Origin IGS: actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttcgcaagaccacgttctccaattgcgataacaggtttacctttaatttcctttggtacacgaacaaccttatcgtcagaagtacaactatagatgacataaccttcttcccataaatataagcatgttaatatattaatatatttaaggatttataactatagttccttaattttcccagtaaaaaaacgaaaggcaccacaagttatttatgtgttttctttaaacgattcatgtacttctgtcgcaacttctcacccgcctttaattgcggttgcgatagattgaggacctaaatatgcatcccctgttattagttcatttctattgtattctgatgttgaccgaaagtcaaatttttacctttcatctagaacactaaagt Mask Tandem Repeat Region ================================================ actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Find is-nt database================================================ Query_seq: SMT_240:SMT_241|SMT_240:SMT_241:glutamate synthase small subunit, putative:hypothetical protein predicted by Glimmer/Critica:->->:178261..178646 386 actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_240:SMT_241|SMT_240:SMT_241:glutamate synthase small subunit, putative:hypothetical protein predicted by Glimmer/Critica:->->:178261..178646 386 actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_240:SMT_241|SMT_240:SMT_241:glutamate synthase small subunit, putative:hypothetical protein predicted by Glimmer/Critica:->->:178261..178646 386 actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 268 End: 384 ........................................................................................................................................................................................................................................................................... M Y G K K V M S S I V V L L T I R L F V Y Q R K L K V N L L S Q L E N V V L R .. Protein_Len: 51 Strand: + Start: 234 End: 386 ......................................................................................................................................................................................................................................... M L K Y I N I L T C L Y L W E E G Y V I Y S C T S D D K V V R V P K E I K G K P V I A I G E R G L A N Protein_Len: 51 Strand: - Start: 101 End: 253 .................................................................................................... D I A V A I L P P H S T A V S T C S D N L S F V Y I V Q P A K R K K V P F I L S S Y N Y I R L Y I L M ..................................................................................................................................... Protein_Len: 32 Strand: - Start: 7 End: 102 ...... H E L H F T F I Q S E T L M L I C Y F H V L L L P H M N L D E M ............................................................................................................................................................................................................................................................................................ actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac 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: 30 End: 59 .............................TTTGACTTTCGGTCAACATCAGAATACAAT....................................................................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_240:SMT_241|SMT_240:SMT_241:glutamate synthase small subunit, putative:hypothetical protein predicted by Glimmer/Critica:->->:178261..178646 386 actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Intra-Species Hit: Count: 1 Min: 1 Max: 386 Len: 386 Subject: smit_SMT_240_SMT_241|glutamate synthase small subunit, putative:hypothetical protein predicted by Glimmer/Critica|POSITIVE:POSITIVE|[178261,178646]|386 HSP 1 e-value: 0.0 bit: 724.0 Len: 386 Query Start:1 Query End:386 Subject Strand: POSITIVE Subject Start: 1 Subject End: 386 actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgnnnnnnnactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac actttagtgttctagatgaaaggtaaaaatttgactttcggtcaacatcagaatacaatagaaatgaactaataacaggggatgcatatttaggtcctcaatctatcgcaaccgcaattaaaggcgggtgagaagttgcgacagaagtacatgaatcgtttaaagaaaacacataaataacttgtggtgcctttcgtttttttactgggaaaattaaggaactatagttataaatccttaaatatattaatatattaacatgcttatatttatgggaagaaggttatgtcatctatagttgtacttctgacgataaggttgttcgtgtaccaaaggaaattaaaggtaaacctgttatcgcaattggagaacgtggtcttgcgaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUAGUGUUCUAGAUGAAAGGUAAAAAUUUGACUUUCGGUCAACAUCAGAAUACAAUAGAAAUGAACUAAUAACAGGGGAUGCAUAUUUAGGUCCUCAAUCUAUCGCAACCGCAAUUAAAGGCGGGUGAGAAGUUGCGACAGAAGUACAUGAAUCGUUUAAAGAAAACACAUAAAUAACUUGUGGUGCCUUUCGUUUUUUUACUGGGAAAAUUAAGGAACUAUAGUUAUAAAUCCUUAAAUAUAUUAAUAUAUUAACAUGCUUAUAUUUAUGGGAAGAAGGUUAUGUCAUCUAUAGUUGUACUUCUGACGAUAAGGUUGUUCGUGUACCAAAGGAAAUUAAAGGUAAACCUGUUAUCGCAAUUGGAGAACGUGGUCUUGCGAAC ......(((((((.((((............(((((.....))))))))))))))))................(((((((...(((...(((((.((((...(((.((((((((((........))))........)))))).))).((((((((((((((..(((..(((......((((((.(((((.((((..(((((((.....))))))).)))).)))))))))))...((((((((((((...((........))...)))))))).))))....................)))...)))..))))))........))))))))...))))..))))).)))..)))))))(((((...(((........)))))))).. (-89.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCGCAAGACCACGUUCUCCAAUUGCGAUAACAGGUUUACCUUUAAUUUCCUUUGGUACACGAACAACCUUAUCGUCAGAAGUACAACUAUAGAUGACAUAACCUUCUUCCCAUAAAUAUAAGCAUGUUAAUAUAUUAAUAUAUUUAAGGAUUUAUAACUAUAGUUCCUUAAUUUUCCCAGUAAAAAAACGAAAGGCACCACAAGUUAUUUAUGUGUUUUCUUUAAACGAUUCAUGUACUUCUGUCGCAACUUCUCACCCGCCUUUAAUUGCGGUUGCGAUAGAUUGAGGACCUAAAUAUGCAUCCCCUGUUAUUAGUUCAUUUCUAUUGUAUUCUGAUGUUGACCGAAAGUCAAAUUUUUACCUUUCAUCUAGAACACUAAAGU (.((....)).)..(((((........(((((((((.............(((((.((((((.((........(((((..((((...(((((((((((((..........................(((((((....)))))))..(((((((.((((....)))).))))))).................(....).........)))))))))).)))..))))..))))))).))))))((((((((((........((((........))))))))))))))..)))))...............))))))))).....................((((((((.(....)))))............)))).)))))........ (-75.59) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 141 106 230 186 smit:SMT_172|5end_50S_ribosomal_protein_L23_116180..116410_POSITIVE 315 158 122 229 189 smit:SMT_1640|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1626321..1626551_NEGATIVE 309 150 105 179 128 smit:SMT_350|5end_immunity_protein_BlpL_289864..290094_POSITIVE 308 115 77 175 134 smit:SMT_463|5end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_401926..402156_POSITIVE 283 160 112 70 15 smit:SMT_1142|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_1085546..1085776_POSITIVE 283 129 84 216 162 smit:SMT_867|5end_hypothetical_protein_816316..816546_POSITIVE 273 220 181 96 47 smit:SMT_1844|5end_hypothetical_protein_1808587..1808817_POSITIVE 273 110 67 158 108 smit:SMT_1518|5end_sensor_histidine_kinase_1499009..1499239_NEGATIVE 266 125 84 211 166 smit:SMT_910|5end_type_I_restriction_enzyme_R_protein_861889..862119_NEGATIVE 266 45 5 206 167 smit:SMT_700|5end_putative_signal_recognition_particle_-inhibited_division_protein_611511..611741_NEGATIVE 265 360 312 216 174 smit:SMT_1233|5end_cadmium_resistance_protein_1194306..1194536_POSITIVE 260 160 111 197 146 smit:SMT_1552|5end_RNA_binding_protein_1535119..1535349_POSITIVE 258 129 94 54 13 smit:SMT_657|5end_Kef-type_K+_transport_system,_predicted_NAD-binding_component_569104..569334_NEGATIVE 256 160 111 98 46 smit:SMT_1021|5end_K05846_osmoprotectant_transport_system_permease_protein_957999..958229_NEGATIVE 254 147 103 209 170 smit:SMT_457|5end_hypothetical_protein_396166..396396_POSITIVE 253 147 104 217 165 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 253 147 104 205 153 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 253 147 104 230 178 smit:SMT_1156|5end_K07485_transposase_1099938..1100168_POSITIVE 253 166 121 161 119 smit:SMT_935|5end_UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-_diaminopimelate_ligase_887326..887556_POSITIVE 252 167 126 167 132 smit:SMT_765|5end_hypothetical_protein_672620..672850_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 299 377 336 131 87 smit:SMT_778|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_687834..687984_POSITIVE 295 115 75 82 36 smit:SMT_1083|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1021001..1021151_POSITIVE 285 337 291 146 87 smit:SMT_1562|3end_hypothetical_protein_1554819..1554969_NEGATIVE 265 140 93 75 13 smit:SMT_1901|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1850721..1850871_POSITIVE 261 139 91 50 2 smit:SMT_1486|3end_hypothetical_protein_1466444..1466594_POSITIVE 256 160 111 105 53 smit:SMT_1022|3end_glycine_betaine_transport_ATP-binding_protein_957992..958142_NEGATIVE 254 147 103 54 15 smit:SMT_456|3end_pyruvate_oxidase_396091..396241_POSITIVE 253 166 121 62 20 smit:SMT_934|3end_pyridine_nucleotide-disulfide_oxidoreductase_887307..887457_POSITIVE 249 162 121 46 10 smit:SMT_1225|3end_50S_ribosomal_protein_L13_1188798..1188948_POSITIVE 245 157 112 49 2 smit:SMT_1259|3end_hypothetical_protein_1225578..1225728_POSITIVE 244 113 74 53 4 smit:SMT_197|3end_DNA-directed_RNA_polymerase,_alpha_subunit_128467..128617_POSITIVE 243 137 91 91 54 smit:SMT_1210|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1170959..1171109_NEGATIVE 242 143 105 63 18 smit:SMT_1776|3end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_1751892..1752042_NEGATIVE 240 219 180 45 6 smit:SMT_1121|3end_hypothetical_protein_1057105..1057255_NEGATIVE 239 168 123 60 15 smit:SMT_930|3end_ATP-dependent_RNA_helicase_883389..883539_NEGATIVE 239 161 123 63 14 smit:SMT_706|3end_hypothetical_protein_615317..615467_NEGATIVE 238 160 125 41 8 smit:SMT_2011|3end_lysyl-tRNA_synthetase_1929759..1929909_NEGATIVE 238 320 279 56 13 smit:SMT_438|3end_hypothetical_protein_predicted_by_Glimmer/Critica_379377..379527_POSITIVE 234 218 177 136 101 smit:SMT_1410|3end_exonuclease_RexA_1388532..1388682_NEGATIVE 233 380 331 92 39 smit:SMT_1112|3end_K02248_competence_protein_ComGF_1051387..1051537_NEGATIVE