Origin IGS: taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc .........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 ggctgttcttttatttttttatctcacaaaggttatccactgaaaatcaaaaaaaagcttcannnnnttaattaattaannnnntgacgatctctttttctcataaaatcctcttatatgcatatttataactaattttataactatattataccaaaaaaataggagatttcaaaaattttttcttctttctttaaaattgtgataaaatagtagaaaagtccaaaaaggagctctta Mask Tandem Repeat Region ================================================ taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Find is-nt database================================================ Query_seq: SMT_1641:SMT_1642|SMT_1641:SMT_1642:arginyl-tRNA synthetase:K03497 chromosome partitioning protein, ParB family:<-<-:1628344..1628582 239 taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1641:SMT_1642|SMT_1641:SMT_1642:arginyl-tRNA synthetase:K03497 chromosome partitioning protein, ParB family:<-<-:1628344..1628582 239 taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1641:SMT_1642|SMT_1641:SMT_1642:arginyl-tRNA synthetase:K03497 chromosome partitioning protein, ParB family:<-<-:1628344..1628582 239 taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Predict ORF larger than 30AA ================================================ taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 63 End: 92 ..............................................................TTTTGAAATCTCCTATTTTTTTGGTATAAT................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1641:SMT_1642|SMT_1641:SMT_1642:arginyl-tRNA synthetase:K03497 chromosome partitioning protein, ParB family:<-<-:1628344..1628582 239 taagagctcctttttggacttttctactattttatcacaattttaaagaaagaagaaaaaatttttgaaatctcctatttttttggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagataaaaaaataaaagaacagcc Intra-Species Hit: Count: 1 Min: 85 Max: 219 Len: 135 Subject: smit_SMT_1641_SMT_1642|arginyl-tRNA synthetase:K03497 chromosome partitioning protein, ParB family|NEGATIVE:NEGATIVE|[1628344,1628582]|239 HSP 1 e-value: 1.0E-38 bit: 161.0 Len: 135 Query Start:85 Query End:219 Subject Strand: POSITIVE Subject Start: 85 Subject End: 219 ....................................................................................ggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcnnnnnnnngattttcagtggataacctttgtgagat.................... ....................................................................................ggtataatatagttataaaattagttataaatatgcatataagaggattttatgagaaaaagagatcgtcannnnnttaattaattaannnnntgaagcttttttttgattttcagtggataacctttgtgagat.................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUAUAAUAUAGUUAUAAAAUUAGUUAUAAAUAUGCAUAUAAGAGGAUUUUAUGAGAAAAAGAGAUCGUCANNNNNUUAAUUAAUUAANNNNNUGAAGCUUUUUUUUGAUUUUCAGUGGAUAACCUUUGUGAGAU .(((((.((((..((......))..))))..))))).....(((((..((((((((((((((((....(((.....((((....)))).....)))..))))))))).....))).))))...)))))....... (-16.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUCACAAAGGUUAUCCACUGAAAAUCAAAAAAAAGCUUCANNNNNUUAAUUAAUUAANNNNNUGACGAUCUCUUUUUCUCAUAAAAUCCUCUUAUAUGCAUAUUUAUAACUAAUUUUAUAACUAUAUUAUACC .......(((((..(((...((.....))..........(((.....((((....)))).....))).)))..)))))....(((((((....(((((........)))))...))))))).............. ( -5.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 641 50 1 225 176 smit:SMT_1641|5end_arginyl-tRNA_synthetase_1628253..1628483_NEGATIVE 188 130 101 157 121 smit:SMT_1979|5end_possible_cell_surface_protein_1911052..1911282_NEGATIVE 188 130 101 157 121 smit:SMT_1956|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1889710..1889940_NEGATIVE 182 70 39 92 61 smit:SMT_430|5end_hypothetical_protein_371830..372060_POSITIVE 176 122 95 183 154 smit:SMT_1702|5end_penicillin-binding_protein_2B_1684592..1684822_POSITIVE 176 71 34 47 18 smit:SMT_880|5end_beta-lactam_resistance_factor_828300..828530_NEGATIVE 164 128 103 200 174 smit:SMT_2020|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1937595..1937825_POSITIVE 164 63 42 231 207 smit:SMT_1341|5end_putative_cell_division_protein_1319115..1319345_NEGATIVE 164 128 103 200 174 smit:SMT_1317|5end_glycosyltransferase_1281921..1282151_POSITIVE 164 70 35 200 154 smit:SMT_947|5end_ferredoxin_896405..896635_POSITIVE 163 70 30 192 147 smit:SMT_902|5end_hypothetical_protein_851789..852019_NEGATIVE 163 124 94 161 131 smit:SMT_521|5end_K02005_HlyD_family_secretion_protein_445566..445796_POSITIVE 162 123 99 172 148 smit:SMT_1020|5end_transcriptional_regulator,_TetR_family_955755..955985_POSITIVE 162 70 45 82 55 smit:SMT_468|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_404710..404940_POSITIVE 160 127 96 85 53 smit:SMT_1794|5end_SOS_responce_UmuC_protein_1769074..1769304_NEGATIVE 160 123 97 214 189 smit:SMT_952|5end_hypothetical_protein_900912..901142_NEGATIVE 160 128 94 171 136 smit:SMT_133|5end_L-serine_dehydratase_beta_subunit_85237..85467_NEGATIVE 157 127 103 70 42 smit:SMT_2161|5end_DNA_mismatch_repair_protein_2034946..2035176_POSITIVE 157 130 98 88 51 smit:SMT_1752|5end_N-(5'-phosphoribosyl)-anthranilate_isomerase_1729772..1730002_POSITIVE 157 70 32 92 57 smit:SMT_496|5end_superoxide_dismutase,_manganese-dependent_430433..430663_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 130 94 65 28 smit:SMT_88|3end_K03497_chromosome_partitioning_protein,_ParB_family_19724..19874_POSITIVE 193 64 42 71 46 smit:SMT_1342|3end_protease_maturation_protein,_putative_1319276..1319426_NEGATIVE 192 70 22 55 10 smit:SMT_777|3end_hypothetical_protein_686618..686768_NEGATIVE 182 70 39 72 41 smit:SMT_429|3end_K06207_GTP-binding_protein_371890..372040_POSITIVE 176 71 34 42 13 smit:SMT_881|3end_peptidoglycan_branched_peptide_synthesis_protein,_alanine_adding_enzyme_828305..828455_NEGATIVE 166 119 97 116 95 smit:SMT_1703|3end_recombination_protein_RecR_1687336..1687486_POSITIVE 165 69 23 88 49 smit:SMT_2167|3end_hypothetical_protein_2040711..2040861_POSITIVE 165 69 23 88 49 smit:SMT_2162|3end_hypothetical_protein_2037508..2037658_POSITIVE 165 69 23 88 49 smit:SMT_2157|3end_hypothetical_protein_2031399..2031549_POSITIVE 165 69 23 88 49 smit:SMT_1706|3end_hypothetical_protein_1690810..1690960_POSITIVE 165 69 23 88 49 smit:SMT_1546|3end_hypothetical_protein_1530852..1531002_POSITIVE 164 128 99 51 23 smit:SMT_1628|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1616610..1616760_NEGATIVE 162 70 45 72 45 smit:SMT_467|3end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_404780..404930_POSITIVE 161 128 110 35 16 smit:SMT_914|3end_sucrose-6-phosphate_hydrolase_867673..867823_POSITIVE 159 64 28 73 45 smit:SMT_1847|3end_hypothetical_protein_1812697..1812847_POSITIVE 157 130 98 101 64 smit:SMT_1751|3end_indole-3-glycerol_phosphate_synthase_1729865..1730015_POSITIVE 155 117 98 120 98 smit:SMT_1525|3end_pneumococcal_histidine_triad_protein_A_precursor_1505873..1506023_NEGATIVE 154 119 94 135 115 smit:SMT_1101|3end_K03210_preprotein_translocase_YajC_subunit_1042614..1042764_NEGATIVE 154 67 25 142 96 smit:SMT_1052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_992554..992704_POSITIVE 152 69 35 69 26 smit:SMT_687|3end_carbamoyl-phosphate_synthase,_large_subunit_596088..596238_NEGATIVE