Origin IGS: aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat .........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 attgtgtatactgataaaaattttaaatcaaaaggaggaagtcgcaatgaaacaaatactaacaacaactatgagatattggcaaaactggcataggtaaagttgtgtgtatgttagacatagatacaacttttagtgtactctaaaaagtatctatgtcagcgatatagaaatccttaatatatatggataaaagctgcatggtaaattaattaactatgtggcttttctttttagagttttatattatcaaaataaaaatctaggaggaaaaaatt Mask Tandem Repeat Region ================================================ aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Find is-nt database================================================ Query_seq: FN0317:FN0318|FN0317:FN0318:tryptophan synthase subunit beta:CITX protein:<-<-:955097..955374 278 aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0317:FN0318|FN0317:FN0318:tryptophan synthase subunit beta:CITX protein:<-<-:955097..955374 278 aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0317:FN0318|FN0317:FN0318:tryptophan synthase subunit beta:CITX protein:<-<-:955097..955374 278 aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 150 End: 248 ..................................................................................................................................................... M Y L C L T Y T Q L Y L C Q F C Q Y L I V V V S I C F I A T S S F .............................. Protein_Len: 31 Strand: - Start: 186 End: 278 ......................................................................................................................................................................................... A L K A L I E Y N N N T N T E N R S G G K S K F N K D T Y V M Protein_Len: 32 Strand: - Start: 182 End: 277 ..................................................................................................................................................................................... R H W N Q W Y R M T T T L I Q K M A V E E K Q N L I K I L I C M . aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat 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================================================ aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 76 HP_score: -4.3 Tail_Score: -5.27023 Start: 54 End: 83 Full_Region: tatatatggataaaa gctgcatggtaaa ttaa ttaactatgtggc ttttctttttagagt .....................................................gctgcatggtaaattaattaactatgtggc................................................................................................................................................................................................... TransTerm Strand: - Conf: 81 HP_score: -8.3 Tail_Score: -4.38171 Start: 149 End: 177 Full_Region: actggcataggtaaa gttgtgtgtatgt tag acatagatacaac ttttagtgtactcta ....................................................................................................................................................gttgtgtgtatgttagacatagatacaac..................................................................................................... Find igs database================================================ Query_seq: FN0317:FN0318|FN0317:FN0318:tryptophan synthase subunit beta:CITX protein:<-<-:955097..955374 278 aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Intra-Species Hit: Count: 1 Min: 1 Max: 278 Len: 278 Subject: NC_003454_FN0317_FN0318|tryptophan synthase subunit beta:CITX protein|NEGATIVE:NEGATIVE|[955097,955374]|278 HSP 1 e-value: 1.0E-156 bit: 551.0 Len: 278 Query Start:1 Query End:278 Subject Strand: POSITIVE Subject Start: 1 Subject End: 278 aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat aattttttcctcctagatttttattttgataatataaaactctaaaaagaaaagccacatagttaattaatttaccatgcagcttttatccatatatattaaggatttctatatcgctgacatagatactttttagagtacactaaaagttgtatctatgtctaacatacacacaactttacctatgccagttttgccaatatctcatagttgttgttagtatttgtttcattgcgacttcctccttttgatttaaaatttttatcagtatacacaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUUUCCUCCUAGAUUUUUAUUUUGAUAAUAUAAAACUCUAAAAAGAAAAGCCACAUAGUUAAUUAAUUUACCAUGCAGCUUUUAUCCAUAUAUAUUAAGGAUUUCUAUAUCGCUGACAUAGAUACUUUUUAGAGUACACUAAAAGUUGUAUCUAUGUCUAACAUACACACAACUUUACCUAUGCCAGUUUUGCCAAUAUCUCAUAGUUGUUGUUAGUAUUUGUUUCAUUGCGACUUCCUCCUUUUGAUUUAAAAUUUUUAUCAGUAUACACAAU .......((((..((((.((((((.........)))))).)))).....((((((..(((.((..........)).)))..))))))..............))))........((((.((((((((((((((((((......)))))))..)))))))))))....((((..(((((.....(((((..((............)))))))..)))))..))))..........))))..........(((((...........))))).......... (-44.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUGUAUACUGAUAAAAAUUUUAAAUCAAAAGGAGGAAGUCGCAAUGAAACAAAUACUAACAACAACUAUGAGAUAUUGGCAAAACUGGCAUAGGUAAAGUUGUGUGUAUGUUAGACAUAGAUACAACUUUUAGUGUACUCUAAAAAGUAUCUAUGUCAGCGAUAUAGAAAUCCUUAAUAUAUAUGGAUAAAAGCUGCAUGGUAAAUUAAUUAACUAUGUGGCUUUUCUUUUUAGAGUUUUAUAUUAUCAAAAUAAAAAUCUAGGAGGAAAAAAUU .(..((((((.((((...........)))).(((((....(((((.....((((.((((..(((((..(((((.....((....)).....))))).....))))))))).)))).(((((((((((...((((((......)))))).))))))))))).))))).......)))))..))))))..)...(((((..((((((..........))))))..)))))((((((((((.((((((.........)))))).))))))))))....... (-71.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 785 120 71 211 162 NC_003454:FN0317|5end_tryptophan_synthase_subunit_beta_955006..955236_NEGATIVE 290 120 75 120 78 NC_003454:FN0133|5end_hypothetical_protein_769121..769351_POSITIVE 287 248 203 108 59 NC_003454:FN1237|5end_Choline_kinase_1895057..1895287_NEGATIVE 254 247 204 136 87 NC_003454:FN1792|5end_hypothetical_protein_273264..273494_NEGATIVE 251 200 156 205 166 NC_003454:FN2122|5end_Phenylalanyl-tRNA_synthetase_beta_chain_632194..632424_NEGATIVE 247 269 224 127 84 NC_003454:FN1978|5end_Cell_division_protein_ftsH_479479..479709_POSITIVE 241 123 82 207 160 NC_003454:FN1392|5end_SSU_ribosomal_protein_S16P_2049459..2049689_NEGATIVE 239 248 210 68 33 NC_003454:FN1537|5end_Arsenical_pump-driving_ATPase_51112..51342_NEGATIVE 233 246 205 101 58 NC_003454:FN1379|5end_Citrate_lyase_beta_chain_2026355..2026585_POSITIVE 233 250 206 194 157 NC_003454:FN1608|5end_Ribosomal_protein_L11_methyltransferase_118847..119077_NEGATIVE 232 247 209 104 62 NC_003454:FN1909|5end_UDP-3-O-[3-hydroxymyristoyl]_glucosamine_N-acyltransferase_402710..402940_NEGATIVE 229 254 211 114 73 NC_003454:FN1171|5end_Acetate_kinase_1833561..1833791_NEGATIVE 223 261 221 118 82 NC_003454:FN1764|5end_Enolase_257997..258227_NEGATIVE 223 248 211 106 69 NC_003454:FN1536|5end_(S)-2-hydroxy-acid_oxidase_chain_D_49718..49948_NEGATIVE 222 250 201 156 112 NC_003454:FN1464|5end_1-deoxy-D-xylulose-5-phosphate_synthase_2147705..2147935_NEGATIVE 221 106 61 57 8 NC_003454:FN0383|5end_Lipopolysaccharide_N-acetylglucosaminyltransferase_1014148..1014378_POSITIVE 220 246 206 74 37 NC_003454:FN0063|5end_hypothetical_protein_698982..699212_POSITIVE 217 200 168 57 23 NC_003454:FN1860|5end_NA+/H+_antiporter_NHAC_351477..351707_NEGATIVE 216 246 203 62 14 NC_003454:FN1723|5end_glucose-inhibited_division_protein_A_222645..222875_NEGATIVE 215 249 206 108 67 NC_003454:FN2085|5end_hypothetical_protein_597045..597275_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 290 120 75 102 60 NC_003454:FN0132|3end_Hemolysin_769183..769333_POSITIVE 247 269 224 130 87 NC_003454:FN1977|3end_Cell_cycle_protein_MesJ_479562..479712_POSITIVE 239 248 210 71 36 NC_003454:FN1538|3end_Arsenical_pump-driving_ATPase_51109..51259_NEGATIVE 237 230 181 80 34 NC_003454:FN1687|3end_Gluconate_5-dehydrogenase_182900..183050_NEGATIVE 233 246 205 92 49 NC_003454:FN1378|3end_Citrate_lyase_acyl_carrier_protein_2026426..2026576_POSITIVE 232 247 209 79 37 NC_003454:FN1910|3end_hypothetical_protein_402735..402885_NEGATIVE 229 254 211 63 22 NC_003454:FN1172|3end_Phosphate_acetyltransferase_1833612..1833762_NEGATIVE 223 261 221 92 56 NC_003454:FN1765|3end_pyruvate_kinase_258023..258173_NEGATIVE 221 106 61 53 4 NC_003454:FN0382|3end_hypothetical_protein_1014224..1014374_POSITIVE 216 246 203 53 5 NC_003454:FN1724|3end_Potassium_uptake_protein_KtrA_222654..222804_NEGATIVE 214 256 218 56 12 NC_003454:FN1249|3end_Transcriptional_regulator,_DeoR_family_1905297..1905447_NEGATIVE 212 240 204 54 11 NC_003454:FN0545|3end_Lipopolysaccharide_core_biosynthesis_protein_rfaY_1198717..1198867_POSITIVE 210 251 219 86 52 NC_003454:FN0717|3end_Ribosomal_small_subunit_pseudouridine_synthase_A_1375673..1375823_POSITIVE 210 263 223 48 3 NC_003454:FN1858|3end_Short-chain_fatty_acids_transporter_346896..347046_NEGATIVE 207 118 82 150 109 NC_003454:FN1393|3end_Signal_recognition_particle,_subunit_FFH/SRP54_2049510..2049660_NEGATIVE 206 265 224 102 60 NC_003454:FN0807|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1467157..1467307_NEGATIVE 205 22 2 126 106 NC_003454:FN1154|3end_Ribonuclease_BN_1809502..1809652_POSITIVE 205 41 1 105 59 NC_003454:FN0958|3end_hypothetical_protein_1613617..1613767_NEGATIVE 205 214 186 62 28 NC_003454:FN0437|3end_Allophanate_hydrolase_1078854..1079004_NEGATIVE 205 25 4 92 71 NC_003454:FN0091|3end_Phosphoserine_phosphatase_727968..728118_POSITIVE