Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 130 of 208
Found at i:42687495 original size:9 final size:9
Alignment explanation
Indices: 42687481--42687512 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
42687471 ATCAACAACC
42687481 TTTTTTTTA
1 TTTTTTTTA
42687490 TTTTTTTTA
1 TTTTTTTTA
42687499 TTTTTTTTA
1 TTTTTTTTA
42687508 TTTTT
1 TTTTT
42687513 ATAGAGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:42688030 original size:16 final size:15
Alignment explanation
Indices: 42688002--42688046 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
42687992 TGAATGTGTC
42688002 ATTTTTTTGTTATAGT
1 ATTTTTTT-TTATAGT
*
42688018 ATTTATTTTTTATATT
1 ATTT-TTTTTTATAGT
*
42688034 AATTTTTTTTATA
1 ATTTTTTTTTATA
42688047 AATTAGTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 13 0.50
17 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (15 bp):
ATTTTTTTTTATAGT
Found at i:42691060 original size:20 final size:20
Alignment explanation
Indices: 42691035--42691075 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
42691025 ATTTAGGACT
42691035 AGAACAACATGTACTGGTCA
1 AGAACAACATGTACTGGTCA
42691055 AGAACAACATGTACTGGTCA
1 AGAACAACATGTACTGGTCA
42691075 A
1 A
42691076 TATGGTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
AGAACAACATGTACTGGTCA
Found at i:42693407 original size:20 final size:20
Alignment explanation
Indices: 42693344--42693408 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
42693334 AATCTTAAAC
** *
42693344 AATTATAAAAAGTATA-AAA
1 AATTATAAAAAAAATATACA
* *
42693363 AATTGTAAAAAAAATATAGA
1 AATTATAAAAAAAATATACA
* *
42693383 CATTATAAAACAAATATACA
1 AATTATAAAAAAAATATACA
42693403 AATTAT
1 AATTAT
42693409 TATAAAATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 13 0.36
20 23 0.64
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AATTATAAAAAAAATATACA
Found at i:42693593 original size:17 final size:19
Alignment explanation
Indices: 42693573--42693623 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
42693563 ATTCAAAAGC
42693573 TTTATAAATTTTTAT-T-T
1 TTTATAAATTTTTATATGT
42693590 TTTA-ATAATTTTTATATGT
1 TTTATA-AATTTTTATATGT
*
42693609 TTATATACATTTTTA
1 TT-TATAAATTTTTA
42693624 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 13 0.46
18 1 0.04
19 3 0.11
20 9 0.32
21 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTATAAATTTTTATATGT
Found at i:42693601 original size:10 final size:10
Alignment explanation
Indices: 42693588--42693702 Score: 73
Period size: 10 Copynumber: 11.6 Consensus size: 10
42693578 AAATTTTTAT
42693588 TTTTTAATAA
1 TTTTTAATAA
42693598 TTTTT-AT-A
1 TTTTTAATAA
*
42693606 TGTTTATATACA
1 TTTTTA-ATA-A
42693618 TTTTTAATAA
1 TTTTTAATAA
**
42693628 AATTTAA-ATA
1 TTTTTAATA-A
42693638 TATTTT-ATAA
1 T-TTTTAATAA
42693648 TTTTTTAA-AA
1 -TTTTTAATAA
* *
42693658 GTTTTAAT-T
1 TTTTTAATAA
42693667 TTTTTAATAA
1 TTTTTAATAA
42693677 TTTTTAA-AA
1 TTTTTAATAA
*
42693686 GTTTTTAATGA
1 -TTTTTAATAA
42693697 TTTTTA
1 TTTTTA
42693703 TTAGAAAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
8 5 0.06
9 18 0.22
10 42 0.52
11 10 0.12
12 6 0.07
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:42693694 original size:29 final size:28
Alignment explanation
Indices: 42693586--42693690 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
42693576 ATAAATTTTT
* * *
42693586 ATTTTTTAATAATTTTTATATGTTTATATA
1 ATTTTTTAA-AAGTTTTA-ATTTTTTTATA
* *
42693616 CATTTTTAATAAAA-TTTAAATATATTTTATA
1 -ATTTTT--TAAAAGTTTTAAT-TTTTTTATA
42693647 ATTTTTTAAAAGTTTTAATTTTTTTAATA
1 ATTTTTTAAAAGTTTTAATTTTTTT-ATA
42693676 A-TTTTTAAAAGTTTT
1 ATTTTTTAAAAGTTTT
42693691 TAATGATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
28 24 0.38
29 10 0.16
30 8 0.13
31 16 0.25
32 2 0.03
33 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (28 bp):
ATTTTTTAAAAGTTTTAATTTTTTTATA
Found at i:42694466 original size:3 final size:3
Alignment explanation
Indices: 42694458--42694486 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42694448 TTTTTAATCG
42694458 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42694487 ATTCAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42694810 original size:29 final size:31
Alignment explanation
Indices: 42694776--42694845 Score: 101
Period size: 29 Copynumber: 2.3 Consensus size: 31
42694766 AGTATTTAAT
42694776 TAATTTTTTAAAA-TTTAAAAATA-TTTTTA
1 TAATTTTTTAAAATTTTAAAAATAGTTTTTA
*
42694805 TAA-TTTTTAAAATTTTTAAAATAGTTTTTA
1 TAATTTTTTAAAATTTTAAAAATAGTTTTTA
42694835 TATATTTTTTA
1 TA-ATTTTTTA
42694846 TTTTTTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 9 0.25
29 12 0.33
30 8 0.22
31 1 0.03
32 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (31 bp):
TAATTTTTTAAAATTTTAAAAATAGTTTTTA
Found at i:42694825 original size:30 final size:29
Alignment explanation
Indices: 42694780--42694843 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
42694770 TTTAATTAAT
42694780 TTTTTAAAATTTAAAAATA-TTTTTATA-A
1 TTTTTAAAATTT-AAAATAGTTTTTATATA
42694808 TTTTTAAAATTTTTAAAATAGTTTTTATATA
1 TTTTTAAAA--TTTAAAATAGTTTTTATATA
42694839 TTTTT
1 TTTTT
42694844 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 9 0.28
29 6 0.19
30 11 0.34
31 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTAAAATTTAAAATAGTTTTTATATA
Found at i:42694854 original size:30 final size:29
Alignment explanation
Indices: 42694780--42694843 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
42694770 TTTAATTAAT
*
42694780 TTTTTAAAA-TTTAAAAATATTTTTATAA
1 TTTTTAAAATTTTTAAAATATTTTTATAA
42694808 TTTTTAAAATTTTTAAAATAGTTTTTATATA
1 TTTTTAAAATTTTTAAAATA-TTTTTATA-A
42694839 TTTTT
1 TTTTT
42694844 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.28
29 9 0.28
30 8 0.25
31 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTAAAATTTTTAAAATATTTTTATAA
Found at i:42706511 original size:7 final size:7
Alignment explanation
Indices: 42706499--42706523 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42706489 TCGTAATATT
42706499 TTATTTA
1 TTATTTA
42706506 TTATTTA
1 TTATTTA
42706513 TTATTTA
1 TTATTTA
42706520 TTAT
1 TTAT
42706524 CGTACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:42707317 original size:49 final size:51
Alignment explanation
Indices: 42707264--42707372 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 51
42707254 AAGTAGTGGC
* *
42707264 AGTATATCTACGAA-TCAGTGGTGGCATGTCTACAAAATTG-TATC-ATGGT
1 AGTATATCT-CGAATTCAGTGGTGGCATGTCCACAAAAGTGTTATCAATGGT
* * * *
42707313 AGTATATCTGGAATTTAGTGGTGGCTTGTCCACAAAAGTGTTATCAATGTT
1 AGTATATCTCGAATTCAGTGGTGGCATGTCCACAAAAGTGTTATCAATGGT
*
42707364 AGTTTATCT
1 AGTATATCT
42707373 GCAAACCAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.06
49 31 0.62
50 4 0.08
51 12 0.24
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (51 bp):
AGTATATCTCGAATTCAGTGGTGGCATGTCCACAAAAGTGTTATCAATGGT
Found at i:42707392 original size:22 final size:22
Alignment explanation
Indices: 42707364--42707405 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
42707354 TATCAATGTT
*
42707364 AGTTTATCTGCAAACCAGTGAC
1 AGTTTATCTACAAACCAGTGAC
*
42707386 AGTTTATCTACAAATCAGTG
1 AGTTTATCTACAAACCAGTG
42707406 GTGACTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (22 bp):
AGTTTATCTACAAACCAGTGAC
Found at i:42709914 original size:18 final size:18
Alignment explanation
Indices: 42709871--42709907 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42709861 AGGTGGAGAT
*
42709871 ACATATGATTGCCTCGAC
1 ACATTTGATTGCCTCGAC
*
42709889 ACATTTGATTGCGTCGAC
1 ACATTTGATTGCCTCGAC
42709907 A
1 A
42709908 GTTTTGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (18 bp):
ACATTTGATTGCCTCGAC
Found at i:42714132 original size:221 final size:221
Alignment explanation
Indices: 42713740--42714180 Score: 630
Period size: 221 Copynumber: 2.0 Consensus size: 221
42713730 TTGTGAAAAA
* * * *
42713740 TAAAGATGGCTCTTTGAGATTGTGTATAGGTTACAAACAGATGCATAAAGTCACAATAAAAAATA
1 TAAAGACGACTCTTTGAGATTGTGTATAGCTTACAAACAGATGAATAAAGTCACAATAAAAAATA
* * * ** *
42713805 AGTATCCTTTGACATGTATCGGCAATTTGTTTGATCAATTGAAAGGTGCCACAGTGTTTTCAAAG
66 AGTATCATTTGACACGTATCGACAATTTGTTTGATCAATTGAAAGACGCCACAGTGTTCTCAAAG
* *
42713870 ATAGATCTTAGATCTGGGTATTATCAATTGAAAGTTAAAGACTGTGATGTGTCAAAGACTACTTT
131 ATAGATCTCAGATCCGGGTATTATCAATTGAAAGTTAAAGACTGTGATGTGTCAAAGACTACTTT
* *
42713935 TAGAACTCGTTGCAGTCATTATGAGT
196 CAGAACTCGTTACAGTCATTATGAGT
* * * *
42713961 TAAAGACGACTCTTTGAGATTGTGTATAGCTTACAGACAGTTGAATAAATTCACAATTAAAAATA
1 TAAAGACGACTCTTTGAGATTGTGTATAGCTTACAAACAGATGAATAAAGTCACAATAAAAAATA
* * * * * * *
42714026 ATTATCATTTGCCACGTGTCGACGATTTGTTTGATCAATTGAAAGACGGCATAGTGTTCTCGAAG
66 AGTATCATTTGACACGTATCGACAATTTGTTTGATCAATTGAAAGACGCCACAGTGTTCTCAAAG
**
42714091 ATAGATCTCAGATCCGGGTATTATCAATTGATGGTTAAAGACTGTGATGTGTCAAAGACTACTTT
131 ATAGATCTCAGATCCGGGTATTATCAATTGAAAGTTAAAGACTGTGATGTGTCAAAGACTACTTT
*
42714156 CAGAACTCGTTACGGTCATTATGAG
196 CAGAACTCGTTACAGTCATTATGAG
42714181 GTTTCTGGTA
Statistics
Matches: 192, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
221 192 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (221 bp):
TAAAGACGACTCTTTGAGATTGTGTATAGCTTACAAACAGATGAATAAAGTCACAATAAAAAATA
AGTATCATTTGACACGTATCGACAATTTGTTTGATCAATTGAAAGACGCCACAGTGTTCTCAAAG
ATAGATCTCAGATCCGGGTATTATCAATTGAAAGTTAAAGACTGTGATGTGTCAAAGACTACTTT
CAGAACTCGTTACAGTCATTATGAGT
Found at i:42716855 original size:22 final size:23
Alignment explanation
Indices: 42716828--42716870 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
42716818 GCTACTATTA
42716828 TATGTGAAC-CATAAATATGTTT
1 TATGTGAACTCATAAATATGTTT
*
42716850 TATGTGAACTCATATATATGT
1 TATGTGAACTCATAAATATGT
42716871 GAACACCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (23 bp):
TATGTGAACTCATAAATATGTTT
Found at i:42716953 original size:45 final size:46
Alignment explanation
Indices: 42716889--42717014 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 46
42716879 GAATATGTTA
* * * * *
42716889 TATGC-AAACCTTATGCATGTTATATGCGAACCCTTAAGTTGGTAG
1 TATGCGAAACCATATACATGTTACATGCGAACCCTTAAGATAGTAG
* * *
42716934 TATGTGAAACC-TATACATGTTGCATGCAAAGCCC-TAAGATAGTAG
1 TATGCGAAACCATATACATGTTACATGCGAA-CCCTTAAGATAGTAG
* *
42716979 TATGCGAACCCCATATATATGTTACATGCGAACCCT
1 TATGCGAA-ACCATATACATGTTACATGCGAACCCT
42717015 ATATATGTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
45 35 0.55
46 13 0.20
47 16 0.25
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (46 bp):
TATGCGAAACCATATACATGTTACATGCGAACCCTTAAGATAGTAG
Found at i:42717012 original size:24 final size:22
Alignment explanation
Indices: 42716980--42717111 Score: 91
Period size: 24 Copynumber: 6.1 Consensus size: 22
42716970 AGATAGTAGT
42716980 ATGCGAACCCCATATATATGTTAC
1 ATGCGAA-CCC-TATATATGTTAC
42717004 ATGCGAACCCTATATATGTTAC
1 ATGCGAACCCTATATATGTTAC
*
42717026 ATGC-AA----A-ATA-GTATAT
1 ATGCGAACCCTATATATGT-TAC
** *
42717042 ATGCGAA-CCTATATACATCAC
1 ATGCGAACCCTATATATGTTAC
*
42717063 ATGCGAACCCTATATATATGTTAA
1 ATGCGAACCC--TATATATGTTAC
* *
42717087 ATGCGAACCTCTATACATGTGAC
1 ATGCGAACC-CTATATATGTTAC
42717110 AT
1 AT
42717112 TGTTGTTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.02
16 9 0.10
17 3 0.03
20 1 0.01
21 13 0.15
22 19 0.22
23 14 0.16
24 24 0.28
25 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (22 bp):
ATGCGAACCCTATATATGTTAC
Found at i:42719255 original size:64 final size:64
Alignment explanation
Indices: 42719185--42719319 Score: 252
Period size: 64 Copynumber: 2.1 Consensus size: 64
42719175 AATGACCAAC
* *
42719185 AATATTTAAAATTATATTTTTAATATTTTATGTGTAAAACTATACGTAAACAATTATGTATAAA
1 AATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTATGTATAAA
42719249 AATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTATGTATAAA
1 AATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTATGTATAAA
42719313 AATATTT
1 AATATTT
42719320 TTTAAATGCA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (64 bp):
AATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTATGTATAAA
Found at i:42721472 original size:18 final size:17
Alignment explanation
Indices: 42721449--42721534 Score: 79
Period size: 18 Copynumber: 4.9 Consensus size: 17
42721439 AATAATAATG
42721449 TGTATAATAAAATTAAAA
1 TGTATAA-AAAATTAAAA
42721467 TGTATAAAAAA-TAAAA
1 TGTATAAAAAATTAAAA
*
42721483 -ATA-AAAGAAATAATAAAA
1 TGTATAAA-AAAT--TAAAA
*
42721501 TGTGTAATAAAATTAAAA
1 TGTATAA-AAAATTAAAA
42721519 TGTATAAAAATATTAA
1 TGTATAAAAA-ATTAA
42721535 GATAGAACTT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.05
15 5 0.09
16 5 0.09
17 7 0.12
18 28 0.50
19 1 0.02
20 6 0.11
21 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
TGTATAAAAAATTAAAA
Found at i:42722103 original size:21 final size:22
Alignment explanation
Indices: 42722079--42722119 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42722069 TTAAGACATG
* *
42722079 AACATCTAACATCTA-ACATAC
1 AACACCTAAAATCTAGACATAC
42722100 AACACCTAAAATCTAGACAT
1 AACACCTAAAATCTAGACAT
42722120 CACCAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (22 bp):
AACACCTAAAATCTAGACATAC
Found at i:42736821 original size:27 final size:27
Alignment explanation
Indices: 42736779--42737296 Score: 485
Period size: 27 Copynumber: 19.4 Consensus size: 27
42736769 CCCTAAAATA
* * * * *
42736779 GGTAAAATAACTGTAATGCCTCTGTAT
1 GGTAAAATGACCGTAATGCCCCTATAG
*
42736806 GGTAAAATAACCGTAATGCCCCT-TAG
1 GGTAAAATGACCGTAATGCCCCTATAG
** ** *
42736832 GGTAAAATGACTATAATGCCTTTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
*
42736859 GGTAAAATGACCGTAAT-ACCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
42736885 GGTAAAATGTCCATAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
42736912 GATAAAATGACCGTAATGCCCCTTTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * * * *
42736939 GGTAAAATAATCGTAATGCCTCTGTAA
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
42736966 GGTAAAATGACCGTAATACTCATATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * **
42736993 GGTAAAATTACTGTAATAACCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
42737020 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * * *
42737047 GCT-AAATAACCGTAATGTCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * *
42737073 GGTAAAATAATCGTAATACCCC-ATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
42737099 GGTAAAATGACCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
42737126 GGTAAAATGACCAT-ATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
42737152 GGTAAAATGACCGTAATACCCCCATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
42737179 GGTAAAATGATCGTAATACCTCC-ATAG
1 GGTAAAATGACCGTAATGCC-CCTATAG
* *
42737206 GGTAAAATGATCGTAAT-ACCCTCATAG
1 GGTAAAATGACCGTAATGCCCCT-ATAG
* * *
42737233 GGTAAAATGACCGTAAAGCCCCTGTAA
1 GGTAAAATGACCGTAATGCCCCTATAG
* * ** *
42737260 GGTAAAATTATCGTAATGCCTTTAGAG
1 GGTAAAATGACCGTAATGCCCCTATAG
42737287 GGT-AAATGAC
1 GGTAAAATGAC
42737297 TATTTTGCCC
Statistics
Matches: 402, Mismatches: 80, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
25 2 0.00
26 113 0.28
27 281 0.70
28 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTATAG
Found at i:42736849 original size:53 final size:54
Alignment explanation
Indices: 42736779--42737296 Score: 434
Period size: 53 Copynumber: 9.7 Consensus size: 54
42736769 CCCTAAAATA
* * *
42736779 GGTAAAATAACTGTAATGCCTCTGTATGGTAAAATAACCGTAATGCCCCT-TAG
1 GGTAAAATGACTGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* * *
42736832 GGTAAAATGACTATAATGCCTTTGTAGGGTAAAATGACCGTAAT-ACCCTATAG
1 GGTAAAATGACTGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* ** * * * *
42736885 GGTAAAATGTCCATAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTTTAG
1 GGTAAAATGACTGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* * * * *
42736939 GGTAAAAT-AATCGTAATGCCTCTGTAAGGTAAAATGACCGTAATACTCATATAG
1 GGTAAAATGACT-GTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* * *
42736993 GGTAAAATTACTGTAATAACC-CTATAGGGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACTGTAAT-GCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* * * * * *
42737047 GCT-AAATAACCGTAATGTCC-CTGTAGGGTAAAATAATCGTAATACCCC-ATAG
1 GGTAAAATGACTGTAATG-CCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* * * ** * *
42737099 GGTAAAATGACCGTAATACCCCCATAGGGTAAAATGACCAT-ATGCCCCTGTAG
1 GGTAAAATGACTGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
* * * ** * *
42737152 GGTAAAATGACCGTAATACCCCCATAGGGTAAAATGATCGTAATACCTCC-ATAG
1 GGTAAAATGACTGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCC-CCTATAG
* * * * *
42737206 GGTAAAATGA-TCGTAATACC-CTCATAGGGTAAAATGACCGTAAAGCCCCTGTAA
1 GGTAAAATGACT-GTAATGCCTCT-GTAGGGTAAAATGACCGTAATGCCCCTATAG
* *
42737260 GGTAAAATTA-TCGTAATGCCTTTAG-AGGGT-AAATGAC
1 GGTAAAATGACT-GTAATGCCTCT-GTAGGGTAAAATGAC
42737297 TATTTTGCCC
Statistics
Matches: 383, Mismatches: 67, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
52 18 0.05
53 196 0.51
54 162 0.42
55 7 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
GGTAAAATGACTGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCCTATAG
Found at i:42736918 original size:80 final size:79
Alignment explanation
Indices: 42736779--42737248 Score: 410
Period size: 80 Copynumber: 5.9 Consensus size: 79
42736769 CCCTAAAATA
* * * * * * *
42736779 GGTAAAATAACTGTAATGCCTCTGTATGGTAAAATAACCGTAATGCCCCT-TAGGGTAAAATGAC
1 GGTAAAATGACCGTAATACC-CTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGAC
* * * *
42736843 TATAATGCCTTTGTAG
65 TGTAATACC-CTATAG
* * *
42736859 GGTAAAATGACCGTAATACCCTATAGGGTAAAATGTCCATAATGCCCCTATAGGATAAAATGACC
1 GGTAAAATGACCGTAATACCCTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGACT
* *
42736924 GTAATGCCCCTTTAG
66 GTAAT-ACCCTATAG
* * * * * * * * * *
42736939 GGTAAAATAATCGTAATGCCTCTGTAAGGTAAAATGACCGTAATACTCATATAGGGTAAAATTAC
1 GGTAAAATGACCGTAATACC-CTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGAC
42737004 TGTAATAACCCTATAG
65 TGTAAT-ACCCTATAG
* * * * * * *
42737020 GGTAAAATGACCGTAATGCCCCTATAGGCT-AAATAACCGTAATGTCCCTGTAGGGTAAAAT-AA
1 GGTAAAATGACCGTAAT-ACCCTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGAC
*
42737083 TCGTAATACCCCATAG
65 T-GTAATACCCTATAG
* *
42737099 GGTAAAATGACCGTAATACCCCCATAGGGTAAAATGACCAT-ATGCCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACCGTAATA-CCCTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGAC
* *
42737163 CGTAATACCCCCATAG
65 TGTAATA-CCCTATAG
* * * * *
42737179 GGTAAAATGATCGTAATACCTCCATAGGGTAAAATGATCGTAAT-ACCCTCATAGGGTAAAATGA
1 GGTAAAATGACCGTAATACC-CTATAGGGTAAAATGACCATAATGCCCCT-ATAGGGTAAAATGA
*
42737243 CCGTAA
64 CTGTAA
42737249 AGCCCCTGTA
Statistics
Matches: 321, Mismatches: 57, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
79 87 0.27
80 141 0.44
81 91 0.28
82 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (79 bp):
GGTAAAATGACCGTAATACCCTATAGGGTAAAATGACCATAATGCCCCTATAGGGTAAAATGACT
GTAATACCCTATAG
Found at i:42737266 original size:267 final size:267
Alignment explanation
Indices: 42736783--42737269 Score: 615
Period size: 267 Copynumber: 1.8 Consensus size: 267
42736773 AAAATAGGTA
* * * * *
42736783 AAATAACTGTAATGCCTCTGTATGGTAAAATAACCGTAATGCCCCTTAGGGTAAAATGACTATAA
1 AAATAACCGTAATGCCTCTGTAGGGTAAAATAACCGTAATACCCCATAGGGTAAAATGACCATAA
* **** * * * *
42736848 TGCCTTTGTAGGGTAAAATGACCGTAATACCCTATAGGGTAAAATGTCCATAATGCCCCTATAGG
66 TACCCCCATAGGGTAAAATGACCATAATACCCTATAGGGTAAAATGACCATAATACCCCCATAGG
* * * *
42736913 ATAAAATGACCGTAATGCCCCTTTAGGGTAAAATAATCGTAATGCCTCTGTAAGGTAAAATGACC
131 ATAAAATGACCGTAATACCCCTATAGGGTAAAATAATCGTAATCCCTCTATAAGGTAAAATGACC
* *
42736978 GTAATACTCATATAGGGTAAAATTACTGTAATAACCCTATAGGGTAAAATGACCGTAATGCCCCT
196 GTAATACCCATATAAGGTAAAATTACTGTAATAACCCTATAGGGTAAAATGACCGTAATGCCCCT
42737043 ATAGGCT
261 ATAGGCT
* *
42737050 AAATAACCGTAATGTCC-CTGTAGGGTAAAATAATCGTAATACCCCATAGGGTAAAATGACCGTA
1 AAATAACCGTAATG-CCTCTGTAGGGTAAAATAACCGTAATACCCCATAGGGTAAAATGACCATA
* * *
42737114 ATACCCCCATAGGGTAAAATGACCAT-ATGCCCCTGTAGGGTAAAATGACCGTAATACCCCCATA
65 ATACCCCCATAGGGTAAAATGACCATAAT-ACCCTATAGGGTAAAATGACCATAATACCCCCATA
* * * *
42737178 GGGTAAAATGATCGTAATACCTCC-ATAGGGTAAAATGATCGTAATACCCTC-ATAGGGTAAAAT
129 GGATAAAATGACCGTAATACC-CCTATAGGGTAAAATAATCGTAAT-CCCTCTATAAGGTAAAAT
* *
42737241 GACCGTAA-AGCCCCTGTAAGGTAAAATTA
192 GACCGTAATA-CCCATATAAGGTAAAATTA
42737270 TCGTAATGCC
Statistics
Matches: 184, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
266 3 0.02
267 173 0.94
268 8 0.04
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (267 bp):
AAATAACCGTAATGCCTCTGTAGGGTAAAATAACCGTAATACCCCATAGGGTAAAATGACCATAA
TACCCCCATAGGGTAAAATGACCATAATACCCTATAGGGTAAAATGACCATAATACCCCCATAGG
ATAAAATGACCGTAATACCCCTATAGGGTAAAATAATCGTAATCCCTCTATAAGGTAAAATGACC
GTAATACCCATATAAGGTAAAATTACTGTAATAACCCTATAGGGTAAAATGACCGTAATGCCCCT
ATAGGCT
Found at i:42737491 original size:26 final size:26
Alignment explanation
Indices: 42737462--42737511 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
42737452 TTGACCACAT
42737462 ATACTATTCCTGGTAGCTTTGCTGTG
1 ATACTATTCCTGGTAGCTTTGCTGTG
* *
42737488 ATACTGTTGCTGGTAGCTTTGCTG
1 ATACTATTCCTGGTAGCTTTGCTG
42737512 CGATGTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.26, T:0.42
Consensus pattern (26 bp):
ATACTATTCCTGGTAGCTTTGCTGTG
Found at i:42737562 original size:32 final size:32
Alignment explanation
Indices: 42737517--42737620 Score: 163
Period size: 32 Copynumber: 3.2 Consensus size: 32
42737507 TGCTGCGATG
*
42737517 TTACTGATGGCTTTGTGCCGATCATATTACCA
1 TTACTGATAGCTTTGTGCCGATCATATTACCA
** *
42737549 TTACTGATAGCTTTGTATCGATCATATTACCG
1 TTACTGATAGCTTTGTGCCGATCATATTACCA
*
42737581 TTACTGATAGCTTTGTGCCGATCATATTACTA
1 TTACTGATAGCTTTGTGCCGATCATATTACCA
42737613 TTACTGAT
1 TTACTGAT
42737621 GGAAGTATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (32 bp):
TTACTGATAGCTTTGTGCCGATCATATTACCA
Found at i:42737634 original size:64 final size:64
Alignment explanation
Indices: 42737516--42737673 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 64
42737506 TTGCTGCGAT
* *** * *
42737516 GTTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATAGCTTTGTATCGATCATATTACC
1 GTTACTGATAGCTTTGTGCCGATCATATTACCATTACTGATAGAAGTATATCGATCATATCACC
* * * *
42737580 GTTACTGATAGCTTTGTGCCGATCATATTACTATTACTGATGGAAGTATGTCGATCATATCACT
1 GTTACTGATAGCTTTGTGCCGATCATATTACCATTACTGATAGAAGTATATCGATCATATCACC
* * *
42737644 GCTATTGA-AGGCTTTGTGCCAATCATATTA
1 GTTACTGATA-GCTTTGTGCCGATCATATTA
42737674 ATGTACTTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 1 0.01
64 79 0.99
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (64 bp):
GTTACTGATAGCTTTGTGCCGATCATATTACCATTACTGATAGAAGTATATCGATCATATCACC
Found at i:42737713 original size:22 final size:22
Alignment explanation
Indices: 42737685--42737726 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
42737675 TGTACTTTTG
*
42737685 GCTTATAGCCATTCTGTTTATA
1 GCTTATAGCCATCCTGTTTATA
*
42737707 GCTTATAGCTATCCTGTTTA
1 GCTTATAGCCATCCTGTTTA
42737727 CGGCTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (22 bp):
GCTTATAGCCATCCTGTTTATA
Found at i:42740555 original size:12 final size:12
Alignment explanation
Indices: 42740538--42740562 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42740528 ATAATAATAT
42740538 TTATGAACTTAC
1 TTATGAACTTAC
42740550 TTATGAACTTAC
1 TTATGAACTTAC
42740562 T
1 T
42740563 CGTTAGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTATGAACTTAC
Found at i:42744561 original size:36 final size:37
Alignment explanation
Indices: 42744499--42744568 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
42744489 GATAGTTACT
*
42744499 TTAATATTAAATTAATAAAATACTATTAAGATAAAGA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAAGA
**
42744536 TTAA-ATTAAATTTAATATTAT-CTATTAAAATAA
1 TTAATATTAAA-TTAATAAAATACTATTAAAATAA
42744569 TATTATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 17 0.59
37 12 0.41
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAAGA
Found at i:42765466 original size:17 final size:18
Alignment explanation
Indices: 42765444--42765485 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
42765434 ATATATGGAT
*
42765444 AAATTA-TTGACTTGATA
1 AAATTAGTTAACTTGATA
*
42765461 AAATTAGTTAATTTGATA
1 AAATTAGTTAACTTGATA
*
42765479 AATTTAG
1 AAATTAG
42765486 AGTTAAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (18 bp):
AAATTAGTTAACTTGATA
Found at i:42765889 original size:39 final size:39
Alignment explanation
Indices: 42765807--42765954 Score: 125
Period size: 39 Copynumber: 3.8 Consensus size: 39
42765797 TGAATTAAAA
* * * * * *
42765807 GTGCCGGTGATTATTCGGGATATATGCCCAACAAGCTGT
1 GTGCCAGTAATTATTCAGGCTATATGCCTAGCAAGCTGT
* * * * * *
42765846 GTGCCGGTAATTATTCGGGCTATGTGTCTAGCATGCTGG
1 GTGCCAGTAATTATTCAGGCTATATGCCTAGCAAGCTGT
* * * * *
42765885 GTGCCAATAATTATTCAGGCTATGTGCCTAGCAGGATAT
1 GTGCCAGTAATTATTCAGGCTATATGCCTAGCAAGCTGT
* *
42765924 GTGCCAGTGATTATTCAGGCTATATGTCTAG
1 GTGCCAGTAATTATTCAGGCTATATGCCTAG
42765955 AAGGCTATGT
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (39 bp):
GTGCCAGTAATTATTCAGGCTATATGCCTAGCAAGCTGT
Found at i:42765964 original size:39 final size:39
Alignment explanation
Indices: 42765845--42766005 Score: 143
Period size: 39 Copynumber: 4.2 Consensus size: 39
42765835 CAACAAGCTG
* * * *
42765845 TGTGCCGGTAATTATTCGGGCTATGTGTCTAGCATGCTG
1 TGTGCCAGTAATTATTCAGGCTATGTGTCTAGCAGGCTA
* * * *
42765884 GGTGCCAATAATTATTCAGGCTATGTGCCTAGCAGGATA
1 TGTGCCAGTAATTATTCAGGCTATGTGTCTAGCAGGCTA
* * *
42765923 TGTGCCAGTGATTATTCAGGCTATATGTCTAGAAGGCTA
1 TGTGCCAGTAATTATTCAGGCTATGTGTCTAGCAGGCTA
* * * *
42765962 TGTG--TGT--TTATTCAGGCCATGTGCCTAGCAGACCT-
1 TGTGCCAGTAATTATTCAGGCTATGTGTCTAGCAG-GCTA
42765997 TGTGCCAGT
1 TGTGCCAGT
42766006 GTATGGAAAA
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
35 24 0.25
36 2 0.02
37 4 0.04
39 67 0.69
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (39 bp):
TGTGCCAGTAATTATTCAGGCTATGTGTCTAGCAGGCTA
Found at i:42767203 original size:20 final size:20
Alignment explanation
Indices: 42767164--42767204 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42767154 CCCTGCAGTT
* * *
42767164 TGAAAATTTTTATCTTTTTC
1 TGAAAAATTTTATATGTTTC
42767184 TGAAAAATTTTATATGTTTC
1 TGAAAAATTTTATATGTTTC
42767204 T
1 T
42767205 AATTTAGTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (20 bp):
TGAAAAATTTTATATGTTTC
Found at i:42770594 original size:18 final size:18
Alignment explanation
Indices: 42770550--42770597 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
42770540 AAATAAAAAA
42770550 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
***
42770568 AACAATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
42770586 AATGTTTTGAAA
1 AATGTTTTGAAA
42770598 ACGAACGACA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:42780945 original size:39 final size:39
Alignment explanation
Indices: 42780891--42781106 Score: 272
Period size: 39 Copynumber: 5.5 Consensus size: 39
42780881 TCCGGGTTTA
42780891 TGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATG
1 TGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATG
* * *
42780930 TGCCTTGCAGGCTGTGTGCCAATGATTATTTAGGCTATG
1 TGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATG
* * * * * *
42780969 TGACTAGCAAGCTATGTACCGGTGATTATTCGGGCTATG
1 TGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATG
* *
42781008 TGCCTAGTAGGCTGTGTGCCAATGATTATTCAGGCTATG
1 TGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATG
* * *
42781047 TGTCTAGCAGGCTGTGTGCC-AGTGTTTATTCAGGCCATG
1 TGCCTAGCAGGCTGTGTGCCGA-TGATTATTCAGGCTATG
* *
42781086 TGCCTGGCAGGCTTTGTGCCG
1 TGCCTAGCAGGCTGTGTGCCG
42781107 GTGTATTGAA
Statistics
Matches: 148, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 147 0.99
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (39 bp):
TGCCTAGCAGGCTGTGTGCCGATGATTATTCAGGCTATG
Found at i:42784154 original size:43 final size:42
Alignment explanation
Indices: 42784088--42784214 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 42
42784078 AGCTTGTACA
* * *
42784088 ATGCCAACGTCCCAAATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
* *
42784131 ATGCC-TCTGTCCCAGACAG-GGTCTTACCCGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
42784174 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATAT
42784215 AAAAAATCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.04
43 60 0.87
44 6 0.09
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:42819101 original size:19 final size:19
Alignment explanation
Indices: 42819076--42819186 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
42819066 AATCTTCAGG
42819076 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
42819095 AATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
42819114 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42819133 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
42819152 GATATATAATTTTAGATAT
1 GATATGCAATCTTAGATAT
42819171 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
42819187 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42819126 original size:38 final size:38
Alignment explanation
Indices: 42819083--42819186 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
42819073 AGGGATATGC
*
42819083 AATCTTAGATATAATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
42819121 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
42819159 AATTTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
42819187 AGATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:42819212 original size:22 final size:22
Alignment explanation
Indices: 42819076--42819209 Score: 66
Period size: 19 Copynumber: 6.7 Consensus size: 22
42819066 AATCTTCAGG
42819076 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
* *
42819095 AATATGCAATCTTAG-ATATAAT
1 GATATGCAATCTTAGAAGAT-AT
42819117 -ATAT--AATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
42819133 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
** * *
42819152 GATATATAATTTTAG-A-T-AT
1 GATATGCAATCTTAGAAGATAT
42819171 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
42819193 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
42819210 GATTTAATTA
Statistics
Matches: 90, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
16 2 0.02
17 7 0.08
19 54 0.60
20 1 0.01
21 8 0.09
22 6 0.07
23 12 0.13
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:42819889 original size:23 final size:23
Alignment explanation
Indices: 42819831--42819889 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
42819821 TTGTAGTATA
* *
42819831 ATATAATTATTTT-TTTATATGT
1 ATATATTTATTTTATCTATATGT
*
42819853 A-ATTATTTTTTTTATCTATATGT
1 ATA-TATTTATTTTATCTATATGT
42819876 ATATATTTATTTTA
1 ATATATTTATTTTA
42819890 GTATACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.03
22 9 0.30
23 19 0.63
24 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (23 bp):
ATATATTTATTTTATCTATATGT
Found at i:42823524 original size:14 final size:15
Alignment explanation
Indices: 42823498--42823530 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42823488 TCCCAAGCTA
42823498 GGAAGGACCTTATAT
1 GGAAGGACCTTATAT
*
42823513 GGAAGG-CCTTATCT
1 GGAAGGACCTTATAT
42823527 GGAA
1 GGAA
42823531 AAGCATCGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATAT
Found at i:42825126 original size:132 final size:132
Alignment explanation
Indices: 42824967--42826041 Score: 1732
Period size: 132 Copynumber: 8.2 Consensus size: 132
42824957 CCCTGTGGTT
42824967 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * * *
42825032 GGCAGATTTTACCTCCCAGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGG
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
42825097 CA
131 CA
* * * *
42825099 ACAGTGGAATATATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAATGGAGCAGATCAAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
*
42825164 GGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
42825229 CA
131 CA
42825231 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AGCAGTAGTGGAGCAGATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * * **
42825295 GGCTGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTTAAGCCAGTAATTCTACTTCCCTAAA
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
42825360 CA
131 CA
42825362 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* *
42825427 GGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
42825492 CA
131 CA
* *
42825494 ACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
*
42825559 GGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TCATA-TCTCCCTG
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC-TACT-TCCCTG
*
42825622 GTCA
129 GACA
* * * *
42825626 GCAGTGGAATAGGTTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
*
42825691 GGCGGATTTTACCTCCCTGTGGTTAAAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
42825756 CA
131 CA
* * * * *
42825758 ATAGTGGAATAGATTGAAGATTTGAGGTCTTATCTCCATAAGCAATAGTGGAGCAGATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
42825823 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
42825888 CA
131 CA
*
42825890 AAAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AGCAGTAGTGGAGCAGATCGAAGAT
1 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
** *
42825954 GGTAGATTTTACCTCCCTGTGGTTACAGTGGAGT-CATTGAAGCCAATAA-TCATA-TCTCCCTG
66 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC-TACT-TCCCTG
*
42826016 GTCA
129 GACA
* *
42826020 GCAGTGGAATAGGTTGAAGATT
1 ACAGTGGAATAGATTGAAGATT
42826042 GTAACTCCTA
Statistics
Matches: 879, Mismatches: 57, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
129 3 0.00
130 44 0.05
131 182 0.21
132 647 0.74
133 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
CA
Found at i:42826396 original size:19 final size:19
Alignment explanation
Indices: 42826374--42826439 Score: 105
Period size: 19 Copynumber: 3.5 Consensus size: 19
42826364 AGGGATATAT
42826374 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
* **
42826393 AATCTTAGATATAATATAT
1 AATCTTAGATATGATATGC
42826412 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
42826431 AATCTTAGA
1 AATCTTAGA
42826440 AGATATGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Found at i:42826465 original size:22 final size:21
Alignment explanation
Indices: 42826367--42826465 Score: 84
Period size: 19 Copynumber: 4.9 Consensus size: 21
42826357 AATCTTCAGG
*
42826367 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
42826386 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
42826405 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
42826424 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
42826446 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
42826466 TTAATTAGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
19 43 0.65
22 12 0.18
23 11 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:42827127 original size:22 final size:23
Alignment explanation
Indices: 42827085--42827142 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
42827075 TTGAAGTATA
* *
42827085 ATATAATTATTTT-TTTATATGT
1 ATATATTTATTTTATCTATATGT
42827107 A-ATTATTT-TTTTATCTATATGT
1 ATA-TATTTATTTTATCTATATGT
42827129 ATATATTTATTTTA
1 ATATATTTATTTTA
42827143 GTATACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (23 bp):
ATATATTTATTTTATCTATATGT
Found at i:42851192 original size:10 final size:10
Alignment explanation
Indices: 42851160--42851194 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
42851150 AAATTAAGGG
42851160 GAGTTCAATA
1 GAGTTCAATA
*
42851170 GATGTTCAGTA
1 GA-GTTCAATA
42851181 GAGTTCAATA
1 GAGTTCAATA
42851191 GAGT
1 GAGT
42851195 AGTTAGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (10 bp):
GAGTTCAATA
Found at i:42858008 original size:50 final size:52
Alignment explanation
Indices: 42857946--42858084 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 52
42857936 TGATAATAAC
* * *
42857946 ATGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT-CT-TG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATACTATG
* *
42857996 GTGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATAACCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCAT-A-CT--ATG
42858052 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
42858085 TGGGATCTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
50 41 0.53
53 2 0.03
56 34 0.44
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (52 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATACTATG
Found at i:42858058 original size:56 final size:50
Alignment explanation
Indices: 42857946--42858094 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 50
42857936 TGATAATAAC
* **
42857946 ATGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* *
42857996 GTGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATAACCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CT---TG
*
42858052 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42858095 TTAGCCAAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
50 41 0.48
53 2 0.02
56 42 0.49
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:42869510 original size:27 final size:27
Alignment explanation
Indices: 42869480--42869646 Score: 205
Period size: 27 Copynumber: 6.3 Consensus size: 27
42869470 CCCTAAAATA
* *
42869480 GGTATAATAACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
42869507 GGTAAAATGAACGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
42869534 GG-AAAATGACCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
42869560 GGTAAAATGACCGTAATACCTCTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
42869587 GGAAAAATGTCCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
42869614 GATAAAATGATCGTAAT-TCCCTG-ATG
1 GGTAAAATGACCGTAATACCCCTGTA-G
42869640 GGTAAAA
1 GGTAAAA
42869647 GACTATTTTG
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
25 1 0.01
26 36 0.30
27 83 0.69
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:42869569 original size:53 final size:54
Alignment explanation
Indices: 42869489--42869630 Score: 214
Period size: 53 Copynumber: 2.6 Consensus size: 54
42869479 AGGTATAATA
*
42869489 ACCGTAATACCCCTGTAGGGTAAAATGAACGTAATACCCCTGT-AGGGAAAATG
1 ACCGTAATACCCCTGTAGGGTAAAATGAACGTAATACCCCTGTAAGGAAAAATG
* * *
42869542 ACCGTAATACCCTTGTAGGGTAAAATGACCGTAATACCTCTGTAAGGAAAAATG
1 ACCGTAATACCCCTGTAGGGTAAAATGAACGTAATACCCCTGTAAGGAAAAATG
* * *
42869596 TCCGTAATACCCCTGTAGGATAAAATGATCGTAAT
1 ACCGTAATACCCCTGTAGGGTAAAATGAACGTAAT
42869631 TCCCTGATGG
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 40 0.50
54 40 0.50
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
ACCGTAATACCCCTGTAGGGTAAAATGAACGTAATACCCCTGTAAGGAAAAATG
Found at i:42869646 original size:80 final size:80
Alignment explanation
Indices: 42869480--42869635 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 80
42869470 CCCTAAAATA
* * *
42869480 GGTATAATAACCGTAATACCCCTGTAGGGTAAAATGAACGTAATACCCCTGTAGGGAAAATGACC
1 GGTAAAATAACCGTAATACCCCTGTAAGGAAAAATGAACGTAATACCCCTGTAGGGAAAATGACC
42869545 GTAATACCCTTGTAG
66 GTAATACCCTTGTAG
* * ** * *
42869560 GGTAAAATGACCGTAATACCTCTGTAAGGAAAAATGTCCGTAATACCCCTGTAGGATAAAATGAT
1 GGTAAAATAACCGTAATACCCCTGTAAGGAAAAATGAACGTAATACCCCTGTAGG-GAAAATGAC
*
42869625 CGTAATTCCCT
65 CGTAATACCCT
42869636 GATGGGTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 48 0.74
81 17 0.26
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (80 bp):
GGTAAAATAACCGTAATACCCCTGTAAGGAAAAATGAACGTAATACCCCTGTAGGGAAAATGACC
GTAATACCCTTGTAG
Found at i:42874294 original size:12 final size:12
Alignment explanation
Indices: 42874277--42874301 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42874267 AAAAAAGATA
42874277 ATTTTAAAAAAT
1 ATTTTAAAAAAT
42874289 ATTTTAAAAAAT
1 ATTTTAAAAAAT
42874301 A
1 A
42874302 ACAAAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTTAAAAAAT
Found at i:42882970 original size:14 final size:13
Alignment explanation
Indices: 42882943--42882981 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
42882933 TTTTAAAAAA
42882943 TTAAAGGTAAAATG
1 TTAAAGG-AAAATG
*
42882957 TTTAAAGGATAATG
1 -TTAAAGGAAAATG
42882971 TTAAAGGAAAA
1 TTAAAGGAAAA
42882982 AAATAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (13 bp):
TTAAAGGAAAATG
Found at i:42886272 original size:21 final size:18
Alignment explanation
Indices: 42886230--42886265 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42886220 TCCTTTTAAA
*
42886230 TTTCTTTTTCTCTTTCTC
1 TTTCTTTTTCTCTCTCTC
42886248 TTTCTTTTTCTC-CTCTC
1 TTTCTTTTTCTCTCTCTC
42886265 T
1 T
42886266 CATTTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTTTTTCTCTCTCTC
Found at i:42886285 original size:46 final size:45
Alignment explanation
Indices: 42886230--42886317 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 45
42886220 TCCTTTTAAA
* * * *
42886230 TTTCTTTTTCTCTTTCTCT-TTCTTTTTCTCCTCTCTCATTTTCCTT
1 TTTCATTTTCTCTCTCTCTATT-GTTTTCT-CTCTCTCAGTTTCCTT
42886276 TTTCATTTTCTCTCTCTCTATTGTTTTCTCTCTCTCAGTTTC
1 TTTCATTTTCTCTCTCTCTATTGTTTTCTCTCTCTCAGTTTC
42886318 TTCTCTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 12 0.32
46 23 0.62
47 2 0.05
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.64
Consensus pattern (45 bp):
TTTCATTTTCTCTCTCTCTATTGTTTTCTCTCTCTCAGTTTCCTT
Found at i:42887189 original size:15 final size:15
Alignment explanation
Indices: 42887171--42887221 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
42887161 TCACAATATT
42887171 TTTTTTCACTTCAAA
1 TTTTTTCACTTCAAA
**
42887186 TTTTTTCAAC-TCTTA
1 TTTTTTC-ACTTCAAA
**
42887201 TTTTTTCACTTTGAA
1 TTTTTTCACTTCAAA
42887216 TTTTTT
1 TTTTTT
42887222 TAACTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.07
15 25 0.86
16 2 0.07
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTTTCACTTCAAA
Found at i:42890209 original size:18 final size:18
Alignment explanation
Indices: 42890185--42890261 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
42890175 AAAATCATAA
42890185 AAAAATTA-AAAAATTAT
1 AAAAATTATAAAAATTAT
42890202 AAATAATTATAAAAA-TATT
1 AAA-AATTATAAAAATTA-T
42890221 AAAAA-TATAAAAATTAT
1 AAAAATTATAAAAATTAT
* *
42890238 AGAAAATTTTAAAATGTTAT
1 A-AAAATTATAAAA-ATTAT
42890258 AAAA
1 AAAA
42890262 GTTTTTTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
17 13 0.25
18 15 0.29
19 18 0.35
20 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:42890214 original size:29 final size:26
Alignment explanation
Indices: 42890175--42890252 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
42890165 ATAGATTATG
*
42890175 AAAATCATAAAAAAATTAAAAAATTATA
1 AAAATTATAAAAAAATT-AAAAA-TATA
*
42890203 AATAATTATAAAAATATTAAAAATATA
1 AA-AATTATAAAAAAATTAAAAATATA
* * *
42890230 AAAATTATAGAAAATTTTAAAAT
1 AAAATTATAAAAAAATTAAAAAT
42890253 GTTATAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 17 0.40
27 6 0.14
28 7 0.16
29 13 0.30
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (26 bp):
AAAATTATAAAAAAATTAAAAATATA
Found at i:42893549 original size:21 final size:20
Alignment explanation
Indices: 42893516--42893565 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
42893506 AATATTTTTT
*
42893516 TAAAAAAATAAATACATAAA
1 TAAAAAAACAAATACATAAA
* *
42893536 TAAAAACAACAAATATATATA
1 TAAAAA-AACAAATACATAAA
42893557 TAAATAAAA
1 TAAA-AAAA
42893566 ACTAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 17 0.68
22 2 0.08
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAAAAAACAAATACATAAA
Found at i:42894220 original size:22 final size:21
Alignment explanation
Indices: 42894185--42894261 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
42894175 AAAGGGTATC
* *
42894185 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
42894206 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
42894229 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
42894248 TGCATATCATATCT
1 TACAAATCATATCT
42894262 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 4 0.08
22 15 0.31
23 11 0.23
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:42894228 original size:23 final size:22
Alignment explanation
Indices: 42894185--42894242 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
42894175 AAAGGGTATC
* *
42894185 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
42894206 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
42894229 TACATATCATATCT
1 TACAAATCATATCT
42894243 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:42894245 original size:19 final size:19
Alignment explanation
Indices: 42894198--42894274 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
42894188 AAATTAAATC
*
42894198 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
42894218 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
42894240 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
42894259 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
42894275 TTCGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:42894846 original size:174 final size:176
Alignment explanation
Indices: 42894577--42894916 Score: 431
Period size: 174 Copynumber: 1.9 Consensus size: 176
42894567 TCCATCACTC
* * *
42894577 TAATCCACTCCACTACAACTTAGGGAGACAGGATTTGTTTATTTAGTATGCCCCACTGCAATTTC
1 TAATCCACTCCACTACAACTTAAGGAGACAGGATTTGTTTATTTAGTATACCCCACTGCAACTTC
* * ** * * *
42894642 AGGGGGATAATGCTTGCTTTTTTGAGTCTG-CTCCACTGCAACTTC-AGGGAGATAAGACTCGA-
66 AGGGAGATAATGATTGCCATCTTCAGTCTGCCT-CACTGCAACTTCAAGAG-GATAAGACTCGAT
* *
42894704 T-GTGA-TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTT
129 TACTGAGTCTACTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTT
* *
42894750 TAATCCGCTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATACCCCACTGCAACTT
1 TAATCCACTCCACTACAACTT-AAGGAGACAGGATTTGTTTATTTAGTATACCCCACTGCAACTT
* *
42894815 CAGGGAGATAA-GATTCGCCATCTTCAGTCTGCCTTACTGCAACTTCAAGAGGATAAGACTTGAT
65 CAGGGAGATAATGATT-GCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTCGAT
* * *
42894879 TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
129 TACTGAGTCTACTCCACTGCAACTTCAGAGAGATAAGA
42894917 CTAGATGTGA
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
173 22 0.16
174 83 0.59
175 6 0.04
176 2 0.01
177 28 0.20
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (176 bp):
TAATCCACTCCACTACAACTTAAGGAGACAGGATTTGTTTATTTAGTATACCCCACTGCAACTTC
AGGGAGATAATGATTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTCGATTA
CTGAGTCTACTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTT
Found at i:42894860 original size:45 final size:44
Alignment explanation
Indices: 42894584--42895611 Score: 364
Period size: 44 Copynumber: 23.7 Consensus size: 44
42894574 CTCTAATCCA
* * * * * * *
42894584 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * **
42894627 CCCCACTGCAATTTCAGGGGGATAATG-CTTGCTTTTTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAA-GACTTGATTACTT-AGTCTG
* * * *
42894672 CTCCACTGCAACTTCAGGGAGATAAGACTCGA-T-GTGA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * *
42894713 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * * * * *
42894757 CTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
*
42894801 CCCCACTGCAACTTCAGGGAGATAAGA-TTCGCCA-T-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTACTT-AGTCTG
* *
42894846 C-CTTACTGCAACTTCA-AGAGGATAAGACTTGATTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * *
42894890 CTCCACTGCAACTTCAGGGAGATAAGACTAGA-T-GTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * * * **
42894931 CT-CTCTGCAACTTCAGAGAGGTAAGATCTAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * * *
42894974 CTCCACTGTAATTTCAGGAAGATAGGA-TT-ATCGACTTTA-ACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTC-TG
* **
42895018 CTCCACTGCAACTTCAGGGAGATAAGA-TTTACCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTA-CTT-AGTCTG
* * * *
42895063 C-CTCACTACAACTTCA-AGAGGATAAGACTTGA-TGC-GA-TCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * * **
42895104 CT-CTCTGCAACTTCAGAGAGATAAGA-TTCAAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT---GATTACTTAGTCTG
* * ** **
42895147 CTCCACTGCAACTTCAGGAAGATAGGA-TT-ATCGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGAT-TAC-TTAGTCTG
* * *
42895191 TTCCACTGCAACTTCAGGGAGATAAGATTTG-TCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTA-CTT-AGTCTG
* *
42895236 C-CTCACTGCAACTTTA-AGAGGATAAGACTTGATTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * *
42895280 CTCCACTGCAACTTCAGAGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * * * * *
42895321 CT-CTCTACAACTTTAGAGAGATAAGATTTGTGATT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * *
42895364 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATCAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTA-C-TTAGTCTG
* * **
42895408 CTCCACTGCAACCTCAGAGAGATAAGGTTTGCCA-T-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG--ATTACTT-AGTCTG
* * *
42895453 C-CTCACTGCAACTTTA-AGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * *
42895497 CTCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
** ** * * *
42895538 CTCC-CTGCAACTTCAGAAAGATAAGATCCAAGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGATTACTTAGTCTG
* *
42895581 CTCCACTGCAACTTCAGGGAGACAAGGCTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG
42895612 GTGGCTTAAA
Statistics
Matches: 740, Mismatches: 158, Indels: 175
0.69 0.15 0.16
Matches are distributed among these distances:
39 2 0.00
40 84 0.11
41 60 0.08
42 29 0.04
43 49 0.07
44 347 0.47
45 160 0.22
46 8 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
Found at i:42894893 original size:133 final size:129
Alignment explanation
Indices: 42894674--42894911 Score: 304
Period size: 133 Copynumber: 1.8 Consensus size: 129
42894664 TGAGTCTGCT
*
42894674 CCACTGCAACTTCAGGGAGATAAGACTCGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAGACTCGATGTCATCTACTCTACTGCAACTTCAGAGAGATAAG
*
42894739 ATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATACC
66 ATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATACC
* * *
42894803 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGC-CTTACTGCAACTTCA-AGAG
1 CCACTGCAACTTCAGGGAGATAAGACTCG--AT-GTCA-TCTACTC-TACTGCAACTTCAGAGA-
* * *
42894866 GATAAGA-CT-TGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
60 GATAAGATCTGTGATT--TTAATCCGCTCCACTGCAACTTCAAGGAGA
42894912 TAAGACTAGA
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
129 28 0.30
131 6 0.06
132 8 0.09
133 51 0.55
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (129 bp):
CCACTGCAACTTCAGGGAGATAAGACTCGATGTCATCTACTCTACTGCAACTTCAGAGAGATAAG
ATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTTAGTATACC
Found at i:42894956 original size:40 final size:44
Alignment explanation
Indices: 42894850--42894956 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 44
42894840 AGTCTGCCTT
* *
42894850 ACTGCAACTTCA-AGAGGATAAGACTTGATTACTTAGTCTGCTCC
1 ACTGCAACTTCAGAGAGG-TAAGACTAGATTACTGAGTCTGCTCC
* * *
42894894 ACTGCAACTTCAGGGAGATAAGACTAGA-T-GTGA-TCTGCT-C
1 ACTGCAACTTCAGAGAGGTAAGACTAGATTACTGAGTCTGCTCC
*
42894934 TCTGCAACTTCAGAGAGGTAAGA
1 ACTGCAACTTCAGAGAGGTAAGA
42894957 TCTAAGGTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
40 21 0.39
41 6 0.11
42 2 0.04
43 1 0.02
44 21 0.39
45 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGGTAAGACTAGATTACTGAGTCTGCTCC
Found at i:42895028 original size:217 final size:216
Alignment explanation
Indices: 42894665--42895129 Score: 636
Period size: 217 Copynumber: 2.2 Consensus size: 216
42894655 TTGCTTTTTT
*
42894665 GAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATGTGATCTACTCTACTGCAACTTCAG
1 GAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTACTCTACTGCAACTTCAG
** * ** *
42894730 AGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATTT
66 AGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGACAGGATTTGACTATTA
* * * *
42894795 AGTATACCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTTACTGCAACTT
131 ACTATACCCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCTCACTACAACTT
42894860 CAAGAGGATAAGACTTGATTAC
196 CAAGAGGATAAGACTTGA-TAC
* *
42894882 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCT-CTGCAACTTCA
1 -GAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTACTCTACTGCAACTTCA
* * * *
42894946 GAGAGGTAAGATCTAAGGTTTTAATCCACTCCACTGTAATTTC-AGGAAGATAGGATTATCGACT
65 GAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGACAGGATT-T-GACT
* * *
42895010 -TTAACT-TGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTACA
127 ATTAACTATACCCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCTCACTACA
*
42895073 ACTTCAAGAGGATAAGACTTGATGC
192 ACTTCAAGAGGATAAGACTTGATAC
* *
42895098 GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA
1 GAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
42895130 TTCAAGGTTT
Statistics
Matches: 220, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
213 22 0.10
214 6 0.03
215 1 0.00
216 5 0.02
217 130 0.59
218 54 0.25
219 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
GAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTACTCTACTGCAACTTCAG
AGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGACAGGATTTGACTATTA
ACTATACCCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCTCACTACAACTT
CAAGAGGATAAGACTTGATAC
Found at i:42895077 original size:173 final size:173
Alignment explanation
Indices: 42894884--42895306 Score: 609
Period size: 173 Copynumber: 2.4 Consensus size: 173
42894874 TTGATTACTT
* *
42894884 AGTCTG-CTCCACTGCAACTTC-AGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAG
1 AGTCTGCCT-CACTGCAACTTCAAGAG-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * *
42894947 AGAGGTAAGA-TCTAAGGTTTTAATCCACTCCACTGTAATTTCAGGAAGATAGGATTATCGACTT
64 AGAGATAAGATTC-AAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTT
*
42895011 TAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
128 TAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
* *
42895057 AGTCTGCCTCACTACAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*
42895122 AGATAAGATTCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAA
66 AGATAAGATTCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAA
* **
42895187 CCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTC
131 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
* * * * *
42895230 AGTCTGCCTCACTGCAACTTTAAGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTAGA-TGC-GA-TCTGCT-CTCTGCAACTTC
42895295 AGAGAGATAAGA
62 AGAGAGATAAGA
42895307 CTAGATGCGA
Statistics
Matches: 226, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
173 187 0.83
174 9 0.04
175 1 0.00
176 6 0.03
177 23 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (173 bp):
AGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATTCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGACTTTAA
CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
Found at i:42895158 original size:217 final size:217
Alignment explanation
Indices: 42894717--42895602 Score: 789
Period size: 217 Copynumber: 4.1 Consensus size: 217
42894707 GATCTACTCT
* * *
42894717 ACTGCAACTTCAGAGAGATAAGATCTGT-GGTTTTAATCCGCTCCACTGCAACTTCAAGG-AGAC
1 ACTGCAACTTCAGAGAGATAAGAT-TATAGGCTTTAATCCGCTCCACTGCAACTTC-AGGAAGAT
* * * * * **
42894780 AGGATTTGTTTAT-TT-AGTATACCCCACTGCAACTTC-AGGGAGATAAGATTCGCCATCTTCAG
64 AGGATTTG-TCATCTTCAGTCTGCCTCACTGCAACTTCAAGAG-GATAAGATTTACCATCTT-AG
* * * * *
42894842 TCTGC-CTTACTGCAACTTCA-AGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTC
126 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTAGA-TGC-GA-TCTGCT-CTCTGCAACTTC
* * * * * *
42894905 AGGGAGATAAGA--CTA-GATGTGATCTGCT-C
185 AGAGAGATAAGATTCAAGGTTTTAATCCGCTCC
* * * * * *
42894934 TCTGCAACTTCAGAGAGGTAAGATCTA-AGGTTTTAATCCACTCCACTGTAATTTCAGGAAGATA
1 ACTGCAACTTCAGAGAGATAAGAT-TATAGGCTTTAATCCGCTCCACTGCAACTTCAGGAAGATA
* * * *
42894998 GGA-TTATCGA-CTTTA-ACTTG-CTCCACTGCAACTTC-AGGGAGATAAGATTTACCATCTTCA
65 GGATTTGTC-ATCTTCAGTC-TGCCT-CACTGCAACTTCAAGAG-GATAAGATTTACCATCTT-A
* *
42895058 GTCTGC-CTCACTACAACTTCA-AGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGA
125 GTCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
*
42895121 GAGATAAGATTCAAGGTTTTAATCCACTCC
188 GAGATAAGATTCAAGGTTTTAATCCGCTCC
* * * *
42895151 ACTGCAACTTCAG-GAAGATAGGATTATCGGCTTTAA-CCTGTTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAGAG-AGATAAGATTATAGGCTTTAATCC-GCTCCACTGCAACTTCAGGAAGAT
* * * **
42895214 AAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTTAAGAGGATAAGACTTGATTA-CTTAGTC
64 AGGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGA-TTTACCATCTTAGTC
* *
42895278 TGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTTAGAGAGAT
128 TGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
*** *
42895343 AAGATTTGTGATTTTAATCCGCTCC
193 AAGATTCAAGGTTTTAATCCGCTCC
* * * *
42895368 ACTGCAACTTCAGGGAGATAGGATTATCA-GCTTTAATCTGCTCCACTGCAACCTCA-GAGAGAT
1 ACTGCAACTTCAGAGAGATAAGATTAT-AGGCTTTAATCCGCTCCACTGCAACTTCAGGA-AGAT
* * * * *
42895431 AAGG-TTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAAGAGGATAAGACTT-GCTTACTTAGT
64 -AGGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGATTTACCAT-CTTAGT
* * *
42895494 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCCCTGCAACTTCAGAAAGA
127 CTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
*
42895559 TAAGATCCAAGGTTTTAATCCGCTCC
192 TAAGATTCAAGGTTTTAATCCGCTCC
*
42895585 ACTGCAACTTCAGGGAGA
1 ACTGCAACTTCAGAGAGA
42895603 CAAGGCTTGG
Statistics
Matches: 563, Mismatches: 77, Indels: 58
0.81 0.11 0.08
Matches are distributed among these distances:
213 22 0.04
214 6 0.01
215 4 0.01
216 26 0.05
217 456 0.81
218 39 0.07
219 10 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
ACTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCACTGCAACTTCAGGAAGATAG
GATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGATTTACCATCTTAGTCTGC
TCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATTCAAGGTTTTAATCCGCTCC
Found at i:42895257 original size:390 final size:389
Alignment explanation
Indices: 42894666--42895483 Score: 1152
Period size: 390 Copynumber: 2.1 Consensus size: 389
42894656 TGCTTTTTTG
* * *
42894666 AGTCTG-CTCCACTGCAACTTC-AGGGAGATAAGACTCGATGTGATCTACTCTACTGCAACTTCA
1 AGTCTGCCT-CACTGCAACTTCAAGAG-GATAAGACTTGATGCGATCTACTCTACTGCAACTTCA
** * **
42894729 GAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGACAGGATTTGTTTATT
64 GAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGACAGGATTTGTTTACC
*
42894794 TAGTATACCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTTACTGCAACT
129 TAGTAT--CCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACT
*
42894859 TCAAGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATG
192 TCAAGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATG
* * * * * *
42894924 TGATCTGCTCTCTGCAACTTCAGAGAGGTAAGATCTAAGGTTTTAATCCACTCCACTGTAATTTC
257 CGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTC
* *
42894989 AGGAAGATAGGATTATC-GACTTTAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCA
322 AGGAAGATAGGATTATCAG-CTTTAATC-TGCTCCACTGCAACCTCAGAGAGATAAGATTTACCA
42895052 TCTTC
385 TCTTC
* *
42895057 AGTCTGCCTCACTACAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCT-CTGCAACTTCAGA
1 AGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGA
*
42895121 GAGATAAGAT-TCAAGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTATCGGCTT
66 GAGATAAGATCT-AAGGTTTTAATCCACTCCACTGCAACTTCAAGG-AGACAGGATT-T--G-TT
* *
42895184 TAACCT-GT-T-CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCA
125 T-ACCTAGTATCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCA
*
42895246 ACTTTAAGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG
189 ACTTCAAGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG
* * ** *
42895311 ATGCGATCTGCTCTCTACAACTTTAGAGAGATAAGATTTGTGATTTTAATCCGCTCCACTGCAAC
254 ATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAAC
* * *
42895376 TTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACCTCAGAGAGATAAGGTTTGCC
319 TTCAGGAAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACCTCAGAGAGATAAGATTTACC
42895441 ATCTTC
384 ATCTTC
*
42895447 AGTCTGCCTCACTGCAACTTTAAGAGGATAAGACTTG
1 AGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTG
42895484 CTTACTTAGT
Statistics
Matches: 382, Mismatches: 34, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
389 4 0.01
390 322 0.84
391 42 0.11
392 5 0.01
393 2 0.01
394 5 0.01
395 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (389 bp):
AGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGA
GAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAAGGAGACAGGATTTGTTTACCTA
GTATCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAA
GAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGAT
CTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGA
AGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACCTCAGAGAGATAAGATTTACCATCTTC
Found at i:42895371 original size:173 final size:172
Alignment explanation
Indices: 42894884--42895392 Score: 514
Period size: 173 Copynumber: 2.9 Consensus size: 172
42894874 TTGATTACTT
* * * ** *
42894884 AGTCTG-CTCCACTGCAACTTC-AGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAG
1 AGTCTGCCT-CACTACAACTTCAAGAG-GATAAGACTTGATACGATCTGCTCACTGCAACTTCAG
* * ** ** * * *
42894947 AGAGGTAAGATCTAAGGTTTTAATCCACTCCACTGTAATTTCAGGAAGATAGGATTATCGACTTT
64 AGAGATAAGATC-AAGGATGCAATCCACTCCACTACAACTTCAGGAAGATAAGATTATCGGCTTT
*
42895012 AACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
128 AACCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
* *
42895057 AGTCTGCCTCACTACAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCCTCACTACAACTTCAAGAGGATAAGACTTGATACGATCTGCTCACTGCAACTTCAGAG
* ** * *
42895122 AGATAAGATTCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAA
66 AGATAAGA-TCAAGGATGCAATCCACTCCACTACAACTTCAGGAAGATAAGATTATCGGCTTTAA
* **
42895187 CCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTC
130 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
* * *
42895230 AGTCTGCCTCACTGCAACTTTAAGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTACAACTTCAAGAGGATAAGACTTGA-TAC-GA-TCTGCT-CACTGCAACTTC
* * ** * *
42895295 AGAGAGATAAGA-CTA-GATGCGATCTGCT-CTCTACAACTTTA-GAGAGATAAGATT-T-GTGA
62 AGAGAGATAAGATCAAGGATGCAATCCACTCCACTACAACTTCAGGA-AGATAAGATTATCG-G-
* *
42895354 TTTTAATCC-GCTCCACTGCAACTTCAGGGAGATAGGATT
124 CTTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGATT
42895393 ATCAGCTTTA
Statistics
Matches: 294, Mismatches: 31, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
171 1 0.00
172 4 0.01
173 239 0.81
174 18 0.06
175 3 0.01
176 6 0.02
177 23 0.08
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (172 bp):
AGTCTGCCTCACTACAACTTCAAGAGGATAAGACTTGATACGATCTGCTCACTGCAACTTCAGAG
AGATAAGATCAAGGATGCAATCCACTCCACTACAACTTCAGGAAGATAAGATTATCGGCTTTAAC
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTC
Found at i:42895548 original size:390 final size:389
Alignment explanation
Indices: 42894803--42895602 Score: 1101
Period size: 390 Copynumber: 2.1 Consensus size: 389
42894793 TTAGTATACC
*
42894803 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTTACTGCAACTTCAAGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
* *
42894868 TAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCT
66 TAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
* * * * *
42894933 CTCTGCAACTTCAGAGAGGTAAGATCTAAGGTTTTAATCCACTCCACTGTAATTTCAGGAAGATA
131 CTCTACAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATA
* *
42894998 GGATTATCGACTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTG
196 GGATTATCGACTTTAACTTGCTCCACTGCAACCTCAGAGAGATAAGATTTACCATCTTCAGTCTG
* *
42895063 CCTCACTACAACTTCAAGAGGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
261 CCTCACTACAACTTCAAGAGGATAAGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAA
* ** * * * *
42895128 GATTCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGAT-TATCGGCTTTAA-CCTG
326 GA-TCAAGGATGCAATCCACTCCACTGCAACTTCAGAAAGATAAGATCCA-AGGCTTTAATCC-G
*
42895191 TT
388 CT
* * *
42895193 CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTTAAGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
42895258 TAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
66 TAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
* * ** * *
42895323 CTCTACAACTTTAGAGAGATAAGATTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
131 CTCTACAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATA
* *
42895388 GGATTATC-AGCTTTAA-TCTGCTCCACTGCAACCTCAGAGAGATAAGGTTTGCCATCTTCAGTC
196 GGATTATCGA-CTTTAACT-TGCTCCACTGCAACCTCAGAGAGATAAGATTTACCATCTTCAGTC
* * * * *
42895451 TGCCTCACTGCAACTTTAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGG
259 TGCCTCACTACAACTTCAAGAGGATAAGACTTG-ATAC-GA-TCTGCT-CACTGCAACTTCAGAG
* * ** *
42895516 AGATAAGA-CTA-GATGCGATCTGCTCC-CTGCAACTTCAGAAAGATAAGATCCAAGGTTTTAAT
320 AGATAAGATCAAGGATGCAATCCACTCCACTGCAACTTCAGAAAGATAAGATCCAAGGCTTTAAT
42895578 CCGCT
385 CCGCT
42895583 CCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGAGA
42895603 CAAGGCTTGG
Statistics
Matches: 361, Mismatches: 41, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
389 2 0.01
390 314 0.87
391 14 0.04
392 3 0.01
393 6 0.02
394 22 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (389 bp):
CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
TAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
CTCTACAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATA
GGATTATCGACTTTAACTTGCTCCACTGCAACCTCAGAGAGATAAGATTTACCATCTTCAGTCTG
CCTCACTACAACTTCAAGAGGATAAGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAA
GATCAAGGATGCAATCCACTCCACTGCAACTTCAGAAAGATAAGATCCAAGGCTTTAATCCGCT
Found at i:42895745 original size:132 final size:132
Alignment explanation
Indices: 42895594--42896006 Score: 673
Period size: 132 Copynumber: 3.1 Consensus size: 132
42895584 CACTGCAACT
* *
42895594 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGTTTCCCACTATCTTGGAAAGATATGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
42895659 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
42895724 GC
131 GC
* * *
42895726 TTAGGGGGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
** * *
42895791 TCTTTAATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCC
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
42895856 GC
131 GC
* *
42895858 TCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* ** * *
42895923 TCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGGTCCTCAACCTACTCCGCTGTT
66 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
42895988 GC
131 GC
42895990 TCAGGGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
42896007 AGTGTTTCAC
Statistics
Matches: 257, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 257 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:42898064 original size:25 final size:25
Alignment explanation
Indices: 42898023--42898089 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
42898013 ATGGAAGAAG
42898023 ATTCG-AAAGAATGAAAGTATAATT
1 ATTCGAAAAGAATGAAAGTATAATT
*
42898047 ATTCGAAAAAAATGAAAGTATAATT
1 ATTCGAAAAGAATGAAAGTATAATT
42898072 ATTCGAAAAGAATGAAAG
1 ATTCGAAAAGAATGAAAG
42898090 AATATTGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 5 0.12
25 35 0.88
ACGTcount: A:0.54, C:0.04, G:0.16, T:0.25
Consensus pattern (25 bp):
ATTCGAAAAGAATGAAAGTATAATT
Found at i:42902313 original size:4 final size:4
Alignment explanation
Indices: 42902304--42902380 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 4
42902294 GATTTGTTTT
* * *
42902304 AATA AATA AATA AATA AATA AAAA CAACA AATA TATATA AATA AA-A ATTA
1 AATA AATA AATA AATA AATA AATA -AATA AATA -A-ATA AATA AATA AATA
* * *
42902354 ATTA AA-A AATAA AAGA AATA ATTA AAT
1 AATA AATA AAT-A AATA AATA AATA AAT
42902381 TATGGAAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
3 5 0.09
4 42 0.72
5 8 0.14
6 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:42902996 original size:23 final size:22
Alignment explanation
Indices: 42902953--42903010 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
42902943 AAAGGGTACC
* *
42902953 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
42902974 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
42902997 TACATATCATATCT
1 TACAAATCATATCT
42903011 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:42903013 original size:19 final size:19
Alignment explanation
Indices: 42902966--42903044 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
42902956 AAATTAAATC
*
42902966 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
42902986 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
42903008 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
42903029 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
42903045 TTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:42903026 original size:21 final size:21
Alignment explanation
Indices: 42903000--42903043 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
42902990 CTAAGATTAC
42903000 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
42903021 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
42903042 AT
1 AT
42903044 CTTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:42907920 original size:24 final size:23
Alignment explanation
Indices: 42907893--42907947 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
42907883 CGTTAATAAT
*
42907893 AATATAATTAAAATTTCAATATTA
1 AATATAATTAAAATTACAAT-TTA
* *
42907917 AATATCATTAACATTACAATTTA
1 AATATAATTAAAATTACAATTTA
42907940 ACATATAA
1 A-ATATAA
42907948 AGATTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAATTAAAATTACAATTTA
Found at i:42909218 original size:11 final size:11
Alignment explanation
Indices: 42909167--42909219 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
42909157 ACATTAGCGA
*
42909167 AAAAAATAAAT
1 AAAATATAAAT
*
42909178 AAATTATAAAT
1 AAAATATAAAT
42909189 AAATACATATGAAAT
1 -AA-A-ATAT-AAAT
42909204 AAAATATAAAT
1 AAAATATAAAT
42909215 AAAAT
1 AAAAT
42909220 GATTTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 18 0.51
12 6 0.17
13 2 0.06
14 5 0.14
15 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:42912692 original size:30 final size:30
Alignment explanation
Indices: 42912646--42912703 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
42912636 TCTGAGCTTT
42912646 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
* * * *
42912676 GGGGGAAAATTGTAATTTTGTCAAAGTT
1 GGGGCAAAAGTGTAATTATGTAAAAGTT
42912704 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGTAAAAGTTTA
Found at i:42913154 original size:50 final size:52
Alignment explanation
Indices: 42913046--42913188 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 52
42913036 GGTAAAGAGA
* ** *
42913046 TCCCATGTAAGACCATGTCTGGGACATGACATTGGTATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACCGAGG-TATGAAAGG
*
42913102 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-G-ATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGGTATGAAAGG
** *
42913152 TCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42913189 TGTTATTATC
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 41 0.52
52 1 0.01
53 4 0.05
56 33 0.42
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGGTATGAAAGG
Found at i:42914100 original size:20 final size:21
Alignment explanation
Indices: 42914075--42914116 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
42914065 TTTTACAAAA
42914075 ATATTTAT-GAGTTTTAATTG
1 ATATTTATAGAGTTTTAATTG
* *
42914095 ATATTTATAGATTTTTTATTG
1 ATATTTATAGAGTTTTAATTG
42914116 A
1 A
42914117 GTCTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
ATATTTATAGAGTTTTAATTG
Found at i:42919803 original size:56 final size:56
Alignment explanation
Indices: 42919712--42919965 Score: 280
Period size: 56 Copynumber: 4.8 Consensus size: 56
42919702 ATTTGGGTGA
* * *
42919712 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
* *
42919768 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
* * *
42919824 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA-C--CGA-G--ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
** * *
42919874 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGA---TATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
** * *
42919924 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42919966 GTATAAGAAA
Statistics
Matches: 175, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
50 82 0.47
52 1 0.01
53 2 0.01
56 90 0.51
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (56 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATG
Found at i:42919879 original size:50 final size:50
Alignment explanation
Indices: 42919712--42920014 Score: 259
Period size: 56 Copynumber: 5.8 Consensus size: 50
42919702 ATTTGGGTGA
* * * *
42919712 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* **
42919768 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATG
* *
42919824 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
42919874 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
42919924 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
42919973 AAACATCCCATGTAAGACCATGTCTGCGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42920015 TGTTATTATC
Statistics
Matches: 212, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.00
49 39 0.18
50 82 0.39
52 1 0.00
53 3 0.01
56 85 0.40
59 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:42919908 original size:106 final size:110
Alignment explanation
Indices: 42919712--42919915 Score: 281
Period size: 106 Copynumber: 1.9 Consensus size: 110
42919702 ATTTGGGTGA
*
42919712 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCATTGAGGTTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCA-CGAGG-TATGAGAGGTCCC
* *
42919777 ATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAGGTTATG
64 ACGTAAGACCATGTCTAGGACATGGCATGGGCATTATTGAGGTTATG
* * * * *
42919824 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA-C-CGA-G-ATGAGAGGTCCCCC
1 AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCACGAGGTATGAGAGGTCCCAC
*
42919885 GTAAGACCATGTCTGGGACATGGCATGGGCA
66 GTAAGACCATGTCTAGGACATGGCATGGGCA
42919916 CCGATATGAG
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
106 41 0.49
108 1 0.01
109 2 0.02
111 1 0.01
112 38 0.46
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (110 bp):
AGAGATCCCATGTAAGACCATGTGTGGGACATGGCATTAGCATCACGAGGTATGAGAGGTCCCAC
GTAAGACCATGTCTAGGACATGGCATGGGCATTATTGAGGTTATG
Found at i:42920007 original size:49 final size:49
Alignment explanation
Indices: 42919829--42920014 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 49
42919819 TTATGAGAGG
* * * * **
42919829 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAAGAGAAC
** * *
42919879 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAAGAGAAC
* *
42919929 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTATAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ATAAGAGAAC
* *
42919977 ATCCCATGTAAGACCATGTCTGCGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42920015 TGTTATTATC
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.03
49 38 0.33
50 74 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGATAAGAGAAC
Found at i:42922795 original size:87 final size:87
Alignment explanation
Indices: 42922563--42922845 Score: 281
Period size: 87 Copynumber: 3.3 Consensus size: 87
42922553 GTTAAACAGC
* * * * * * *
42922563 GGGAATAAATCCTGACATAGATTTTTATTTAATTTAA-TTC-GA-ATTTGGAAAAAAAATAAAAT
1 GGGAATAAATCCCGAAACAGA-TTTTATTTAATTTAATTTCTCATTTTTGGCAAAAAAATCAAAT
* * *
42922625 CAAATAAAATC-TTCTTAAACGGC
65 CAAAT-AAATCTTTATTAAATGGT
* * * * * * *
42922648 GGGAATAAATCTCGAAACAAATTTTATTTAATTTAATTTCTCGTTTCTAGCAATATAATCAAATC
1 GGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGGCAAAAAAATCAAATC
42922713 AAATAAATCTTTATTAAATGGT
66 AAATAAATCTTTATTAAATGGT
*
42922735 GGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGGCAACAAAATCAAAAT
1 GGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGGCAAAAAAATC-AAAT
** ** *
42922800 GTAATAAA--TTCGTTGAATGGT
65 CAAATAAATCTTTATTAAATGGT
*
42922821 GGGAATCAATCCCGAAACAGATTTT
1 GGGAATAAATCCCGAAACAGATTTT
42922846 GTTTTACTCA
Statistics
Matches: 163, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
84 15 0.09
85 19 0.12
86 39 0.24
87 80 0.49
88 10 0.06
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (87 bp):
GGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGGCAAAAAAATCAAATC
AAATAAATCTTTATTAAATGGT
Found at i:42925714 original size:56 final size:50
Alignment explanation
Indices: 42925639--42925765 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 50
42925629 AGACCCCATG
42925639 TAAGACCATGTCTGGGACATGACATTGGTATTATTGAGGTTATGAGAGGTCCCACA
1 TAAGACCATGTCTGGGACATGACATTGG---TATTGAGG---TGAGAGGTCCCACA
* *** * *
42925695 TAAGACCATGTCTGAGACATGGTGTTGGTATTGAGGTGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGACATTGGTATTGAGGTGAGAGGTCCCACA
42925745 TAAGACCATGTCTGGGACATG
1 TAAGACCATGTCTGGGACATG
42925766 GCATGGGCGC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
50 32 0.50
53 8 0.12
56 24 0.38
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGACATTGGTATTGAGGTGAGAGGTCCCACA
Found at i:42932180 original size:27 final size:27
Alignment explanation
Indices: 42932149--42932326 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
42932139 TAAATTGTAC
42932149 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
42932176 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42932202 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
42932230 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
42932258 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42932285 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
42932312 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42932327 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:42932263 original size:82 final size:81
Alignment explanation
Indices: 42932150--42932305 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
42932140 AAATTGTACA
*
42932150 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
42932214 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42932231 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
42932296 TGCGAGTTGA
65 TGCGAATTGA
42932306 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42932317 original size:82 final size:81
Alignment explanation
Indices: 42932146--42932326 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
42932136 GATTAAATTG
*
42932146 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
42932211 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42932227 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
42932291 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42932309 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42932327 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42937211 original size:50 final size:50
Alignment explanation
Indices: 42937106--42937212 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
42937096 TTATTGAGGT
* *
42937106 TATGAGGGGTCCCACGTAAGACCAAGTCTGGGACATGGCATTGGTACTGA
1 TATGAGAGGTCCCACGTAAGACCAAGTCTAGGACATGGCATTGGTACTGA
* * * *
42937156 GATGAGAGGTCCCCCGTAAGACTAGGTCTAGGACATGGCA-TGGTCACCT-A
1 TATGAGAGGTCCCACGTAAGACCAAGTCTAGGACATGGCATTGGT-A-CTGA
42937206 TATGAGA
1 TATGAGA
42937213 ACACACATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.08
50 42 0.88
51 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCAAGTCTAGGACATGGCATTGGTACTGA
Found at i:42951992 original size:42 final size:44
Alignment explanation
Indices: 42951931--42952040 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 44
42951921 GATTTAATAT
* *
42951931 TTACGTGTAAGACCATGTCTGGGACAT-TGACGTCG-TATATGA
1 TTACGTGTAAGACCCTGTCTGGGACATGTGACATCGTTATATGA
* *
42951973 TTACGTGTAAGACCCTGTCTGGGA-GTGTGACATCGTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACATGTGACATCGTTATATGA
* * *
42952016 TTACATATAAGACCCTGTATGGGAC
1 TTACGTGTAAGACCCTGTCTGGGAC
42952041 GTTGCCGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 30 0.52
43 27 0.47
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TTACGTGTAAGACCCTGTCTGGGACATGTGACATCGTTATATGA
Found at i:42952028 original size:43 final size:42
Alignment explanation
Indices: 42951938--42952040 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 42
42951928 TATTTACGTG
* * * *
42951938 TAAGACCATGTCTGGGACATTGACGTCGTATATGATTACGTG
1 TAAGACCCTGTCTGGGACATTGACATCGTATATGATTACATA
* *
42951980 TAAGACCCTGTCTGGGA-GTGTGACATCGTTATTTGATTACATA
1 TAAGACCCTGTCTGGGACAT-TGACATCG-TATATGATTACATA
*
42952023 TAAGACCCTGTATGGGAC
1 TAAGACCCTGTCTGGGAC
42952041 GTTGCCGTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 23 0.45
43 27 0.53
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACATTGACATCGTATATGATTACATA
Found at i:42955354 original size:21 final size:22
Alignment explanation
Indices: 42955311--42955361 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
42955301 ACCTGCAATC
42955311 AAACACATTTAAACAAACATATT
1 AAACACATTTAAAC-AACATATT
* *
42955334 AATCACATTTAAAC-TCATATT
1 AAACACATTTAAACAACATATT
42955355 AAACACA
1 AAACACA
42955362 AAACACATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (22 bp):
AAACACATTTAAACAACATATT
Found at i:42955356 original size:11 final size:11
Alignment explanation
Indices: 42955311--42955361 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
42955301 ACCTGCAATC
42955311 AAACACAT-TT
1 AAACACATATT
42955321 AAACAAACATATT
1 AAAC--ACATATT
*
42955334 AATCACAT-TT
1 AAACACATATT
*
42955344 AAACTCATATT
1 AAACACATATT
42955355 AAACACA
1 AAACACA
42955362 AAACACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 12 0.36
11 12 0.36
12 4 0.12
13 5 0.15
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (11 bp):
AAACACATATT
Found at i:42963142 original size:18 final size:20
Alignment explanation
Indices: 42963119--42963165 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
42963109 TAAAAATACG
*
42963119 TATATA-AAGATATATA-TA
1 TATATATAAGATATAAAGTA
42963137 TATATAATAAGATATAAAGTA
1 TATAT-ATAAGATATAAAGTA
42963158 TATATATA
1 TATATATA
42963166 TATATATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 1 0.04
20 12 0.48
21 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TATATATAAGATATAAAGTA
Found at i:42963187 original size:27 final size:28
Alignment explanation
Indices: 42963120--42963192 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
42963110 AAAAATACGT
* *
42963120 ATATAAAGATATATATATATATAATAAG
1 ATATAAAAATATATATATATATAATAAA
*
42963148 ATAT-AAAGTATATATATATATATATGAAA
1 ATATAAAAATATATATATATATA-AT-AAA
*
42963177 AT-TAAAAATATGTATA
1 ATATAAAAATATATATA
42963193 GACGTGTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 16 0.43
28 7 0.19
29 14 0.38
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (28 bp):
ATATAAAAATATATATATATATAATAAA
Found at i:42965043 original size:45 final size:44
Alignment explanation
Indices: 42964987--42965108 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 44
42964977 ATTCGTAGCT
* * * *
42964987 GATCTGGTCCACTGCAACTTCAGGGAGGTAAGGTTTGTGGTTTTC
1 GATCTGCTCCACTACAACTT-AGGGAGATAAGATTTGTGGTTTTC
**
42965032 GATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTTTC
1 GATCTGCTCCACTACAACTTAGGGAGATAAGATTTGTGGTTTTC
* * **
42965076 GGTCTGCTCCATTACTGCTTAGGGAGATAAGAT
1 GATCTGCTCCACTACAACTTAGGGAGATAAGAT
42965109 CTACAATCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
44 53 0.77
45 16 0.23
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (44 bp):
GATCTGCTCCACTACAACTTAGGGAGATAAGATTTGTGGTTTTC
Found at i:42965182 original size:87 final size:87
Alignment explanation
Indices: 42965072--42965888 Score: 558
Period size: 87 Copynumber: 9.4 Consensus size: 87
42965062 GATTTGTGGT
* *
42965072 TTTCGGTCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTG
*
42965137 CTCAGGGAGATAGGGCTGGTGC
66 CTCAGGGAGATAAGGCTGGTGC
* * * * *
42965159 TTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATCTACAATCTTCGACCTACTTCGCTGTTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTG
*
42965224 CCCAGGGAGATAAGGCTGGTGC
66 CTCAGGGAGATAAGGCTGGTGC
* * * * *
42965246 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-GCTGC--TGCTTTTGATCTACTCCACTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-C-TTTGACCTACTCCGCTGC
* * * *
42965308 TGCTTAGGGAGATAA-GAT-CTAC
64 TGCTCAGGGAGATAAGGCTGGTGC
* * * * * * * * * *
42965330 AATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGT-T--AGTGCTTTCAATCTGCTCCGC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-CTTT-GACCTACTCCGC
** * * * *
42965392 TATTGCTTAGGGAGATAA-GAT-CTAC
61 TGCTGCTCAGGGAGATAAGGCTGGTGC
* * * * * * * ** * * *
42965417 AATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAG-GCT--GGTGCTTTCGATCTGC-CCTA
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-CTTT-GACCTACTCC-G
* * * * * *
42965478 CTACTTCTTAGGGAGATAA-GAT-CTAC
60 CTGCTGCTCAGGGAGATAAGGCTGGTGC
* * ** * ** * * ** * * *
42965504 AATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAG-GCT--GGTGCTTTCGATCTGCTCCAC
1 --T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-CTTT-GACCTACTCCGC
* * *
42965566 TACTGCTTAGGGAGATAAGGCTGCTGC
61 TGCTGCTCAGGGAGATAAGGCTGGTGC
* * * *
42965593 TTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTGCTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTG
* *
42965658 CTCAGGGAGATAAGGTTAGTGC
66 CTCAGGGAGATAAGGCTGGTGC
* * * *
42965680 TTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTG
*
42965745 CTCAAGGAGATAAGGCTGGTGC
66 CTCAGGGAGATAAGGCTGGTGC
* * *
42965767 TTTCGATCTGC-CCTACTACTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCT
1 TTTCGATCTGCTCC-ACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCT
* *
42965831 GCCCAGGGAGGTAAGGCTGGTGC
65 GCTCAGGGAGATAAGGCTGGTGC
42965854 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
42965889 GCTGGTACTT
Statistics
Matches: 624, Mismatches: 87, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
84 3 0.00
85 3 0.00
86 62 0.10
87 543 0.87
88 9 0.01
89 4 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (87 bp):
TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTG
CTCAGGGAGATAAGGCTGGTGC
Found at i:42965190 original size:43 final size:43
Alignment explanation
Indices: 42965028--42966192 Score: 577
Period size: 43 Copynumber: 26.8 Consensus size: 43
42965018 GGTTTGTGGT
* ** *
42965028 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTG-TGGT
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAG-GCTGCT-GC
* * * * *
42965072 TTTCGGTCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAAT-C
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAG-GCTGC--TGC
* * * * * *
42965117 TTT-GACCTACTCCGCTGCTGCTCAGGGAGATAGGGCTGGTGC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * *
42965159 TTTCGATCTGCTCTACTACTGCTTAGAGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * ** ** *
42965200 AATCTTCGACCTACTTCGCTGTTGCCCAGGGAGATAAGGCTGGTGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
*
42965246 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * *
42965289 TTTTGATCTACTCCACTACTGCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * *
42965330 AATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGTTAG-TGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCT-GCTGC
* * * * * *
42965376 TTTCAATCTGCTCCGCTATTGCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * *
42965417 AATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * *
42965463 TTTCGATCTGC-CCTACTACTTCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCC-ACTACTGCTTAGGGAGATAAGGCTGCTGC
* ** * ** * *
42965504 AATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAGGCTGGTGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
*
42965550 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * *
42965593 TTTTGATCTACTCCACTACTGCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * *
42965634 AATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGTTAG-TGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCT-GCTGC
* * * * * *
42965680 TTTCAATCTGCTCCGCTATTGCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * *
42965721 AATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * *
42965767 TTTCGATCTGC-CCTACTACTTCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCC-ACTACTGCTTAGGGAGATAAGGCTGCTGC
* ** * ** * *
42965808 AATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAGGCTGGTGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * *
42965854 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGGTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * *
42965897 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * *
42965938 AATCTTCGACCTTCTCCGCTGCTGATCAGGGAGATAAGGCTAG-TGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCT-GCTGC
* * * *
42965984 TTTCGATCTGCTCCGCTACTGCTTAGGGAGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * * *
42966025 AATCTTCGACCTACTCCGCTACTGCTCAAGGAGATAAGACTGGTCC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * * * * * *
42966071 TTTGGATTTGCTCCACTACTACTTTGGGTGATAA-GAT-CTAC
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* * * *
42966112 AATCTTCGACCTACTCCGCTGCTGCTTAGGGAGATAAGGCTGGTGC
1 --T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
* *
42966158 TTTCGGTCTGCTCCACTACTGCTTAGGGAGATAAG
1 TTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
42966193 ATTTACAATC
Statistics
Matches: 829, Mismatches: 227, Indels: 131
0.70 0.19 0.11
Matches are distributed among these distances:
41 24 0.03
42 27 0.03
43 411 0.50
44 322 0.39
45 24 0.03
46 20 0.02
47 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (43 bp):
TTTCGATCTACTCCACTACTGCTTAGGGAGATAAGGCTGCTGC
Found at i:42965307 original size:130 final size:130
Alignment explanation
Indices: 42965134--42966192 Score: 446
Period size: 130 Copynumber: 8.1 Consensus size: 130
42965124 TACTCCGCTG
* * * * *
42965134 CTGCTCAGGGAGATAGGGCTGGTGCTTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATCTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTA
* * * *
42965199 CAATCTTCGACCTACTTCGCTGTTGCCCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTA
66 CAATCTTCGACCTACTCCGCTGCTGCCCAGGGAGATAAGGCTAGTGCTTTCAATCTGCTCCACTA
* *
42965264 CTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTA
* * * *
42965329 CAATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTA
66 CAATCTTCGACCTACTCCGCTGCTGCCCAGGGAGATAAGGCTAGTGCTTTCAATCTGCTCCACTA
* * * * * * *
42965394 TTGCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTACTCCGCTGCTGCTCA-AGGAGATAAG-
1 CTGCTTAGGGAGATAAGGCTGCTGC--T-TTCGATCTACTCCACTACTGCTTAGA-GAGATAAGA
* ** * * * * * ** * * * *
42965455 GCT--GGTGCTTTCGATCTGC-CCTACTACTTCTTAGGGAGATAAGATCTACAAT-C-TTCGACC
62 TCTACAAT-C-TTCGACCTACTCC-GCTGCTGCCCAGGGAGATAAG-GCT--AGTGCTTTCAATC
* ** *
42965515 TACTCTGCTG
121 TGCTCCACTA
** * * * * * *
42965525 CTGCCCAGGGAGGTAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-GCTG
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTA
* * * * ** * * * * *
42965589 C--TGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAAT-C-TTCGACCTTCTC
66 CAAT-C-TTCGACCTACTCCGCTGCTGCCCAGGGAGATAAG-GCT--AGTGCTTTCAATCTGCTC
* *
42965650 CGCTG
126 CACTA
* * * * * * *
42965655 CTGCTCAGGGAGATAAGGTTAG-TGCTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCT
1 CTGCTTAGGGAGATAAGGCT-GCTGCTTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCT
* * * *
42965719 ACAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGC-CCTAC
65 ACAATCTTCGACCTACTCCGCTGCTGCCCAGGGAGATAAGGCTAGTGCTTTCAATCTGCTCC-AC
42965783 TA
129 TA
* * * * ** * ** * * *
42965785 CTTCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAG-G
1 CTGCTTAGGGAGATAAGGCTGCTGC--T-TTCGATCTACTCCACTACTGCTTAGAGAGATAAGAT
** * * * * ** * * *
42965847 CT--GGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGGTACTTTCGATCTGCTC
63 CTACAAT-C-TTCGACCTACTCCGCTGCTGCCCAGGGAGATAAGGCTAGTGCTTTCAATCTGCTC
42965910 CACTA
126 CACTA
* * * * * * * * * *
42965915 CTGCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTTCTCCGCTGCTGATCAGGGAGATAAG-G
1 CTGCTTAGGGAGATAAGGCTGCTGC--T-TTCGATCTACTCCACTACTGCTTAGAGAGATAAGAT
* * * * ** * * * * *
42965977 CT--AGTGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACAAT-C-TTCGACCTA
63 CTACAAT-C-TTCGACCTACTCCGCTGCTGCCCAGGGAGATAAG-GCT--AGTGCTTTCAATCTG
*
42966038 CTCCGCTA
123 CTCCACTA
* * * * * * * * * * * *
42966046 CTGCTCAAGGAGATAAGACTGGTCCTTTGGATTTGCTCCACTACTACTTTGGGTGATAAGATCTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTA
** * **
42966111 CAATCTTCGACCTACTCCGCTGCTGCTTAGGGAGATAAGGCTGGTGCTTTCGGTCTGCTCCACTA
66 CAATCTTCGACCTACTCCGCTGCTGCCCAGGGAGATAAGGCTAGTGCTTTCAATCTGCTCCACTA
42966176 CTGCTTAGGGAGATAAG
1 CTGCTTAGGGAGATAAG
42966193 ATTTACAATC
Statistics
Matches: 741, Mismatches: 148, Indels: 80
0.76 0.15 0.08
Matches are distributed among these distances:
128 9 0.01
129 12 0.02
130 525 0.71
131 178 0.24
132 7 0.01
133 10 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (130 bp):
CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTA
CAATCTTCGACCTACTCCGCTGCTGCCCAGGGAGATAAGGCTAGTGCTTTCAATCTGCTCCACTA
Found at i:42965409 original size:217 final size:216
Alignment explanation
Indices: 42965028--42965714 Score: 814
Period size: 217 Copynumber: 3.2 Consensus size: 216
42965018 GGTTTGTGGT
* * * *
42965028 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAA-GATTTG-TGGTTTTCGGTCTGCTCCATTAC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGA--TGCTGCTTTT-GATCTACTCCACTAC
* *
42965091 TGCTTAGGGAGATAAGATCTACAATCTTTGACCTACTCCGCTGCTGCTCAGGGAGATAGGGCTGG
63 TGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCT-G
* * *
42965156 TGCTTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATCTACAATCTTCGACCTACTTCGCTG
127 TGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* *
42965221 TTGCCCAGGGAGATAAGGCTGGTGC
192 CTGCTCAGGGAGATAAGGCTGGTGC
*
42965246 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTACTGC
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATGCTGCTTTTGATCTACTCCACTACTGC
* *
42965311 TTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGTTAGTGC
66 TTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCT-GTGC
* * *
42965376 TTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTG
130 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTG
*
42965441 CTCAAGGAGATAAGGCTGGTGC
195 CTCAGGGAGATAAGGCTGGTGC
* * * * ** *
42965463 TTTCGATCTGC-CCTACTACTTCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTACTCTGCTG
1 TTTCGATCTGCTCC-ACTACTGCTTAGGGAGATAAGGATGCTGC--T-TTTGATCTACTCCACTA
** * * ** * * * * *
42965525 CTGCCCAGGGAGGTAAG-GCT--GGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGC
62 CTGCTTAGGGAGATAAGATCTACAAT-C-TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGC
* * *
42965587 TGCTGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCG
125 TG-TGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
* *
42965652 CTGCTGCTCAGGGAGATAAGGTTAGTGC
189 CTGCTGCTCAGGGAGATAAGGCTGGTGC
* * *
42965680 TTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAG
1 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
42965715 ATCTACAATC
Statistics
Matches: 406, Mismatches: 52, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
215 4 0.01
216 6 0.01
217 327 0.81
218 68 0.17
219 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (216 bp):
TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGATGCTGCTTTTGATCTACTCCACTACTGC
TTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGTGCT
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGC
TCAGGGAGATAAGGCTGGTGC
Found at i:42965627 original size:304 final size:304
Alignment explanation
Indices: 42965046--42966192 Score: 1911
Period size: 304 Copynumber: 3.8 Consensus size: 304
42965036 TGCTCCACTA
* * * * ** **
42965046 CTGCTTAGGGAGATAAGATTTGTGGTTTTCGGTCTGCTCCATTACTGCTTAGGGAGATAAGATCT
1 CTGCTCAGGGAGATAAGGTTAGT-GCTTTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
* * * *
42965111 ACAATCTTTGACCTACTCCGCTGCTGCTCAGGGAGATAGGGCTGGTGCTTTCGATCTGCTCTACT
65 ACAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGCCCTACT
* * *
42965176 ACTGCTTAGAGAGATAAGATCTACAATCTTCGACCTACT-TCGCTGTTGCCCAGGGAGATAAGGC
130 ACTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCT-GCTGCTGCCCAGGGAGATAAGGC
42965240 TGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCAC
194 TGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCAC
42965305 TACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
259 TACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
*
42965351 CTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTA
1 CTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTA
42965416 CAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGCCCTACTA
66 CAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGCCCTACTA
*
42965481 CTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAGGCTG
131 CTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGATAAGGCTG
42965546 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTA
196 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTA
42965611 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
261 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
*
42965655 CTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTA
1 CTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTA
42965720 CAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGCCCTACTA
66 CAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGCCCTACTA
*
42965785 CTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAGGCTG
131 CTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGATAAGGCTG
* * * *
42965850 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGGTACTTTCGATCTGCTCCACTA
196 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTA
42965915 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
261 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
* * *
42965959 CTGATCAGGGAGATAAGGCTAGTGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTA
1 CTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTA
* * * * *
42966024 CAATCTTCGACCTACTCCGCTACTGCTCAAGGAGATAAGACTGGTCCTTTGGATTTGCTCC-ACT
66 CAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGC-CCTACT
* * * * **
42966088 ACTACTTTGGGTGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTTAGGGAGATAAGGCT
130 ACTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGATAAGGCT
*
42966153 GGTGCTTTCGGTCTGCTCCACTACTGCTTAGGGAGATAAG
195 GGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
42966193 ATTTACAATC
Statistics
Matches: 802, Mismatches: 38, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
304 779 0.97
305 23 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (304 bp):
CTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTA
CAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGCCCTACTA
CTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGATAAGGCTG
GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTA
CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
Found at i:42965732 original size:217 final size:217
Alignment explanation
Indices: 42965134--42966018 Score: 977
Period size: 217 Copynumber: 4.1 Consensus size: 217
42965124 TACTCCGCTG
* * * * * *
42965134 CTGCTCAGGGAGATAGGGCTGGTGCTTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATCTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
* * *
42965199 CAATCTTCGACCTACTTCGCTGTTGCCCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTA
66 CAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTA
* * * * * * * *
42965264 CTGCTTAGGGAGATAAG-GCTGC--TGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAA-GA
131 CTGCTTAGGGAGATAAGATCTACAAT-C-TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGC
* * * * * *
42965325 T-CTACAATCTTCGACCTTCTCCGCTG
194 TGGTGC--T-TTCGATCTGCTCCACTA
* * * * * *
42965351 CTGCTCAGGGAGATAAGGTTAG-TGCTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGATCT
1 CTGCTTAGGGAGATAAGGCT-GCTGCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
*
42965415 ACAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGC-CCTAC
65 ACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCC-AC
* * * *
42965479 TACTTCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAGGC
129 TACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGC
42965544 TGGTGCTTTCGATCTGCTCCACTA
194 TGGTGCTTTCGATCTGCTCCACTA
*
42965568 CTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
* * * * *
42965633 CAATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTA
66 CAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTA
* *
42965698 TTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAAGGAGATAAGGCTG
131 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTG
42965763 GTGCTTTCGATCTGC-CCTACTA
196 GTGCTTTCGATCTGCTCC-ACTA
* * * * ** * ** * *
42965785 CTTCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAG-G
1 CTGCTTAGGGAGATAAGGCTGCTGC--T-TTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT
** * * * * * *
42965847 CT--GGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGGTACTTTCGATCTGCTC
63 CTACAAT-C-TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTC
* *
42965910 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTGCTGATCAGGGAGATAA
126 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAA
* *
42965975 GGCTAGTGCTTTCGATCTGCTCCGCTA
191 GGCTGGTGCTTTCGATCTGCTCCACTA
42966002 CTGCTTAGGGAGATAAG
1 CTGCTTAGGGAGATAAG
42966019 ATCTACAATC
Statistics
Matches: 572, Mismatches: 79, Indels: 33
0.84 0.12 0.05
Matches are distributed among these distances:
215 4 0.01
216 8 0.01
217 494 0.86
218 60 0.10
219 3 0.01
220 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (217 bp):
CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
CAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTG
GTGCTTTCGATCTGCTCCACTA
Found at i:42965946 original size:87 final size:87
Alignment explanation
Indices: 42965855--42966248 Score: 563
Period size: 87 Copynumber: 4.5 Consensus size: 87
42965845 GGCTGGTGCT
* * * * *
42965855 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGGTACTTTCGATCTGCTCCACTACTGCT
1 TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
42965920 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * * * *
42965942 TTCGACCTTCTCCGCTGCTGATCAGGGAGATAAGGCTAGTGCTTTCGATCTGCTCCGCTACTGCT
1 TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
42966007 TAGGGAGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * * * * *
42966029 TTCGACCTACTCCGCTACTGCTCAAGGAGATAAGACTGGTCCTTTGGATTTGCTCCACTACTACT
1 TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
* *
42966094 TTGGGTGATAAGATCTACAATC
66 TAGGGAGATAAGATCTACAATC
* * *
42966116 TTCGACCTACTCCGCTGCTGCTTAGGGAGATAAGGCTGGTGCTTTCGGTCTGCTCCACTACTGCT
1 TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
*
42966181 TAGGGAGATAAGATTTACAATC
66 TAGGGAGATAAGATCTACAATC
** *
42966203 TTCGACCTACTCCGCTGTTGCTCAGGGAGATAAGACTGGTGCTTTC
1 TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGGCTGGTGCTTTC
42966249 ACCGATCTGT
Statistics
Matches: 270, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 270 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (87 bp):
TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTACAATC
Found at i:42966160 original size:174 final size:174
Alignment explanation
Indices: 42965264--42966248 Score: 833
Period size: 174 Copynumber: 5.7 Consensus size: 174
42965254 TGCTCCACTA
* *
42965264 CTGCTTAGGGAGATAAGGCTGCTGCTTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* * ** * * *
42965329 CAATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGTTAGTGCTTTCAATCTGCTCCGCTA
66 CAATCTTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGCTTTCGATCTGCTCCACTA
*
42965394 TTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
131 CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* * * *
42965438 CTGCTCAAGGAGATAAGGCTGGTGCTTTCGATCTGC-CCTACTACTTCTTAGGGAGATAAGATCT
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTGCTCC-ACTACTGCTTAGGGAGATAAGATCT
* * * * *
42965502 ACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAGGCTGGTGCTTTCGATCTGCTCCACT
65 ACAATCTTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGCTTTCGATCTGCTCCACT
* * * * * *
42965567 ACTGCTTAGGGAGATAAG-GCTGC--TGCTTTTGATCTACTCCACTA
130 ACTGCTTAGGGAGATAAGATCTACAAT-C-TTCGACCTACTCCGCTG
* * * * * * * *
42965611 CTGCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTTCTCCGCTGCTGCTCAGGGAGATAAGGT
1 CTGCTTAGGGAGATAAGGCTGCTGC--T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* * * * * * * * * *
42965674 -T--AGTGCTTTCAATCTGCTCCGCTATTGCTTAGGGAGATAAGA-T-CTACAATCTTCGACCTA
63 CTACAAT-C-TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGC--T-TTCGATCTG
* * * * * ** * * * *
42965734 CTCCGCTGCTGCTCAAGGAGATAAG-GCT--GGTGCTTTCGATCTGC-CCTACTA
123 CTCCACTACTGCTTAGGGAGATAAGATCTACAAT-C-TTCGACCTACTCC-GCTG
* * * * * ** * ** * *
42965785 CTTCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTACTCTGCTGCTGCCCAGGGAGGTAAG-G
1 CTGCTTAGGGAGATAAGGCTGCTGC--T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
** * * * * * *
42965847 CT--GGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTGGTACTTTCGATCTGCTC
63 CTACAAT-C-TTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGCTTTCGATCTGCTC
*
42965910 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTTCTCCGCTG
126 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* * *
42965959 CTGATCAGGGAGATAAGGCTAG-TGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCT
1 CTGCTTAGGGAGATAAGGCT-GCTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
* * * *
42966023 ACAATCTTCGACCTACTCCGCTACTGCTCAAGGAGATAAGACTGGTCCTTTGGATTTGCTCCACT
65 ACAATCTTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGCTTTCGATCTGCTCCACT
* * *
42966088 ACTACTTTGGGTGATAAGATCTACAATCTTCGACCTACTCCGCTG
130 ACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
* * *
42966133 CTGCTTAGGGAGATAAGGCTGGTGCTTTCGGTCTGCTCCACTACTGCTTAGGGAGATAAGATTTA
1 CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
**
42966198 CAATCTTCGACCTACTCCGCTGTTGCTCAGGGAGATAAGACTGGTGCTTTC
66 CAATCTTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGCTTTC
42966249 ACCGATCTGT
Statistics
Matches: 665, Mismatches: 117, Indels: 58
0.79 0.14 0.07
Matches are distributed among these distances:
171 7 0.01
172 5 0.01
173 118 0.18
174 519 0.78
175 9 0.01
176 7 0.01
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (174 bp):
CTGCTTAGGGAGATAAGGCTGCTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
CAATCTTCGACCTACTCCGCTACTGCTCAGGGAGATAAGACTGGTGCTTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTG
Found at i:42970788 original size:163 final size:164
Alignment explanation
Indices: 42970535--42970903 Score: 427
Period size: 163 Copynumber: 2.2 Consensus size: 164
42970525 TTTTGAGAAT
* * * * * * *
42970535 AAAAATTAAAATTGAATAAAATCTATTTCGGGAGTTATTCCCGTCGTTCAATAGATTTTTTCCTT
1 AAAAATT-TAATTGAAT-AATTCTATTTCGGGATTTATTCCCGCCATTCAACAGATTTTTTCCAT
* * * * * * * *
42970600 TTTCATTTTGTTTCTAAATGAGAATTAATTGAATAATTTTGTTTCTGTATTTATTCCCATCGTTC
64 TTTCATTTTGTTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTC
* * * ** * *
42970665 AATAGATTTTATTCCTTTTTTATTCT-TTTCTAAAC
129 AACAAATTTTAGTCAATTTTGATTCTGTTTCCAAAC
* * *
42970700 AAGAA-TTAATTGAATAATTCTGTTTCGGGATTTATTCTCGCCATTCAACAGATTTTATTCCATT
1 AAAAATTTAATTGAATAATTCTATTTCGGGATTTATTCCCGCCATTCAACAGATTTT-TTCCATT
*
42970764 TTGATTTTGTTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTCA
65 TTCATTTTGTTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTCA
* *
42970829 GCAAATTTTAGTCAATTTTGATTTTGTTTCCAAAC
130 ACAAATTTTAGTCAATTTTGATTCTGTTTCCAAAC
* *
42970864 AAAAATTTAATTAAATAATTCTATTTCGAGATTTATTCCC
1 AAAAATTTAATTGAATAATTCTATTTCGGGATTTATTCCC
42970904 CTCGTTTAAT
Statistics
Matches: 168, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
162 34 0.20
163 87 0.52
164 13 0.08
165 34 0.20
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (164 bp):
AAAAATTTAATTGAATAATTCTATTTCGGGATTTATTCCCGCCATTCAACAGATTTTTTCCATTT
TCATTTTGTTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTCAA
CAAATTTTAGTCAATTTTGATTCTGTTTCCAAAC
Found at i:42970808 original size:82 final size:82
Alignment explanation
Indices: 42970544--42971050 Score: 392
Period size: 82 Copynumber: 6.3 Consensus size: 82
42970534 TAAAAATTAA
* * * ** * * * *
42970544 AATTGAATAAAATCTATTTCGGGAGTTATTCCCGTCGTTCAATAGATTTT-TTCCTTTTTCATTT
1 AATTGAAT-AATTCTGTTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTGATTT
* **
42970608 TGTTTCTAAATGAGAATT
65 TGTTTCCAAACAAGAATT
* * * * * * * * *
42970626 AATTGAATAATTTTGTTTCTGTATTTATTCCCATCGTTCAATAGATTTTATTCCTTTTTTATTCT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTGATTTT
*
42970691 -TTTCTAAACAAGAATT
66 GTTTCCAAACAAGAATT
* *
42970707 AATTGAATAATTCTGTTTCGGGATTTATTCTCGCCATTCAACAGATTTTATTCCATTTTGATTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTGATTTT
*
42970772 GTTTCCAAACGAGAATT
66 GTTTCCAAACAAGAATT
* * * * *
42970789 AATTGAATAAATCTGTTTCGGGATTTATTCCCACCATTCAGCAAATTTTAGTCAATTTTGATTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTGATTTT
*
42970854 GTTTCCAAACAAAAATTT
66 GTTTCCAAACAAGAA-TT
* * * * * * *
42970872 AATTAAATAATTCTATTTCGAGATTTATTCCC-CTCGTTTAATAGA-TTTA----ATTTTGGTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCAC-CATTCAACAGATTTTATTCCATTTTGATTT
* *
42970931 TGTTTCGAAACAAGATTT
65 TGTTTCCAAACAAGAATT
** * * * * * * * * *
42970949 AATCAAATAATTCTATTTCAGTATTTATTCTCATCGTTTAAC--ATATT-TT--ATTTTGGTTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTGATTTT
* *
42971009 ATTTCCAAACAAGATTT
66 GTTTCCAAACAAGAATT
* * *
42971026 AATTAAATAATTTTGTTTCGAGATT
1 AATTGAATAATTCTGTTTCGGGATT
42971051 AAATCCTCCC
Statistics
Matches: 355, Mismatches: 62, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
75 1 0.00
76 2 0.01
77 81 0.23
78 22 0.06
81 102 0.29
82 111 0.31
83 36 0.10
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (82 bp):
AATTGAATAATTCTGTTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTGATTTT
GTTTCCAAACAAGAATT
Found at i:42970967 original size:77 final size:77
Alignment explanation
Indices: 42970691--42971090 Score: 313
Period size: 77 Copynumber: 5.1 Consensus size: 77
42970681 TTTTTATTCT
* * * * * * * *
42970691 TTTCTAAACAAGAATTAATTGAATAATTCTGTTTCGGGATTTATTCTCGC-CATTCAACAGATTT
1 TTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTTATTC-CCCTCGTTTAACAGA-TT
42970755 TATTCCATTTTGATTTTG
64 TA----ATTTTGATTTTG
* * * * * * * * * *
42970773 TTTCCAAACGAGAATTAATTGAATAAATCTGTTTCGGGATTTATTCCCAC-CATTCAGCAAATTT
1 TTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTTATTCCC-CTCGTTTAACAGA--T
42970837 TAGTCAATTTTGATTTTG
63 T--T-AATTTTGATTTTG
* *
42970855 TTTCCAAACAAAAATTTAATTAAATAATTCTATTTCGAGATTTATTCCCCTCGTTTAATAGATTT
1 TTTCCAAAC-AAGATTTAATTAAATAATTCTATTTCGAGATTTATTCCCCTCGTTTAACAGATTT
*
42970920 AATTTTGGTTTTG
65 AATTTTGATTTTG
* * * * *
42970933 TTTCGAAACAAGATTTAATCAAATAATTCTATTTC-AGTATTTATTCTCATCGTTTAACATATTT
1 TTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAG-ATTTATTCCCCTCGTTTAACAGATTT
* * *
42970997 TATTTTGGTTTTA
65 AATTTTGATTTTG
* * * * * *
42971010 TTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGAGATTAAATCCTCC-CGTTCAACAGAATT
1 TTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTTATTCC-CCTCGTTTAACAGATTT
*
42971074 GATTTTGATTTTG
65 AATTTTGATTTTG
42971087 TTTC
1 TTTC
42971091 AGAATAGTAA
Statistics
Matches: 266, Mismatches: 42, Indels: 25
0.80 0.13 0.08
Matches are distributed among these distances:
76 2 0.01
77 119 0.45
78 23 0.09
79 1 0.00
81 3 0.01
82 75 0.28
83 41 0.15
85 1 0.00
86 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (77 bp):
TTTCCAAACAAGATTTAATTAAATAATTCTATTTCGAGATTTATTCCCCTCGTTTAACAGATTTA
ATTTTGATTTTG
Found at i:42973548 original size:42 final size:41
Alignment explanation
Indices: 42973479--42973637 Score: 214
Period size: 41 Copynumber: 3.9 Consensus size: 41
42973469 GAGTTTTTTG
42973479 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * *
42973520 GGCCTTTAGGCAGCGTTTTTTAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTA-GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
** *
42973562 TTCCTTTAGCGGCGTTTTT-AAAGAAGTGCCGCTAATGCT-T
1 GGCCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCT
* *
42973602 GACCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
42973638 AATAATAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
40 31 0.30
41 36 0.35
42 36 0.35
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:42973593 original size:41 final size:41
Alignment explanation
Indices: 42973481--42973637 Score: 210
Period size: 42 Copynumber: 3.8 Consensus size: 41
42973471 GTTTTTTGGG
*
42973481 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGG
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGA
* * * **
42973522 CCTTTAGGCAGCGTTTTTTAAGAAGCGCCGCTAATGCTCTTT
1 CCTTTA-GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGA
*
42973564 CCTTTAGCGGCGTTTTT-AAAGAAGTGCCGCTAATGCT-TGA
1 CCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCTGA
*
42973604 CCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
42973638 AATAATAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
40 31 0.31
41 34 0.34
42 36 0.36
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGA
Found at i:42974505 original size:7 final size:7
Alignment explanation
Indices: 42974495--42974525 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
42974485 AGATTATGGA
42974495 ATTAGGG
1 ATTAGGG
42974502 ATTAGGG
1 ATTAGGG
42974509 ATTAGGG
1 ATTAGGG
42974516 ATTAGGG
1 ATTAGGG
42974523 ATT
1 ATT
42974526 TTGATTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (7 bp):
ATTAGGG
Found at i:42974695 original size:19 final size:19
Alignment explanation
Indices: 42974671--42974710 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
42974661 AATATTTAGG
42974671 GGTTAGAGATTTAGGG-TTA
1 GGTTAG-GATTTAGGGATTA
*
42974690 GGTTAGGGTTTAGGGATTA
1 GGTTAGGATTTAGGGATTA
42974709 GG
1 GG
42974711 GATTCAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (19 bp):
GGTTAGGATTTAGGGATTA
Found at i:42974838 original size:15 final size:15
Alignment explanation
Indices: 42974815--42974844 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42974805 GGATTAAGAG
*
42974815 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
42974830 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
42974845 CAGGTTAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:42974884 original size:118 final size:117
Alignment explanation
Indices: 42974615--42974902 Score: 348
Period size: 121 Copynumber: 2.4 Consensus size: 117
42974605 TTCGGTGTCA
* * *
42974615 GGTTATGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATATTTAGGGGTTAGAGA
1 GGTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGGGGTTAGAGA
* *
42974680 TTTAGGGTTAGGTTAGGGTTTAGGGATTAGGGATTCAGGGTCAGGGTCAAGTTAAG
66 TTTAGGGTTAGGTTAGGATTTAGGGATTAGAGATT----GTCAGGGTCAAGTTAAG
* * * * *
42974736 GTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGGGG
1 GGTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGGGGTTAGAGA
* * *
42974801 TTT-GGGATTAAGAGTTAGTGATTTAGGGTTTAGAGATT-T-AGGGTCAGGTTAGG
66 TTTAGGG-TT-AG-GTTAG-GATTTAGGGATTAGAGATTGTCAGGGTCAAGTTAAG
* *
42974854 GGTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATACTAAATAAG
1 GGTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAG
42974903 TTCTTATATA
Statistics
Matches: 146, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
118 57 0.39
119 1 0.01
120 3 0.02
121 62 0.42
122 2 0.01
123 5 0.03
124 16 0.11
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (117 bp):
GGTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGGGGTTAGAGA
TTTAGGGTTAGGTTAGGATTTAGGGATTAGAGATTGTCAGGGTCAAGTTAAG
Done.