Origin IGS: ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatgaccggttcagatggataagttggaatttatggaggtgaattataaaatctatatggaataattggttaaaacaggcggtttttctttactcggcactatacacagttgcaaccatttttaatagcgtgctataccttttgaatggaacttacgaagaccctaatggaaattggcatgaattggacagagcaatcattgtatttatcatcactcttgcatacacattgattaaaaatttaaagctgaaaaattactggctcaaggctgccgtcgtatatgttccgacactcttgcttgtgtttggatatatttggctaacaggacttagagaacctctagcgtcctcagcgtatagagatatattcataaattatacgataggttatgcagcggcctcattagtcggttggatcaaaacccgtatcagacctaaaaagacggaaaacaaataaagagaatatgtaaagctcttgcattataaacgctaagcctgtataatcc Mask Tandem Repeat Region ================================================ ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Find is-nt database================================================ Query_seq: TDE0342:TDE0343|TDE0342:TDE0343:integral membrane protein MviN:hydrolase, alpha/beta fold family:<-<-:383832..384336 505 ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0342:TDE0343|TDE0342:TDE0343:integral membrane protein MviN:hydrolase, alpha/beta fold family:<-<-:383832..384336 505 ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0342:TDE0343|TDE0342:TDE0343:integral membrane protein MviN:hydrolase, alpha/beta fold family:<-<-:383832..384336 505 ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 135 End: 248 ...................................................................................................................................... M N I S L Y A E D A R G S L S P V S Q I Y P N T S K S V G T Y T T A A L S Q ................................................................................................................................................................................................................................................................. Protein_Len: 35 Strand: + Start: 266 End: 370 ......................................................................................................................................................................................................................................................................... M F N Q C V C K S D D K Y N D C S V Q F M P I S I R V F V S S I Q K V ....................................................................................................................................... Protein_Len: 60 Strand: - Start: 53 End: 463 .................................................... A L T I I F V I I A R D L E H W N G N P D E Y T G N L L Y L V S N F I T A V T Y L A S Y L F V A Q K L W N N W I S K I M .......................................... ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt 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: 84 Start: 3 End: 32 ..CTTGCATTATAAACGCTAAGCCTGTATAAT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 454 End: 483 .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGAATTTATGGAGGTGAATTATAAAAT...................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0342:TDE0343|TDE0342:TDE0343:integral membrane protein MviN:hydrolase, alpha/beta fold family:<-<-:383832..384336 505 ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Intra-Species Hit: Count: 1 Min: 1 Max: 505 Len: 505 Subject: NC_002967_TDE0342_TDE0343|integral membrane protein MviN:hydrolase, alpha/beta fold family|NEGATIVE:NEGATIVE|[383832,384336]|505 HSP 1 e-value: 0.0 bit: 1001.0 Len: 505 Query Start:1 Query End:505 Subject Strand: POSITIVE Subject Start: 1 Subject End: 505 ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt ggattatacaggcttagcgtttataatgcaagagctttacatattctctttatttgttttccgtctttttaggtctgatacgggttttgatccaaccgactaatgaggccgctgcataacctatcgtataatttatgaatatatctctatacgctgaggacgctagaggttctctaagtcctgttagccaaatatatccaaacacaagcaagagtgtcggaacatatacgacggcagccttgagccagtaatttttcagctttaaatttttaatcaatgtgtatgcaagagtgatgataaatacaatgattgctctgtccaattcatgccaatttccattagggtcttcgtaagttccattcaaaaggtatagcacgctattaaaaatggttgcaactgtgtatagtgccgagtaaagaaaaaccgcctgttttaaccaattattccatatagattttataattcacctccataaattccaacttatccatctgaaccggtcatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAUUAUACAGGCUUAGCGUUUAUAAUGCAAGAGCUUUACAUAUUCUCUUUAUUUGUUUUCCGUCUUUUUAGGUCUGAUACGGGUUUUGAUCCAACCGACUAAUGAGGCCGCUGCAUAACCUAUCGUAUAAUUUAUGAAUAUAUCUCUAUACGCUGAGGACGCUAGAGGUUCUCUAAGUCCUGUUAGCCAAAUAUAUCCAAACACAAGCAAGAGUGUCGGAACAUAUACGACGGCAGCCUUGAGCCAGUAAUUUUUCAGCUUUAAAUUUUUAAUCAAUGUGUAUGCAAGAGUGAUGAUAAAUACAAUGAUUGCUCUGUCCAAUUCAUGCCAAUUUCCAUUAGGGUCUUCGUAAGUUCCAUUCAAAAGGUAUAGCACGCUAUUAAAAAUGGUUGCAACUGUGUAUAGUGCCGAGUAAAGAAAAACCGCCUGUUUUAACCAAUUAUUCCAUAUAGAUUUUAUAAUUCACCUCCAUAAAUUCCAACUUAUCCAUCUGAACCGGUCAUU ((((...((((((...((((.....)))).....((((((.....(((((....(((((........(((.((.((((((.((((....))))....((((...((((((.((((........(((((.....))))).....((((........))))..)).)).)).))))..)))).))))))))))).......))))).....)))))..((((.(((((((((...((((((..((((.............))))...(((((((((...(((((((((.((((..((.((.......)).))..))))..........(((.((..(((....)))..)).)))...............)))).)))))..)))))))))))))))...))))))).)).)))))))))).......)))))).....................((.(((((...........))))).))......))))................ (-102.08) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGACCGGUUCAGAUGGAUAAGUUGGAAUUUAUGGAGGUGAAUUAUAAAAUCUAUAUGGAAUAAUUGGUUAAAACAGGCGGUUUUUCUUUACUCGGCACUAUACACAGUUGCAACCAUUUUUAAUAGCGUGCUAUACCUUUUGAAUGGAACUUACGAAGACCCUAAUGGAAAUUGGCAUGAAUUGGACAGAGCAAUCAUUGUAUUUAUCAUCACUCUUGCAUACACAUUGAUUAAAAAUUUAAAGCUGAAAAAUUACUGGCUCAAGGCUGCCGUCGUAUAUGUUCCGACACUCUUGCUUGUGUUUGGAUAUAUUUGGCUAACAGGACUUAGAGAACCUCUAGCGUCCUCAGCGUAUAGAGAUAUAUUCAUAAAUUAUACGAUAGGUUAUGCAGCGGCCUCAUUAGUCGGUUGGAUCAAAACCCGUAUCAGACCUAAAAAGACGGAAAACAAAUAAAGAGAAUAUGUAAAGCUCUUGCAUUAUAAACGCUAAGCCUGUAUAAUCC ..((((((((((..((((((...(((.(((((((....))))))).))).))))))...))))...))))))..((((((...(((((((((.(((((..........(((((((.....((((((..(((((((..((........)).............((....))....))))))).))))))..((....))...................))))).))...((((........)))).)))))......(((((((..(((((((.((((.((((((((.(((((........))))).)))))))).))))((((.((((((((((...)))))).))))....(((((((..((......))...)))))))....))))....)))))))....)))))))...........((((...............))))........)))))))))..(((((.((....)).)))))........))))))....... (-114.26) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 991 120 71 211 162 NC_002967:TDE0342|5end_integral_membrane_protein_MviN_383741..383971_NEGATIVE 342 260 214 67 12 NC_002967:TDE2543|5end_hypothetical_protein_2570950..2571180_NEGATIVE 342 260 214 191 136 NC_002967:TDE2542|5end_antigen,_putative_2570826..2571056_NEGATIVE 338 125 81 53 11 NC_002967:TDE2467|5end_hypothetical_protein_2490930..2491160_NEGATIVE 332 381 344 96 54 NC_002967:TDE1690|5end_hypothetical_protein_1747200..1747430_NEGATIVE 323 357 313 108 68 NC_002967:TDE1459|5end_hypothetical_protein_1508707..1508937_NEGATIVE 320 220 179 61 18 NC_002967:TDE0059|5end_hypothetical_protein_67294..67524_POSITIVE 316 127 81 45 1 NC_002967:TDE1405|5end_phosphoribosylformylglycinamidine_synthetase_I_1448674..1448904_NEGATIVE 310 100 56 134 97 NC_002967:TDE0178|5end_methyl-accepting_chemotaxis_protein_212628..212858_NEGATIVE 309 245 208 59 18 NC_002967:TDE1886|5end_MiaB-like_tRNA_modifying_enzyme_1908488..1908718_NEGATIVE 309 170 121 155 101 NC_002967:TDE0977|5end_hypothetical_protein_1000415..1000645_POSITIVE 309 199 151 181 125 NC_002967:TDE0944|5end_hypothetical_protein_966247..966477_POSITIVE 306 218 174 133 77 NC_002967:TDE2426|5end_transcription_antitermination_protein_NusG_2455799..2456029_NEGATIVE 304 420 373 180 133 NC_002967:TDE2040|5end_lipoprotein_releasing_system,_ATP-binding_protein_2070221..2070451_NEGATIVE 302 115 71 106 67 NC_002967:TDE2464|5end_hypothetical_protein_2489143..2489373_POSITIVE 299 246 211 159 127 NC_002967:TDE0988|5end_oligopeptide/dipeptide_ABC_transporter,_peptide-binding_protein_1015082..1015312_POSITIVE 299 89 43 187 143 NC_002967:TDE0867|5end_hypothetical_protein_888542..888772_POSITIVE 298 128 81 125 67 NC_002967:TDE2028|5end_OmpA_family_protein_2052923..2053153_POSITIVE 297 238 194 230 189 NC_002967:TDE2140|5end_protease_II_2175140..2175370_NEGATIVE 294 130 95 229 194 NC_002967:TDE2516|5end_hypothetical_protein_2542021..2542251_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 260 214 82 27 NC_002967:TDE2544|3end_hypothetical_protein_2570935..2571085_NEGATIVE 323 357 313 108 68 NC_002967:TDE1460|3end_hypothetical_protein_1508707..1508857_NEGATIVE 320 220 179 85 42 NC_002967:TDE0058|3end_hypothetical_protein_67398..67548_POSITIVE 310 280 231 149 112 NC_002967:TDE0948|3end_hypothetical_protein_970959..971109_NEGATIVE 309 245 208 55 14 NC_002967:TDE1887|3end_TPR_domain_protein_1908492..1908642_NEGATIVE 309 199 151 126 70 NC_002967:TDE0943|3end_hypothetical_protein_966272..966422_POSITIVE 306 218 174 129 73 NC_002967:TDE2427|3end_preprotein_translocase,_SecE_subunit_2455803..2455953_NEGATIVE 302 115 71 76 37 NC_002967:TDE2463|3end_hypothetical_protein_2489193..2489343_POSITIVE 299 246 211 74 42 NC_002967:TDE0987|3end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_1015077..1015227_POSITIVE 298 128 81 120 62 NC_002967:TDE2027|3end_hypothetical_protein_2052998..2053148_POSITIVE 293 265 228 58 9 NC_002967:TDE1746|3end_hypothetical_protein_1799474..1799624_NEGATIVE 287 189 143 108 51 NC_002967:TDE1263|3end_hypothetical_protein_1298136..1298286_POSITIVE 283 200 152 90 32 NC_002967:TDE1637|3end_DNA_polymerase_I_1688962..1689112_POSITIVE 282 200 153 85 36 NC_002967:TDE1546|3end_hypothetical_protein_1591204..1591354_POSITIVE 280 109 62 142 99 NC_002967:TDE1960|3end_hypothetical_protein_1974569..1974719_POSITIVE 280 250 207 47 6 NC_002967:TDE0480|3end_alpha-L-fucosidase_family_protein_538205..538355_POSITIVE 278 190 147 101 43 NC_002967:TDE2029|3end_hydrolase,_TatD_family_2057148..2057298_NEGATIVE 278 98 53 150 99 NC_002967:TDE1719|3end_transcriptional_regulator,_MarR_family_1774546..1774696_POSITIVE 278 260 211 137 59 NC_002967:TDE1056|3end_hypothetical_protein_1085895..1086045_POSITIVE 277 128 85 62 26 NC_002967:TDE2503|3end_hypothetical_protein_2529079..2529229_POSITIVE