Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2821038
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 98422 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:574430 original size:15 final size:15
Alignment explanation
Indices: 574406--574460 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
574396 TTTTTCTAAC
* * *
574406 AATTTGAATTTTAAT
1 AATTTAAATTTAAAA
574421 AATTTAAATTTAAAA
1 AATTTAAATTTAAAA
*
574436 AA-TTAAAATT-AAA
1 AATTTAAATTTAAAA
574449 AATTTAATATTT
1 AATTTAA-ATTT
574461 CATTAACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 5 0.15
14 11 0.33
15 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AATTTAAATTTAAAA
Found at i:583313 original size:2 final size:2
Alignment explanation
Indices: 583306--583341 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
583296 AGCTTCAAAG
583306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
583342 TGCTATCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:585623 original size:16 final size:17
Alignment explanation
Indices: 585595--585627 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
585585 TTGTTGATGA
585595 TCTTTTCTTCTTTTTTT
1 TCTTTTCTTCTTTTTTT
585612 TCTTTT-TTCTTTTTTT
1 TCTTTTCTTCTTTTTTT
585628 ACCAGTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TCTTTTCTTCTTTTTTT
Found at i:585683 original size:3 final size:3
Alignment explanation
Indices: 585675--585701 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
585665 TTGGGCTCTT
585675 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
585702 TTGGCTGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:586421 original size:183 final size:184
Alignment explanation
Indices: 586172--586525 Score: 665
Period size: 183 Copynumber: 1.9 Consensus size: 184
586162 TATTGATGTT
*
586172 TTAATATTAATATAAATATAATATATCTAATCTACGTTACATTATTAATTTTAGCTTTGATAGAA
1 TTAATATAAATATAAATATAATATATCTAATCTACGTTACATTATTAATTTTAGCTTTGATAGAA
586237 TTTAATAATCTTTGTAAAATTTAGTCACCTTTGATGAGTTTTTATATAATTTTGATAAAAATAAT
66 TTTAATAATCTTTGTAAAATTTAGTCACCTTTGATGAGTTTTTATATAATTTTGATAAAAATAAT
* *
586302 TGTTTACTACTTATTATTTAGCTTAAAATATAAGTTTTTTTCTATGTTTTAATA
131 TGTTTACTACTCATTATTTAGCGTAAAATATAAGTTTTTTTCTATGTTTTAATA
586356 TTAATATAAATAT-AATATAATATATCTAATCTACGTTACATTATTAATTTTAGCTTTGATAGAA
1 TTAATATAAATATAAATATAATATATCTAATCTACGTTACATTATTAATTTTAGCTTTGATAGAA
586420 TTTAATAATCTTTGTAAAATTTAGTCACCTTTGATGAGTTTTTATATAATTTTGATAAAAATAAT
66 TTTAATAATCTTTGTAAAATTTAGTCACCTTTGATGAGTTTTTATATAATTTTGATAAAAATAAT
*
586485 TGTTTACTACTCATTATTTGGCGTAAAATATAAGTTTTTTT
131 TGTTTACTACTCATTATTTAGCGTAAAATATAAGTTTTTTT
586526 TTTTCTATTG
Statistics
Matches: 166, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
183 154 0.93
184 12 0.07
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.48
Consensus pattern (184 bp):
TTAATATAAATATAAATATAATATATCTAATCTACGTTACATTATTAATTTTAGCTTTGATAGAA
TTTAATAATCTTTGTAAAATTTAGTCACCTTTGATGAGTTTTTATATAATTTTGATAAAAATAAT
TGTTTACTACTCATTATTTAGCGTAAAATATAAGTTTTTTTCTATGTTTTAATA
Found at i:599598 original size:34 final size:34
Alignment explanation
Indices: 599531--599780 Score: 351
Period size: 34 Copynumber: 7.4 Consensus size: 34
599521 ACCAACAAAA
* * *
599531 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
599564 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
599598 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
599631 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
599665 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
599699 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
599733 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
599767 TGTTGATTAAATGG
1 TGTTGATTAAATGG
599781 TGGTTTTTAC
Statistics
Matches: 196, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
33 40 0.20
34 156 0.80
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:600142 original size:19 final size:19
Alignment explanation
Indices: 600086--600148 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
600076 TGGTTGTCGA
**
600086 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
600105 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
600124 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
600143 GTTACT
1 GGTACT
600149 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:604283 original size:34 final size:34
Alignment explanation
Indices: 604214--604465 Score: 355
Period size: 34 Copynumber: 7.5 Consensus size: 34
604204 AAGTGGGAGA
* * *
604214 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
604247 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
604281 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
604314 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
604348 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
604382 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
604416 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
604450 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
604466 TGGTTTTTAC
Statistics
Matches: 198, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
33 42 0.21
34 156 0.79
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:606819 original size:28 final size:27
Alignment explanation
Indices: 606761--606829 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
606751 CATTTATTTG
**
606761 TTTGTCAAAAATGGTGGTTATTTTATT
1 TTTGTCAAAAATGGTGGTTATTTTAGA
606788 TTTGTCAAAAATGGTGGTT-TCCTTTAGA
1 TTTGTCAAAAATGGTGGTTAT--TTTAGA
*
606816 TTTGTCAAATATGG
1 TTTGTCAAAAATGG
606830 AGGCTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 17 0.46
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTAGA
Found at i:609439 original size:21 final size:22
Alignment explanation
Indices: 609410--609455 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
609400 TGTTCAGACA
** *
609410 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
609432 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
609453 AGT
1 AGT
609456 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:611395 original size:28 final size:27
Alignment explanation
Indices: 611337--611405 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
611327 CACCCATTTG
**
611337 TTTGTCAAAAATGGTGGTTATTTTGTT
1 TTTGTCAAAAATGGTGGTTATTTTGGA
611364 TTTGTCAAAAATGGTGGTT-TCCTTTGGA
1 TTTGTCAAAAATGGTGGTTAT--TTTGGA
*
611392 TTTGTCAAATATGG
1 TTTGTCAAAAATGG
611406 AGGCTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 17 0.46
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTGGA
Found at i:612964 original size:2 final size:2
Alignment explanation
Indices: 612959--612986 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
612949 TTAACATTAT
612959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
612987 ATTCAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:615759 original size:34 final size:33
Alignment explanation
Indices: 615716--615940 Score: 256
Period size: 34 Copynumber: 6.7 Consensus size: 33
615706 GGTTTGGTAA
**
615716 AAATCACCATTTAATCAACAATGACAACCTACC
1 AAATCACCATTTAATCAACAATGGTAACCTACC
*
615749 AAATCTACCATTTAGTCAACAATGGTAAGCC-ACC
1 AAATC-ACCATTTAATCAACAATGGTAA-CCTACC
* *
615783 AAATCACCCATTTAATCAATAATGGTAAGCTACC
1 AAATCA-CCATTTAATCAACAATGGTAACCTACC
** *
615817 AAATTTCTCATTTAATCAACAATGGTAAGCTACC
1 AAATCAC-CATTTAATCAACAATGGTAACCTACC
* * **
615851 AAATCTCCCATTTAGTCAACAATGACAAACC-ACC
1 AAATC-ACCATTTAATCAACAATG-GTAACCTACC
*
615885 AAATCACCCATTTAATCAACAATGGTAAACTACC
1 AAATCA-CCATTTAATCAACAATGGTAACCTACC
615919 AAATCACCATTTAATCAACAAT
1 AAATCACCATTTAATCAACAAT
615941 TCTCCCACTT
Statistics
Matches: 163, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 27 0.17
34 130 0.80
35 6 0.04
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (33 bp):
AAATCACCATTTAATCAACAATGGTAACCTACC
Found at i:615829 original size:68 final size:66
Alignment explanation
Indices: 615716--615940 Score: 288
Period size: 68 Copynumber: 3.3 Consensus size: 66
615706 GGTTTGGTAA
* * *
615716 AAATCACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCA
1 AAATCACCATTTAATCAACAATGACAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTA
615781 CC
65 CC
* ** * *
615783 AAATCACCCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCT
1 AAATCA-CCATTTAATCAACAATGACAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCT
615848 ACC
64 ACC
* * * * *
615851 AAATCTCCCATTTAGTCAACAATGACAAACCACCAAATCACCCATTTAATCAACAATGGTAAACT
1 AAATC-ACCATTTAATCAACAATGACAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCT
615916 ACC
64 ACC
615919 AAATCACCATTTAATCAACAAT
1 AAATCACCATTTAATCAACAAT
615941 TCTCCCACTT
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
67 23 0.17
68 111 0.82
69 1 0.01
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (66 bp):
AAATCACCATTTAATCAACAATGACAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTAC
C
Found at i:615864 original size:102 final size:101
Alignment explanation
Indices: 615716--615940 Score: 342
Period size: 102 Copynumber: 2.2 Consensus size: 101
615706 GGTTTGGTAA
** *
615716 AAATCACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCA
1 AAATCACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCA
* *
615781 CCAAATCACCCATTTAATCAATAATGGTAAGCTACC
66 CCAAATCACCCATTTAATCAACAATGGTAAACTACC
** ** * *
615817 AAATTTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGACAAACC
1 AAATCAC-CATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACC
615882 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
65 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
615919 AAATCACCATTTAATCAACAAT
1 AAATCACCATTTAATCAACAAT
615941 TCTCCCACTT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 20 0.18
102 90 0.82
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (101 bp):
AAATCACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCA
CCAAATCACCCATTTAATCAACAATGGTAAACTACC
Found at i:620395 original size:34 final size:33
Alignment explanation
Indices: 620351--620565 Score: 218
Period size: 34 Copynumber: 6.4 Consensus size: 33
620341 AAAAACCACT
*
620351 ATTTAATCAACAATGGCAACCTACCAAATCTACC
1 ATTTAATCAACAATGGTAACCTACCAAATC-ACC
*
620385 ATTTAGTCAACAATGGTAAGCC-ACCAAATCACC
1 ATTTAATCAACAATGGTAA-CCTACCAAATCACC
* * **
620418 TATTTAATCAATAATGGTAAGCTACCAAATTTCTC
1 -ATTTAATCAACAATGGTAACCTACCAAATCAC-C
* * **
620453 ATTTAATCAACAATAGTAAGCTACCAAATCTTTC
1 ATTTAATCAACAATGGTAACCTACCAAATC-ACC
* **
620487 ATTTAGTCAACAATGACAAACC-ACCAAATCACTC
1 ATTTAATCAACAATG-GTAACCTACCAAATCAC-C
* *
620521 ATTTAATCAACAATGGTAAACTACCAAATCACT
1 ATTTAATCAACAATGGTAACCTACCAAATCACC
620554 ATTTAATCAACA
1 ATTTAATCAACA
620566 GCATGCACTC
Statistics
Matches: 150, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
33 19 0.13
34 124 0.83
35 7 0.05
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (33 bp):
ATTTAATCAACAATGGTAACCTACCAAATCACC
Found at i:620463 original size:68 final size:67
Alignment explanation
Indices: 620347--620565 Score: 269
Period size: 68 Copynumber: 3.2 Consensus size: 67
620337 TGGTAAAAAC
* * *
620347 CACTATTTAATCAACAATGGCAACCTACCAAATCTAC-CATTTAGTCAACAATGGTAAGCCACCA
1 CACTATTTAATCAACAATGGCAAACTACCAAAT-TACTCATTTAATCAACAATGGTAAGCTACCA
620411 AAT
65 AAT
* * * * *
620414 CACCTATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATAGTAAGCTACCA
1 CA-CTATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCA
620479 AAT
65 AAT
** * * * * *
620482 CTTTCATTTAGTCAACAATGACAAACCACCAAATCACTCATTTAATCAACAATGGTAAACTACCA
1 CACT-ATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCA
620547 AAT
65 AAT
620550 CACTATTTAATCAACA
1 CACTATTTAATCAACA
620566 GCATGCACTC
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
67 16 0.13
68 111 0.87
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (67 bp):
CACTATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:620527 original size:102 final size:101
Alignment explanation
Indices: 620347--620565 Score: 305
Period size: 102 Copynumber: 2.2 Consensus size: 101
620337 TGGTAAAAAC
* ** *
620347 CACTATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACTATTTAATCAACAATAGCAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAA
* *
620412 ATCACCTATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCTATTTAATCAACAATGGTAAACTACCAAAT
** * * **
620448 TTCTCATTTAATCAACAATAGTAAGCTACCAAATCTTTCATTTAGTCAACAATGACAAACCACCA
1 CACT-ATTTAATCAACAATAGCAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCA
620513 AATCA-CTCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCT-ATTTAATCAACAATGGTAAACTACCAAAT
620550 CACTATTTAATCAACA
1 CACTATTTAATCAACA
620566 GCATGCACTC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
101 16 0.16
102 86 0.84
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (101 bp):
CACTATTTAATCAACAATAGCAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCACCAA
ATCACCTATTTAATCAACAATGGTAAACTACCAAAT
Found at i:626474 original size:16 final size:16
Alignment explanation
Indices: 626439--626491 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
626429 AGGTACAAGG
*
626439 AAAATTAAAATGA-TAA
1 AAAATTAAAA-GAGAAA
626455 AAAATTAAAAGAGAAA
1 AAAATTAAAAGAGAAA
* *
626471 AAAAGTAAAAAAGTAAA
1 AAAATTAAAAGAG-AAA
626488 AAAA
1 AAAA
626492 AAATGTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 2 0.06
16 23 0.72
17 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAAATTAAAAGAGAAA
Found at i:626480 original size:7 final size:8
Alignment explanation
Indices: 626452--626490 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
626442 ATTAAAATGA
*
626452 TAAAAAAT
1 TAAAAAAG
*
626460 TAAAAGAG
1 TAAAAAAG
*
626468 AAAAAAAG
1 TAAAAAAG
626476 TAAAAAAG
1 TAAAAAAG
626484 TAAAAAA
1 TAAAAAA
626491 AAAATGTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (8 bp):
TAAAAAAG
Found at i:633228 original size:21 final size:22
Alignment explanation
Indices: 633177--633234 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
633167 TGATTTTGGT
*
633177 TAAATTAAAAATGATAATAATGA
1 TAAATT-AAAATTATAATAATGA
633200 TAAGATTAAATATTATAATAATG-
1 TAA-ATTAAA-ATTATAATAATGA
633223 T-AATTAAAATTA
1 TAAATTAAAATTA
633235 ATGTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.12
21 6 0.19
22 1 0.03
23 7 0.22
24 14 0.44
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAATTAAAATTATAATAATGA
Found at i:633326 original size:15 final size:15
Alignment explanation
Indices: 633284--633328 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
633274 AGTGAGGTAA
633284 ATTATATTAAAA-A-
1 ATTATATTAAAATAT
*
633297 ATGATCATT-AAATAT
1 ATTAT-ATTAAAATAT
633312 ATTATATTAAAATAT
1 ATTATATTAAAATAT
633327 AT
1 AT
633329 GGGTATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 7 0.27
14 7 0.27
15 12 0.46
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
ATTATATTAAAATAT
Found at i:633357 original size:31 final size:29
Alignment explanation
Indices: 633320--633398 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
633310 ATATTATATT
*
633320 AAAATATATGGGTATACATAA-TAAATAATTA
1 AAAATATAT--GTATA-ATAATTAAAAAATTA
*
633351 AAAATATATTTATAATAATTAAAAAATTA
1 AAAATATATGTATAATAATTAAAAAATTA
* *
633380 AAATTATATTTATATATAA
1 AAAATATATGTATA-ATAA
633399 AAATTTAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.09
29 26 0.60
30 4 0.09
31 9 0.21
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATATATGTATAATAATTAAAAAATTA
Found at i:633373 original size:29 final size:29
Alignment explanation
Indices: 633332--633398 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
633322 AATATATGGG
*
633332 TATACATAATAAATAATTAAAAATATATT
1 TATACATAATAAAAAATTAAAAATATATT
*
633361 TATA-ATAATTAAAAAATTAAAATTATATT
1 TATACATAA-TAAAAAATTAAAAATATATT
*
633390 TATATATAA
1 TATACATAA
633399 AAATTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 4 0.12
29 26 0.76
30 4 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (29 bp):
TATACATAATAAAAAATTAAAAATATATT
Found at i:633725 original size:18 final size:19
Alignment explanation
Indices: 633699--633736 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
633689 CTGTTTTGAT
633699 ATTTGTATATATAT-TATA
1 ATTTGTATATATATATATA
*
633717 ATTTTTATATATATATATA
1 ATTTGTATATATATATATA
633736 A
1 A
633737 AATAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTGTATATATATATATA
Found at i:634060 original size:58 final size:58
Alignment explanation
Indices: 633996--634107 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
633986 GGAAGGCATC
* * *
633996 TATTTATAATGAAATTCATCATACATTAATAGTTCAAATAAAATTCAATGAACACATT
1 TATTTATAATGAAATTCATCATACATCAATAGCTCAAATAAAATTCAATAAACACATT
* * *
634054 TATTTATAATTAAATTCCTCGTACATCAATAGCTCAAATAAAATTCAATAAACA
1 TATTTATAATGAAATTCATCATACATCAATAGCTCAAATAAAATTCAATAAACA
634108 GTTAAGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.35
Consensus pattern (58 bp):
TATTTATAATGAAATTCATCATACATCAATAGCTCAAATAAAATTCAATAAACACATT
Found at i:636633 original size:18 final size:18
Alignment explanation
Indices: 636610--636651 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
636600 GCAGGCAAGT
636610 AAGGATTGATCATGAACA
1 AAGGATTGATCATGAACA
636628 AAGGATTGATCATGAACA
1 AAGGATTGATCATGAACA
636646 AAGGAT
1 AAGGAT
636652 GACAGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (18 bp):
AAGGATTGATCATGAACA
Found at i:640464 original size:34 final size:34
Alignment explanation
Indices: 640426--640640 Score: 254
Period size: 34 Copynumber: 6.4 Consensus size: 34
640416 GGAAAAATCA
* *
640426 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * *
640460 CCATTTAGTCAACAATAGTAAACTACCAAATCAC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * *
640494 CTATTTAATCAACAATGGTAAGCTATCAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
*
640528 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * * * *
640562 TCATTTAGTCAGCAATGGCAAA-TCACCAAATCAC
1 CCATTTAATCAACAATGGTAAACT-ACCAAATCTC
* * *
640596 TCATTTAATCAACAATGGTAAACTACAAAATC-A
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
640629 CCATTTAATCAA
1 CCATTTAATCAA
640641 AAATTCTCCC
Statistics
Matches: 154, Mismatches: 25, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
33 12 0.08
34 141 0.92
35 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCTC
Found at i:640528 original size:68 final size:66
Alignment explanation
Indices: 640420--640640 Score: 289
Period size: 68 Copynumber: 3.3 Consensus size: 66
640410 GGTTTAGGAA
* *
640420 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATAGTAAACTA
1 AAATCACCATTTAATCAACAATGGCAA-CTACCAAATCTCCCATTTAATCAACAATGGTAAACTA
640485 CC
65 CC
* * *
640487 AAATCACCTATTTAATCAACAATGGTAAGCTATCAAATCTCCCATTTAATCAACAATGGTAAGCT
1 AAATCACC-ATTTAATCAACAATGGCAA-CTACCAAATCTCCCATTTAATCAACAATGGTAAACT
640552 ACC
64 ACC
* * * * * *
640555 AAATCTCTCATTTAGTCAGCAATGGCAAATCACCAAATCACTCATTTAATCAACAATGGTAAACT
1 AAATCAC-CATTTAATCAACAATGGCAACT-ACCAAATCTCCCATTTAATCAACAATGGTAAACT
*
640620 ACA
64 ACC
640623 AAATCACCATTTAATCAA
1 AAATCACCATTTAATCAA
640641 AAATTCTCCC
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
67 18 0.14
68 113 0.86
69 1 0.01
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (66 bp):
AAATCACCATTTAATCAACAATGGCAACTACCAAATCTCCCATTTAATCAACAATGGTAAACTAC
C
Found at i:640602 original size:102 final size:101
Alignment explanation
Indices: 640419--640640 Score: 315
Period size: 102 Copynumber: 2.2 Consensus size: 101
640409 AGGTTTAGGA
*
640419 AAAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATAGTAAACT
1 AAAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATAGCAAACT
*
640484 ACCAAATCACCTATTTAATCAACAATGGTAAGCTATC
66 ACCAAATCACCTATTTAATCAACAATGGTAAACTA-C
* * * * * *
640521 -AAATCTCCCATTTAATCAACAATGGTAAGCTACCAAATCTCTCATTTAGTCAGCAATGGCAAA-
1 AAAATC-ACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATAGCAAAC
640584 TCACCAAATCA-CTCATTTAATCAACAATGGTAAACTAC
65 T-ACCAAATCACCT-ATTTAATCAACAATGGTAAACTAC
640622 AAAATCACCATTTAATCAA
1 AAAATCACCATTTAATCAA
640641 AAATTCTCCC
Statistics
Matches: 107, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
101 21 0.20
102 86 0.80
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (101 bp):
AAAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATAGCAAACT
ACCAAATCACCTATTTAATCAACAATGGTAAACTAC
Found at i:644703 original size:19 final size:20
Alignment explanation
Indices: 644679--644722 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
644669 TTTCATGTGT
644679 ATAGTAAT-CGTATACGTGA
1 ATAGTAATCCGTATACGTGA
*
644698 ATAGT-ATCCGTATATGTGA
1 ATAGTAATCCGTATACGTGA
644717 ATAGTA
1 ATAGTA
644723 CCTATATACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
ATAGTAATCCGTATACGTGA
Found at i:644730 original size:19 final size:19
Alignment explanation
Indices: 644689--644743 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
644679 ATAGTAATCG
*
644689 TATACGTGAATAGTATCCG
1 TATACGTGAATAGTATCCA
*
644708 TATATGTGAATAGTA-CCTA
1 TATACGTGAATAGTATCC-A
*
644727 TATACGTAAATAGTATC
1 TATACGTGAATAGTATC
644744 TCGACAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.07
19 27 0.90
20 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (19 bp):
TATACGTGAATAGTATCCA
Found at i:645114 original size:34 final size:34
Alignment explanation
Indices: 645050--645266 Score: 240
Period size: 34 Copynumber: 6.4 Consensus size: 34
645040 GTAAAAACTA
* * *
645050 CCATTTAATCAATAAT-GTCAACCTATCAAATCTC
1 CCATTTAATCAACAATGGT-AAACTACCAAATCTC
* * *
645084 CCATTTAGTCAACAATGATAAACTACCAAATCAC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * *
645118 TCATTTAATCAACAATGGTAAGCTACTAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* *
645152 TCATTTAATCAACAATAGTAAACTACCAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * * *
645186 TCATTTAGTCAATAATGGTAAACTACCAAATCAC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * * *
645220 CTATTTAATCAACAATGGTTAACTATCAAATC-A
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
645253 CCATTTAATCAACA
1 CCATTTAATCAACA
645267 GCTAGTATTG
Statistics
Matches: 155, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
33 13 0.08
34 141 0.91
35 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCTC
Found at i:645195 original size:102 final size:101
Alignment explanation
Indices: 645049--645266 Score: 300
Period size: 102 Copynumber: 2.1 Consensus size: 101
645039 GGTAAAAACT
* * *
645049 ACCATTTAATCAATAATGTCAACCTATCAAATCTCCCATTTAGTCAACAATGATAAACTACCAAA
1 ACCATTTAATCAACAATGTCAAACTACCAAATCTCCCATTTAGTCAACAATGATAAACTACCAAA
645114 TCA-CTCATTTAATCAACAATGG-TAAGCTA-CTAAATC
66 TCACCT-ATTTAATCAACAATGGTTAA-CTATC-AAATC
* * * *
645150 TCTCATTTAATCAACAATAGT-AAACTACCAAATCTCTCATTTAGTCAATAATGGTAAACTACCA
1 AC-CATTTAATCAACAAT-GTCAAACTACCAAATCTCCCATTTAGTCAACAATGATAAACTACCA
645214 AATCACCTATTTAATCAACAATGGTTAACTATCAAATC
64 AATCACCTATTTAATCAACAATGGTTAACTATCAAATC
645252 ACCATTTAATCAACA
1 ACCATTTAATCAACA
645267 GCTAGTATTG
Statistics
Matches: 104, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
101 14 0.13
102 82 0.79
103 8 0.08
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.30
Consensus pattern (101 bp):
ACCATTTAATCAACAATGTCAAACTACCAAATCTCCCATTTAGTCAACAATGATAAACTACCAAA
TCACCTATTTAATCAACAATGGTTAACTATCAAATC
Found at i:646713 original size:21 final size:22
Alignment explanation
Indices: 646689--646803 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 22
646679 AAGAAATAAC
*
646689 TATATGTATA-TATATCAATAT
1 TATATGTATATTATATAAATAT
*
646710 TATATATA-ATTATATAAATAT
1 TATATGTATATTATATAAATAT
* **
646731 AATATGTATAAAATAATTAAAATAT
1 TATATGTATATTAT-A-T-AAATAT
* * *
646756 AATAT-AATATAAATATAAATATT
1 TATATGTATAT-TATATAAATA-T
* *
646779 TTTATTTATATTATATAAATTAT
1 TATATGTATATTATATAAA-TAT
646802 TA
1 TA
646804 ATATAATAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
20 1 0.01
21 23 0.32
22 8 0.11
23 15 0.21
24 11 0.15
25 14 0.19
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (22 bp):
TATATGTATATTATATAAATAT
Found at i:646730 original size:6 final size:6
Alignment explanation
Indices: 646721--646868 Score: 57
Period size: 6 Copynumber: 25.5 Consensus size: 6
646711 ATATATAATT
*
646721 ATATAA ATATAA TATGTATAA A-ATAA TTA-AA ATAT-A ATAT-A ATATAA
1 ATATAA ATATAA -A--TATAA ATATAA ATATAA ATATAA ATATAA ATATAA
** * ** * *
646768 ATATAA ATATTT TTATTT ATAT-T ATATAA ATTATTA ATAT-A ATA-AA
1 ATATAA ATATAA ATATAA ATATAA ATATAA A-TATAA ATATAA ATATAA
* * * *
646814 AT-TAA TATAAAA ATATAA TTAT-G ATAT-A ATAAAA TATATAA ATAT-A
1 ATATAA -ATATAA ATATAA ATATAA ATATAA ATATAA -ATATAA ATATAA
646860 ATATAA ATA
1 ATATAA ATA
646869 ATTAAGTCTA
Statistics
Matches: 111, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
5 43 0.39
6 49 0.44
7 13 0.12
8 1 0.01
9 5 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (6 bp):
ATATAA
Found at i:646756 original size:16 final size:16
Alignment explanation
Indices: 646737--646774 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
646727 ATATAATATG
646737 TATAAAATAAT-TAAAA
1 TATAAAATAATAT-AAA
*
646753 TATAATATAATATAAA
1 TATAAAATAATATAAA
646769 TATAAA
1 TATAAA
646775 TATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TATAAAATAATATAAA
Found at i:646801 original size:18 final size:17
Alignment explanation
Indices: 646780--646873 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 17
646770 ATAAATATTT
* *
646780 TTATTTATATTATATAAA
1 TTATTAATATAATA-AAA
646798 TTATTAATATAATAAAA
1 TTATTAATATAATAAAA
*
646815 TTAATATAA-A-AATATAA
1 TT-AT-TAATATAATAAAA
*
646832 TTA-TGATATAATAAAA
1 TTATTAATATAATAAAA
*
646848 TATATAAATATAATATAAA
1 T-TATTAATATAATA-AAA
*
646867 TAATTAA
1 TTATTAA
646874 GTCTACAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.03
15 1 0.02
16 8 0.13
17 15 0.25
18 27 0.45
19 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (17 bp):
TTATTAATATAATAAAA
Found at i:646810 original size:5 final size:5
Alignment explanation
Indices: 646802--646870 Score: 60
Period size: 5 Copynumber: 14.8 Consensus size: 5
646792 TATAAATTAT
* * *
646802 TAATA TAATA AAAT- TAATA TAA-A -AATA TAATTA TGATA TAATA AAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAA-TA TAATA TAATA TAATA
646850 T-ATA -AATA TAATA TAA-A TAAT
1 TAATA TAATA TAATA TAATA TAAT
646871 TAAGTCTACA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
3 2 0.04
4 15 0.29
5 30 0.59
6 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:646863 original size:23 final size:22
Alignment explanation
Indices: 646820--646865 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
646810 TAAAATTAAT
* *
646820 ATAAAAATATAATTATGATATA
1 ATAAAAATATAAATATAATATA
646842 ATAAAATATATAAATATAATATA
1 ATAAAA-ATATAAATATAATATA
646865 A
1 A
646866 ATAATTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAAAAATATAAATATAATATA
Found at i:646987 original size:2 final size:2
Alignment explanation
Indices: 646982--647006 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
646972 GTAAATGTAT
646982 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
647007 TTGTGTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:647476 original size:28 final size:29
Alignment explanation
Indices: 647396--647476 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
647386 TCATTCATAT
*
647396 TTTAATTTTTTAAAA-AATATATTTTTTAA
1 TTTAA-TTTTTAAAATATTATATTTTTTAA
647425 TTTAATTTTTAATAAT-TTATATTTTTT-A
1 TTTAATTTTTAA-AATATTATATTTTTTAA
*
647453 TTTTA-TTTTAAAATATTATGATTT
1 TTTAATTTTTAAAATATTAT-ATTT
647477 AACATATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
26 3 0.07
27 10 0.22
28 16 0.35
29 17 0.37
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTAATTTTTAAAATATTATATTTTTTAA
Found at i:649513 original size:19 final size:19
Alignment explanation
Indices: 649486--649536 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
649476 GTCGATATAT
*
649486 TATTCACGTATACATGTAC
1 TATTCACGTATACAGGTAC
* *
649505 TATTTACGTATATAGGTAC
1 TATTCACGTATACAGGTAC
*
649524 TATTCAAGTATAC
1 TATTCACGTATAC
649537 GGTTACTGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (19 bp):
TATTCACGTATACAGGTAC
Found at i:652253 original size:22 final size:22
Alignment explanation
Indices: 652225--652273 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
652215 TATTTTCTCC
652225 AATTTCAACCCCACTTCCTATT
1 AATTTCAACCCCACTTCCTATT
652247 AATTTCAACCCCACTTCCTATT
1 AATTTCAACCCCACTTCCTATT
652269 AATTT
1 AATTT
652274 TAAGGTATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTCAACCCCACTTCCTATT
Found at i:653228 original size:34 final size:34
Alignment explanation
Indices: 653137--653389 Score: 222
Period size: 34 Copynumber: 7.5 Consensus size: 34
653127 AAGTGGGAGA
** * *
653137 ATTGTTGATTAAAT-GGTGATTTAATAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* * * **
653170 ATTATTGATTAAATGGGTGGTTTGGTGGTTTGTC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* * * *
653204 ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* * *
653238 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* **** *
653272 ATTATTGATTAAATGAAAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
*
653306 ATTGTTGATTAAATGGGTGATTTGGTGACTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
* * * **
653340 ATTGTTGACTAAATGGGAGATTTGATAGG-TTGTC
1 ATTGTTGATTAAATGGGTGATTTGGT-GGCTTACC
*
653374 ATTGTTTATTAAATGG
1 ATTGTTGATTAAATGG
653390 TGGTTTTTAC
Statistics
Matches: 181, Mismatches: 37, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
33 13 0.07
34 167 0.92
35 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
Found at i:653251 original size:68 final size:68
Alignment explanation
Indices: 653137--653389 Score: 256
Period size: 68 Copynumber: 3.7 Consensus size: 68
653127 AAGTGGGAGA
* * * * * *
653137 ATTGTTGATTAAATG-GTGATTTAATAGTTTACCATTATTGATTAAATGGGTGGTTTGGTGGTTT
1 ATTGTTGACTAAATGAGAGATTTGATAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
**
653201 GTC
66 ACC
* * * * * * *
653204 ATTGTTGACTAAATGAGTGATTTGGTGGTTTGCCATTGTTGACTAAATGGGAGATTTGGTAGCTT
1 ATTGTTGACTAAATGAGAGATTTGATAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
653269 ACC
66 ACC
* * * * * * *
653272 ATTATTGATTAAATGAAAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGACTT
1 ATTGTTGACTAAATGAGAGATTTGATAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
653337 ACC
66 ACC
* * ** *
653340 ATTGTTGACTAAATGGGAGATTTGATAGGTTGTCATTGTTTATTAAATGG
1 ATTGTTGACTAAATGAGAGATTTGATAGTTTACCATTGTTGATTAAATGG
653390 TGGTTTTTAC
Statistics
Matches: 150, Mismatches: 35, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
67 14 0.09
68 136 0.91
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (68 bp):
ATTGTTGACTAAATGAGAGATTTGATAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
ACC
Found at i:653281 original size:102 final size:102
Alignment explanation
Indices: 653137--653395 Score: 288
Period size: 102 Copynumber: 2.6 Consensus size: 102
653127 AAGTGGGAGA
* * * * * *
653137 ATTGTTGATTAAAT-GGTGATTTAATAGTTTACCATTATTGATTAAATGGGTGGTTTGGTGGTTT
1 ATTGTTGACTAAATGGGAGATTTGATAGCTTACCATTATTGATTAAATGGGTGGTTTGGTAGCTT
** ** *
653201 GTCATTGTTGACTAAATGAGTGATTTGGTGGTTTGCC
66 ACCATTGTTGACTAAATGAGTGATTTGGTGACTTACC
* *****
653238 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCATTATTGATTAAATGAAAAATTTGGTAGCTT
1 ATTGTTGACTAAATGGGAGATTTGATAGCTTACCATTATTGATTAAATGGGTGGTTTGGTAGCTT
* *
653303 ACCATTGTTGATTAAATGGGTGATTTGGTGACTTACC
66 ACCATTGTTGACTAAATGAGTGATTTGGTGACTTACC
* ** * *
653340 ATTGTTGACTAAATGGGAGATTTGATAGGTTGTCATTGTTTATTAAAT-GGTGGTTT
1 ATTGTTGACTAAATGGGAGATTTGATAGCTTACCATTATTGATTAAATGGGTGGTTT
653396 TTACCAAACC
Statistics
Matches: 127, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
101 16 0.13
102 111 0.87
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (102 bp):
ATTGTTGACTAAATGGGAGATTTGATAGCTTACCATTATTGATTAAATGGGTGGTTTGGTAGCTT
ACCATTGTTGACTAAATGAGTGATTTGGTGACTTACC
Found at i:654446 original size:21 final size:20
Alignment explanation
Indices: 654416--654472 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
654406 CTTGTGAGAA
*
654416 AAATTAATTTAATTTTATGTT
1 AAATTAATTTAATTATAT-TT
*
654437 AAATTTATTTAATTATATTT
1 AAATTAATTTAATTATATTT
* *
654457 TAATTAATTTATTTAT
1 AAATTAATTTAATTAT
654473 TTCATTATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AAATTAATTTAATTATATTT
Found at i:654724 original size:28 final size:28
Alignment explanation
Indices: 654661--654737 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
654651 TTTAAACGTG
654661 ATTATATGAATAAAATATATATAATAATT
1 ATTATAT-AATAAAATATATATAATAATT
** **
654690 AAAATATAATAAAATATATATTTTAAATT
1 ATTATATAATAAAATATATATAAT-AATT
654719 -TTATATAATATAAAT-TATA
1 ATTATATAATA-AAATATATA
654738 ATTAAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 27 0.68
29 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (28 bp):
ATTATATAATAAAATATATATAATAATT
Found at i:655853 original size:22 final size:22
Alignment explanation
Indices: 655821--655870 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
655811 AATAAACTCG
** *
655821 AAAATTAAAAATGATATTAAAT
1 AAAATTAAAAAAAATAATAAAT
*
655843 AAAATTTAAAAAAATAATAAAT
1 AAAATTAAAAAAAATAATAAAT
655865 AAAATT
1 AAAATT
655871 GACATGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATTAAAAAAAATAATAAAT
Found at i:658947 original size:2 final size:2
Alignment explanation
Indices: 658940--658976 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
658930 CAAAACAATA
658940 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
658977 AACTCTATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:660537 original size:15 final size:16
Alignment explanation
Indices: 660506--660539 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
660496 TCTTAAATAT
660506 AATAAAAATTATATAA
1 AATAAAAATTATATAA
*
660522 AATATAAATT-TATAA
1 AATAAAAATTATATAA
660537 AAT
1 AAT
660540 TAATATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAAAATTATATAA
Found at i:660789 original size:21 final size:21
Alignment explanation
Indices: 660740--660790 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
660730 TTATTACATT
*
660740 TTTTAATATAAAAAATAATAA
1 TTTTAAAATAAAAAATAATAA
* * **
660761 TCTAAAAATAAAAAATTTTAA
1 TTTTAAAATAAAAAATAATAA
660782 TTTTAAAAT
1 TTTTAAAAT
660791 TTATTAAATA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTTAAAATAAAAAATAATAA
Found at i:660809 original size:27 final size:27
Alignment explanation
Indices: 660778--660831 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
660768 ATAAAAAATT
* *
660778 TTAATTTTA-AAATTTATTAAATATTAA
1 TTAATTATATAAATTAATTAAAT-TTAA
660805 TTAATTATATAAATTAATTAAATTTAA
1 TTAATTATATAAATTAATTAAATTTAA
660832 CCTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTAATTATATAAATTAATTAAATTTAA
Found at i:661857 original size:1 final size:1
Alignment explanation
Indices: 661851--661875 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
661841 AGTTTATTAA
661851 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
661876 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:662520 original size:2 final size:2
Alignment explanation
Indices: 662513--662540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
662503 AAATACTCCA
662513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
662541 CTTTGGAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:663805 original size:21 final size:21
Alignment explanation
Indices: 663779--663836 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
663769 GTTAGATATG
663779 TTTAATTTAAATTATTATTTA
1 TTTAATTTAAATTATTATTTA
* *
663800 TTTAA-TAAAATTAATTTTTTA
1 TTTAATTTAAATT-ATTATTTA
*
663821 TTTATATTTTAATTAT
1 TTTA-ATTTAAATTAT
663837 AAATATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 6 0.20
21 16 0.53
22 3 0.10
23 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAATTTAAATTATTATTTA
Found at i:663874 original size:28 final size:30
Alignment explanation
Indices: 663824--663883 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
663814 TTTTTTATTT
663824 ATATTTTAATTATAAATATTAAT-ATA-AA
1 ATATTTTAATTATAAATATTAATCATACAA
663852 ATATTTTAAAATTATAAA-A-TAATCATACAA
1 ATATTTT--AATTATAAATATTAATCATACAA
663882 AT
1 AT
663884 TTGATCCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 11 0.39
29 4 0.14
30 13 0.46
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
ATATTTTAATTATAAATATTAATCATACAA
Found at i:664727 original size:2 final size:2
Alignment explanation
Indices: 664720--664746 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
664710 CTTGAGCAAA
664720 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
664747 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:664751 original size:2 final size:2
Alignment explanation
Indices: 664746--664771 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
664736 TCTCTCTCTC
664746 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
664772 AACAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:665930 original size:7 final size:7
Alignment explanation
Indices: 665918--665947 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
665908 TCAACTGCGG
665918 AACATGA
1 AACATGA
665925 AACATGA
1 AACATGA
665932 AACATGA
1 AACATGA
665939 AACATGA
1 AACATGA
665946 AA
1 AA
665948 ATACCAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AACATGA
Found at i:667126 original size:29 final size:30
Alignment explanation
Indices: 667072--667141 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 30
667062 TAATATTTTT
667072 TATAAAATTTTAAAAAAATAATTAATTTAA
1 TATAAAATTTTAAAAAAATAATTAATTTAA
667102 TATAAAATTTT-AAAAAATAATTAATTTAA
1 TATAAAATTTTAAAAAAATAATTAATTTAA
667131 TATAAAATTTT
1 TATAAAATTTT
667142 TAAATGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 29 0.73
30 11 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TATAAAATTTTAAAAAAATAATTAATTTAA
Found at i:667543 original size:19 final size:18
Alignment explanation
Indices: 667519--667565 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
667509 ATATTATAAA
667519 ATTTAAAAATTTAAAAAAT
1 ATTTAAAAATTT-AAAAAT
*
667538 ATTTAAAAATTTAAATAT
1 ATTTAAAAATTTAAAAAT
*
667556 AATTAAAAAT
1 ATTTAAAAAT
667566 ATATAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTAAAAATTTAAAAAT
Found at i:667741 original size:18 final size:18
Alignment explanation
Indices: 667714--667753 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
667704 AGATGAATGG
667714 AGGAAAGAAAA-AGGGAA
1 AGGAAAGAAAAGAGGGAA
667731 AGGAGAAGAAAAGAGGG-A
1 AGGA-AAGAAAAGAGGGAA
667749 AGGAA
1 AGGAA
667754 GGGAAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
AGGAAAGAAAAGAGGGAA
Found at i:668889 original size:2 final size:2
Alignment explanation
Indices: 668882--668913 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
668872 TTCCATTCAC
668882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
668914 GACCTTGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:669133 original size:20 final size:21
Alignment explanation
Indices: 669090--669135 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
669080 AATATAAAAA
**
669090 ATAATAAGTAATTAAATATCT
1 ATAATAAGTAATTAAATAAAT
*
669111 ATAATAAG-AGTTAAATAAAT
1 ATAATAAGTAATTAAATAAAT
669131 ATAAT
1 ATAAT
669136 TATATCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (21 bp):
ATAATAAGTAATTAAATAAAT
Found at i:669360 original size:30 final size:31
Alignment explanation
Indices: 669287--669346 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
669277 TGTATCAAAC
*
669287 ACTAAAAAAAATATTTTTTAAATCTTAAATG
1 ACTAAAAAAATTATTTTTTAAATCTTAAATG
669318 ACTAAATAAAATTA-TTTTTAAATC-TAAAT
1 ACTAAA-AAAATTATTTTTTAAATCTTAAAT
669347 ATTCATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 16 0.59
32 6 0.22
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (31 bp):
ACTAAAAAAATTATTTTTTAAATCTTAAATG
Found at i:671665 original size:24 final size:24
Alignment explanation
Indices: 671638--671704 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 24
671628 TACTTAAATA
*
671638 TAAATTA-AATATTAAATTTTTATT
1 TAAATTATAA-ATTAAAATTTTATT
671662 TAAA-TATAAATTAAAATTTTATT
1 TAAATTATAAATTAAAATTTTATT
*
671685 TTAATTCGATAAATGTAAAA
1 TAAATT--ATAAAT-TAAAA
671705 ACTAGCTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 18 0.50
24 7 0.19
26 6 0.17
27 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (24 bp):
TAAATTATAAATTAAAATTTTATT
Found at i:672319 original size:27 final size:27
Alignment explanation
Indices: 672289--672370 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 27
672279 TATAATTATA
*
672289 TTTAAAATATTACATATTTATATAAAT
1 TTTATAATATTACATATTTATATAAAT
* *
672316 TTTATTATATTA-ATATTATTTATAAAAT
1 TTTATAATATTACATATT-TATAT-AAAT
672344 TTAATATAATATTACATTATTTATATA
1 TT--TATAATATTACA-TATTTATATA
672371 TTTTTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
26 5 0.11
27 14 0.32
28 6 0.14
30 10 0.23
31 5 0.11
32 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTATAATATTACATATTTATATAAAT
Found at i:672338 original size:15 final size:15
Alignment explanation
Indices: 672303--672343 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
672293 AAATATTACA
*
672303 TATTTATATAAATTT
1 TATTTATATAAATAT
*
672318 TA-TTATATTAATAT
1 TATTTATATAAATAT
672332 TATTTATA-AAAT
1 TATTTATATAAAT
672344 TTAATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTATATAAATAT
Found at i:672362 original size:29 final size:28
Alignment explanation
Indices: 672289--672370 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
672279 TATAATTATA
*
672289 TTTAAAATATTACA-TATTTATATAAAT
1 TTTATAATATTACATTATTTATATAAAT
* *
672316 TTTATTATATTAATATTATTTATA-AAAT
1 TTTATAATATT-ACATTATTTATATAAAT
672344 TTAATATAATATTACATTATTTATATA
1 TT--TATAATATTACATTATTTATATA
672371 TTTTTTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 9 0.20
28 8 0.18
29 19 0.42
30 9 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTATAATATTACATTATTTATATAAAT
Found at i:672369 original size:19 final size:19
Alignment explanation
Indices: 672294--672370 Score: 52
Period size: 20 Copynumber: 4.1 Consensus size: 19
672284 TTATATTTAA
672294 AATATTACA-TATTTATAT
1 AATATTACATTATTTATAT
**
672312 AA-ATTTTATTATATTA-AT
1 AATATTACATTAT-TTATAT
* * **
672330 ATTATTTATAAAATTTAATAT
1 AATA-TTACATTATTT-ATAT
672351 AATATTACATTATTTATAT
1 AATATTACATTATTTATAT
672370 A
1 A
672371 TTTTTTATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
17 4 0.09
18 8 0.19
19 11 0.26
20 15 0.35
21 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTACATTATTTATAT
Found at i:672387 original size:29 final size:29
Alignment explanation
Indices: 672298--672433 Score: 89
Period size: 29 Copynumber: 4.6 Consensus size: 29
672288 ATTTAAAATA
** *
672298 TTACA-TATTTATATAAATTTTATTATAT
1 TTACATTATTTATATATTTTTTATTTTAT
* * ** * * *
672326 TAATATTATTTATA-AAATTTAATATAAT
1 TTACATTATTTATATATTTTTTATTTTAT
672354 ATTACATTATTTATATATTTTTTATTTTAT
1 -TTACATTATTTATATATTTTTTATTTTAT
* *
672384 TTACATAATTTTTATATTTTATGTATTTATATT
1 TTACATTATTTATATATTTT-T-TATTT-TA-T
*
672417 TTA-ATTATTTTTATATT
1 TTACATTATTTATATATT
672434 ATGATTATTT
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
28 13 0.15
29 38 0.45
30 10 0.12
31 5 0.06
32 15 0.18
33 4 0.05
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (29 bp):
TTACATTATTTATATATTTTTTATTTTAT
Found at i:672401 original size:22 final size:20
Alignment explanation
Indices: 672360--672405 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
672350 TAATATTACA
*
672360 TTATTTATATATTTTTTATT
1 TTATTTACATATTTTTTATT
672380 TTATTTACATAATTTTTATATT
1 TTATTTACAT-ATTTTT-TATT
672402 TTAT
1 TTAT
672406 GTATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 6 0.26
22 8 0.35
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTACATATTTTTTATT
Found at i:672411 original size:17 final size:17
Alignment explanation
Indices: 672391--672443 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
672381 TATTTACATA
672391 ATTTTTATATTTT-ATGT
1 ATTTTTATATTTTAAT-T
672408 A--TTTATATTTTAATT
1 ATTTTTATATTTTAATT
* *
672423 ATTTTTATATTATGATT
1 ATTTTTATATTTTAATT
672440 ATTT
1 ATTT
672444 ACTGTTTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 12 0.39
16 2 0.06
17 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (17 bp):
ATTTTTATATTTTAATT
Found at i:672418 original size:22 final size:22
Alignment explanation
Indices: 672366--672419 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
672356 TACATTATTT
* *
672366 ATATATTTTTTATTTTATTTAC
1 ATATATTTTATATTTTATGTAC
*
672388 ATA-ATTTTTATATTTTATGTAT
1 ATATA-TTTTATATTTTATGTAC
*
672410 TTATATTTTA
1 ATATATTTTA
672420 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATATATTTTATATTTTATGTAC
Found at i:672425 original size:15 final size:14
Alignment explanation
Indices: 672359--672426 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 14
672349 ATAATATTAC
672359 ATTATTTATATATTT
1 ATTATTTATAT-TTT
*
672374 TTTATTT-TATTTACAT
1 ATTATTTATATTT---T
672390 AATT-TTTATATTTT
1 -ATTATTTATATTTT
672404 ATGTATTTATATTTT
1 AT-TATTTATATTTT
672419 AATTATTT
1 -ATTATTT
672427 TTATATTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
13 4 0.09
14 5 0.12
15 21 0.49
16 6 0.14
17 7 0.16
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (14 bp):
ATTATTTATATTTT
Found at i:672427 original size:32 final size:29
Alignment explanation
Indices: 672355--672433 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 29
672345 TAATATAATA
*
672355 TTACATTATTTATATATTTTTTATTTTAT
1 TTACATTATTTTTATATTTTTTATTTTAT
*
672384 TTACATAATTTTTATATTTTATGTATTTATATT
1 TTACATTATTTTTATATTTT-T-TATTT-TA-T
672417 TTA-ATTATTTTTATATT
1 TTACATTATTTTTATATT
672434 ATGATTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 18 0.42
30 1 0.02
31 5 0.12
32 15 0.35
33 4 0.09
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (29 bp):
TTACATTATTTTTATATTTTTTATTTTAT
Found at i:672443 original size:32 final size:30
Alignment explanation
Indices: 672355--672457 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 30
672345 TAATATAATA
* *
672355 TTACATTATTTATATATTTTTTATTT-TAT
1 TTACATTATTTTTATATTTATTATTTATAT
*
672384 TTACATAATTTTTATATTTTATGTATTTATATT
1 TTACATTATTTTTATA-TTTAT-TATTTATA-T
*
672417 TTA-ATTATTTTTATATTATGATTATTTACTGT
1 TTACATTATTTTTATATT-T-ATTATTTA-TAT
672449 TTAC-TTATT
1 TTACATTATT
672458 CGAAGAGTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
29 14 0.23
30 4 0.07
31 7 0.11
32 29 0.48
33 7 0.11
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (30 bp):
TTACATTATTTTTATATTTATTATTTATAT
Found at i:672535 original size:28 final size:28
Alignment explanation
Indices: 672503--672559 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
672493 AGATAAACTC
672503 AATTTAAAGTGAGT-TGAATTTAAATTAA
1 AATTTAAA-TGAGTATGAATTTAAATTAA
* * *
672531 AATTTTAATTAGTATGAATTTAATTTAA
1 AATTTAAATGAGTATGAATTTAAATTAA
672559 A
1 A
672560 TTATTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.44
Consensus pattern (28 bp):
AATTTAAATGAGTATGAATTTAAATTAA
Found at i:672597 original size:19 final size:20
Alignment explanation
Indices: 672548--672597 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
672538 ATTAGTATGA
* *
672548 ATTTAATTTAAATTATTATTT
1 ATTT-ATTTAAAATAATATTT
*
672569 ATTTA-ATAAAATAATATTT
1 ATTTATTTAAAATAATATTT
672588 -TTTATTTAAA
1 ATTTATTTAAA
672598 TTTAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 1 0.04
21 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATTTAAAATAATATTT
Found at i:672624 original size:24 final size:22
Alignment explanation
Indices: 672590--672642 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
672580 TAATATTTTT
*
672590 TATTTAAATTTAATTATAAAAA
1 TATTTAAATTTAATAATAAAAA
672612 TATTATAATATTTAATAATAAATAA
1 TATT-TAA-ATTTAATAATAAA-AA
*
672637 AATTTA
1 TATTTA
672643 TTGATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 3 0.12
24 14 0.54
25 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTTAAATTTAATAATAAAAA
Found at i:674293 original size:16 final size:17
Alignment explanation
Indices: 674272--674305 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
674262 TTATTTATTT
674272 AATTTAA-TAAATTTAA
1 AATTTAATTAAATTTAA
*
674288 AATTTAATTTAATTTAA
1 AATTTAATTAAATTTAA
674305 A
1 A
674306 TTAGACACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTAATTAAATTTAA
Found at i:675835 original size:29 final size:30
Alignment explanation
Indices: 675795--675853 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
675785 ATATTTATCC
*
675795 TTAAAATATAAAAAATTATCTTTAAAAATT
1 TTAAAATATAAAAAATCATCTTTAAAAATT
*
675825 TTAAAA-ATAAAAAATCATCTTTAATAATT
1 TTAAAATATAAAAAATCATCTTTAAAAATT
675854 ATCTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAAAATATAAAAAATCATCTTTAAAAATT
Found at i:676373 original size:21 final size:22
Alignment explanation
Indices: 676340--676391 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
676330 CGGTCAGATG
* *
676340 AAATT-TAATTAAA-AATTTTA
1 AAATTATATTTAAATAATTTAA
*
676360 AAATTATATTTAAATTATTTAA
1 AAATTATATTTAAATAATTTAA
676382 AAATTA-ATTT
1 AAATTATATTT
676392 TATTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 11 0.41
22 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTATATTTAAATAATTTAA
Found at i:676398 original size:20 final size:22
Alignment explanation
Indices: 676354--676400 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
676344 TTAATTAAAA
*
676354 ATTTTAAAATTATATTTAAATT
1 ATTTAAAAATTATATTTAAATT
*
676376 ATTTAAAAATTA-ATTT-TATT
1 ATTTAAAAATTATATTTAAATT
676396 ATTTA
1 ATTTA
676401 TTACATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 4 0.17
22 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAAAAATTATATTTAAATT
Found at i:676541 original size:14 final size:14
Alignment explanation
Indices: 676522--676555 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
676512 TATTTAAAAT
676522 TTAAA-TTATATAAA
1 TTAAATTTAT-TAAA
676536 TTAAATTTATTAAA
1 TTAAATTTATTAAA
676550 TTAAAT
1 TTAAAT
676556 AAATAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATTTATTAAA
Found at i:676592 original size:16 final size:17
Alignment explanation
Indices: 676556--676592 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
676546 TAAATTAAAT
676556 AAAT-AATTTAATTTAG
1 AAATAAATTTAATTTAG
*
676572 GAATAAATTTAATTTA-
1 AAATAAATTTAATTTAG
676588 AAATA
1 AAATA
676593 TTAAAGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAATAAATTTAATTTAG
Found at i:681081 original size:36 final size:36
Alignment explanation
Indices: 681023--681098 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
681013 TTTGAACAAA
681023 TAATCAAATATACCATTATGTACTGAGAAAATTAAT
1 TAATCAAATATACCATTATGTACTGAGAAAATTAAT
* * * *
681059 TAATCAAATATGCCGTTGTGTACTGAGAAAATTAGT
1 TAATCAAATATACCATTATGTACTGAGAAAATTAAT
681095 TAAT
1 TAAT
681099 AATAAGCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (36 bp):
TAATCAAATATACCATTATGTACTGAGAAAATTAAT
Found at i:682770 original size:18 final size:18
Alignment explanation
Indices: 682743--682781 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
682733 TGCTCTTTTT
*
682743 TTTTTTTTTTGCTTTTA-A
1 TTTTTATTTTG-TTTTAGA
682761 TTTTTATTTTGTTTTAGA
1 TTTTTATTTTGTTTTAGA
682779 TTT
1 TTT
682782 CTGGGTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTGTTTTAGA
Found at i:684234 original size:7 final size:7
Alignment explanation
Indices: 684219--684255 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
684209 GGAAAAATAG
684219 ATTTTAA
1 ATTTTAA
*
684226 ATATTAA
1 ATTTTAA
684233 ATTTTAA
1 ATTTTAA
684240 ATTTTAA
1 ATTTTAA
684247 ATTTATAA
1 ATTT-TAA
684255 A
1 A
684256 AAATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
ATTTTAA
Found at i:691172 original size:2 final size:2
Alignment explanation
Indices: 691165--691198 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
691155 CAATTAAAGC
**
691165 AT AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
691199 CTTTGCTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:691633 original size:18 final size:18
Alignment explanation
Indices: 691601--691687 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 18
691591 TTTTTTTTTC
*
691601 TTTTTATTCA-ATTATTA
1 TTTTTATTTATATTATTA
*
691618 TTTTTATTTATCTTATT-
1 TTTTTATTTATATTATTA
* *
691635 TTTTTA-TAATCTT-TT-
1 TTTTTATTTATATTATTA
* *
691650 TTTTTTTTTA-ATAATTA
1 TTTTTATTTATATTATTA
691667 TTTTATATTTATATTA-TA
1 TTTT-TATTTATATTATTA
691685 TTT
1 TTT
691688 ATTTCTATCA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.15
16 10 0.18
17 19 0.35
18 15 0.27
19 3 0.05
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTTATATTATTA
Found at i:691984 original size:23 final size:23
Alignment explanation
Indices: 691952--692003 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
691942 ATGGCTTAAT
**
691952 TTTATA-ATTTTTTTATATTATA
1 TTTATATATTTTAATATATTATA
691974 TTTATATATTTTAATATATTATA
1 TTTATATATTTTAATATATTATA
*
691997 ATTATAT
1 TTTATAT
692004 TCAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATATATTTTAATATATTATA
Found at i:692082 original size:31 final size:29
Alignment explanation
Indices: 692006--692115 Score: 84
Period size: 31 Copynumber: 3.8 Consensus size: 29
691996 AATTATATTC
692006 AAAATATTTAATA--TTTATATAAATTTT
1 AAAATATTTAATATTTTTATATAAATTTT
* *
692033 AATA-ATGTAATAATTTTATTATATAAATTTT
1 AAAATATTTAAT-A-TTT-TTATATAAATTTT
* * **
692064 AAAATATTTATATATTTATATTTTATTTTTT
1 AAAATATTTA-ATATTTTTA-TATAAATTTT
*
692095 AAAATA-TTATTATTTTTATAT
1 AAAATATTTAATATTTTTATAT
692116 CATATTCAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
26 6 0.09
27 4 0.06
28 2 0.03
29 7 0.11
30 6 0.09
31 32 0.50
32 5 0.08
33 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (29 bp):
AAAATATTTAATATTTTTATATAAATTTT
Found at i:695871 original size:22 final size:23
Alignment explanation
Indices: 695846--695890 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
695836 AAGATAAAAT
*
695846 ATTTACATAAATTAAAT-TTAAA
1 ATTTAAATAAATTAAATATTAAA
**
695868 ATTTAAATTTATTAAATATTAAA
1 ATTTAAATAAATTAAATATTAAA
695891 TTTTTTATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTAAATAAATTAAATATTAAA
Found at i:695889 original size:16 final size:14
Alignment explanation
Indices: 695856--695893 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
695846 ATTTACATAA
695856 ATTAAATTTAAAAT
1 ATTAAATTTAAAAT
695870 -TTAAATTTATTAAAT
1 ATTAAATTTA--AAAT
695885 ATTAAATTT
1 ATTAAATTT
695894 TTTATGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
15 4 0.19
16 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTAAATTTAAAAT
Found at i:697097 original size:21 final size:21
Alignment explanation
Indices: 697071--697144 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
697061 GATATATTCA
697071 TATATTTATATATTATTTTT-T
1 TATATTTATA-ATTATTTTTAT
* *
697092 TATATTTACAACATATTTTTAT
1 TATATTTATAA-TTATTTTTAT
*
697114 TATATTT-TAATTTTTTTATAT
1 TATATTTATAATTATTTT-TAT
697135 TATATTTATA
1 TATATTTATA
697145 TAATATATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.14
21 28 0.64
22 10 0.23
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TATATTTATAATTATTTTTAT
Found at i:697144 original size:11 final size:11
Alignment explanation
Indices: 697071--697150 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
697061 GATATATTCA
697071 TATATTTATA-
1 TATATTTATAT
*
697081 TATTATTT-TTT
1 TA-TATTTATAT
* *
697092 TATATTTACAA
1 TATATTTATAT
* *
697103 CATATTTTTAT
1 TATATTTATAT
697114 TATATTT-TAAT
1 TATATTTAT-AT
*
697125 T-TTTTTATAT
1 TATATTTATAT
697135 TATATTTATAT
1 TATATTTATAT
*
697146 AATAT
1 TATAT
697151 ATCACAATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
10 16 0.31
11 36 0.69
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:697736 original size:22 final size:22
Alignment explanation
Indices: 697708--697751 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
697698 ATATATTTTA
697708 AAATTAATTATTTA-AATTAATT
1 AAATTAATT-TTTAGAATTAATT
*
697730 AAATTAATTTTTAGATTTAATT
1 AAATTAATTTTTAGAATTAATT
697752 TTATATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATTAATTTTTAGAATTAATT
Found at i:698732 original size:20 final size:22
Alignment explanation
Indices: 698707--698750 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
698697 TTTTTATTTA
698707 ATTTTAAT-TATAA-AAATAAT
1 ATTTTAATATATAATAAATAAT
698727 ATTTTAATAATATAATAAATAAT
1 ATTTTAAT-ATATAATAAATAAT
698750 A
1 A
698751 AAATAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTAATATATAATAAATAAT
Found at i:701768 original size:2 final size:2
Alignment explanation
Indices: 701761--701790 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
701751 TTCGTCGCAA
701761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
701791 GCATGCTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:701925 original size:21 final size:22
Alignment explanation
Indices: 701895--701937 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
701885 CTTTAAAAAA
701895 AAATTATTAAAATTTAAAATTT
1 AAATTATTAAAATTTAAAATTT
* *
701917 AAATT-TTAACATTTATAATTT
1 AAATTATTAAAATTTAAAATTT
701938 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTATTAAAATTTAAAATTT
Found at i:703231 original size:3 final size:3
Alignment explanation
Indices: 703225--703253 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
703215 TTGCGGTTTT
703225 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
703254 TTGGCTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:704250 original size:2 final size:2
Alignment explanation
Indices: 704243--704276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
704233 ATAAAAGAAT
704243 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
704277 AACTTAAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:704516 original size:5 final size:5
Alignment explanation
Indices: 704499--704537 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
704489 TATTAAATAA
*
704499 TAATT TAAAT TAATT TAATT TAATTT TAATTT TAATT TA
1 TAATT TAATT TAATT TAATT TAA-TT TAA-TT TAATT TA
704538 TGAAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 20 0.65
6 11 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:705415 original size:59 final size:57
Alignment explanation
Indices: 705349--705461 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 57
705339 CACATAAAAT
*
705349 AATTAAAATATGATAT-AAATATTCTTAAAAAT-A-TATAATATGAATTATTAATATATTAA
1 AATTAAAATA-AATATAAAATATT-TTAAAAATAATTATAATAT-AATTA--AATATATTAA
*
705408 AATTAAAATAAATATAAAATATTTTAAATATAATTATAATATAATTAAATATAT
1 AATTAAAATAAATATAAAATATTTTAAAAATAATTATAATATAATTAAATATAT
705462 AAATATAACA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
57 7 0.14
58 11 0.22
59 23 0.47
60 8 0.16
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (57 bp):
AATTAAAATAAATATAAAATATTTTAAAAATAATTATAATATAATTAAATATATTAA
Found at i:705445 original size:22 final size:21
Alignment explanation
Indices: 705408--705469 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
705398 AATATATTAA
705408 AATTAAA-ATAAATATAAAAT
1 AATTAAATATAAATATAAAAT
* * *
705428 ATTTTAAATATAATTATAATAT
1 A-ATTAAATATAAATATAAAAT
705450 AATTAAATATATAAATATAA
1 AATT-AA-ATATAAATATAA
705470 CATGAAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 7 0.21
22 14 0.42
23 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTAAATATAAATATAAAAT
Found at i:705450 original size:11 final size:10
Alignment explanation
Indices: 705431--705469 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 10
705421 ATAAAATATT
705431 TTAAATATAA
1 TTAAATATAA
705441 TTATAATATAA
1 TTA-AATATAA
705452 TTAAATAT-A
1 TTAAATATAA
705461 -TAAATATAA
1 TTAAATATAA
705470 CATGAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.26
9 2 0.07
10 8 0.30
11 10 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAATATAA
Found at i:709547 original size:2 final size:2
Alignment explanation
Indices: 709540--709572 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
709530 AAAAGACAAA
709540 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
709573 TAAACAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:711197 original size:3 final size:3
Alignment explanation
Indices: 711189--711225 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
711179 AGCAGACTAA
711189 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
711226 GCACAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:711585 original size:14 final size:14
Alignment explanation
Indices: 711566--711594 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
711556 ATAAATATAA
711566 ATATAATATGTATT
1 ATATAATATGTATT
711580 ATATAATATGTATT
1 ATATAATATGTATT
711594 A
1 A
711595 AAGTATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATAATATGTATT
Found at i:712799 original size:23 final size:23
Alignment explanation
Indices: 712772--712823 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
712762 ATTAATGATA
712772 ATTTTAAT-AAAGATTTTAATCTC
1 ATTTTAATAAAAG-TTTTAATCTC
*
712795 ATTTTAATAAAAGTTTTAGTCTC
1 ATTTTAATAAAAGTTTTAATCTC
712818 ATTTTA
1 ATTTTA
712824 GTAACGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (23 bp):
ATTTTAATAAAAGTTTTAATCTC
Found at i:715284 original size:20 final size:20
Alignment explanation
Indices: 715259--715307 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
715249 TTTGAAATTG
* *
715259 TTTTGGAATTAATTAAAGTT
1 TTTTGGAATTAACTAAAGTC
*
715279 TTTTGGAATTGACTAAAGTC
1 TTTTGGAATTAACTAAAGTC
*
715299 TATTGGAAT
1 TTTTGGAAT
715308 GAAGATTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (20 bp):
TTTTGGAATTAACTAAAGTC
Found at i:718380 original size:28 final size:28
Alignment explanation
Indices: 718341--718394 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
718331 TTTTTTACGT
718341 AATATAATTATATG-ATATAATTAAAAAA
1 AATATAATTATATGAATAT-ATTAAAAAA
*
718369 AATATTAA-TATATTAATATATTAAAA
1 AATA-TAATTATATGAATATATTAAAA
718395 TTTATATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AATATAATTATATGAATATATTAAAAAA
Found at i:718394 original size:24 final size:24
Alignment explanation
Indices: 718367--718424 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
718357 ATAATTAAAA
*
718367 AAAATATTAAT-ATATTAATATATT
1 AAAATATTAATGATATAAAT-TATT
718391 AAAAT-TTATATGATATAAATTATT
1 AAAATATTA-ATGATATAAATTATT
718415 AAAATATTAA
1 AAAATATTAA
718425 AATTTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.10
24 17 0.57
25 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATATTAATGATATAAATTATT
Found at i:718422 original size:32 final size:33
Alignment explanation
Indices: 718370--718432 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
718360 ATTAAAAAAA
* *
718370 ATATTAATATATTAATATATTAAAATTTATATG
1 ATATAAATATATTAAAATATTAAAATTTATATG
718403 ATATAAAT-TATTAAAATATTAAAATTTATA
1 ATATAAATATATTAAAATATTAAAATTTATA
718433 AATATATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (33 bp):
ATATAAATATATTAAAATATTAAAATTTATATG
Found at i:718423 original size:40 final size:41
Alignment explanation
Indices: 718371--718451 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
718361 TTAAAAAAAA
* * * *
718371 TATTAATATATTAATATATTA-AAATTTATA-TGATATAAAT
1 TATTAAAATATTAAAAT-TTATAAATATATAGTAATATAAAT
718411 TATTAAAATATTAAAATTTATAAATATATAGTAATATAAAT
1 TATTAAAATATTAAAATTTATAAATATATAGTAATATAAAT
718452 ATAACTACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.09
40 23 0.66
41 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (41 bp):
TATTAAAATATTAAAATTTATAAATATATAGTAATATAAAT
Found at i:718425 original size:8 final size:8
Alignment explanation
Indices: 718367--718437 Score: 58
Period size: 8 Copynumber: 8.9 Consensus size: 8
718357 ATAATTAAAA
718367 AAAATATT
1 AAAATATT
*
718375 AATATATT
1 AAAATATT
*
718383 AATATATT
1 AAAATATT
718391 AAAAT-TT
1 AAAATATT
*
718398 -ATATGATAT
1 AAAAT-AT-T
*
718407 AAATTATT
1 AAAATATT
718415 AAAATATT
1 AAAATATT
718423 AAAAT-TT
1 AAAATATT
718430 ATAAATAT
1 A-AAATAT
718438 ATAGTAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
6 3 0.06
7 5 0.10
8 37 0.73
9 4 0.08
10 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (8 bp):
AAAATATT
Found at i:718452 original size:32 final size:32
Alignment explanation
Indices: 718386--718453 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
718376 ATATATTAAT
* * *
718386 ATATTAAAATTTATATGATATAAATTATTAAA
1 ATATTAAAATTTATATAATATAAAGTAATAAA
*
718418 ATATTAAAATTTATA-AATATATAGTAATATAA
1 ATATTAAAATTTATATAATATAAAGTAATA-AA
718450 ATAT
1 ATAT
718454 AACTACTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
ATATTAAAATTTATATAATATAAAGTAATAAA
Done.