Origin IGS: tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtagaatccagttccctaactagggatcaaaccctggccccctgcactgaaagcatagatcttagccactagacttcnnnnnttaattaattaannnnntatctagataacaaatgagcttggattaaaatctccaaactcatttaaagtcaattacaatcta Mask Tandem Repeat Region ================================================ tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Find is-nt database================================================ Query_seq: SMT_1633:SMT_1634|SMT_1633:SMT_1634:formate--tetrahydrofolate ligase:2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase, putative:->->:1621051..1621213 163 tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1633:SMT_1634|SMT_1633:SMT_1634:formate--tetrahydrofolate ligase:2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase, putative:->->:1621051..1621213 163 tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1633:SMT_1634|SMT_1633:SMT_1634:formate--tetrahydrofolate ligase:2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase, putative:->->:1621051..1621213 163 tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Predict ORF larger than 30AA ================================================ tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac 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================================================ tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 55 HP_score: -4.2 Tail_Score: -3.6215 Start: 22 End: 49 Full_Region: tatctagataacaaa tgagcttgga ttaaaatc tccaaactca tttaaagtcaattac .....................tgagcttggattaaaatctccaaactca.................................................................................................................. Find igs database================================================ Query_seq: SMT_1633:SMT_1634|SMT_1633:SMT_1634:formate--tetrahydrofolate ligase:2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase, putative:->->:1621051..1621213 163 tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Intra-Species Hit: Count: 1 Min: 1 Max: 163 Len: 163 Subject: smit_SMT_1633_SMT_1634|formate--tetrahydrofolate ligase:2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase, putative|POSITIVE:POSITIVE|[1621051,1621213]|163 HSP 1 e-value: 8.0E-70 bit: 264.0 Len: 163 Query Start:1 Query End:163 Subject Strand: POSITIVE Subject Start: 1 Subject End: 163 tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac tagattgtaattgactttaaatgagtttggagattttaatccaagctcatttgttatctagatannnnnttaattaattaannnnngaagtctagtggctaagatctatgctttcagtgcagggggccagggtttgatccctagttagggaactggattctac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAUUGUAAUUGACUUUAAAUGAGUUUGGAGAUUUUAAUCCAAGCUCAUUUGUUAUCUAGAUANNNNNUUAAUUAAUUAANNNNNGAAGUCUAGUGGCUAAGAUCUAUGCUUUCAGUGCAGGGGGCCAGGGUUUGAUCCCUAGUUAGGGAACUGGAUUCUAC ((((.............((((((((((((((........))))))))))))))..((((((...........................((((....)))).((((((..(((..(......)..)))..))))))..(((((....))))).)))))))))). (-43.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAGAAUCCAGUUCCCUAACUAGGGAUCAAACCCUGGCCCCCUGCACUGAAAGCAUAGAUCUUAGCCACUAGACUUCNNNNNUUAAUUAAUUAANNNNNUAUCUAGAUAACAAAUGAGCUUGGAUUAAAAUCUCCAAACUCAUUUAAAGUCAAUUACAAUCUA ((((...((((.(((((....))))).......))))....))))..........(((((..(((...(((((.........((((....)))).......))))).....(((((((.(((((........))))).)))))))........)))..))))) (-29.99) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 150 101 184 114 smit:SMT_2001|5end_membrane_protease_protein_family_1923387..1923617_POSITIVE 336 157 116 67 23 smit:SMT_606|5end_cytochrome_c-type_biogenesis_protein_CcdA_519390..519620_POSITIVE 330 133 94 176 123 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 322 139 91 69 26 smit:SMT_464|5end_ribonuclease_Z_402867..403097_POSITIVE 321 140 92 60 15 smit:SMT_2083|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1982411..1982641_POSITIVE 320 139 91 227 184 smit:SMT_2044|5end_transcriptional_activator_TipA,_putative_1955885..1956115_NEGATIVE 320 139 91 212 169 smit:SMT_2016|5end_tyrosine_recombinase_1933425..1933655_NEGATIVE 320 139 91 185 142 smit:SMT_2008|5end_K07485_transposase_1928662..1928892_NEGATIVE 320 139 91 54 11 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 320 139 91 148 105 smit:SMT_1967|5end_dicarboxylate/amino_acid:cation_(Na+_or_H+)_symporter_(DAACS)_family_protein_1899683..1899913_NEGATIVE 320 139 91 148 105 smit:SMT_1961|5end_K07485_transposase_1894206..1894436_POSITIVE 320 139 91 148 105 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 320 139 91 192 149 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 320 139 91 183 140 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 320 139 91 148 105 smit:SMT_1690|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1674779..1675009_NEGATIVE 320 139 91 224 181 smit:SMT_1686|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1670175..1670405_POSITIVE 320 139 91 197 154 smit:SMT_1155|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_1099665..1099895_NEGATIVE 320 139 91 148 105 smit:SMT_779|5end_ribonuclease_BN,_putative_688530..688760_NEGATIVE 320 139 91 148 105 smit:SMT_388|5end_branched-chain_amino_acid_transport_system_II_carrier_protein_321172..321402_POSITIVE 318 150 104 208 143 smit:SMT_2006|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1926472..1926702_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 358 150 102 134 88 smit:SMT_1303|3end_tRNA-dihydrouridine_synthase_1264676..1264826_NEGATIVE 315 156 114 104 61 smit:SMT_2126|3end_indole-3-glycerol_phosphate_synthase_2009366..2009516_POSITIVE 312 156 115 80 23 smit:SMT_478|3end_hypothetical_protein_predicted_by_Glimmer/Critica_415257..415407_POSITIVE 304 135 94 131 86 smit:SMT_1169|3end_phosphorylase,_Pnp/UDP_family_1116586..1116736_NEGATIVE 298 140 91 60 4 smit:SMT_1190|3end_phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit_1147741..1147891_NEGATIVE 292 156 117 48 6 smit:SMT_1559|3end_6-phosphofructokinase_1544614..1544764_NEGATIVE 289 56 12 79 35 smit:SMT_1633|3end_formate--tetrahydrofolate_ligase_1620990..1621140_POSITIVE 288 128 87 51 6 smit:SMT_754|3end_3-dehydroquinate_synthase_657977..658127_NEGATIVE 288 137 91 143 89 smit:SMT_121|3end_hypothetical_protein_74414..74564_POSITIVE 284 140 91 148 80 smit:SMT_1886|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1841198..1841348_POSITIVE 284 149 102 66 18 smit:SMT_958|3end_hypothetical_protein_predicted_by_Glimmer/Critica_905239..905389_POSITIVE 282 136 98 39 1 smit:SMT_1421|3end_K02003_1406584..1406734_NEGATIVE 278 157 111 95 36 smit:SMT_2006|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1926803..1926953_POSITIVE 276 149 101 75 36 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 274 149 102 77 29 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 274 149 102 66 18 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 274 149 102 77 29 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 274 149 102 82 34 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 274 149 102 66 18 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 274 149 102 77 29 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE