Origin IGS: ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agaaaggagacagctatgcaatctacacaaaagaaacctataacagctttcactgttatttcnnnnnttaattaattaannnnnggtaaactacgagccatcacttcaatacttctcagaatggtggaaacaa Mask Tandem Repeat Region ================================================ ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Find is-nt database================================================ Query_seq: SMT_1135:SMT_1136|SMT_1135:SMT_1136:glucose-6-phosphate isomerase:K02025 multiple sugar transport system permease protein:<-<-:1077171..1077303 133 ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1135:SMT_1136|SMT_1135:SMT_1136:glucose-6-phosphate isomerase:K02025 multiple sugar transport system permease protein:<-<-:1077171..1077303 133 ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1135:SMT_1136|SMT_1135:SMT_1136:glucose-6-phosphate isomerase:K02025 multiple sugar transport system permease protein:<-<-:1077171..1077303 133 ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Predict ORF larger than 30AA ================================================ ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct 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================================================ ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1135:SMT_1136|SMT_1135:SMT_1136:glucose-6-phosphate isomerase:K02025 multiple sugar transport system permease protein:<-<-:1077171..1077303 133 ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: smit_SMT_1135_SMT_1136|glucose-6-phosphate isomerase:K02025 multiple sugar transport system permease protein|NEGATIVE:NEGATIVE|[1077171,1077303]|133 HSP 1 e-value: 5.0E-52 bit: 204.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct ttgtttccaccattctgagaagtattgaagtgatggctcgtagtttaccnnnnnttaattaattaannnnngaaataacagtgaaagctgttataggtttcttttgtgtagattgcatagctgtctcctttct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUUUCCACCAUUCUGAGAAGUAUUGAAGUGAUGGCUCGUAGUUUACCNNNNNUUAAUUAAUUAANNNNNGAAAUAACAGUGAAAGCUGUUAUAGGUUUCUUUUGUGUAGAUUGCAUAGCUGUCUCCUUUCU ...((((((......)).))))....((((.(((((((.(((((((((.......(((....))).........((((((((....)))))))).............)))))))))..)))))))..)))).. (-25.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAAGGAGACAGCUAUGCAAUCUACACAAAAGAAACCUAUAACAGCUUUCACUGUUAUUUCNNNNNUUAAUUAAUUAANNNNNGGUAAACUACGAGCCAUCACUUCAAUACUUCUCAGAAUGGUGGAAACAA .....(....).....(((..(((.......))).....(((((((......)))))))..........................))).........((((((.(((...........)))))))))...... (-15.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 858 49 1 140 92 smit:SMT_1135|5end_glucose-6-phosphate_isomerase_1077080..1077310_NEGATIVE 277 130 84 76 23 smit:SMT_1541|5end_isopentenyl-diphosphate_delta-isomerase_1526093..1526323_NEGATIVE 277 128 87 129 94 smit:SMT_1354|5end_diacylglycerol_kinase_1332001..1332231_NEGATIVE 268 126 88 154 109 smit:SMT_716|5end_50S_ribosomal_protein_L31_622410..622640_POSITIVE 262 123 86 59 11 smit:SMT_2124|5end_hypothetical_protein_2008442..2008672_POSITIVE 262 123 86 59 11 smit:SMT_751|5end_hypothetical_protein_655677..655907_NEGATIVE 257 130 81 69 16 smit:SMT_1957|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1890645..1890875_POSITIVE 257 130 87 108 60 smit:SMT_1012|5end_xanthine_permease_949154..949384_POSITIVE 256 41 4 158 123 smit:SMT_1386|5end_phosphoenolpyruvate-protein_phosphotransferase_1362806..1363036_POSITIVE 253 129 81 137 69 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 251 130 83 105 59 smit:SMT_1617|5end_K02015_iron_complex_transport_system_permease_protein_1604500..1604730_NEGATIVE 250 130 81 229 171 smit:SMT_1710|5end_magnesium-translocating_P-type_ATPase_1696030..1696260_NEGATIVE 250 130 81 229 171 smit:SMT_1708|5end_magnesium-translocating_P-type_ATPase_1694553..1694783_NEGATIVE 248 49 5 70 19 smit:SMT_211|5end_hypothetical_protein_predicted_by_Glimmer/Critica_144135..144365_POSITIVE 244 127 86 111 62 smit:SMT_2110|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1999163..1999393_POSITIVE 241 130 81 107 57 smit:SMT_1543|5end_diphosphomevalonate_decarboxylase_1528024..1528254_NEGATIVE 235 126 84 136 75 smit:SMT_1069|5end_acetyl_xylan_esterase,_putative_1009330..1009560_POSITIVE 234 130 85 178 125 smit:SMT_1498|5end_transcriptional_regulator,_LytR_family_1481958..1482188_POSITIVE 233 47 3 100 45 smit:SMT_1127|5end_transcriptional_regulator,_MarR_family_1061556..1061786_NEGATIVE 233 129 83 179 130 smit:SMT_214|5end_leucyl-tRNA_synthetase_146333..146563_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 277 130 84 92 39 smit:SMT_1542|3end_phosphomevalonate_kinase_1526077..1526227_NEGATIVE 277 128 87 148 113 smit:SMT_1355|3end_conserved_hypothetical_protein_TIGR00043_1331982..1332132_NEGATIVE 268 126 88 58 13 smit:SMT_715|3end_DHH_subfamily_1_protein_622394..622544_POSITIVE 262 123 86 78 30 smit:SMT_2123|3end_hypothetical_protein_2008541..2008691_POSITIVE 257 130 87 108 60 smit:SMT_1011|3end_xanthine_phosphoribosyltransferase_949234..949384_POSITIVE 256 41 4 143 108 smit:SMT_1385|3end_phosphocarrier_protein_HPr_1362871..1363021_POSITIVE 253 130 86 110 54 smit:SMT_1753|3end_tryptophan_synthase_beta_chain_1731652..1731802_POSITIVE 252 49 8 148 103 smit:SMT_2010|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1929770..1929920_POSITIVE 251 130 83 115 69 smit:SMT_1618|3end_K02015_iron_complex_transport_system_permease_protein_1604490..1604640_NEGATIVE 243 123 87 48 1 smit:SMT_752|3end_prephenate_dehydrogenase_655688..655838_NEGATIVE 242 129 86 121 65 smit:SMT_807|3end_hypothetical_protein_predicted_by_Glimmer/Critica_716708..716858_NEGATIVE 241 130 81 125 75 smit:SMT_1544|3end_mevalonate_kinase_1528006..1528156_NEGATIVE 233 125 87 118 73 smit:SMT_116|3end_beta-N-acetylhexosaminidase_68356..68506_POSITIVE 229 130 86 91 59 smit:SMT_1643|3end_2-isopropylmalate_synthase_1630772..1630922_POSITIVE 229 128 85 47 11 smit:SMT_1094|3end_membrane_carboxypeptidase_(penicillin-binding_protein)_1034141..1034291_NEGATIVE 223 130 81 77 27 smit:SMT_1647|3end_3-isopropylmalate_dehydratase_small_subunit_1634076..1634226_POSITIVE 221 44 6 58 17 smit:SMT_2101|3end_K01421_putative_membrane_protein_1993820..1993970_POSITIVE 221 33 1 146 117 smit:SMT_1342|3end_protease_maturation_protein,_putative_1319276..1319426_NEGATIVE 219 130 88 104 62 smit:SMT_1005|3end_possible_aluminum_resistance_protein_946679..946829_POSITIVE 218 123 83 60 16 smit:SMT_2109|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1999061..1999211_NEGATIVE