Origin IGS: atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcgatctccttcgattattttcttgttattattataccttatcaaaggagggctggcaaacttttcccttgattaggtgcatatttggggtgagattagaattcttttagaaaaaatgat Mask Tandem Repeat Region ================================================ atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Find is-nt database================================================ Query_seq: SMT_954:SMT_955|SMT_954:SMT_955:cation-transporting ATPase, E1-E2 family:acyltransferase family protein:<-->:904116..904235 120 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_954:SMT_955|SMT_954:SMT_955:cation-transporting ATPase, E1-E2 family:acyltransferase family protein:<-->:904116..904235 120 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_954:SMT_955|SMT_954:SMT_955:cation-transporting ATPase, E1-E2 family:acyltransferase family protein:<-->:904116..904235 120 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Predict ORF larger than 30AA ================================================ atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc 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: 88 Start: 61 End: 90 ............................................................TTTGCCAGCCCTCCTTTGATAAGGTATAAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_954:SMT_955|SMT_954:SMT_955:cation-transporting ATPase, E1-E2 family:acyltransferase family protein:<-->:904116..904235 120 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: smit_SMT_954_SMT_955|cation-transporting ATPase, E1-E2 family:acyltransferase family protein|NEGATIVE:POSITIVE|[904116,904235]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc Inter-species Hit: Count: 2 Min: 1 Max: 120 Len: 120 Subject: NC_008533_SPD_1436_SPD_1437|cation-transporting ATPase, E1-E2 family protein:acyltransferase domain protein|NEGATIVE:POSITIVE|[1454598,1454729]|132 HSP 1 e-value: 2.0E-45 bit: 182.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 13 Subject End: 132 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc atcattttttttaacagaattctaatttcatcccaaatatgcatctagtcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaacaatcgaaggagatcgc Subject: NC_003028_SP_1623_SP_1624|cation-transporting ATPase, E1-E2 family:acyltransferase family protein|NEGATIVE:POSITIVE|[1525665,1525796]|132 HSP 1 e-value: 1.0E-40 bit: 167.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 13 Subject End: 132 atcattttttctaaaagaattctaatctcaccccaaatatgcacctaatcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaataatcgaaggagatcgc atcattttttttaacagaattctaatttcatcctaaatatgtatctagtcaagggaaaagtttgccagccctcctttgataaggtataataataacaagaaaacaatcgaaggagatcgc Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAUUUUUUCUAAAAGAAUUCUAAUCUCACCCCAAAUAUGCACCUAAUCAAGGGAAAAGUUUGCCAGCCCUCCUUUGAUAAGGUAUAAUAAUAACAAGAAAAUAAUCGAAGGAGAUCGC ........................(((((.............((((.(((((((((...((......))..))))))))).)))).............((......))....)))))... (-20.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGAUCUCCUUCGAUUAUUUUCUUGUUAUUAUUAUACCUUAUCAAAGGAGGGCUGGCAAACUUUUCCCUUGAUUAGGUGCAUAUUUGGGGUGAGAUUAGAAUUCUUUUAGAAAAAAUGAU ..((((((((((((.(((................(((((.(((((.((((((.(.....).)))))).))))).))))).))).)))))).))))))....................... (-23.43) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 942 80 31 171 122 smit:SMT_954|5end_cation-transporting_ATPase,_E1-E2_family_904025..904255_NEGATIVE 324 90 41 85 30 smit:SMT_1622|5end_K03499_trk_system_potassium_uptake_protein_TrkA_1608243..1608473_POSITIVE 306 69 22 89 41 smit:SMT_1634|5end_2,3,4,5-tetrahydropyridine-2-carboxylate_N-succinyltransferase,_putative_1621074..1621304_POSITIVE 306 79 32 132 68 smit:SMT_1571|5end_CAAX_amino_terminal_protease_family_protein_1563780..1564010_POSITIVE 287 86 41 219 171 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 283 78 33 228 188 smit:SMT_1214|5end_K03584_DNA_repair_protein_RecO_(recombination_protein_O)_1173422..1173652_NEGATIVE 281 83 50 41 4 smit:SMT_1932|5end_K02008_cobalt_transport_system_permease_protein_1872001..1872231_NEGATIVE 274 78 31 105 42 smit:SMT_1396|5end_uracil-DNA_glycosylase_1372064..1372294_POSITIVE 252 69 21 67 8 smit:SMT_1793|5end_inosine-5'-monophosphate_dehydrogenase_1767985..1768215_POSITIVE 245 79 36 223 189 smit:SMT_1366|5end_K02238_competence_protein_ComEC_1346888..1347118_NEGATIVE 244 77 32 102 63 smit:SMT_1631|5end_phosphopantothenoylcysteine_synthase/decarboxylase_1618359..1618589_NEGATIVE 243 80 31 64 14 smit:SMT_814|5end_UDP-N-acetyl_muramate-alanine_ligase_723666..723896_NEGATIVE 240 85 41 79 24 smit:SMT_1301|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1263073..1263303_POSITIVE 240 73 32 162 121 smit:SMT_92|5end_GTP-binding_protein,_probable_translation_factor_22857..23087_POSITIVE 236 96 51 79 22 smit:SMT_1655|5end_glucose-6-phosphate_1-dehydrogenase_1645021..1645251_NEGATIVE 235 84 41 202 152 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 234 89 41 69 6 smit:SMT_2131|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_2011665..2011895_POSITIVE 232 74 31 103 58 smit:SMT_1653|5end_hydrolase_1641328..1641558_POSITIVE 232 79 31 44 3 smit:SMT_308|5end_trans-2-enoyl-ACP_reductase_II_249439..249669_POSITIVE 231 76 42 231 186 smit:SMT_1685|5end_phenylalanyl-tRNA_synthetase_alpha_chain_1668845..1669075_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 83 41 56 6 smit:SMT_1933|3end_K02006_cobalt_transport_system_ATP-binding_protein_1871986..1872136_NEGATIVE 244 77 32 90 51 smit:SMT_1632|3end_hypothetical_protein_1618371..1618521_NEGATIVE 244 82 51 53 24 smit:SMT_447|3end_ABC-type_cobalt_transport_system,_permease_component_CbiQ_related_transporter_386987..387137_POSITIVE 243 80 31 53 3 smit:SMT_815|3end_hypothetical_protein_723677..723827_NEGATIVE 240 73 32 77 36 smit:SMT_91|3end_hypothetical_protein_22852..23002_POSITIVE 233 84 63 85 60 smit:SMT_1098|3end_hypothetical_protein_1041648..1041798_NEGATIVE 232 74 31 103 58 smit:SMT_1652|3end_Cof_family_protein_1641408..1641558_POSITIVE 230 87 43 136 89 smit:SMT_1439|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1423262..1423412_NEGATIVE 227 85 46 113 71 smit:SMT_260|3end_phage_transcriptional_repressor_200236..200386_POSITIVE 223 83 53 36 11 smit:SMT_967|3end_K01992_ABC-2_type_transport_system_permease_protein_912215..912365_NEGATIVE 222 68 21 113 54 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 222 68 21 102 43 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 222 68 21 113 54 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 222 68 21 118 59 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 222 68 21 102 43 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 222 68 21 113 54 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 222 68 21 102 43 smit:SMT_1927|3end_cell_division_protein_FtsH_1868408..1868558_NEGATIVE 222 68 21 113 54 smit:SMT_1926|3end_mevalonate_kinase_1868062..1868212_POSITIVE 222 68 21 113 54 smit:SMT_1887|3end_LicC_protein_1841740..1841890_POSITIVE 222 68 21 102 43 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE