Origin IGS: aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag .........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 ctaatagctttaagctatcagcttaaaaagactagatgtttaagatgaatagaaaggataattagatgagtcgtaaagagatagatgctgaaaagtaaaagaaagtaaacttcctatgtgagaaagaactggctgattgaccagttctttctttttgcagggaagtccgttcgatttgccacttgtcaagtctgtgcttttcgagtatgataaagacagttagattattcgtagcgtagcttttagagaaaggatttttt Mask Tandem Repeat Region ================================================ aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Find is-nt database================================================ Query_seq: SSA_1595:SSA_1596|SSA_1595:SSA_1596:Tellurite resistance, putative:hypothetical protein:<-<-:1601905..1602164 260 aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1595:SSA_1596|SSA_1595:SSA_1596:Tellurite resistance, putative:hypothetical protein:<-<-:1601905..1602164 260 aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1595:SSA_1596|SSA_1595:SSA_1596:Tellurite resistance, putative:hypothetical protein:<-<-:1601905..1602164 260 aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 50 End: 196 ................................................. M I L E K H R L D K W Q I E R T S L Q K E R T G Q S A S S F S H R K F T F F Y F S A S I S L R L I ................................................................ Protein_Len: 59 Strand: + Start: 42 End: 218 ......................................... M S L S Y S K S T D L T S G K S N G L P C K K K E L V N Q P V L S H I G S L L S F T F Q H L S L Y D S S N Y P F Y S S .......................................... Protein_Len: 30 Strand: - Start: 54 End: 143 ..................................................... V R F A C V Q C T A F R V S K G A F L F F Q D I L W N K R M ..................................................................................................................... aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag 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: 87 Start: 50 End: 79 .................................................CTTGTCAAGTCTGTGCTTTTCGAGTATGAT..................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.9 Tail_Score: -4.56775 Start: 110 End: 139 Full_Region: aaacttcctatgtga gaaagaactgg ctgattga ccagttctttc tttttgcagggaagt .............................................................................................................gaaagaactggctgattgaccagttctttc......................................................................................................................... TransTerm Strand: + Conf: 66 HP_score: -6.6 Tail_Score: -3.89346 Start: 114 End: 135 Full_Region: CCCTGCAAAAAGAAA GAACTGGT CAATCA GCCAGTTC TTTCTCACATAGGAA .................................................................................................................GAACTGGTCAATCAGCCAGTTC............................................................................................................................. TransTerm Strand: - Conf: 81 HP_score: -5.9 Tail_Score: -4.85782 Start: 114 End: 135 Full_Region: ttcctatgtgagaaa gaactgg ctgattga ccagttc tttctttttgcaggg .................................................................................................................gaactggctgattgaccagttc............................................................................................................................. Find igs database================================================ Query_seq: SSA_1595:SSA_1596|SSA_1595:SSA_1596:Tellurite resistance, putative:hypothetical protein:<-<-:1601905..1602164 260 aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Intra-Species Hit: Count: 1 Min: 1 Max: 260 Len: 260 Subject: NC_009009_SSA_1595_SSA_1596|Tellurite resistance, putative:hypothetical protein|NEGATIVE:NEGATIVE|[1601905,1602164]|260 HSP 1 e-value: 1.0E-145 bit: 515.0 Len: 260 Query Start:1 Query End:260 Subject Strand: POSITIVE Subject Start: 1 Subject End: 260 aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag aaaaaatcctttctctaaaagctacgctacgaataatctaactgtctttatcatactcgaaaagcacagacttgacaagtggcaaatcgaacggacttccctgcaaaaagaaagaactggtcaatcagccagttctttctcacataggaagtttactttcttttacttttcagcatctatctctttacgactcatctaattatcctttctattcatcttaaacatctagtctttttaagctgatagcttaaagctattag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAAUCCUUUCUCUAAAAGCUACGCUACGAAUAAUCUAACUGUCUUUAUCAUACUCGAAAAGCACAGACUUGACAAGUGGCAAAUCGAACGGACUUCCCUGCAAAAAGAAAGAACUGGUCAAUCAGCCAGUUCUUUCUCACAUAGGAAGUUUACUUUCUUUUACUUUUCAGCAUCUAUCUCUUUACGACUCAUCUAAUUAUCCUUUCUAUUCAUCUUAAACAUCUAGUCUUUUUAAGCUGAUAGCUUAAAGCUAUUAG ............((..((((((((.(((((......((...((((((((.((......)))))).))))....))...))))).....(((.(((......(((....(((((((((((((......))))))))))))).....((((((....))))))...........))).............((....))......))).))).................))).)))))..))((((((((.....)))))))) (-53.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAAUAGCUUUAAGCUAUCAGCUUAAAAAGACUAGAUGUUUAAGAUGAAUAGAAAGGAUAAUUAGAUGAGUCGUAAAGAGAUAGAUGCUGAAAAGUAAAAGAAAGUAAACUUCCUAUGUGAGAAAGAACUGGCUGAUUGACCAGUUCUUUCUUUUUGCAGGGAAGUCCGUUCGAUUUGCCACUUGUCAAGUCUGUGCUUUUCGAGUAUGAUAAAGACAGUUAGAUUAUUCGUAGCGUAGCUUUUAGAGAAAGGAUUUUUU ((((.((((....(((((((.((((((...........)))))).))).......((((((((.((..(((.(((((..((....((((....))))...........(((((((.(((((((((((((((((.....).)))))))))))))...))))))))))....))..))))).)))..))..((((((((((...)))))).....)))).....)))))))).))))..)))).)))).............. (-72.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 948 130 81 221 172 NC_009009:SSA_1595|5end_Tellurite_resistance,_putative_1601814..1602044_NEGATIVE 315 146 109 214 173 NC_009009:SSA_1626|5end_DNA_translocase_ftsK,_putative_1629377..1629607_NEGATIVE 291 101 71 231 196 NC_009009:SSA_0576|5end_Conserved_GTPase,_putative_570039..570269_POSITIVE 285 140 92 116 64 NC_009009:SSA_0977|5end_3-isopropylmalate_dehydrogenase,_putative_982771..983001_POSITIVE 285 70 24 202 164 NC_009009:SSA_0385|5end_ABC_transporter,_glycine-betaine/proline_permease_protein,_putative_380250..380480_NEGATIVE 284 140 100 36 2 NC_009009:SSA_0761|5end_Transcriptional_regulator,_XRE_family,_putative_743877..744107_POSITIVE 284 217 174 84 43 NC_009009:SSA_0687|5end_hypothetical_protein_670467..670697_POSITIVE 283 132 92 59 5 NC_009009:SSA_1610|5end_hypothetical_protein_1614909..1615139_NEGATIVE 280 154 113 156 109 NC_009009:SSA_0793|5end_DNA-entry_nuclease,_putative_774859..775089_POSITIVE 280 132 92 135 86 NC_009009:SSA_0185|5end_Competence_protein_ComYB,_putative_189057..189287_POSITIVE 279 138 94 49 3 NC_009009:SSA_0085|5end_V-type_sodium_ATPase,_subunit_I,_putative_85750..85980_POSITIVE 277 105 68 184 147 NC_009009:SSA_1441|5end_Phosphoribosyl-AMP_cyclohydrolase,_putative_1445183..1445413_NEGATIVE 272 164 125 64 30 NC_009009:SSA_2393|5end_Transcriptional_regulator,_XRE_family,_putative_204056..204286_POSITIVE 271 236 194 134 92 NC_009009:SSA_1489|5end_hypothetical_protein_1495788..1496018_NEGATIVE 270 140 93 212 162 NC_009009:SSA_1464|5end_3-phosphoshikimate_1-carboxyvinyltransferase,_putative_1471516..1471746_NEGATIVE 270 140 106 156 127 NC_009009:SSA_1185|5end_DNA_processing_Smf_protein,_putative_1214532..1214762_NEGATIVE 269 160 113 113 54 NC_009009:SSA_2331|5end_D-alanine_transfer_protein,_putative_2334964..2335194_NEGATIVE 266 100 56 62 14 NC_009009:SSA_1382|5end_hypothetical_protein_1400270..1400500_NEGATIVE 266 136 93 59 5 NC_009009:SSA_0323|5end_Flavoprotein,_putative_316799..317029_NEGATIVE 266 104 64 85 48 NC_009009:SSA_0315|5end_Transcriptional_regulator,_MarR_family,_putative_310102..310332_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 146 109 83 42 NC_009009:SSA_1627|3end_hypothetical_protein_1629508..1629658_NEGATIVE 282 138 108 80 50 NC_009009:SSA_1796|3end_Transcription_elongation_factor_GreA,_putative_1777825..1777975_NEGATIVE 282 138 91 59 10 NC_009009:SSA_0083|3end_hypothetical_protein_85840..85990_POSITIVE 280 154 113 97 50 NC_009009:SSA_0792|3end_hypothetical_protein_774880..775030_POSITIVE 278 170 125 92 34 NC_009009:SSA_0567|3end_Isochorismitase_family_protein,_putative_561442..561592_POSITIVE 272 129 81 58 6 NC_009009:SSA_1561|3end_Ribonuclease_III,_putative_1565185..1565335_NEGATIVE 271 236 194 101 59 NC_009009:SSA_1490|3end_Ribonuclease_BN,_putative_1495821..1495971_NEGATIVE 270 140 93 80 30 NC_009009:SSA_1465|3end_Conserved_uncharacterized_protein_1471648..1471798_NEGATIVE 270 140 106 32 3 NC_009009:SSA_1186|3end_Acetyltransferase,_CysE/LacA/Lpx_A/NodL_family,_putative_1214656..1214806_NEGATIVE 269 160 113 120 61 NC_009009:SSA_2332|3end_D-alanyl_carrier_protein,_putative_2334957..2335107_NEGATIVE 264 43 5 141 100 NC_009009:SSA_0040|3end_Phosphoribosylaminoimidazole_carboxylase,_ATPase_subunit,_putative_47479..47629_POSITIVE 262 178 131 98 40 NC_009009:SSA_0796|3end_ABC-NBD_transporters_with_duplicated_ATPase_domains,_putative_779060..779210_POSITIVE 260 130 88 90 45 NC_009009:SSA_0795|3end_hypothetical_protein_777065..777215_POSITIVE 260 247 201 125 80 NC_009009:SSA_0065|3end_Low_molecular_weight_phosphotyrosine_protein_phosphatase,_putative_67677..67827_POSITIVE 254 103 74 36 12 NC_009009:SSA_0388|3end_Mismatch_repair_ATPase_(MutS_family),_putative_384248..384398_POSITIVE 253 83 42 70 17 NC_009009:SSA_2108|3end_Glyceraldehyde_3-phosphate_dehydrogenase,_putative_2111457..2111607_NEGATIVE 253 142 109 83 55 NC_009009:SSA_1772|3end_hypothetical_protein_1758895..1759045_NEGATIVE 252 124 84 49 7 NC_009009:SSA_0081|3end_Transcriptional_regulator,_RpiR_family_(phosphosugar-binding),_putative_84220..84370_NEGATIVE 250 140 92 107 59 NC_009009:SSA_1050|3end_ABC_transporter_membrane-spanning_permease-spermidine/putrescine_transport,_putative_1065741..1065891_POSITIVE 247 48 7 150 107 NC_009009:SSA_1844|3end_hypothetical_protein_1837488..1837638_NEGATIVE