinylbenzoic_acid--CoA_ligase_551918..552068_POSITIVE 259 138 99 150 112 pint:PI1006|3end_conserved_hypothetical_protein_927049..927199_POSITIVE 258 240 191 93 45 pint:PI1270|3end_probable_dipeptidyl_peptidase_1190829..1190979_POSITIVE 258 140 91 102 40 pint:PI0230|3end_hypothetical_protein_228906..229056_POSITIVE 252 260 219 46 3 pint:PI0568|3end_hypothetical_protein_513131..513281_POSITIVE 247 240 194 120 81 pint:PI1736|3end_topoisomerase_IV,_subunit_A_1657090..1657240_POSITIVE 244 240 198 93 50 pint:PI0852|3end_conserved_hypothetical_protein_785435..785585_POSITIVE 243 260 220 85 41 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE