Origin IGS: agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacacccacaccctctgaagctacatatgagtttgtagaaatttccgaggtaaccattacaggcaaagaagtagaccccttaaccttacccggaactgatgcttggtggaaaggcgtatttattaaagaccgaaaggtaaaattaagcccctacaagctcggcaagacagaggtaacgtatgagttatagcacgaggtactcacatgggcagaaagtaatggctacacctttgctaataagggaaaagaaggcagtcatggaaccgtaggagcagcccctacaggtgcaaaaaaagagcctgtaactgaagtaagttggcgggactgcatagtatggtgtaatgcgtatactcaa .........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 ttgagtatacgcattacaccatactatgcagtcccgccaacttacttcagttacaggctctttttttgcacctgtaggggctgctcctacggttccatgactgccttcttttcccttattagcaaaggtgtagccattactttctgcccatgtgagtacctcgtgctataactcatacgttacctctgtcttgccgagcttgtaggggcttaattttacctttcggtctttaataaatacgcctttccaccaagcatcagttccgggtaaggttaaggggtctacttctttgcctgtaatggttacctcggaaatttctacaaactcatatgtagcttcagagggtgtgggtgtttctccacctgagttacctgaatttccgcctgcattgttcggacaggctataaaaaccagtgccaatattgcggctatgatgagtgccgcgactccattaactgtgaaggcttttgccttcttgtttttgtttgttttaaactttgtcataagttcctcctgccaaagttaatttttaatttaaccgccgagcgatcaaaaatgtgcatggacgcacatttttgatcttagagttttgcgtaagcaaaactctaagagtcttaaccaccgccatccgtggcggttttaagggagtctttgtaatgacatccttaataagcctctggtaaattgagcaaagctcaactcttggcgtgcattgtatttataactgctgtcggtgtgtttgtctatcattacggtacagtgtaacatgtttccacacaaatatcaaccttatcgtaatatcaattttatcaaatttgtaatatcctaaaattaaaaaaaaacggtttctttcgttgacaagctctaattttattcttattatataacccaagattttagcagggaatctcaaaacggaaaaaaggct Mask Tandem Repeat Region ================================================ agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacacccacaccctctgaagctacatatgagtttgtagaaatttccgaggtaaccattacaggcaaagaagtagaccccttaaccttacccggaactgatgcttggtggaaaggcgtatttattaaagaccgaaaggtaaaattaagcccctacaagctcggcaagacagaggtaacgtatgagttatagcacgaggtactcacatgggcagaaagtaatggctacacctttgctaataagggaaaagaaggcagtcatggaaccgtaggagcagcccctacaggtgcaaaaaaagagcctgtaactgaagtaagttggcgggactgcatagtatggtgtaatgcgtatactcaa Find is-nt database================================================ Query_seq: TDE1055:TDE1056|TDE1055:TDE1056:MATE efflux family protein:hypothetical protein:<-->:1084422..1085349 928 agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacacccacaccctctgaagctacatatgagtttgtagaaatttccgaggtaaccattacaggcaaagaagtagaccccttaaccttacccggaactgatgcttggtggaaaggcgtatttattaaagaccgaaaggtaaaattaagcccctacaagctcggcaagacagaggtaacgtatgagttatagcacgaggtactcacatgggcagaaagtaatggctacacctttgctaataagggaaaagaaggcagtcatggaaccgtaggagcagcccctacaggtgcaaaaaaagagcctgtaactgaagtaagttggcgggactgcatagtatggtgtaatgcgtatactcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1055:TDE1056|TDE1055:TDE1056:MATE efflux family protein:hypothetical protein:<-->:1084422..1085349 928 agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacacccacaccctctgaagctacatatgagtttgtagaaatttccgaggtaaccattacaggcaaagaagtagaccccttaaccttacccggaactgatgcttggtggaaaggcgtatttattaaagaccgaaaggtaaaattaagcccctacaagctcggcaagacagaggtaacgtatgagttatagcacgaggtactcacatgggcagaaagtaatggctacacctttgctaataagggaaaagaaggcagtcatggaaccgtaggagcagcccctacaggtgcaaaaaaagagcctgtaactgaagtaagttggcgggactgcatagtatggtgtaatgcgtatactcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1055:TDE1056|TDE1055:TDE1056:MATE efflux family protein:hypothetical protein:<-->:1084422..1085349 928 agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacacccacaccctctgaagctacatatgagtttgtagaaatttccgaggtaaccattacaggcaaagaagtagaccccttaaccttacccggaactgatgcttggtggaaaggcgtatttattaaagaccgaaaggtaaaattaagcccctacaagctcggcaagacagaggtaacgtatgagttatagcacgaggtactcacatgggcagaaagtaatggctacacctttgctaataagggaaaagaaggcagtcatggaaccgtaggagcagcccctacaggtgcaaaaaaagagcctgtaactgaagtaagttggcgggactgcatagtatggtgtaatgcgtatactcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 9 Min: 578 Max: 928 Len: 351 Subject: UniRef90_Q73JX2 Cluster: Hypothetical protein; n=1; Treponema denticola|Rep: Hypothetical protein - Treponema denticola HSP 1 e-value: 2.0E-44 bit: 182.0 Len: 351 Query Start:578 Query End:928 Subject Strand: null Subject Start: 35 Subject End: 162 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. P T P S E A T Y E F V E I S E V T I T G K E V D P L T L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G Y T F A N K G K E G S H G T - - - - - - - - - - - V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. P A P P E I V Y E F V E I S E V T I T G N E V D P S T L P E D E D W L K G V F I K D R K V K L S P Y K L G K T E V T Y E L W H E V R T W A E S K G Y T F A N K G L E G W D G T G G G G S F P N Y A N I G K L P T A N K N H P V T T I S W R D C I V W C N A Y T E Subject: UniRef90_Q73KW6 Cluster: Hypothetical protein; n=1; Treponema denticola|Rep: Hypothetical protein - Treponema denticola HSP 1 e-value: 7.0E-31 bit: 137.0 Len: 270 Query Start:659 Query End:928 Subject Strand: null Subject Start: 75 Subject End: 166 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G - - Y T F A N K G K E G S H G T V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. L P G N H D Y W K G V F I A G R T V K L S P Y K I G K M E V T Y E L W Y S V L K W N T D N G R G Y I F A N Q G R E G S N G G E G V A P T G A K K E P V T M I S W R D C I V W C N A Y T E Subject: UniRef90_Q73P54 Cluster: Hypothetical protein; n=1; Treponema denticola|Rep: Hypothetical protein - Treponema denticola HSP 1 e-value: 2.0E-30 bit: 135.0 Len: 270 Query Start:659 Query End:928 Subject Strand: null Subject Start: 93 Subject End: 176 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G Y T F A N K G K E G S H G T V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. L P G S E A W W K G V F I K D R K V K L S P Y K L G K T E V T Y K L W K E V Y D W A T G H G Y T F A N P G V K G K D G - - - - - - S G T D D E P V T T I S W R D C I V W C N A Y T Q Subject: UniRef90_Q73Q71 Cluster: Conserved domain protein; n=1; Treponema denticola|Rep: Conserved domain protein - Treponema denticola HSP 1 e-value: 2.0E-30 bit: 135.0 Len: 324 Query Start:605 Query End:928 Subject Strand: null Subject Start: 67 Subject End: 186 ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ F V E I S E V T I T G K E V D P - L T L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G Y T F A N K G K E G S H G T - - - - - - - - - - - V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ F I K I I P T T T G I V G V D P D Y T L P G T E A N R K G V F R A G R K V K L S P Y K L G K T E V T Y E L W Y Q V R T W A E G K G Y T F A N K G L E G W D G T G G G G S H P N Y T N I G K P P T G N K N H P V T M V I W R D C I V W C N A Y T E Subject: UniRef90_Q73P22 Cluster: Conserved domain protein; n=1; Treponema denticola|Rep: Conserved domain protein - Treponema denticola HSP 1 e-value: 4.0E-30 bit: 134.0 Len: 345 Query Start:584 Query End:928 Subject Strand: null Subject Start: 57 Subject End: 183 ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... P S E A T Y E F V E I S E V T I T G K E V D P L T L P G - T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G Y T F A N K G K E G S H G T - - - - - - - - - - - V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... P T P P S Y D F P E I T P P A N G I V G V D P N Y L P T E T D D Y L K G V F R A G R K V K L S P Y K L G K T E V T Y E L W H S V R T W A E S K G Y S F A N K G L E G W D G T G G G G I W P N Y A N I G K P P T T N K N H P V T M V D W R D C I V W C N A Y T Q Subject: UniRef90_Q73PG6 Cluster: Lipoprotein, putative; n=1; Treponema denticola|Rep: Lipoprotein, putative - Treponema denticola HSP 1 e-value: 1.0E-29 bit: 133.0 Len: 300 Query Start:629 Query End:928 Subject Strand: null Subject Start: 57 Subject End: 151 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... I T G K E V D P L T L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G Y T F A N K G K E G S H G T V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... I A G V E P D P A T L P G N E A K W K G V F I A G R K V K L S P Y K L G K T E V T Y K L W K E V Y D W A T G K G Y Q F A H P G T K G S S G T - - - - - G N D K E Q P V T K V S W R D C I V W C N A Y T E Subject: UniRef90_Q73KH9 Cluster: Hypothetical protein; n=1; Treponema denticola|Rep: Hypothetical protein - Treponema denticola HSP 1 e-value: 4.0E-24 bit: 114.0 Len: 333 Query Start:596 Query End:928 Subject Strand: null Subject Start: 18 Subject End: 126 ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... T Y E F V E I S E V T - - I T G K E V D P L T L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A - - E S N G Y T F A N K G K E G S H G T V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... S Y D F V L V T P P A N G I V G V A P D - Y A L P Y T D E W W K G V F R A G R K V K L S P Y K L G K T E V T Y K L W K E V Y D E A V K P E H G Y T F Q N A G Q K G S D G T - - - - - G N D E E Q P V T M V S W R D C I V W C N A Y T E Subject: UniRef90_Q73NC3 Cluster: Conserved domain protein; n=1; Treponema denticola|Rep: Conserved domain protein - Treponema denticola HSP 1 e-value: 8.0E-14 bit: 80.5 Len: 321 Query Start:608 Query End:928 Subject Strand: null Subject Start: 238 Subject End: 333 ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... V E I S E V T I T G K E V D P L T L P G T D A W W K G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A E S N G Y T F A N K G K E G S H G T V G A A P T G A K K E P V T E V S W R D C I V W C N A Y T Q ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... V K I N S E T I V G K D P G C E F P A I T G T S W T G V F P A G R T V T L S E Y T M G K Y E V T A E L W N T I Y V W A K D R G Y E F D Y N G N - - - - - - - - - - - T P N S D K P I S G V S W R D C V V W C N A Y T E Subject: UniRef90_Q73KS2 Cluster: Hypothetical protein; n=1; Treponema denticola|Rep: Hypothetical protein - Treponema denticola HSP 1 e-value: 2.0E-9 bit: 66.2 Len: 243 Query Start:686 Query End:928 Subject Strand: null Subject Start: 74 Subject End: 179 ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. G V F I K D R K V K L S P Y K L G K T E V T Y E L * H E V L T W A - - - E S N G Y T F A N K G K E G S H G T V G A A P - - - - - - T G A K K E - - - - - - - - - - - - - - - - P V T E V S W R D C I V W C N A Y T Q ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. G V F L E G R S I T L S P Y K I G K Y E V A F S F W H E V Y N W A V T E S K H K Y V F Q S M G Q P G I F M T S G S D P D D L Y E I A D V R K K A E S L G L P Y E T V K C G L Y P V T K M S W S D A I I W C N A L S E agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 16 End: 207 ............... M R F P A K I L G Y I I R I K L E L V N E R N R F F L I L G Y Y K F D K I D I T I R L I F V W K H V T L Y R N D R Q T H ................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 46 Strand: + Start: 149 End: 286 .................................................................................................................................................... M C G N M L H C T V M I D K H T D S S Y K Y N A R Q E L S F A Q F T R G L L R M S L Q R L P .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 211 End: 396 .................................................................................................................................................................................................................. M Q C T P R V E L C S I Y Q R L I K D V I T K T P L K P P R M A V V K T L R V L L T Q N S K I K N V R P C T F L I A R R .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 425 End: 760 ........................................................................................................................................................................................................................................................................................................................................................................................................................................ M T K F K T N K N K K A K A F T V N G V A A L I I A A I L A L V F I A C P N N A G G N S G N S G G E T P T P S E A T Y E ........................................................................................................................................................................ Protein_Len: 56 Strand: - Start: 761 End: 928 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ L V L Y E C P C F T I A V G K S I L S F F A T M S G Y S C G R C T C F F L R Y S F Y T P P V A Y Y P T I R I S M Protein_Len: 60 Strand: - Start: 406 End: 696 ..................................................................................................................................................................................................................................................................................................................................................................................................................... T K I A Q G F L A P P F E P L E P P S V G V G E S A V Y S N T S I E S T V M V P L S T S G K V K G P V S A Q H F P T N M ........................................................................................................................................................................................................................................ Protein_Len: 60 Strand: - Start: 353 End: 553 ................................................................................................................................................................................................................................................................................................................................................................ K S R E A T L N F I L K P L L F K H C L K F C V F V L L C F G E C N I S D R C E D Y G C Y Q C Q N K Y G T R V I C A S M ....................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 44 Strand: - Start: 249 End: 380 ........................................................................................................................................................................................................................................................ W L S I L S T M V F V G K F G G R I A T T L V R L T K S V C F E L I L F T R G H V N K M .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 45 Strand: - Start: 111 End: 245 .............................................................................................................. L N S L I S I V I L N I N T H F C T V S Y R L S L C V C R C C N Y I C H V G L T S S Q E M ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 34 Strand: - Start: 103 End: 204 ...................................................................................................... S I V F K I F N I N R Y P Q Y K H P F M N C Q V T I I S L C V S L M .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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: 46 End: 75 .............................................GTTGACAAGCTCTAATTTTATTCTTATTAT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 141 End: 170 ............................................................................................................................................GTTGATATTTGTGTGGAAACATGTTACACT...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 6 End: 35 .....TTTTTCCGTTTTGAGATTCCCTGCTAAAAT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 21 End: 50 ....................ATTCCCTGCTAAAATCTTGGGTTATATAAT.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 161 End: 190 ................................................................................................................................................................TTTGTCTATCATTACGGTACAGTGTAACAT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -8.6 Tail_Score: -3.53761 Start: 230 End: 244 Full_Region: AATGCACGCCAAGAG TTGAGC TTT GCTCAA TTTACCAGAGGCTTA .....................................................................................................................................................................................................................................TTGAGCTTTGCTCAA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: + Conf: 72 HP_score: -10.4 Tail_Score: -2.73468 Start: 292 End: 307 Full_Region: AAGACTCCCTTAAAA CCGCCA CGGA TGGCGG TGGTTAAGACTCTTA ...................................................................................................................................................................................................................................................................................................CCGCCACGGATGGCGG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 86 HP_score: -10.4 Tail_Score: -4.09511 Start: 292 End: 307 Full_Region: taagagtcttaacca ccgcca tccg tggcgg ttttaagggagtctt ...................................................................................................................................................................................................................................................................................................ccgccatccgtggcgg............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 95 HP_score: -14.1 Tail_Score: -3.01712 Start: 317 End: 350 Full_Region: ggacgcacatttttg atcttagagttttgc gtaa gcaaaactctaagag tcttaaccaccgcca ............................................................................................................................................................................................................................................................................................................................atcttagagttttgcgtaagcaaaactctaagag.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 85 HP_score: -12.4 Tail_Score: -3.15366 Start: 350 End: 379 Full_Region: ttaaccgccgagcga tcaaaaatgtgc atggac gcacatttttga tcttagagttttgcg .............................................................................................................................................................................................................................................................................................................................................................tcaaaaatgtgcatggacgcacatttttga..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 75 HP_score: -5.4 Tail_Score: -4.7497 Start: 357 End: 372 Full_Region: CTCTAAGATCAAAAA TGTGCG TCCA TGCACA TTTTTGATCGCTCGG ....................................................................................................................................................................................................................................................................................................................................................................TGTGCGTCCATGCACA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 74 HP_score: -4.7 Tail_Score: -4.87626 Start: 357 End: 372 Full_Region: ccgagcgatcaaaaa tgtgc atggac gcaca tttttgatcttagag ....................................................................................................................................................................................................................................................................................................................................................................tgtgcatggacgcaca............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 81 HP_score: -2.9 Tail_Score: -5.59962 Start: 451 End: 472 Full_Region: cgcgactccattaac tgtgaaggc tttt gccttcttg tttttgtttgtttta ..................................................................................................................................................................................................................................................................................................................................................................................................................................................................tgtgaaggcttttgccttcttg........................................................................................................................................................................................................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 89 HP_score: -9.0 Tail_Score: -4.78345 Start: 454 End: 469 Full_Region: gactccattaactgt gaaggc tttt gccttc ttgtttttgtttgtt .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................gaaggcttttgccttc........................................................................................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 72 HP_score: -9.7 Tail_Score: -3.08312 Start: 837 End: 857 Full_Region: gctctttttttgcac ctgtagggg ctg ctcctacgg ttccatgactgcctt ....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ctgtaggggctgctcctacgg....................................................................... Find igs database================================================ Query_seq: TDE1055:TDE1056|TDE1055:TDE1056:MATE efflux family protein:hypothetical protein:<-->:1084422..1085349 928 agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaacannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 2 Min: 1 Max: 577 Len: 577 Subject: NC_002967_TDE1055_TDE1056|MATE efflux family protein:hypothetical protein|NEGATIVE:POSITIVE|[1084422,1085349]|928 HSP 1 e-value: 0.0 bit: 1090.0 Len: 577 Query Start:1 Query End:577 Subject Strand: POSITIVE Subject Start: 1 Subject End: 577 agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgnnnnnnnnnaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaaca............................................................................................................................................................................................................................................................................................................................................................... agccttttttccgttttgagattccctgctaaaatcttgggttatataataagaataaaattagagcttgtcaacgaaagaaaccgtttttttttaattttaggatattacaaatttgataaaattgatattacgataaggttgatatttgtgtggaaacatgttacactgtaccgtaatgatagacaaacacaccgacagcagttataaatacaatgcacgccaagagttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagactcttagagttttgcttacgcaaaactctaagatcaaaaatgtgcgtccatgcacatttttgatcgctcggcggttaaattaaaaattaactttggcaggaggaacttatgacaaagtttaaaacaaacaaaaacaagaaggcaaaagccttcacagttaatggagtcgcggcactcatcatagccgcaatattggcactggtttttatagcctgtccgaacaatgcaggcggaaattcaggtaactcaggtggagaaaca............................................................................................................................................................................................................................................................................................................................................................... Subject: NC_002967_TDE2516_TDE2517|hypothetical protein:DNA repair protein RadA|POSITIVE:NEGATIVE|[2542254,2542543]|290 HSP 1 e-value: 3.0E-21 bit: 105.0 Len: 89 Query Start:229 Query End:317 Subject Strand: NEGATIVE Subject Start: 23 Subject End: 111 ....................................................................................................................................................................................................................................gttgagctttgctcaatttaccagaggcttattaaggatgtcattacaaagactcccttaaaaccgccacggatggcggtggttaagac................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... ....................................................................................................................................................................................................................................gttgagctccgctcaacttcgcagaggattattaaggatgtccttacaaagattccattaaaaccgccacggatggcggtggttaagac................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... HSP 2 e-value: 1.0E-11 bit: 73.8 Len: 68 Query Start:140 Query End:207 Subject Strand: NEGATIVE Subject Start: 212 Subject End: 280 ...........................................................................................................................................ggttgatatttgtgtggaaacatgttac-actgtaccgtaatgatagacaaacacaccgacagcagtta................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. ...........................................................................................................................................ggttgatatttgtgtggaaacatgctaatactataccgtaatgaaagacaaataccccgacagcagtta................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCCUUUUUUCCGUUUUGAGAUUCCCUGCUAAAAUCUUGGGUUAUAUAAUAAGAAUAAAAUUAGAGCUUGUCAACGAAAGAAACCGUUUUUUUUUAAUUUUAGGAUAUUACAAAUUUGAUAAAAUUGAUAUUACGAUAAGGUUGAUAUUUGUGUGGAAACAUGUUACACUGUACCGUAAUGAUAGACAAACACACCGACAGCAGUUAUAAAUACAAUGCACGCCAAGAGUUGAGCUUUGCUCAAUUUACCAGAGGCUUAUUAAGGAUGUCAUUACAAAGACUCCCUUAAAACCGCCACGGAUGGCGGUGGUUAAGACUCUUAGAGUUUUGCUUACGCAAAACUCUAAGAUCAAAAAUGUGCGUCCAUGCACAUUUUUGAUCGCUCGGCGGUUAAAUUAAAAAUUAACUUUGGCAGGAGGAACUUAUGACAAAGUUUAAAACAAACAAAAACAAGAAGGCAAAAGCCUUCACAGUUAAUGGAGUCGCGGCACUCAUCAUAGCCGCAAUAUUGGCACUGGUUUUUAUAGCCUGUCCGAACAAUGCAGGCGGAAAUUCAGGUAACUCAGGUGGAGAAACA .((((((((...(((.((((.((((((((((((.......((.((((..(((((.(((((..(((((..((...(....)..)).))))).))))).)))))..)))).)).((((((((...((((.((((...((((.((((.....((((((....)..(((((........))))).........)))))....))))..)))).))))))))...((((..(((((((((...)))))))))...((((.((((.(((((..(((........)))..)))))..(((((((....)))))))...)))).))))(((((((((((....))))))))))).(((((((((((((((....)))))))))))))))....))))))))))))..........))))))))).))).)))).)))...((((.....))))......))))))))......((((((.(((((((.....(((((..........)))))..))))))).(((..((((...((((((.........)))))).))))..))).........))))))..... (-169.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUCUCCACCUGAGUUACCUGAAUUUCCGCCUGCAUUGUUCGGACAGGCUAUAAAAACCAGUGCCAAUAUUGCGGCUAUGAUGAGUGCCGCGACUCCAUUAACUGUGAAGGCUUUUGCCUUCUUGUUUUUGUUUGUUUUAAACUUUGUCAUAAGUUCCUCCUGCCAAAGUUAAUUUUUAAUUUAACCGCCGAGCGAUCAAAAAUGUGCAUGGACGCACAUUUUUGAUCUUAGAGUUUUGCGUAAGCAAAACUCUAAGAGUCUUAACCACCGCCAUCCGUGGCGGUUUUAAGGGAGUCUUUGUAAUGACAUCCUUAAUAAGCCUCUGGUAAAUUGAGCAAAGCUCAACUCUUGGCGUGCAUUGUAUUUAUAACUGCUGUCGGUGUGUUUGUCUAUCAUUACGGUACAGUGUAACAUGUUUCCACACAAAUAUCAACCUUAUCGUAAUAUCAAUUUUAUCAAAUUUGUAAUAUCCUAAAAUUAAAAAAAAACGGUUUCUUUCGUUGACAAGCUCUAAUUUUAUUCUUAUUAUAUAACCCAAGAUUUUAGCAGGGAAUCUCAAAACGGAAAAAAGGCU ..(((.(((...((((...((((...........((((((..(((.(((..((((((...((((((.....(((((((..........)))))))...((..(((...((((((....))))))..)))..)).........(((((((.((..((...))..)).)))))))...............(((((((.((((((((((((((......)))))))))))))).(((((((((((....)))))))))))((((.((((...(((((((....))))))).((((((..(((........)))..)))))))))).))))......((((((...))))))..))))))).))))))..)))))).)))))).))))))....((((...(((((((((.((.((...((((((......))))))..))))))))))))).................(((((((...((((((((......(((((......))))).........))))))))....))))))).......)))).....))))....))))....))).)))..... (-162.66) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 880 500 451 96 47 NC_002967:TDE2516|5end_hypothetical_protein_2542021..2542251_POSITIVE 809 50 1 141 92 NC_002967:TDE1055|5end_MATE_efflux_family_protein_1084331..1084561_NEGATIVE 600 340 291 143 91 NC_002967:TDE1890|5end_hypothetical_protein_1911012..1911242_POSITIVE 588 340 292 158 107 NC_002967:TDE1847|5end_hypothetical_protein_1875664..1875894_POSITIVE 556 339 291 190 142 NC_002967:TDE2237|5end_hypothetical_protein_2276402..2276632_NEGATIVE 547 210 162 116 68 NC_002967:TDE2314|5end_hypothetical_protein_2352054..2352284_POSITIVE 516 340 291 68 20 NC_002967:TDE1923|5end_hypothetical_protein_1941692..1941922_NEGATIVE 479 390 348 219 173 NC_002967:TDE1889|5end_branched-chain_amino_acid_transport_system_II_carrier_protein_1910888..1911118_NEGATIVE 472 339 291 114 66 NC_002967:TDE2548|5end_hypothetical_protein_2573198..2573428_NEGATIVE 461 337 291 224 179 NC_002967:TDE0976|5end_hypothetical_protein_1000026..1000256_POSITIVE 455 330 293 160 123 NC_002967:TDE2312|5end_hypothetical_protein_2348451..2348681_POSITIVE 428 310 263 110 74 NC_002967:TDE2134|5end_hypothetical_protein_2164447..2164677_POSITIVE 406 570 527 48 17 NC_002967:TDE2494|5end_hypothetical_protein_2518497..2518727_POSITIVE 401 266 221 119 67 NC_002967:TDE0970|5end_hypothetical_protein_994769..994999_POSITIVE 394 340 292 200 147 NC_002967:TDE1935|5end_hypothetical_protein_1952994..1953224_POSITIVE 387 339 291 137 91 NC_002967:TDE2338|5end_hypothetical_protein_2374719..2374949_NEGATIVE 385 492 452 77 40 NC_002967:TDE1912|5end_redox-sensing_transcriptional_repressor_Rex_1929176..1929406_POSITIVE 381 310 276 231 189 NC_002967:TDE0569|5end_hypothetical_protein_599636..599866_POSITIVE 377 330 288 56 3 NC_002967:TDE0512|5end_hypothetical_protein_561442..561672_NEGATIVE 371 259 211 63 6 NC_002967:TDE2258|5end_surface_antigen_BspA,_putative_2296401..2296631_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 775 310 261 61 12 NC_002967:TDE2516|3end_hypothetical_protein_2542193..2542343_POSITIVE 516 340 291 86 38 NC_002967:TDE1924|3end_hypothetical_protein_1941674..1941824_NEGATIVE 468 331 292 103 70 NC_002967:TDE0049|3end_hypothetical_protein_58199..58349_NEGATIVE 455 330 293 66 29 NC_002967:TDE2311|3end_hypothetical_protein_2348437..2348587_POSITIVE 391 569 531 90 44 NC_002967:TDE1003|3end_hypothetical_protein_1029325..1029475_POSITIVE 384 521 481 150 108 NC_002967:TDE2494|3end_hypothetical_protein_2518714..2518864_POSITIVE 380 425 381 93 47 NC_002967:TDE1977|3end_hypothetical_protein_1991348..1991498_POSITIVE 359 350 304 55 2 NC_002967:TDE2239|3end_hypothetical_protein_2276554..2276704_NEGATIVE 359 330 281 81 16 NC_002967:TDE1913|3end_hypothetical_protein_1930897..1931047_POSITIVE 355 309 263 46 4 NC_002967:TDE1277|3end_Fe-hydrogenase_large_subunit_family_protein_1312242..1312392_POSITIVE 353 340 297 44 1 NC_002967:TDE0834|3end_Na(+)-translocating_NADH-quinone_reductase,_E_subunit_854291..854441_NEGATIVE 321 328 291 53 16 NC_002967:TDE2483|3end_hypothetical_protein_2505880..2506030_NEGATIVE 321 340 294 115 62 NC_002967:TDE1934|3end_hypothetical_protein_1952804..1952954_POSITIVE 321 549 501 70 23 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 321 549 501 70 23 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 316 312 285 61 35 NC_002967:TDE2714|3end_hypothetical_protein_2770627..2770777_NEGATIVE 315 504 463 143 93 NC_002967:TDE2057|3end_hypothetical_protein_2085158..2085308_NEGATIVE 313 550 503 45 2 NC_002967:TDE2242|3end_antigen,_putative_2279569..2279719_NEGATIVE 313 505 463 128 88 NC_002967:TDE1491|3end_chemotaxis_protein_CheA_1537294..1537444_POSITIVE 311 520 471 62 19 NC_002967:TDE2317|3end_hemolysin_III_2354118..2354268_NEGATIVE