Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 145 of 313
Found at i:46468764 original size:74 final size:76
Alignment explanation
Indices: 46468671--46468882 Score: 171
Period size: 74 Copynumber: 2.8 Consensus size: 76
46468661 AAAAATGTGT
** * ** * *
46468671 GCCCAGCACTAGTCAGATAAACTGACGGA-AGTTGCGCTTTA-CTCTAGTTGGATAAACCGACG-
1 GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGC-CCAGCGCTAGTTGGATAAACCGAAGA
46468733 AATAATTAGTGA
65 AATAATTAGTGA
* * * *
46468745 GCCCAGCTCTAGTTGGATAAACAAAC-GATATTTGCGCCCAGCGCTAGTTGGATAAACTGAAGAA
1 GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGCCCAGCGCTAGTTGGATAAACCGAAGAA
46468809 ATAATTAGTGA
66 ATAATTAGTGA
* * * * * * * * *
46468820 ACCCAACGCTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAGCTCTAGTTGGATAAACC
1 GCCCAGCACTAGTTGGATAAACAGACG-GAT-AGT--TGCGCCCAGCGCTAGTTGGATAAACC
46468883 AATGATATTT
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
73 3 0.03
74 46 0.42
75 32 0.29
77 2 0.02
78 3 0.03
80 23 0.21
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (76 bp):
GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGCCCAGCGCTAGTTGGATAAACCGAAGAA
ATAATTAGTGA
Found at i:46468841 original size:40 final size:40
Alignment explanation
Indices: 46468714--46468882 Score: 172
Period size: 40 Copynumber: 4.4 Consensus size: 40
46468704 GCGCTTTACT
* * *
46468714 CTAGTTGGATAAACCGACG-AATAATTAGTGAGCCCAGCT
1 CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
* **
46468753 CTAGTTGGATAAA-C-AA-ACGAT-ATT--TGCGCCCAGCG
1 CTAGTTGGATAAACCGAAGA-AATAATTAGTGAACCCAGCG
* *
46468788 CTAGTTGGATAAACTGAAGAAATAATTAGTGAACCCAACG
1 CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
* * * *
46468828 CTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAGCT
1 CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
46468868 CTAGTTGGATAAACC
1 CTAGTTGGATAAACC
46468883 AATGATATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
35 22 0.21
37 8 0.08
38 7 0.07
39 13 0.12
40 56 0.53
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
Found at i:46471861 original size:27 final size:27
Alignment explanation
Indices: 46471778--46471979 Score: 171
Period size: 27 Copynumber: 7.6 Consensus size: 27
46471768 CTCGATGGGG
* ** *
46471778 AAAATGACCGAAAT-ACCCCATAGGAT
1 AAAATGACCGTAATGACCCTGTAGGGT
* *
46471804 GAAATGACCGTAA-CACCCTGTAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* * *
46471830 AAAATGACTGTAATGAGCCTATAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* **
46471857 AAAATGACCGTAAT-TCTTTTGTAGGGT
1 AAAATGACCGTAATGAC-CCTGTAGGGT
* *
46471884 AAAATGACCATAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* * *
46471911 AAAATAACTGTAAT-ACCCCTATAGGGT
1 AAAATGACCGTAATGA-CCCTGTAGGGT
**
46471938 AAAATGTTCGTAATG-CCCTTGTAGGGT
1 AAAATGACCGTAATGACCC-TGTAGGGT
46471965 AAAATGACCGTAATG
1 AAAATGACCGTAATG
46471980 CTCTAGTGGG
Statistics
Matches: 137, Mismatches: 32, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
26 34 0.25
27 102 0.74
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AAAATGACCGTAATGACCCTGTAGGGT
Found at i:46471911 original size:81 final size:81
Alignment explanation
Indices: 46471819--46471980 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
46471809 GACCGTAACA
* * * **
46471819 CCCTGTAGGGTAAAATGACTGTAATGA-GCCTATAGGGTAAAATGACCGTAATTCTTTTGTAGGG
1 CCCTGTAGGGTAAAATAACTGTAAT-ACCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGG
46471883 TAAAATGACCATAATGC
65 TAAAATGACCATAATGC
**
46471900 CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGTTCGTAATGCCCTTGTAGGGT
1 CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGT
*
46471965 AAAATGACCGTAATGC
66 AAAATGACCATAATGC
46471981 TCTAGTGGGT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (81 bp):
CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGT
AAAATGACCATAATGC
Found at i:46471980 original size:27 final size:27
Alignment explanation
Indices: 46471805--46471993 Score: 177
Period size: 27 Copynumber: 7.1 Consensus size: 27
46471795 CCATAGGATG
**
46471805 AAATGACCGTAACACCC-TGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* * *
46471831 AAATGACTGTAATGAGCC-TATAGGGTA
1 AAATGACCGTAATG-CCCTTGTAGGGTA
* **
46471858 AAATGACCGTAATTCTTTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
46471885 AAATGACCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* * * * *
46471912 AAATAACTGTAATACCCCTATAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
**
46471939 AAATGTTCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
46471966 AAATGACCGTAATGCTCTAGT-GGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
46471992 AA
1 AA
46471994 TGATTATTTT
Statistics
Matches: 129, Mismatches: 32, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
26 18 0.14
27 111 0.86
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (27 bp):
AAATGACCGTAATGCCCTTGTAGGGTA
Found at i:46472054 original size:23 final size:24
Alignment explanation
Indices: 46472019--46472100 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
46472009 CTCGAGGTCA
* * *
46472019 AATGATTGTTTTGCCTGTGGTTT-
1 AATGACTGATTTGTCTGTGGTTTG
46472042 AATGACTGATTTGTCTGT-GTTTGG
1 AATGACTGATTTGTCTGTGGTTT-G
* * *
46472066 TATGACTAATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGGTTTG
*
46472090 AATGCCTGATT
1 AATGACTGATT
46472101 CTAAGCATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
22 4 0.09
23 15 0.32
24 25 0.53
25 3 0.06
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGGTTTG
Found at i:46472365 original size:32 final size:32
Alignment explanation
Indices: 46472268--46472505 Score: 146
Period size: 32 Copynumber: 7.5 Consensus size: 32
46472258 GCTACGATGC
* * *
46472268 TACTGATGGCTTTGTGCCGATCATAATACCGT
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * *
46472300 TACTGGTGGCTTTGTGCTA-ATCATAGTACCGT
1 TACTGATGGCTTTGTAC-AGATCATATTACCGT
* *
46472332 TACTGATGGCTTTGTACAGATTATATTATCGT
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * *
46472364 TACCGATGG-TTATAG-ACCGATCATGTTACCGT
1 TACTGATGGCTT-T-GTACAGATCATATTACCGT
* * * * *
46472396 TACTGATGGCTGTGTACTGATCATATCACTGC
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * * * * * * *
46472428 TATTGATGGCTGTGTGCCGACCATATCACTGC
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * * *
46472460 TACTGATGGCTTTTTGCA-ATCACATTACTG-
1 TACTGATGGCTTTGTACAGATCATATTACCGT
*
46472490 TACTTATGGC-TTGTAC
1 TACTGATGGCTTTGTAC
46472506 CCATTTTGTT
Statistics
Matches: 166, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
29 4 0.02
30 9 0.05
31 13 0.08
32 138 0.83
33 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTACAGATCATATTACCGT
Found at i:46486458 original size:3 final size:3
Alignment explanation
Indices: 46486450--46486474 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46486440 TCTATTTTAT
46486450 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
46486475 GTAAATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46486982 original size:21 final size:21
Alignment explanation
Indices: 46486953--46486999 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
46486943 AAACAACAAG
*
46486953 AAAATAGCAACAAAACAGTAA
1 AAAAAAGCAACAAAACAGTAA
46486974 AAAAAAGCAACAAAACAGTAA
1 AAAAAAGCAACAAAACAGTAA
46486995 AAAAA
1 AAAAA
46487000 CCCAACAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.72, C:0.13, G:0.09, T:0.06
Consensus pattern (21 bp):
AAAAAAGCAACAAAACAGTAA
Found at i:46487005 original size:21 final size:21
Alignment explanation
Indices: 46486960--46487006 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
46486950 AAGAAAATAG
*
46486960 CAACAAAACAGTAAAAAAAAG
1 CAACAAAACAGTAAAAAAAAC
*
46486981 CAACAAAACAGTAAAAAAACC
1 CAACAAAACAGTAAAAAAAAC
46487002 CAACA
1 CAACA
46487007 GATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.68, C:0.21, G:0.06, T:0.04
Consensus pattern (21 bp):
CAACAAAACAGTAAAAAAAAC
Found at i:46489454 original size:23 final size:22
Alignment explanation
Indices: 46489424--46489469 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
46489414 ATCAACACAA
*
46489424 ATATAATCA-CATACATATTCAC
1 ATATAATCATCATA-ATAATCAC
46489446 ATATCAATCATCATAATAATCAC
1 ATAT-AATCATCATAATAATCAC
46489469 A
1 A
46489470 AGTTCTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATAATCATCATAATAATCAC
Found at i:46494298 original size:18 final size:18
Alignment explanation
Indices: 46494248--46494298 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
46494238 ATAAAAAAAC
*
46494248 GTTTTGAAATTGAATAAT
1 GTTTTGAAAATGAATAAT
* *
46494266 GATTTGTAAATGAATAAT
1 GTTTTGAAAATGAATAAT
*
46494284 GTTTTGAAAACGAAT
1 GTTTTGAAAATGAAT
46494299 GACACAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (18 bp):
GTTTTGAAAATGAATAAT
Found at i:46497655 original size:27 final size:27
Alignment explanation
Indices: 46497587--46498021 Score: 310
Period size: 27 Copynumber: 16.2 Consensus size: 27
46497577 GATTCTTGGG
** * *
46497587 AAAATTATGGAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* **
46497614 -AATTTACTAAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
46497640 AAGATTACCGAAATACCTTC-ATTGGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* * *
46497667 AAAATTACCAAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
46497694 AATATTACCGAAATACCTTCGACA-GGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* ** * *
46497721 AAAATTTCTAAAATACCTTCGAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
** *
46497748 AAAATTATTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
46497775 AATATTACCGAAATA-CCTCTAAAGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
** * *
46497802 AAACCTATCGAAATACCCCCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
46497829 AAAATTACTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
46497856 AAAATTACCTAAATAACCT-AAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
46497882 AAAATGACCGTAATATCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
46497909 AAAATTATCGAAATACTCTCGAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
46497936 AAAATGATCAAAATACCCTCGATA-GGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
*
46497963 AAAATTACCGAAATACCC-CTAAAGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
* * * *
46497990 AGAATGACCGTAATACCC-CTATAGGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
46498017 AAAAT
1 AAAAT
46498022 GACCACTATA
Statistics
Matches: 316, Mismatches: 80, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
26 48 0.15
27 262 0.83
28 6 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:46498032 original size:27 final size:27
Alignment explanation
Indices: 46497960--46498037 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
46497950 ACCCTCGATA
* **
46497960 GGTAAAATTACCGAAATACCCCTAAAG
1 GGTAAAATGACCCTAATACCCCTAAAG
* * *
46497987 GGTAGAATGACCGTAATACCCCTATAG
1 GGTAAAATGACCCTAATACCCCTAAAG
46498014 GGTAAAATGACCACT-ATACCCCTA
1 GGTAAAATGACC-CTAATACCCCTA
46498038 GGAAATGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCCTAATACCCCTAAAG
Found at i:46498256 original size:26 final size:26
Alignment explanation
Indices: 46498226--46498294 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
46498216 AATACTGTTT
46498226 CTGGCAGCTTTGCTGCGTTACCGTTA
1 CTGGCAGCTTTGCTGCGTTACCGTTA
* * *
46498252 CTGGCAGCTCTGTTGCGTTACTGTTA
1 CTGGCAGCTTTGCTGCGTTACCGTTA
*
46498278 TTGGCAGCTTTGCTGCG
1 CTGGCAGCTTTGCTGCG
46498295 ATATTGGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.10, C:0.25, G:0.29, T:0.36
Consensus pattern (26 bp):
CTGGCAGCTTTGCTGCGTTACCGTTA
Found at i:46498474 original size:30 final size:30
Alignment explanation
Indices: 46498406--46498520 Score: 135
Period size: 30 Copynumber: 3.9 Consensus size: 30
46498396 TTTGTATTGA
*
46498406 ATATTGTTTTGGGCTAAGGCCCACA--CTG
1 ATATTGTATTGGGCTAAGGCCCACACTCTG
*
46498434 ATACTGTATTGGGCTAAGGCCCACACTCTG
1 ATATTGTATTGGGCTAAGGCCCACACTCTG
* * * *
46498464 TTATTGTATTGGGCTATGACCCACACACTG
1 ATATTGTATTGGGCTAAGGCCCACACTCTG
* * *
46498494 CTATTGTATAGGGCTCAGGCCCACACT
1 ATATTGTATTGGGCTAAGGCCCACACT
46498521 GATTCTGCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 23 0.32
30 49 0.68
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (30 bp):
ATATTGTATTGGGCTAAGGCCCACACTCTG
Found at i:46507078 original size:16 final size:17
Alignment explanation
Indices: 46507043--46507074 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
46507033 ATATGGTAGA
46507043 AAATTGATTAAGTTATT
1 AAATTGATTAAGTTATT
46507060 AAATT-ATTAA-TTATT
1 AAATTGATTAAGTTATT
46507075 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
AAATTGATTAAGTTATT
Found at i:46507855 original size:14 final size:14
Alignment explanation
Indices: 46507836--46507881 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
46507826 GCAAATTAGA
46507836 AAAGAAAGAAAAGG
1 AAAGAAAGAAAAGG
46507850 AAAGAAAGAAAA--
1 AAAGAAAGAAAAGG
46507862 AAAGAAA-AAGAAGG
1 AAAGAAAGAA-AAGG
46507876 AAAGAA
1 AAAGAA
46507882 CGCACGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.07
12 9 0.31
14 18 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAGG
Found at i:46507867 original size:22 final size:23
Alignment explanation
Indices: 46507833--46507881 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
46507823 CATGCAAATT
*
46507833 AGAAAAGAAAGAAAAGGAAAGAA
1 AGAAAAGAAAGAAAAAGAAAGAA
*
46507856 AGAAAA-AAAGAAAAAGAAGGAA
1 AGAAAAGAAAGAAAAAGAAAGAA
46507878 AGAA
1 AGAA
46507882 CGCACGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AGAAAAGAAAGAAAAAGAAAGAA
Found at i:46510230 original size:49 final size:49
Alignment explanation
Indices: 46510158--46510251 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
46510148 TCAAGAATGG
*
46510158 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACTAAGCTTAGCAATAT
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCAATAT
* *
46510207 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCA
46510252 TTGCATAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCAATAT
Found at i:46510990 original size:13 final size:14
Alignment explanation
Indices: 46510972--46511006 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
46510962 TTTATTTTTT
46510972 TATTTATATAT-AA
1 TATTTATATATAAA
46510985 TATTTATATATCAAA
1 TATTTATATAT-AAA
46511000 TATTTAT
1 TATTTAT
46511007 TTTCTCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
15 9 0.45
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTTATATATAAA
Found at i:46511359 original size:13 final size:13
Alignment explanation
Indices: 46511341--46511365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46511331 TAATATATTT
46511341 ATTAATTAAAAAC
1 ATTAATTAAAAAC
46511354 ATTAATTAAAAA
1 ATTAATTAAAAA
46511366 AAAAGCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:46512774 original size:10 final size:10
Alignment explanation
Indices: 46512740--46512775 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
46512730 AATTAGTGTT
46512740 ACTTGCACCAA
1 ACTT-CACCAA
*
46512751 ACTCCACCAA
1 ACTTCACCAA
46512761 ACTTCACCAA
1 ACTTCACCAA
46512771 ACTTC
1 ACTTC
46512776 GACCTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 20 0.87
11 3 0.13
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.19
Consensus pattern (10 bp):
ACTTCACCAA
Found at i:46517524 original size:3 final size:3
Alignment explanation
Indices: 46517516--46517559 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
46517506 TACTATGACT
46517516 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46517560 CCTACTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46517768 original size:12 final size:12
Alignment explanation
Indices: 46517751--46517779 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46517741 TATGCATACC
46517751 TACATATTTTAA
1 TACATATTTTAA
46517763 TACATATTTTAA
1 TACATATTTTAA
46517775 TACAT
1 TACAT
46517780 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:46528292 original size:45 final size:45
Alignment explanation
Indices: 46528170--46528551 Score: 209
Period size: 45 Copynumber: 8.6 Consensus size: 45
46528160 GAGCAGGTTG
* * * * * *
46528170 AAAGATAA-CAGATCTTGTCTTCATGTACTAG-CGTGAAGTAGATC
1 AAAGA-AAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * * ** * * * *
46528214 ATAGATACCAGATCTTGTCTCCCCGTACAGGTGGTGGAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * *
46528259 GAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACAGACC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * * * * * *
46528304 AAAGAAAACAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * *
46528348 AGAG-AAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * * * * * *
46528392 AAAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAAATC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * * * *
46528436 AGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * * * * *
46528481 AAAGAAAGCAGATCTTGTTTTCATGTACCGG-CGTGAAACAGATC
1 AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
* * * *
46528525 AAAGATAGTAGGTCCTGTCTTCCTATA
1 AAAGAAAGCAGATCTTGTCTTCCTATA
46528552 TCGGTAGCGA
Statistics
Matches: 244, Mismatches: 89, Indels: 10
0.71 0.26 0.03
Matches are distributed among these distances:
43 21 0.09
44 104 0.43
45 119 0.49
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
AAAGAAAGCAGATCTTGTCTTCCTATACTGGTGGCGAAGCAGATC
Found at i:46528375 original size:88 final size:88
Alignment explanation
Indices: 46528251--46528517 Score: 383
Period size: 88 Copynumber: 3.0 Consensus size: 88
46528241 CAGGTGGTGG
* * *
46528251 AGTAGATC-GAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACAGACCAAAGAAAACAG
1 AGTAGATCAG-AG-AAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAG
*
46528315 ATATTGTCTTCATGTATTGGCGTGA
64 ATCTTGTCTTCATGTATTGGCGTGA
* *
46528340 AGTAGATCAGAGAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGTAGAT
1 AGTAGATCAGAGAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGAT
46528405 CTTGTCTTCATGTATTGGCGTGA
66 CTTGTCTTCATGTATTGGCGTGA
* * * *
46528428 AGTAAATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCAAAGAAAGCAGA
1 AGTAGATCAGAGA-AGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
* **
46528493 TCTTGTTTTCATGTACCGGCGTGA
65 TCTTGTCTTCATGTATTGGCGTGA
46528517 A
1 A
46528518 ACAGATCAAA
Statistics
Matches: 161, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
88 82 0.51
89 78 0.48
90 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (88 bp):
AGTAGATCAGAGAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGAT
CTTGTCTTCATGTATTGGCGTGA
Found at i:46528562 original size:89 final size:89
Alignment explanation
Indices: 46528251--46528547 Score: 382
Period size: 89 Copynumber: 3.3 Consensus size: 89
46528241 CAGGTGGTGG
* * * * *
46528251 AGTAGATC-GAAGAAAGCAGATCTTGCCTTCCTATACTGGTGGCGAAACAGACCAAAGAAAACAG
1 AGTAGATCAG-AGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAG
*
46528315 ATATTGTCTTCATGTATTGGCGTGA
65 ATCTTGTCTTCATGTATTGGCGTGA
*
46528340 AGTAGATCAGAGA-AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGTAGA
1 AGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
46528404 TCTTGTCTTCATGTATTGGCGTGA
66 TCTTGTCTTCATGTATTGGCGTGA
* * * * *
46528428 AGTAAATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCAAAGAAAGCAGA
1 AGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
* **
46528493 TCTTGTTTTCATGTACCGGCGTGA
66 TCTTGTCTTCATGTATTGGCGTGA
** * * * *
46528517 AACAGATCAAAGATAGTAGGTCCTGTCTTCC
1 AGTAGATCAGAGATAGCAGATCTTGTCTTCC
46528548 TATATCGGTA
Statistics
Matches: 182, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 81 0.45
89 100 0.55
90 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (89 bp):
AGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGACCAAAGAAAGCAGA
TCTTGTCTTCATGTATTGGCGTGA
Found at i:46529047 original size:44 final size:44
Alignment explanation
Indices: 46528999--46529138 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
46528989 CAGAGCAAAT
* *
46528999 TGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGAC
1 TGAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
** * *
46529043 TGAAG-TAACCAA-TCCAATCTCCTTGAAGTTGCAATGGAGCGGA-
1 TGAAGAT-A-CAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
* * ** *
46529086 TTAAAACCGCAGGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
1 TGAAGA-TACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
*
46529131 TAAAGATA
1 TGAAGATA
46529139 GTAAATTTTG
Statistics
Matches: 71, Mismatches: 19, Indels: 12
0.70 0.19 0.12
Matches are distributed among these distances:
43 6 0.08
44 58 0.82
45 7 0.10
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
TGAAGATACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
Found at i:46529474 original size:7 final size:7
Alignment explanation
Indices: 46529462--46529486 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46529452 GGCCCAAAGC
46529462 AAAACAA
1 AAAACAA
46529469 AAAACAA
1 AAAACAA
46529476 AAAACAA
1 AAAACAA
46529483 AAAA
1 AAAA
46529487 GAACCCTAGC
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:46530474 original size:3 final size:3
Alignment explanation
Indices: 46530466--46530506 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
46530456 TACTATGACT
46530466 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46530507 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46531787 original size:20 final size:20
Alignment explanation
Indices: 46531759--46531823 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
46531749 AATTATAATT
*
46531759 TATATTTTTCATTAATTTTA
1 TATAATTTTCATTAATTTTA
*
46531779 TATAATTTTAATT-A--TTA
1 TATAATTTTCATTAATTTTA
* * *
46531796 CAT-TTTTTCATTAATTGTA
1 TATAATTTTCATTAATTTTA
46531815 TATAATTTT
1 TATAATTTT
46531824 AATTGATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
19 5 0.15
20 15 0.45
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TATAATTTTCATTAATTTTA
Found at i:46531834 original size:15 final size:16
Alignment explanation
Indices: 46531806--46531835 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46531796 CATTTTTTCA
46531806 TTAATTGTATATAATT
1 TTAATTGTATATAATT
46531822 TTAATTG-ATATAAT
1 TTAATTGTATATAAT
46531836 AACGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTAATTGTATATAATT
Found at i:46532680 original size:21 final size:20
Alignment explanation
Indices: 46532638--46532697 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
46532628 AACTTATTTA
* **
46532638 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
46532658 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
46532679 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
46532698 ATTAATTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:46535089 original size:15 final size:15
Alignment explanation
Indices: 46535069--46535105 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
46535059 ATTCAACTTG
46535069 CCTCATATTTCTCTC
1 CCTCATATTTCTCTC
* *
46535084 CCTCATTTTTCTTTC
1 CCTCATATTTCTCTC
46535099 CCTCATA
1 CCTCATA
46535106 GACAAGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.38, G:0.00, T:0.49
Consensus pattern (15 bp):
CCTCATATTTCTCTC
Found at i:46536501 original size:72 final size:72
Alignment explanation
Indices: 46536378--46536724 Score: 284
Period size: 72 Copynumber: 4.7 Consensus size: 72
46536368 AGATGGGCGT
* * * * * *
46536378 TGAATTGCTACCAAAGCTTTTAGATGGTTCTATAATTGCCAACAG-GATGGGTACGAATATGGAG
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAA-AGAGATGGGTACGAATATGGAG
46536442 GTGAACAC
65 GTGAACAC
* * * * *
46536450 TGAATTGCTACCATATCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTAAGACTATGGAGA
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACGAATATGGAGG
*
46536515 TGAACAT
66 TGAACAC
* *
46536522 TGAATTGTTACCAAAGCTTATAGAAGATTCTACAAGTCCTAAAGAGATGGGT-CGTAATATGGAG
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACG-AATATGGA-
* * *
46536586 GAGTGGAGAA
64 G-GTGAACAC
* * * * * * * * * *
46536596 TCGAATTGATATCAAAGCGTATAGAAGATTTTCCGAGTGCTAAAGAGATAGATATGAATAAGGAG
1 T-GAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACGAAT-ATG-G
* **
46536661 AAGGAGAACGT
63 -AGGTGAACAC
* ** * * *
46536672 TGAATTGATGTCAAAGCTTACAGAAGATTCTTCAAATGCTAAAGAGATGGGTA
1 TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTA
46536725 AGGATGTGGC
Statistics
Matches: 219, Mismatches: 47, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
71 3 0.01
72 112 0.51
73 1 0.00
74 5 0.02
75 88 0.40
76 7 0.03
77 2 0.01
78 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (72 bp):
TGAATTGCTACCAAAGCTTATAGAAGATTCTACAAGTGCTAAAGAGATGGGTACGAATATGGAGG
TGAACAC
Found at i:46538481 original size:27 final size:27
Alignment explanation
Indices: 46538450--46538518 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
46538440 CGTCTATCTC
46538450 AGAGGCGCCAATGGTGGTGCC-TATCTG
1 AGAGGCGCCAATGGTGGTGCCATA-CTG
* * **
46538477 GGAGGCGCCATTATTGGTGCCATACTG
1 AGAGGCGCCAATGGTGGTGCCATACTG
46538504 AGAGGCGCCAATGGT
1 AGAGGCGCCAATGGT
46538519 CTGATTTTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.22, G:0.36, T:0.22
Consensus pattern (27 bp):
AGAGGCGCCAATGGTGGTGCCATACTG
Found at i:46538608 original size:18 final size:18
Alignment explanation
Indices: 46538575--46538623 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
46538565 AGAGAAACGG
46538575 AAGAAATAAGAAGGAAGCAA
1 AAGAAA-AA-AAGGAAGCAA
*
46538595 AAGAAAAAAAGGAAGGAA
1 AAGAAAAAAAGGAAGCAA
46538613 AAGAAGAAAAA
1 AAGAA-AAAAA
46538624 AATAAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 14 0.52
19 7 0.26
20 6 0.22
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAAGGAAGCAA
Found at i:46541608 original size:27 final size:27
Alignment explanation
Indices: 46541578--46541644 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
46541568 GCAAAATAAA
46541578 AAAAAAACATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
*
46541605 AAAAAACCATTATAATTTTATTTACAT
1 AAAAAAACATTATAATTTTATTTACAT
46541632 AAAAAAATCATTA
1 AAAAAAA-CATTA
46541645 CATAAATATG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 32 0.86
28 5 0.14
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAACATTATAATTTTATTTACAT
Found at i:46543751 original size:37 final size:38
Alignment explanation
Indices: 46543709--46543789 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 38
46543699 AAAAAGTCGG
46543709 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
46543746 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
46543784 TTATAA
1 TTATAA
46543790 ACTTTATATG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 33 0.77
38 10 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:46543899 original size:60 final size:60
Alignment explanation
Indices: 46543823--46543944 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
46543813 ATACTAAACT
* * * *
46543823 AAACACAACAACTTATAGCT-TAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATA-ATATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
46543883 AAACACAAAAATTTATAATATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAATATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
46543943 AA
1 AA
46543945 TATTCATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 5 0.09
60 50 0.91
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAACTTATAATATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:46543999 original size:21 final size:21
Alignment explanation
Indices: 46543967--46544055 Score: 56
Period size: 21 Copynumber: 4.0 Consensus size: 21
46543957 AAATTACAAT
46543967 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
* * *
46543988 ATTGCATTATTCAT--ATAAA
1 ATTACAATATTCATACAAAAA
*
46544007 ATTATAATATTACAATATTCATACAAAA
1 ATTACAATATT-C-ATA--C--A-AAAA
46544035 AATTACAATATTCATACAAAA
1 -ATTACAATATTCATACAAAA
46544056 TACTAATCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 19
0.65 0.10 0.25
Matches are distributed among these distances:
19 12 0.24
20 1 0.02
21 14 0.28
22 3 0.06
23 1 0.02
25 1 0.02
27 4 0.08
28 4 0.08
29 10 0.20
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:46544016 original size:48 final size:48
Alignment explanation
Indices: 46543932--46544056 Score: 187
Period size: 48 Copynumber: 2.5 Consensus size: 48
46543922 AATTAATTAT
46543932 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
* * * *
46543983 AAAAAATTGCATTATTCATATAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
46544031 AAAAAATTACAATATTCATACAAAAT
1 AAAAAATTACAATATTCATACAAAAT
46544057 ACTAATCCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 49 0.73
50 14 0.21
51 4 0.06
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (48 bp):
AAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:46544120 original size:19 final size:19
Alignment explanation
Indices: 46544096--46544159 Score: 92
Period size: 19 Copynumber: 3.2 Consensus size: 19
46544086 ATTATAAAAT
46544096 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
46544115 AATTACAATATTCATACAAAAA
1 AATTACAATATTCATAC---AA
*
46544137 AATTAAAATATTCATACAA
1 AATTACAATATTCATACAA
46544156 AATT
1 AATT
46544160 CTAATCCAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 23 0.56
22 18 0.44
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:46544138 original size:22 final size:22
Alignment explanation
Indices: 46544091--46544157 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
46544081 ATTTAATTAT
*
46544091 AAAATAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
46544113 ---AAAATTACAATATTCATAC
1 AAAAAAATTACAATATTCATAC
*
46544132 AAAAAAATTAAAATATTCATAC
1 AAAAAAATTACAATATTCATAC
46544154 AAAA
1 AAAA
46544158 TTCTAATCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 18 0.45
22 22 0.55
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:46544243 original size:12 final size:12
Alignment explanation
Indices: 46544226--46544251 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46544216 AAAAATTCAC
46544226 AATATCTTCTAA
1 AATATCTTCTAA
46544238 AATATCTTCTAA
1 AATATCTTCTAA
46544250 AA
1 AA
46544252 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:46544331 original size:3 final size:3
Alignment explanation
Indices: 46544325--46544357 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
46544315 TTTTTTTTCT
*
46544325 TTC TTC TTC TTC TTC TTC -TC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
46544358 CTCCTTCTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:46544348 original size:14 final size:14
Alignment explanation
Indices: 46544329--46544365 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
46544319 TTTTCTTTCT
*
46544329 TCTTCTTCTTCTTC
1 TCTTCTTCTCCTTC
46544343 TCTTCTTCTCCTTC
1 TCTTCTTCTCCTTC
*
46544357 TCTCCTTCT
1 TCTTCTTCT
46544366 GCTTTCTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
TCTTCTTCTCCTTC
Found at i:46544348 original size:17 final size:16
Alignment explanation
Indices: 46544321--46544357 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
46544311 TACTTTTTTT
*
46544321 TTCTTTCTTCTTCTTC
1 TTCTTTCTTCTTCTCC
46544337 TTCTTCTCTTCTTCTCC
1 TTCTT-TCTTCTTCTCC
46544354 TTCT
1 TTCT
46544358 CTCCTTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTTTCTTCTTCTCC
Found at i:46545949 original size:3 final size:3
Alignment explanation
Indices: 46545941--46545970 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46545931 TACCGTCCGA
*
46545941 GTC GTC GTC GTA GTC GTC GTC GTC GTC GTC
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
46545971 TTCCTCGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.33, T:0.33
Consensus pattern (3 bp):
GTC
Found at i:46550437 original size:17 final size:17
Alignment explanation
Indices: 46550402--46550463 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 17
46550392 TTTCAATAAT
* *
46550402 TTCAAATAAATTTGA-A
1 TTCAAATTAATTTTAGA
46550418 TTCAAATTAATTTTAGA
1 TTCAAATTAATTTTAGA
* **
46550435 TTCAAGTTTTTTTTAG-
1 TTCAAATTAATTTTAGA
*
46550451 TTCAAATCAATTT
1 TTCAAATTAATTT
46550464 GAATCTACTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 22 0.61
17 14 0.39
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (17 bp):
TTCAAATTAATTTTAGA
Found at i:46550701 original size:13 final size:13
Alignment explanation
Indices: 46550683--46550744 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
46550673 TTAACAATTT
*
46550683 TTTTAAAAAGTGC
1 TTTTAAAAAGTAC
46550696 TTTT-AAAAGTAC
1 TTTTAAAAAGTAC
** * *
46550708 CGTAAAAAAGTTC
1 TTTTAAAAAGTAC
46550721 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
*
46550734 TTTTGAAAAGT
1 TTTTAAAAAGT
46550745 TTGATTTAAG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 8 0.21
13 30 0.79
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:46552633 original size:24 final size:24
Alignment explanation
Indices: 46552601--46552649 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
46552591 GATGCATAAG
* *
46552601 AAAACCACCACATAGTCGTCATTT
1 AAAACCACCACATAATCATCATTT
46552625 AAAACCACCACATAATCATCATTT
1 AAAACCACCACATAATCATCATTT
46552649 A
1 A
46552650 TATCATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAACCACCACATAATCATCATTT
Found at i:46560140 original size:23 final size:19
Alignment explanation
Indices: 46560113--46560166 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 19
46560103 ATAAAAAGGG
46560113 TAATAAATAAATAGATAAATAGA
1 TAAT-AATAAATAG-T-AATA-A
46560136 TAATAATAAAATAGTAATAA
1 TAATAAT-AAATAGTAATAA
46560156 TAATAATAAAT
1 TAATAATAAAT
46560167 GTATAAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.13
20 8 0.27
21 4 0.13
22 4 0.13
23 10 0.33
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.30
Consensus pattern (19 bp):
TAATAATAAATAGTAATAA
Found at i:46560153 original size:14 final size:15
Alignment explanation
Indices: 46560129--46560163 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
46560119 ATAAATAGAT
46560129 AAATAGATAATAATA
1 AAATAGATAATAATA
46560144 AAATAG-TAATAATA
1 AAATAGATAATAATA
46560158 ATAATA
1 A-AATA
46560164 AATGTATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:46560171 original size:104 final size:104
Alignment explanation
Indices: 46560046--46560263 Score: 436
Period size: 104 Copynumber: 2.1 Consensus size: 104
46560036 GTAGTAGTAA
46560046 TAATAATAATAATAAATGTATAAGTAAAAAAACATAAATAATCTAATTTTTGAAAGTATAAAAAG
1 TAATAATAATAATAAATGTATAAGTAAAAAAACATAAATAATCTAATTTTTGAAAGTATAAAAAG
46560111 GGTAATAAATAAATAGATAAATAGATAATAATAAAATAG
66 GGTAATAAATAAATAGATAAATAGATAATAATAAAATAG
46560150 TAATAATAATAATAAATGTATAAGTAAAAAAACATAAATAATCTAATTTTTGAAAGTATAAAAAG
1 TAATAATAATAATAAATGTATAAGTAAAAAAACATAAATAATCTAATTTTTGAAAGTATAAAAAG
46560215 GGTAATAAATAAATAGATAAATAGATAATAATAAAATAG
66 GGTAATAAATAAATAGATAAATAGATAATAATAAAATAG
46560254 TAATAATAAT
1 TAATAATAAT
46560264 GAAGGAAAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 114 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (104 bp):
TAATAATAATAATAAATGTATAAGTAAAAAAACATAAATAATCTAATTTTTGAAAGTATAAAAAG
GGTAATAAATAAATAGATAAATAGATAATAATAAAATAG
Found at i:46560190 original size:32 final size:32
Alignment explanation
Indices: 46560050--46560191 Score: 87
Period size: 32 Copynumber: 4.2 Consensus size: 32
46560040 TAGTAATAAT
46560050 AATAATAATAAATGTATAAGTAAAAAAACATA
1 AATAATAATAAATGTATAAGTAAAAAAACATA
* * *
46560082 AATAAT-CT-AATTTTTGAAAGTATAAAAAGGGTA-ATA
1 AATAATAATAAATGTAT--AAGTA-AAAAA----ACATA
* *
46560118 AATAAATAGATAAATAG-ATAA-TAATAAAATAGTAA
1 AAT-AATA-ATAAAT-GTATAAGTAAAAAAACA-T-A
46560153 TAATAATAATAAATGTATAAGTAAAAAAACATA
1 -AATAATAATAAATGTATAAGTAAAAAAACATA
46560186 AATAAT
1 AATAAT
46560192 CTAATTTTTG
Statistics
Matches: 83, Mismatches: 9, Indels: 36
0.65 0.07 0.28
Matches are distributed among these distances:
30 5 0.06
31 1 0.01
32 18 0.22
33 8 0.10
34 12 0.14
35 13 0.16
36 13 0.16
37 6 0.07
38 2 0.02
39 1 0.01
40 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.28
Consensus pattern (32 bp):
AATAATAATAAATGTATAAGTAAAAAAACATA
Found at i:46560257 original size:14 final size:15
Alignment explanation
Indices: 46560233--46560262 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
46560223 ATAAATAGAT
46560233 AAATAGATAATAATA
1 AAATAGATAATAATA
46560248 AAATAG-TAATAATA
1 AAATAGATAATAATA
46560262 A
1 A
46560263 TGAAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:46560299 original size:28 final size:29
Alignment explanation
Indices: 46560241--46560308 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
46560231 ATAAATAGAT
*
46560241 AATAATAAAATAGTAATAATAATGAAGGAA
1 AATAATAAAATAG-AATAATAATGAACGAA
*
46560271 AA-AATAAAATA-AATAATCGATGAACGAA
1 AATAATAAAATAGAATAAT-AATGAACGAA
46560299 AATAA-AAAAT
1 AATAATAAAAT
46560309 TAAAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.18
28 15 0.44
29 11 0.32
30 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (29 bp):
AATAATAAAATAGAATAATAATGAACGAA
Found at i:46560376 original size:18 final size:20
Alignment explanation
Indices: 46560355--46560401 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
46560345 ATGCAAGGAT
46560355 TAAAATAAAAT-A-AATGAA
1 TAAAATAAAATAATAATGAA
46560373 TAAAATAAAATGAATAATGAA
1 TAAAATAAAAT-AATAATGAA
46560394 T-AAATAAA
1 TAAAATAAA
46560402 CAAGTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.42
20 8 0.31
21 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
TAAAATAAAATAATAATGAA
Found at i:46560385 original size:14 final size:13
Alignment explanation
Indices: 46560358--46560433 Score: 59
Period size: 14 Copynumber: 5.7 Consensus size: 13
46560348 CAAGGATTAA
46560358 AATAAAATAAATG
1 AATAAAATAAATG
46560371 AATAAAATAAAATG
1 AATAAAAT-AAATG
46560385 AATAATGAATAAAT-
1 AATAA--AATAAATG
* *
46560399 AA-ACAAGTAAATA
1 AATA-AAATAAATG
*
46560412 AAT-AAATAAAGG
1 AATAAAATAAATG
46560424 AAATAAAATA
1 -AATAAAATA
46560434 TAAAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
12 12 0.24
13 14 0.27
14 18 0.35
15 4 0.08
16 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.21
Consensus pattern (13 bp):
AATAAAATAAATG
Found at i:46560401 original size:4 final size:4
Alignment explanation
Indices: 46560357--46560421 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
46560347 GCAAGGATTA
* * * * *
46560357 AAAT AAAAT AAAT GAAT AAAAT AAAAT GAAT -AAT GAAT AAAT AAAC AAGT
1 AAAT -AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
46560407 AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAA
46560422 GGAAATAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
3 3 0.06
4 35 0.70
5 12 0.24
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:46562361 original size:44 final size:44
Alignment explanation
Indices: 46562313--46562808 Score: 275
Period size: 44 Copynumber: 10.9 Consensus size: 44
46562303 AGGCTTTGTC
46562313 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTT
* * * * * * * *
46562357 GCTTCAAACGGTTCCATTACAACTTCAGAGAGATTAGATTCACTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGT-T
* * * *
46562403 -CTTCAATATTCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGT-T
* * *
46562448 -CTTCAATCTGCTCCACTACAACTTCAGGGAGATGAGACTCGCTATGGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T---TA--GTT
* * * * * * * *
46562497 GATTTAATCCGAC-CTACTGCAACTTCAGAGG-TATAGGATTTGTC
1 GCTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTAGTT
* * * * *
46562541 ACTTCAATCTACTCCACTGCTACTTAAGGGAGATAAGACTT-GTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTT
* * * * *
46562585 ACTTCTATCTGCTCCACTGTAACTCCAGGGAGATAAGATTTGTAACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTT
* ** * * * *
46562636 GCTTTAATCTATTCTACTACAACTTCAGGGAAATAAGATTTGCTAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-T-T
* * *
46562682 -CTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATTTGTT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTT
* * * * * *
46562725 GTTTTAATCTGCTCCTCTACAACTTCAGGGAGATAAGATTTGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTT
* * * *
46562769 GCTTTAATCTGCTCCACTGCATCTTTAGTGAGATAAGATT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
46562809 CGCCATGATG
Statistics
Matches: 346, Mismatches: 82, Indels: 48
0.73 0.17 0.10
Matches are distributed among these distances:
43 4 0.01
44 164 0.47
45 110 0.32
46 4 0.01
48 2 0.01
49 3 0.01
50 25 0.07
51 34 0.10
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTT
Found at i:46562425 original size:45 final size:45
Alignment explanation
Indices: 46562314--46562480 Score: 187
Period size: 45 Copynumber: 3.7 Consensus size: 45
46562304 GGCTTTGTCG
* * * *
46562314 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGT-T
1 CTTCAATATGCTCCATTACAACTTCAGGGAGATAAGATTCACTAT
* * * *
46562357 GCTTCAA-ACGGTTCCATTACAACTTCAGAGAGATTAGATTCACTAT
1 -CTTCAATA-TGCTCCATTACAACTTCAGGGAGATAAGATTCACTAT
* *
46562403 CTTCAATATTCTCCATTGCAACTTCAGGGAGATAAGATTCACTAT
1 CTTCAATATGCTCCATTACAACTTCAGGGAGATAAGATTCACTAT
* *
46562448 CTTCAATCTGCTCCACTACAACTTCAGGGAGAT
1 CTTCAATATGCTCCATTACAACTTCAGGGAGAT
46562481 GAGACTCGCT
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
44 31 0.31
45 68 0.67
46 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (45 bp):
CTTCAATATGCTCCATTACAACTTCAGGGAGATAAGATTCACTAT
Found at i:46562732 original size:89 final size:88
Alignment explanation
Indices: 46562307--46562808 Score: 251
Period size: 89 Copynumber: 5.5 Consensus size: 88
46562297 AGGTATAGGC
* * * * * * * *
46562307 TTTGTCGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTTGCTTCAAACGGTTCC
1 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGTTGTTTTAATCTGATCC
* * *
46562372 AT-TACAACTTCAGAGAGATTAGA
66 -TCTACAACTTCAGGGAAATAAGA
** * * * * * *** * * *
46562395 TTCACTATCTTCAATATTCTCCATTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTGCT
1 TT-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGTTGT-TTTAATCTGAT
* * *
46562460 CCACTACAACTTCAGGGAGATGAGA
64 CCTCTACAACTTCAGGGAAATAAGA
* * * * * * *** *
46562485 CTCGCTATGGTAGATTTAATCCGAC-CTACTGCAACTTCAGAG-GTATAGGATTTGTCACTTCAA
1 -T---T-T-GTAGCTTCAATCTG-CTCCACTGCAACTTCAGTGAG-ATAAGATTTGTTGTTTTAA
* * * * *
46562548 TCT-ACTCCACTGCTACTTAAGGGAGATAAGA
58 TCTGA-TCCTCTACAACTTCAGGGAAATAAGA
* * * * * *
46562579 CTTGTAACTTCTATCTGCTCCACTGTAACTCCAGGGAGATAAGATTTGTAACTTGTAGCTTTAAT
1 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGTGAGATAAGATTTG----TTGT---TTTAAT
*
46562644 CT-ATTCTACTACAACTTCAGGGAAATAAGA
59 CTGATCCT-CTACAACTTCAGGGAAATAAGA
* * *
46562674 TTTGCTATCTTCAATCTGCTCTACTGCAACTTCAG-GAAGATAAGATTTGTTGTTTTAATCTGCT
1 TTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGTG-AGATAAGATTTGTTGTTTTAATCTGAT
*
46562738 CCTCTACAACTTCAGGGAGATAAGA
64 CCTCTACAACTTCAGGGAAATAAGA
* * * *
46562763 TTTGTGGCTTTAATCTGCTCCACTGCATCTTTAGTGAGATAAGATT
1 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGTGAGATAAGATT
46562809 CGCCATGATG
Statistics
Matches: 312, Mismatches: 77, Indels: 50
0.71 0.18 0.11
Matches are distributed among these distances:
87 1 0.00
88 67 0.21
89 74 0.24
90 33 0.11
91 1 0.00
92 5 0.02
94 34 0.11
95 59 0.19
96 38 0.12
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGTTGTTTTAATCTGATCC
TCTACAACTTCAGGGAAATAAGA
Found at i:46565629 original size:84 final size:84
Alignment explanation
Indices: 46565488--46565824 Score: 647
Period size: 84 Copynumber: 4.0 Consensus size: 84
46565478 CTTCTTGATA
* *
46565488 ATGTAGTATATCACTCTTTTTTCCTTCCTGACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
1 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
46565553 TTCCCAAATACTGCCAAGT
66 TTCCCAAATACTGCCAAGT
46565572 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
1 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
46565637 TTCCCAAATACTGCCAAGT
66 TTCCCAAATACTGCCAAGT
46565656 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
1 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
46565721 TTCCCAAATACTGCCAAGT
66 TTCCCAAATACTGCCAAGT
46565740 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
1 ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
*
46565805 TTCCCAAATACTACCAAGT
66 TTCCCAAATACTGCCAAGT
46565824 A
1 A
46565825 CAGTACTACC
Statistics
Matches: 250, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 250 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (84 bp):
ATGTAGTATATCATTCTTTTTTCCTTCCTAACTCATCGTGTTGGCCGAGCACGCATCCCATCGAA
TTCCCAAATACTGCCAAGT
Found at i:46567533 original size:15 final size:15
Alignment explanation
Indices: 46567513--46567550 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
46567503 TCCTTTCTTG
*
46567513 TTTCTTTTCCAGCTC
1 TTTCTTCTCCAGCTC
46567528 TTTCTTCTCCAGCTC
1 TTTCTTCTCCAGCTC
46567543 TTTCTTCT
1 TTTCTTCT
46567551 TTTGAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.34, G:0.05, T:0.55
Consensus pattern (15 bp):
TTTCTTCTCCAGCTC
Found at i:46568786 original size:31 final size:31
Alignment explanation
Indices: 46568693--46568788 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
46568683 GGCAAATTAC
*
46568693 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46568724 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
46568756 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46568787 AA
1 AA
46568789 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:46573330 original size:12 final size:12
Alignment explanation
Indices: 46573313--46573354 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
46573303 AGGTAGGCAA
46573313 CTTTTTTTTGTG
1 CTTTTTTTTGTG
*
46573325 CTTTTTTTTTTG
1 CTTTTTTTTGTG
*
46573337 CTTTTTTTTGCG
1 CTTTTTTTTGTG
46573349 CTTTTT
1 CTTTTT
46573355 ACTCTCTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (12 bp):
CTTTTTTTTGTG
Found at i:46573393 original size:41 final size:41
Alignment explanation
Indices: 46573329--46573428 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 41
46573319 TTTGTGCTTT
* *
46573329 TTTTTTTGCTTTTTTTTGCGCTTTTTACTCTCTCTTTTTGCGC
1 TTTTTTTGC--TTTTTTGTGCTTTTTACTCTCTCTTTTTACGC
*
46573372 TTTTTTTGCTTTTTTGTGCTTTTTACTCTCTTTTTTTACGC
1 TTTTTTTGCTTTTTTGTGCTTTTTACTCTCTCTTTTTACGC
46573413 -TTTTTTGCTTTTTTGT
1 TTTTTTTGCTTTTTTGT
46573429 TTTTTTGCTG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 16 0.30
41 29 0.54
43 9 0.17
ACGTcount: A:0.03, C:0.17, G:0.11, T:0.69
Consensus pattern (41 bp):
TTTTTTTGCTTTTTTGTGCTTTTTACTCTCTCTTTTTACGC
Found at i:46573425 original size:9 final size:9
Alignment explanation
Indices: 46573370--46573461 Score: 66
Period size: 9 Copynumber: 9.7 Consensus size: 9
46573360 CTCTTTTTGC
46573370 GCTTTTTTT
1 GCTTTTTTT
46573379 GCTTTTTTGT
1 GCTTTTTT-T
46573389 GCTTTTTACTCT
1 GCTTTTT--T-T
46573401 -CTTTTTTT
1 GCTTTTTTT
46573409 ACGC-TTTTTT
1 --GCTTTTTTT
46573419 GC-TTTTTT
1 GCTTTTTTT
46573427 G-TTTTTTT
1 GCTTTTTTT
*
46573435 GCTGTTTTT
1 GCTTTTTTT
46573444 GCTGTTCTTTTT
1 GC--TT-TTTTT
46573456 GCTTTT
1 GCTTTT
46573462 ATTTAAAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 22
0.73 0.03 0.23
Matches are distributed among these distances:
8 17 0.25
9 19 0.28
10 16 0.23
11 8 0.12
12 9 0.13
ACGTcount: A:0.02, C:0.14, G:0.13, T:0.71
Consensus pattern (9 bp):
GCTTTTTTT
Found at i:46573431 original size:7 final size:8
Alignment explanation
Indices: 46573411--46573446 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
46573401 CTTTTTTTAC
46573411 GCTTTTTT
1 GCTTTTTT
46573419 GCTTTTTT
1 GCTTTTTT
*
46573427 GTTTTTTT
1 GCTTTTTT
46573435 GCTGTTTTT
1 GCT-TTTTT
46573444 GCT
1 GCT
46573447 GTTCTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.00, C:0.11, G:0.17, T:0.72
Consensus pattern (8 bp):
GCTTTTTT
Found at i:46574096 original size:31 final size:31
Alignment explanation
Indices: 46574003--46574098 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
46573993 GGCAAATTAC
*
46574003 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46574034 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
46574066 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
46574097 AA
1 AA
46574099 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:46575135 original size:3 final size:3
Alignment explanation
Indices: 46575127--46575161 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46575117 GGTAAGTAAT
46575127 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
46575162 CAATAAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46575247 original size:23 final size:21
Alignment explanation
Indices: 46575221--46575269 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
46575211 ATAAAAAGGG
46575221 TAATAAAT-AAATAGATAAATAGA
1 TAATAAATAAAATAG-T-AATA-A
46575244 TAAT-AATAAAATAGTAATAA
1 TAATAAATAAAATAGTAATAA
46575264 TAATAA
1 TAATAA
46575270 TAATGAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 4 0.17
23 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATAAATAAAATAGTAATAA
Found at i:46575261 original size:14 final size:15
Alignment explanation
Indices: 46575237--46575271 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
46575227 ATAAATAGAT
46575237 AAATAGATAATAATA
1 AAATAGATAATAATA
46575252 AAATAG-TAATAATA
1 AAATAGATAATAATA
46575266 ATAATA
1 A-AATA
46575272 ATGAAGGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:46575343 original size:25 final size:25
Alignment explanation
Indices: 46575237--46575340 Score: 90
Period size: 26 Copynumber: 4.1 Consensus size: 25
46575227 ATAAATAGAT
*
46575237 AAATAGATAATAAT-AA--AATAGTA
1 AAATA-ATAATAATGAAGGAATAATA
*
46575260 ATAATAATAATAATGAAGGCATAAATA
1 A-AATAATAATAATGAAGGAAT-AATA
* *
46575287 AAATAAATAATCGATGAAAGAA-AATA
1 AAAT-AATAAT-AATGAAGGAATAATA
46575313 AAATAATAATAAATGAAGGAATAATA
1 AAATAATAAT-AATGAAGGAATAATA
46575339 AA
1 AA
46575341 TAAATGAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
23 9 0.14
24 6 0.09
25 14 0.22
26 19 0.29
27 10 0.15
28 7 0.11
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (25 bp):
AAATAATAATAATGAAGGAATAATA
Found at i:46575344 original size:4 final size:4
Alignment explanation
Indices: 46575335--46575482 Score: 84
Period size: 4 Copynumber: 36.5 Consensus size: 4
46575325 ATGAAGGAAT
* ** * * *
46575335 AATA AATA AATG AATA CAAGG ATTA AAATA AAAA AATA AATA AATA AATC
1 AATA AATA AATA AATA -AATA AATA AA-TA AATA AATA AATA AATA AATA
* * * * * *
46575385 AAT- AATA TATG AATA AATA AGTA AATG AACA AATA AATT AATAA AATCA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AAT-A
** * * * *
46575434 AAGG AAT- AATG AATA AATA AACA AGTA AATA AGTA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
46575481 AA
1 AA
46575483 AGAATTAAAA
Statistics
Matches: 105, Mismatches: 34, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
3 6 0.06
4 87 0.83
5 12 0.11
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:46576076 original size:24 final size:24
Alignment explanation
Indices: 46576029--46576088 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
46576019 GGTATATATT
46576029 AAATATATATATTTCATTTTTAATC
1 AAATATATAT-TTTCATTTTTAATC
*
46576054 AAATATATATTTTTATTTTTAATC
1 AAATATATATTTTCATTTTTAATC
46576078 AAATATATATT
1 AAATATATATT
46576089 ATATATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATATATATTTTCATTTTTAATC
Found at i:46584493 original size:22 final size:22
Alignment explanation
Indices: 46584453--46584494 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
46584443 AATAACATAG
* * *
46584453 TTTTGATAAATGCAGAAAAATC
1 TTTTAATAAATGAAAAAAAATC
46584475 TTTTAATAAATGAAAAAAAA
1 TTTTAATAAATGAAAAAAAA
46584495 ATTGAACTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
TTTTAATAAATGAAAAAAAATC
Found at i:46586591 original size:19 final size:19
Alignment explanation
Indices: 46586569--46586615 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
46586559 AGTTAGATCT
46586569 AAATATATTTTTTA-TTAA
1 AAATATATTTTTTATTTAA
46586587 GAAATAT-TTTTTTATTTAA
1 -AAATATATTTTTTATTTAA
46586606 ATAATATATT
1 A-AATATATT
46586616 CTATGTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.32
19 15 0.60
20 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AAATATATTTTTTATTTAA
Found at i:46586607 original size:16 final size:18
Alignment explanation
Indices: 46586568--46586608 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46586558 TAGTTAGATC
46586568 TAAATATATTTTTTATTAA
1 TAAATATATTTTTTATT-A
*
46586587 GAAATAT-TTTTTTATT-
1 TAAATATATTTTTTATTA
46586603 TAAATA
1 TAAATA
46586609 ATATATTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TAAATATATTTTTTATTA
Found at i:46591010 original size:13 final size:13
Alignment explanation
Indices: 46590982--46591024 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
46590972 TAGTTCATTC
*
46590982 AAAAAAATTATAT
1 AAAAAATTTATAT
46590995 AAAAACATTTAT-T
1 AAAAA-ATTTATAT
46591008 -AAAAATTTATAT
1 AAAAAATTTATAT
46591020 AAAAA
1 AAAAA
46591025 TTAAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 6 0.23
12 5 0.19
13 10 0.38
14 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAAATTTATAT
Found at i:46591011 original size:12 final size:12
Alignment explanation
Indices: 46590983--46591026 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
46590973 AGTTCATTCA
*
46590983 AAAAAATTATAT
1 AAAAATTTATAT
46590995 AAAAACATTTAT-T
1 -AAAA-ATTTATAT
46591008 AAAAATTTATAT
1 AAAAATTTATAT
46591020 AAAAATT
1 AAAAATT
46591027 AAATGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 12 0.43
13 5 0.18
14 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAATTTATAT
Found at i:46602796 original size:29 final size:30
Alignment explanation
Indices: 46602734--46602797 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
46602724 AACCCTGTCC
* *
46602734 AAAAAATAAATAGACTAAATTCTTAAATTT
1 AAAAAATAAATAGACCAAATTCTCAAATTT
* *
46602764 -AAAAGTACATAGACCAAATT-TCAAATTT
1 AAAAAATAAATAGACCAAATTCTCAAATTT
46602792 AAAAAA
1 AAAAAA
46602798 GTATAAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAAAATAAATAGACCAAATTCTCAAATTT
Found at i:46603994 original size:21 final size:22
Alignment explanation
Indices: 46603968--46604010 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46603958 TATTAAATAC
46603968 TTTTATT-TACATTTTC-CAAAA
1 TTTTATTATAC-TTTTCTCAAAA
46603989 TTTTATTATACTTTTCTCAAAA
1 TTTTATTATACTTTTCTCAAAA
46604011 ATCCAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTATTATACTTTTCTCAAAA
Found at i:46604992 original size:17 final size:16
Alignment explanation
Indices: 46604959--46604988 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46604949 ATTTGTTTTT
46604959 ACTTTATTTTATAATC
1 ACTTTATTTTATAATC
46604975 ACTTTATTTT-TAAT
1 ACTTTATTTTATAAT
46604989 ATCATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (16 bp):
ACTTTATTTTATAATC
Found at i:46616585 original size:26 final size:26
Alignment explanation
Indices: 46616553--46616605 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
46616543 TTAATCAAAT
*
46616553 TAATCGATTTAATTGAATTATTTCAG
1 TAATCGATCTAATTGAATTATTTCAG
*
46616579 TAATCGATCTAATTGAGTTATTTCAG
1 TAATCGATCTAATTGAATTATTTCAG
46616605 T
1 T
46616606 CAGCCATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (26 bp):
TAATCGATCTAATTGAATTATTTCAG
Found at i:46616717 original size:62 final size:62
Alignment explanation
Indices: 46616651--46616775 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
46616641 AGTTTTTTGA
* * *
46616651 ATTTTTAGTTAATGATTAATTCGGTTCAAAATTAAATAATTAACCGATTACTTAAAATTATT
1 ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
46616713 ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
1 ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
46616775 A
1 A
46616776 ATAATAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (62 bp):
ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
Found at i:46617094 original size:93 final size:93
Alignment explanation
Indices: 46616989--46617164 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 93
46616979 TCTCAAACTC
** * *
46616989 AAAACAAAGTCTAGGTAGAGATGGTAATTTTTCGGATAATAAAAATACTATCCGTTACGGATGC-
1 AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAATAAAAATACTATCCGATACGGATGCA
46617053 GTATTTAACCCCATGAATAATGGATAGTA
66 G-ATTTAACCCCATGAATAATGGATAGTA
* * ** *
46617082 AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAGTAAAAATATTATTTGATGCGGATGCA
1 AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAATAAAAATACTATCCGATACGGATGCA
*
46617147 GATTTAACCCCTTGAATA
66 GATTTAACCCCATGAATA
46617165 TCTCAATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (93 bp):
AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAATAAAAATACTATCCGATACGGATGCA
GATTTAACCCCATGAATAATGGATAGTA
Found at i:46618748 original size:31 final size:32
Alignment explanation
Indices: 46618700--46618759 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
46618690 TTTTAAAAAA
46618700 AATATATTTATATTATTTTTAATTT-TTAATTT
1 AATATATTTATATTATTTTT-ATTTATTAATTT
46618732 AATA-ATTTA-ATATATTTTTATTTATTAA
1 AATATATTTATAT-TATTTTTATTTATTAA
46618760 AATTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 6 0.23
31 16 0.62
32 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
AATATATTTATATTATTTTTATTTATTAATTT
Found at i:46622609 original size:21 final size:22
Alignment explanation
Indices: 46622567--46622609 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
46622557 CCAATTAATC
46622567 TAGCCCAAACACTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
* *
46622589 TAGCCTAAAC-CTAAGCCCAAT
1 TAGCCCAAACACTAAACCCAAT
46622610 ACCCTGGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.42, C:0.35, G:0.07, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACACTAAACCCAAT
Found at i:46630131 original size:16 final size:16
Alignment explanation
Indices: 46630110--46630140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46630100 TAAATTTTAT
*
46630110 ATAATATTTTAAAAAA
1 ATAATATTGTAAAAAA
46630126 ATAATATTGTAAAAA
1 ATAATATTGTAAAAA
46630141 TTATTTTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
ATAATATTGTAAAAAA
Found at i:46646202 original size:30 final size:31
Alignment explanation
Indices: 46646166--46646234 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
46646156 TGGTTTGAAT
46646166 TTAGTCACTCAAC-TT-TCAAAAAATAACAAA
1 TTAGTCACT-AACGTTATCAAAAAATAACAAA
* *
46646196 TTAGTCACTAACGTTATCAAAAAGTGACAAA
1 TTAGTCACTAACGTTATCAAAAAATAACAAA
*
46646227 TCAGTCAC
1 TTAGTCAC
46646235 CTATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (31 bp):
TTAGTCACTAACGTTATCAAAAAATAACAAA
Found at i:46646776 original size:6 final size:7
Alignment explanation
Indices: 46646750--46646775 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46646740 TGGACGGGCA
46646750 AAAAAAG
1 AAAAAAG
46646757 AAAAAAG
1 AAAAAAG
46646764 AAAAAAG
1 AAAAAAG
46646771 AAAAA
1 AAAAA
46646776 GGGGAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:46648714 original size:13 final size:12
Alignment explanation
Indices: 46648697--46648753 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 12
46648687 TTTTAATTTT
46648697 AAATTTTTTAAA
1 AAATTTTTTAAA
46648709 AGAATTTAATTTAAA
1 A-AATTT--TTTAAA
*
46648724 AAATGGTTTT-AA
1 AAAT-TTTTTAAA
46648736 AAATATTTTTAAA
1 AAAT-TTTTTAAA
46648749 AAATT
1 AAATT
46648754 ATTAAAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 12 0.32
13 14 0.38
14 3 0.08
15 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (12 bp):
AAATTTTTTAAA
Found at i:46648744 original size:11 final size:11
Alignment explanation
Indices: 46648718--46648770 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
46648708 AAGAATTTAA
46648718 TTTAAAAAATGGT
1 TTTAAAAAAT--T
46648731 TTTAAAAATATT
1 TTTAAAAA-ATT
46648743 TTTAAAAAATT
1 TTTAAAAAATT
* *
46648754 ATTAAAACAATA
1 TTTAAAA-AATT
46648766 TTTAA
1 TTTAA
46648771 TGTATTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 9 0.26
12 16 0.46
13 8 0.23
14 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (11 bp):
TTTAAAAAATT
Found at i:46661912 original size:34 final size:35
Alignment explanation
Indices: 46661856--46661922 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
46661846 CAAACACCAG
* *
46661856 AAAATATTTTACAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTACAGTAAATCATTTTACAGAAAAGT
* *
46661891 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTACAGTAAATCATTTTACAGAAAA
46661923 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTACAGTAAATCATTTTACAGAAAAGT
Found at i:46661914 original size:14 final size:14
Alignment explanation
Indices: 46661891--46661930 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46661881 ACAGAAAAGT
*
46661891 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
46661905 AAATCATTTTACGG
1 AAAACATTTTACAG
46661919 AAAACATTTTAC
1 AAAACATTTTAC
46661931 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46662717 original size:92 final size:92
Alignment explanation
Indices: 46662618--46662924 Score: 560
Period size: 92 Copynumber: 3.3 Consensus size: 92
46662608 ATGCTGCAAT
* * *
46662618 TTTTAACCTATTTGTATATTTAATAAAATATGAACCTATTTGTATCAAAGTTTGCATATAAGCTA
1 TTTTAACCTATTTGTATATTTAATAAAATATAAAGCTATTTGTATCAAAGTATGCATATAAGCTA
* * *
46662683 CAATTTAGACAGCAAGTATGCATTTTG
66 TAAGTTAAACAGCAAGTATGCATTTTG
46662710 TTTTAACCTATTTGTATATTTAATAAAATATAAAGCTATTTGTATCAAAGTATGCATATAAGCTA
1 TTTTAACCTATTTGTATATTTAATAAAATATAAAGCTATTTGTATCAAAGTATGCATATAAGCTA
46662775 TAAGTTAAACAGCAAGTATGCATTTTG
66 TAAGTTAAACAGCAAGTATGCATTTTG
46662802 TTTTAACCTATTTGTATATTTAATAAAATATAAAGCTATTTGTATCAAAGTATGCATATAAGCTA
1 TTTTAACCTATTTGTATATTTAATAAAATATAAAGCTATTTGTATCAAAGTATGCATATAAGCTA
46662867 TAAGTTAAACAGCAAGTATGCATTTTG
66 TAAGTTAAACAGCAAGTATGCATTTTG
46662894 TTTTAACCTATTTGTATATTTAATAAAATAT
1 TTTTAACCTATTTGTATATTTAATAAAATAT
46662925 TTGTATATAT
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 209 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (92 bp):
TTTTAACCTATTTGTATATTTAATAAAATATAAAGCTATTTGTATCAAAGTATGCATATAAGCTA
TAAGTTAAACAGCAAGTATGCATTTTG
Found at i:46664161 original size:60 final size:62
Alignment explanation
Indices: 46664050--46664168 Score: 179
Period size: 60 Copynumber: 1.9 Consensus size: 62
46664040 GATTTTAAGA
* *
46664050 TTGGTAAATCCTGCACATGTAATATTGGTAAATGATAGCAATTGAAAGTGATAACATTGTTAT
1 TTGGTAAATCCTGCACATGGAATATTGG-AAAGGATAGCAATTGAAAGTGATAACATTGTTAT
* *
46664113 TTGGTAAATCCTGCACATGGCA-ATTGG-CAGGATAGCAATTGAAAGTGATAACATTG
1 TTGGTAAATCCTGCACATGGAATATTGGAAAGGATAGCAATTGAAAGTGATAACATTG
46664169 GTGATTGGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
60 27 0.52
62 5 0.10
63 20 0.38
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (62 bp):
TTGGTAAATCCTGCACATGGAATATTGGAAAGGATAGCAATTGAAAGTGATAACATTGTTAT
Found at i:46664296 original size:9 final size:9
Alignment explanation
Indices: 46664282--46664325 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
46664272 TTTTGTTACA
46664282 ACAATTAAT
1 ACAATTAAT
46664291 ACAATTAAT
1 ACAATTAAT
46664300 ACAATT-A-
1 ACAATTAAT
46664307 ACAATTAAT
1 ACAATTAAT
46664316 ACAATTAAT
1 ACAATTAAT
46664325 A
1 A
46664326 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.18
8 2 0.06
9 25 0.76
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:46664312 original size:16 final size:16
Alignment explanation
Indices: 46664291--46664328 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46664281 AACAATTAAT
46664291 ACAATTAATACAATTA
1 ACAATTAATACAATTA
46664307 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
46664323 ATAATT
1 ACAATT
46664329 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:46664380 original size:9 final size:9
Alignment explanation
Indices: 46664366--46664409 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
46664356 TTTTGTTACA
46664366 ACAATTAAT
1 ACAATTAAT
46664375 ACAATTAAT
1 ACAATTAAT
46664384 ACAATT-A-
1 ACAATTAAT
46664391 ACAATTAAT
1 ACAATTAAT
46664400 ACAATTAAT
1 ACAATTAAT
46664409 A
1 A
46664410 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.18
8 2 0.06
9 25 0.76
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:46664396 original size:16 final size:16
Alignment explanation
Indices: 46664375--46664412 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46664365 AACAATTAAT
46664375 ACAATTAATACAATTA
1 ACAATTAATACAATTA
46664391 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
46664407 ATAATT
1 ACAATT
46664413 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:46664396 original size:84 final size:84
Alignment explanation
Indices: 46664255--46664562 Score: 593
Period size: 84 Copynumber: 3.7 Consensus size: 84
46664245 AAAAATGTAA
46664255 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
46664320 TTAATAATTTGATAATTTT
66 TTAATAATTTGATAATTTT
46664339 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
46664404 TTAATAATTTGATAATTTT
66 TTAATAATTTGATAATTTT
46664423 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
46664488 TTAATAATTTGATAATTTT
66 TTAATAATTTGATAATTTT
*
46664507 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAA-A-AATTAAAAATT
1 ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATT
46664563 TGATAATTTT
Statistics
Matches: 223, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
82 10 0.04
83 1 0.00
84 212 0.95
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (84 bp):
ACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAACAATTAATACAA
TTAATAATTTGATAATTTT
Found at i:46664464 original size:9 final size:9
Alignment explanation
Indices: 46664450--46664493 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
46664440 TTTTGTTACA
46664450 ACAATTAAT
1 ACAATTAAT
46664459 ACAATTAAT
1 ACAATTAAT
46664468 ACAATT-A-
1 ACAATTAAT
46664475 ACAATTAAT
1 ACAATTAAT
46664484 ACAATTAAT
1 ACAATTAAT
46664493 A
1 A
46664494 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.18
8 2 0.06
9 25 0.76
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:46664480 original size:16 final size:16
Alignment explanation
Indices: 46664459--46664496 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46664449 AACAATTAAT
46664459 ACAATTAATACAATTA
1 ACAATTAATACAATTA
46664475 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
46664491 ATAATT
1 ACAATT
46664497 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:46664591 original size:22 final size:23
Alignment explanation
Indices: 46664566--46664615 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
46664556 AAAAATTTGA
* * *
46664566 TAATTTTA-CTAACAATTAGTTT
1 TAATTTTATCAAAAAATTAATTT
46664588 TAATTTTATCAAAAAATTAATTT
1 TAATTTTATCAAAAAATTAATTT
46664611 TAATT
1 TAATT
46664616 AAAAACGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (23 bp):
TAATTTTATCAAAAAATTAATTT
Found at i:46664606 original size:66 final size:68
Alignment explanation
Indices: 46664475--46664608 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 68
46664465 AATACAATTA
* * * *
46664475 ACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTGTTACAACAATT
1 ACAATTAATACAATTAAAAATTTGATAATTTTACTAATCAAATGTTAGATTTTATCACAAAAATT
46664540 AAT
66 AAT
*
46664543 ACAATTAA-A-AATTAAAAATTTGATAATTTTACTAA-CAATTAGTTTTA-ATTTTATCA-AAAA
1 ACAATTAATACAATTAAAAATTTGATAATTTTACTAATCAA--A-TGTTAGATTTTATCACAAAA
46664603 ATTAAT
63 ATTAAT
46664609 TTTAATTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
65 3 0.05
66 34 0.59
67 9 0.16
68 12 0.21
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (68 bp):
ACAATTAATACAATTAAAAATTTGATAATTTTACTAATCAAATGTTAGATTTTATCACAAAAATT
AAT
Found at i:46665882 original size:31 final size:31
Alignment explanation
Indices: 46665831--46665911 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
46665821 TCACTTAGTT
*
46665831 AAAAAATTTATAATTT-AGTCATTAAACTATTC
1 AAAAAATTT-T-ATTTAAGTCACTAAACTATTC
*
46665863 -AAAAGTTTTCATTTAAGTCACTAAACTATTC
1 AAAAAATTTT-ATTTAAGTCACTAAACTATTC
46665894 AAAAAATTTTATTTAAGT
1 AAAAAATTTTATTTAAGT
46665912 TACTGGGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 5 0.12
31 30 0.70
32 8 0.19
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAAAATTTTATTTAAGTCACTAAACTATTC
Found at i:46672951 original size:15 final size:15
Alignment explanation
Indices: 46672909--46672958 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
46672899 TTGTTAGGTA
46672909 TGTTACTTATATTAT
1 TGTTACTTATATTAT
*
46672924 TATTA-TTATTATTAT
1 TGTTACTTA-TATTAT
*
46672939 TGTTACTTGTATTAT
1 TGTTACTTATATTAT
*
46672954 CGTTA
1 TGTTA
46672959 GCATCATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.83
16 2 0.07
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (15 bp):
TGTTACTTATATTAT
Found at i:46674587 original size:11 final size:11
Alignment explanation
Indices: 46674571--46674622 Score: 95
Period size: 11 Copynumber: 4.7 Consensus size: 11
46674561 ATGCCCTAAT
*
46674571 TTTCATTAGAA
1 TTTCATTAAAA
46674582 TTTCATTAAAA
1 TTTCATTAAAA
46674593 TTTCATTAAAA
1 TTTCATTAAAA
46674604 TTTCATTAAAA
1 TTTCATTAAAA
46674615 TTTCATTA
1 TTTCATTA
46674623 GATGCCCTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (11 bp):
TTTCATTAAAA
Found at i:46677678 original size:27 final size:27
Alignment explanation
Indices: 46677648--46677716 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
46677638 TGCTTATCTC
*
46677648 AGAGGCGCCAATGGTGGTGCCTAT-TTG
1 AGAGGCGCCAATGGTGCTGCCT-TGTTG
* *
46677675 AGAGGCGCCACTAGTGCTGCCTTGTTG
1 AGAGGCGCCAATGGTGCTGCCTTGTTG
46677702 AGAGGCGCCAATGGT
1 AGAGGCGCCAATGGT
46677717 CTGATTTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.23
Consensus pattern (27 bp):
AGAGGCGCCAATGGTGCTGCCTTGTTG
Found at i:46678013 original size:161 final size:161
Alignment explanation
Indices: 46677823--46678136 Score: 583
Period size: 161 Copynumber: 2.0 Consensus size: 161
46677813 GAAGAAGAAG
* *
46677823 GATAAGGTATTTTAATTTATTTATTTTTAAATAGAATGTAGAGTCTTGTTAGTAATTTTATTATT
1 GATAAGGCATTTTAATTTATTTATTTTTAAATAGAATGTAGAGTCTTGCTAGTAATTTTATTATT
46677888 TGAAAGTTATTTTGTTAGGTTATTAATTTTGTTAGCTTCTGAATGAAAAATTTTGCATTAAAAAT
66 TGAAAGTTATTTTGTTAGGTTATTAATTTTGTTAGCTTCTGAATGAAAAATTTTGCATTAAAAAT
46677953 TTTATGTAATTTTTTTACATTTCAGAAAAAT
131 TTTATGTAATTTTTTTACATTTCAGAAAAAT
** *
46677984 GATAAGGCATTTTGGTTTATTTCTTTTTAAATAGAATGTAGAGTCTTGCTAGTAATTTTATTATT
1 GATAAGGCATTTTAATTTATTTATTTTTAAATAGAATGTAGAGTCTTGCTAGTAATTTTATTATT
46678049 TGAAAGTTATTTTGTTAGGTTATTAATTTTGTTAGCTTCTGAATGAAAAATTTTGCATTAAAAAT
66 TGAAAGTTATTTTGTTAGGTTATTAATTTTGTTAGCTTCTGAATGAAAAATTTTGCATTAAAAAT
46678114 TTTATGTAATTTTTTTACATTTC
131 TTTATGTAATTTTTTTACATTTC
46678137 GAATTTTTTT
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 148 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (161 bp):
GATAAGGCATTTTAATTTATTTATTTTTAAATAGAATGTAGAGTCTTGCTAGTAATTTTATTATT
TGAAAGTTATTTTGTTAGGTTATTAATTTTGTTAGCTTCTGAATGAAAAATTTTGCATTAAAAAT
TTTATGTAATTTTTTTACATTTCAGAAAAAT
Found at i:46680943 original size:16 final size:15
Alignment explanation
Indices: 46680912--46680955 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
46680902 ACAAAATCAA
46680912 ATAAAATTAAATTAT
1 ATAAAATTAAATTAT
*
46680927 ATAAAAGTTACATTAT
1 ATAAAA-TTAAATTAT
46680943 ATAAAAATTAAAT
1 AT-AAAATTAAAT
46680956 GAGTTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAAAATTAAATTAT
Found at i:46681277 original size:22 final size:22
Alignment explanation
Indices: 46681226--46681293 Score: 82
Period size: 22 Copynumber: 2.9 Consensus size: 22
46681216 ATATATCCTG
46681226 AAATTACAATATTCATACAAAATTAAA
1 AAATTACAATATTCATAC---A--AAA
*
46681253 AAATTACTATATTCATACAAAA
1 AAATTACAATATTCATACAAAA
46681275 AAATTACAATATTCATACA
1 AAATTACAATATTCATACA
46681294 GAATACTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 21 0.54
24 1 0.03
27 17 0.44
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATTACAATATTCATACAAAA
Found at i:46681362 original size:19 final size:19
Alignment explanation
Indices: 46681337--46681397 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
46681327 ATTATAAAAT
46681337 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
46681356 CATTACAATATTCATAAAAA
1 AATTACAATATTCAT-ACAA
*
46681376 AATTAGAATATTCATACAA
1 AATTACAATATTCATACAA
46681395 AAT
1 AAT
46681398 ACTAATCCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:46681385 original size:20 final size:20
Alignment explanation
Indices: 46681330--46681396 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
46681320 AAATTTAATT
*
46681330 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
* *
46681350 AT-ACAACATTACAATATTC
1 ATAAAAAAATTACAATATTC
*
46681369 ATAAAAAAATTAGAATATTC
1 ATAAAAAAATTACAATATTC
46681389 ATACAAAA
1 ATA-AAAA
46681397 TACTAATCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.41
20 19 0.49
21 4 0.10
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (20 bp):
ATAAAAAAATTACAATATTC
Found at i:46681587 original size:14 final size:15
Alignment explanation
Indices: 46681570--46681601 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46681560 ACCTTTTTCT
46681570 TTCTTTCTT-TCTTC
1 TTCTTTCTTCTCTTC
46681584 TTC-TTCTTCTCTTC
1 TTCTTTCTTCTCTTC
46681598 TTCT
1 TTCT
46681602 CCTTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCTTTCTTCTCTTC
Done.