Origin IGS: nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgttctctgtcattgccgcttcaactgtctgcgttccagcagccattgcaagggctgcacccacatcagagcaactgtaccgattttgactgagtctgaacgaccgtctttaaactacggatggaaaawttttccttttattataacatccctagcatccnnnnn Mask Tandem Repeat Region ================================================ nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Find is-nt database================================================ Query_seq: SMT_2066:SMT_2067|SMT_2066:SMT_2067:K02074 zinc/manganese transport system ATP-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1973407..1973571 165 nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2066:SMT_2067|SMT_2066:SMT_2067:K02074 zinc/manganese transport system ATP-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1973407..1973571 165 nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2066:SMT_2067|SMT_2066:SMT_2067:K02074 zinc/manganese transport system ATP-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1973407..1973571 165 nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: - Start: 3 End: 137 .. X S A L S T I I F P F X K W G Y N L S P R E S E T L I P V T A R I H T C G K C H S S S R M ............................ nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca 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================================================ nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2066:SMT_2067|SMT_2066:SMT_2067:K02074 zinc/manganese transport system ATP-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1973407..1973571 165 nnnnnggatgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Intra-Species Hit: Count: 1 Min: 8 Max: 165 Len: 158 Subject: smit_SMT_2066_SMT_2067|K02074 zinc/manganese transport system ATP-binding protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:POSITIVE|[1973407,1973571]|165 HSP 1 e-value: 6.0E-84 bit: 311.0 Len: 158 Query Start:8 Query End:165 Subject Strand: POSITIVE Subject Start: 8 Subject End: 165 .......atgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca .......atgctagggatgttataataaaaggaaaawttttccatccgtagtttaaagacggtcgttcagactcagtcaaaatcggtacagttgctctgatgtgggtgcagcccttgcaatggctgctggaacgcagacagttgaagcggcaatgacagagaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGCUAGGGAUGUUAUAAUAAAAGGAAAAWUUUUCCAUCCGUAGUUUAAAGACGGUCGUUCAGACUCAGUCAAAAUCGGUACAGUUGCUCUGAUGUGGGUGCAGCCCUUGCAAUGGCUGCUGGAACGCAGACAGUUGAAGCGGCAAUGACAGAGAACA ..((((.(((((..(.................)..))))).)))).....(((((((.....))))..)))............(((.(((((.((((((.....)))..)))...((((((..(((.......)))..)))))).....)))))))). (-42.63) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUCUCUGUCAUUGCCGCUUCAACUGUCUGCGUUCCAGCAGCCAUUGCAAGGGCUGCACCCACAUCAGAGCAACUGUACCGAUUUUGACUGAGUCUGAACGACCGUCUUUAAACUACGGAUGGAAAAWUUUUCCUUUUAUUAUAACAUCCCUAGCAU .((((((((.......(((...........))).....((((((........))))))........))))).)))............(((.(.(((.....)))))))......(((.(((((.......................))))).)))... (-33.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 396 130 82 187 122 smit:SMT_1454|5end_cytidine_deaminase_1437886..1438116_NEGATIVE 381 149 103 228 175 smit:SMT_1457|5end_16S_rRNA_m(2)G_1207_methyltransferase_1440209..1440439_NEGATIVE 359 149 104 185 139 smit:SMT_1647|5end_3-isopropylmalate_dehydratase_small_subunit_1633403..1633633_POSITIVE 337 129 82 195 141 smit:SMT_538|5end_DNA-binding_response_regulator_CiaR_455337..455567_POSITIVE 333 107 76 143 103 smit:SMT_1981|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912261..1912491_POSITIVE 327 150 101 157 108 smit:SMT_2032|5end_hydrolase,_alpha/beta_fold_family_1946421..1946651_NEGATIVE 324 144 103 176 132 smit:SMT_568|5end_hypothetical_protein_485674..485904_POSITIVE 322 120 77 184 130 smit:SMT_1887|5end_LicC_protein_1841445..1841675_POSITIVE 315 123 84 192 153 smit:SMT_1970|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1902023..1902253_POSITIVE 312 144 104 142 75 smit:SMT_1915|5end_pyridoxine_biosynthesis_protein_1860329..1860559_POSITIVE 311 149 110 225 174 smit:SMT_600|5end_ADP-ribose_pyrophosphatase_516307..516537_POSITIVE 310 118 78 231 189 smit:SMT_1824|5end_hypothetical_protein_1796126..1796356_POSITIVE 310 130 82 175 133 smit:SMT_1815|5end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1790728..1790958_NEGATIVE 310 117 75 65 17 smit:SMT_1173|5end_CMP-N-acetylneuraminate-beta-galactosamide-alpha_-2,3-sialyltransferase_1125620..1125850_NEGATIVE 308 134 91 63 17 smit:SMT_2010|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1929514..1929744_POSITIVE 308 130 81 192 130 smit:SMT_1358|5end_dihydroorotate_dehydrogenase_B_1337192..1337422_NEGATIVE 308 149 103 211 163 smit:SMT_130|5end_capsular_polysaccharide_biosynthesis_protein_80995..81225_POSITIVE 307 128 85 224 178 smit:SMT_1072|5end_Cof_family_protein_1011193..1011423_NEGATIVE 305 145 102 76 25 smit:SMT_1184|5end_phosphotransferase_system,_mannose/fructose/N-acetylgalactosamine-specific_component_IIB_1142037..1142267_NEGATIVE 305 116 77 203 153 smit:SMT_936|5end_cobyric_acid_synthase_888669..888899_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 419 120 76 77 17 smit:SMT_1925|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867458..1867608_POSITIVE 372 120 76 85 25 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 343 125 84 135 84 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 337 129 82 146 92 smit:SMT_537|3end_oxidoreductase,_aldo/keto_reductase_family_455368..455518_POSITIVE 335 110 66 56 13 smit:SMT_1998|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1922640..1922790_POSITIVE 333 107 76 43 3 smit:SMT_2003|3end_serine_protease_1924693..1924843_NEGATIVE 333 130 85 149 109 smit:SMT_1646|3end_3-isopropylmalate_dehydratase_large_subunit_1633473..1633623_POSITIVE 315 127 85 150 96 smit:SMT_1448|3end_serine_hydroxymethyltransferase_1430703..1430853_NEGATIVE 310 117 75 68 20 smit:SMT_1174|3end_acylneuraminate_cytidylyltransferase_1125617..1125767_NEGATIVE 307 137 98 55 4 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 307 144 101 57 11 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 305 145 102 79 28 smit:SMT_1185|3end_beta-galactosidase_1142034..1142184_NEGATIVE 301 79 33 81 35 smit:SMT_197|3end_DNA-directed_RNA_polymerase,_alpha_subunit_128467..128617_POSITIVE 299 142 102 50 1 smit:SMT_930|3end_ATP-dependent_RNA_helicase_883389..883539_NEGATIVE 295 95 53 69 20 smit:SMT_1674|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1660361..1660511_NEGATIVE 295 105 68 35 5 smit:SMT_1562|3end_hypothetical_protein_1554819..1554969_NEGATIVE 294 143 101 36 5 smit:SMT_1970|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903032..1903182_POSITIVE 294 143 101 58 27 smit:SMT_1954|3end_6-phospho-beta-glucosidase_1888831..1888981_POSITIVE 293 148 102 57 8 smit:SMT_2011|3end_lysyl-tRNA_synthetase_1929759..1929909_NEGATIVE 289 117 74 72 26 smit:SMT_1915|3end_pyridoxine_biosynthesis_protein_1860618..1860768_POSITIVE