Origin IGS: tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt .........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 aaaatggagtaacaaaagatgtaacaactccttatacagttttagattttctaggaaaacaagataaaactgtataaggagttgttnnnnnttaattaattaannnnntctctgttatccactgacatttctgtcaaagaactagaagcgataggtaatacttgattagctgattttttaaagtcgaaaga Mask Tandem Repeat Region ================================================ tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Find is-nt database================================================ Query_seq: SMT_2101:SMT_2102|SMT_2101:SMT_2102:K01421 putative membrane protein:hypothetical protein predicted by Glimmer/Critica:-><-:1993881..1994071 191 tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2101:SMT_2102|SMT_2101:SMT_2102:K01421 putative membrane protein:hypothetical protein predicted by Glimmer/Critica:-><-:1993881..1994071 191 tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2101:SMT_2102|SMT_2101:SMT_2102:K01421 putative membrane protein:hypothetical protein predicted by Glimmer/Critica:-><-:1993881..1994071 191 tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 96 End: 191 ............................................................................................... M X X X Q L L I Q F Y L V F L E N L K L Y K E L L H L L L L H F tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt 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================================================ tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2101:SMT_2102|SMT_2101:SMT_2102:K01421 putative membrane protein:hypothetical protein predicted by Glimmer/Critica:-><-:1993881..1994071 191 tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: smit_SMT_2101_SMT_2102|K01421 putative membrane protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:NEGATIVE|[1993881,1994071]|191 HSP 1 e-value: 2.0E-86 bit: 319.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt tctttcgactttaaaaaatcagctaatcaagtattacctatcgcttctagttctttgacagaaatgtcagtggataacagagannnnnttaattaattaannnnnaacaactccttatacagttttatcttgttttcctagaaaatctaaaactgtataaggagttgttacatcttttgttactccatttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUCGACUUUAAAAAAUCAGCUAAUCAAGUAUUACCUAUCGCUUCUAGUUCUUUGACAGAAAUGUCAGUGGAUAACAGAGANNNNNUUAAUUAAUUAANNNNNAACAACUCCUUAUACAGUUUUAUCUUGUUUUCCUAGAAAAUCUAAAACUGUAUAAGGAGUUGUUACAUCUUUUGUUACUCCAUUUU ....................(((((...((((..........)))).)))))...(((((....)))))((((((((((((((......................((((((((((((((((((((((....((((((...)))))).))))))))))))))))))))))...)).))))))).)))))... (-47.81) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUGGAGUAACAAAAGAUGUAACAACUCCUUAUACAGUUUUAGAUUUUCUAGGAAAACAAGAUAAAACUGUAUAAGGAGUUGUUNNNNNUUAAUUAAUUAANNNNNUCUCUGUUAUCCACUGACAUUUCUGUCAAAGAACUAGAAGCGAUAGGUAAUACUUGAUUAGCUGAUUUUUUAAAGUCGAAAGA ....((((.(((((..(((...((((((((((((((((((((((..(((((...))))).....))))))))))))))))))))))......................))).))))))))).(((((....)))))......((((((...(((.((((.....)))).)))..))))))...((....)) (-46.21) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 263 80 33 66 8 smit:SMT_2161|5end_DNA_mismatch_repair_protein_2034946..2035176_POSITIVE 250 174 132 70 17 smit:SMT_151|5end_K02073_D-methionine_transport_system_substrate-binding_protein_99474..99704_POSITIVE 243 74 37 191 158 smit:SMT_747|5end_transcriptional_regulator,_LytR_family_652653..652883_NEGATIVE 240 152 111 196 152 smit:SMT_1984|5end_phosphinothricin_N-acetyltransferase_1914028..1914258_NEGATIVE 240 152 111 196 152 smit:SMT_1869|5end_phosphinothricin_N-acetyltransferase_1829215..1829445_NEGATIVE 236 77 31 188 125 smit:SMT_1576|5end_ribose_ABC_transporter_protein_RbsD_1568950..1569180_POSITIVE 232 74 31 203 158 smit:SMT_1011|5end_xanthine_phosphoribosyltransferase_948831..949061_POSITIVE 223 78 38 194 159 smit:SMT_2020|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1937595..1937825_POSITIVE 223 78 38 194 159 smit:SMT_1317|5end_glycosyltransferase_1281921..1282151_POSITIVE 222 60 22 222 176 smit:SMT_614|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_524279..524509_POSITIVE 222 150 108 146 96 smit:SMT_260|5end_phage_transcriptional_repressor_199470..199700_POSITIVE 222 56 17 143 103 smit:SMT_115|5end_hypothetical_protein_65521..65751_POSITIVE 219 151 111 88 50 smit:SMT_218|5end_undecaprenyl_pyrophosphate_synthetase_150155..150385_POSITIVE 218 60 21 165 125 smit:SMT_1586|5end_K07177_PDZ_domain-containing_protein_1575714..1575944_POSITIVE 217 83 41 226 174 smit:SMT_1282|5end_hypothetical_protein_1245660..1245890_NEGATIVE 216 148 118 231 199 smit:SMT_1935|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1873194..1873424_POSITIVE 216 77 36 213 156 smit:SMT_740|5end_50S_ribosomal_protein_L10_644116..644346_NEGATIVE 215 71 38 67 40 smit:SMT_1066|5end_holo-(acyl_carrier_protein)_synthase_1005411..1005641_POSITIVE 214 61 21 145 107 smit:SMT_1444|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1427979..1428209_NEGATIVE 214 61 21 197 159 smit:SMT_1443|5end_23S_rRNA_m(5)U_1939_methyltransferase_1427927..1428157_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 238 74 38 138 99 smit:SMT_1404|3end_lipoate-protein_ligase_A_1382036..1382186_POSITIVE 232 74 31 53 8 smit:SMT_1010|3end_hypothetical_protein_948761..948911_POSITIVE 222 56 17 71 31 smit:SMT_114|3end_alpha-mannosidase_65529..65679_POSITIVE 220 167 121 127 81 smit:SMT_1934|3end_homoserine_dehydrogenase_1873150..1873300_POSITIVE 215 58 27 77 37 smit:SMT_1689|3end_PTS_enzyme,_maltose-and_glucose-specific,_factor_II_homologue_1673139..1673289_POSITIVE 215 71 38 28 1 smit:SMT_1065|3end_phospho-2-dehydro-3-deoxyheptonate_aldolase_1005452..1005602_POSITIVE 213 67 30 49 6 smit:SMT_2123|3end_hypothetical_protein_2008541..2008691_POSITIVE 213 180 133 142 101 smit:SMT_402|3end_two-component_response_regulator_YesN_331663..331813_POSITIVE 207 77 41 86 54 smit:SMT_594|3end_lysyl-tRNA_synthetase_510348..510498_NEGATIVE 206 68 39 131 105 smit:SMT_222|3end_beta-glucosidase_156430..156580_POSITIVE 204 68 37 52 18 smit:SMT_1920|3end_ABC_transporter,_ATP-binding_protein_1862736..1862886_NEGATIVE 202 72 38 30 1 smit:SMT_933|3end_ATP-dependent_RNA_helicase_885365..885515_NEGATIVE 201 70 22 140 76 smit:SMT_2094|3end_serine_protease_1989243..1989393_NEGATIVE 201 67 21 151 104 smit:SMT_657|3end_Kef-type_K+_transport_system,_predicted_NAD-binding_component_568427..568577_NEGATIVE 198 74 40 38 1 smit:SMT_2106|3end_unknown,_predicted_membrane_protein_(TMS5)_1997914..1998064_POSITIVE 197 168 121 130 83 smit:SMT_1295|3end_transcriptional_regulator_CtsR_1257368..1257518_POSITIVE 196 70 22 76 20 smit:SMT_560|3end_predicted_permease_479284..479434_POSITIVE 195 162 121 70 33 smit:SMT_1363|3end_50S_ribosomal_protein_L20_1343254..1343404_NEGATIVE 193 51 14 37 1 smit:SMT_719|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_625006..625156_NEGATIVE 193 82 41 122 84 smit:SMT_673|3end_K01926_AT-rich_DNA-binding_protein_581623..581773_POSITIVE