Origin IGS: acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttgcatcaatgctgcctcttttgctttatgctcatcgannnnnttaattaattaannnnnaaggtagaaaacaaaccagatacaccgtctcctacaggtacagtaaaccgt Mask Tandem Repeat Region ================================================ acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Find is-nt database================================================ Query_seq: SMT_2109:SMT_2110|SMT_2109:SMT_2110:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1999190..1999302 113 acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2109:SMT_2110|SMT_2109:SMT_2110:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1999190..1999302 113 acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2109:SMT_2110|SMT_2109:SMT_2110:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1999190..1999302 113 acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Predict ORF larger than 30AA ================================================ acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca 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================================================ acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2109:SMT_2110|SMT_2109:SMT_2110:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1999190..1999302 113 acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: smit_SMT_2109_SMT_2110|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:POSITIVE|[1999190,1999302]|113 HSP 1 e-value: 4.0E-40 bit: 165.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca acggtttactgtacctgtaggagacggtgtatctggtttgttttctaccttnnnnnttaattaattaannnnntcgatgagcataaagcaaaagaggcagcattgatgcaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGGUUUACUGUACCUGUAGGAGACGGUGUAUCUGGUUUGUUUUCUACCUUNNNNNUUAAUUAAUUAANNNNNUCGAUGAGCAUAAAGCAAAAGAGGCAGCAUUGAUGCAACA ((((....))))....(((((((((((..........)))))))))))................................((((...((..........))....)))).... (-16.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUGCAUCAAUGCUGCCUCUUUUGCUUUAUGCUCAUCGANNNNNUUAAUUAAUUAANNNNNAAGGUAGAAAACAAACCAGAUACACCGUCUCCUACAGGUACAGUAAACCGU ..((((.......((((((.....((.....)).............(((....))).......))))))................(((..........)))...))))..... ( -9.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 919 50 1 141 92 smit:SMT_2109|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1999099..1999329_NEGATIVE 332 46 2 71 27 smit:SMT_1696|5end_hypothetical_protein_1678182..1678412_POSITIVE 325 49 2 89 41 smit:SMT_1800|5end_exonuclease_RexA_1773788..1774018_NEGATIVE 291 49 1 153 106 smit:SMT_1744|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1725288..1725518_NEGATIVE 264 36 9 30 4 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 261 46 2 126 85 smit:SMT_2088|5end_glucose-1-phosphate_thymidylyltransferase_1984624..1984854_POSITIVE 259 45 5 66 20 smit:SMT_1661|5end_K02986_small_subunit_ribosomal_protein_S4_1651110..1651340_NEGATIVE 259 46 1 77 26 smit:SMT_313|5end_3R-hydroxymyristoyl_ACP_dehydrase_253843..254073_POSITIVE 250 109 74 190 150 smit:SMT_2002|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1924405..1924635_NEGATIVE 250 109 74 229 189 smit:SMT_1966|5end_DNA_polymerase_III_alpha_subunit_1897934..1898164_POSITIVE 250 109 74 190 150 smit:SMT_1942|5end_zinc_metalloprotease_ZmpB,_truncated_1877882..1878112_POSITIVE 250 109 74 230 190 smit:SMT_1926|5end_mevalonate_kinase_1867692..1867922_POSITIVE 250 109 74 211 171 smit:SMT_1885|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1840057..1840287_NEGATIVE 246 42 1 228 184 smit:SMT_1072|5end_Cof_family_protein_1011193..1011423_NEGATIVE 245 39 14 215 187 smit:SMT_1643|5end_2-isopropylmalate_synthase_1629130..1629360_POSITIVE 245 44 14 231 204 smit:SMT_968|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_914015..914245_NEGATIVE 242 46 2 215 154 smit:SMT_2063|5end_hypothetical_protein_1971792..1972022_NEGATIVE 238 50 13 99 56 smit:SMT_1639|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_1625819..1626049_NEGATIVE 238 50 2 189 135 smit:SMT_1016|5end_alcohol_dehydrogenase,_zinc-containing_954094..954324_NEGATIVE 238 46 3 63 19 smit:SMT_693|5end_hypothetical_protein_603819..604049_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 22 1 151 130 smit:SMT_2109|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1999061..1999211_NEGATIVE 355 22 1 151 130 smit:SMT_1180|3end_putative_tagatose-6-phosphate_aldose/ketose_isomerase_1138036..1138186_NEGATIVE 332 46 2 108 64 smit:SMT_1695|3end_ribulose-phosphate_3-epimerase_1678299..1678449_POSITIVE 259 46 1 80 29 smit:SMT_312|3end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_253926..254076_POSITIVE 253 50 1 113 66 smit:SMT_705|3end_hypothetical_protein_614674..614824_NEGATIVE 233 49 12 53 3 smit:SMT_1581|3end_transcriptional_regulator,_biotin_repressor_family_1573120..1573270_NEGATIVE 233 37 8 128 102 smit:SMT_1264|3end_oligoendopeptidase_F_1230734..1230884_POSITIVE 230 47 2 149 97 smit:SMT_542|3end_hypothetical_protein_458400..458550_POSITIVE 223 49 1 115 47 smit:SMT_1590|3end_DNA-entry_nuclease_1578980..1579130_POSITIVE 221 50 2 101 43 smit:SMT_1631|3end_phosphopantothenoylcysteine_synthase/decarboxylase_1618204..1618354_NEGATIVE 221 46 15 100 75 smit:SMT_225|3end_pullulanase_159666..159816_NEGATIVE 220 36 1 117 73 smit:SMT_1483|3end_GTP-binding_protein_1463140..1463290_NEGATIVE 218 37 2 148 108 smit:SMT_1257|3end_acetolactate_synthase_small_subunit_1222697..1222847_NEGATIVE 218 50 2 75 22 smit:SMT_858|3end_triosephosphate_isomerase_802525..802675_NEGATIVE 218 51 13 56 10 smit:SMT_567|3end_conserved_hypothetical_protein_485752..485902_POSITIVE 214 110 80 69 35 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 213 36 2 150 112 smit:SMT_2052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1960662..1960812_NEGATIVE 212 50 1 69 19 smit:SMT_1954|3end_6-phospho-beta-glucosidase_1888831..1888981_POSITIVE 212 47 1 80 35 smit:SMT_1329|3end_GTP-binding_protein_CgtA_1304478..1304628_NEGATIVE 211 44 3 151 112 smit:SMT_2126|3end_indole-3-glycerol_phosphate_synthase_2009366..2009516_POSITIVE