Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 742 of 770
Found at i:235118458 original size:25 final size:25
Alignment explanation
Indices: 235118430--235118477 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235118420 TTATACCATG
* * *
235118430 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
235118455 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
235118478 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:235118580 original size:20 final size:20
Alignment explanation
Indices: 235118520--235118580 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
235118510 ATAAATATGG
*
235118520 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
235118540 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235118560 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
235118580 T
1 T
235118581 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:235118705 original size:46 final size:48
Alignment explanation
Indices: 235118629--235118745 Score: 152
Period size: 46 Copynumber: 2.5 Consensus size: 48
235118619 GAGGAAGTGA
235118629 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
235118674 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
235118722 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235118746 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
45 13 0.21
46 20 0.32
47 8 0.13
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:235118741 original size:25 final size:24
Alignment explanation
Indices: 235118629--235118745 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
235118619 GAGGAAGTGA
*
235118629 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
235118652 AAAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
235118674 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
235118698 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
235118722 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
235118746 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
22 13 0.15
23 29 0.35
24 31 0.37
25 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:235118971 original size:31 final size:31
Alignment explanation
Indices: 235118936--235118999 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235118926 CGTTTACAGT
235118936 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
235118967 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
235118998 AA
1 AA
235119000 CATGAAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:235129018 original size:21 final size:23
Alignment explanation
Indices: 235128985--235129032 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
235128975 TTTTGAAAAC
*
235128985 TTTTAATTATTATTTTTAATT-T
1 TTTTAATTATTATCTTTAATTAT
* *
235129007 TTTTACTT-TTATCTTTATTTAT
1 TTTTAATTATTATCTTTAATTAT
235129029 TTTT
1 TTTT
235129033 TTAAATTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTAATTATTATCTTTAATTAT
Found at i:235135339 original size:37 final size:37
Alignment explanation
Indices: 235135286--235135388 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
235135276 CGAATAGTCC
*
235135286 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
235135323 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
235135360 CCACATGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
235135389 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:235135587 original size:48 final size:48
Alignment explanation
Indices: 235135529--235135722 Score: 316
Period size: 48 Copynumber: 4.0 Consensus size: 48
235135519 ATATACACAC
* *
235135529 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
* *
235135577 ATCTCATACATATTTCTCACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
* *
235135625 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
* *
235135673 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
235135721 AT
1 AT
235135723 ATTTATCTTG
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 136 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
Found at i:235138394 original size:40 final size:40
Alignment explanation
Indices: 235138349--235138516 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
235138339 CGGAATATAA
235138349 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
235138389 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235138429 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
235138469 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235138509 CCGGATAT
1 CCGGATAT
235138517 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235142078 original size:29 final size:28
Alignment explanation
Indices: 235142008--235142080 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
235141998 CCCTCGAGCT
** * *
235142008 CGCACACCCAGTGCCGTATTTTTCCAGC
1 CGCACACTTAGTGCCATATATTTCCAGC
*
235142036 TGCACACTTAGTGCCATATATTTCCAGC
1 CGCACACTTAGTGCCATATATTTCCAGC
235142064 ACGCACACTTAGTGCCA
1 -CGCACACTTAGTGCCA
235142081 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTCCAGC
Found at i:235149831 original size:29 final size:29
Alignment explanation
Indices: 235149799--235149877 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
235149789 ATACCCTCCG
* *
235149799 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
235149828 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
235149857 AGCACGCACACTTAGTGCCAT
1 AGCTCGCACACCCAGTGCCAT
235149878 CTCGTCACCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:235157679 original size:29 final size:29
Alignment explanation
Indices: 235157641--235157719 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
235157631 CATACCCTCG
* *
235157641 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
235157670 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
235157699 AGCACGCACACTTAGTGCCAT
1 AGCTCGCACACCCAGTGCCAT
235157720 CTCGTCACCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:235161514 original size:40 final size:40
Alignment explanation
Indices: 235161454--235161657 Score: 243
Period size: 40 Copynumber: 5.1 Consensus size: 40
235161444 CGGGATTTAA
* ** *
235161454 CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
* *** *
235161494 CCGGATTTGGTAACTTGCAC-AATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
235161534 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
235161574 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** *
235161614 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
235161654 CCGG
1 CCGG
235161658 GTATCATTCA
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
40 142 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:235169480 original size:40 final size:39
Alignment explanation
Indices: 235169421--235169624 Score: 239
Period size: 40 Copynumber: 5.1 Consensus size: 39
235169411 CGGGATTTAA
* * *
235169421 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
* ***
235169461 CCGGATTTGGTAACTAGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
* *
235169501 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGT
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
*
235169541 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* *
235169581 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTCTTAGC
235169621 CCGG
1 CCGG
235169625 GTATCATTCA
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 141 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:235177551 original size:39 final size:40
Alignment explanation
Indices: 235177497--235177660 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
235177487 GAATCACGTA
* *
235177497 CCTTCGGGAT-TTA-ACCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAGACCGGATATAACAACTAGCACAATTG
* *** *
235177536 CCTTCGGGTCTTA-ACCCGGATTTGGTAACTTGCACAATTG
1 CCTTCGGGTCTTAGA-CCGGATATAACAACTAGCACAATTG
* *
235177576 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAGACCGGATATAACAACTAGCAC-AATTG
* * *
235177616 CCTTC-GGTCTTAGCCCGGATATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAGACCGGATATAA-CAACTAGCACAATTG
235177655 CCTTCG
1 CCTTCG
235177661 AACTTAGCCC
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 44 0.43
40 54 0.52
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CCTTCGGGTCTTAGACCGGATATAACAACTAGCACAATTG
Found at i:235177571 original size:40 final size:40
Alignment explanation
Indices: 235177511--235177639 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
235177501 CGGGATTTAA
* ** *
235177511 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
235177551 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
235177591 CCGGATATAACAACTCGCACGAA-TGCCTTC-GGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
235177630 CCGGATATAA
1 CCGGATATAA
235177640 TCACTAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
39 19 0.25
40 54 0.72
41 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:235177657 original size:79 final size:80
Alignment explanation
Indices: 235177511--235177660 Score: 178
Period size: 79 Copynumber: 1.9 Consensus size: 80
235177501 CGGGATTTAA
* * ** * *
235177511 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
235177576 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
** * * *
235177591 CCGGATATAACAACTCGCACGAA-TGCCTTC-GGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
235177654 GCCTTCG
65 GCCTTCG
235177661 AACTTAGCCC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 32 0.55
80 24 0.41
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGTCTTAGC
Found at i:235182415 original size:40 final size:40
Alignment explanation
Indices: 235182370--235182536 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
235182360 CGGAATATAA
235182370 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
235182410 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
235182450 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
235182490 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235182529 CCGGATAT
1 CCGGATAT
235182537 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235182520 original size:80 final size:79
Alignment explanation
Indices: 235182370--235182536 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
235182360 CGGAATATAA
* *
235182370 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
235182435 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
235182450 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
235182512 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
235182529 CCGGATAT
1 CCGGATAT
235182537 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:235183384 original size:17 final size:19
Alignment explanation
Indices: 235183361--235183406 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
235183351 AAGAAGCATG
235183361 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
235183379 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
235183397 AATCATGCTC
1 AATCATGCTC
235183407 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:235190406 original size:40 final size:40
Alignment explanation
Indices: 235190361--235190527 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
235190351 CGGAATATAA
235190361 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
235190401 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235190441 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
235190481 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235190520 CCGGATAT
1 CCGGATAT
235190528 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235190511 original size:80 final size:79
Alignment explanation
Indices: 235190377--235190527 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
235190367 ATAATCACGT
*
235190377 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
235190442 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
235190457 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
235190520 CCGGATAT
64 CCGGATAT
235190528 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:235191375 original size:17 final size:19
Alignment explanation
Indices: 235191352--235191397 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
235191342 AAGAAGCATG
235191352 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
235191370 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
235191388 AATCATGCTC
1 AATCATGCTC
235191398 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:235196898 original size:29 final size:29
Alignment explanation
Indices: 235196865--235196996 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
235196855 GTGACGAGAT
235196865 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
235196894 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
235196923 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
235196952 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
235196981 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
235196997 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:235199854 original size:26 final size:25
Alignment explanation
Indices: 235199799--235199874 Score: 125
Period size: 26 Copynumber: 3.0 Consensus size: 25
235199789 CAAATTGATA
235199799 AGGTTAGGTAAATGTTCATGATAAT
1 AGGTTAGGTAAATGTTCATGATAAT
235199824 AGGTTAGGTAAATGTTCCATGATAAT
1 AGGTTAGGTAAATGTT-CATGATAAT
*
235199850 GGGTTAGGTAAATGTTTCATGATAA
1 AGGTTAGGTAAATG-TTCATGATAA
235199875 GAATTTCATG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
25 16 0.33
26 30 0.62
27 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
AGGTTAGGTAAATGTTCATGATAAT
Found at i:235201110 original size:34 final size:35
Alignment explanation
Indices: 235201072--235201144 Score: 139
Period size: 34 Copynumber: 2.1 Consensus size: 35
235201062 ATTTTGGGAA
235201072 TTTGCGAGTGTGCGAATGCTCGTAAGATAGTT-GG
1 TTTGCGAGTGTGCGAATGCTCGTAAGATAGTTGGG
235201106 TTTGCGAGTGTGCGAATGCTCGTAAGATAGTTGGG
1 TTTGCGAGTGTGCGAATGCTCGTAAGATAGTTGGG
235201141 TTTG
1 TTTG
235201145 TATATTTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 32 0.84
35 6 0.16
ACGTcount: A:0.19, C:0.11, G:0.36, T:0.34
Consensus pattern (35 bp):
TTTGCGAGTGTGCGAATGCTCGTAAGATAGTTGGG
Found at i:235201558 original size:26 final size:26
Alignment explanation
Indices: 235201504--235201642 Score: 179
Period size: 27 Copynumber: 5.2 Consensus size: 26
235201494 GGAGGAAGCG
*
235201504 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
235201531 TCTGGTGGCTCTGCCACAATATCTGA
1 TCTGGTGGCTCTGCCACAATATCTGA
*
235201557 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACA-ATATCTGA
*
235201584 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-AATATCTG-A
* * * *
235201612 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
235201638 TCTGG
1 TCTGG
235201643 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 32 0.31
27 54 0.53
28 16 0.16
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:235201588 original size:53 final size:55
Alignment explanation
Indices: 235201504--235201642 Score: 203
Period size: 53 Copynumber: 2.6 Consensus size: 55
235201494 GGAGGAAGCG
* * *
235201504 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-AATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGTA
*
235201557 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGTA
* *
235201612 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
235201643 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 41 0.53
54 19 0.24
55 18 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGTA
Found at i:235205604 original size:26 final size:26
Alignment explanation
Indices: 235205567--235205650 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
235205557 TGATACAAAT
* *
235205567 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
235205593 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
235205619 TGATAATGGGATAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
235205645 TGATAA
1 TGATAA
235205651 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:235207305 original size:27 final size:27
Alignment explanation
Indices: 235207264--235207343 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 27
235207254 GAGGAAGCGT
*
235207264 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
235207291 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
235207318 TCTGGTGGCTCTGCCACATATATCTG
1 TCTGGTGGCTCTGCCACAAATATCTG
235207344 TTCTTGTAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:235208782 original size:40 final size:39
Alignment explanation
Indices: 235208738--235208919 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
235208728 GTTCAAAACA
* * ** * *
235208738 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
235208778 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
235208818 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
235208857 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
235208896 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
235208920 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:235208849 original size:39 final size:39
Alignment explanation
Indices: 235208768--235208920 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
235208758 TATGGTAACC
* *
235208768 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
235208808 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
235208847 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
235208886 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
235208921 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:235212375 original size:29 final size:27
Alignment explanation
Indices: 235212341--235212443 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
235212331 TACTCGATCA
*
235212341 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
235212370 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
235212399 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
235212428 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
235212444 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:235213993 original size:11 final size:11
Alignment explanation
Indices: 235213977--235214003 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
235213967 GCTTTCTGAC
235213977 TAGGGTCACTT
1 TAGGGTCACTT
235213988 TAGGGTCACTT
1 TAGGGTCACTT
235213999 TAGGG
1 TAGGG
235214004 CTGTCACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (11 bp):
TAGGGTCACTT
Found at i:235219732 original size:30 final size:31
Alignment explanation
Indices: 235219680--235219742 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
235219670 GCCCTTTTCA
235219680 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* *
235219711 TTTCATATTTCAT-ATACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
235219741 TT
1 TT
235219743 ACTGTAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:235220011 original size:23 final size:23
Alignment explanation
Indices: 235219954--235220096 Score: 241
Period size: 23 Copynumber: 6.1 Consensus size: 23
235219944 CCTAGCCTCT
*
235219954 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235219977 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
235220001 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
235220024 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
235220047 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
235220071 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235220094 TTT
1 TTT
235220097 TGCACTTCCT
Statistics
Matches: 115, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
23 70 0.61
24 45 0.39
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:235220037 original size:70 final size:70
Alignment explanation
Indices: 235219958--235220096 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
235219948 GCCTCTTTTA
235219958 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
235220023 CTTTG
66 CTTTG
* **
235220028 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
235220093 CTTT
66 CTTT
235220097 TGCACTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (70 bp):
ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
CTTTG
Found at i:235220098 original size:47 final size:47
Alignment explanation
Indices: 235219933--235220097 Score: 253
Period size: 47 Copynumber: 3.5 Consensus size: 47
235219923 GCTTTATCAT
* *
235219933 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
*
235219982 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
235220028 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
235220075 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
235220098 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
46 19 0.17
47 73 0.67
48 5 0.05
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:235220173 original size:20 final size:20
Alignment explanation
Indices: 235220148--235220207 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
235220138 TATGATTACC
235220148 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
235220168 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
235220188 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
235220208 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:235220291 original size:24 final size:24
Alignment explanation
Indices: 235220250--235220296 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
235220240 ATACATAAAC
* * *
235220250 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
235220274 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
235220297 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:235224681 original size:31 final size:31
Alignment explanation
Indices: 235224646--235224709 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235224636 CCTTTTCATG
235224646 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
235224677 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
235224708 TT
1 TT
235224710 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:235224979 original size:23 final size:23
Alignment explanation
Indices: 235224922--235225105 Score: 297
Period size: 23 Copynumber: 8.1 Consensus size: 23
235224912 CCTAGCCTCT
*
235224922 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235224945 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
235224969 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235224992 TTT-ATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
235225013 TTTTGATAACTGGGGCATAAG-CC
1 -TTTAATAACTGGGGCATAAGCCC
235225036 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235225058 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235225080 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235225103 TTT
1 TTT
235225106 TGCACTTCCT
Statistics
Matches: 154, Mismatches: 1, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
21 28 0.18
22 39 0.25
23 56 0.36
24 31 0.20
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:235225022 original size:45 final size:47
Alignment explanation
Indices: 235224901--235225106 Score: 302
Period size: 45 Copynumber: 4.5 Consensus size: 47
235224891 GCTTTATCAT
* *
235224901 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
235224950 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT-
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
235224995 ATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CCTTT-
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
235225039 ATAACTGGGGCATAAGCCC-TTT-ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
235225084 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
235225107 GCACTTCCTC
Statistics
Matches: 148, Mismatches: 3, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
43 16 0.11
44 31 0.21
45 56 0.38
46 3 0.02
47 25 0.17
48 5 0.03
49 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:235225088 original size:66 final size:66
Alignment explanation
Indices: 235224900--235225101 Score: 291
Period size: 66 Copynumber: 3.0 Consensus size: 66
235224890 TGCTTTATCA
* *
235224900 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-C-TTT-ATAACTGGGGCATAAGCCCTTT-AATAACTGGGGCATA
235224964 AGCCCTT
61 AG-CCTT
*
235224971 TAATAACTGGGGCATAAGCCCTTTATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 T-ATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGC
235225035 CTT
64 CTT
235225038 TATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 TATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
235225102 CTTTTGCACT
Statistics
Matches: 123, Mismatches: 4, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
66 49 0.40
67 17 0.14
68 27 0.22
69 9 0.07
70 3 0.02
71 6 0.05
72 12 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (66 bp):
TATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCT
T
Found at i:235225179 original size:20 final size:20
Alignment explanation
Indices: 235225156--235225215 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
235225146 TATGATTACC
235225156 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
235225176 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
235225196 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
235225216 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:235225290 original size:25 final size:25
Alignment explanation
Indices: 235225258--235225305 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235225248 ATACATAAAC
* * *
235225258 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
235225283 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
235225306 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:235229691 original size:31 final size:31
Alignment explanation
Indices: 235229656--235229719 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235229646 CCTTTTCATG
235229656 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
235229687 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
235229718 TT
1 TT
235229720 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:235229988 original size:23 final size:23
Alignment explanation
Indices: 235229931--235230095 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
235229921 CCTAGCCTCT
*
235229931 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235229954 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
235229978 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
235230000 TTTTGATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
235230023 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
235230047 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235230070 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
235230093 TTT
1 TTT
235230096 TGCACTTCCT
Statistics
Matches: 136, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
22 12 0.09
23 90 0.66
24 34 0.25
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:235230025 original size:69 final size:71
Alignment explanation
Indices: 235229910--235230095 Score: 281
Period size: 69 Copynumber: 2.6 Consensus size: 71
235229900 GCTTTATCAT
* *
235229910 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
235229974 GCCCTTTA
64 GCCCTTTA
* **
235229982 ATAACT-GGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGC
235230045 CCTTTA
66 CCTTTA
235230051 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
235230096 TGCACTTCCT
Statistics
Matches: 105, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
69 52 0.50
70 42 0.40
71 5 0.05
72 6 0.06
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGC
CCTTTA
Found at i:235230172 original size:20 final size:20
Alignment explanation
Indices: 235230147--235230206 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
235230137 TATGATTACC
235230147 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
235230167 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
235230187 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
235230207 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:235230281 original size:25 final size:25
Alignment explanation
Indices: 235230249--235230296 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235230239 ATACATAAAC
* * *
235230249 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
235230274 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
235230297 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:235234672 original size:30 final size:31
Alignment explanation
Indices: 235234638--235234700 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
235234628 CCTTTTCATG
235234638 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
235234668 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
235234699 TT
1 TT
235234701 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:235234943 original size:24 final size:24
Alignment explanation
Indices: 235234892--235235087 Score: 229
Period size: 24 Copynumber: 8.0 Consensus size: 24
235234882 GCTTTATCAT
*
235234892 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
235234917 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
235234941 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
235234964 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
235234988 ATAACT-GGG-ATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
235235010 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
235235034 ATAACTGGGGCATAAGCCCTTTATA
1 ATAACTGGGGCATAAGCCCTTT-TA
235235059 AGCCCTTTAACTGGGGCATAAGCCCTTTT
1 A------TAACTGGGGCATAAGCCCTTTT
235235088 CACTTCCTCC
Statistics
Matches: 153, Mismatches: 7, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
22 19 0.12
23 28 0.18
24 70 0.46
25 14 0.09
30 1 0.01
31 21 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:235235027 original size:46 final size:48
Alignment explanation
Indices: 235234892--235235087 Score: 238
Period size: 46 Copynumber: 4.0 Consensus size: 48
235234882 GCTTTATCAT
* * **
235234892 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTG
235234941 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
*
235234988 ATAACT-GGG-ATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
235235034 ATAACTGGGGCATAAGCCCTTTATAAGCCCTTTAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTT-TAA------TAACTGGGGCATAAGCCCTTTT
235235088 CACTTCCTCC
Statistics
Matches: 130, Mismatches: 6, Indels: 16
0.86 0.04 0.11
Matches are distributed among these distances:
45 8 0.06
46 36 0.28
47 34 0.26
48 16 0.12
49 14 0.11
55 22 0.17
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
Found at i:235235162 original size:20 final size:20
Alignment explanation
Indices: 235235137--235235196 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
235235127 TATGATTACC
235235137 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
235235157 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
235235177 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
235235197 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:235235271 original size:25 final size:25
Alignment explanation
Indices: 235235239--235235286 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
235235229 ATACATAAAC
* * *
235235239 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
235235264 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
235235287 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:235240230 original size:20 final size:20
Alignment explanation
Indices: 235240205--235240242 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235240195 GTTTATTCGC
*
235240205 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
235240225 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
235240243 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:235241895 original size:28 final size:28
Alignment explanation
Indices: 235241863--235241931 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
235241853 GCGTAGATCA
235241863 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
235241891 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
235241919 CGATA-TACCCCTA
1 CGAAATTACCCCTA
235241932 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:235243174 original size:17 final size:18
Alignment explanation
Indices: 235243145--235243185 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
235243135 AAGAAGGGTA
*
235243145 TTTTTGGAAATG-T-AAG
1 TTTTTCGAAATGTTCAAG
235243161 TTTTTCGAAGATGTTCAAG
1 TTTTTCGAA-ATGTTCAAG
235243180 TTTTTC
1 TTTTTC
235243186 TATTTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 3 0.14
18 1 0.05
19 9 0.43
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTTTCGAAATGTTCAAG
Found at i:235248213 original size:20 final size:20
Alignment explanation
Indices: 235248188--235248225 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235248178 GTTTATTCGC
*
235248188 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
235248208 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
235248226 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:235249868 original size:28 final size:28
Alignment explanation
Indices: 235249836--235249904 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
235249826 GCGTAGATCA
235249836 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
235249864 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
235249892 CGATA-TACCCCTA
1 CGAAATTACCCCTA
235249905 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:235258636 original size:50 final size:52
Alignment explanation
Indices: 235258582--235258689 Score: 184
Period size: 50 Copynumber: 2.1 Consensus size: 52
235258572 TGATACAAAT
235258582 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
235258632 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
235258684 TGATAA
1 TGATAA
235258690 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 31 0.57
51 13 0.24
52 10 0.19
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:235258664 original size:26 final size:26
Alignment explanation
Indices: 235258582--235258689 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
235258572 TGATACAAAT
* *
235258582 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
235258608 TGATAAT-GGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
235258632 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
235258658 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
235258684 TGATAA
1 TGATAA
235258690 GAATTTCATG
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 10 0.13
25 26 0.33
26 43 0.54
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:235260204 original size:25 final size:25
Alignment explanation
Indices: 235260156--235260204 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
235260146 ACAGTTTTAC
235260156 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
235260181 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
235260205 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:235264422 original size:26 final size:26
Alignment explanation
Indices: 235264360--235264468 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
235264350 TGATACAAAT
235264360 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
235264385 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
235264411 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
235264437 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
235264463 TGATAA
1 TGATAA
235264469 GAATTCATGT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:235265971 original size:26 final size:26
Alignment explanation
Indices: 235265942--235265994 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
235265932 TTTACAGTTT
235265942 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
235265968 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
235265994 T
1 T
235265995 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:235267354 original size:3 final size:3
Alignment explanation
Indices: 235267346--235267413 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
235267336 TTTGAATAAG
235267346 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
235267394 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
235267414 GATGAGATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:235278454 original size:47 final size:47
Alignment explanation
Indices: 235278337--235278561 Score: 228
Period size: 47 Copynumber: 4.7 Consensus size: 47
235278327 GGATAAGTTA
* * * *
235278337 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTAT-ATACG-TG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC-T-CATCAT-CGAGG
*
235278387 CTGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGAGG
* * * *
235278434 CCGATGCATGTCCCAAACATGTCTTACACT-ACACTCATC-TCTACG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGG
* *
235278479 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGAGG
*
235278527 CCGATACATGTCCCAGACATGTCTTACACTGGCAC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCAC
235278562 ACTAGTAATC
Statistics
Matches: 150, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
45 11 0.07
46 38 0.25
47 56 0.37
48 25 0.17
49 15 0.10
50 5 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGG
Found at i:235278499 original size:93 final size:92
Alignment explanation
Indices: 235278389--235278556 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 92
235278379 TATACGTGCT
* *
235278389 GATGCATGTCCCAGACAT-GTCTTACACTGGCTA-TCATCATCGAGGCCGATGCATGTCCCAAAC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC-ACTCATAAT-GAGGCCGATACATGTCCCAAAC
235278452 ATGTCTTACACTACACTCATCTCTACGCC
64 ATGTCTTACACTACACTCATCTCTACGCC
* *
235278481 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGATACATGTCCCAGACA
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACTCATAATGAGGCCGATACATGTCCCAAACA
235278546 TGTCTTACACT
65 TGTCTTACACT
235278557 GGCACACTAG
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
92 4 0.06
93 46 0.67
94 19 0.28
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGAGGCCGATACATGTCCCAAACAT
GTCTTACACTACACTCATCTCTACGCC
Found at i:235293281 original size:66 final size:68
Alignment explanation
Indices: 235293205--235293391 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
235293195 TAGTACCACT
*
235293205 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
235293267 CACG
65 CACG
235293271 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
235293336 ATCACG
63 ATCACG
235293342 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
235293392 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:235293316 original size:71 final size:71
Alignment explanation
Indices: 235293228--235293391 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235293218 CGATTTGTCT
235293228 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
235293293 CTTTCA
66 CTTTCA
235293299 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
235293364 CTTTCA
66 CTTTCA
235293370 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
235293392 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:235293429 original size:71 final size:70
Alignment explanation
Indices: 235293228--235293425 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
235293218 CGATTTGTCT
* * *
235293228 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
235293293 CTTTCA
65 CTTTCA
* * *
235293299 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
235293364 CTTTCA
65 CTTTCA
* *
235293370 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
235293426 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:235296026 original size:44 final size:44
Alignment explanation
Indices: 235295977--235296342 Score: 198
Period size: 44 Copynumber: 8.2 Consensus size: 44
235295967 GCGTTTACAA
* *
235295977 GGAGCAGATCGAAGATAGTAGATTTGACGTCTCTATATTGTCAG
1 GGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
*
235296021 GGAGCAGATCGAAGATAGCT-GTTTTGGCGTCTCTGTATTGTCAG
1 GGAGCAGATCGAAGATAG-TAGATTTGGCGTCTCTGTATTGTCAG
* * * * * ** *
235296065 AGAACAAATCGAAGA-A-TATATTTGGCATCTTCCATATTCGAC-G
1 GGAGCAGATCGAAGATAGTAGATTTGGCGTC-TCTGTATT-GTCAG
* * ** * * *
235296108 GAGAGCAGATCGAAGACATAGCAGATCTAACCT-TCGGATGCT-TTTTGCAT
1 G-GAGCAGATCGAAG--ATAGTAGATTTGGCGTCTC---TG-TATTGT-CAG
* * * * ** * *
235296158 TGAACAGATCCAAG--A-T-GATTTGGCATC-CTTGCGTTTTACAA
1 GGAGCAGATCGAAGATAGTAGATTTGGCGTCTC-TGTATTGT-CAG
* * * *
235296199 GGAGGCAAATCAAAGATAGCAGATTTGGCGTCTCTGTATTGTCAA
1 GGA-GCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
* * *
235296244 GGAGCAGATTGAAGATAGCT-GATTTGGCAATCTCTGTATTGTTAG
1 GGAGCAGATCGAAGATAG-TAGATTTGGC-GTCTCTGTATTGTCAG
*
235296289 GGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAG
1 GGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
235296333 GGAGCAGATC
1 GGAGCAGATC
235296343 AGAGATAACT
Statistics
Matches: 238, Mismatches: 58, Indels: 52
0.68 0.17 0.15
Matches are distributed among these distances:
41 11 0.05
42 16 0.07
43 15 0.06
44 109 0.46
45 46 0.19
46 18 0.08
47 2 0.01
48 6 0.03
49 14 0.06
50 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
GGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG
Found at i:235296340 original size:224 final size:223
Alignment explanation
Indices: 235295820--235296316 Score: 694
Period size: 224 Copynumber: 2.2 Consensus size: 223
235295810 TCAAAGATGA
* *
235295820 TTGGCATCTCTATATTGTCAGAGAATAAATCGAAGAAACAGATTTGGCATC-TCCATATTCGACG
1 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG-AACAGATTTGGCATCTTCCATATTCGACG
* * **
235295884 GAGAGCAGATTGAAGGCATAACAGATCTAACCTTCAGATTTTTTTTTTGCATCGAAGCAGATCCA
65 GAGAGCAGATCGAAGACATAACAGATCTAACCTTCAGA-TTGCTTTTTGCATCGAAGCAGATCCA
* * *
235295949 AGATGATTTGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGATAGTAGATTTGACGTCTCTATA
129 AGATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCAAAGATAGCAGATTTGACGTCTCTATA
* *
235296014 TTGTCAGGGAGCAGATCGAAGATAGCTGTT
194 TTGTCAAGGAGCAGATCGAAGATAGCTGAT
* * *
235296044 TTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAATATATTTGGCATCTTCCATATTCGACGG
1 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAACAGATTTGGCATCTTCCATATTCGACGG
* * *
235296109 AGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGA-TGCTTTTTGCATTGAA-CAGATCCAAG
66 AGAGCAGATCGAAGACATAACAGATCTAACCTTCAGATTGCTTTTTGCATCGAAGCAGATCCAAG
* *
235296172 ATGATTTGGCATCCTTGCGTTTTACAAGGAGGCAAATCAAAGATAGCAGATTTGGCGTCTCTGTA
131 ATGATTTGGCATCCTTGCG-TTTACAAGGA-GCAAATCAAAGATAGCAGATTTGACGTCTCTATA
*
235296237 TTGTCAAGGAGCAGATTGAAGATAGCTGAT
194 TTGTCAAGGAGCAGATCGAAGATAGCTGAT
* * * *
235296267 TTGGCAATCTCTGTATTGTTAGGGAGCAGATCGAAGATAGCAGATTTGGC
1 TTGGC-ATCTCTGTATTGTCAGAGAACAAATCGAAGA-A-CAGATTTGGC
235296317 GTCTCTGTAT
Statistics
Matches: 240, Mismatches: 27, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
221 29 0.12
222 23 0.10
223 74 0.31
224 105 0.44
225 1 0.00
226 8 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (223 bp):
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAACAGATTTGGCATCTTCCATATTCGACGG
AGAGCAGATCGAAGACATAACAGATCTAACCTTCAGATTGCTTTTTGCATCGAAGCAGATCCAAG
ATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCAAAGATAGCAGATTTGACGTCTCTATATT
GTCAAGGAGCAGATCGAAGATAGCTGAT
Found at i:235296349 original size:44 final size:45
Alignment explanation
Indices: 235296207--235296362 Score: 212
Period size: 44 Copynumber: 3.5 Consensus size: 45
235296197 AAGGAGGCAA
*
235296207 ATCA-AAGATAGCAGATTTGGCGTCTCTGTATTGTCAAGGAGCAG
1 ATCAGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGCAG
* * * *
235296251 AT-TGAAGATAGCTGATTTGGCAATCTCTGTATTGTTAGGGAGCAG
1 ATCAGAAGATAGCAGATTTGGC-GTCTCTGTATTGTCAGGGAGCAG
235296296 ATC-GAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGCAG
1 ATCAGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGCAG
* *
235296340 ATCAG-AGATAACTGATTTGGCGT
1 ATCAGAAGATAGCAGATTTGGCGT
235296363 TCTTGAATTT
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
44 58 0.59
45 40 0.41
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (45 bp):
ATCAGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGCAG
Found at i:235298824 original size:40 final size:39
Alignment explanation
Indices: 235298779--235298944 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
235298769 CGGAATATAA
235298779 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
235298819 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
235298858 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
235298898 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
235298937 CCGGATAT
1 CCGGATAT
235298945 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:235298901 original size:79 final size:79
Alignment explanation
Indices: 235298795--235298944 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
235298785 ATAATCACGT
*
235298795 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
235298858 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
235298874 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
235298939 GGATAT
66 GGATAT
235298945 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:235306811 original size:40 final size:40
Alignment explanation
Indices: 235306766--235306932 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
235306756 CGGAATATAA
235306766 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
235306806 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
235306846 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
235306886 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235306925 CCGGATAT
1 CCGGATAT
235306933 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235306916 original size:80 final size:79
Alignment explanation
Indices: 235306782--235306932 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
235306772 ATAATCACGT
*
235306782 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
235306847 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
235306862 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
235306925 CCGGATAT
64 CCGGATAT
235306933 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:235313792 original size:26 final size:27
Alignment explanation
Indices: 235313731--235313800 Score: 99
Period size: 26 Copynumber: 2.6 Consensus size: 27
235313721 ATAGTGAATC
235313731 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA--TATTCAACT
235313760 CGCACACTTAGTGCTATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATTC-AACT
235313786 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235313801 GTACAATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
25 2 0.05
26 20 0.50
29 18 0.45
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATATTCAACT
Found at i:235324782 original size:80 final size:80
Alignment explanation
Indices: 235324698--235324846 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
235324688 TATGGTAACC
* * * *
235324698 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
235324762 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
235324778 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
235324843 CCGG
66 CCGG
235324847 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:235324788 original size:40 final size:38
Alignment explanation
Indices: 235324739--235324846 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
235324729 ATCACGATTT
*
235324739 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
235324779 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
235324819 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
235324847 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:235332899 original size:80 final size:80
Alignment explanation
Indices: 235332815--235332963 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
235332805 TATGGTAACC
* * * *
235332815 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
235332879 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
235332895 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
235332960 CCGG
66 CCGG
235332964 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:235332905 original size:40 final size:38
Alignment explanation
Indices: 235332856--235332963 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
235332846 ATCACGATTT
*
235332856 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
235332896 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
235332936 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
235332964 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:235338174 original size:27 final size:29
Alignment explanation
Indices: 235338144--235338259 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
235338134 AACGCAAGAG
*
235338144 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
235338171 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
235338200 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
235338230 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
235338259 T
1 T
235338260 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:235338212 original size:30 final size:29
Alignment explanation
Indices: 235338157--235338259 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
235338147 ATAGTGAATC
235338157 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
235338186 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
235338216 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
235338245 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235338260 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:235338233 original size:59 final size:60
Alignment explanation
Indices: 235338156--235338289 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
235338146 TATAGTGAAT
* * *
235338156 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
235338215 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
235338275 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
235338290 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:235345696 original size:27 final size:29
Alignment explanation
Indices: 235345666--235345781 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
235345656 AACGCAAGAG
*
235345666 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
235345693 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
235345722 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
235345752 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
235345781 T
1 T
235345782 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:235345734 original size:30 final size:29
Alignment explanation
Indices: 235345679--235345781 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
235345669 ATAGTGAATC
235345679 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
235345708 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
235345738 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
235345767 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235345782 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:235345755 original size:59 final size:60
Alignment explanation
Indices: 235345678--235345811 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
235345668 TATAGTGAAT
* * *
235345678 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
235345737 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
235345797 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
235345812 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:235353224 original size:27 final size:29
Alignment explanation
Indices: 235353194--235353309 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
235353184 AACGCAAGAG
*
235353194 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
235353221 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
235353250 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
235353280 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
235353309 T
1 T
235353310 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:235353262 original size:30 final size:29
Alignment explanation
Indices: 235353207--235353309 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
235353197 ATAGTGAATC
235353207 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
235353236 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
235353266 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
235353295 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
235353310 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:235353283 original size:59 final size:60
Alignment explanation
Indices: 235353206--235353339 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
235353196 TATAGTGAAT
* * *
235353206 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
235353265 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
235353325 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
235353340 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:235356435 original size:17 final size:19
Alignment explanation
Indices: 235356393--235356436 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
235356383 ATAAAATTTT
*
235356393 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
235356412 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
235356430 AA-TATTA
1 AATTATTA
235356437 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:235356620 original size:20 final size:20
Alignment explanation
Indices: 235356595--235356632 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235356585 GTTTATTCGC
*
235356595 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
235356615 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
235356633 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:235358291 original size:28 final size:28
Alignment explanation
Indices: 235358259--235358315 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
235358249 ACGTAGAACA
235358259 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
235358287 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
235358315 C
1 C
235358316 AATATGCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:235362214 original size:19 final size:19
Alignment explanation
Indices: 235362190--235362227 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
235362180 ACATTGACGC
235362190 AAATCCTATAAGAGGGAAA
1 AAATCCTATAAGAGGGAAA
235362209 AAATCCTATAAGAGGGAAA
1 AAATCCTATAAGAGGGAAA
235362228 GGAAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16
Consensus pattern (19 bp):
AAATCCTATAAGAGGGAAA
Found at i:235364345 original size:40 final size:40
Alignment explanation
Indices: 235364300--235364466 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
235364290 CGGAATATAA
235364300 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
235364340 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
235364380 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
235364420 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235364459 CCGGATAT
1 CCGGATAT
235364467 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235364450 original size:80 final size:79
Alignment explanation
Indices: 235364300--235364466 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
235364290 CGGAATATAA
* *
235364300 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
235364365 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
235364380 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
235364442 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
235364459 CCGGATAT
1 CCGGATAT
235364467 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:235365310 original size:17 final size:19
Alignment explanation
Indices: 235365287--235365332 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
235365277 AAGAAGCATG
235365287 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
235365305 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
235365323 AATCATGCTC
1 AATCATGCTC
235365333 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:235372332 original size:40 final size:40
Alignment explanation
Indices: 235372287--235372452 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
235372277 CGGAATATAA
235372287 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
235372327 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
235372367 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
235372406 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
235372445 CCGGATAT
1 CCGGATAT
235372453 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:235372409 original size:39 final size:38
Alignment explanation
Indices: 235372303--235372414 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
235372293 ATAATCACGT
* * *
235372303 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
235372343 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
235372382 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
235372415 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:235372436 original size:79 final size:78
Alignment explanation
Indices: 235372303--235372452 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
235372293 ATAATCACGT
*
235372303 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
235372368 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
235372382 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
235372445 CCGGATAT
64 CCGGATAT
235372453 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:235373299 original size:17 final size:19
Alignment explanation
Indices: 235373276--235373321 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
235373266 AAGAAGCATG
235373276 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
235373294 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
235373312 AATCATGCTC
1 AATCATGCTC
235373322 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:235380846 original size:40 final size:40
Alignment explanation
Indices: 235380801--235380930 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
235380791 CGGAATACAA
235380801 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
235380841 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
235380881 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
235380921 CCGGATATAA
1 CCGGATATAA
235380931 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:235380945 original size:40 final size:40
Alignment explanation
Indices: 235380801--235380963 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
235380791 CGGAATACAA
* **
235380801 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
235380841 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
235380881 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
235380921 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
235380960 CCGG
1 CCGG
235380964 GTATCATTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:235383623 original size:20 final size:20
Alignment explanation
Indices: 235383598--235383635 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235383588 GTTTATTCGC
*
235383598 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
235383618 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
235383636 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:235391774 original size:40 final size:40
Alignment explanation
Indices: 235391729--235391858 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
235391719 CGGAATACAA
235391729 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
235391769 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
235391809 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
235391849 CCGGATATAA
1 CCGGATATAA
235391859 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:235391873 original size:40 final size:40
Alignment explanation
Indices: 235391729--235391892 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
235391719 CGGAATACAA
* **
235391729 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
235391769 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
235391809 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
235391849 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
235391889 CCGG
1 CCGG
235391893 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:235396483 original size:41 final size:41
Alignment explanation
Indices: 235396438--235396555 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235396428 TGAAAGATAA
235396438 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235396479 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235396509 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235396550 ATGTAG
1 ATGTAG
235396556 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235396494 original size:71 final size:71
Alignment explanation
Indices: 235396406--235396569 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235396396 GAGATGTATC
235396406 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235396471 AGGACA
66 AGGACA
235396477 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235396542 AGGACA
66 AGGACA
235396548 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235396570 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235403828 original size:41 final size:41
Alignment explanation
Indices: 235403783--235403900 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
235403773 TGAAAGATAA
235403783 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
235403824 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235403854 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
235403895 ATGTAG
1 ATGTAG
235403901 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:235403839 original size:71 final size:71
Alignment explanation
Indices: 235403751--235403914 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
235403741 GAGATGTATC
235403751 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235403816 AGGACA
66 AGGACA
235403822 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
235403887 AGGACA
66 AGGACA
235403893 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
235403915 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:235408282 original size:19 final size:19
Alignment explanation
Indices: 235408258--235408296 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
235408248 CAAACGGTTT
235408258 ACACATAGCAACTTTGGTC
1 ACACATAGCAACTTTGGTC
235408277 ACACATAGCAACTTTGGTC
1 ACACATAGCAACTTTGGTC
235408296 A
1 A
235408297 GGATACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
ACACATAGCAACTTTGGTC
Found at i:235412060 original size:15 final size:17
Alignment explanation
Indices: 235412036--235412069 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
235412026 GCTAAGGACT
235412036 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
235412052 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
235412068 AA
1 AA
235412070 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:235414991 original size:41 final size:40
Alignment explanation
Indices: 235414892--235415059 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
235414882 AAATTGAATG
* * * **
235414892 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
235414931 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GATT
* * *
235414972 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGATT
* *
235415012 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGATT
235415052 ATATCCGG
1 ATATCCGG
235415060 TTATATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 14 0.13
40 60 0.56
41 33 0.31
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:235422922 original size:40 final size:40
Alignment explanation
Indices: 235422856--235423022 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
235422846 AAATTGAATG
* * *
235422856 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
235422895 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
235422935 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
235422975 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
235423015 ATATCCGG
1 ATATCCGG
235423023 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:235424438 original size:21 final size:23
Alignment explanation
Indices: 235424398--235424444 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
235424388 AACCAAAGGC
*
235424398 TGTTGTATGGTGGTGCACGGGCG
1 TGTTGTATGGTGGAGCACGGGCG
235424421 TGTTG-ATGGT-GAGCACGGGCG
1 TGTTGTATGGTGGAGCACGGGCG
235424442 TGT
1 TGT
235424445 GACGTGGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 5 0.22
23 5 0.22
ACGTcount: A:0.11, C:0.13, G:0.47, T:0.30
Consensus pattern (23 bp):
TGTTGTATGGTGGAGCACGGGCG
Found at i:235429368 original size:91 final size:92
Alignment explanation
Indices: 235429259--235429428 Score: 297
Period size: 91 Copynumber: 1.8 Consensus size: 92
235429249 CGCCCATAAG
* *
235429259 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-ACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGACTCAACTCAA
235429323 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
235429350 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTC-GACTCAACTCA
235429415 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
235429429 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 50 0.68
93 24 0.32
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:235429417 original size:46 final size:46
Alignment explanation
Indices: 235429252--235429425 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
235429242 TGTAACCCGC
* * *
235429252 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
235429298 CCATAAGTGAACTC--ACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
235429346 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
235429389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
235429426 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 21 0.20
45 8 0.07
46 44 0.41
47 23 0.21
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.