Origin IGS: tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc .........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 gaggcatataccaattagaattcggaatactatagtatcagccttttagaatcgtgaacacattttagaaactgataaataaatttagtttcctaccaaaaaccctaccaaaaattaatttggcagggtttttctttttaataaaattattttggagaacagttgaatattgttctcctttaacatagttcagaattattttgtgcactattaaaagcctccaattataaa Mask Tandem Repeat Region ================================================ tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Find is-nt database================================================ Query_seq: SMT_738:SMT_739|SMT_738:SMT_739:hypothetical protein predicted by Glimmer/Critica:50S ribosomal protein L7/L12:<-<-:643133..643363 231 tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_738:SMT_739|SMT_738:SMT_739:hypothetical protein predicted by Glimmer/Critica:50S ribosomal protein L7/L12:<-<-:643133..643363 231 tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_738:SMT_739|SMT_738:SMT_739:hypothetical protein predicted by Glimmer/Critica:50S ribosomal protein L7/L12:<-<-:643133..643363 231 tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 21 End: 164 .................... M V H K I I L N Y V K G E Q Y S T V L Q N N F I K K K N P A K L I F G R V F G R K L N L F I S F ................................................................... Protein_Len: 38 Strand: - Start: 47 End: 160 .............................................. T L P S C Y E V T R W F L K I L F F F G A L N I K P L T K P L F S F K N I M ....................................................................... tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc 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================================================ tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 82 HP_score: -9.4 Tail_Score: -3.63895 Start: 54 End: 78 Full_Region: taataaaattatttt ggagaacagt tgaat attgttctcc tttaacatagttcag .....................................................ggagaacagttgaatattgttctcc......................................................................................................................................................... TransTerm Strand: + Conf: 95 HP_score: -9.8 Tail_Score: -4.72272 Start: 104 End: 129 Full_Region: TATTAAAAAGAAAAA CCCTGCCAAA TTAATT TTTGGTAGGG TTTTTGGTAGGAAAC .......................................................................................................CCCTGCCAAATTAATTTTTGGTAGGG...................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -7.6 Tail_Score: -5.65496 Start: 104 End: 129 Full_Region: gtttcctaccaaaaa ccctaccaaa aattaa tttggcaggg tttttctttttaata .......................................................................................................ccctaccaaaaattaatttggcaggg...................................................................................................... Find igs database================================================ Query_seq: SMT_738:SMT_739|SMT_738:SMT_739:hypothetical protein predicted by Glimmer/Critica:50S ribosomal protein L7/L12:<-<-:643133..643363 231 tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Intra-Species Hit: Count: 1 Min: 1 Max: 231 Len: 231 Subject: smit_SMT_738_SMT_739|hypothetical protein predicted by Glimmer/Critica:50S ribosomal protein L7/L12|NEGATIVE:NEGATIVE|[643133,643363]|231 HSP 1 e-value: 1.0E-128 bit: 458.0 Len: 231 Query Start:1 Query End:231 Subject Strand: POSITIVE Subject Start: 1 Subject End: 231 tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc tttataattggaggcttttaatagtgcacaaaataattctgaactatgttaaaggagaacaatattcaactgttctccaaaataattttattaaaaagaaaaaccctgccaaattaatttttggtagggtttttggtaggaaactaaatttatttatcagtttctaaaatgtgttcacgattctaaaaggctgatactatagtattccgaattctaattggtatatgcctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUAAUUGGAGGCUUUUAAUAGUGCACAAAAUAAUUCUGAACUAUGUUAAAGGAGAACAAUAUUCAACUGUUCUCCAAAAUAAUUUUAUUAAAAAGAAAAACCCUGCCAAAUUAAUUUUUGGUAGGGUUUUUGGUAGGAAACUAAAUUUAUUUAUCAGUUUCUAAAAUGUGUUCACGAUUCUAAAAGGCUGAUACUAUAGUAUUCCGAAUUCUAAUUGGUAUAUGCCUC ..........(((((........(.(((((........((((...........((((((((.........)))))))).((((((.............(((((((((((((((......)))))))))))))))..(((....)))...)))))).)))).........))))).).(((((......((..(((((....))))))).......)))))......))))) (-58.95) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGGCAUAUACCAAUUAGAAUUCGGAAUACUAUAGUAUCAGCCUUUUAGAAUCGUGAACACAUUUUAGAAACUGAUAAAUAAAUUUAGUUUCCUACCAAAAACCCUACCAAAAAUUAAUUUGGCAGGGUUUUUCUUUUUAAUAAAAUUAUUUUGGAGAACAGUUGAAUAUUGUUCUCCUUUAACAUAGUUCAGAAUUAUUUUGUGCACUAUUAAAAGCCUCCAAUUAUAAA (((((........(((((((...((((.((((...((((((..(((((((((.((....))))))))))).))))))........))))))))....(((((((((.(((((......))))).)))))))))..)))))))...........((((((((((.....))))))))))......(((((.((.((.....)).)).))))).....))))).......... (-61.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 773 60 11 151 102 smit:SMT_738|5end_hypothetical_protein_predicted_by_Glimmer/Critica_643042..643272_NEGATIVE 317 100 52 194 148 smit:SMT_300|5end_hypothetical_protein_243512..243742_POSITIVE 288 145 104 192 152 smit:SMT_1116|5end_K02244_competence_protein_ComGB_1053841..1054071_NEGATIVE 279 215 172 112 72 smit:SMT_1558|5end_hypothetical_protein_1544058..1544288_NEGATIVE 246 145 105 56 4 smit:SMT_1554|5end_isoleucyl-tRNA_synthetase_1537040..1537270_POSITIVE 246 194 155 55 13 smit:SMT_1258|5end_acetolactate_synthase_large_subunit_1224866..1225096_NEGATIVE 245 217 177 105 66 smit:SMT_1005|5end_possible_aluminum_resistance_protein_945946..946176_POSITIVE 244 141 106 88 49 smit:SMT_655|5end_phosphoglucomutase_566162..566392_POSITIVE 239 140 105 215 185 smit:SMT_661|5end_two-component_response_regulator_572596..572826_NEGATIVE 235 129 89 230 196 smit:SMT_1233|5end_cadmium_resistance_protein_1194306..1194536_POSITIVE 229 150 108 84 36 smit:SMT_2063|5end_hypothetical_protein_1971792..1972022_NEGATIVE 229 150 108 123 75 smit:SMT_1996|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1921078..1921308_NEGATIVE 227 78 31 228 175 smit:SMT_1204|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164723..1164953_NEGATIVE 226 198 156 80 32 smit:SMT_898|5end_polyribonucleotide_nucleotidyltransferase_846861..847091_NEGATIVE 217 197 154 70 36 smit:SMT_976|5end_hypothetical_protein_925183..925413_NEGATIVE 208 134 103 73 39 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 208 219 175 106 52 smit:SMT_597|5end_K08974_putative_membrane_protein_513917..514147_NEGATIVE 207 77 36 89 53 smit:SMT_1643|5end_2-isopropylmalate_synthase_1629130..1629360_POSITIVE 207 140 101 208 175 smit:SMT_400|5end_hypothetical_protein_329090..329320_POSITIVE 206 190 141 184 131 smit:SMT_1992|5end_carboxynorspermidine_decarboxylase_1919207..1919437_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 244 210 168 55 20 smit:SMT_1867|3end_peptide_chain_release_factor_1_1827910..1828060_NEGATIVE 234 145 105 57 20 smit:SMT_1641|3end_arginyl-tRNA_synthetase_1626562..1626712_NEGATIVE 229 150 108 78 30 smit:SMT_1997|3end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_1921123..1921273_NEGATIVE 223 148 104 151 103 smit:SMT_1489|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1470714..1470864_POSITIVE 223 138 103 139 104 smit:SMT_377|3end_hypothetical_protein_315848..315998_POSITIVE 219 138 97 80 44 smit:SMT_892|3end_K02023_multiple_sugar_transport_system_ATP-binding_protein_839199..839349_NEGATIVE 212 219 177 63 22 smit:SMT_568|3end_hypothetical_protein_486389..486539_POSITIVE 210 134 97 87 43 smit:SMT_1814|3end_amino_acid_transporter_1788640..1788790_POSITIVE 206 230 181 75 31 smit:SMT_320|3end_alcohol_dehydrogenase,_zinc-containing_259241..259391_NEGATIVE 205 140 96 81 39 smit:SMT_1291|3end_hypothetical_protein_1254296..1254446_POSITIVE 205 58 21 88 46 smit:SMT_705|3end_hypothetical_protein_614674..614824_NEGATIVE 204 135 102 102 55 smit:SMT_1693|3end_dimethyladenosine_transferase_1676752..1676902_POSITIVE 202 139 103 140 104 smit:SMT_1964|3end_sodium/hydrogen_exchanger_family_protein_1896596..1896746_NEGATIVE 202 142 102 150 93 smit:SMT_1888|3end_K02026_multiple_sugar_transport_system_permease_protein_1842842..1842992_POSITIVE 202 230 181 116 64 smit:SMT_1474|3end_K02003_1455951..1456101_POSITIVE 199 48 13 129 95 smit:SMT_1113|3end_hypothetical_protein_1051811..1051961_NEGATIVE 199 80 37 56 5 smit:SMT_904|3end_hypothetical_protein_852294..852444_NEGATIVE 195 209 163 136 97 smit:SMT_1192|3end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_/_IMP_cyclohydrolase_1149859..1150009_NEGATIVE 194 129 97 151 118 smit:SMT_261|3end_ImpB/MucB/SamB_family_protein_201655..201805_POSITIVE 192 79 51 87 56 smit:SMT_1296|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1259802..1259952_POSITIVE