Origin IGS: gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca .........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.........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 tgatttttacataatttatgttatgtaaaaaataaacttcttaattaaatatattagaaaaccgattctcagcaatgagatcggttatttttacatataagatatttcacgtacaaataattgagctttggaaaaataagactataattaagttagaattgataatgcataaagctagaaaggagtttactgtataaaatctgtacagtaagattaaaatcatgaaaaagaaaacaatagcaattatacaatgtattttgtatcccatagctccttacacagctcttcagttaagtagaatgaacagaagtatcgttactgataatctcttttttattttccttattctgttgactatttcattctggtttagtatttggaaactagaaaaagcactagataatgattcacaatgaaactgcaaagatttaaatccattttacgcaaaaactggaaaattttgtactttttcctaaacagtggataagcccttgatacaactgggtttaagacgtaaagtacactctctaaaaattgtactttataattgaaatgtactttattttaaggcaagataaagtacattttcactaaactaaaatgaacatttgaaaaatttcagtttttactttgataacgtacatttttagctatttttgttcaaaaaaatttttttagtaattgggacgatttaagtcttttttatcacttttaaaaaaactctatgacatctttctgaaaaactataattttcttgaaaaataaataagtctatgctatactactagtagacttatttatggagaaaatac Mask Tandem Repeat Region ================================================ gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Find is-nt database================================================ Query_seq: SMT_1405:SMT_1406|SMT_1405:SMT_1406:tyrosine recombinase:chloride channel protein:<-<-:1383241..1384052 812 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1405:SMT_1406|SMT_1405:SMT_1406:tyrosine recombinase:chloride channel protein:<-<-:1383241..1384052 812 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1405:SMT_1406|SMT_1405:SMT_1406:tyrosine recombinase:chloride channel protein:<-<-:1383241..1384052 812 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 333 End: 440 ............................................................................................................................................................................................................................................................................................................................................ M F R K K Y K I F Q F L R K M D L N L C S F I V N H Y L V L F L V S K Y .................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 45 Strand: + Start: 389 End: 523 .................................................................................................................................................................................................................................................................................................................................................................................................... M Q F H C E S L S S A F S S F Q I L N Q N E I V N R I R K I K K R L S V T I L L F I L L N ................................................................................................................................................................................................................................................................................................. Protein_Len: 45 Strand: + Start: 523 End: 657 .......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M K S C V R S Y G I Q N T L Y N C Y C F L F H D F N L T V Q I L Y S K L L S S F M H Y Q F ........................................................................................................................................................... Protein_Len: 53 Strand: + Start: 545 End: 703 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ M G Y K I H C I I A I V F F F M I L I L L Y R F Y T V N S F L A L C I I N S N L I I V L F F Q S S I I C T ............................................................................................................. Protein_Len: 48 Strand: - Start: 619 End: 762 .......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... V T F E K R A K H M I L E L K I I T K N K W L E I I Q V H F I K Y T F I V S R M A S F R N E L M .................................................. Protein_Len: 60 Strand: - Start: 400 End: 612 ............................................................................................................................................................................................................................................................................................................................................................................................................... W I S F W F S I T L L I L F I F F L N D T V I S R N M R S L Q L A T Y P A I P Y L I C Q I I A I T K K K M I K I K S Y M ........................................................................................................................................................................................................ gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca 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: 89 Start: 30 End: 59 .............................CTTGAAAAATAAATAAGTCTATGCTATACT................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 293 End: 322 ....................................................................................................................................................................................................................................................................................................CTTGATACAACTGGGTTTAAGACGTAAAGT.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 237 End: 266 ............................................................................................................................................................................................................................................ATTGAAATGTACTTTATTTTAAGGCAAGAT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 76 HP_score: -7.8 Tail_Score: -3.80893 Start: 229 End: 259 Full_Region: TTAGTTTAGTGAAAA TGTACTTTATCTTG CCT TAAAATAAAGTACA TTTCAATTATAAAGT ....................................................................................................................................................................................................................................TGTACTTTATCTTGCCTTAAAATAAAGTACA......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 84 HP_score: -9.3 Tail_Score: -4.1899 Start: 229 End: 259 Full_Region: actttataattgaaa tgtactttatttt aaggc aagataaagtaca ttttcactaaactaa ....................................................................................................................................................................................................................................tgtactttattttaaggcaagataaagtaca......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 70 HP_score: -5.4 Tail_Score: -4.70659 Start: 726 End: 754 Full_Region: attaaatatattaga aaaccgattctca gcaa tgagatcggtta tttttacatataaga .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................aaaccgattctcagcaatgagatcggtta.......................................................... TransTerm Strand: + Conf: 78 HP_score: -7.1 Tail_Score: -4.55673 Start: 729 End: 751 Full_Region: TATATGTAAAAATAA CCGATCTCA TTGC TGAGAATCGG TTTTCTAATATATTT ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCGATCTCATTGCTGAGAATCGG............................................................. TransTerm Strand: - Conf: 76 HP_score: -7.1 Tail_Score: -4.46215 Start: 729 End: 751 Full_Region: aaatatattagaaaa ccgattctca gcaa tgagatcgg ttatttttacatata ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ccgattctcagcaatgagatcgg............................................................. Find igs database================================================ Query_seq: SMT_1405:SMT_1406|SMT_1405:SMT_1406:tyrosine recombinase:chloride channel protein:<-<-:1383241..1384052 812 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagagtttttttaaaagtgataaaaaagacttaaatcgtcccaattactaaaaaaatttttttgaacaaaaatagctaaaaatgtacgttatcaaagtaaaaactgaaatttttcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Intra-Species Hit: Count: 2 Min: 1 Max: 812 Len: 812 Subject: smit_SMT_1405_SMT_1406|tyrosine recombinase:chloride channel protein|NEGATIVE:NEGATIVE|[1383241,1384052]|812 HSP 1 e-value: 0.0 bit: 1213.0 Len: 612 Query Start:201 Query End:812 Subject Strand: POSITIVE Subject Start: 201 Subject End: 812 ........................................................................................................................................................................................................tcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca ........................................................................................................................................................................................................tcaaatgttcattttagtttagtgaaaatgtactttatcttgccttaaaataaagtacatttcaattataaagtacaatttttagagagtgtactttacgtcttaaacccagttgtatcaagggcttatccactgtttaggaaaaagtacaaaattttccagtttttgcgtaaaatggatttaaatctttgcagtttcattgtgaatcattatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca HSP 2 e-value: 1.0E-44 bit: 182.0 Len: 92 Query Start:1 Query End:92 Subject Strand: POSITIVE Subject Start: 1 Subject End: 92 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagag................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatagag................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ Subject: smit_SMT_2076_SMT_2077|hypothetical protein predicted by Glimmer/Critica:chloride channel protein|NEGATIVE:NEGATIVE|[1978683,1979228]|546 HSP 1 e-value: 0.0 bit: 799.0 Len: 403 Query Start:410 Query End:812 Subject Strand: POSITIVE Subject Start: 144 Subject End: 546 .........................................................................................................................................................................................................................................................................................................................................................................................................................ttatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca .........................................................................................................................................................................................................................................................................................................................................................................................................................ttatctagtgctttttctagtttccaaatactaaaccagaatgaaatagtcaacagaataaggaaaataaaaaagagattatcagtaacgatacttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttatttttccaaagctcaattatttgtacgtgaaatatcttatatgtaaaaataaccgatctcattgctgagaatcggttttctaatatatttaattaagaagtttattttttacataacataaattatgtaaaaatca Inter-species Hit: Count: 5 Min: 1 Max: 759 Len: 759 Subject: NC_003098_spr1045_spr1046|hypothetical protein:tyrosine recombinase|POSITIVE:POSITIVE|[1039495,1040077]|583 HSP 1 e-value: 2.0E-59 bit: 232.0 Len: 195 Query Start:565 Query End:759 Subject Strand: NEGATIVE Subject Start: 50 Subject End: 246 ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................tataattgctattgttttctttttcatgattttaatcttactgtacagattttatacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttattttt-ccaaagctcaattatttgtacgtgaaatatcttatatgt-aaaaataaccgatctcattgctgagaatcggttttctaa..................................................... ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................tataattgctattgttttctttttcatgattttaatcttactgtacagatttgatacagtaaactcctttctagctttatactttatcatttctaacttaattatagtcttatttttaataaagttcaattatttatatgtaaaattcctcatcagtaaaaaataaccgatctcatttctgagaatcggttttctaa..................................................... HSP 2 e-value: 4.0E-29 bit: 131.0 Len: 90 Query Start:1 Query End:90 Subject Strand: NEGATIVE Subject Start: 494 Subject End: 583 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. gtattttctccataattaagtatactagtagtatagcatagacttgtatatttttcaagaaaattatagtttttcggaaagatgttatag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. HSP 3 e-value: 4.0E-14 bit: 81.8 Len: 69 Query Start:502 Query End:570 Subject Strand: NEGATIVE Subject Start: 346 Subject End: 414 .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................acttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataat.................................................................................................................................................................................................................................................. .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................acttctgttaatactacataactgaagagctatataaggagctatgagatacaaaacacattgtataat.................................................................................................................................................................................................................................................. Subject: NC_008533_SPD_1021_SPD_1022|voltage-gated chloride channel family protein:hypothetical protein|POSITIVE:NEGATIVE|[1047026,1047217]|192 HSP 1 e-value: 1.0E-29 bit: 133.0 Len: 141 Query Start:619 Query End:759 Subject Strand: NEGATIVE Subject Start: 50 Subject End: 192 ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................tacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttattttt-ccaaagctcaattatttgtacgtgaaatatcttatatgt-aaaaataaccgatctcattgctgagaatcggttttctaa..................................................... ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................tacagtaaactcctttctagctttatactttatcatttctaacttaattatagtcttatttttaataaagttcaattatttatatgtaaaattcctcatcagtaaaaaataaccgatctcatttctgagaatcggttttctaa..................................................... Subject: NC_003028_SP_1157_SP_1158|voltage-gated chloride channel family protein:hypothetical protein|POSITIVE:NEGATIVE|[1093526,1093717]|192 HSP 1 e-value: 1.0E-29 bit: 133.0 Len: 141 Query Start:619 Query End:759 Subject Strand: NEGATIVE Subject Start: 50 Subject End: 192 ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................tacagtaaactcctttctagctttatgcattatcaattctaacttaattatagtcttattttt-ccaaagctcaattatttgtacgtgaaatatcttatatgt-aaaaataaccgatctcattgctgagaatcggttttctaa..................................................... ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................tacagtaaactcctttctagctttatactttatcatttctaacttaattatagtcttatttttaataaagttcaattatttatatgtaaaattcctcatcagtaaaaaataaccgatctcattcctgagaatcggttttctaa..................................................... Subject: NC_008533_SPD_1022_SPD_1023|hypothetical protein:integrase/recombinase, phage integrase family protein|NEGATIVE:POSITIVE|[1047332,1047608]|277 HSP 1 e-value: 4.0E-29 bit: 131.0 Len: 90 Query Start:1 Query End:90 Subject Strand: NEGATIVE Subject Start: 188 Subject End: 277 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. gtattttctccataattaagtatactagtagtatagcatagacttgtatatttttcaagaaaattatagtttttcggaaagatgttatag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. HSP 2 e-value: 4.0E-14 bit: 81.8 Len: 69 Query Start:502 Query End:570 Subject Strand: NEGATIVE Subject Start: 40 Subject End: 108 .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................acttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataat.................................................................................................................................................................................................................................................. .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................acttctgttaatactacataactgaagagctatataaggagctatgagatacaaaacacattgtataat.................................................................................................................................................................................................................................................. Subject: NC_003028_SP_1158_SP_1159|hypothetical protein:tyrosine recombinase|NEGATIVE:POSITIVE|[1093832,1094108]|277 HSP 1 e-value: 4.0E-29 bit: 131.0 Len: 90 Query Start:1 Query End:90 Subject Strand: NEGATIVE Subject Start: 188 Subject End: 277 gtattttctccataaataagtctactagtagtatagcatagacttatttatttttcaagaaaattatagtttttcagaaagatgtcatag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. gtattttctccataagtaagtatactagtagtatagcatagacttgtatatttttcaagaaaattatagtttttcggaaagatgttatag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. HSP 2 e-value: 4.0E-14 bit: 81.8 Len: 69 Query Start:502 Query End:570 Subject Strand: NEGATIVE Subject Start: 40 Subject End: 108 .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................acttctgttcattctacttaactgaagagctgtgtaaggagctatgggatacaaaatacattgtataat.................................................................................................................................................................................................................................................. .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................acttctgttaatactacataactgaagagctatataaggagctatgagatacaaaacacattgtataat.................................................................................................................................................................................................................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUUUUCUCCAUAAAUAAGUCUACUAGUAGUAUAGCAUAGACUUAUUUAUUUUUCAAGAAAAUUAUAGUUUUUCAGAAAGAUGUCAUAGAGUUUUUUUAAAAGUGAUAAAAAAGACUUAAAUCGUCCCAAUUACUAAAAAAAUUUUUUUGAACAAAAAUAGCUAAAAAUGUACGUUAUCAAAGUAAAAACUGAAAUUUUUCAAAUGUUCAUUUUAGUUUAGUGAAAAUGUACUUUAUCUUGCCUUAAAAUAAAGUACAUUUCAAUUAUAAAGUACAAUUUUUAGAGAGUGUACUUUACGUCUUAAACCCAGUUGUAUCAAGGGCUUAUCCACUGUUUAGGAAAAAGUACAAAAUUUUCCAGUUUUUGCGUAAAAUGGAUUUAAAUCUUUGCAGUUUCAUUGUGAAUCAUUAUCUAGUGCUUUUUCUAGUUUCCAAAUACUAAACCAGAAUGAAAUAGUCAACAGAAUAAGGAAAAUAAAAAAGAGAUUAUCAGUAACGAUACUUCUGUUCAUUCUACUUAACUGAAGAGCUGUGUAAGGAGCUAUGGGAUACAAAAUACAUUGUAUAAUUGCUAUUGUUUUCUUUUUCAUGAUUUUAAUCUUACUGUACAGAUUUUAUACAGUAAACUCCUUUCUAGCUUUAUGCAUUAUCAAUUCUAACUUAAUUAUAGUCUUAUUUUUCCAAAGCUCAAUUAUUUGUACGUGAAAUAUCUUAUAUGUAAAAAUAACCGAUCUCAUUGCUGAGAAUCGGUUUUCUAA ..(((((((..((((((((((((((((......)))..)))))))))))))......)))))))(((((((((((((...((((.....((((((((((..........))))))))))....))))......................(((((........((((((((((((.((((........((((((((((....(....)...))))))))))..(((((.((((((((((.((......)))))))))))))))))...)))).)))).))))))))....((((((((...((((((((...(......)..(((....)))...)))))))).))))))))..(((((((...(((((.((((...((((....)))))))).((((((((.((...((((....)))).......((((........))))...)).))))))))......)))))...))))))).......(((.((((......))))..))))))))..........)))))))))))))....(((((.(((((............(((((((..((((......((........))........((((((((.........)))))))).........)))).)))))))............(((.......))).......))))).)))))...(((((.((((((.((....)).)))))).)))))((((((((((....)))).))))))....... (-152.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGAAAACCGAUUCUCAGCAAUGAGAUCGGUUAUUUUUACAUAUAAGAUAUUUCACGUACAAAUAAUUGAGCUUUGGAAAAAUAAGACUAUAAUUAAGUUAGAAUUGAUAAUGCAUAAAGCUAGAAAGGAGUUUACUGUAUAAAAUCUGUACAGUAAGAUUAAAAUCAUGAAAAAGAAAACAAUAGCAAUUAUACAAUGUAUUUUGUAUCCCAUAGCUCCUUACACAGCUCUUCAGUUAAGUAGAAUGAACAGAAGUAUCGUUACUGAUAAUCUCUUUUUUAUUUUCCUUAUUCUGUUGACUAUUUCAUUCUGGUUUAGUAUUUGGAAACUAGAAAAAGCACUAGAUAAUGAUUCACAAUGAAACUGCAAAGAUUUAAAUCCAUUUUACGCAAAAACUGGAAAAUUUUGUACUUUUUCCUAAACAGUGGAUAAGCCCUUGAUACAACUGGGUUUAAGACGUAAAGUACACUCUCUAAAAAUUGUACUUUAUAAUUGAAAUGUACUUUAUUUUAAGGCAAGAUAAAGUACAUUUUCACUAAACUAAAAUGAACAUUUGAAAAAUUUCAGUUUUUACUUUGAUAACGUACAUUUUUAGCUAUUUUUGUUCAAAAAAAUUUUUUUAGUAAUUGGGACGAUUUAAGUCUUUUUUAUCACUUUUAAAAAAACUCUAUGACAUCUUUCUGAAAAACUAUAAUUUUCUUGAAAAAUAAAUAAGUCUAUGCUAUACUACUAGUAGACUUAUUUAUGGAGAAAAUAC (((((.(((((((.((((....)))))))))))............(((((..............(((((((((.(((.........((((.......))))........))).))....((((.(.(((((((((((((((((.....))))))))))..................................((((((......))))))......))))))).)..))))..))))))).(((((.(((((((((((((((((((((.....((.(((((((.(((((..((.(((..(((((........)))))))).))..))))).)))))))))...))).))))))....(((.(((((((.(((..(((((((.(((((((..........((((((.........)))))).....((((..(((((((...........)))))))....((((((((((............))))))))))....(((((((((((((((((.....)))))))))))))))))))))....)))))))...)))))))...))))))))))....)))..................))))))))))))......((((((((((((..(((((.......)))))..))))......)))))))).)))))...)))))))))).........((((((((.....((((((((((((..((((......)))))))))))))))).)))))))).. (-161.63) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 730 50 1 141 92 smit:SMT_1405|5end_tyrosine_recombinase_1383150..1383380_NEGATIVE 317 347 301 70 12 smit:SMT_1008|5end_hypothetical_protein_948021..948251_NEGATIVE 274 561 529 186 157 smit:SMT_963|5end_K02015_iron_complex_transport_system_permease_protein_909632..909862_NEGATIVE 273 460 414 200 148 smit:SMT_1623|5end_K03498_trk_system_potassium_uptake_protein_TrkH_1609596..1609826_POSITIVE 271 610 562 126 76 smit:SMT_339|5end_K03687_molecular_chaperone_GrpE_277886..278116_POSITIVE 270 650 601 120 75 smit:SMT_582|5end_ATP_synthase_F0,_B_subunit_499003..499233_POSITIVE 265 421 385 88 54 smit:SMT_603|5end_hypothetical_protein_517961..518191_POSITIVE 263 427 386 57 12 smit:SMT_1723|5end_hypothetical_protein_1709081..1709311_POSITIVE 263 607 564 105 58 smit:SMT_578|5end_lipoprotein_signal_peptidase_496061..496291_POSITIVE 262 654 611 183 133 smit:SMT_1797|5end_threonine_dehydratase_1772684..1772914_NEGATIVE 259 45 1 196 148 smit:SMT_1577|5end_ribose_ABC_transporter,_ATP-binding_protein_1569362..1569592_POSITIVE 258 340 294 160 110 smit:SMT_2067|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1973432..1973662_POSITIVE 254 75 33 107 69 smit:SMT_673|5end_K01926_AT-rich_DNA-binding_protein_580902..581132_POSITIVE 254 547 503 220 175 smit:SMT_156|5end_hypothetical_protein_102869..103099_POSITIVE 253 369 322 188 137 smit:SMT_877|5end_hypothetical_protein_824412..824642_NEGATIVE 251 335 299 47 12 smit:SMT_2085|5end_K01207_beta-N-acetylhexosaminidase_1983039..1983269_POSITIVE 251 466 421 163 117 smit:SMT_535|5end_hypothetical_protein_454215..454445_POSITIVE 250 430 389 108 73 smit:SMT_1169|5end_phosphorylase,_Pnp/UDP_family_1117350..1117580_NEGATIVE 250 325 283 165 112 smit:SMT_448|5end_K03707_transcriptional_activator_TenA_386789..387019_POSITIVE 247 335 292 209 165 smit:SMT_1162|5end_ATP-dependent_DNA_helicase_1108895..1109125_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 441 750 723 28 1 smit:SMT_2077|3end_chloride_channel_protein_1979139..1979289_NEGATIVE 271 610 562 99 49 smit:SMT_338|3end_heat-inducible_transcription_repressor_HrcA_277939..278089_POSITIVE 270 650 601 106 61 smit:SMT_581|3end_ATP_synthase_A_chain_499069..499219_POSITIVE 265 548 502 52 10 smit:SMT_1876|3end_transcriptional_regulator,_MarR_family_1834135..1834285_POSITIVE 263 607 564 108 61 smit:SMT_577|3end_transcriptional_regulator,_LysR_family_496144..496294_POSITIVE 251 466 421 58 12 smit:SMT_534|3end_hypothetical_protein_predicted_by_Glimmer/Critica_454190..454340_POSITIVE 245 325 289 46 7 smit:SMT_1611|3end_K05896_segregation_and_condensation_protein_A_1600113..1600263_POSITIVE 243 654 613 49 1 smit:SMT_1798|3end_exonuclease_RexA_1772818..1772968_NEGATIVE 242 590 560 127 99 smit:SMT_1627|3end_hypothetical_protein_1616089..1616239_NEGATIVE 241 417 377 137 88 smit:SMT_1357|3end_endo-beta-N-acetylglucosaminidase_1334450..1334600_NEGATIVE 238 540 493 53 6 smit:SMT_1924|3end_isoleucyl-tRNA_synthetase_1866843..1866993_POSITIVE 237 550 506 140 105 smit:SMT_763|3end_alpha-amylase_669280..669430_POSITIVE 236 532 501 137 103 smit:SMT_572|3end_fructose_repressor_491059..491209_POSITIVE 233 370 321 79 20 smit:SMT_1164|3end_hypothetical_protein_1110482..1110632_POSITIVE 231 398 355 112 73 smit:SMT_1198|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1158837..1158987_NEGATIVE 230 341 301 134 94 smit:SMT_1187|3end_adenylosuccinate_lyase_1145067..1145217_NEGATIVE 229 536 493 102 65 smit:SMT_1940|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1877106..1877256_POSITIVE 227 549 503 71 14 smit:SMT_109|3end_beta-galactosidase_57523..57673_POSITIVE 226 448 403 113 66 smit:SMT_2042|3end_K04077_chaperonin_GroEL_(Hsp60)_1952960..1953110_NEGATIVE 226 547 503 78 28 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE