Origin IGS: acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 annnnnttaattaattaannnnntatcccgaataaaggtctgtcatatgctaatgtaaattattaccgtcagtgctggtcaatgttccttgaaagcattagtacataagattttcctgctggttacgt Mask Tandem Repeat Region ================================================ acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Find is-nt database================================================ Query_seq: SMT_2115:SMT_2116|SMT_2115:SMT_2116:zinc metalloprotease ZmpB, putative:extramembranal protein:->->:2003263..2003390 128 acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2115:SMT_2116|SMT_2115:SMT_2116:zinc metalloprotease ZmpB, putative:extramembranal protein:->->:2003263..2003390 128 acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2115:SMT_2116|SMT_2115:SMT_2116:zinc metalloprotease ZmpB, putative:extramembranal protein:->->:2003263..2003390 128 acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Predict ORF larger than 30AA ================================================ acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt 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================================================ acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2115:SMT_2116|SMT_2115:SMT_2116:zinc metalloprotease ZmpB, putative:extramembranal protein:->->:2003263..2003390 128 acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaannnnnt Intra-Species Hit: Count: 1 Min: 1 Max: 122 Len: 122 Subject: smit_SMT_2115_SMT_2116|zinc metalloprotease ZmpB, putative:extramembranal protein|POSITIVE:POSITIVE|[2003263,2003390]|128 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaa...... acgtaaccagcaggaaaatcttatgtactaatgctttcaaggaacattgaccagcactgacggtaataatttacattagcatatgacagacctttattcgggatannnnnttaattaattaa...... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGUAACCAGCAGGAAAAUCUUAUGUACUAAUGCUUUCAAGGAACAUUGACCAGCACUGACGGUAAUAAUUUACAUUAGCAUAUGACAGACCUUUAUUCGGGAUANNNNNUUAAUUAAUUAA ......((...(((....((.(((((.....((((.((((......))))..))))......((((....))))....))))).))....))).......)).................... (-14.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNUAUCCCGAAUAAAGGUCUGUCAUAUGCUAAUGUAAAUUAUUACCGUCAGUGCUGGUCAAUGUUCCUUGAAAGCAUUAGUACAUAAGAUUUUCCUGCUGGUUACGU ......................(((((..(((...(((.((((.....((((....))))....((((((..((((......)))).))))))....)))).)))...)))....))).)). (-18.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 68 24 66 22 smit:SMT_774|5end_hypothetical_protein_685231..685461_NEGATIVE 270 96 57 163 125 smit:SMT_519|5end_glutathione_reductase_444884..445114_NEGATIVE 263 49 6 81 36 smit:SMT_1876|5end_transcriptional_regulator,_MarR_family_1833594..1833824_POSITIVE 262 63 33 31 1 smit:SMT_754|5end_3-dehydroquinate_synthase_659044..659274_NEGATIVE 253 47 2 54 2 smit:SMT_1027|5end_K02026_multiple_sugar_transport_system_permease_protein_963474..963704_NEGATIVE 249 86 47 95 56 smit:SMT_1268|5end_acetoin_reductase_1233419..1233649_NEGATIVE 247 81 51 38 9 smit:SMT_1974|5end_high-affinity_zinc_uptake_system_protein_ZnuA_precursor_/_hypothetical_exported_protein_1905506..1905736_POSITIVE 239 89 41 208 145 smit:SMT_317|5end_K03625_N_utilization_substance_protein_B_257900..258130_NEGATIVE 238 65 21 205 170 smit:SMT_1786|5end_phenylalanyl-tRNA_synthetase_beta_chain_1763540..1763770_NEGATIVE 234 42 1 114 65 smit:SMT_148|5end_glycoprotein_endopeptidase_98033..98263_POSITIVE 232 98 51 121 75 smit:SMT_1965|5end_hypothetical_protein_1897044..1897274_POSITIVE 232 98 51 121 75 smit:SMT_74|5end_hypothetical_protein_2197..2427_NEGATIVE 229 97 51 150 88 smit:SMT_2074|5end_dTDP-glucose_4,6-dehydratase_1977021..1977251_POSITIVE 228 68 33 71 39 smit:SMT_1375|5end_putative_glucose-inhibited_division_protein_1354438..1354668_NEGATIVE 227 47 2 123 79 smit:SMT_607|5end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_520119..520349_POSITIVE 226 49 1 195 152 smit:SMT_303|5end_hypothetical_protein_245364..245594_POSITIVE 225 84 51 167 128 smit:SMT_679|5end_LicC_protein_589072..589302_NEGATIVE 219 42 5 231 193 smit:SMT_728|5end_hypothetical_protein_634348..634578_NEGATIVE 218 88 41 58 14 smit:SMT_2162|5end_hypothetical_protein_2036931..2037161_POSITIVE 218 64 33 55 12 smit:SMT_641|5end_PTS_system,_lactose-specific_IIA_component_547107..547337_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 68 24 56 12 smit:SMT_775|3end_alpha-acetolactate_decarboxylase_685241..685391_NEGATIVE 268 56 11 128 83 smit:SMT_1599|3end_putative_transcriptional_regulator_1589367..1589517_NEGATIVE 247 65 23 50 9 smit:SMT_1951|3end_ABC_transporter,_ATP-binding_protein_1885141..1885291_NEGATIVE 238 65 21 77 42 smit:SMT_1787|3end_phosphoribosylformylglycinamidine_synthase_1763668..1763818_NEGATIVE 229 97 51 123 61 smit:SMT_2073|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1977074..1977224_POSITIVE 228 99 52 53 5 smit:SMT_2123|3end_hypothetical_protein_2008541..2008691_POSITIVE 227 47 2 71 27 smit:SMT_606|3end_cytochrome_c-type_biogenesis_protein_CcdA_520147..520297_POSITIVE 226 49 1 70 27 smit:SMT_302|3end_K07444_putative_N6-adenine-specific_DNA_methylase_245319..245469_POSITIVE 212 64 32 64 38 smit:SMT_1959|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1892967..1893117_POSITIVE 212 64 32 64 38 smit:SMT_286|3end_polysaccharide_transporter,_PST_family_230150..230300_POSITIVE 209 65 21 148 101 smit:SMT_1538|3end_two-component_response_regulator_YvqC_1522669..1522819_NEGATIVE 208 62 42 57 34 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 200 68 30 151 124 smit:SMT_1585|3end_phosphopantetheine_adenylyltransferase_1575810..1575960_POSITIVE 199 61 21 140 101 smit:SMT_1298|3end_K03811_nicotinamide_mononucleotide_transporter_1261797..1261947_POSITIVE 199 62 26 142 97 smit:SMT_870|3end_hypothetical_protein_817700..817850_NEGATIVE 199 66 38 47 10 smit:SMT_456|3end_pyruvate_oxidase_396091..396241_POSITIVE 198 42 9 96 70 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 196 99 51 103 62 smit:SMT_2014|3end_tryptophan_synthase_beta_chain_1932727..1932877_POSITIVE 195 54 11 59 20 smit:SMT_892|3end_K02023_multiple_sugar_transport_system_ATP-binding_protein_839199..839349_NEGATIVE 195 50 8 125 68 smit:SMT_121|3end_hypothetical_protein_74414..74564_POSITIVE