Origin IGS: ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 agtgcaacctcctttttacttatattataccacatgaaacgaattgttcgtaaaacgttgttgtttaaataatacaattgtatacgcatatgttataaatttctgaactcatcaaactctcgatgatctctctttactaaaagtttcgagtaaaataaaccaatcatacaaattgacaatcctaattaaaataaatatcatataggtatgttatgtaatactttgtattttttaaggtgtttttttgtcatataaaacttgtattctatttat Mask Tandem Repeat Region ================================================ ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Find is-nt database================================================ Query_seq: SMT_1599:SMT_1600|SMT_1599:SMT_1600:putative transcriptional regulator:malolactic enzyme:<-->:1589808..1590080 273 ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1599:SMT_1600|SMT_1599:SMT_1600:putative transcriptional regulator:malolactic enzyme:<-->:1589808..1590080 273 ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1599:SMT_1600|SMT_1599:SMT_1600:putative transcriptional regulator:malolactic enzyme:<-->:1589808..1590080 273 ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Predict ORF larger than 30AA ================================================ ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact 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: 85 Start: 73 End: 102 ........................................................................ATTGACAATCCTAATTAAAATAAATATCAT........................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1599:SMT_1600|SMT_1599:SMT_1600:putative transcriptional regulator:malolactic enzyme:<-->:1589808..1590080 273 ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Intra-Species Hit: Count: 1 Min: 1 Max: 273 Len: 273 Subject: smit_SMT_1599_SMT_1600|putative transcriptional regulator:malolactic enzyme|NEGATIVE:POSITIVE|[1589808,1590080]|273 HSP 1 e-value: 1.0E-140 bit: 500.0 Len: 273 Query Start:1 Query End:273 Subject Strand: POSITIVE Subject Start: 1 Subject End: 273 ataaatagaatacaagttttatatgacnnnnnnncaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact ataaatagaatacaagttttatatgacaaaaaaacaccttaaaaaatacaaagtattacataacatacctatatgatatttattttaattaggattgtcaatttgtatgattggtttattttactcgaaacttttagtaaagagagatcatcgagagtttgatgagttcagaaatttataacatatgcgtatacaattgtattatttaaacaacaacgttttacgaacaattcgtttcatgtggtataatataagtaaaaaggaggttgcact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAAUAGAAUACAAGUUUUAUAUGACAAAAAAACACCUUAAAAAAUACAAAGUAUUACAUAACAUACCUAUAUGAUAUUUAUUUUAAUUAGGAUUGUCAAUUUGUAUGAUUGGUUUAUUUUACUCGAAACUUUUAGUAAAGAGAGAUCAUCGAGAGUUUGAUGAGUUCAGAAAUUUAUAACAUAUGCGUAUACAAUUGUAUUAUUUAAACAACAACGUUUUACGAACAAUUCGUUUCAUGUGGUAUAAUAUAAGUAAAAAGGAGGUUGCACU ....(((((((....))))))).............(((((......(((.(((((.((((....((((.((((((.(((..(((((...........((((((.....))))))....(((((((.((....)).))))))).(((.(((((((....))))))).))).)))))..))).)))))).)))).....)))).))))).....((.((((...((((.....))))...)))).)).........))).....)))))...... (-41.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUGCAACCUCCUUUUUACUUAUAUUAUACCACAUGAAACGAAUUGUUCGUAAAACGUUGUUGUUUAAAUAAUACAAUUGUAUACGCAUAUGUUAUAAAUUUCUGAACUCAUCAAACUCUCGAUGAUCUCUCUUUACUAAAAGUUUCGAGUAAAAUAAACCAAUCAUACAAAUUGACAAUCCUAAUUAAAAUAAAUAUCAUAUAGGUAUGUUAUGUAAUACUUUGUAUUUUUUAAGGUGUUUUUUUGUCAUAUAAAACUUGUAUUCUAUUUAU (((((((......((((((((...(((((.((.(((((((((..((((.....))))...)))))).....((((....))))...))).)).)))))......((..(((((........)))))..)).................))))))))..................((((((...........(((((((((.....))))).))))..(((((((((.......)))))))))...))))))........)))))))........ (-36.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 709 140 91 231 182 smit:SMT_1599|5end_putative_transcriptional_regulator_1589717..1589947_NEGATIVE 231 170 131 151 117 smit:SMT_674|5end_K07010_putative_glutamine_amidotransferase_581561..581791_POSITIVE 226 168 124 181 131 smit:SMT_549|5end_hypothetical_cytosolic_protein_467057..467287_POSITIVE 224 270 239 58 21 smit:SMT_1446|5end_pneumococcal_vaccine_antigen_A_1429610..1429840_NEGATIVE 224 269 230 149 101 smit:SMT_1073|5end_L-asparaginase_1011209..1011439_POSITIVE 218 115 81 43 12 smit:SMT_678|5end_K04096_DNA_processing_protein_588295..588525_NEGATIVE 216 230 182 196 152 smit:SMT_188|5end_LSU_ribosomal_protein_L30P_123505..123735_POSITIVE 215 167 131 201 162 smit:SMT_2105|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1996458..1996688_POSITIVE 215 169 127 164 128 smit:SMT_1494|5end_nucleoside_diphosphate_kinase_1479500..1479730_POSITIVE 211 169 124 135 95 smit:SMT_2071|5end_phosphoenolpyruvate_carboxylase_1975887..1976117_NEGATIVE 210 165 126 184 139 smit:SMT_1039|5end_tRNA_(uracil-5-)_-methyltransferase_982698..982928_NEGATIVE 206 127 90 95 58 smit:SMT_1079|5end_dihydropteroate_synthase_1017659..1017889_NEGATIVE 206 161 124 44 2 smit:SMT_258|5end_alpha-glucosidase,_family_31_of_glycosyl_hydrolase_195049..195279_POSITIVE 204 171 146 203 177 smit:SMT_2000|5end_hypothetical_protein_1923108..1923338_NEGATIVE 204 270 229 106 62 smit:SMT_472|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_409494..409724_NEGATIVE 204 270 229 106 62 smit:SMT_469|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_405812..406042_NEGATIVE 203 138 91 109 59 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 199 170 124 56 8 smit:SMT_1829|5end_hypothetical_protein_1798156..1798386_POSITIVE 198 78 49 58 29 smit:SMT_2162|5end_hypothetical_protein_2036931..2037161_POSITIVE 197 137 93 54 10 smit:SMT_1013|5end_galactose-1-phosphate_uridylyltransferase_950626..950856_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 231 170 131 133 99 smit:SMT_673|3end_K01926_AT-rich_DNA-binding_protein_581623..581773_POSITIVE 226 168 124 83 33 smit:SMT_548|3end_K02035_peptide/nickel_transport_system_substrate-binding_protein_467039..467189_POSITIVE 224 270 239 58 21 smit:SMT_1447|3end_hypothetical_protein_1429610..1429760_NEGATIVE 215 169 127 78 42 smit:SMT_1493|3end_DNA-directed_RNA_polymerase,_beta'_subunit/160_kD_subunit_1479494..1479644_POSITIVE 211 169 124 42 2 smit:SMT_2072|3end_exonuclease_RexA_1975980..1976130_NEGATIVE 206 161 124 47 5 smit:SMT_257|3end_predicted_integral_membrane_protein_195132..195282_POSITIVE 205 158 117 127 87 smit:SMT_120|3end_hypothetical_protein_72943..73093_POSITIVE 204 172 144 64 34 smit:SMT_1789|3end_hypothetical_protein_1765511..1765661_POSITIVE 203 138 91 99 49 smit:SMT_946|3end_hypothetical_protein_895918..896068_NEGATIVE 203 155 113 51 19 smit:SMT_517|3end_hypothetical_protein_443191..443341_POSITIVE 199 265 224 64 28 smit:SMT_1899|3end_hypothetical_protein_1850337..1850487_POSITIVE 198 169 124 61 22 smit:SMT_363|3end_K02519_translation_initiation_factor_IF-2_300751..300901_POSITIVE 196 184 149 90 54 smit:SMT_1896|3end_lysine_decarboxylase_1848073..1848223_NEGATIVE 196 128 91 125 77 smit:SMT_121|3end_hypothetical_protein_74414..74564_POSITIVE 195 169 126 60 18 smit:SMT_177|3end_K02878_large_subunit_ribosomal_protein_L16_119231..119381_POSITIVE 195 267 235 91 61 smit:SMT_161|3end_putative_folyl-polyglutamate_synthetase_106586..106736_POSITIVE 194 133 91 124 79 smit:SMT_1195|3end_amidophosphoribosyltransferase_1153376..1153526_NEGATIVE 194 270 229 69 25 smit:SMT_477|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_414232..414382_NEGATIVE 191 160 111 138 96 smit:SMT_726|3end_ImpB/MucB/SamB_family_protein_630412..630562_NEGATIVE 190 131 92 77 34 smit:SMT_313|3end_3R-hydroxymyristoyl_ACP_dehydrase_254345..254495_POSITIVE