Origin IGS: gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ccaagcctgtgcttcagcatatttttcatagcgtttggcctacatcttattttcgctttccannnnnttaattaattaannnnngttaatccaggaaaccagatagcccacgttggccaggaaccgttgaaaac Mask Tandem Repeat Region ================================================ gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Find is-nt database================================================ Query_seq: SMT_2122:SMT_2123|SMT_2122:SMT_2123:cell surface protein precursor:hypothetical protein:<-->:2008207..2008340 134 gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2122:SMT_2123|SMT_2122:SMT_2123:cell surface protein precursor:hypothetical protein:<-->:2008207..2008340 134 gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2122:SMT_2123|SMT_2122:SMT_2123:cell surface protein precursor:hypothetical protein:<-->:2008207..2008340 134 gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Predict ORF larger than 30AA ================================================ gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg 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================================================ gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2122:SMT_2123|SMT_2122:SMT_2123:cell surface protein precursor:hypothetical protein:<-->:2008207..2008340 134 gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: smit_SMT_2122_SMT_2123|cell surface protein precursor:hypothetical protein|NEGATIVE:POSITIVE|[2008207,2008340]|134 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg gttttcaacggttcctggccaacgtgggctatctggtttcctggattaacnnnnnttaattaattaannnnntggaaagcgaaaataagatgtaggccaaacgctatgaaaaatatgctgaagcacaggcttgg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUCAACGGUUCCUGGCCAACGUGGGCUAUCUGGUUUCCUGGAUUAACNNNNNUUAAUUAAUUAANNNNNUGGAAAGCGAAAAUAAGAUGUAGGCCAAACGCUAUGAAAAAUAUGCUGAAGCACAGGCUUGG .((((((..(((...(((((.((((........((.(((((..((((((......))))))............))))).))........)))).)))))...))).))))))........((((....)))).. (-24.83) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAAGCCUGUGCUUCAGCAUAUUUUUCAUAGCGUUUGGCCUACAUCUUAUUUUCGCUUUCCANNNNNUUAAUUAAUUAANNNNNGUUAAUCCAGGAAACCAGAUAGCCCACGUUGGCCAGGAACCGUUGAAAAC .......(((((....))))).((((((..((((((((((.((.........((..(((((......(((((............)))))....)))))...))........)).)))))))...))))))))). (-21.83) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 969 50 1 141 92 smit:SMT_2122|5end_cell_surface_protein_precursor_2008116..2008346_NEGATIVE 363 41 2 144 107 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 320 48 8 221 173 smit:SMT_1749|5end_anthranilate_synthase_component_II_1727434..1727664_POSITIVE 308 45 8 65 17 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 292 44 9 75 46 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 291 47 3 132 91 smit:SMT_309|5end_acyl-carrier-protein_S-malonyltransferase_250406..250636_POSITIVE 285 46 9 227 191 smit:SMT_1824|5end_hypothetical_protein_1796126..1796356_POSITIVE 281 49 6 192 145 smit:SMT_1797|5end_threonine_dehydratase_1772684..1772914_NEGATIVE 278 44 1 198 147 smit:SMT_1193|5end_phosphoribosylglycinamide_formyltransferase_1152152..1152382_NEGATIVE 277 41 6 76 31 smit:SMT_420|5end_hypothetical_protein_predicted_by_Glimmer/Critica_362795..363025_POSITIVE 276 43 1 231 187 smit:SMT_2114|5end_x-prolyl-dipeptidyl_aminopeptidase_2001484..2001714_POSITIVE 276 49 3 64 16 smit:SMT_1374|5end_uridylate_kinase_1353020..1353250_NEGATIVE 273 44 4 179 131 smit:SMT_1158|5end_DNA_gyrase_subunit_B_1103957..1104187_NEGATIVE 271 48 1 230 176 smit:SMT_283|5end_capsular_polysaccharide_biosynthsis_protein_225390..225620_POSITIVE 270 47 10 124 94 smit:SMT_1437|5end_ADP-ribosylglycohydrolase_1422219..1422449_NEGATIVE 268 44 9 228 190 smit:SMT_1717|5end_DNA-3-methyladenine_glycosylase_I_1704274..1704504_NEGATIVE 268 44 3 230 183 smit:SMT_652|5end_transporter,_putative_563215..563445_NEGATIVE 266 47 8 40 4 smit:SMT_1957|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1890645..1890875_POSITIVE 265 49 16 63 34 smit:SMT_1305|5end_glycerol_kinase_1268217..1268447_POSITIVE 264 45 17 151 123 smit:SMT_2051|5end_enoyl-CoA_hydratase_1960639..1960869_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 595 31 1 151 121 smit:SMT_2068|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1974183..1974333_NEGATIVE 363 41 2 142 105 smit:SMT_1733|3end_DNA_repair_protein_RecN_1718636..1718786_POSITIVE 291 44 6 106 70 smit:SMT_1787|3end_phosphoribosylformylglycinamidine_synthase_1763668..1763818_NEGATIVE 291 47 3 139 98 smit:SMT_308|3end_trans-2-enoyl-ACP_reductase_II_250493..250643_POSITIVE 285 46 9 150 114 smit:SMT_1823|3end_GTP-binding_protein_1796129..1796279_POSITIVE 281 49 6 58 11 smit:SMT_1798|3end_exonuclease_RexA_1772818..1772968_NEGATIVE 278 47 14 81 38 smit:SMT_1605|3end_hypothetical_protein_1595737..1595887_POSITIVE 270 45 1 67 18 smit:SMT_1559|3end_6-phosphofructokinase_1544614..1544764_NEGATIVE 270 47 10 83 53 smit:SMT_1438|3end_hypothetical_protein_1422260..1422410_NEGATIVE 266 47 8 144 108 smit:SMT_1957|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1890829..1890979_POSITIVE 264 45 17 128 100 smit:SMT_2052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1960662..1960812_NEGATIVE 263 45 1 51 6 smit:SMT_852|3end_K03978_GTP-binding_protein_797457..797607_NEGATIVE 259 44 8 34 5 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 256 46 3 122 73 smit:SMT_1608|3end_hypothetical_protein_1598196..1598346_POSITIVE 256 50 17 90 46 smit:SMT_1455|3end_deoxyribose-phosphate_aldolase_1437873..1438023_NEGATIVE 256 43 10 65 31 smit:SMT_478|3end_hypothetical_protein_predicted_by_Glimmer/Critica_415257..415407_POSITIVE 255 37 1 78 39 smit:SMT_742|3end_hypothetical_protein_645784..645934_NEGATIVE 254 45 3 142 98 smit:SMT_1853|3end_1,4-alpha-glucan_branching_enzyme_1817687..1817837_NEGATIVE 254 50 16 76 36 smit:SMT_1273|3end_K02006_cobalt_transport_system_ATP-binding_protein_1237828..1237978_POSITIVE 253 45 12 149 107 smit:SMT_1725|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1711501..1711651_POSITIVE