Origin IGS: tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcgaaaaggtgtttggtttcccaagcaccttttacctcgtccttgatacagagtaagaaccacataaaaactagaactgactgccagttctagtttttatgtattctgaggta Mask Tandem Repeat Region ================================================ tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Find is-nt database================================================ Query_seq: SMT_316:SMT_317|SMT_316:SMT_317:acetyl-CoA carboxylase carboxyl transferase subunit alpha:K03625 N utilization substance protein B:-><-:257452..257564 113 tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_316:SMT_317|SMT_316:SMT_317:acetyl-CoA carboxylase carboxyl transferase subunit alpha:K03625 N utilization substance protein B:-><-:257452..257564 113 tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_316:SMT_317|SMT_316:SMT_317:acetyl-CoA carboxylase carboxyl transferase subunit alpha:K03625 N utilization substance protein B:-><-:257452..257564 113 tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Predict ORF larger than 30AA ================================================ tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga 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================================================ tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 93 HP_score: -10.7 Tail_Score: -5.12474 Start: 21 End: 43 Full_Region: agaaccacataaaaa ctagaactg actgc cagttctag tttttatgtattctg ....................ctagaactgactgccagttctag...................................................................... Find igs database================================================ Query_seq: SMT_316:SMT_317|SMT_316:SMT_317:acetyl-CoA carboxylase carboxyl transferase subunit alpha:K03625 N utilization substance protein B:-><-:257452..257564 113 tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: smit_SMT_316_SMT_317|acetyl-CoA carboxylase carboxyl transferase subunit alpha:K03625 N utilization substance protein B|POSITIVE:NEGATIVE|[257452,257564]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga tacctcagaatacataaaaactagaactggcagtcagttctagtttttatgtggttcttactctgtatcaaggacgaggtaaaaggtgcttgggaaaccaaacaccttttcga HSP 2 e-value: 6.0E-8 bit: 58.0 Len: 41 Query Start:12 Query End:52 Subject Strand: NEGATIVE Subject Start: 12 Subject End: 52 ...........acataaaaactagaactggcagtcagttctagtttttatgt............................................................. ...........acataaaaactagaactgactgccagttctagtttttatgt............................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACCUCAGAAUACAUAAAAACUAGAACUGGCAGUCAGUUCUAGUUUUUAUGUGGUUCUUACUCUGUAUCAAGGACGAGGUAAAAGGUGCUUGGGAAACCAAACACCUUUUCGA ((((((.((((((((((((((((((((((.....)))))))))))))))))).))))....(((......)))..))))))(((((((.((((....)))).))))))).... (-50.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGAAAAGGUGUUUGGUUUCCCAAGCACCUUUUACCUCGUCCUUGAUACAGAGUAAGAACCACAUAAAAACUAGAACUGACUGCCAGUUCUAGUUUUUAUGUAUUCUGAGGUA ...(((((((((((((....)))))))))))))(((((...(((......)))..((((..((((((((((((((((((.....)))))))))))))))))).))))))))). (-49.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 353 95 51 125 78 smit:SMT_146|5end_sugar_transport_system_permease_protein_96664..96894_POSITIVE 321 75 34 89 48 smit:SMT_104|5end_DNA_repair_protein_49623..49853_POSITIVE 300 73 33 111 75 smit:SMT_2035|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1947167..1947397_POSITIVE 297 110 67 106 63 smit:SMT_127|5end_transcriptional_regulator,_PadR_family_78563..78793_NEGATIVE 295 104 61 44 2 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 291 94 52 229 181 smit:SMT_1470|5end_K06188_aquaporin_Z_1452560..1452790_POSITIVE 279 109 61 195 141 smit:SMT_1794|5end_SOS_responce_UmuC_protein_1769074..1769304_NEGATIVE 279 109 61 223 169 smit:SMT_1066|5end_holo-(acyl_carrier_protein)_synthase_1005411..1005641_POSITIVE 257 93 59 35 3 smit:SMT_358|5end_hypothetical_protein_293947..294177_POSITIVE 253 93 53 226 169 smit:SMT_1076|5end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_/_dihydroneopterin_aldolase_1014813..1015043_NEGATIVE 246 100 52 200 150 smit:SMT_1087|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1024165..1024395_NEGATIVE 244 70 28 173 125 smit:SMT_1492|5end_DNA-directed_RNA_polymerase_beta_chain_1472093..1472323_POSITIVE 241 94 51 112 73 smit:SMT_226|5end_putative_L-glutamine-D-fructose-6-phosphate_amidotransferase_163630..163860_POSITIVE 240 68 22 110 58 smit:SMT_1708|5end_magnesium-translocating_P-type_ATPase_1694553..1694783_NEGATIVE 237 93 51 226 176 smit:SMT_1188|5end_hypothetical_protein_1146653..1146883_NEGATIVE 235 68 22 110 58 smit:SMT_1710|5end_magnesium-translocating_P-type_ATPase_1696030..1696260_NEGATIVE 235 109 64 187 146 smit:SMT_1397|5end_mutator_MutT_protein_1372727..1372957_POSITIVE 235 100 51 48 3 smit:SMT_1277|5end_PcsB_protein_1240000..1240230_POSITIVE 235 64 26 166 124 smit:SMT_896|5end_hypothetical_protein_844003..844233_NEGATIVE 235 66 22 110 54 smit:SMT_126|5end_hypothetical_membrane_associated_protein_78250..78480_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 497 50 7 77 33 smit:SMT_316|3end_acetyl-CoA_carboxylase_carboxyl_transferase_subunit_alpha_257391..257541_POSITIVE 300 73 33 121 85 smit:SMT_2034|3end_hydrolase,_haloacid_dehalogenase-like_family_1947257..1947407_POSITIVE 300 103 62 76 24 smit:SMT_911|3end_hypothetical_protein_862720..862870_POSITIVE 293 95 51 119 62 smit:SMT_183|3end_30S_ribosomal_protein_S14_121279..121429_POSITIVE 279 109 61 84 30 smit:SMT_1795|3end_DNA_polymerase_III,_delta_subunit_1769185..1769335_NEGATIVE 246 70 21 139 85 smit:SMT_1917|3end_ATP-dependent_nuclease_subunit_B_1861268..1861418_NEGATIVE 235 66 22 123 67 smit:SMT_127|3end_transcriptional_regulator,_PadR_family_78237..78387_NEGATIVE 233 38 2 135 96 smit:SMT_958|3end_hypothetical_protein_predicted_by_Glimmer/Critica_905239..905389_POSITIVE 232 88 45 120 76 smit:SMT_599|3end_glucosamine-1-phosphate_N-acetyltransferase_/_UDP-N-acetylglucosamine_pyrophosphorylase_516377..516527_POSITIVE 231 92 69 49 26 smit:SMT_864|3end_K07485_transposase_814971..815121_POSITIVE 228 60 23 83 40 smit:SMT_418|3end_putative_transcriptional_regulator_361232..361382_NEGATIVE 225 100 52 133 92 smit:SMT_2047|3end_choline_binding_protein_F_1957597..1957747_NEGATIVE 225 110 65 87 42 smit:SMT_206|3end_K07720_two-component_system,_response_regulator_YesN_137467..137617_NEGATIVE 222 95 51 140 83 smit:SMT_334|3end_K03713_MerR_family_transcriptional_regulator,_glutamine_synthetase_repressor_273796..273946_POSITIVE 218 69 21 102 55 smit:SMT_1104|3end_K06346_spoIIIJ-associated_protein_1045795..1045945_NEGATIVE 217 110 61 48 3 smit:SMT_750|3end_3-phosphoshikimate_1-carboxyvinyltransferase_653964..654114_NEGATIVE 216 65 28 136 104 smit:SMT_1975|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1906952..1907102_POSITIVE 215 69 21 71 15 smit:SMT_541|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_457120..457270_NEGATIVE 215 95 55 143 112 smit:SMT_305|3end_seryl-tRNA_synthetase_247577..247727_NEGATIVE 214 109 62 88 53 smit:SMT_1353|3end_GTP-binding_protein_1330690..1330840_NEGATIVE