Origin IGS: tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttccactgattttttaatattgtaaagtgtcttctagaacaagcgatgtctgatactctatcatccataaacataatcgttcttgtctcatgattaaatcctgctattttatctttattcacaagaaactttctatggcatctaataagttcttctgtactttcctcttcgattttagctagtgaggttgaagcttcaaaattcccttctgctgttacaaaaagaacagcatgagcttttgtagggtgagttgtaacataataaattttagagagtgatacctttacgatagctctatcttgatataaaatgtagtctttcatatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatacgtcaattgcttctaatcagacaaaaccacattaaaaaaacaaaaaagcctagaaacgttgatttcataggcttttggtatattgtcttacttaacttctgataagtagaagatttatatttgtagttaatcttatgtccttgtaaaatttttgtatttttgaatgtttttttaagaaataatattttaaatacagagataaaatatagccaaataaagagtagtgtaaaatttgaattgccttcatagctttcctttcattagaaattagtttatcaaatgaagaaagattaatattattgagatactaaaaagtatctattttatcatgaaatgtctaaattaagaaaatttttaccatttgagatagtatagaaaccatttgagatttttataatttaatttccatcattctgataagattaaactgatagaaggaggctaaatatgaaagactacattttatatcaagatagagctatcgtaaaggtatcactctctaaaatttattatgttacaactcaccctacaaaagctcatgctgttctttttgtaacagcagaagggaattttgaagcttcaacctcactagctaaaatcgaagaggaaagtacagaagaacttattagatgccatagaaagtttcttgtgaataaagataaaatagcaggatttaatcatgagacaagaacgattatgtttatggatgatagagtatcagacatcgcttgttctagaagacactttacaatattaaaaaatcagtggaaaaatatataggagtgaagtagtgawtwtttttatmywrrarrwwawtttttwmmammrrmywrrawtkraaawkktkkymaaaaaawtttkgkkgrwwawwarrwtkrrkwwwrgsmwtttkrrgkttwwkgraaamcyymammrsytttwrrrgrmmwttymrrrrrrrgraawymwymawtwwttttwmytkrwwwtkraawwaaarrwkrwkrcmaaarrrgrttwgrmsktksywgagaaattagaaaacttgattctcaagca Mask Tandem Repeat Region ================================================ tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttccactgattttttaatattgtaaagtgtcttctagaacaagcgatgtctgatactctatcatccataaacataatcgttcttgtctcatgattaaatcctgctattttatctttattcacaagaaactttctatggcatctaataagttcttctgtactttcctcttcgattttagctagtgaggttgaagcttcaaaattcccttctgctgttacaaaaagaacagcatgagcttttgtagggtgagttgtaacataataaattttagagagtgatacctttacgatagctctatcttgatataaaatgtagtctttcatatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Find is-nt database================================================ Query_seq: SMT_729:SMT_730|SMT_729:SMT_730:K07707 two-component system, AgrA family, response regulator AgrA:hypothetical protein:<-<-:635159..636200 1042 tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttccactgattttttaatattgtaaagtgtcttctagaacaagcgatgtctgatactctatcatccataaacataatcgttcttgtctcatgattaaatcctgctattttatctttattcacaagaaactttctatggcatctaataagttcttctgtactttcctcttcgattttagctagtgaggttgaagcttcaaaattcccttctgctgttacaaaaagaacagcatgagcttttgtagggtgagttgtaacataataaattttagagagtgatacctttacgatagctctatcttgatataaaatgtagtctttcatatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_729:SMT_730|SMT_729:SMT_730:K07707 two-component system, AgrA family, response regulator AgrA:hypothetical protein:<-<-:635159..636200 1042 tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttccactgattttttaatattgtaaagtgtcttctagaacaagcgatgtctgatactctatcatccataaacataatcgttcttgtctcatgattaaatcctgctattttatctttattcacaagaaactttctatggcatctaataagttcttctgtactttcctcttcgattttagctagtgaggttgaagcttcaaaattcccttctgctgttacaaaaagaacagcatgagcttttgtagggtgagttgtaacataataaattttagagagtgatacctttacgatagctctatcttgatataaaatgtagtctttcatatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_729:SMT_730|SMT_729:SMT_730:K07707 two-component system, AgrA family, response regulator AgrA:hypothetical protein:<-<-:635159..636200 1042 tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttccactgattttttaatattgtaaagtgtcttctagaacaagcgatgtctgatactctatcatccataaacataatcgttcttgtctcatgattaaatcctgctattttatctttattcacaagaaactttctatggcatctaataagttcttctgtactttcctcttcgattttagctagtgaggttgaagcttcaaaattcccttctgctgttacaaaaagaacagcatgagcttttgtagggtgagttgtaacataataaattttagagagtgatacctttacgatagctctatcttgatataaaatgtagtctttcatatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 271 Max: 591 Len: 321 Subject: UniRef90_Q9F2F4 Cluster: Regulatory protein; n=6; Streptococcus pneumoniae|Rep: Regulatory protein - Streptococcus pneumoniae HSP 1 e-value: 3.0E-14 bit: 82.0 Len: 321 Query Start:271 Query End:591 Subject Strand: null Subject Start: 1 Subject End: 107 .............................................................................................................................................................................................................................................................................. M K D Y I L Y Q D R A I V K V S L S K I Y Y V T T H P T K A H A V L F V T A E G N F E A S T S L A K I E E E S T E E L I R C H R K F L V N K D K I A G F N H E T R T I M F M D D R V S D I A C S R R H F T I L K N Q W ................................................................................................................................................................................................................................................................................................................................................................................................................................................................... .............................................................................................................................................................................................................................................................................. M K H M I I Q T Q K T V Y K V N V D D V Y Y I Q T H P T K A H T V K I V T E E A S F N M V Q N L S N L E N Q Y G E T L M R C H R N C L V N L D K V K S I D F Q E R I L F L G E E G Q Y A V K Y A R R R Y R E I R Q K W ................................................................................................................................................................................................................................................................................................................................................................................................................................................................... tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 23 End: 235 ...................... M S X X X X N X X X X X X X X X X X X K X X X X F X X X X X X X K X X X X F X X X X X X X X X X X X X X K X F X X X F X ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 4 End: 282 ... M R I K F S N F S X X X X X X X X X X F X X X X X X X X X X X X X X X X X X X X X X X F X X X X K X X X X X X X X X X X ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 40 Strand: + Start: 328 End: 447 ....................................................................................................................................................................................................................................................................................................................................... M I H K H N R S C L M I K S C Y F I F I H K K L S M A S N K F F C T F L F D F S ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 42 Strand: + Start: 374 End: 499 ..................................................................................................................................................................................................................................................................................................................................................................................... M L S L F T R N F L W H L I S S S V L S S S I L A S E V E A S K F P S A V T K R T A ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 744 End: 944 ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M N L S S F D K L I S N E R K A M K A I Q I L H Y S L F G Y I L S L Y L K Y Y F L K K H S K I Q K F Y K D I R L T T N I .................................................................................................. Protein_Len: 60 Strand: + Start: 824 End: 1033 ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... M W L Y F I S V F K I L F L K K T F K N T K I L Q G H K I N Y K Y K S S T Y Q K L S K T I Y Q K P M K S T F L G F F V F ......... Protein_Len: 34 Strand: - Start: 940 End: 1041 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... F N L L V I Y W F G I F D V N R P K K T K K I H N Q R I L L L Q R M . Protein_Len: 39 Strand: - Start: 793 End: 909 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ S P L E F K V S S K I Q S Y K I E T N L I N N R L F V N L F V F I K C P C L M ..................................................................................................................................... Protein_Len: 60 Strand: - Start: 262 End: 591 ..................................................................................................................................................................................................................................................................... I L E E T S E E E I K A L S T S A E F N G E A T V F L V A H A K T P H T T V Y Y I K S L S V K V I A R D Q Y L I Y D K M ................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: - Start: 3 End: 278 .. X X X X X X X X X X X X X X X X X X X X X X X X X X X X K K X X X X X X X X X X F X X X X I F X X V V E S R Y I K G S M ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt 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: 83 Start: 415 End: 444 ..............................................................................................................................................................................................................................................................................................................................................................................................................................CTTTACGATAGCTCTATCTTGATATAAAAT...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 554 End: 583 .........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTCTTAATTTAGACATTTCATGATAAAAT........................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 755 End: 784 ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTTGTAGTTAATCTTATGTCCTTGTAAAAT.................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 95 HP_score: -4.4 Tail_Score: -6.12458 Start: 967 End: 991 Full_Region: GACAATATACCAAAA GCCTATGAAAT CAAC GTTTCTAGGC TTTTTTGTTTTTTTA ......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCCTATGAAATCAACGTTTCTAGGC................................................... Find igs database================================================ Query_seq: SMT_729:SMT_730|SMT_729:SMT_730:K07707 two-component system, AgrA family, response regulator AgrA:hypothetical protein:<-<-:635159..636200 1042 tgcttgagaatcaagttttctaatttctcwrsmamskycwaaycyyytttkgymwymwyytttwwttymawwwymarkwaaaawwawtkrwkrwttycyyyyyyykraawkkycyyywaaarsykktkrrgktttycmwwaamcyymaaawkscywwwmyymawyytwwtwwycmmcmaaawttttttkrmmammwtttymawtyywrkyykktkkwaaaaawtwwyytyywrkataaaaawawtcactacttcactcctatatatttttnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnatttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttcttaaaaaaacattcaaaaatacaaaaattttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggcttttttgtttttttaatgtggttttgtctgattagaagcaattgacgtatt Intra-Species Hit: Count: 2 Min: 1 Max: 1042 Len: 1042 Subject: smit_SMT_1776_SMT_1777|K07707 two-component system, AgrA family, response regulator AgrA:hypothetical protein|NEGATIVE:POSITIVE|[1752498,1753222]|725 HSP 1 e-value: 1.0E-175 bit: 618.0 Len: 274 Query Start:592 Query End:865 Subject Strand: POSITIVE Subject Start: 344 Subject End: 617 ...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................atttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttctt................................................................................................................................................................................. ...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................atttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttctt................................................................................................................................................................................. HSP 2 e-value: 2.0E-21 bit: 106.0 Len: 47 Query Start:891 Query End:937 Subject Strand: POSITIVE Subject Start: 643 Subject End: 689 ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ttttacaaggacataagattaactacaaatataaatcttctacttat......................................................................................................... ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ttttacaaggacataagattaactacaaatataaatcttctacttat......................................................................................................... Subject: smit_SMT_729_SMT_730|K07707 two-component system, AgrA family, response regulator AgrA:hypothetical protein|NEGATIVE:NEGATIVE|[635159,636200]|1042 HSP 1 e-value: 1.0E-175 bit: 618.0 Len: 274 Query Start:592 Query End:865 Subject Strand: POSITIVE Subject Start: 592 Subject End: 865 ...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................atttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttctt................................................................................................................................................................................. ...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................atttagcctccttctatcagtttaatcttatcagaatgatggaaattaaattataaaaatctcaaatggtttctatactatctcaaatggtaaaaattttcttaatttagacatttcatgataaaatagatactttttagtatctcaataatattaatctttcttcatttgataaactaatttctaatgaaaggaaagctatgaaggcaattcaaattttacactactctttatttggctatattttatctctgtatttaaaatattatttctt................................................................................................................................................................................. HSP 2 e-value: 4.0E-58 bit: 228.0 Len: 101 Query Start:891 Query End:991 Subject Strand: POSITIVE Subject Start: 891 Subject End: 991 ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ttttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggc................................................... ..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ttttacaaggacataagattaactacaaatataaatcttctacttatcagaagttaagtaagacaatataccaaaagcctatgaaatcaacgtttctaggc................................................... HSP 3 e-value: 1.0E-14 bit: 83.9 Len: 37 Query Start:1006 Query End:1042 Subject Strand: POSITIVE Subject Start: 1006 Subject End: 1042 .............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................aatgtggttttgtctgattagaagcaattgacgtatt .............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................aatgtggttttgtctgattagaagcaattgacgtatt HSP 4 e-value: 3.0E-9 bit: 65.8 Len: 29 Query Start:1 Query End:29 Subject Strand: POSITIVE Subject Start: 1 Subject End: 29 tgcttgagaatcaagttttctaatttctc..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... tgcttgagaatcaagttttctaatttctc..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... HSP 5 e-value: 3.0E-7 bit: 59.1 Len: 26 Query Start:245 Query End:270 Subject Strand: POSITIVE Subject Start: 245 Subject End: 270 ....................................................................................................................................................................................................................................................tcactacttcactcctatatattttt.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... ....................................................................................................................................................................................................................................................tcactacttcactcctatatattttt.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUUGAGAAUCAAGUUUUCUAAUUUCUCWRSMAMSKYCWAAYCYYYUUUKGYMWYMWYYUUUWWUUYMAWWWYMARKWAAAAWWAWUKRWKRWUUYCYYYYYYYKRAAWKKYCYYYWAAARSYKKUKRRGKUUUYCMWWAAMCYYMAAAWKSCYWWWMYYMAWYYUWWUWWYCMMCMAAAWUUUUUUKRMMAMMWUUUYMAWUYYWRKYYKKUKKWAAAAAWUWWYYUYYWRKAUAAAAAWAWUCACUACUUCACUCCUAUAUAUUUUUCCACUGAUUUUUUAAUAUUGUAAAGUGUCUUCUAGAACAAGCGAUGUCUGAUACUCUAUCAUCCAUAAACAUAAUCGUUCUUGUCUCAUGAUUAAAUCCUGCUAUUUUAUCUUUAUUCACAAGAAACUUUCUAUGGCAUCUAAUAAGUUCUUCUGUACUUUCCUCUUCGAUUUUAGCUAGUGAGGUUGAAGCUUCAAAAUUCCCUUCUGCUGUUACAAAAAGAACAGCAUGAGCUUUUGUAGGGUGAGUUGUAACAUAAUAAAUUUUAGAGAGUGAUACCUUUACGAUAGCUCUAUCUUGAUAUAAAAUGUAGUCUUUCAUAUUUAGCCUCCUUCUAUCAGUUUAAUCUUAUCAGAAUGAUGGAAAUUAAAUUAUAAAAAUCUCAAAUGGUUUCUAUACUAUCUCAAAUGGUAAAAAUUUUCUUAAUUUAGACAUUUCAUGAUAAAAUAGAUACUUUUUAGUAUCUCAAUAAUAUUAAUCUUUCUUCAUUUGAUAAACUAAUUUCUAAUGAAAGGAAAGCUAUGAAGGCAAUUCAAAUUUUACACUACUCUUUAUUUGGCUAUAUUUUAUCUCUGUAUUUAAAAUAUUAUUUCUUAAAAAAACAUUCAAAAAUACAAAAAUUUUACAAGGACAUAAGAUUAACUACAAAUAUAAAUCUUCUACUUAUCAGAAGUUAAGUAAGACAAUAUACCAAAAGCCUAUGAAAUCAACGUUUCUAGGCUUUUUUGUUUUUUUAAUGUGGUUUUGUCUGAUUAGAAGCAAUUGACGUAUU .(((((.....)))))........................................................................................................................................................................................................................................(((.(((......(((((((......(((((((....((((((((((((((((((((((......((((....(((....((((((.....((((....(((((((.....(((.((((......)))).))).......)))))))......)))).........((((((..............(((((((((((.....)))))))))))................(((((((........))))))).)))))).....))))))...)))))))......))))))))...)))).))))))))))......(((((..(((((((((((((.........((((.(((((.(((.((.......((((((((.(((.(((((((((..((((.(((((......))))).)))).((((..(((((....(((((.....)))))...)))))...))))....(((((((....)))))))........))))).)))).)))))))))))........)).))).)))))..))))((((.....))))......................)))))))))))))...(((((((.............................))))))).........)))))....))))))).....)))))))...((((((...((((((.((((((.(((((((......(((((((((.(((((....))))))))))))))))))))))))))).........))))))))))))....))).))).. (-152.91) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUACGUCAAUUGCUUCUAAUCAGACAAAACCACAUUAAAAAAACAAAAAAGCCUAGAAACGUUGAUUUCAUAGGCUUUUGGUAUAUUGUCUUACUUAACUUCUGAUAAGUAGAAGAUUUAUAUUUGUAGUUAAUCUUAUGUCCUUGUAAAAUUUUUGUAUUUUUGAAUGUUUUUUUAAGAAAUAAUAUUUUAAAUACAGAGAUAAAAUAUAGCCAAAUAAAGAGUAGUGUAAAAUUUGAAUUGCCUUCAUAGCUUUCCUUUCAUUAGAAAUUAGUUUAUCAAAUGAAGAAAGAUUAAUAUUAUUGAGAUACUAAAAAGUAUCUAUUUUAUCAUGAAAUGUCUAAAUUAAGAAAAUUUUUACCAUUUGAGAUAGUAUAGAAACCAUUUGAGAUUUUUAUAAUUUAAUUUCCAUCAUUCUGAUAAGAUUAAACUGAUAGAAGGAGGCUAAAUAUGAAAGACUACAUUUUAUAUCAAGAUAGAGCUAUCGUAAAGGUAUCACUCUCUAAAAUUUAUUAUGUUACAACUCACCCUACAAAAGCUCAUGCUGUUCUUUUUGUAACAGCAGAAGGGAAUUUUGAAGCUUCAACCUCACUAGCUAAAAUCGAAGAGGAAAGUACAGAAGAACUUAUUAGAUGCCAUAGAAAGUUUCUUGUGAAUAAAGAUAAAAUAGCAGGAUUUAAUCAUGAGACAAGAACGAUUAUGUUUAUGGAUGAUAGAGUAUCAGACAUCGCUUGUUCUAGAAGACACUUUACAAUAUUAAAAAAUCAGUGGAAAAAUAUAUAGGAGUGAAGUAGUGAWUWUUUUUAUMYWRRARRWWAWUUUUUWMMAMMRRMYWRRAWUKRAAAWKKUKKYMAAAAAAWUUUKGKKGRWWAWWARRWUKRRKWWWRGSMWUUUKRRGKUUWWKGRAAAMCYYMAMMRSYUUUWRRRGRMMWUUYMRRRRRRRGRAAWYMWYMAWUWWUUUUWMYUKRWWWUKRAAWWAAARRWKRWKRCMAAARRRGRUUWGRMSKUKSYWGAGAAAUUAGAAAACUUGAUUCUCAAGCA ..(((.....(..((((((...........((((.............(((((((((((((......)))).))))))))).(((...((((((........((((((((((.((((.((((..(((((((.....................((((((((((((..(((((((.(((....))).))))))).))))))))))))..(((((((..((((..((((.((((............((((((..((((((.((((..(((((...((((((((((((((((....(((((((.(((((.(((((..((((..((.(((((.(((((.(.(((((...(((((.....)))))....))))).)))))).))))).))..))))..))))).))))))))))))...))))).)))).))))))).)))))..))))))))))..(((((.((.((..(((((.....)))))..)))).))))))))))).))))))))...)))).)))))))..........)))))))..(((.((((((((.....).)))))))...))).....)))).))))..((((................)))).............))))))))))..............(((..(((.((((...............)))).)))..)))..(((((((....((..(((..(((((...)))))..))).)))))))))..))))))...)))...............)))).........))))))..)....)))........................................................................................................................................................................................................................(((((.((((.....)))))))))..... (-170.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 857 360 311 203 154 smit:SMT_1776|5end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_1752407..1752637_NEGATIVE 398 29 1 120 92 smit:SMT_729|5end_K07707_two-component_system,_AgrA_family,_response_regulator_AgrA_635068..635298_NEGATIVE 322 1028 981 205 156 smit:SMT_2027|5end_competence-specific_global_transcription_modulator_1943204..1943434_NEGATIVE 309 333 293 73 28 smit:SMT_246|5end_alcohol_dehydrogenase_183004..183234_NEGATIVE 305 446 403 116 72 smit:SMT_172|5end_50S_ribosomal_protein_L23_116180..116410_POSITIVE 303 481 442 164 120 smit:SMT_1962|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1895639..1895869_NEGATIVE 303 486 441 117 67 smit:SMT_1459|5end_K02037_phosphate_transport_system_permease_protein_1440522..1440752_POSITIVE 303 481 442 164 120 smit:SMT_823|5end_putative_mucus_binding_protein_746790..747020_NEGATIVE 292 510 473 108 63 smit:SMT_629|5end_glycogen_synthase_533967..534197_POSITIVE 291 457 413 200 152 smit:SMT_1612|5end_K06024_segregation_and_condensation_protein_B_1600052..1600282_POSITIVE 291 1000 955 148 103 smit:SMT_1557|5end_hypothetical_protein_1541939..1542169_POSITIVE 291 520 472 189 146 smit:SMT_1454|5end_cytidine_deaminase_1437886..1438116_NEGATIVE 281 448 403 196 158 smit:SMT_617|5end_hypothetical_protein_526415..526645_POSITIVE 279 480 431 151 99 smit:SMT_851|5end_conserved_hypothetical_protein,_translation_initiation_inhibitor_protein_797446..797676_NEGATIVE 274 448 407 125 89 smit:SMT_748|5end_prephenate_dehydratase_653498..653728_NEGATIVE 273 512 472 117 79 smit:SMT_2019|5end_dTDP-glucose_4,6-dehydratase_1937054..1937284_POSITIVE 272 482 448 55 20 smit:SMT_2023|5end_tryptophan_synthase,_alpha_subunit_1939315..1939545_POSITIVE 272 482 448 55 20 smit:SMT_1818|5end_tryptophan_synthase,_alpha_subunit_1792190..1792420_POSITIVE 272 480 433 192 160 smit:SMT_382|5end_valyl-tRNA_synthetase_317706..317936_POSITIVE 270 331 298 196 163 smit:SMT_1296|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1257290..1257520_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 446 403 116 72 smit:SMT_171|3end_50S_ribosomal_protein_L4_116260..116410_POSITIVE 303 486 441 117 67 smit:SMT_1458|3end_K02040_phosphate_transport_system_substrate-binding_protein_1440602..1440752_POSITIVE 292 510 473 111 66 smit:SMT_628|3end_glucose-1-phosphate_adenylyltransferase,_GlgD_subunit_534050..534200_POSITIVE 291 1000 955 95 50 smit:SMT_1556|3end_phosphoglycerate_mutase_1541966..1542116_POSITIVE 279 480 431 140 88 smit:SMT_852|3end_K03978_GTP-binding_protein_797457..797607_NEGATIVE 274 448 407 128 92 smit:SMT_749|3end_shikimate_kinase_653495..653645_NEGATIVE 272 482 448 119 84 smit:SMT_1753|3end_tryptophan_synthase_beta_chain_1731652..1731802_POSITIVE 267 335 292 74 31 smit:SMT_1881|3end_hypothetical_protein_1837781..1837931_POSITIVE 260 510 468 54 16 smit:SMT_1611|3end_K05896_segregation_and_condensation_protein_A_1600113..1600263_POSITIVE 259 465 423 76 35 smit:SMT_1069|3end_acetyl_xylan_esterase,_putative_1009595..1009745_POSITIVE 257 370 325 143 100 smit:SMT_1871|3end_modification_methylase,_HemK_family_1829803..1829953_NEGATIVE 254 480 433 120 76 smit:SMT_2126|3end_indole-3-glycerol_phosphate_synthase_2009366..2009516_POSITIVE 252 480 431 132 69 smit:SMT_1692|3end_hypothetical_protein_1675815..1675965_POSITIVE 252 513 471 135 89 smit:SMT_990|3end_hypothetical_protein_933558..933708_NEGATIVE 250 449 406 97 53 smit:SMT_1200|3end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1161076..1161226_NEGATIVE 249 480 432 94 38 smit:SMT_353|3end_immunity_protein_BlpL_291364..291514_POSITIVE 248 478 431 79 24 smit:SMT_1268|3end_acetoin_reductase_1232655..1232805_NEGATIVE 248 480 435 147 105 smit:SMT_230|3end_hypothetical_protein_predicted_by_Glimmer/Critica_165666..165816_NEGATIVE 247 588 549 147 101 smit:SMT_1000|3end_glutamyl-tRNA_Gln_amidotransferase_subunit_C_942241..942391_POSITIVE 246 560 511 67 16 smit:SMT_1830|3end_galactose-6-phosphate_isomerase_1799843..1799993_POSITIVE