Origin IGS: gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gataatcccatcctttacacctttactcttggcattacttacaccaaattacgtttagtttcacatttctatgctcgggcaccatactttaatcgannnnnttaattaattaannnnnggaaatgtacgatttttatttggggctctctatcttttcttgatcaactgtgtctttatc Mask Tandem Repeat Region ================================================ gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Find is-nt database================================================ Query_seq: SMT_2151:SMT_2152|SMT_2151:SMT_2152:hypothetical protein:cell division protein:<-->:2025611..2025788 178 gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_2151:SMT_2152|SMT_2151:SMT_2152:hypothetical protein:cell division protein:<-->:2025611..2025788 178 gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_2151:SMT_2152|SMT_2151:SMT_2152:hypothetical protein:cell division protein:<-->:2025611..2025788 178 gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 77 End: 169 ............................................................................ X X R N F Y P A R A Y F H S V L R L K T Y T I G L T F T Y L M ......... gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc 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================================================ gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_2151:SMT_2152|SMT_2151:SMT_2152:hypothetical protein:cell division protein:<-->:2025611..2025788 178 gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Intra-Species Hit: Count: 1 Min: 1 Max: 178 Len: 178 Subject: smit_SMT_2151_SMT_2152|hypothetical protein:cell division protein|NEGATIVE:POSITIVE|[2025611,2025788]|178 HSP 1 e-value: 1.0E-78 bit: 293.0 Len: 178 Query Start:1 Query End:178 Subject Strand: POSITIVE Subject Start: 1 Subject End: 178 gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc gataaagacacagttgatcaagaaaagatagagagccccaaataaaaatcgtacatttccnnnnnttaattaattaannnnntcgattaaagtatggtgcccgagcatagaaatgtgaaactaaacgtaatttggtgtaagtaatgccaagagtaaaggtgtaaaggatgggattatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAAGACACAGUUGAUCAAGAAAAGAUAGAGAGCCCCAAAUAAAAAUCGUACAUUUCCNNNNNUUAAUUAAUUAANNNNNUCGAUUAAAGUAUGGUGCCCGAGCAUAGAAAUGUGAAACUAAACGUAAUUUGGUGUAAGUAAUGCCAAGAGUAAAGGUGUAAAGGAUGGGAUUAUC (((...(((...))).))).......(((((....(((.........(((.((((((((..........((((((.........))))))......((((....)))).)))))))).............((((((((.....))))))))......))).........))).))))) (-23.87) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAUCCCAUCCUUUACACCUUUACUCUUGGCAUUACUUACACCAAAUUACGUUUAGUUUCACAUUUCUAUGCUCGGGCACCAUACUUUAAUCGANNNNNUUAAUUAAUUAANNNNNGGAAAUGUACGAUUUUUAUUUGGGGCUCUCUAUCUUUUCUUGAUCAACUGUGUCUUUAUC ..............................(((((........((((((.......((((..((((((((.(((....))).......(((((..(.....)..))))).........))))))))..))))...))))))........(((.......))).....)))))...... (-17.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 854 140 91 231 182 smit:SMT_2151|5end_hypothetical_protein_2025520..2025750_NEGATIVE 818 60 11 130 81 smit:SMT_2175|5end_hypothetical_protein_2045727..2045957_NEGATIVE 818 60 11 130 81 smit:SMT_2170|5end_hypothetical_protein_2042242..2042472_NEGATIVE 818 60 11 130 81 smit:SMT_2156|5end_hypothetical_protein_predicted_by_Glimmer/Critica_2030476..2030706_NEGATIVE 818 60 11 151 102 smit:SMT_2148|5end_hypothetical_protein_2023635..2023865_NEGATIVE 818 60 11 151 102 smit:SMT_2147|5end_hypothetical_protein_2022895..2023125_NEGATIVE 402 77 36 196 154 smit:SMT_2168|5end_threonyl-tRNA_synthetase_2040991..2041221_POSITIVE 402 77 36 113 71 smit:SMT_2150|5end_threonyl-tRNA_synthetase_2024673..2024903_POSITIVE 402 77 36 113 71 smit:SMT_2146|5end_threonyl-tRNA_synthetase_2022048..2022278_POSITIVE 261 41 9 52 17 smit:SMT_1487|5end_hypothetical_protein_1466361..1466591_POSITIVE 258 40 1 179 127 smit:SMT_1310|5end_D-alanine-activating_enzyme_1274237..1274467_POSITIVE 246 127 83 149 108 smit:SMT_580|5end_K04094_glucose_inhibited_division_protein_Gid_497421..497651_POSITIVE 239 139 93 145 96 smit:SMT_687|5end_carbamoyl-phosphate_synthase,_large_subunit_599264..599494_NEGATIVE 231 60 23 99 50 smit:SMT_879|5end_hypothetical_protein_826989..827219_NEGATIVE 229 59 19 89 38 smit:SMT_2053|5end_hypothetical_membrane_associated_protein_1964422..1964652_NEGATIVE 227 162 123 70 25 smit:SMT_1468|5end_pneumococcal_surface_protein,_putative_1450232..1450462_NEGATIVE 222 141 101 165 123 smit:SMT_1984|5end_phosphinothricin_N-acetyltransferase_1914028..1914258_NEGATIVE 222 141 101 165 123 smit:SMT_1869|5end_phosphinothricin_N-acetyltransferase_1829215..1829445_NEGATIVE 222 167 129 54 10 smit:SMT_274|5end_ABC_transporter_substrate-binding_protein_-_oligopeptide_transport_215221..215451_POSITIVE 222 108 83 223 200 smit:SMT_92|5end_GTP-binding_protein,_probable_translation_factor_22857..23087_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 818 60 11 84 35 smit:SMT_73|3end_peptidase,_M16_family_-84..66_NEGATIVE 402 77 36 94 52 smit:SMT_2149|3end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2024734..2024884_POSITIVE 261 41 9 55 20 smit:SMT_1486|3end_hypothetical_protein_1466444..1466594_POSITIVE 246 127 83 76 35 smit:SMT_579|3end_ribosomal_large_subunit_pseudouridine_synthase_D_497428..497578_POSITIVE 236 117 83 150 115 smit:SMT_91|3end_hypothetical_protein_22852..23002_POSITIVE 217 129 93 56 13 smit:SMT_258|3end_alpha-glucosidase,_family_31_of_glycosyl_hydrolase_197342..197492_POSITIVE 214 125 94 133 104 smit:SMT_1518|3end_sensor_histidine_kinase_1498500..1498650_NEGATIVE 212 170 121 144 91 smit:SMT_1648|3end_hypothetical_protein_1634883..1635033_POSITIVE 204 149 101 49 10 smit:SMT_609|3end_laminin-binding_surface_protein_521731..521881_POSITIVE 204 35 17 83 65 smit:SMT_393|3end_hypothetical_protein_predicted_by_Glimmer/Critica_324193..324343_POSITIVE 203 158 124 49 8 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 201 121 96 79 53 smit:SMT_1559|3end_6-phosphofructokinase_1544614..1544764_NEGATIVE 197 44 11 88 58 smit:SMT_1291|3end_hypothetical_protein_1254296..1254446_POSITIVE 194 127 83 54 6 smit:SMT_2010|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1929770..1929920_POSITIVE 194 122 85 84 44 smit:SMT_1112|3end_K02248_competence_protein_ComGF_1051387..1051537_NEGATIVE 191 136 91 136 96 smit:SMT_2115|3end_zinc_metalloprotease_ZmpB,_putative_2003202..2003352_POSITIVE 191 110 95 145 128 smit:SMT_1597|3end_K02032_peptide/nickel_transport_system_ATP-binding_protein_1587987..1588137_POSITIVE 191 120 92 69 34 smit:SMT_818|3end_cystathionine_gamma-synthase_728707..728857_NEGATIVE 190 108 84 125 104 smit:SMT_1883|3end_hypothetical_protein_1838034..1838184_NEGATIVE 190 123 90 137 104 smit:SMT_355|3end_hypothetical_protein_292313..292463_POSITIVE