Origin IGS: taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatttttgctttgttgtcgatgagaaaaaagtgcggtcataaaaaacaatgttttttaacgttagctttgacaacggcctcaaaggggtgaataaattatctcagtgatttatgaataattttacgggcacttttta Mask Tandem Repeat Region ================================================ taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Find is-nt database================================================ Query_seq: AA02663:AA02666|AA02663:AA02666:DNA ligase:DNA helicase II:->->:1854412..1854549 138 taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02663:AA02666|AA02663:AA02666:DNA ligase:DNA helicase II:->->:1854412..1854549 138 taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02663:AA02666|AA02663:AA02666:DNA ligase:DNA helicase II:->->:1854412..1854549 138 taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Predict ORF larger than 30AA ================================================ taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta 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================================================ taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02663:AA02666|AA02663:AA02666:DNA ligase:DNA helicase II:->->:1854412..1854549 138 taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 138 Len: 138 Subject: aact_AA02663_AA02666|DNA ligase:DNA helicase II|POSITIVE:POSITIVE|[1854412,1854549]|138 HSP 1 e-value: 7.0E-73 bit: 274.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta taaaaagtgcccgtaaaattattcataaatcactgagataatttattcacccctttgaggccgttgtcaaagctaacgttaaaaaacattgttttttatgaccgcacttttttctcatcgacaacaaagcaaaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAGUGCCCGUAAAAUUAUUCAUAAAUCACUGAGAUAAUUUAUUCACCCCUUUGAGGCCGUUGUCAAAGCUAACGUUAAAAAACAUUGUUUUUUAUGACCGCACUUUUUUCUCAUCGACAACAAAGCAAAAAUUA .(((((((((.(((((((..................((((((...((((......))))...))))))..(((....))).............)))))))...))))))))).......................... (-21.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUUUGCUUUGUUGUCGAUGAGAAAAAAGUGCGGUCAUAAAAAACAAUGUUUUUUAACGUUAGCUUUGACAACGGCCUCAAAGGGGUGAAUAAAUUAUCUCAGUGAUUUAUGAAUAAUUUUACGGGCACUUUUUA .............((((((((.........((((((....((((((((...)))))))).)))..))))))))))).((((.((((..((..(((((((((....)))))))))..))..))))..))))........ (-26.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 609 87 42 184 138 aact:AA00054|5end_cytochrome_c_biogenesis_protein_41393..41623_POSITIVE 584 66 21 229 184 aact:AA00096|5end_L-asparaginase_II_precursor_71280..71510_POSITIVE 576 110 61 86 36 aact:AA01953|5end_hypothetical_protein_1320132..1320362_POSITIVE 541 110 61 230 180 aact:AA02220|5end_ABC_transport_system_permease_protein_1511155..1511385_POSITIVE 431 110 61 220 170 aact:AA01502|5end_serine_acetyltransferase_1010014..1010244_POSITIVE 399 80 31 133 86 aact:AA00240|5end_hypothetical_protein_171390..171620_POSITIVE 397 87 41 217 172 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 385 111 81 133 103 aact:AA01554|5end_conserved_hypothetical_protein;_hypothetical_membrane_protein_1042061..1042291_POSITIVE 384 116 71 228 177 aact:AA02733|5end_cell_division_protein_K;_sporulation_protein_spoIIIE_1912208..1912438_POSITIVE 369 112 72 196 157 aact:AA02902|5end_aerobic_respiration_control_protein_2031171..2031401_POSITIVE 355 110 78 179 147 aact:AA02101|5end_penicillin-binding_protein_7_1430830..1431060_POSITIVE 353 110 61 122 68 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 352 117 72 121 76 aact:AA02703|5end_hypothetical_protein_1885365..1885595_POSITIVE 349 120 71 127 81 aact:AA01393|5end_ABC_transporter,_ATP-binding_protein_940369..940599_POSITIVE 347 120 72 63 14 aact:AA01517|5end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1020989..1021219_POSITIVE 345 129 83 159 110 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 343 97 51 177 129 aact:AA01079|5end_conserved_hypothetical_protein_747404..747634_POSITIVE 332 110 62 220 167 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 328 120 71 53 4 aact:AA01813|5end_electron_transport_complex_protein_1220949..1221179_POSITIVE 325 54 12 231 186 aact:AA00702|5end_conserved_hypothetical_protein_481660..481890_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 604 80 31 56 7 aact:AA00093|3end_L-serine_dehydratase_(L-serine_deaminase)_71173..71323_POSITIVE 477 110 61 73 24 aact:AA01880|3end_N-acetylglucosamine_repressor_1268383..1268533_POSITIVE 437 110 62 86 37 aact:AA02913|3end_ribosomal_large_subunit_pseudouridine_synthase_2040527..2040677_POSITIVE 399 80 31 81 34 aact:AA00239|3end_hypothetical_protein_171418..171568_POSITIVE 397 87 41 87 42 aact:AA01934|3end_conserved_hypothetical_protein_1306993..1307143_POSITIVE 387 90 48 44 1 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 384 116 71 132 81 aact:AA02731|3end_outer_membrane_lipoprotein_carrier_precursor_1912192..1912342_POSITIVE 369 112 72 83 44 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 352 117 72 61 16 aact:AA02702|3end_succinyl-CoA_synthetase,_beta_chain_1885385..1885535_POSITIVE 349 120 71 80 34 aact:AA01391|3end_glycerol-3-phosphate_acyltransferase_940402..940552_POSITIVE 345 129 83 54 5 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 343 97 51 146 98 aact:AA01078|3end_transcriptional_regulator_(probable_MerR_family)_747453..747603_POSITIVE 332 110 62 82 29 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 328 120 71 57 8 aact:AA01811|3end_electron_transport_complex_protein_1221033..1221183_POSITIVE 324 125 82 114 60 aact:AA02090|3end_glucose-1-phosphate_adenylyltransferase_1424549..1424699_POSITIVE 321 110 64 112 65 aact:AA02621|3end_hypothetical_protein_1827288..1827438_POSITIVE 318 110 62 72 27 aact:AA00128|3end_cation-transporting_ATPase_(probable_potassium/copper_transporter)_94207..94357_POSITIVE 315 84 46 140 101 aact:AA01501|3end_hypothetical_protein_1010040..1010190_POSITIVE 310 130 82 111 61 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 305 118 81 111 74 aact:AA02025|3end_hypothetical_protein_1378851..1379001_POSITIVE