Origin IGS: aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt .........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 aactaaatatataagtcttagaattttatataaagttaatatataaattaagtggggttgaaatcagtcttcctttaaaaagtagctattacaaacaaaagcttatgcaaaaaagactaatttatgatagaatagaggataagaaagaaaacgtttttacaattttttcaatccgaaggagatatatt Mask Tandem Repeat Region ================================================ aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Find is-nt database================================================ Query_seq: SMT_1408:SMT_1409|SMT_1408:SMT_1409:GTP-binding protein:hypothetical protein:<-<-:1387238..1387425 188 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1408:SMT_1409|SMT_1408:SMT_1409:GTP-binding protein:hypothetical protein:<-<-:1387238..1387425 188 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1408:SMT_1409|SMT_1408:SMT_1409:GTP-binding protein:hypothetical protein:<-<-:1387238..1387425 188 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: - Start: 1 End: 159 I Y R R R I S F I T F V N E K K D E I R D Y I L R K Q M L K Q K Y Y S S K L P L S I E V G S L K Y I L K M ............................. aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt 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: 81 Start: 56 End: 85 .......................................................TATGCAAAAAAGACTAATTTATGATAGAAT....................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 38 HP_score: -2.2 Tail_Score: -2.60219 Start: 142 End: 164 Full_Region: TTCAACCCCACTTAA TTTATATA TTAACTT TATATAAA ATTCTAAGACTTATA .............................................................................................................................................TTTATATATTAACTTTATATAAA........................ Find igs database================================================ Query_seq: SMT_1408:SMT_1409|SMT_1408:SMT_1409:GTP-binding protein:hypothetical protein:<-<-:1387238..1387425 188 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Intra-Species Hit: Count: 2 Min: 1 Max: 188 Len: 188 Subject: smit_SMT_1483_SMT_1484|GTP-binding protein:exonuclease RexA|NEGATIVE:NEGATIVE|[1463767,1464345]|579 HSP 1 e-value: 1.0E-102 bit: 373.0 Len: 188 Query Start:1 Query End:188 Subject Strand: POSITIVE Subject Start: 1 Subject End: 188 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Subject: smit_SMT_1408_SMT_1409|GTP-binding protein:hypothetical protein|NEGATIVE:NEGATIVE|[1387238,1387425]|188 HSP 1 e-value: 1.0E-102 bit: 373.0 Len: 188 Query Start:1 Query End:188 Subject Strand: POSITIVE Subject Start: 1 Subject End: 188 aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt aatatatctccttcggattgaaaaaattgtaaaaacgttttctttcttatcctctattctatcataaattagtcttttttgcataagcttttgtttgtaatagctactttttaaaggaagactgatttcaaccccacttaatttatatattaactttatataaaattctaagacttatatatttagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUAUCUCCUUCGGAUUGAAAAAAUUGUAAAAACGUUUUCUUUCUUAUCCUCUAUUCUAUCAUAAAUUAGUCUUUUUUGCAUAAGCUUUUGUUUGUAAUAGCUACUUUUUAAAGGAAGACUGAUUUCAACCCCACUUAAUUUAUAUAUUAACUUUAUAUAAAAUUCUAAGACUUAUAUAUUUAGUU .(((((..((....((((.(((((((.(((....))).))).))))..)))).............(((((((((((((((.....((((.(((....))).))))........))))))))))))))).............((((((((.......)))))))).......))..)))))........ (-28.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUAAAUAUAUAAGUCUUAGAAUUUUAUAUAAAGUUAAUAUAUAAAUUAAGUGGGGUUGAAAUCAGUCUUCCUUUAAAAAGUAGCUAUUACAAACAAAAGCUUAUGCAAAAAAGACUAAUUUAUGAUAGAAUAGAGGAUAAGAAAGAAAACGUUUUUACAAUUUUUUCAAUCCGAAGGAGAUAUAUU .....(((((((...((((.....((((((((.......)))))))).......(((((((((((..((((((((((....((((((.((......)).))))...))........(((........)))..)))))))..)))..))....((....)).....))))))))).))))..))))))) (-28.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 778 140 91 231 182 smit:SMT_1483|5end_GTP-binding_protein_1463676..1463906_NEGATIVE 778 140 91 231 182 smit:SMT_1408|5end_GTP-binding_protein_1387147..1387377_NEGATIVE 268 66 27 122 80 smit:SMT_1344|5end_oligoendopeptidase_F_1322798..1323028_NEGATIVE 255 74 36 140 93 smit:SMT_919|5end_hypothetical_protein_872499..872729_NEGATIVE 255 80 37 205 156 smit:SMT_759|5end_K01992_ABC-2_type_transport_system_permease_protein_665712..665942_NEGATIVE 240 67 36 130 95 smit:SMT_1374|5end_uridylate_kinase_1353020..1353250_NEGATIVE 238 68 26 128 81 smit:SMT_565|5end_polypeptide_deformylase_483373..483603_NEGATIVE 234 90 41 77 24 smit:SMT_1667|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1657567..1657797_NEGATIVE 234 90 41 177 124 smit:SMT_1666|5end_hypothetical_protein_1657467..1657697_NEGATIVE 232 83 41 140 96 smit:SMT_1727|5end_uridine_kinase_1712483..1712713_POSITIVE 231 44 6 131 96 smit:SMT_898|5end_polyribonucleotide_nucleotidyltransferase_846861..847091_NEGATIVE 231 117 75 200 170 smit:SMT_877|5end_hypothetical_protein_824412..824642_NEGATIVE 226 109 71 39 2 smit:SMT_1277|5end_PcsB_protein_1240000..1240230_POSITIVE 225 136 108 126 99 smit:SMT_954|5end_cation-transporting_ATPase,_E1-E2_family_904025..904255_NEGATIVE 222 138 94 231 186 smit:SMT_1680|5end_hypothetical_protein_1663494..1663724_POSITIVE 221 90 41 118 56 smit:SMT_1567|5end_transketolase,_N-terminal_subunit_1559268..1559498_POSITIVE 221 125 93 148 113 smit:SMT_237|5end_aminopeptidase_C_175226..175456_POSITIVE 220 96 52 229 178 smit:SMT_969|5end_30S_ribosomal_protein_S15_914922..915152_NEGATIVE 219 105 63 194 142 smit:SMT_525|5end_30S_ribosomal_protein_S16_450875..451105_POSITIVE 217 88 41 129 80 smit:SMT_651|5end_DNA_ligase_561944..562174_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 66 27 103 61 smit:SMT_1345|3end_K06198_competence_protein_CoiA_1322817..1322967_NEGATIVE 255 74 36 51 4 smit:SMT_920|3end_serine/threonine_protein_kinase_872588..872738_NEGATIVE 240 67 36 46 11 smit:SMT_1375|3end_putative_glucose-inhibited_division_protein_1353104..1353254_NEGATIVE 221 90 41 114 52 smit:SMT_1566|3end_K03475_PTS_system,_unknown_pentitol_phosphotransferase_enzyme_IIC_component_1559344..1559494_POSITIVE 221 125 93 53 18 smit:SMT_236|3end_ribosomal_small_subunit_pseudouridine_synthase_A_175211..175361_POSITIVE 219 105 63 121 69 smit:SMT_524|3end_methionyl-tRNA_synthetase_450882..451032_POSITIVE 216 88 54 36 3 smit:SMT_652|3end_transporter,_putative_562037..562187_NEGATIVE 214 136 93 79 32 smit:SMT_1041|3end_K07586_hypothetical_protein_984164..984314_POSITIVE 211 89 46 136 100 smit:SMT_965|3end_putative_transposase_911085..911235_NEGATIVE 208 112 72 88 34 smit:SMT_1730|3end_geranyltranstransferase_1715730..1715880_POSITIVE 206 129 81 67 24 smit:SMT_738|3end_hypothetical_protein_predicted_by_Glimmer/Critica_642899..643049_NEGATIVE 194 110 62 70 18 smit:SMT_1383|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1360795..1360945_NEGATIVE 194 48 7 51 14 smit:SMT_1107|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1047989..1048139_NEGATIVE 194 110 67 133 89 smit:SMT_686|3end_LPS_biosynthesis_protein_596048..596198_POSITIVE 193 124 87 55 12 smit:SMT_1322|3end_K02075_zinc/manganese_transport_system_permease_protein_1292257..1292407_POSITIVE 193 88 47 132 87 smit:SMT_439|3end_hypothetical_protein_predicted_by_Glimmer/Critica_379658..379808_POSITIVE 191 89 41 141 95 smit:SMT_596|3end_K03976_putative_transcription_regulator_512590..512740_NEGATIVE 188 139 114 34 10 smit:SMT_1542|3end_phosphomevalonate_kinase_1526077..1526227_NEGATIVE 188 78 36 127 92 smit:SMT_1417|3end_spermidine_synthase_1400826..1400976_NEGATIVE 184 99 51 141 96 smit:SMT_1138|3end_hypothetical_protein_1079269..1079419_NEGATIVE