Origin IGS: ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat .........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 attgtatactccttttatttttctaggctagtaaaaacttttatggttagcagtttacctacaaaaagttttctagcagtttattgacaaattggattgaatgagatgaatgacaccttattcaagtttaggaaatcagtttcctagaaataatctttctctacgaaagagaatataacaagtgattgtttgtttgtgacaaacatcatttgttgcttacaaacataatatactcctatttcttaaaaaagtcaacaattaatgtttgtttttgtgtttttttaa Mask Tandem Repeat Region ================================================ ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Find is-nt database================================================ Query_seq: SMT_1829:SMT_1830|SMT_1829:SMT_1830:hypothetical protein:galactose-6-phosphate isomerase:->->:1799193..1799477 285 ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1829:SMT_1830|SMT_1829:SMT_1830:hypothetical protein:galactose-6-phosphate isomerase:->->:1799193..1799477 285 ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1829:SMT_1830|SMT_1829:SMT_1830:hypothetical protein:galactose-6-phosphate isomerase:->->:1799193..1799477 285 ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 47 End: 139 .............................................. M G V Y Y V C K Q Q M M F V T N K Q S L V I F S F V E K D Y F .................................................................................................................................................. Protein_Len: 33 Strand: - Start: 2 End: 100 . L F V C F C V N I T S K K L F Y S Y I I N T L L L H H K D C V F M ......................................................................................................................................................................................... ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat 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: 86 Start: 30 End: 59 .............................GTTGACTTTTTTAAGAAATAGGAGTATATT.................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 50 HP_score: -4.7 Tail_Score: -2.68259 Start: 61 End: 99 Full_Region: aatataacaagtgat tgtttgtttgtgacaaa catca tttgttgcttacaaaca taatatactcctatt ............................................................tgtttgtttgtgacaaacatcatttgttgcttacaaaca.......................................................................................................................................................................................... TransTerm Strand: + Conf: 59 HP_score: -4.8 Tail_Score: -3.87201 Start: 74 End: 107 Full_Region: TATGTTTGTAAGCAA CAAATGATGTTTGT CACAA ACAAACAATCACTTG TTATATTCTCTTTCG .........................................................................CAAATGATGTTTGTCACAAACAAACAATCACTTG.................................................................................................................................................................................. TransTerm Strand: - Conf: 70 HP_score: -7.7 Tail_Score: -3.34013 Start: 74 End: 107 Full_Region: cgaaagagaatataa caagtgattgtttgtt tgt gacaaacatcatttg ttgcttacaaacata .........................................................................caagtgattgtttgtttgtgacaaacatcatttg.................................................................................................................................................................................. TransTerm Strand: - Conf: 52 HP_score: -5.4 Tail_Score: -2.73243 Start: 161 End: 189 Full_Region: tattgacaaattgga ttgaatgagatg aatga caccttattcaa gtttaggaaatcagt ................................................................................................................................................................ttgaatgagatgaatgacaccttattcaa................................................................................................ Find igs database================================================ Query_seq: SMT_1829:SMT_1830|SMT_1829:SMT_1830:hypothetical protein:galactose-6-phosphate isomerase:->->:1799193..1799477 285 ttaaaaaaacacaaaaacaaacattaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Intra-Species Hit: Count: 1 Min: 24 Max: 285 Len: 262 Subject: smit_SMT_1829_SMT_1830|hypothetical protein:galactose-6-phosphate isomerase|POSITIVE:POSITIVE|[1799193,1799477]|285 HSP 1 e-value: 1.0E-146 bit: 519.0 Len: 262 Query Start:24 Query End:285 Subject Strand: POSITIVE Subject Start: 24 Subject End: 285 .......................ttaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat .......................ttaattgttgacttttttaagaaataggagtatattatgtttgtaagcaacaaatgatgtttgtcacaaacaaacaatcacttgttatattctctttcgtagagaaagattatttctaggaaactgatttcctaaacttgaataaggtgtcattcatctcattcaatccaatttgtcaataaactgctagaaaactttttgtaggtaaactgctaaccataaaagtttttactagcctagaaaaataaaaggagtatacaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUGUUGACUUUUUUAAGAAAUAGGAGUAUAUUAUGUUUGUAAGCAACAAAUGAUGUUUGUCACAAACAAACAAUCACUUGUUAUAUUCUCUUUCGUAGAGAAAGAUUAUUUCUAGGAAACUGAUUUCCUAAACUUGAAUAAGGUGUCAUUCAUCUCAUUCAAUCCAAUUUGUCAAUAAACUGCUAGAAAACUUUUUGUAGGUAAACUGCUAACCAUAAAAGUUUUUACUAGCCUAGAAAAAUAAAAGGAGUAUACAAU ....((((((((.......(((((((.(((((((...((((....))))((((.((((((((((.....)))))).)))).)))))))))))((((((.....)))))).)))))))((((((....))))))....((((((.(((((.....))))).))))))........))))))))...((((((((((((((.((((.....)))).......)))))))))..))))).......................... (-57.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUAUACUCCUUUUAUUUUUCUAGGCUAGUAAAAACUUUUAUGGUUAGCAGUUUACCUACAAAAAGUUUUCUAGCAGUUUAUUGACAAAUUGGAUUGAAUGAGAUGAAUGACACCUUAUUCAAGUUUAGGAAAUCAGUUUCCUAGAAAUAAUCUUUCUCUACGAAAGAGAAUAUAACAAGUGAUUGUUUGUUUGUGACAAACAUCAUUUGUUGCUUACAAACAUAAUAUACUCCUAUUUCUUAAAAAAGUCAACAAUUAA (((((....((.((((((((.((((.(((((..(((((((((..(((.........)))....)))))))))))))).(((....)))....))))..)))))))).))..(((....(((((...(((((((((....))))))))).....((((((.....)))))))))))(((((((((((.(((((((...))))))))))))))))))...................................))).)))))... (-58.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 237 203 56 19 smit:SMT_1730|5end_geranyltranstransferase_1714775..1715005_POSITIVE 273 133 91 139 95 smit:SMT_1590|5end_DNA-entry_nuclease_1578565..1578795_POSITIVE 245 169 124 101 55 smit:SMT_408|5end_hypothetical_protein_353087..353317_POSITIVE 243 219 175 167 116 smit:SMT_2066|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1973105..1973335_POSITIVE 243 219 175 167 116 smit:SMT_1321|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1290674..1290904_POSITIVE 242 218 171 138 90 smit:SMT_713|5end_heat_shock_protein_HtpX_620888..621118_NEGATIVE 242 218 171 138 90 smit:SMT_695|5end_heat_shock_protein_HtpX_606883..607113_NEGATIVE 241 218 175 47 5 smit:SMT_714|5end_hypothetical_protein_predicted_by_Glimmer/Critica_620979..621209_NEGATIVE 240 189 147 77 22 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 226 128 81 131 83 smit:SMT_1361|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1341402..1341632_NEGATIVE 223 228 184 64 4 smit:SMT_2070|5end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1974729..1974959_POSITIVE 221 99 54 106 60 smit:SMT_1831|5end_galactose-6-phosphate_isomerase_1799912..1800142_POSITIVE 221 190 146 225 172 smit:SMT_1790|5end_hypothetical_protein_1765644..1765874_POSITIVE 220 134 93 128 82 smit:SMT_1552|5end_RNA_binding_protein_1535119..1535349_POSITIVE 219 208 162 220 171 smit:SMT_845|5end_hypothetical_protein_791868..792098_NEGATIVE 219 168 121 52 14 smit:SMT_763|5end_alpha-amylase_667866..668096_POSITIVE 215 188 150 127 84 smit:SMT_908|5end_hypothetical_protein_857230..857460_NEGATIVE 213 239 194 217 175 smit:SMT_1116|5end_K02244_competence_protein_ComGB_1053841..1054071_NEGATIVE 212 199 151 186 136 smit:SMT_1530|5end_K07456_DNA_mismatch_repair_protein_MutS2_1515346..1515576_NEGATIVE 211 178 131 150 101 smit:SMT_142|5end_hypothetical_protein_95088..95318_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 237 203 59 22 smit:SMT_1729|3end_exodeoxyribonuclease_VII_small_subunit_1714858..1715008_POSITIVE 273 133 91 100 56 smit:SMT_1589|3end_hypothetical_protein_1578606..1578756_POSITIVE 245 119 79 40 1 smit:SMT_1034|3end_K05896_segregation_and_condensation_protein_A_976768..976918_NEGATIVE 245 169 124 100 54 smit:SMT_407|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_353166..353316_POSITIVE 242 218 171 136 88 smit:SMT_714|3end_hypothetical_protein_predicted_by_Glimmer/Critica_620890..621040_NEGATIVE 242 218 171 136 88 smit:SMT_696|3end_K03744_LemA_protein_606885..607035_NEGATIVE 226 128 81 119 71 smit:SMT_1362|3end_chaperone_protein_hscC_1341414..1341564_NEGATIVE 223 228 184 98 38 smit:SMT_2069|3end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1974843..1974993_POSITIVE 220 134 93 131 85 smit:SMT_1551|3end_K02221_YggT_family_protein_1535202..1535352_POSITIVE 219 160 124 128 87 smit:SMT_1187|3end_adenylosuccinate_lyase_1145067..1145217_NEGATIVE 215 188 150 134 91 smit:SMT_909|3end_type_I_restriction_enzyme_M_protein_857223..857373_NEGATIVE 212 199 151 83 33 smit:SMT_1531|3end_hypothetical_protein_1515449..1515599_NEGATIVE 211 178 131 148 99 smit:SMT_143|3end_hypothetical_protein_95090..95240_NEGATIVE 210 104 67 112 76 smit:SMT_1880|3end_hypothetical_protein_1837434..1837584_POSITIVE 210 104 67 112 76 smit:SMT_74|3end_hypothetical_protein_947..1097_NEGATIVE 209 99 61 144 110 smit:SMT_1377|3end_hypothetical_protein_1355556..1355706_NEGATIVE 208 149 101 114 68 smit:SMT_941|3end_hypothetical_protein_892863..893013_NEGATIVE 205 188 146 121 79 smit:SMT_1344|3end_oligoendopeptidase_F_1320996..1321146_NEGATIVE 204 116 75 150 109 smit:SMT_1229|3end_hypothetical_protein_1191494..1191644_POSITIVE 204 170 127 132 79 smit:SMT_908|3end_hypothetical_protein_856073..856223_NEGATIVE