Origin IGS: taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga .........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 tcatgttaatagaattgaggagtatttttcgaaaaatcccttataattttagatttttcctagcagtaattctgcaaggaatagtttcgggtttatctggtatttttctccattatctattagagatggtggaggagctagcttttggtcagtcagagcatcatagtggatttttgacagatggagtttcctcttcacggataggactaagttta Mask Tandem Repeat Region ================================================ taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Find is-nt database================================================ Query_seq: SMT_1506:SMT_1507|SMT_1506:SMT_1507:Cl-channel, voltage-gated family protein:purine nucleoside phosphorylase:<-<-:1490077..1490291 215 taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1506:SMT_1507|SMT_1506:SMT_1507:Cl-channel, voltage-gated family protein:purine nucleoside phosphorylase:<-<-:1490077..1490291 215 taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1506:SMT_1507|SMT_1506:SMT_1507:Cl-channel, voltage-gated family protein:purine nucleoside phosphorylase:<-<-:1490077..1490291 215 taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 18 End: 164 ................. M K R K L H L S K I H Y D A L T D Q K L A P P P S L I D N G E K Y Q I N P K L F L A E L L L G K I ................................................... Protein_Len: 37 Strand: - Start: 53 End: 163 .................................................... S A R V S W F S A G G G D R I S L P S F Y W I F G F S N R A S N S S P F M .................................................... Protein_Len: 60 Strand: - Start: 1 End: 213 D T L F G S H H E S Q G F A L E E V M E L L Y H L F I G S L G S V I G Q L I V A L F F R F N Y P I K R F I S R L E I L M .. taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga 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================================================ taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 42 HP_score: -2.9 Tail_Score: -2.78049 Start: 78 End: 112 Full_Region: gggtttatctggtat ttttctccattatct attag agatggtggaggagc tagcttttggtcagt .............................................................................ttttctccattatctattagagatggtggaggagc....................................................................................................... TransTerm Strand: - Conf: 59 HP_score: -4.7 Tail_Score: -3.75418 Start: 132 End: 162 Full_Region: ccttataattttaga tttttcctagcag taatt ctgcaaggaatag tttcgggtttatctg ...................................................................................................................................tttttcctagcagtaattctgcaaggaatag..................................................... TransTerm Strand: - Conf: 70 HP_score: -8.6 Tail_Score: -2.96271 Start: 135 End: 159 Full_Region: tataattttagattt ttcctagcag taatt ctgcaaggaa tagtttcgggtttat ......................................................................................................................................ttcctagcagtaattctgcaaggaa........................................................ Find igs database================================================ Query_seq: SMT_1506:SMT_1507|SMT_1506:SMT_1507:Cl-channel, voltage-gated family protein:purine nucleoside phosphorylase:<-<-:1490077..1490291 215 taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Intra-Species Hit: Count: 1 Min: 1 Max: 215 Len: 215 Subject: smit_SMT_1506_SMT_1507|Cl-channel, voltage-gated family protein:purine nucleoside phosphorylase|NEGATIVE:NEGATIVE|[1490077,1490291]|215 HSP 1 e-value: 1.0E-118 bit: 426.0 Len: 215 Query Start:1 Query End:215 Subject Strand: POSITIVE Subject Start: 1 Subject End: 215 taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga taaacttagtcctatccgtgaagaggaaactccatctgtcaaaaatccactatgatgctctgactgaccaaaagctagctcctccaccatctctaatagataatggagaaaaataccagataaacccgaaactattccttgcagaattactgctaggaaaaatctaaaattataagggatttttcgaaaaatactcctcaattctattaacatga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUUAGUCCUAUCCGUGAAGAGGAAACUCCAUCUGUCAAAAAUCCACUAUGAUGCUCUGACUGACCAAAAGCUAGCUCCUCCACCAUCUCUAAUAGAUAAUGGAGAAAAAUACCAGAUAAACCCGAAACUAUUCCUUGCAGAAUUACUGCUAGGAAAAAUCUAAAAUUAUAAGGGAUUUUUCGAAAAAUACUCCUCAAUUCUAUUAACAUGA ................((((..(((....)))......((((((((((..((((((..((((..........((....)).(((((..((((.....))))..)))))........))))..............(((((.((((.....)))).))))).........))))))..)))))))).)).......................)))). (-43.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAUGUUAAUAGAAUUGAGGAGUAUUUUUCGAAAAAUCCCUUAUAAUUUUAGAUUUUUCCUAGCAGUAAUUCUGCAAGGAAUAGUUUCGGGUUUAUCUGGUAUUUUUCUCCAUUAUCUAUUAGAGAUGGUGGAGGAGCUAGCUUUUGGUCAGUCAGAGCAUCAUAGUGGAUUUUUGACAGAUGGAGUUUCCUCUUCACGGAUAGGACUAAGUUUA ....((((.((((..(((((.(.(((((....))))))))))).((((..(((((.(((((.((((.....)))).))))).)))))..))))..)))).....((((((((((((((.....)))))))))))))).)))).(((((((.(((((((.(((......))))))))))...(((((......))))).......))))))).... (-57.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 944 100 51 191 142 smit:SMT_1506|5end_Cl-channel,_voltage-gated_family_protein_1489986..1490216_NEGATIVE 303 86 45 230 184 smit:SMT_976|5end_hypothetical_protein_925183..925413_NEGATIVE 285 109 64 230 180 smit:SMT_355|5end_hypothetical_protein_291622..291852_POSITIVE 282 49 5 189 147 smit:SMT_817|5end_aminotransferase_728699..728929_NEGATIVE 281 79 32 229 182 smit:SMT_1500|5end_K03742_competence/damage-inducible_protein_CinA_N-terminal_domain_1483384..1483614_POSITIVE 277 151 116 77 37 smit:SMT_1644|5end_3-isopropylmalate_dehydrogenase_1630704..1630934_POSITIVE 275 110 62 67 15 smit:SMT_2162|5end_hypothetical_protein_2036931..2037161_POSITIVE 273 79 32 119 70 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 272 50 6 105 60 smit:SMT_1685|5end_phenylalanyl-tRNA_synthetase_alpha_chain_1668845..1669075_NEGATIVE 272 68 29 154 111 smit:SMT_1114|5end_competence_protein_1052555..1052785_NEGATIVE 271 89 45 74 17 smit:SMT_1380|5end_pyrroline-5-carboxylate_reductase_1358464..1358694_NEGATIVE 271 94 53 107 75 smit:SMT_338|5end_heat-inducible_transcription_repressor_HrcA_276825..277055_POSITIVE 270 88 47 53 4 smit:SMT_1481|5end_endopeptidase_O_1462229..1462459_POSITIVE 266 95 57 203 159 smit:SMT_1626|5end_undecaprenyl-diphosphatase_1616028..1616258_NEGATIVE 262 87 46 91 59 smit:SMT_1023|5end_hypothetical_protein_958884..959114_NEGATIVE 261 79 33 176 131 smit:SMT_168|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_113670..113900_POSITIVE 260 68 21 207 167 smit:SMT_1284|5end_predicted_amidophosphoribosyltransferase_1246962..1247192_POSITIVE 259 48 2 160 112 smit:SMT_1130|5end_MATE_efflux_family_protein_1065210..1065440_NEGATIVE 258 41 15 27 1 smit:SMT_155|5end_hypothetical_protein_102704..102934_NEGATIVE 256 94 51 95 51 smit:SMT_1311|5end_integral_membrane_protein_1275784..1276014_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 98 56 72 28 smit:SMT_1925|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867458..1867608_POSITIVE 338 98 56 80 36 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 316 98 56 47 3 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 277 151 116 65 25 smit:SMT_1643|3end_2-isopropylmalate_synthase_1630772..1630922_POSITIVE 273 79 32 135 86 smit:SMT_950|3end_UDP-glucose_4-epimerase_897677..897827_NEGATIVE 271 89 45 70 13 smit:SMT_1381|3end_gamma-glutamyl_phosphate_reductase_1358468..1358618_NEGATIVE 270 100 56 136 88 smit:SMT_137|3end_hypothetical_protein_88137..88287_NEGATIVE 266 95 57 142 98 smit:SMT_1627|3end_hypothetical_protein_1616089..1616239_NEGATIVE 261 89 42 62 19 smit:SMT_1667|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1657439..1657589_NEGATIVE 259 48 2 99 51 smit:SMT_1131|3end_threonine_synthase_1065271..1065421_NEGATIVE 256 94 51 98 54 smit:SMT_1310|3end_D-alanine-activating_enzyme_1275867..1276017_POSITIVE 254 82 56 44 14 smit:SMT_2003|3end_serine_protease_1924693..1924843_NEGATIVE 253 104 68 103 59 smit:SMT_805|3end_hypothetical_protein_predicted_by_Glimmer/Critica_715692..715842_NEGATIVE 252 120 79 147 106 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 252 89 44 60 8 smit:SMT_140|3end_NUDIX_family_hydrolase_91498..91648_POSITIVE 248 77 32 133 96 smit:SMT_1737|3end_peptidyl-prolyl_cis-trans_isomerase_1720598..1720748_POSITIVE 241 61 23 60 9 smit:SMT_1786|3end_phenylalanyl-tRNA_synthetase_beta_chain_1763235..1763385_NEGATIVE 241 92 51 128 70 smit:SMT_184|3end_30S_ribosomal_protein_S8_121891..122041_POSITIVE 240 154 117 69 35 smit:SMT_345|3end_K01990_ABC-2_type_transport_system_ATP-binding_protein_284803..284953_POSITIVE 238 38 5 134 100 smit:SMT_302|3end_K07444_putative_N6-adenine-specific_DNA_methylase_245319..245469_POSITIVE