Origin IGS: agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatatttagtttnnnnnttaattaattaannnnntgctggaagctttcagcacctgcgtctattattatgctgatggaacaaaagtaggtgctgttgaatatgttaataatccagct Mask Tandem Repeat Region ================================================ agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Find is-nt database================================================ Query_seq: SMT_1973:SMT_1974|SMT_1973:SMT_1974:hypothetical protein predicted by Glimmer/Critica:high-affinity zinc uptake system protein ZnuA precursor / hypothetical exported protein:<-->:1905529..1905645 117 agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1973:SMT_1974|SMT_1973:SMT_1974:hypothetical protein predicted by Glimmer/Critica:high-affinity zinc uptake system protein ZnuA precursor / hypothetical exported protein:<-->:1905529..1905645 117 agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1973:SMT_1974|SMT_1973:SMT_1974:hypothetical protein predicted by Glimmer/Critica:high-affinity zinc uptake system protein ZnuA precursor / hypothetical exported protein:<-->:1905529..1905645 117 agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 1 End: 93 A P N N V Y E V A G V K T G D A Y Y Y V C T S F A E L X X X M ........................ agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt 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================================================ agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1973:SMT_1974|SMT_1973:SMT_1974:hypothetical protein predicted by Glimmer/Critica:high-affinity zinc uptake system protein ZnuA precursor / hypothetical exported protein:<-->:1905529..1905645 117 agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Intra-Species Hit: Count: 1 Min: 1 Max: 117 Len: 117 Subject: smit_SMT_1973_SMT_1974|hypothetical protein predicted by Glimmer/Critica:high-affinity zinc uptake system protein ZnuA precursor / hypothetical exported protein|NEGATIVE:POSITIVE|[1905529,1905645]|117 HSP 1 e-value: 2.0E-42 bit: 172.0 Len: 117 Query Start:1 Query End:117 Subject Strand: POSITIVE Subject Start: 1 Subject End: 117 agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt agctggattattaacatattcaacagcacctacttttgttccatcagcataataatagacgcaggtgctgaaagcttccagcannnnnttaattaattaannnnnaaactaaatatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUGGAUUAUUAACAUAUUCAACAGCACCUACUUUUGUUCCAUCAGCAUAAUAAUAGACGCAGGUGCUGAAAGCUUCCAGCANNNNNUUAAUUAAUUAANNNNNAAACUAAAUAUU .((((((.(((....))).....((((((((.(.((((((.............)))))).).))))))))......))))))................................... (-23.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUUUAGUUUNNNNNUUAAUUAAUUAANNNNNUGCUGGAAGCUUUCAGCACCUGCGUCUAUUAUUAUGCUGAUGGAACAAAAGUAGGUGCUGUUGAAUAUGUUAAUAAUCCAGCU ..((.((((((........)))))).)).......((((((......((((((((((.(((((((......)))))))......)))))))))).....(((....))).)))))). (-32.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 923 70 21 161 112 smit:SMT_1973|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1905438..1905668_NEGATIVE 341 83 41 204 165 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 308 83 58 204 169 smit:SMT_543|5end_topoisomerase_IV_subunit_B_458372..458602_POSITIVE 303 100 57 166 123 smit:SMT_1742|5end_sodium-dependent_phosphate_transporter_1723553..1723783_POSITIVE 292 82 44 222 178 smit:SMT_2127|5end_exodeoxyribonuclease_V_alpha_chain_2009306..2009536_POSITIVE 284 100 57 108 54 smit:SMT_1817|5end_exonuclease_RexB_1792113..1792343_NEGATIVE 278 70 21 115 67 smit:SMT_223|5end_D-fructose-6-phosphate_amidotransferase_156543..156773_POSITIVE 275 83 41 65 15 smit:SMT_297|5end_ABC_transporter_substrate-binding_protein_-_oligopeptide_transport_238547..238777_POSITIVE 272 83 59 90 62 smit:SMT_1942|5end_zinc_metalloprotease_ZmpB,_truncated_1877882..1878112_POSITIVE 266 100 52 196 150 smit:SMT_2032|5end_hydrolase,_alpha/beta_fold_family_1946421..1946651_NEGATIVE 265 82 41 72 33 smit:SMT_912|5end_fructokinase_863620..863850_NEGATIVE 259 80 37 144 91 smit:SMT_109|5end_beta-galactosidase_53925..54155_POSITIVE 258 80 41 54 22 smit:SMT_1115|5end_K02245_competence_protein_ComGC_1052796..1053026_NEGATIVE 250 100 64 153 111 smit:SMT_1909|5end_zinc_metalloprotease_ZmpB,_truncated_1856749..1856979_NEGATIVE 249 100 60 159 110 smit:SMT_1850|5end_K01421_putative_membrane_protein_1815062..1815292_POSITIVE 249 46 7 150 106 smit:SMT_628|5end_glucose-1-phosphate_adenylyltransferase,_GlgD_subunit_532831..533061_POSITIVE 248 100 68 127 94 smit:SMT_1677|5end_transcription-repair_coupling_factor_1662112..1662342_NEGATIVE 247 78 32 201 147 smit:SMT_1202|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164097..1164327_NEGATIVE 245 48 16 225 196 smit:SMT_1285|5end_ribosomal_subunit_interface_protein_1247704..1247934_POSITIVE 242 76 36 211 169 smit:SMT_1137|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_1079267..1079497_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 100 55 94 47 smit:SMT_2008|3end_K07485_transposase_1928165..1928315_NEGATIVE 291 82 58 151 117 smit:SMT_542|3end_hypothetical_protein_458400..458550_POSITIVE 262 80 33 142 96 smit:SMT_1470|3end_K06188_aquaporin_Z_1453266..1453416_POSITIVE 258 80 41 52 20 smit:SMT_1116|3end_K02244_competence_protein_ComGB_1052798..1052948_NEGATIVE 256 82 60 26 3 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 247 78 32 77 23 smit:SMT_1203|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1164221..1164371_NEGATIVE 245 48 16 145 116 smit:SMT_1284|3end_predicted_amidophosphoribosyltransferase_1247704..1247854_POSITIVE 227 100 66 98 60 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 226 100 69 98 67 smit:SMT_1707|3end_cell_division_protein_FtsA_1691846..1691996_POSITIVE 223 83 64 65 44 smit:SMT_302|3end_K07444_putative_N6-adenine-specific_DNA_methylase_245319..245469_POSITIVE 220 68 30 134 98 smit:SMT_507|3end_hypothetical_protein_437638..437788_NEGATIVE 220 68 30 134 98 smit:SMT_504|3end_hypothetical_protein_436207..436357_NEGATIVE 219 83 41 73 33 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 218 79 43 82 43 smit:SMT_1524|3end_peptidase_T_1505867..1506017_POSITIVE 217 100 60 58 27 smit:SMT_2005|3end_pullulanase,_type_I_1925615..1925765_NEGATIVE 215 81 41 58 19 smit:SMT_1610|3end_tyrosine_recombinase_1599385..1599535_POSITIVE 214 81 41 85 57 smit:SMT_1897|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1848766..1848916_NEGATIVE 213 77 56 41 14 smit:SMT_1489|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1470714..1470864_POSITIVE 213 80 38 37 3 smit:SMT_990|3end_hypothetical_protein_933558..933708_NEGATIVE 213 48 24 64 40 smit:SMT_280|3end_polysaccharide_biosynthesis_protein/putative_rhamnosyl_transferase_223628..223778_POSITIVE