Origin IGS: gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattcacctcaatctttggtattataccatattttcctaaaaatagtgagagaaacagggagaaatgtaagcgatttttatttcaaaagtgttacagggaacaagaaaatttcaggttttcgtgatataatagaagtctgtatatgaggaggtaaatc Mask Tandem Repeat Region ================================================ gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Find is-nt database================================================ Query_seq: SMT_74:SMT_75|SMT_74:SMT_75:hypothetical protein:hypothetical protein:<-->:2288..2445 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_74:SMT_75|SMT_74:SMT_75:hypothetical protein:hypothetical protein:<-->:2288..2445 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_74:SMT_75|SMT_74:SMT_75:hypothetical protein:hypothetical protein:<-->:2288..2445 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 37 End: 147 .................................... S F R F N E Q E R Y C K Q F L F R K C K E R N R E S N K P F Y P I I G F M ........... Protein_Len: 43 Strand: - Start: 15 End: 143 .............. I C V E I I D R F G S I K K N G T V S K F Y F D S V N R G T E R V I K L F I H Y L V M ............... gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt 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================================================ gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_74:SMT_75|SMT_74:SMT_75:hypothetical protein:hypothetical protein:<-->:2288..2445 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Intra-Species Hit: Count: 2 Min: 1 Max: 158 Len: 158 Subject: smit_SMT_1964_SMT_1965|sodium/hydrogen exchanger family protein:hypothetical protein|NEGATIVE:POSITIVE|[1896809,1897183]|375 HSP 1 e-value: 9.0E-85 bit: 313.0 Len: 158 Query Start:1 Query End:158 Subject Strand: NEGATIVE Subject Start: 218 Subject End: 375 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Subject: smit_SMT_74_SMT_75|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[2288,2445]|158 HSP 1 e-value: 9.0E-85 bit: 313.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Inter-species Hit: Count: 3 Min: 1 Max: 158 Len: 158 Subject: NC_008533_SPD_2052_SPD_2053|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[2029371,2029528]|158 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt gatttacctccttatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctcgctgtctctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Subject: NC_003098_spr2030_spr2031|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[2021871,2022028]|158 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt gatttacctccttatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctcgctgtctctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Subject: NC_003028_SP_2225_SP_2226|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[2144295,2144452]|158 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 gatttacctcctcatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctccctgtttctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt gatttacctccttatatacagacttctattatatcacgaaaacctgaaattttcttgttccctgtaacacttttgaaataaaaatcgcttacatttctcgctgtctctctcactatttttaggaaaatatggtataataccaaagattgaggtgaatt Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUACCUCCUCAUAUACAGACUUCUAUUAUAUCACGAAAACCUGAAAUUUUCUUGUUCCCUGUAACACUUUUGAAAUAAAAAUCGCUUACAUUUCUCCCUGUUUCUCUCACUAUUUUUAGGAAAAUAUGGUAUAAUACCAAAGAUUGAGGUGAAUU ((((((((((.((.......))....((((((((((......(((((((......((((......)))).....((((((.....................)))))).........)))))))......)))))))))).........)))))))))) (-24.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUCACCUCAAUCUUUGGUAUUAUACCAUAUUUUCCUAAAAAUAGUGAGAGAAACAGGGAGAAAUGUAAGCGAUUUUUAUUUCAAAAGUGUUACAGGGAACAAGAAAAUUUCAGGUUUUCGUGAUAUAAUAGAAGUCUGUAUAUGAGGAGGUAAAUC .....(((((..(((((((((...))))...((((((((....))).)))))......))))).(((((...((((((((((......(((((((.(..(((..((.....))..)))..))))))))))))))))))..)))))...)))))..... (-33.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 796 110 61 201 152 smit:SMT_1965|5end_hypothetical_protein_1897044..1897274_POSITIVE 796 110 61 201 152 smit:SMT_74|5end_hypothetical_protein_2197..2427_NEGATIVE 270 98 52 163 110 smit:SMT_494|5end_K04767_acetoin_utilization_protein_AcuB_428155..428385_POSITIVE 255 116 89 121 93 smit:SMT_1560|5end_DNA_polymerase_III_alpha_subunit_1548612..1548842_NEGATIVE 252 47 7 137 97 smit:SMT_919|5end_hypothetical_protein_872499..872729_NEGATIVE 248 123 88 124 92 smit:SMT_1734|5end_serine/threonine_protein_phosphatase_1718558..1718788_POSITIVE 243 98 54 76 19 smit:SMT_1409|5end_hypothetical_protein_1388514..1388744_NEGATIVE 242 132 93 129 92 smit:SMT_904|5end_hypothetical_protein_852698..852928_NEGATIVE 240 125 86 206 172 smit:SMT_215|5end_leucyl-tRNA_synthetase_147045..147275_POSITIVE 238 124 83 128 80 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 235 70 23 91 54 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 234 68 29 57 13 smit:SMT_1474|5end_K02003_1455170..1455400_POSITIVE 234 135 94 173 130 smit:SMT_735|5end_putative_transposase,_ISSmu1_640482..640712_POSITIVE 233 114 87 70 43 smit:SMT_1080|5end_CAAX_amino_terminal_protease_family_protein_1018490..1018720_NEGATIVE 232 97 51 94 62 smit:SMT_2150|5end_threonyl-tRNA_synthetase_2024673..2024903_POSITIVE 232 97 51 94 62 smit:SMT_2146|5end_threonyl-tRNA_synthetase_2022048..2022278_POSITIVE 230 60 11 144 87 smit:SMT_2066|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1973105..1973335_POSITIVE 230 109 62 227 187 smit:SMT_1680|5end_hypothetical_protein_1663494..1663724_POSITIVE 230 140 91 137 88 smit:SMT_1526|5end_K07720_two-component_system,_response_regulator_YesN_1510554..1510784_NEGATIVE 230 60 11 144 87 smit:SMT_1321|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1290674..1290904_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 47 7 48 8 smit:SMT_920|3end_serine/threonine_protein_kinase_872588..872738_NEGATIVE 248 123 88 122 90 smit:SMT_1733|3end_DNA_repair_protein_RecN_1718636..1718786_POSITIVE 247 63 24 60 14 smit:SMT_2087|3end_cadmium_efflux_system_accessory_protein_1984108..1984258_POSITIVE 247 63 24 60 14 smit:SMT_1234|3end_cadmium_efflux_system_accessory_protein_1195350..1195500_POSITIVE 243 98 54 58 1 smit:SMT_1410|3end_exonuclease_RexA_1388532..1388682_NEGATIVE 242 132 93 61 24 smit:SMT_905|3end_hypothetical_protein_predicted_by_Glimmer/Critica_852766..852916_NEGATIVE 240 125 84 51 12 smit:SMT_1791|3end_hypothetical_protein_1766433..1766583_POSITIVE 240 125 86 147 113 smit:SMT_214|3end_leucyl-tRNA_synthetase_147066..147216_POSITIVE 238 124 83 118 70 smit:SMT_946|3end_hypothetical_protein_895918..896068_NEGATIVE 232 97 51 75 43 smit:SMT_2149|3end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2024734..2024884_POSITIVE 230 60 11 144 87 smit:SMT_2065|3end_transcriptional_regulator,_MarR_family_1973185..1973335_POSITIVE 230 140 91 125 76 smit:SMT_1527|3end_two-component_sensor_kinase_1510566..1510716_NEGATIVE 230 60 11 144 87 smit:SMT_1320|3end_transcriptional_regulator,_MarR_family_1290754..1290904_POSITIVE 229 124 88 101 68 smit:SMT_1414|3end_hypothetical_protein_1397361..1397511_NEGATIVE 229 143 101 149 104 smit:SMT_591|3end_K02029_polar_amino_acid_transport_system_permease_protein_508829..508979_POSITIVE 226 121 83 78 36 smit:SMT_1181|3end_phosphotransferase_system,_mannose/fructose-specific_component_IIA_1139413..1139563_NEGATIVE 222 122 83 126 84 smit:SMT_896|3end_hypothetical_protein_843119..843269_NEGATIVE 221 107 63 111 64 smit:SMT_1723|3end_hypothetical_protein_1709724..1709874_POSITIVE 221 47 8 41 1 smit:SMT_1177|3end_immunoglobulin_A1_protease_1129193..1129343_NEGATIVE 219 48 9 41 1 smit:SMT_644|3end_O-acetylhomoserine_(thiol)-lyase_548591..548741_NEGATIVE