Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 30 of 322
Found at i:8884460 original size:44 final size:42
Alignment explanation
Indices: 8884377--8884461 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 42
8884367 TATTTATACT
* * *
8884377 CTATTATTATTACTTATTATTTTATTATTGTTATCTAATATA
1 CTATTATTATCACTTATTATTTTACTATTGTAATCTAATATA
8884419 CTATTATTATCACTATTATTATTTTACTATTGTAA-CTTAATAT
1 CTATTATTATCAC--TTATTATTTTACTATTGTAATC-TAATAT
8884462 TTTTGTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 12 0.32
43 1 0.03
44 24 0.65
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.56
Consensus pattern (42 bp):
CTATTATTATCACTTATTATTTTACTATTGTAATCTAATATA
Found at i:8888730 original size:24 final size:24
Alignment explanation
Indices: 8888680--8888731 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8888670 TTCGTAGGTC
* **
8888680 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
8888704 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
8888728 AAAT
1 AAAT
8888732 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:8892326 original size:19 final size:19
Alignment explanation
Indices: 8892268--8892327 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
8892258 ATTTTTAAAT
8892268 TTTTTTTTGTAAATCTA-AGTA
1 TTTTTTTTGT-AAT-TATA-TA
* *
8892289 TTTTTTATATATATT-TATA
1 TTTTTTTTGTA-ATTATATA
8892308 TTTTTTTTGTAATTATATA
1 TTTTTTTTGTAATTATATA
8892327 T
1 T
8892328 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.09
19 16 0.50
20 3 0.09
21 10 0.31
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTTTTGTAATTATATA
Found at i:8892390 original size:25 final size:24
Alignment explanation
Indices: 8892344--8892390 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
8892334 ATATTTTCTA
*
8892344 TTTTTAATAAATTTCTATTTTTAT
1 TTTTTAATAAATTTCTAATTTTAT
* *
8892368 TTTTTACATCAATTTGTAATTTT
1 TTTTTA-ATAAATTTCTAATTTT
8892391 TACAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTAATAAATTTCTAATTTTAT
Found at i:8905746 original size:21 final size:21
Alignment explanation
Indices: 8905720--8905767 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
8905710 TCAACTTAGA
*
8905720 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
8905741 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
8905762 GCGGAG
1 GCGGAG
8905768 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:8908912 original size:31 final size:31
Alignment explanation
Indices: 8908874--8908937 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
8908864 GTGATGTGTC
8908874 AGTGGGCGGGGGCGTCCTTTTGCAATAATTT
1 AGTGGGCGGGGGCGTCCTTTTGCAATAATTT
*
8908905 AGTGGGCGGGGGGGTCCTTTTGCAATAATTT
1 AGTGGGCGGGGGCGTCCTTTTGCAATAATTT
8908936 AG
1 AG
8908938 CCCCGACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.14, G:0.38, T:0.31
Consensus pattern (31 bp):
AGTGGGCGGGGGCGTCCTTTTGCAATAATTT
Found at i:8911559 original size:34 final size:34
Alignment explanation
Indices: 8911521--8911587 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
8911511 TTTTTAATAG
* *
8911521 GGTTAGGGTTTTGTTTATTAAAATTAGGGTTTAA
1 GGTTAGAGTTTTGTTTATTAAAAGTAGGGTTTAA
*
8911555 GGTTAGAGTTTTGTTTATTTAAAGTAGGGTTTA
1 GGTTAGAGTTTTGTTTATTAAAAGTAGGGTTTA
8911588 GGGGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (34 bp):
GGTTAGAGTTTTGTTTATTAAAAGTAGGGTTTAA
Found at i:8922122 original size:27 final size:27
Alignment explanation
Indices: 8922091--8922268 Score: 135
Period size: 28 Copynumber: 6.5 Consensus size: 27
8922081 ACATGCCAGA
* *
8922091 GAAATGGAAGCCTTTGTGGAAATTTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* *
8922118 GAAATGGAAGCCTTTGTGTCTATCTAT
1 GAAATGGAAGCCTTTGTGGCAATCTAT
* * *
8922145 GAAAAGGGAAGCTTTTGTGGCTATCTAT
1 G-AAATGGAAGCCTTTGTGGCAATCTAT
* * ** *
8922173 GGAAAT-GAAGCTTTTATGGTGATATAT
1 -GAAATGGAAGCCTTTGTGGCAATCTAT
* ** * *
8922200 GAAAAGGGAAGCCTTTGTGGTGATTTGT
1 G-AAATGGAAGCCTTTGTGGCAATCTAT
*
8922228 GAAAAGGGAA-CCTTTTGTGGCAATCTAT
1 G-AAATGGAAGCC-TTTGTGGCAATCTAT
8922256 GAAATGGAAGCCT
1 GAAATGGAAGCCT
8922269 ACATGGCGAA
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.01
27 54 0.44
28 67 0.54
29 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.32
Consensus pattern (27 bp):
GAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:8922163 original size:55 final size:55
Alignment explanation
Indices: 8922096--8922268 Score: 147
Period size: 55 Copynumber: 3.1 Consensus size: 55
8922086 CCAGAGAAAT
*
8922096 GGAAGCCTTTGTGGAAATTTATGAAATGGAAGCCTTTGTGTCTATCTATGAAAAG
1 GGAAGCCTTTGTGGAAATTTATGAAATGGAAGCCTTTGTGTCAATCTATGAAAAG
* ** * * * * *
8922151 GGAAGCTTTTGTGGCTATCTATGGAAAT-GAAGCTTTTATGGT-GATATATGAAAAG
1 GGAAGCCTTTGTGGAAATTTAT-GAAATGGAAGCCTTTGT-GTCAATCTATGAAAAG
** * * * *
8922206 GGAAGCCTTTGTGGTGATTTGTGAAAAGGGAA-CCTTTTGTGGCAATCTATG-AAAT
1 GGAAGCCTTTGTGGAAATTTATG-AAATGGAAGCC-TTTGTGTCAATCTATGAAAAG
8922261 GGAAGCCT
1 GGAAGCCT
8922269 ACATGGCGAA
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
54 1 0.01
55 71 0.77
56 20 0.22
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.32
Consensus pattern (55 bp):
GGAAGCCTTTGTGGAAATTTATGAAATGGAAGCCTTTGTGTCAATCTATGAAAAG
Found at i:8922215 original size:83 final size:82
Alignment explanation
Indices: 8922091--8922266 Score: 212
Period size: 83 Copynumber: 2.1 Consensus size: 82
8922081 ACATGCCAGA
* * ** * * *
8922091 GAAATGGAAGCCTTTGTGGAAATTTATGAAATGGAAGCCTTTGT-GTCTATCTATGAAAAGGGAA
1 GAAATGGAAGCTTTTATGGTGATATATGAAAGGGAAGCCTTTGTGGT-GATCTATGAAAAGGGAA
* *
8922155 GCTTTTGTGGCTATCTAT
65 CCTTTTGTGGCAATCTAT
* *
8922173 GGAAAT-GAAGCTTTTATGGTGATATATGAAAAGGGAAGCCTTTGTGGTGATTTGTGAAAAGGGA
1 -GAAATGGAAGCTTTTATGGTGATATATG-AAAGGGAAGCCTTTGTGGTGATCTATGAAAAGGGA
8922237 ACCTTTTGTGGCAATCTAT
64 ACCTTTTGTGGCAATCTAT
8922256 GAAATGGAAGC
1 GAAATGGAAGC
8922267 CTACATGGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
82 22 0.28
83 55 0.70
84 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.32
Consensus pattern (82 bp):
GAAATGGAAGCTTTTATGGTGATATATGAAAGGGAAGCCTTTGTGGTGATCTATGAAAAGGGAAC
CTTTTGTGGCAATCTAT
Found at i:8926517 original size:14 final size:14
Alignment explanation
Indices: 8926498--8926543 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
8926488 TTTAGGTAAA
8926498 AAGAAGAATAGGAG
1 AAGAAGAATAGGAG
8926512 AAGAAGAATA--A-
1 AAGAAGAATAGGAG
*
8926523 AAGAAGAAGAGGAG
1 AAGAAGAATAGGAG
8926537 AAGAAGA
1 AAGAAGA
8926544 GAAAATGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 1 0.04
14 17 0.61
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (14 bp):
AAGAAGAATAGGAG
Found at i:8926526 original size:25 final size:25
Alignment explanation
Indices: 8926496--8926543 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
8926486 AGTTTAGGTA
*
8926496 AAAAGAAGAATAGGAGAAGAAGAAT
1 AAAAGAAGAAGAGGAGAAGAAGAAT
8926521 AAAAGAAGAAGAGGAGAAGAAGA
1 AAAAGAAGAAGAGGAGAAGAAGA
8926544 GAAAATGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (25 bp):
AAAAGAAGAAGAGGAGAAGAAGAAT
Found at i:8936576 original size:9 final size:9
Alignment explanation
Indices: 8936562--8936586 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8936552 CTTGGGTCAG
8936562 AACCTCTTC
1 AACCTCTTC
8936571 AACCTCTTC
1 AACCTCTTC
8936580 AACCTCT
1 AACCTCT
8936587 AATTCCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (9 bp):
AACCTCTTC
Found at i:8936674 original size:21 final size:21
Alignment explanation
Indices: 8936648--8936688 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8936638 ATCTGCTCAA
* *
8936648 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8936669 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8936689 TAGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8949683 original size:6 final size:6
Alignment explanation
Indices: 8949672--8949707 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8949662 AAAAATTTTG
8949672 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
8949708 TAACTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GAAAAT
Found at i:8952432 original size:12 final size:12
Alignment explanation
Indices: 8952415--8952462 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
8952405 TGGGAGTAAA
8952415 GTTTTATATTTG
1 GTTTTATATTTG
*
8952427 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
8952442 GTTTTATATTTG
1 GTTTTATATTTG
8952454 GTTTTATAT
1 GTTTTATAT
8952463 GTTAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:8952445 original size:27 final size:27
Alignment explanation
Indices: 8952411--8952467 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
8952401 TTAGTGGGAG
8952411 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
8952438 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
8952465 TAA
1 TAA
8952468 TGACATACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:8957245 original size:40 final size:39
Alignment explanation
Indices: 8957169--8957257 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 39
8957159 CTGTGTGGCC
* * *
8957169 CACACGGCCACACATTCACTATCACATGGCCGTGTGTCG
1 CACACGGCCACACATTCAATATCACACGACCGTGTGTCG
*
8957208 CACACGGCCACACCTTCAATAGTCACACGACCGTGTGTCG
1 CACACGGCCACACATTCAATA-TCACACGACCGTGTGTCG
* *
8957248 TACACAGCCA
1 CACACGGCCA
8957258 GCCACACAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 19 0.44
40 24 0.56
ACGTcount: A:0.26, C:0.37, G:0.19, T:0.18
Consensus pattern (39 bp):
CACACGGCCACACATTCAATATCACACGACCGTGTGTCG
Found at i:8960680 original size:37 final size:37
Alignment explanation
Indices: 8960616--8960686 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
8960606 AACAAGTGTG
*
8960616 ATTATGATCAATTTACGGAGGTCAAGTTGGACTTGTA
1 ATTATGATCAATGTACGGAGGTCAAGTTGGACTTGTA
* *
8960653 ATTATGATCAATGTCCGTG-GGTTAAGTTGGACTT
1 ATTATGATCAATGTACG-GAGGTCAAGTTGGACTT
8960687 TTTAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (37 bp):
ATTATGATCAATGTACGGAGGTCAAGTTGGACTTGTA
Found at i:8962235 original size:15 final size:15
Alignment explanation
Indices: 8962215--8962244 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8962205 GTATTTTTTG
8962215 TTAATTTCATTTGTT
1 TTAATTTCATTTGTT
*
8962230 TTAATTTTATTTGTT
1 TTAATTTCATTTGTT
8962245 AAAATATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
TTAATTTCATTTGTT
Found at i:8964670 original size:78 final size:78
Alignment explanation
Indices: 8964451--8964681 Score: 331
Period size: 78 Copynumber: 2.9 Consensus size: 78
8964441 GAGTCACATC
* * *
8964451 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTACCCACCTTAAGTTATCAT
1 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTGAGTTACCAT
*
8964516 AAGGAATCATATA
66 AATGAATCATATA
* *
8964529 TCATGTAA-TCGTAGTGAATTAGGATTACCCTTTTAAGGTCAAATCCTATCCACCTTTG-GTTAC
1 TCATGTAACT-GTAGTGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACC-TTGAGTTAC
8964592 CATAATGAATCATATA
63 CATAATGAATCATATA
* ** *
8964608 TCATATAACTGTAGCAAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTGAGTTACCAT
1 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTGAGTTACCAT
8964673 AATGAATCA
66 AATGAATCA
8964682 AGAATAAATC
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
77 4 0.03
78 65 0.48
79 64 0.47
80 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTGAGTTACCAT
AATGAATCATATA
Found at i:8964710 original size:40 final size:40
Alignment explanation
Indices: 8964666--8964783 Score: 119
Period size: 40 Copynumber: 3.0 Consensus size: 40
8964656 CCGCCTTGAG
* * *
8964666 TTACCATAATGAATCAAGAATAAATCCTATTCACTTTAAA
1 TTACCATAATGAATCAAGAACAAATACTATCCACTTTAAA
* * *
8964706 TTACCATAGTGAATCAAGAACAAATACTATCCACTTTGAG
1 TTACCATAATGAATCAAGAACAAATACTATCCACTTTAAA
* ** * * * *
8964746 GTATTATAGTGAATCAGGAACGAATCCTATCCACTTTA
1 TTACCATAATGAATCAAGAACAAATACTATCCACTTTA
8964784 TATTCTCGAG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (40 bp):
TTACCATAATGAATCAAGAACAAATACTATCCACTTTAAA
Found at i:8976393 original size:22 final size:23
Alignment explanation
Indices: 8976362--8976404 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8976352 TCTATAAGAT
*
8976362 TATATATTTA-ATTTTTAAATGA
1 TATATATTTACAATTTTAAATGA
*
8976384 TATATGTTTACAATTTTAAAT
1 TATATATTTACAATTTTAAAT
8976405 TTCTTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (23 bp):
TATATATTTACAATTTTAAATGA
Found at i:8976426 original size:95 final size:96
Alignment explanation
Indices: 8976301--8976492 Score: 368
Period size: 95 Copynumber: 2.0 Consensus size: 96
8976291 TATTTTTATT
8976301 TTTTAAAATTTCTTAAACATGAACAATTAAACATATTTCTGTTATGTTTATTCTATAAGATTATA
1 TTTTAAAATTTCTTAAACATGAACAATTAAACATATTTCTGTTATGTTTATTCTATAAGATTATA
8976366 TATTTAATTTTTAAATGATATATGTTTACAA
66 TATTTAATTTTTAAATGATATATGTTTACAA
*
8976397 TTTT-AAATTTCTTAAATATGAACAATTAAACATATTTCTGTTATGTTTATTCTATAAGATTATA
1 TTTTAAAATTTCTTAAACATGAACAATTAAACATATTTCTGTTATGTTTATTCTATAAGATTATA
8976461 TATTTAATTTTTAAATGATATATGTTTACAA
66 TATTTAATTTTTAAATGATATATGTTTACAA
8976492 T
1 T
8976493 ATAATTAGAA
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 91 0.96
96 4 0.04
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (96 bp):
TTTTAAAATTTCTTAAACATGAACAATTAAACATATTTCTGTTATGTTTATTCTATAAGATTATA
TATTTAATTTTTAAATGATATATGTTTACAA
Found at i:8979568 original size:153 final size:152
Alignment explanation
Indices: 8979308--8979597 Score: 451
Period size: 153 Copynumber: 1.9 Consensus size: 152
8979298 GATTTTAAAA
* *
8979308 GTTTAGGGTTTTATTGTGTTTAGGCTTTTAGGGTTAATTAAATTAGGACTTAGGGTTAATTAATT
1 GTTTAGGGTTTTATCGTGTTTAGGATTTTAGGGTTAATTAAATTAGGACTTAGGGTTAATTAATT
*
8979373 GAATTAACTATTAATTTTAAAAAAATAATTAAATTAGAGTTTACAATTTTTAAGGTTAATTAATT
66 AAATTAACTATTAATTTTAAAAAAATAATTAAATTAGAGTTTACAATTTTT-AGGTTAATTAATT
8979438 AAATTAGGGTTTAGGGTTTTCGG
130 AAATTAGGGTTTAGGGTTTTCGG
* *
8979461 GTTTAGGTTTTTATCGTGTTTATGATTTTAGGGTTAATTAAATTAGG-CTTTAGGGTTAATTAAT
1 GTTTAGGGTTTTATCGTGTTTAGGATTTTAGGGTTAATTAAATTAGGAC-TTAGGGTTAATTAAT
***
8979525 TAAATTAACTATTAA-TTTAAAAAAATCAATTAAATTA-AGGTTTAGGGTTTTTAGGTTAATTAA
65 TAAATTAACTATTAATTTTAAAAAAAT-AATTAAATTAGA-GTTTACAATTTTTAGGTTAATTAA
8979588 TTAAATTAGG
128 TTAAATTAGG
8979598 ATGCACTGTT
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
152 34 0.27
153 92 0.73
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (152 bp):
GTTTAGGGTTTTATCGTGTTTAGGATTTTAGGGTTAATTAAATTAGGACTTAGGGTTAATTAATT
AAATTAACTATTAATTTTAAAAAAATAATTAAATTAGAGTTTACAATTTTTAGGTTAATTAATTA
AATTAGGGTTTAGGGTTTTCGG
Found at i:8979843 original size:126 final size:126
Alignment explanation
Indices: 8979594--8980286 Score: 1054
Period size: 126 Copynumber: 5.5 Consensus size: 126
8979584 TTAATTAAAT
* *
8979594 TAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCT-TCCACGTGAACGCTCTTTTGCTACAGTA
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCT-CACGTGGACGCTCTTTTGCTACAGTA
* *
8979658 GTAT-TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAAACACTTCAAG
65 GTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
* *
8979719 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACATGGATGCTCTTTTGCTACAGTAG
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAG
* *
8979784 TATCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAAACACTTCAAG
66 TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
* *
8979845 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACATGGATGCTCTTTTGCTACAGTAG
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAG
8979910 TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
66 TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
* * * *
8979971 TAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTATAGTAG
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAG
* * *
8980036 TAT-TTAAAAAATAATTTTGAGAAGACATTTTTGAA-AAATAGTGTCCAAAACGCTTCAAG
66 TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
* *
8980095 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTC-CAACGTAGACGCTATTTTGCTACAGTA
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTC-ACGTGGACGCTCTTTTGCTACAGTA
* * * * * *
8980159 ATATCTGAAAAAATAATTTTGAGAAAAAGTTTCTGAATAAATAGTATCCAAAATGCTTCAAG
65 GTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
* * * * * *
8980221 CAGAATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACGGTAG
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAG
8980286 T
66 T
8980287 TCTTATTTGA
Statistics
Matches: 526, Mismatches: 36, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
123 1 0.00
124 84 0.16
125 118 0.22
126 322 0.61
127 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAG
TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAG
Found at i:8980193 original size:250 final size:250
Alignment explanation
Indices: 8979594--8980286 Score: 1068
Period size: 250 Copynumber: 2.8 Consensus size: 250
8979584 TTAATTAAAT
*
8979594 TAGGATGCACTGTTAGCAAAATTACTGAAAAAAGCTTCCACGTGAACGCTCTTTTGCTACAGTAG
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGC-TCCACGTG-ACGCTCTTTTGCTACAGTAG
* *
8979659 TAT-TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAAACACTTCAAGTAGG
64 TATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGTAGG
* *
8979723 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACATGGATGCTCTTTTGCTACAGTAGTATC
129 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTATC
**
8979788 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCCAAAACACTTCAAG
194 TGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCCAAAACACTTCAAG
* *
8979845 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACATGGATGCTCTTTTGCTACAGTAG
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTC-CACGT-GACGCTCTTTTGCTACAGTAG
*
8979910 TATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGTAGG
64 TATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGTAGG
* * * *
8979975 ATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTATAGTAGTAT-
129 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTATC
* * *
8980039 TTAAAAAATAATTTTGAGAAGACATTTTTGAA-AAATAGTGTCCAAAACGCTTCAAG
194 TGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCCAAAACACTTCAAG
* *
8980095 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCAACGTAGACGCTATTTTGCTACAGTAA
1 TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCC-ACGT-GACGCTCTTTTGCTACAGTAG
* * * * * *
8980160 TATCTGAAAAAATAATTTTGAGAAAAAGTTTCTGAATAAATAGTATCCAAAATGCTTCAAGCAGA
64 TATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGTAGG
* *
8980225 ATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACGGTAGT
129 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGT
8980287 TCTTATTTGA
Statistics
Matches: 404, Mismatches: 34, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
249 1 0.00
250 197 0.49
251 88 0.22
252 118 0.29
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (250 bp):
TAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCACGTGACGCTCTTTTGCTACAGTAGTA
TCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGTAGGAT
GCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTATCTG
AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCCAAAACACTTCAAG
Found at i:8980607 original size:20 final size:20
Alignment explanation
Indices: 8980561--8980607 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
8980551 CCAATGAAAG
*
8980561 TTTTGTCTATTAAGTATCGA
1 TTTTGTGTATTAAGTATCGA
8980581 TTTTGTGTATTAAGTATCGA
1 TTTTGTGTATTAAGTATCGA
8980601 TTTTGTG
1 TTTTGTG
8980608 CTTTGGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.53
Consensus pattern (20 bp):
TTTTGTGTATTAAGTATCGA
Found at i:8983362 original size:9 final size:9
Alignment explanation
Indices: 8983348--8983378 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
8983338 ATTTATATTT
8983348 TATTAAAAA
1 TATTAAAAA
8983357 TATTAAAAA
1 TATTAAAAA
8983366 TATTAAAAA
1 TATTAAAAA
8983375 TATT
1 TATT
8983379 GCCTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TATTAAAAA
Found at i:8983994 original size:30 final size:30
Alignment explanation
Indices: 8983960--8984020 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
8983950 GTTGAAGTGT
*
8983960 TGGGCCCGGTGACTATGTGGGCGCTATTGA
1 TGGGCCCAGTGACTATGTGGGCGCTATTGA
* * *
8983990 TGGGCTCAGTGATTATGTGGGCGCTGTTGA
1 TGGGCCCAGTGACTATGTGGGCGCTATTGA
8984020 T
1 T
8984021 AGGATTGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.13, C:0.16, G:0.39, T:0.31
Consensus pattern (30 bp):
TGGGCCCAGTGACTATGTGGGCGCTATTGA
Found at i:8984535 original size:7 final size:7
Alignment explanation
Indices: 8984523--8984548 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8984513 TTATATAAAT
8984523 AATACTA
1 AATACTA
8984530 AATACTA
1 AATACTA
8984537 AATACTA
1 AATACTA
8984544 AATAC
1 AATAC
8984549 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:8985714 original size:21 final size:21
Alignment explanation
Indices: 8985690--8985738 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8985680 TTTTTTTGCA
**
8985690 AAAATTTAAGAGAGCTTTGAG
1 AAAATTTAAGAGAAATTTGAG
* *
8985711 AAAATATGAGAGAAATTTGAG
1 AAAATTTAAGAGAAATTTGAG
*
8985732 AGAATTT
1 AAAATTT
8985739 GGAGGGAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (21 bp):
AAAATTTAAGAGAAATTTGAG
Found at i:8985731 original size:11 final size:11
Alignment explanation
Indices: 8985691--8985757 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
8985681 TTTTTTGCAA
*
8985691 AAATTTAAGAG
1 AAATTTGAGAG
**
8985702 AGCTTTGAGA-
1 AAATTTGAGAG
*
8985712 AAATATGAGAG
1 AAATTTGAGAG
8985723 AAATTTGAGAG
1 AAATTTGAGAG
8985734 -AATTTG-GAGG
1 AAATTTGAGA-G
*
8985744 GAATTTAGAGAG
1 AAATTT-GAGAG
8985756 AA
1 AA
8985758 TTATTAGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
9 2 0.05
10 14 0.33
11 22 0.51
12 3 0.07
13 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.28, T:0.25
Consensus pattern (11 bp):
AAATTTGAGAG
Found at i:8985758 original size:11 final size:10
Alignment explanation
Indices: 8985705--8985759 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 10
8985695 TTAAGAGAGC
*
8985705 TTTGAGAAAA
1 TTTGAGAGAA
*
8985715 TATGAGAGAAA
1 TTTGAGAG-AA
8985726 TTTGAGAGAA
1 TTTGAGAGAA
*
8985736 TTTGGAGGGAA
1 TTT-GAGAGAA
8985747 TTTAGAGAGAA
1 TTT-GAGAGAA
8985758 TT
1 TT
8985760 ATTAGAGGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 11 0.30
11 26 0.70
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:8987969 original size:21 final size:21
Alignment explanation
Indices: 8987944--8988008 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
8987934 TAGCCTTTGG
8987944 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
8987965 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
* *
8987983 GCTTCCGTTTAACACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
8988004 GCTTC
1 GCTTC
8988009 AGCTAGACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 6 0.17
19 8 0.23
20 10 0.29
21 11 0.31
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:8987970 original size:39 final size:39
Alignment explanation
Indices: 8987926--8988026 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
8987916 GCTCTGATGA
* * *
8987926 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
8987965 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
* * *
8988004 GCTTCAGCTAGACTTCGGCCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
8988027 AGATCACGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
Found at i:8992221 original size:35 final size:35
Alignment explanation
Indices: 8992182--8992251 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
8992172 TTTAAGACTC
*
8992182 AGTCTGTAATATATAAAATATTTTTAAATAAATAA
1 AGTCTGCAATATATAAAATATTTTTAAATAAATAA
*
8992217 AGTCTGCAATATGTAAAATATTTTTAAATAAATAA
1 AGTCTGCAATATATAAAATATTTTTAAATAAATAA
8992252 GTTAATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (35 bp):
AGTCTGCAATATATAAAATATTTTTAAATAAATAA
Found at i:8992259 original size:31 final size:33
Alignment explanation
Indices: 8992188--8992260 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 33
8992178 ACTCAGTCTG
8992188 TAATATATAAAATATTTTTAAATAAATAAAGTC
1 TAATATATAAAATATTTTTAAATAAATAAAGTC
*
8992221 TGCAATATGTAAAATATTTTTAAATAAAT-AAGT-
1 T--AATATATAAAATATTTTTAAATAAATAAAGTC
8992254 TAATATA
1 TAATATA
8992261 AATTTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 5 0.14
33 2 0.06
34 4 0.11
35 25 0.69
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (33 bp):
TAATATATAAAATATTTTTAAATAAATAAAGTC
Found at i:9010492 original size:21 final size:21
Alignment explanation
Indices: 9010426--9010493 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
9010416 ACTCGTATGA
*
9010426 GTTTCAATTTAA-CCTTATTGG
1 GTTTCAATTTAACCCTTA-CGG
** * * *
9010447 GTTTCCGTTTAACTCTTTCGA
1 GTTTCAATTTAACCCTTACGG
9010468 GTTTCAATTTAACCCTTACGG
1 GTTTCAATTTAACCCTTACGG
9010489 GTTTC
1 GTTTC
9010494 CGTTTAGCAC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (21 bp):
GTTTCAATTTAACCCTTACGG
Found at i:9010499 original size:21 final size:21
Alignment explanation
Indices: 9010445--9010499 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9010435 TAACCTTATT
* *
9010445 GGGTTTCCGTTTAACTCTTTC
1 GGGTTTCCGTTTAACCCTTAC
* **
9010466 GAGTTTCAATTTAACCCTTAC
1 GGGTTTCCGTTTAACCCTTAC
9010487 GGGTTTCCGTTTA
1 GGGTTTCCGTTTA
9010500 GCACTTATGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (21 bp):
GGGTTTCCGTTTAACCCTTAC
Found at i:9010506 original size:21 final size:21
Alignment explanation
Indices: 9010445--9010506 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
9010435 TAACCTTATT
* *
9010445 GGGTTTCCGTTTAACTCTTTC
1 GGGTTTCCGTTTAACACTTAC
* ** *
9010466 GAGTTTCAATTTAACCCTTAC
1 GGGTTTCCGTTTAACACTTAC
*
9010487 GGGTTTCCGTTTAGCACTTA
1 GGGTTTCCGTTTAACACTTA
9010507 TGTGCTTTTG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (21 bp):
GGGTTTCCGTTTAACACTTAC
Found at i:9011143 original size:12 final size:12
Alignment explanation
Indices: 9011126--9011155 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9011116 GGTATACGAG
9011126 AGTGTTGTATGC
1 AGTGTTGTATGC
9011138 AGTGTTGTATGC
1 AGTGTTGTATGC
9011150 AG-GTTG
1 AGTGTTG
9011156 ATTGTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.17, C:0.07, G:0.37, T:0.40
Consensus pattern (12 bp):
AGTGTTGTATGC
Found at i:9016347 original size:96 final size:94
Alignment explanation
Indices: 9016230--9016414 Score: 309
Period size: 96 Copynumber: 1.9 Consensus size: 94
9016220 GCAAACAAGC
*
9016230 AGAATTTGATTATTTTTTGTTTTGTGTTATGTAGTAATTCTTTTTTATTAAAAAATAAATTACTT
1 AGAATTTGATTATTTTTTGTTTTGTATTATGTAGTAATTCTTTTTTATT-AAAAA-AAATTACTT
*
9016295 TGATAAAATTTCACCTTATATATATTATAAT
64 TGATAAAATATCACCTTATATATATTATAAT
*
9016326 AGAATTTGATTGA-TTTTTGTTTTGTATTATGTAGTAATTGTTTTTTATTAAAAAAAATTACTTT
1 AGAATTTGATT-ATTTTTTGTTTTGTATTATGTAGTAATTCTTTTTTATTAAAAAAAATTACTTT
9016390 GATAAAATATCACCTTATATATATT
65 GATAAAATATCACCTTATATATATT
9016415 CTTATTATAA
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
94 34 0.40
95 5 0.06
96 45 0.53
97 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (94 bp):
AGAATTTGATTATTTTTTGTTTTGTATTATGTAGTAATTCTTTTTTATTAAAAAAAATTACTTTG
ATAAAATATCACCTTATATATATTATAAT
Found at i:9019839 original size:41 final size:41
Alignment explanation
Indices: 9019780--9019949 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
9019770 GTTTTTTACT
*
9019780 GCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGCAAAACT-CC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAA-TGCC
* *
9019820 TCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTAAAATGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAATGCC
* *
9019861 GCTAAAAACTAGAGCATTAGCGGCACTTTTGGTAAAATGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAATGCC
* * *
9019902 ACTAAAAACCAGAGCATTAGCGGCGTTTTTGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAATGCC
9019943 GCTAAAA
1 GCTAAAA
9019950 GTCATATAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 8 0.07
41 107 0.93
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAATGCC
Found at i:9020196 original size:46 final size:46
Alignment explanation
Indices: 9020114--9020205 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
9020104 CATTATAGTT
*
9020114 TATGGTTTAAGATATATGGTTTAGGGTTTAAAGTTTATG-AGTTAAC
1 TATGGTTTAAGATATATGATTTAGGGTTTAAAGTTTA-GAAGTTAAC
**
9020160 TATGGTTTAAGATATATGATTTAGGGTTTAGGGTTTAGAAGTTAAC
1 TATGGTTTAAGATATATGATTTAGGGTTTAAAGTTTAGAAGTTAAC
9020206 CAGTATTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
45 1 0.02
46 41 0.98
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.42
Consensus pattern (46 bp):
TATGGTTTAAGATATATGATTTAGGGTTTAAAGTTTAGAAGTTAAC
Found at i:9020255 original size:14 final size:15
Alignment explanation
Indices: 9020228--9020284 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 15
9020218 GTTATGATGA
9020228 ATTATGAGTTTAGGG
1 ATTATGAGTTTAGGG
9020243 ATTATGA-TTTAGGG
1 ATTATGAGTTTAGGG
* *
9020257 TTTA-GAGGTTAGGG
1 ATTATGAGTTTAGGG
* *
9020271 TTTA-GAGGTTAGGG
1 ATTATGAGTTTAGGG
9020285 TTGGAGTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
13 2 0.05
14 30 0.77
15 7 0.18
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.39
Consensus pattern (15 bp):
ATTATGAGTTTAGGG
Found at i:9020374 original size:7 final size:7
Alignment explanation
Indices: 9020235--9020375 Score: 67
Period size: 7 Copynumber: 19.9 Consensus size: 7
9020225 TGAATTATGA
9020235 GTTTAGG
1 GTTTAGG
* *
9020242 GATTATG
1 GTTTAGG
*
9020249 ATTTAGG
1 GTTTAGG
9020256 GTTTAGAG
1 GTTTAG-G
9020264 G-TTAGG
1 GTTTAGG
9020270 GTTTAGAG
1 GTTTAG-G
9020278 G-TTAGG
1 GTTTAGG
9020284 G-TT-GG
1 GTTTAGG
*
9020289 AGTTTAAG
1 -GTTTAGG
*
9020297 GTGTAAGG
1 GT-TTAGG
*
9020305 GTTTGGG
1 GTTTAGG
*
9020312 GTTAAGG
1 GTTTAGG
*
9020319 GTTAAGG
1 GTTTAGG
*
9020326 GTTTAGA
1 GTTTAGG
**
9020333 GTTTATT
1 GTTTAGG
9020340 GTTTATGG
1 GTTTA-GG
*
9020348 G-ATAGGG
1 GTTTA-GG
*
9020355 GTTAAGAG
1 GTTTAG-G
9020363 GTTTAGG
1 GTTTAGG
9020370 GTTTAG
1 GTTTAG
9020376 ATTAGTTAGT
Statistics
Matches: 100, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.02
6 7 0.07
7 73 0.73
8 18 0.18
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
GTTTAGG
Found at i:9030610 original size:23 final size:23
Alignment explanation
Indices: 9030571--9030619 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
9030561 TTAAAATTTT
9030571 AATTTTTTTTATATATTCTTTA-A
1 AATTTTTTTTATATATT-TTTAGA
*
9030594 AATTTTTTATT-TTTATTTTTAGA
1 AATTTTTT-TTATATATTTTTAGA
9030617 AAT
1 AAT
9030620 ATAGCTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
AATTTTTTTTATATATTTTTAGA
Found at i:9032128 original size:12 final size:12
Alignment explanation
Indices: 9032106--9032139 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9032096 CTCGTGCTTA
*
9032106 TGTTATACTCTT
1 TGTTATGCTCTT
*
9032118 TGTTGTGCTCTT
1 TGTTATGCTCTT
9032130 TGTTATGCTC
1 TGTTATGCTC
9032140 CCATTGGTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.18, G:0.18, T:0.56
Consensus pattern (12 bp):
TGTTATGCTCTT
Found at i:9034781 original size:26 final size:26
Alignment explanation
Indices: 9034752--9034825 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
9034742 AATGTTAAGG
* *
9034752 TAAATAATTTTTATCTTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
9034778 TAAATAATATTTATATTTATGATAA-
1 TAAATAATATTTATATTTATGATAAT
9034803 T--AT--TATTTATATTTATGATAAT
1 TAAATAATATTTATATTTATGATAAT
9034825 T
1 T
9034826 TCATATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 18 0.40
22 1 0.02
23 2 0.04
25 1 0.02
26 23 0.51
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (26 bp):
TAAATAATATTTATATTTATGATAAT
Found at i:9034809 original size:21 final size:21
Alignment explanation
Indices: 9034780--9034824 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
9034770 ATGATAATTA
9034780 AATAATATTTATATTTATGAT
1 AATAATATTTATATTTATGAT
*
9034801 AATATTATTTATATTTATGAT
1 AATAATATTTATATTTATGAT
9034822 AAT
1 AAT
9034825 TTCATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
AATAATATTTATATTTATGAT
Found at i:9034838 original size:21 final size:21
Alignment explanation
Indices: 9034780--9034839 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
9034770 ATGATAATTA
* *
9034780 AATAATATTTATATTTATGAT
1 AATATTATATATATTTATGAT
*
9034801 AATATTATTTATATTTATGAT
1 AATATTATATATATTTATGAT
*
9034822 AAT-TTCATATATTTTTAT
1 AATATT-ATATATATTTAT
9034840 TTTTTCACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (21 bp):
AATATTATATATATTTATGAT
Found at i:9035072 original size:14 final size:14
Alignment explanation
Indices: 9035050--9035097 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
9035040 TTTCTATATT
*
9035050 TATAAATTTTAAAA
1 TATATATTTTAAAA
* *
9035064 TATATATTTTTAGAT
1 TATATA-TTTTAAAA
9035079 TATATATTTTAAAA
1 TATATATTTTAAAA
9035093 TATAT
1 TATAT
9035098 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TATATATTTTAAAA
Found at i:9036692 original size:14 final size:14
Alignment explanation
Indices: 9036673--9036701 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9036663 AAACATATCC
9036673 TTGCTAGATCTAAG
1 TTGCTAGATCTAAG
9036687 TTGCTAGATCTAAG
1 TTGCTAGATCTAAG
9036701 T
1 T
9036702 GTTCCTGTAT
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:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TTGCTAGATCTAAG
Found at i:9038588 original size:10 final size:10
Alignment explanation
Indices: 9038573--9038602 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
9038563 ATACATCTGT
9038573 TTGCAATTGA
1 TTGCAATTGA
9038583 TTGCAATTGA
1 TTGCAATTGA
9038593 TTGCAATTGA
1 TTGCAATTGA
9038603 ACAACTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (10 bp):
TTGCAATTGA
Found at i:9042134 original size:15 final size:15
Alignment explanation
Indices: 9042106--9042139 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9042096 GGTGAGAGTG
9042106 TGTT-ATATAAAGAT
1 TGTTAATATAAAGAT
*
9042120 TGTTAATATAGAGAT
1 TGTTAATATAAAGAT
9042135 TGTTA
1 TGTTA
9042140 GTCTATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (15 bp):
TGTTAATATAAAGAT
Found at i:9052338 original size:3 final size:3
Alignment explanation
Indices: 9052330--9053114 Score: 1570
Period size: 3 Copynumber: 261.7 Consensus size: 3
9052320 ATCACATGTT
9052330 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052378 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052426 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052474 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052522 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052570 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052618 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052666 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052714 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052762 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052810 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052858 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052906 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9052954 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9053002 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9053050 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9053098 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
9053115 TGGATGTAAT
Statistics
Matches: 782, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 782 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9053237 original size:72 final size:72
Alignment explanation
Indices: 9053115--9053298 Score: 341
Period size: 72 Copynumber: 2.6 Consensus size: 72
9053105 TATTATTATT
9053115 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAATGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAATGTAGTAGGTGGTGATTTA
*
9053180 TTTTAAG
66 TTTTAAA
*
9053187 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAATGTAGTAGGTGGTGATTTA
9053252 TTTTAAA
66 TTTTAAA
*
9053259 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
9053299 GTCAAGTTGT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAATGTAGTAGGTGGTGATTTA
TTTTAAA
Found at i:9056687 original size:132 final size:132
Alignment explanation
Indices: 9056450--9057298 Score: 1287
Period size: 132 Copynumber: 6.4 Consensus size: 132
9056440 TCCCCATAAA
* * * * * * *
9056450 CACAGGGATGTCAAATCTACTGTCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAAATCTGT
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
* * * * *
9056514 TATCTTCAACTTGTTCCCTATAAGCACAGGGATTCCATGCTGAAATCTTCGATCTGCTTCACCGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGT
9056579 AAG
130 AAG
* * *
9056582 CACAGGAATGTCAGATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAAGGATGCCAAATCTAC
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
*
9056646 TGTTTTCAACTTGCTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGT
9056711 AAG
130 AAG
*
9056714 CACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
9056779 GTTTTTAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
9056844 AG
131 AG
9056846 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
9056911 GTTTTTAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
9056976 AG
131 AG
9056978 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
9057043 GTTTTTAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
9057108 AG
131 AG
9057110 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
* * * * * **
9057175 ATCTTCAACTTGTTCCCTATAAGCACAGGAATGTCA-GATCT-ATTATCTTCGATCTG-TTTCCT
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG--CTGA-AATCTTCGATCTGCTTAACT
*
9057237 ATAAG
128 GTAAG
* * * * * * *
9057242 CACGGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCA
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
9057299 TGCTGAAATC
Statistics
Matches: 675, Mismatches: 37, Indels: 10
0.93 0.05 0.01
Matches are distributed among these distances:
131 3 0.00
132 656 0.97
133 16 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTAACTGTA
AG
Found at i:9057297 original size:44 final size:44
Alignment explanation
Indices: 9056421--9057298 Score: 727
Period size: 44 Copynumber: 20.0 Consensus size: 44
9056411 TGAGTTCTTG
* * * *
9056421 ATCTGCT-TCTTCGACCTGTTCCCCATAAACACAGGGATGTCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
9056464 ATCTACTGTCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* * *
9056508 ATCTGTTATCTTC-AACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * *
9056550 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAA
* *
9056596 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAAGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* * * * *
9056640 ATCTACTGTTTTC-AACTTGCTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * *
9056682 ATGCTGAAATCTTCGATCTGCTTAACTGTAAGCACAGGAATGTCAA
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
9056728 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* ** *
9056772 ATCTGCTGT-TTTTAACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
9056814 ATGCTGAAATCTTCGATCTGCTTAACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
9056860 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* ** *
9056904 ATCTGCTGT-TTTTAACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
9056946 ATGCTGAAATCTTCGATCTGCTTAACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
9056992 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* ** *
9057036 ATCTGCTGT-TTTTAACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
9057078 ATGCTGAAATCTTCGATCTGCTTAACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
9057124 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
9057168 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * *
9057212 ATCTATTATCTTCGATCTGTTTCCTATAAGCACGGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
9057256 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
9057299 TGCTGAAATC
Statistics
Matches: 663, Mismatches: 136, Indels: 71
0.76 0.16 0.08
Matches are distributed among these distances:
42 10 0.02
43 63 0.10
44 505 0.76
45 75 0.11
46 10 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:9057603 original size:206 final size:205
Alignment explanation
Indices: 9057306--9057690 Score: 563
Period size: 206 Copynumber: 1.9 Consensus size: 205
9057296 CCATGCTGAA
* * *
9057306 ATCTTCGATCTGCTTCAGTATAAACATTTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGA
1 ATCTTCGATCTACTTCAGTATAAACATCTGAAGGTTGAATCTGCTATATGTCTACCCTCCATCGA
* *
9057371 AGTGGAGATACCAGGCTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTT
66 AATGGAGATACCAGACTTCAATTTGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTT
* * * * * *
9057436 GCTTTAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAA
130 GCTTCAACATAAACACGCGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCTTGTAAGCACAAA
9057501 GATGCCAAACC
195 GATGCCAAACC
* * * * * *
9057512 ATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATATGTCTGCCTTCCGTCTA
1 ATCTTCGATCTACTTCAGTATAAACATCTGAAGGTTGAATCTGCTATATGTCTACCCTCCATCGA
* * * *
9057577 AATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAGATCATCTTAGATTTG
66 AATGGAGATACCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG
*
9057642 CTTCAACATAAACACGCGAAAGCTAAATCAACTATGTCTTCGATCTGCT
131 CTTCAACATAAACACGCGAAAGCCAAATCAACTATGTCTTCGATCTGCT
9057691 TCAGTATAAA
Statistics
Matches: 157, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
205 60 0.38
206 97 0.62
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
ATCTTCGATCTACTTCAGTATAAACATCTGAAGGTTGAATCTGCTATATGTCTACCCTCCATCGA
AATGGAGATACCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG
CTTCAACATAAACACGCGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCTTGTAAGCACAAAG
ATGCCAAACC
Found at i:9057804 original size:165 final size:165
Alignment explanation
Indices: 9057513--9057847 Score: 465
Period size: 165 Copynumber: 2.0 Consensus size: 165
9057503 TGCCAAACCA
* * * * * *
9057513 TCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATATGTCTGCCTTCCGTCTAA
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTGCTATATGTCTACCCTCCATCTAA
* * *
9057578 ATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAGATCATCTTAGATTTGC
66 ATGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGC
* *
9057643 TTCAACATAAACACGCGAAAGCTAAATCAACTATG
131 TTCAACATAAACACGCAAAAGCCAAATCAACTATG
* * * *
9057678 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATC-GA
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTGCTATATGTCTACCCTCCATCTAA
*
9057742 GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
66 ATGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTTG
* * * * *
9057807 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATG
130 CTTCAACATAAACACGCAAAAGCCAAATCAACTATG
9057843 TCTTC
1 TCTTC
9057848 AATTTGCTCC
Statistics
Matches: 148, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
164 43 0.29
165 105 0.71
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (165 bp):
TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTGCTATATGTCTACCCTCCATCTAA
ATGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGC
TTCAACATAAACACGCAAAAGCCAAATCAACTATG
Found at i:9057903 original size:370 final size:371
Alignment explanation
Indices: 9057307--9058060 Score: 1312
Period size: 370 Copynumber: 2.0 Consensus size: 371
9057297 CATGCTGAAA
*
9057307 TCTTCGATCTGCTTCAGTATAAACATTTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
1 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
*
9057372 GTGGAGATACCAGGCTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
66 GTGGAGATACCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
* * *
9057437 CTTTAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAAG
131 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAAG
*
9057502 ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATATGTCTGC
196 ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATATGTCTGC
* * *
9057567 CTTCCGTCTAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAGATCAT
261 CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
*
9057632 CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAATCAACTATG
326 CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAACCAACTATG
9057678 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCG-A
1 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
*
9057742 GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
66 GTGGAGATACCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
*
9057807 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGG
131 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAAG
* *
9057872 ATGCCAAACTATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGC
196 ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATATGTCTGC
* *
9057937 CTTCTGTCGAAGTGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
261 CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
* * *
9058002 CTTAGATTTGCTTCAACGTAAACACGTGAAAGCTAAACCAGCTATG
326 CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAACCAACTATG
**
9058048 TCTTTAATCTGCT
1 TCTTCGATCTGCT
9058061 CTCCGCCTGA
Statistics
Matches: 362, Mismatches: 21, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
370 300 0.83
371 62 0.17
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (371 bp):
TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
GTGGAGATACCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAAG
ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATATGTCTGC
CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAACCAACTATG
Found at i:9058046 original size:205 final size:205
Alignment explanation
Indices: 9057678--9058061 Score: 572
Period size: 205 Copynumber: 1.9 Consensus size: 205
9057668 ATCAACTATG
* * *
9057678 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAG
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTACTATGTGTCTACCCTCCATCGAG
*
9057743 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTGC
66 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGACCAAATCATCTTAGATTTGC
* * * *
9057808 TTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGGA
131 TTCAACGTAAACACGTAAAAGCCAAACCAGCTATGTCTTCAATCTGCTCCTTGTAAACACAAGGA
9057873 TGCCAAACTA
196 TGCCAAACTA
* * * * * **
9057883 TCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGCCTTCTGTCGAA
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTACTATGTGTCTACCCTCCATCG-A
* *
9057948 GTGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGAT-ACCAAATCATCTTAGATTTG
65 GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGACCAAATCATCTTAGATTTG
* * *
9058012 CTTCAACGTAAACACGTGAAAGCTAAACCAGCTATGTCTTTAATCTGCTC
130 CTTCAACGTAAACACGTAAAAGCCAAACCAGCTATGTCTTCAATCTGCTC
9058062 TCCGCCTGAT
Statistics
Matches: 158, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
205 115 0.73
206 43 0.27
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (205 bp):
TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTACTATGTGTCTACCCTCCATCGAG
TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGACCAAATCATCTTAGATTTGC
TTCAACGTAAACACGTAAAAGCCAAACCAGCTATGTCTTCAATCTGCTCCTTGTAAACACAAGGA
TGCCAAACTA
Found at i:9058323 original size:61 final size:64
Alignment explanation
Indices: 9058206--9058330 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
9058196 TCATGTATCC
9058206 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
9058270 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
9058331 TTATTGTAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 31 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:9059463 original size:19 final size:20
Alignment explanation
Indices: 9059441--9059489 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
9059431 TTTTTCCGCC
9059441 TTTTTTTTTAATTTTTTGT-
1 TTTTTTTTTAATTTTTTGTA
*
9059460 TTTTTGTTTT-GTTTTTTGTA
1 TTTTT-TTTTAATTTTTTGTA
*
9059480 TGTTTTTTTA
1 TTTTTTTTTA
9059490 GGGCTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTAATTTTTTGTA
Found at i:9059469 original size:12 final size:12
Alignment explanation
Indices: 9059454--9059487 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9059444 TTTTTTAATT
9059454 TTTTGTTTTTTG
1 TTTTGTTTTTTG
9059466 TTTTGTTTTTTG
1 TTTTGTTTTTTG
*
9059478 -TATGTTTTTT
1 TTTTGTTTTTT
9059488 TAGGGCTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (12 bp):
TTTTGTTTTTTG
Found at i:9062749 original size:19 final size:19
Alignment explanation
Indices: 9062725--9062770 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
9062715 GTGAAAGTTC
9062725 AATGCAAATGT-TGCAATG
1 AATGCAAATGTATGCAATG
*
9062743 TAATGCAAATGTATGGAATG
1 -AATGCAAATGTATGCAATG
9062763 AATGCAAA
1 AATGCAAA
9062771 AGAAAGGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (19 bp):
AATGCAAATGTATGCAATG
Found at i:9065868 original size:13 final size:13
Alignment explanation
Indices: 9065850--9065951 Score: 105
Period size: 13 Copynumber: 8.5 Consensus size: 13
9065840 AGTGGTTGGG
9065850 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
9065863 GTGGTTTAGTAGG-
1 GTGGTTTAGT-GGA
9065876 GTGG-TT-G-GG-
1 GTGGTTTAGTGGA
*
9065885 GTGGTTTAGTAGA
1 GTGGTTTAGTGGA
*
9065898 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
9065911 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
9065924 GTGG--T--TGGA
1 GTGGTTTAGTGGA
*
9065933 GTGGTTTAGTAGA
1 GTGGTTTAGTGGA
9065946 GTGGTT
1 GTGGTT
9065952 GGAGTGGTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
9 14 0.19
10 2 0.03
11 4 0.05
12 3 0.04
13 50 0.67
14 2 0.03
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:9065887 original size:35 final size:35
Alignment explanation
Indices: 9065839--9065969 Score: 149
Period size: 35 Copynumber: 3.7 Consensus size: 35
9065829 NNNNNNNNNN
* *
9065839 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTTTAGTA
1 GAGTGGTTGGAGTGGTTTAGTAGAGTGGTTTAGTA
* *
9065874 GGGTGGTTGGGGTGGTTTAGTAGAGTGGTTTAGT-
1 GAGTGGTTGGAGTGGTTTAGTAGAGTGGTTTAGTA
* ** * *
9065908 GTAGTGGTT-TAGTGGAGTGGTTGGAGTGGTTTAGTA
1 G-AGTGGTTGGAGTGGTTTAG-TAGAGTGGTTTAGTA
9065944 GAGTGGTTGGAGTGGTTTAGTAGAGT
1 GAGTGGTTGGAGTGGTTTAGTAGAGT
9065970 AAAGATATTT
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
34 7 0.09
35 63 0.81
36 8 0.10
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.37
Consensus pattern (35 bp):
GAGTGGTTGGAGTGGTTTAGTAGAGTGGTTTAGTA
Found at i:9065888 original size:22 final size:22
Alignment explanation
Indices: 9065859--9065969 Score: 159
Period size: 22 Copynumber: 4.9 Consensus size: 22
9065849 GGTGGTTTAG
*
9065859 TGGAGTGGTTTAGTAGGGTGGT
1 TGGAGTGGTTTAGTAGAGTGGT
*
9065881 TGGGGTGGTTTAGTAGAGTGGTT
1 TGGAGTGGTTTAGTAGAGTGG-T
*
9065904 TAGTGTAGTGGTTTAGTGGAGTGGT
1 T-G-G-AGTGGTTTAGTAGAGTGGT
9065929 TGGAGTGGTTTAGTAGAGTGGT
1 TGGAGTGGTTTAGTAGAGTGGT
9065951 TGGAGTGGTTTAGTAGAGT
1 TGGAGTGGTTTAGTAGAGT
9065970 AAAGATATTT
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
22 56 0.70
23 3 0.04
24 2 0.03
25 3 0.04
26 16 0.20
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (22 bp):
TGGAGTGGTTTAGTAGAGTGGT
Found at i:9065908 original size:48 final size:49
Alignment explanation
Indices: 9065850--9065966 Score: 174
Period size: 48 Copynumber: 2.5 Consensus size: 49
9065840 AGTGGTTGGG
*
9065850 GTGGTTTAGTGGAGTGGTTTAGTAGG-GTGGTTGGGGTGGTTTAGTAGA
1 GTGGTTTAGTGGAGTGGTTTAGTAGGAGTGGTTGGAGTGGTTTAGTAGA
*
9065898 GTGGTTTAGTGTAGTGGTTTAGT-GGAGTGGTTGGAGTGGTTTAGTAGA
1 GTGGTTTAGTGGAGTGGTTTAGTAGGAGTGGTTGGAGTGGTTTAGTAGA
9065946 GTGG--T--TGGAGTGGTTTAGTAG
1 GTGGTTTAGTGGAGTGGTTTAGTAG
9065967 AGTAAAGATA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
44 13 0.20
45 1 0.02
46 1 0.02
47 2 0.03
48 47 0.73
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (49 bp):
GTGGTTTAGTGGAGTGGTTTAGTAGGAGTGGTTGGAGTGGTTTAGTAGA
Found at i:9065969 original size:13 final size:12
Alignment explanation
Indices: 9065850--9065969 Score: 96
Period size: 13 Copynumber: 10.2 Consensus size: 12
9065840 AGTGGTTGGG
9065850 GTGGTTTAGTGGA
1 GTGGTTTAGT-GA
*
9065863 GTGGTTTAGTAGG
1 GTGGTTTAGT-GA
*
9065876 GTGG-TT-G-GG
1 GTGGTTTAGTGA
9065885 GTGGTTTAGTAGA
1 GTGGTTTAGT-GA
9065898 GTGGTTTAGTGTA
1 GTGGTTTAGTG-A
9065911 GTGGTTTAGTGGA
1 GTGGTTTAGT-GA
9065924 GTGG-TT-G-GA
1 GTGGTTTAGTGA
9065933 GTGGTTTAGTAGA
1 GTGGTTTAGT-GA
9065946 GTGG-TT-G-GA
1 GTGGTTTAGTGA
9065955 GTGGTTTAGTAGA
1 GTGGTTTAGT-GA
9065968 GT
1 GT
9065970 AAAGATATTT
Statistics
Matches: 90, Mismatches: 3, Indels: 28
0.74 0.02 0.23
Matches are distributed among these distances:
9 18 0.20
10 6 0.07
11 6 0.07
12 7 0.08
13 52 0.58
14 1 0.01
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (12 bp):
GTGGTTTAGTGA
Found at i:9067775 original size:27 final size:27
Alignment explanation
Indices: 9067737--9067789 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
9067727 TAAATGGGTT
9067737 GAGGGCATGTCAGAGGCGGCACCAGTG
1 GAGGGCATGTCAGAGGCGGCACCAGTG
*
9067764 GAGGGCATGTCAGAGGCTGCACCAGT
1 GAGGGCATGTCAGAGGCGGCACCAGT
9067790 TGTGCCTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.42, T:0.13
Consensus pattern (27 bp):
GAGGGCATGTCAGAGGCGGCACCAGTG
Found at i:9068042 original size:39 final size:43
Alignment explanation
Indices: 9067998--9068080 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 43
9067988 TATTATATAG
*
9067998 TTTGTTTAGTGTTATTT-TTA-T-A-TTTTGT-TTTAAAGTTAT
1 TTTGTTTAGTGTAATTTGTTAGTAAGTTTTGTGTTTAAA-TTAT
*
9068037 TTTGTTTATTGTAATTTGTTAGTAAGTTTTGTGTTTAAATTAT
1 TTTGTTTAGTGTAATTTGTTAGTAAGTTTTGTGTTTAAATTAT
9068080 T
1 T
9068081 GAGAATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
39 15 0.41
40 3 0.08
41 1 0.03
42 1 0.03
43 11 0.30
44 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.64
Consensus pattern (43 bp):
TTTGTTTAGTGTAATTTGTTAGTAAGTTTTGTGTTTAAATTAT
Found at i:9072079 original size:33 final size:33
Alignment explanation
Indices: 9072009--9072157 Score: 121
Period size: 33 Copynumber: 4.5 Consensus size: 33
9071999 AGGAGTGCCA
9072009 TACTGCGGTGGATACGA-CTCA-AGAGGAATGGA-T-
1 TACTGCGGTGGATACGAGC-CAGA-AGGAAT--ACTG
*
9072042 TACTGCGGTGGATACGAGCCAGAAGGACTACTG
1 TACTGCGGTGGATACGAGCCAGAAGGAATACTG
**
9072075 TACTGCGGTGGATACGAGCCTAG-AGGAATGTTG
1 TACTGCGGTGGATACGAGCC-AGAAGGAATACTG
* * * * *
9072108 TACAGCAGTGGATACGGGCCCGGAA-GAATACTA
1 TACTGCGGTGGATACGAG-CCAGAAGGAATACTG
*
9072141 TACTGTGGTGGATACGA
1 TACTGCGGTGGATACGA
9072158 CTCAAAGATT
Statistics
Matches: 94, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 85 0.90
34 7 0.07
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (33 bp):
TACTGCGGTGGATACGAGCCAGAAGGAATACTG
Found at i:9072119 original size:66 final size:66
Alignment explanation
Indices: 9072008--9072162 Score: 181
Period size: 66 Copynumber: 2.3 Consensus size: 66
9071998 GAGGAGTGCC
* * *
9072008 ATACTGCGGTGGATACGACTCAAGAGGAATGGATTACTGCGGTGGATACGAG-CCAGAAGGACTA
1 ATACTGCGGTGGATACGACTCAAGAGGAATGGATTACAGCAGTGGATACGAGCCCAGAA-GAATA
9072072 CT
65 CT
* * * * *
9072074 GTACTGCGGTGGATACGAGC-CTAGAGGAAT-GTTGTACAGCAGTGGATACGGGCCCGGAAGAAT
1 ATACTGCGGTGGATACGA-CTCAAGAGGAATGGAT-TACAGCAGTGGATACGAGCCCAGAAGAAT
9072137 ACT
64 ACT
*
9072140 ATACTGTGGTGGATACGACTCAA
1 ATACTGCGGTGGATACGACTCAA
9072163 AGATTTCAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
65 3 0.04
66 65 0.88
67 6 0.08
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (66 bp):
ATACTGCGGTGGATACGACTCAAGAGGAATGGATTACAGCAGTGGATACGAGCCCAGAAGAATAC
T
Found at i:9072313 original size:6 final size:6
Alignment explanation
Indices: 9072304--9072335 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9072294 AGGCTCGTAA
9072304 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TC
9072336 GACCTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (6 bp):
TCTGGC
Found at i:9073932 original size:26 final size:26
Alignment explanation
Indices: 9073899--9073997 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 26
9073889 TTACAACAAN
*
9073899 AATA-ATAAAACAATTTAAAATGAAT
1 AATACATAAAACAATTTAAAATAAAT
9073924 AATACATAAAACAAGTTTAAAATAAAT
1 AATACATAAAACAA-TTTAAAATAAAT
** * * **
9073951 AATGTATAAAGCATTTTAAAATCTAT
1 AATACATAAAACAATTTAAAATAAAT
* * *
9073977 AATACACAAAGCAAATTAAAA
1 AATACATAAAACAATTTAAAA
9073998 AATGAAATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
25 4 0.07
26 35 0.58
27 21 0.35
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (26 bp):
AATACATAAAACAATTTAAAATAAAT
Found at i:9073951 original size:27 final size:25
Alignment explanation
Indices: 9073899--9073972 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
9073889 TTACAACAAN
*
9073899 AATAATAAAACAATTTAAAATGAAT
1 AATAATAAAACAATTTAAAATAAAT
9073924 AATACATAAAACAAGTTTAAAATAAAT
1 AATA-ATAAAACAA-TTTAAAATAAAT
* * *
9073951 AATGTATAAAGCATTTTAAAAT
1 AAT-AATAAAACAATTTAAAAT
9073973 CTATAATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.10
26 17 0.40
27 21 0.50
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (25 bp):
AATAATAAAACAATTTAAAATAAAT
Found at i:9074069 original size:27 final size:27
Alignment explanation
Indices: 9074013--9074066 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
9074003 AATATACGAA
* *
9074013 TAATTTTAAAATAAATAATATATAAGT
1 TAATTTAAAAATAAATAATATAGAAGT
9074040 TAATTTAAAAAT-AATAA-ATTAGAAGT
1 TAATTTAAAAATAAATAATA-TAGAAGT
9074066 T
1 T
9074067 TAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 12 0.50
27 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (27 bp):
TAATTTAAAAATAAATAATATAGAAGT
Found at i:9075834 original size:21 final size:20
Alignment explanation
Indices: 9075793--9075840 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9075783 TCAAATATAT
* *
9075793 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
9075814 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
9075835 CTAAAA
1 TTAAAA
9075841 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:9075842 original size:11 final size:12
Alignment explanation
Indices: 9075826--9075858 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9075816 AAAACAAATA
9075826 AAAATAATAC-T
1 AAAATAATACTT
*
9075837 AAAATAATTCTT
1 AAAATAATACTT
9075849 AAAATAATAC
1 AAAATAATAC
9075859 ACAAATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATAATACTT
Found at i:9078328 original size:12 final size:12
Alignment explanation
Indices: 9078311--9078336 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9078301 CTTCTCTTTT
9078311 TTTTTTCTTTCC
1 TTTTTTCTTTCC
9078323 TTTTTTCTTTCC
1 TTTTTTCTTTCC
9078335 TT
1 TT
9078337 GTTGCCCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTCTTTCC
Found at i:9082646 original size:6 final size:6
Alignment explanation
Indices: 9082635--9082659 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9082625 AGTTAATGTA
9082635 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
9082660 CACCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9085137 original size:29 final size:29
Alignment explanation
Indices: 9085099--9085176 Score: 129
Period size: 29 Copynumber: 2.6 Consensus size: 29
9085089 ATGATTTATG
9085099 TATGTAAATTATTTTTTCTTTGATATTCAT
1 TATG-AAATTATTTTTTCTTTGATATTCAT
*
9085129 TATGAAATTATTTCTTCTTTGATATTCAT
1 TATGAAATTATTTTTTCTTTGATATTCAT
9085158 TATGAAATTATTTCTTTCT
1 TATGAAATTATTT-TTTCT
9085177 ATAATTGAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 37 0.82
30 8 0.18
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (29 bp):
TATGAAATTATTTTTTCTTTGATATTCAT
Found at i:9086099 original size:17 final size:18
Alignment explanation
Indices: 9086077--9086111 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9086067 AATATGTTGA
*
9086077 TAATTAAT-TTAAATTTT
1 TAATTAATATAAAATTTT
9086094 TAATTAATATAAAATTTT
1 TAATTAATATAAAATTTT
9086112 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTAATATAAAATTTT
Found at i:9093259 original size:29 final size:30
Alignment explanation
Indices: 9093216--9093278 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
9093206 ATAGCCTATG
* *
9093216 TTTTTATAATTTTTTAAGGGCTAAATTAAA
1 TTTTTATAATTTTTTAAGGCCAAAATTAAA
*
9093246 TTTTTATAATTTTTT-AGGCCAAAATTTAA
1 TTTTTATAATTTTTTAAGGCCAAAATTAAA
9093275 TTTT
1 TTTT
9093279 ACTATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTTTATAATTTTTTAAGGCCAAAATTAAA
Found at i:9093287 original size:29 final size:29
Alignment explanation
Indices: 9093216--9093287 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
9093206 ATAGCCTATG
* *
9093216 TTTTTATAATTTTTTAAGGGCTAAATTAAA
1 TTTTTAT-ATTTTTTAAGGCCAAAATTAAA
*
9093246 TTTTTATAATTTTTT-AGGCCAAAATTTAA
1 TTTTTAT-ATTTTTTAAGGCCAAAATTAAA
9093275 -TTTTACTATTTTT
1 TTTTTA-TATTTTT
9093288 GAGTCTCTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 11 0.29
29 12 0.32
30 15 0.39
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.56
Consensus pattern (29 bp):
TTTTTATATTTTTTAAGGCCAAAATTAAA
Found at i:9098832 original size:21 final size:21
Alignment explanation
Indices: 9098799--9098851 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
9098789 TTCGAAGTTC
*
9098799 AAGGTTC-GAGTTTAGGGTTT
1 AAGGTTCGGAGTTTAGGATTT
*
9098819 AAGGTTTGGAGTTTAGGATTT
1 AAGGTTCGGAGTTTAGGATTT
*
9098840 TAGGTTCGGAGT
1 AAGGTTCGGAGT
9098852 AAAAAAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.40
Consensus pattern (21 bp):
AAGGTTCGGAGTTTAGGATTT
Found at i:9100379 original size:22 final size:24
Alignment explanation
Indices: 9100343--9100388 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
9100333 TTTTATGTGT
9100343 TTTTATAATTAATTTTAAATAATA
1 TTTTATAATTAATTTTAAATAATA
*
9100367 TTTTAT-ATT-ATTTTTAATAATA
1 TTTTATAATTAATTTTAAATAATA
9100389 AAACGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTATAATTAATTTTAAATAATA
Found at i:9109267 original size:21 final size:22
Alignment explanation
Indices: 9109229--9109272 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9109219 TTATTATGCC
*
9109229 ATTTTTAAAAAATACATA-AAA
1 ATTTTCAAAAAATACATACAAA
* *
9109250 ATTTTCAAAAAGTTCATACAAA
1 ATTTTCAAAAAATACATACAAA
9109272 A
1 A
9109273 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (22 bp):
ATTTTCAAAAAATACATACAAA
Found at i:9109705 original size:21 final size:21
Alignment explanation
Indices: 9109676--9109730 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9109666 ATAGCGGTGG
* *
9109676 CGGTGAGATTAGTTACTGTAA
1 CGGTAAGATTAGATACTGTAA
* *
9109697 TGGTAAGATTGGATACTGTAA
1 CGGTAAGATTAGATACTGTAA
*
9109718 CGGTGAGATTAGA
1 CGGTAAGATTAGA
9109731 AACAATGGTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (21 bp):
CGGTAAGATTAGATACTGTAA
Found at i:9111126 original size:22 final size:21
Alignment explanation
Indices: 9111078--9111129 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
9111068 CAAACAAAAT
9111078 TGTATATAAATACACCTTAAA
1 TGTATATAAATACACCTTAAA
** *
9111099 -AAATATAAATATACCTTCAAA
1 TGTATATAAATACACCTT-AAA
9111120 TGTATATAAA
1 TGTATATAAA
9111130 CTATTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 14 0.58
21 3 0.12
22 7 0.29
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (21 bp):
TGTATATAAATACACCTTAAA
Found at i:9121979 original size:3 final size:3
Alignment explanation
Indices: 9121966--9121996 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9121956 TCCTCCAAGG
*
9121966 TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
9121997 CACTTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:9130628 original size:15 final size:15
Alignment explanation
Indices: 9130610--9130642 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9130600 AAAAAAGCTG
9130610 AAAGCAAAATAAAAT
1 AAAGCAAAATAAAAT
*
9130625 AAAGTAAAATAAAAT
1 AAAGCAAAATAAAAT
9130640 AAA
1 AAA
9130643 AGCTAACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGCAAAATAAAAT
Found at i:9138709 original size:38 final size:39
Alignment explanation
Indices: 9138657--9138738 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
9138647 ATTAATATCA
* *
9138657 CATTTGATCATCAATAGATTTTGGATCACTTCGGTTTCC
1 CATTTGATCATCAATACATTTTGGATCACTTCGATTTCC
*
9138696 CATTT-ATCATCAATACATTTTGGATCACTTCGATTTCT
1 CATTTGATCATCAATACATTTTGGATCACTTCGATTTCC
9138734 CATTT
1 CATTT
9138739 CATATTATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 35 0.88
39 5 0.12
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (39 bp):
CATTTGATCATCAATACATTTTGGATCACTTCGATTTCC
Found at i:9139155 original size:128 final size:128
Alignment explanation
Indices: 9138964--9139202 Score: 370
Period size: 128 Copynumber: 1.9 Consensus size: 128
9138954 TGGCAAAATA
* *
9138964 TATCTGCCGAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTGTTTAAGAAAAGGATATG
1 TATCTGCCAAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTATTTAAGAAAAGGATATG
* * * *
9139029 ATAAGTAAAGAGTAAGCCTGGTGAGGTTAACCGCTAAAGGTATAGTGTGCCTCTGGCGAAAAG
66 ATAAGTAAAGAGTAAGCATGATGAGGCTAACCACTAAAGGTATAGTGTGCCTCTGGCGAAAAG
* * *
9139092 TATCTTCCAAAGAAATGATTAAAGATTCTATCTTAGGTTATTCTATTATTTAAGAAAAGGATATG
1 TATCTGCCAAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTATTTAAGAAAAGGATATG
* * *
9139157 ATAAGTAAATAGTAAGCATGATGAGGCTAACTATTAAAGGTATAGT
66 ATAAGTAAAGAGTAAGCATGATGAGGCTAACCACTAAAGGTATAGT
9139203 ACGCCCAGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 99 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (128 bp):
TATCTGCCAAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTATTTAAGAAAAGGATATG
ATAAGTAAAGAGTAAGCATGATGAGGCTAACCACTAAAGGTATAGTGTGCCTCTGGCGAAAAG
Found at i:9140504 original size:23 final size:23
Alignment explanation
Indices: 9140413--9140504 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 23
9140403 TGATCTGCTA
* ** *
9140413 AGCCTTTATGGCGTATTCTGTGT
1 AGCCTTTGTGGCAAATTCTGTAT
*
9140436 AGCCTTTGTGG-ATAATTCTATAT
1 AGCCTTTGTGGCA-AATTCTGTAT
**
9140459 AGAATTTGTGGCGAAA-TCTGTAT
1 AGCCTTTGTGGC-AAATTCTGTAT
*
9140482 AGCCTTTGTGGCAAATTCGGTAT
1 AGCCTTTGTGGCAAATTCTGTAT
9140505 TGTCTCATTG
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
22 3 0.06
23 48 0.89
24 2 0.04
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (23 bp):
AGCCTTTGTGGCAAATTCTGTAT
Found at i:9146255 original size:24 final size:25
Alignment explanation
Indices: 9146228--9146276 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
9146218 TTGTAAATCA
9146228 GAAAAATATCTCTAGA-AATTTTCT
1 GAAAAATATCTCTAGAGAATTTTCT
* * *
9146252 GAAATATCTCTTTAGAGAATTTTCT
1 GAAAAATATCTCTAGAGAATTTTCT
9146277 CTCTACAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (25 bp):
GAAAAATATCTCTAGAGAATTTTCT
Found at i:9146256 original size:22 final size:24
Alignment explanation
Indices: 9146231--9146276 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
9146221 TAAATCAGAA
9146231 AAATATCTC-TAGA-AATTTTCTG
1 AAATATCTCTTAGAGAATTTTCTG
9146253 AAATATCTCTTTAGAGAATTTTCT
1 AAATATCTC-TTAGAGAATTTTCT
9146277 CTCTACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATATCTCTTAGAGAATTTTCTG
Found at i:9146467 original size:20 final size:20
Alignment explanation
Indices: 9146442--9146490 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
9146432 TTAAATTAAA
*
9146442 TTTAATATTAATATAATCAC
1 TTTAATATTAAGATAATCAC
9146462 TTTAATATTAAGATAATCAC
1 TTTAATATTAAGATAATCAC
*
9146482 TTTAGTATT
1 TTTAATATT
9146491 TTATTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTAATATTAAGATAATCAC
Found at i:9154837 original size:6 final size:6
Alignment explanation
Indices: 9154826--9154865 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
9154816 TAACCGAAAT
9154826 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
9154866 CTTTCTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:9156979 original size:55 final size:55
Alignment explanation
Indices: 9156913--9157038 Score: 153
Period size: 55 Copynumber: 2.3 Consensus size: 55
9156903 TAGACATTTG
** *
9156913 ACAAGTTCGACCACGGGTGTTCGACACGGGCGTGTCGCACGCCCGTGCTGTTTTA
1 ACAAGTTCGACCACGGGTCCTCCACACGGGCGTGTCGCACGCCCGTGCTGTTTTA
* * * * * * *
9156968 ACAGGTTCGACCATGGTTCCTCCACACGGGCGTGTTGCACGCTCGTGTTGTTTTT
1 ACAAGTTCGACCACGGGTCCTCCACACGGGCGTGTCGCACGCCCGTGCTGTTTTA
*
9157023 ACAAGCTCGACCACGG
1 ACAAGTTCGACCACGG
9157039 CCATGTCGCA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (55 bp):
ACAAGTTCGACCACGGGTCCTCCACACGGGCGTGTCGCACGCCCGTGCTGTTTTA
Found at i:9162054 original size:122 final size:127
Alignment explanation
Indices: 9161887--9162386 Score: 393
Period size: 127 Copynumber: 4.0 Consensus size: 127
9161877 GTCAAATGCT
* * * *
9161887 AAATCGAAACCCAGCAC-GTAGGGCACAATTTCTCGAAATTTCCAAACA-CGAAATATTACCTTT
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATC-AAACATCACCTTT
* * * *
9161950 -TTTT-GAG-GA-AAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTAGATAAACAAA
65 GTTTTAGAGCGAGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAAA
* * *
9162009 AAATCGAAACCCAGCACATTAGGGCACAATTTC-CTG-AATTCCCAAACATCAACCATCGCTTTT
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTC-GAAATTCCCAAACATCAAACATCACCTTT
* * * *
9162072 GTTTTAGAGCTTAGAAAACGCGGACGAAATTTAAAAGGGAAATCTGATTATTTGGACAAATAAA
65 GTTTTAGAGC-GAGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAAA
* * ** ** * * *
9162136 AGATCGAAACCCAACACATTAGGGCATGATCCCTCG-AATTTCTAAACATCAAACATC-GCTTTC
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATCAAACATCACCTTT-
* * * * * *
9162199 GTTTTA-AG-GTTTAGAAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACGA
65 GTTTTAGAGCG---AGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAA
9162262 A
127 A
* * * * * * * * *
9162263 AGA-CTGAAACCCAACACATTAGGGTACAATCTATCG-AATTTCTAAACATCAAACATCGCCTTC
1 AAATC-GAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATCAAACATCACCTTT
* * * * *
9162326 GTTTTA-AG-GTTTAGAAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAAC
65 GTTTTAGAGCG---AGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAAC
9162387 GAAAGACCGA
Statistics
Matches: 320, Mismatches: 43, Indels: 25
0.82 0.11 0.06
Matches are distributed among these distances:
122 37 0.12
123 20 0.06
124 3 0.01
126 7 0.02
127 249 0.78
128 4 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (127 bp):
AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATCAAACATCACCTTTG
TTTTAGAGCGAGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAAA
Found at i:9162111 original size:127 final size:127
Alignment explanation
Indices: 9161959--9162398 Score: 548
Period size: 127 Copynumber: 3.5 Consensus size: 127
9161949 TTTTTGAGGA
* * * * * * *
9161959 AAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTAGATAAACAAAAAATCGAAACCCAGC
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
* * * * *
9162024 ACATTAGGGCACAATTTCCTGAATTCCCAAACATCAACCATCGCTTTTGTTTT-AGAGCTTAG
66 ACATTAGGGCACAATTTCCTGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAG-GTTTAG
* ** * * * * *
9162086 AAAACGCGGACGAAATTTAAAAGGGAAATCTGATTATTTGGACAAATAAAAGATCGAAACCCAAC
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
** *
9162151 ACATTAGGGCATGA-TCCCTCGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
66 ACATTAGGGCACAATTTCCT-GAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
*
9162213 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACGAAAGA-CTGAAACCCAA
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATC-GAAACCCAA
* *
9162277 CACATTAGGGTACAATCTAT-C-GAATTTCTAAACATCAAACATCGCCTTCGTTTTAAGGTTTAG
65 CACATTAGGGCACAAT-T-TCCTGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
* *
9162340 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACGAAAGACCGAAA
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAA
9162399 TAAGTCGACT
Statistics
Matches: 275, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
126 5 0.02
127 265 0.96
128 3 0.01
129 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (127 bp):
AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
ACATTAGGGCACAATTTCCTGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
Found at i:9174491 original size:39 final size:39
Alignment explanation
Indices: 9173681--9174494 Score: 1592
Period size: 39 Copynumber: 20.9 Consensus size: 39
9173671 ACATATTTCT
* * * *
9173681 AGCACGTAGCCTGTGGACCTTAAGCCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173720 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173759 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173798 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173837 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173876 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173915 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173954 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9173993 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174032 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174071 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174110 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174149 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174188 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174227 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174266 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174305 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174344 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174383 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174422 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
9174461 AGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATA
9174495 CATCACTGAA
Statistics
Matches: 771, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 771 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
Found at i:9181458 original size:38 final size:39
Alignment explanation
Indices: 9181415--9181550 Score: 100
Period size: 39 Copynumber: 3.5 Consensus size: 39
9181405 TGAAACCAAT
9181415 TACCAGCAC-AAGCCTGCGGGAATTTAAACCTGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCTGGTATAA
* * * * * *
9181453 TACCAGCTCGAAGCCTACGGGACTTT-AGCCTGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCTGG-TATAA
* * * * * *
9181492 TTCCAGCACGTAGCCTGC-GGAACTTAAGTCCAGATATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAA-ACCTGGTATAA
*
9181531 TTCCAGCAC-ATAGCCTGCGG
1 TACCAGCACGA-AGCCTGCGG
9181551 ACCCTAAGTC
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
38 19 0.26
39 51 0.69
40 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCTGGTATAA
Found at i:9181535 original size:39 final size:39
Alignment explanation
Indices: 9181492--9181568 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
9181482 CTGGACATAT
* *
9181492 TTCCAGCACGTAGCCTGCGGAACTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGAACCTAAGTCCAGATATAA
* *
9181531 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGAACCTAAGTCCAGATATA
9181569 CATCACTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGAACCTAAGTCCAGATATAA
Found at i:9182192 original size:5 final size:5
Alignment explanation
Indices: 9182182--9182218 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
9182172 TTGTGTGTTC
9182182 TTTAT TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9182219 TCACAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:9182206 original size:14 final size:14
Alignment explanation
Indices: 9182182--9182217 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
9182172 TTGTGTGTTC
9182182 TTTATTTTATTTTAT
1 TTTA-TTTATTTTAT
9182197 TTTATTTATTTTAT
1 TTTATTTATTTTAT
9182211 TTTATTT
1 TTTATTT
9182218 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:9182206 original size:19 final size:19
Alignment explanation
Indices: 9182182--9182218 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9182172 TTGTGTGTTC
9182182 TTTATTTTATTTTATTTTA
1 TTTATTTTATTTTATTTTA
9182201 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
9182219 TCACAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTATTTTATTTTATTTTA
Found at i:9189818 original size:22 final size:23
Alignment explanation
Indices: 9189791--9189834 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
9189781 ATTGTATTAT
9189791 ATTATTATAATATTCTT-TAATC
1 ATTATTATAATATTCTTATAATC
* *
9189813 ATTATTATTATTTTCTTATAAT
1 ATTATTATAATATTCTTATAAT
9189835 ATAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATTATAATATTCTTATAATC
Found at i:9192631 original size:44 final size:45
Alignment explanation
Indices: 9192556--9192662 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 45
9192546 CTTTAAGAAC
* * *
9192556 TCGCACACTTAGTG-CATAATTGTTTAGCTGAAGCTATAACGATA
1 TCGCACACTTAGTGCCATAATTATTAAACTGAAGCTATAACGATA
* *** *
9192600 TCGCACACTTAGTGCCATCA-TATTAAACTGAAGCTATCTTGGTA
1 TCGCACACTTAGTGCCATAATTATTAAACTGAAGCTATAACGATA
*
9192644 TCGTACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
9192663 CAAAACCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 48 0.92
45 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
TCGCACACTTAGTGCCATAATTATTAAACTGAAGCTATAACGATA
Found at i:9211993 original size:19 final size:20
Alignment explanation
Indices: 9211969--9212017 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
9211959 TATAAAAGTT
* *
9211969 TATAATTTTTTTA-TATTTC
1 TATAATTTTTCTAGGATTTC
*
9211988 TATAATTTTTCTAGGATTTT
1 TATAATTTTTCTAGGATTTC
9212008 TATAATTTTT
1 TATAATTTTT
9212018 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TATAATTTTTCTAGGATTTC
Found at i:9212031 original size:10 final size:9
Alignment explanation
Indices: 9211967--9212053 Score: 77
Period size: 9 Copynumber: 9.1 Consensus size: 9
9211957 TTTATAAAAG
9211967 TTTATAATT
1 TTTATAATT
*
9211976 TTTTTATATT
1 TTTATA-ATT
*
9211986 TCTATAATT
1 TTTATAATT
*
9211995 TTTCTAGGATT
1 TTTATA--ATT
9212006 TTTATAATT
1 TTTATAATT
9212015 TTTATAATT
1 TTTATAATT
*
9212024 TTTAATAAAT
1 TTT-ATAATT
9212034 TTTA-AATAT
1 TTTATAAT-T
9212043 TTTATTAATT
1 TTTA-TAATT
9212053 T
1 T
9212054 AATCATTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
8 2 0.03
9 33 0.52
10 17 0.27
11 11 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:9212035 original size:29 final size:29
Alignment explanation
Indices: 9211976--9212053 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
9211966 GTTTATAATT
* * *
9211976 TTTTTAT-ATTTCTATAATTTTTCTAGGA
1 TTTTTATAATTTTTATAATTTTTATAGAA
9212004 TTTTTATAATTTTTATAATTTTTAATA-AA
1 TTTTTATAATTTTTATAATTTTT-ATAGAA
9212033 -TTTTA-AATATTTTATTAATTT
1 TTTTTATAAT-TTTTA-TAATTT
9212054 AATCATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 3 0.07
28 17 0.40
29 21 0.49
30 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTTTATAATTTTTATAATTTTTATAGAA
Found at i:9214319 original size:17 final size:17
Alignment explanation
Indices: 9214297--9214330 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9214287 AGAGTGTTTT
9214297 GTAGTCAGTGTATGATC
1 GTAGTCAGTGTATGATC
9214314 GTAGTCAGTGTATGATC
1 GTAGTCAGTGTATGATC
9214331 AAAAATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (17 bp):
GTAGTCAGTGTATGATC
Found at i:9214459 original size:21 final size:22
Alignment explanation
Indices: 9214419--9214460 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9214409 TGTCAATGTG
9214419 GGATAAAAATTAACTTTTTAAA
1 GGATAAAAATTAACTTTTTAAA
*
9214441 GGATTAAAATTAA-TTTTTAA
1 GGATAAAAATTAACTTTTTAA
9214461 TGCAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
GGATAAAAATTAACTTTTTAAA
Found at i:9214759 original size:20 final size:21
Alignment explanation
Indices: 9214734--9214774 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
9214724 TAATGAATGT
9214734 GGGATTAAAATTAA-TTTTAA
1 GGGATTAAAATTAACTTTTAA
9214754 GGGATTAAAATTAACTTTTAA
1 GGGATTAAAATTAACTTTTAA
9214775 TGAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (21 bp):
GGGATTAAAATTAACTTTTAA
Done.