Origin IGS: gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa .........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 ttagaataaaaatcgaagttctattactctatttataggagtagaagaacttcgatttttattttgtcttcaagtatttttgataaaaattacctatattttagtaaaatttaaacaaatttagtctatcttaatttacatatagaaaatacatttttaatgtcatataataagcatagaaaaagcccaagcaaggcttaggctttcttc Mask Tandem Repeat Region ================================================ gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Find is-nt database================================================ Query_seq: SMT_1186:SMT_1187|SMT_1186:SMT_1187:hypothetical protein:adenylosuccinate lyase:-><-:1144947..1145156 210 gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1186:SMT_1187|SMT_1186:SMT_1187:hypothetical protein:adenylosuccinate lyase:-><-:1144947..1145156 210 gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1186:SMT_1187|SMT_1186:SMT_1187:hypothetical protein:adenylosuccinate lyase:-><-:1144947..1145156 210 gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 90 End: 188 ......................................................................................... I Q K F K V L I Y T I K I L F V Q L C F L F R L E E V G I F L T M ...................... gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa 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: 82 Start: 40 End: 69 .......................................ATAGAAAATACATTTTTAATGTCATATAAT............................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -16.3 Tail_Score: -4.67608 Start: 150 End: 204 Full_Region: ttagaa taaaaatcgaagttctattactcta ttta taggagtagaagaacttcgattttta ttttgtcttcaagta .....................................................................................................................................................taaaaatcgaagttctattactctatttataggagtagaagaacttcgattttta...... Find igs database================================================ Query_seq: SMT_1186:SMT_1187|SMT_1186:SMT_1187:hypothetical protein:adenylosuccinate lyase:-><-:1144947..1145156 210 gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Intra-Species Hit: Count: 1 Min: 1 Max: 210 Len: 210 Subject: smit_SMT_1186_SMT_1187|hypothetical protein:adenylosuccinate lyase|POSITIVE:NEGATIVE|[1144947,1145156]|210 HSP 1 e-value: 1.0E-115 bit: 416.0 Len: 210 Query Start:1 Query End:210 Subject Strand: POSITIVE Subject Start: 1 Subject End: 210 gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa gaagaaagcctaagccttgcttgggctttttctatgcttattatatgacattaaaaatgtattttctatatgtaaattaagatagactaaatttgtttaaattttactaaaatataggtaatttttatcaaaaatacttgaagacaaaataaaaatcgaagttcttctactcctataaatagagtaatagaacttcgatttttattctaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAGAAAGCCUAAGCCUUGCUUGGGCUUUUUCUAUGCUUAUUAUAUGACAUUAAAAAUGUAUUUUCUAUAUGUAAAUUAAGAUAGACUAAAUUUGUUUAAAUUUUACUAAAAUAUAGGUAAUUUUUAUCAAAAAUACUUGAAGACAAAAUAAAAAUCGAAGUUCUUCUACUCCUAUAAAUAGAGUAAUAGAACUUCGAUUUUUAUUCUAA ...((((((((((((...))))))))))))(((((.(((((((((((((((.....))))........)))))))..))))))))).....((((..((((..(((((........)))))..)))).))))...............((((((((((((((((((..(((((.........)))))..)))))))))))))))))).... (-55.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGAAUAAAAAUCGAAGUUCUAUUACUCUAUUUAUAGGAGUAGAAGAACUUCGAUUUUUAUUUUGUCUUCAAGUAUUUUUGAUAAAAAUUACCUAUAUUUUAGUAAAAUUUAAACAAAUUUAGUCUAUCUUAAUUUACAUAUAGAAAAUACAUUUUUAAUGUCAUAUAAUAAGCAUAGAAAAAGCCCAAGCAAGGCUUAGGCUUUCUUC .(((((((((((((((((((((.(((((((.......))))))).)))))))))))))))))))))...(((((....)))))...(((((..(((.....)))...)))))............(((((((((....((((.((((((.....)))))))))).......)))).))))).((((((.((((...)))).)))))).... (-51.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 45 8 82 39 smit:SMT_208|5end_leucyl-tRNA_synthetase_139977..140207_POSITIVE 268 39 7 95 57 smit:SMT_1214|5end_K03584_DNA_repair_protein_RecO_(recombination_protein_O)_1173422..1173652_NEGATIVE 253 50 7 90 48 smit:SMT_2034|5end_hydrolase,_haloacid_dehalogenase-like_family_1946671..1946901_POSITIVE 247 50 3 95 50 smit:SMT_145|5end_hypothetical_protein_95873..96103_POSITIVE 246 39 4 147 117 smit:SMT_1649|5end_GMP_reductase_1635002..1635232_POSITIVE 244 39 13 96 71 smit:SMT_1673|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1659831..1660061_POSITIVE 244 39 10 42 13 smit:SMT_1613|5end_ribosomal_large_subunit_pseudouridine_synthase_B_1600608..1600838_POSITIVE 242 40 3 179 136 smit:SMT_1375|5end_putative_glucose-inhibited_division_protein_1354438..1354668_NEGATIVE 242 48 7 168 124 smit:SMT_1279|5end_translation_elongation_factor_Ts_1242331..1242561_POSITIVE 241 47 2 171 126 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 241 50 9 54 3 smit:SMT_602|5end_5'-methylthioadenosine_nucleosidase_/_S-adenosylhomocysteine_nucleosidase_517192..517422_POSITIVE 240 24 8 21 4 smit:SMT_1530|5end_K07456_DNA_mismatch_repair_protein_MutS2_1515346..1515576_NEGATIVE 239 45 8 117 74 smit:SMT_213|5end_leucyl-tRNA_synthetase_145392..145622_POSITIVE 234 42 14 77 40 smit:SMT_361|5end_hypothetical_protein_295914..296144_POSITIVE 233 48 8 186 154 smit:SMT_1855|5end_K03650_tRNA_modification_GTPase_1819711..1819941_POSITIVE 233 38 8 41 9 smit:SMT_1529|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1512880..1513110_NEGATIVE 230 36 2 32 3 smit:SMT_514|5end_tRNA_(guanine-N(1)-)-methyltransferase_441377..441607_POSITIVE 227 47 6 154 112 smit:SMT_1492|5end_DNA-directed_RNA_polymerase_beta_chain_1472093..1472323_POSITIVE 226 50 13 95 61 smit:SMT_103|5end_adenylosuccinate_synthetase_40766..40996_POSITIVE 224 38 8 111 80 smit:SMT_1347|5end_SsrA-binding_protein_1325185..1325415_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 48 3 111 60 smit:SMT_1186|3end_hypothetical_protein_1144886..1145036_POSITIVE 341 39 2 98 57 smit:SMT_141|3end_K03495_glucose_inhibited_division_protein_A_93401..93551_POSITIVE 274 45 2 95 51 smit:SMT_981|3end_hypothetical_protein_929202..929352_POSITIVE 268 39 7 98 60 smit:SMT_1215|3end_aromatic_amino_acid_aminotransferase_1173419..1173569_NEGATIVE 267 42 2 95 59 smit:SMT_699|3end_K03106_signal_recognition_particle,_subunit_SRP54_609941..610091_NEGATIVE 262 41 2 94 58 smit:SMT_982|3end_D-tyrosyl-tRNA(Tyr)_deacylase_929211..929361_NEGATIVE 259 25 1 38 10 smit:SMT_228|3end_hypothetical_protein_165093..165243_POSITIVE 259 25 1 38 10 smit:SMT_224|3end_hypothetical_protein_159599..159749_POSITIVE 258 33 1 90 44 smit:SMT_1814|3end_amino_acid_transporter_1788640..1788790_POSITIVE 254 38 2 151 112 smit:SMT_603|3end_hypothetical_protein_518532..518682_POSITIVE 253 50 7 78 36 smit:SMT_2033|3end_hydrolase,_haloacid_dehalogenase-like_family_1946739..1946889_POSITIVE 244 39 10 55 26 smit:SMT_1612|3end_K06024_segregation_and_condensation_protein_B_1600701..1600851_POSITIVE 242 48 7 89 45 smit:SMT_1278|3end_30S_ribosomal_protein_S2_1242332..1242482_POSITIVE 241 47 2 56 11 smit:SMT_1515|3end_amino_acid_ABC_transporter,_ATP-binding_protein_1496755..1496905_NEGATIVE 239 41 2 107 72 smit:SMT_154|3end_K03647_protein_involved_in_ribonucleotide_reduction_102474..102624_POSITIVE 238 41 1 83 45 smit:SMT_832|3end_hypothetical_protein_774376..774526_NEGATIVE 234 42 14 84 47 smit:SMT_360|3end_K07742_hypothetical_protein_296001..296151_POSITIVE 233 38 8 145 113 smit:SMT_1529|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1512776..1512926_NEGATIVE 230 36 2 42 13 smit:SMT_513|3end_16S_rRNA_processing_protein_RimM_441467..441617_POSITIVE 224 38 8 148 117 smit:SMT_1348|3end_exoribonuclease_II_1325148..1325298_NEGATIVE