Origin IGS: ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt .........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 aagatttccccttttccaaatgtggttttaaaaaaacatctcgctcagaagtccaagcgagnnnnnttaattaattaannnnntgctggaaagatccttgcaggagagagacgctatccggcttcacttttagctggtctaaggtatatcccagctgttgttaaacagctttcagatcaagag Mask Tandem Repeat Region ================================================ ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Find is-nt database================================================ Query_seq: SMT_1642:SMT_1643|SMT_1642:SMT_1643:K03497 chromosome partitioning protein, ParB family:2-isopropylmalate synthase:<-->:1629087..1629269 183 ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1642:SMT_1643|SMT_1642:SMT_1643:K03497 chromosome partitioning protein, ParB family:2-isopropylmalate synthase:<-->:1629087..1629269 183 ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1642:SMT_1643|SMT_1642:SMT_1643:K03497 chromosome partitioning protein, ParB family:2-isopropylmalate synthase:<-->:1629087..1629269 183 ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 1 End: 90 E Q D S L Q K V V A P I Y R L G A L L S A P Y R R E G A L M ............................................................................................. ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt 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================================================ PromScan Matrix: RpoN Strand: - Score: 83 Start: 82 End: 98 .................................................................................CTGGAAAGATCCTTGCA..................................................................................... ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 48 HP_score: -3.3 Tail_Score: -3.38281 Start: 62 End: 84 Full_Region: gctggaaagatcctt gcaggagag agacg ctatccggc ttcacttttagctgg .............................................................gcaggagagagacgctatccggc................................................................................................... Find igs database================================================ Query_seq: SMT_1642:SMT_1643|SMT_1642:SMT_1643:K03497 chromosome partitioning protein, ParB family:2-isopropylmalate synthase:<-->:1629087..1629269 183 ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Intra-Species Hit: Count: 1 Min: 1 Max: 183 Len: 183 Subject: smit_SMT_1642_SMT_1643|K03497 chromosome partitioning protein, ParB family:2-isopropylmalate synthase|NEGATIVE:POSITIVE|[1629087,1629269]|183 HSP 1 e-value: 4.0E-69 bit: 262.0 Len: 183 Query Start:1 Query End:183 Subject Strand: POSITIVE Subject Start: 1 Subject End: 183 ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgnnnnnnnaaaaccacatttggaaaaggggaaatctt ctcttgatctgaaagctgtttaacaacagctgggatataccttagaccagctaaaagtgaagccggatagcgtctctctcctgcaaggatctttccagcannnnnttaattaattaannnnnctcgcttggacttctgagcgagatgtttttttaaaaccacatttggaaaaggggaaatctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUUGAUCUGAAAGCUGUUUAACAACAGCUGGGAUAUACCUUAGACCAGCUAAAAGUGAAGCCGGAUAGCGUCUCUCUCCUGCAAGGAUCUUUCCAGCANNNNNUUAAUUAAUUAANNNNNCUCGCUUGGACUUCUGAGCGAGAUGUUUUUUUAAAACCACAUUUGGAAAAGGGGAAAUCUU (((((..((..((..............((((((..((.....))..))))))....(((..((.(((.((.(((.((........))))))).))).)).......................((((((..(....)..))))))...............))).))..))..)))))....... (-45.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAUUUCCCCUUUUCCAAAUGUGGUUUUAAAAAAACAUCUCGCUCAGAAGUCCAAGCGAGNNNNNUUAAUUAAUUAANNNNNUGCUGGAAAGAUCCUUGCAGGAGAGAGACGCUAUCCGGCUUCACUUUUAGCUGGUCUAAGGUAUAUCCCAGCUGUUGUUAAACAGCUUUCAGAUCAAGAG ............((((((......((((.....))))..((((((..(....)..)))))).........................))))))((((......((.((...((.((..((((((........))))))....))))...)))).((((((....)))))).....))))..... (-38.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1002 90 41 181 132 smit:SMT_1642|5end_K03497_chromosome_partitioning_protein,_ParB_family_1628996..1629226_NEGATIVE 359 98 62 106 73 smit:SMT_323|5end_amino_acid_transport_ATP-binding_protein_261872..262102_NEGATIVE 338 90 41 110 59 smit:SMT_841|5end_dihydrodipicolinate_reductase_788025..788255_NEGATIVE 328 100 58 79 19 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 327 100 56 142 100 smit:SMT_1850|5end_K01421_putative_membrane_protein_1815062..1815292_POSITIVE 315 90 43 79 6 smit:SMT_290|5end_glucose-1-phosphate_thymidylyltransferase_233327..233557_POSITIVE 299 100 56 104 59 smit:SMT_1813|5end_amino_acid_transporter_1787142..1787372_POSITIVE 299 88 62 221 196 smit:SMT_1370|5end_K06217_phosphate_starvation-inducible_protein_PhoH_and_related_proteins_1350494..1350724_NEGATIVE 296 98 54 62 5 smit:SMT_1696|5end_hypothetical_protein_1678182..1678412_POSITIVE 294 89 44 72 26 smit:SMT_274|5end_ABC_transporter_substrate-binding_protein_-_oligopeptide_transport_215221..215451_POSITIVE 289 86 47 122 75 smit:SMT_1083|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1020829..1021059_POSITIVE 289 90 45 63 16 smit:SMT_754|5end_3-dehydroquinate_synthase_659044..659274_NEGATIVE 286 89 48 200 168 smit:SMT_1608|5end_hypothetical_protein_1597595..1597825_POSITIVE 285 84 47 107 63 smit:SMT_309|5end_acyl-carrier-protein_S-malonyltransferase_250406..250636_POSITIVE 283 100 56 63 11 smit:SMT_1719|5end_DNA_mismatch_repair_protein_1706842..1707072_NEGATIVE 281 89 48 123 85 smit:SMT_150|5end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_98787..99017_POSITIVE 280 90 48 82 31 smit:SMT_1622|5end_K03499_trk_system_potassium_uptake_protein_TrkA_1608243..1608473_POSITIVE 280 99 58 177 142 smit:SMT_1386|5end_phosphoenolpyruvate-protein_phosphotransferase_1362806..1363036_POSITIVE 278 100 56 90 48 smit:SMT_1085|5end_sensor_histidine_kinase_(homolog_to_HK11_Spn)_1022267..1022497_NEGATIVE 278 140 91 230 186 smit:SMT_542|5end_hypothetical_protein_457940..458170_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 98 62 66 33 smit:SMT_324|3end_K02029_polar_amino_acid_transport_system_permease_protein_261912..262062_NEGATIVE 315 100 62 142 103 smit:SMT_798|3end_hypothetical_protein_707106..707256_POSITIVE 299 100 56 75 30 smit:SMT_1812|3end_K07485_transposase_1787193..1787343_POSITIVE 299 88 62 136 111 smit:SMT_1371|3end_hypothetical_protein_1350579..1350729_NEGATIVE 296 98 54 99 42 smit:SMT_1695|3end_ribulose-phosphate_3-epimerase_1678299..1678449_POSITIVE 289 86 47 90 43 smit:SMT_1082|3end_Cof_family_protein_1020877..1021027_POSITIVE 285 84 47 114 70 smit:SMT_308|3end_trans-2-enoyl-ACP_reductase_II_250493..250643_POSITIVE 281 89 48 41 3 smit:SMT_149|3end_hypothetical_protein_predicted_by_Glimmer/Critica_98785..98935_POSITIVE 268 89 44 143 110 smit:SMT_330|3end_membrane-associated_phospholipid_phosphatase_266187..266337_POSITIVE 266 99 58 65 31 smit:SMT_1078|3end_folylpolyglutamate_synthase_1015391..1015541_NEGATIVE 266 100 64 57 15 smit:SMT_855|3end_dihydrofolate_reductase_799492..799642_NEGATIVE 264 100 62 96 54 smit:SMT_2056|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1966735..1966885_POSITIVE 263 87 50 151 110 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 262 88 56 71 37 smit:SMT_545|3end_hypothetical_protein_predicted_by_Glimmer/Critica_461424..461574_POSITIVE 261 36 2 49 12 smit:SMT_2122|3end_cell_surface_protein_precursor_2007319..2007469_NEGATIVE 260 85 41 57 19 smit:SMT_140|3end_NUDIX_family_hydrolase_91498..91648_POSITIVE 253 100 64 47 3 smit:SMT_1480|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1462266..1462416_POSITIVE 253 89 41 80 22 smit:SMT_363|3end_K02519_translation_initiation_factor_IF-2_300751..300901_POSITIVE 251 99 56 106 45 smit:SMT_1760|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1735743..1735893_NEGATIVE 251 99 63 132 85 smit:SMT_1305|3end_glycerol_kinase_1269805..1269955_POSITIVE