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 249 of 313
Found at i:76747045 original size:29 final size:29
Alignment explanation
Indices: 76747009--76747076 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
76746999 CCTAATTTAA
* *
76747009 TTAATTTATTTAAAACTCTAAAATCTAAT
1 TTAATTTATTTAAAACCCTAAAACCTAAT
76747038 TTAATTTATTTAAAACCCTAAAACCTAAT
1 TTAATTTATTTAAAACCCTAAAACCTAAT
76747067 TTAA-TTATTT
1 TTAATTTATTT
76747077 TTTAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 6 0.16
29 31 0.84
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATTTATTTAAAACCCTAAAACCTAAT
Found at i:76747093 original size:34 final size:32
Alignment explanation
Indices: 76746944--76747083 Score: 153
Period size: 34 Copynumber: 4.4 Consensus size: 32
76746934 CTAAACACAA
** *
76746944 AATTATTTTAAAAAACTAAACCCTAATTTAATT
1 AATT-TTTTAAAACTCTAAAACCTAATTTAATT
*
76746977 AATTTTCTTAAACACTCTAAACCCTAATTTAATT
1 AATTTT-TTAAA-ACTCTAAAACCTAATTTAATT
*
76747011 AATTTATTTAAAACTCTAAAATCTAATTTAA-T
1 AATTT-TTTAAAACTCTAAAACCTAATTTAATT
* *
76747043 --TTATTTAAAACCCTAAAACCTAATTTAATT
1 AATTTTTTAAAACTCTAAAACCTAATTTAATT
76747073 -ATTTTTTAAAA
1 AATTTTTTAAAA
76747084 AAACTCTAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
29 23 0.24
30 3 0.03
31 9 0.10
32 3 0.03
33 26 0.28
34 29 0.31
35 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTTTTTAAAACTCTAAAACCTAATTTAATT
Found at i:76753552 original size:52 final size:54
Alignment explanation
Indices: 76753487--76753602 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
76753477 ATAGAAATGG
*
76753487 TGAAAATGAAGAAATAAGAAA-TATTTGGAAATG-AT-T-ATGGTTTTCTCCAAAA
1 TGAAAATGAAGAAAT--GAAACCATTTGGAAATGAATATGATGGTTTTCTCCAAAA
* *
76753539 TGAAAATGGAGAAATGAAACCATTTGGAAATGAATATGGTGGTTTTCTCCAAAA
1 TGAAAATGAAGAAATGAAACCATTTGGAAATGAATATGATGGTTTTCTCCAAAA
76753593 TGAAAATGAA
1 TGAAAATGAA
76753603 TATGACCTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
50 4 0.07
51 11 0.20
52 16 0.29
53 1 0.02
54 24 0.43
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (54 bp):
TGAAAATGAAGAAATGAAACCATTTGGAAATGAATATGATGGTTTTCTCCAAAA
Found at i:76754427 original size:12 final size:12
Alignment explanation
Indices: 76754410--76754434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76754400 GGTGTGCATT
76754410 CGGTTAACCGAC
1 CGGTTAACCGAC
76754422 CGGTTAACCGAC
1 CGGTTAACCGAC
76754434 C
1 C
76754435 CGATATAGCT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:76754607 original size:9 final size:9
Alignment explanation
Indices: 76754593--76754672 Score: 124
Period size: 9 Copynumber: 8.9 Consensus size: 9
76754583 TGGTTAAAAA
*
76754593 TTAACCGAC
1 TTAACCGAT
*
76754602 TTAACCGAC
1 TTAACCGAT
76754611 TTAACCGAT
1 TTAACCGAT
*
76754620 TTAACCAAT
1 TTAACCGAT
76754629 TTAACCGAT
1 TTAACCGAT
*
76754638 TTAACCGAC
1 TTAACCGAT
76754647 TTAACCGAT
1 TTAACCGAT
76754656 TTAACCGAT
1 TTAACCGAT
76754665 TTAACCGA
1 TTAACCGA
76754673 ATTGAATCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (9 bp):
TTAACCGAT
Found at i:76754724 original size:37 final size:37
Alignment explanation
Indices: 76754674--76754785 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
76754664 TTTAACCGAA
*
76754674 TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
76754711 TTGAATCAATACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
76754748 TTGAATCACTACATAATTAAAAACATTAGATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
76754785 T
1 T
76754786 GAAATTAACA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:76754725 original size:20 final size:20
Alignment explanation
Indices: 76754700--76754763 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
76754690 TTAAAAAAAT
76754700 TACATAAGTCTTTGAATCAA
1 TACATAAGTCTTTGAATCAA
** * *
76754720 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAA
*
76754737 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAA
76754757 TACATAA
1 TACATAA
76754764 TTAAAAACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 13 0.39
20 20 0.61
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAA
Found at i:76754742 original size:17 final size:17
Alignment explanation
Indices: 76754683--76754780 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
76754673 ATTGAATCAC
*
76754683 TACATAATTAAAAAAAT
1 TACATAATTAAAAACAT
** * *
76754700 TACATAAGTCTTTGAATCAA
1 TACATAA---TTAAAAACAT
76754720 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
76754737 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
76754757 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
*
76754774 TAGATAA
1 TACATAA
76754781 GTCTTGAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 32 0.56
20 25 0.44
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:76758371 original size:13 final size:13
Alignment explanation
Indices: 76758353--76758381 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
76758343 TGTTAGAGAC
76758353 TTAGACTTTAGTT
1 TTAGACTTTAGTT
76758366 TTAGACTTTAGTT
1 TTAGACTTTAGTT
76758379 TTA
1 TTA
76758382 TTGGGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGACTTTAGTT
Found at i:76758485 original size:51 final size:45
Alignment explanation
Indices: 76758367--76758460 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
76758357 ACTTTAGTTT
*
76758367 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAGTTGGGTTTGGG
1 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
76758412 TAGACTTTAG-TTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
76758456 TAGAC
1 TAGAC
76758461 AAGGGTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 38 0.79
45 10 0.21
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.43
Consensus pattern (45 bp):
TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
Found at i:76760959 original size:21 final size:21
Alignment explanation
Indices: 76760935--76760977 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
76760925 TGTATGGTAA
* *
76760935 GATGTGATTGTCCGCCCTTAT
1 GATGTGATTATCCACCCTTAT
*
76760956 GATGTGGTTATCCACCCTTAT
1 GATGTGATTATCCACCCTTAT
76760977 G
1 G
76760978 GTAAGTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (21 bp):
GATGTGATTATCCACCCTTAT
Found at i:76762479 original size:27 final size:27
Alignment explanation
Indices: 76762448--76762501 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
76762438 AGTTCCCCTA
76762448 TTTAGCTTGATGATCAGTGGGTTCAGC
1 TTTAGCTTGATGATCAGTGGGTTCAGC
*
76762475 TTTAGCTTGATGATCAGTGTGTTCAGC
1 TTTAGCTTGATGATCAGTGGGTTCAGC
76762502 AGAGACCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.39
Consensus pattern (27 bp):
TTTAGCTTGATGATCAGTGGGTTCAGC
Found at i:76764053 original size:14 final size:14
Alignment explanation
Indices: 76764019--76764046 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76764009 AAAATAACCA
76764019 CTTTTTCTTATTCT
1 CTTTTTCTTATTCT
76764033 CTTTTTCTTATTCT
1 CTTTTTCTTATTCT
76764047 TATTTTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTTTCTTATTCT
Found at i:76764067 original size:26 final size:27
Alignment explanation
Indices: 76764037--76764107 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 27
76764027 TATTCTCTTT
76764037 TTCTTATTCTTATTTTCGT-TCACACC
1 TTCTTATTCTTATTTTCGTATCACACC
* * *
76764063 TTCTT-TTCCTATTATCGTATCACTCC
1 TTCTTATTCTTATTTTCGTATCACACC
* *
76764089 TCCTTAGTCTT-TTTT-GTAT
1 TTCTTATTCTTATTTTCGTAT
76764108 AACTTAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
25 15 0.42
26 18 0.50
27 3 0.08
ACGTcount: A:0.14, C:0.25, G:0.06, T:0.55
Consensus pattern (27 bp):
TTCTTATTCTTATTTTCGTATCACACC
Found at i:76767286 original size:219 final size:217
Alignment explanation
Indices: 76766867--76767294 Score: 793
Period size: 219 Copynumber: 2.0 Consensus size: 217
76766857 CGACCTTGAA
* *
76766867 GTACGCAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTTC
1 GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTAC
76766932 GTTATTTATCTTCAACAAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTTTTTTTTCTTCT
66 GTTATTTATCTTCAACAAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTTTTTTTTCTTCT
76766997 CTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGGTG
131 CTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGGTG
76767062 GAGCCATAAAGAATTTTTGAGC
196 GAGCCATAAAGAATTTTTGAGC
*
76767084 GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAATGTACACCTAAAACACTAC
1 GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTAC
* *
76767149 GTTATTTATCTTCAACAAAATTTTTTAGCTCTCTTACTAAACACAACAATTTCTTTTTTTTTCTT
66 GTTATTTATCTTCAAC-AAATTTTTGAGCTCTCCTACTAAACACAACAATTTC-TTTTTTTTCTT
76767214 CTCTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGG
129 CTCTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGG
76767279 TGGAGCCATAAAGAAT
194 TGGAGCCATAAAGAAT
76767295 GGCTCTACCA
Statistics
Matches: 204, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
217 78 0.38
218 34 0.17
219 92 0.45
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (217 bp):
GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTAC
GTTATTTATCTTCAACAAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTTTTTTTTCTTCT
CTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGGTG
GAGCCATAAAGAATTTTTGAGC
Found at i:76774046 original size:24 final size:24
Alignment explanation
Indices: 76773976--76774046 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
76773966 AACTAGATCT
*
76773976 TATGAGCTTCCCGATTAATGGCTCT
1 TATGAGCTTCCCG-TTAATGGCTCG
* * *** *
76774001 TAGGA-CTTACTAATATTGGCTCG
1 TATGAGCTTCCCGTTAATGGCTCG
76774024 TATGAGCTTCCCGTTAATGGCTC
1 TATGAGCTTCCCGTTAATGGCTC
76774047 TCCGGAGCTT
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
23 12 0.38
24 16 0.50
25 4 0.12
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (24 bp):
TATGAGCTTCCCGTTAATGGCTCG
Found at i:76774079 original size:25 final size:24
Alignment explanation
Indices: 76774025--76774084 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
76774015 ATTGGCTCGT
* *
76774025 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTTCCGTTAATGGCTCAC
** *
76774049 CGGAGCTTTCCGTTTCATGGCTCAC
1 ATGAGCTTTCCG-TTAATGGCTCAC
76774074 ATGAGCTTTCC
1 ATGAGCTTTCC
76774085 ATTTATGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (24 bp):
ATGAGCTTTCCGTTAATGGCTCAC
Found at i:76776457 original size:26 final size:27
Alignment explanation
Indices: 76776428--76776489 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
76776418 AATTTTCTTG
*
76776428 AAATTTTACCAGGATTAAAATTGTC-A
1 AAATTTTACCAGGAGTAAAATTGTCAA
* * *
76776454 AAATTTTATCGGGGGTAAAATTGTCAA
1 AAATTTTACCAGGAGTAAAATTGTCAA
76776481 AAATTTTAC
1 AAATTTTAC
76776490 TAAGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (27 bp):
AAATTTTACCAGGAGTAAAATTGTCAA
Found at i:76776496 original size:26 final size:26
Alignment explanation
Indices: 76776443--76776499 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
76776433 TTACCAGGAT
**
76776443 TAAAATTGTCAAAATTTTATCGGGGG
1 TAAAATTGTCAAAATTTTATCGAAGG
*
76776469 TAAAATTGTCAAAAATTTTA-CTAAGG
1 TAAAATTGTC-AAAATTTTATCGAAGG
76776495 TAAAA
1 TAAAA
76776500 CTAGGATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (26 bp):
TAAAATTGTCAAAATTTTATCGAAGG
Found at i:76783695 original size:158 final size:159
Alignment explanation
Indices: 76783340--76783737 Score: 710
Period size: 158 Copynumber: 2.5 Consensus size: 159
76783330 CTTATCAATG
*
76783340 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
* *
76783405 GGCGAAGCCATTGCTTCAAACATAATTTTAGTCTTTTTAGTTTCTGCGCATTTTAGTTTTTTGAC
66 GGCGAAGCCATTGCTTCAAACATAATTTTAGTCTTTTTAGTTTCTGCACATTTTAGTTTTATGAC
76783470 TAAAATTAAATGTCAAAAGCCATTGACTC
131 TAAAATTAAATGTCAAAAGCCATTGACTC
* *
76783499 CGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTTTAACACACTGAAGGTCTTCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
76783564 GGCGAAGCCATTGCTTCAAACA-AATTTTTAGTC-TTTTAGTTTCTGCACATTTTAGTTTTATGA
66 GGCGAAGCCATTGCTTCAAACATAA-TTTTAGTCTTTTTAGTTTCTGCACATTTTAGTTTTATGA
*
76783627 CTAAAATTAAATGTCAAAAGCTATTGACTC
130 CTAAAATTAAATGTCAAAAGCCATTGACTC
76783657 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
*
76783722 GGCGAAGCCCTTGCTT
66 GGCGAAGCCATTGCTT
76783738 TTTAAATTTA
Statistics
Matches: 229, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
158 137 0.60
159 92 0.40
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (159 bp):
TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
GGCGAAGCCATTGCTTCAAACATAATTTTAGTCTTTTTAGTTTCTGCACATTTTAGTTTTATGAC
TAAAATTAAATGTCAAAAGCCATTGACTC
Found at i:76785685 original size:45 final size:47
Alignment explanation
Indices: 76785632--76785742 Score: 122
Period size: 49 Copynumber: 2.4 Consensus size: 47
76785622 TTCATATAAA
* *
76785632 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGT-TTTTCAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGGTGTTTT-AACCTT
* *
76785677 ATTACACTTCATCTATTTGATATTGATTAGAATAAGGTGTTTTAATCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGGTGTTTTAACCTT
76785726 ACTACAC-TCATTCTATT
1 ACTACACTTCA-TCTATT
76785743 AGAATATGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
45 15 0.27
47 4 0.07
48 3 0.05
49 29 0.53
50 4 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGGTGTTTTAACCTT
Found at i:76791611 original size:14 final size:14
Alignment explanation
Indices: 76791594--76791624 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
76791584 GATTTAAGGT
*
76791594 TTATGGGTTAGTGG
1 TTATGGGTTAGAGG
76791608 TTATGGGTTAGAGG
1 TTATGGGTTAGAGG
76791622 TTA
1 TTA
76791625 AAAGTTAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (14 bp):
TTATGGGTTAGAGG
Found at i:76791742 original size:70 final size:70
Alignment explanation
Indices: 76791668--76791805 Score: 240
Period size: 70 Copynumber: 2.0 Consensus size: 70
76791658 TTAGGTTAGA
* *
76791668 GTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAGGGGTTAGTGG
1 GTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAAGGGTTAGTGG
76791733 TTAAG
66 TTAAG
* *
76791738 GTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAAGGGTTAGTGG
1 GTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAAGGGTTAGTGG
76791803 TTA
66 TTA
76791806 GGGGTTTGGG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (70 bp):
GTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAAGGGTTAGTGG
TTAAG
Found at i:76791991 original size:14 final size:14
Alignment explanation
Indices: 76791972--76792051 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
76791962 GAATTGAGGT
76791972 TTAGGGGTTAGGGA
1 TTAGGGGTTAGGGA
76791986 TTAGGGGTTAGAGG-
1 TTAGGGGTTAG-GGA
*
76792000 TTAGGAGTTTAGGGGA
1 TTAGG-GGTTA-GGGA
* * *
76792016 TTTAAGGTTTAGGGG
1 -TTAGGGGTTAGGGA
*
76792031 TTAGGGGTTTAGGGT
1 TTAGGGG-TTAGGGA
76792046 TTAGGG
1 TTAGGG
76792052 TGTCAAGGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
14 21 0.39
15 23 0.43
16 6 0.11
17 4 0.07
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGGGA
Found at i:76792032 original size:38 final size:36
Alignment explanation
Indices: 76791969--76792051 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 36
76791959 TTGGAATTGA
*
76791969 GGTTTAGGGGTTAGGGATTAGGGGTTAGAGG-TTAG
1 GGTTTAGGGGTTAAGGATTAGGGGTTAGAGGTTTAG
* *
76792004 GAGTTTAGGGGATTTAAGGTTTAGGGGTTAGGGGTTTAG
1 G-GTTTAGGGG--TTAAGGATTAGGGGTTAGAGGTTTAG
76792043 GGTTTAGGG
1 GGTTTAGGG
76792052 TGTCAAGGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 1 0.02
36 9 0.22
38 26 0.63
39 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (36 bp):
GGTTTAGGGGTTAAGGATTAGGGGTTAGAGGTTTAG
Found at i:76792052 original size:7 final size:7
Alignment explanation
Indices: 76791969--76792052 Score: 71
Period size: 7 Copynumber: 11.4 Consensus size: 7
76791959 TTGGAATTGA
76791969 GGTTTAG
1 GGTTTAG
*
76791976 GGGTTAG
1 GGTTTAG
*
76791983 GGATTAG
1 GGTTTAG
*
76791990 GGGTTAG
1 GGTTTAG
76791997 AGG-TTAG
1 -GGTTTAG
76792004 GAGTTTAGG
1 G-GTTTA-G
*
76792013 GGATTTAA
1 GG-TTTAG
76792021 GGTTTAG
1 GGTTTAG
*
76792028 GGGTTAGG
1 GGTTTA-G
76792036 GGTTTAG
1 GGTTTAG
76792043 GGTTTAG
1 GGTTTAG
76792050 GGT
1 GGT
76792053 GTCAAGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
6 1 0.02
7 43 0.67
8 14 0.22
9 6 0.09
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (7 bp):
GGTTTAG
Found at i:76792102 original size:13 final size:13
Alignment explanation
Indices: 76792086--76792110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76792076 TTAAGCTTAG
76792086 ATTAATTAATTTT
1 ATTAATTAATTTT
76792099 ATTAATTAATTT
1 ATTAATTAATTT
76792111 ATATATTAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTAATTAATTTT
Found at i:76793507 original size:355 final size:350
Alignment explanation
Indices: 76792861--76793520 Score: 900
Period size: 355 Copynumber: 1.9 Consensus size: 350
76792851 GGCGTTTTTG
* *
76792861 CGCAAAAAGTTCTTAATAATTTGGAGAAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTTT
1 CGCAAAAAATTATTAATAATTTGGAGAAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTTT
* * *
76792926 GCGGCGCTAGTGTAAAAATGCCATTAAAGGTGGGCATTAGCGGCGCTAAAAAAAACGCCGCAAAG
66 GCGGCGCTAGTGTAAAAATGCCACTAAAGGTGGGCATTAGCGGCGCTAAAAAAAACACCGCAAAA
* *
76792991 TTGCTTTGTAGTTTAAACAAAACGTCATTTTGTCTAGCACATTAACGGCATTAGTGGCGCTCGGG
131 TTGCTTTGTAGTTTAAACAAAACGTCATTTTGTCCAGCACATTAACGACATTAGTGGCGCTCGGG
* * *
76793056 TAAAAACGCCGCAATTTTTAATTATTTATAGTGTTTTTAAATATTAATTAAAAAAACAATGTATT
196 AAAAAACGCCGCAATTTTTAATTATTTATAATGTTTTTAAATATTAATTAAAAAAACAATGTATC
*
76793121 AAATCCAAAAACGACGCCGTTTCAATAGAAGAATTTAATTTATTAAACGCCACTATAATGGAGAT
261 AAATCCAAAAACGACGCCGTTTCAATAGAAGAAATTAATTTATTAAACGCCACTATAATGGAGAT
76793186 TAGTGGCTTTTTTCACAAAAAACGC
326 TAGTGGCTTTTTTCACAAAAAACGC
* * *
76793211 CGCAAAAAATTATTAATAGTTTGG-GCAAAACGGTGTAGTTTTTGACTTGGAATTTAATGGCTTT
1 CGCAAAAAATTATTAATAATTTGGAG-AAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTT
* * * * * **
76793275 TGCGGTGC-ATGTGTAAAAACT-CCACTAAAGGTGGGCGTTTGCGGTGTTAGGCTAAAAACACCG
65 TGCGGCGCTA-GTGTAAAAA-TGCCACTAAAGGTGGGCATTAGCGGCGCTA--AAAAAAACACCG
* * *
76793338 CAAAATTTCTTTGTAGTTTAAACAAAACGGTGTCGTTTTGTCCGGCACATTAACGACATTAGTGG
126 CAAAATTGCTTTGTAGTTTAAACAAAAC---GTCATTTTGTCCAGCACATTAACGACATTAGTGG
* * *
76793403 CGCTTGGGAAAAAACGTCGCAATTTTTAATT-TTATCTAAT-TTTTTAAATATTAATT-AAAAAA
188 CGCTCGGGAAAAAACGCCGCAATTTTTAATTATT-TATAATGTTTTTAAATATTAATTAAAAAAA
* * * *
76793465 CAATGTATCAAATTTCCGAAAACGGCGTCGTTTCAATAGAAGAAATTGATTTATTA
252 CAATGTATCAAA--TCCAAAAACGACGCCGTTTCAATAGAAGAAATTAATTTATTA
76793521 GTGGCGTTTT
Statistics
Matches: 268, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
349 2 0.01
350 96 0.36
351 1 0.00
352 35 0.13
353 17 0.06
354 18 0.07
355 99 0.37
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (350 bp):
CGCAAAAAATTATTAATAATTTGGAGAAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTTT
GCGGCGCTAGTGTAAAAATGCCACTAAAGGTGGGCATTAGCGGCGCTAAAAAAAACACCGCAAAA
TTGCTTTGTAGTTTAAACAAAACGTCATTTTGTCCAGCACATTAACGACATTAGTGGCGCTCGGG
AAAAAACGCCGCAATTTTTAATTATTTATAATGTTTTTAAATATTAATTAAAAAAACAATGTATC
AAATCCAAAAACGACGCCGTTTCAATAGAAGAAATTAATTTATTAAACGCCACTATAATGGAGAT
TAGTGGCTTTTTTCACAAAAAACGC
Found at i:76793887 original size:14 final size:14
Alignment explanation
Indices: 76793868--76793915 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
76793858 GAAAAAGCTC
76793868 ATTTTTCCCCTCAA
1 ATTTTTCCCCTCAA
76793882 ATTTTT-CCC-CAA
1 ATTTTTCCCCTCAA
* *
76793894 A--ATTCCCCTCCA
1 ATTTTTCCCCTCAA
76793906 ATTTTTCCCC
1 ATTTTTCCCC
76793916 AAAATTCCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
10 2 0.07
11 3 0.11
12 7 0.26
13 3 0.11
14 12 0.44
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTTCCCCTCAA
Found at i:76793899 original size:24 final size:24
Alignment explanation
Indices: 76793872--76793930 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
76793862 AAGCTCATTT
76793872 TTCCCCTCAAATTTTTCCCCAAAA
1 TTCCCCTCAAATTTTTCCCCAAAA
*
76793896 TTCCCCTCCAATTTTTCCCCAAAA
1 TTCCCCTCAAATTTTTCCCCAAAA
76793920 TTCCCC-CAAAT
1 TTCCCCTCAAAT
76793931 CTAGAACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.32
Consensus pattern (24 bp):
TTCCCCTCAAATTTTTCCCCAAAA
Found at i:76794800 original size:19 final size:19
Alignment explanation
Indices: 76794771--76794815 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
76794761 GTCATTGTAN
76794771 TTTTAATATATATATT-AAAA
1 TTTT-ATATATAT-TTGAAAA
76794791 TTTTATATATATTTGAAAA
1 TTTTATATATATTTGAAAA
*
76794810 ATTTAT
1 TTTTAT
76794816 CAATCATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 17 0.74
20 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTATATATATTTGAAAA
Found at i:76794894 original size:12 final size:12
Alignment explanation
Indices: 76794877--76794997 Score: 67
Period size: 12 Copynumber: 10.1 Consensus size: 12
76794867 TACACAACAC
76794877 ATAACTTACATA
1 ATAACTTACATA
76794889 ATAACTTAC---
1 ATAACTTACATA
*
76794898 ATAACTTATAT-
1 ATAACTTACATA
*
76794909 ATAAACTTATAT-
1 AT-AACTTACATA
76794921 ATAACTTACATA
1 ATAACTTACATA
*
76794933 TATAACTTAAATA
1 -ATAACTTACATA
* *
76794946 A-AATTTATAT-
1 ATAACTTACATA
*
76794956 ATAAACTTACACAACA
1 AT-AACTT--AC-ATA
*
76794972 CATAACTTACACA
1 -ATAACTTACATA
76794985 ATAACTTACATA
1 ATAACTTACATA
76794997 A
1 A
76794998 CTTATATATA
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
9 8 0.09
10 1 0.01
11 17 0.19
12 37 0.42
13 14 0.16
14 3 0.03
15 1 0.01
16 5 0.06
17 2 0.02
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:76794901 original size:21 final size:21
Alignment explanation
Indices: 76794875--76794946 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
76794865 CTTACACAAC
76794875 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
*
76794896 ACATAACTTATAT-ATAAACTTAT
1 ACATAACTTACATAAT-AAC-T-T
*
76794919 ATATAACTTACATATATAACTT
1 ACATAACTTACATA-ATAACTT
*
76794941 AAATAA
1 ACATAA
76794947 AATTTATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 2 0.05
21 15 0.36
22 7 0.17
23 13 0.31
24 3 0.07
25 2 0.05
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:76794924 original size:23 final size:23
Alignment explanation
Indices: 76794898--76794964 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
76794888 AATAACTTAC
*
76794898 ATAACTTATATATAAACTTATAT
1 ATAACTTATATATAAACTTAAAT
*
76794921 ATAACTTACATATATAACTTAAAT
1 ATAACTTATATATA-AACTTAAAT
* *
76794945 AAAATTTATATATAAACTTA
1 ATAACTTATATATAAACTTA
76794965 CACAACACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAACTTATATATAAACTTAAAT
Found at i:76794994 original size:96 final size:95
Alignment explanation
Indices: 76794821--76795023 Score: 343
Period size: 96 Copynumber: 2.1 Consensus size: 95
76794811 TTTATCAATC
* *
76794821 ATATCATAATTTACATACATAACATATAAAAATTTATATATAAACTTACACAACACATAACTTAC
1 ATAT-ATAACTTACATACATAACATAAAAAAATTTATATATAAACTTACACAACACATAACTTAC
*
76794886 ATAATAACTTACATAACTTATATATAAACTT
65 ACAATAACTTACATAACTTATATATAAACTT
* *
76794917 ATATATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTAC
1 ATATATAACTTACATACATAACATAAA-AAAATTTATATATAAACTTACACAACACATAACTTAC
76794982 ACAATAACTTACATAACTTATATATAAACTT
65 ACAATAACTTACATAACTTATATATAAACTT
76795013 ATATATAACTT
1 ATATATAACTT
76795024 TCACAACTTA
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
95 19 0.19
96 82 0.81
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (95 bp):
ATATATAACTTACATACATAACATAAAAAAATTTATATATAAACTTACACAACACATAACTTACA
CAATAACTTACATAACTTATATATAAACTT
Found at i:76795006 original size:49 final size:49
Alignment explanation
Indices: 76794854--76795233 Score: 238
Period size: 52 Copynumber: 7.3 Consensus size: 49
76794844 ATATAAAAAT
76794854 TTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAAC
1 TTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAAC
* * * *
76794903 TTATATATAAACTT-----ATATATAACTTACATATATAACTTAAATAAAAT
1 TTATATATAAACTTACACAACACATAACTTACATA-ATAACTTACAT--AAC
*
76794950 TTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAAC
1 TTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAAC
* * * *
76794999 TTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACATAAC
1 TTATATATAAAC-T-TACACAAC--ACATAACTTAC--ATAATAACTTACATAAC
** * * * * * * *
76795054 ACATAGCCTACATGACTTACATAATACACAACTT--A-AATAACTTAAACAAC
1 TTATA---TATA-AACTTACACAACACATAACTTACATAATAACTTACATAAC
*
76795104 TTACATAATACATAACTTACATTACACACAACTTACATAACTTACATTCATAACTTGA-ATAAAA
1 TT--AT-AT--ATAA---AC-TT--ACACAAC--ACATAACTTACA-TAATAACTT-ACAT--AA
*
76795168 T
49 C
76795169 TTATATATAAACTTACACAACACATAACTTACATATATAACTTACATAAC
1 TTATATATAAACTTACACAACACATAACTTACATA-ATAACTTACATAAC
76795219 TTATATATAAACTTA
1 TTATATATAAACTTA
76795234 TATATAACTT
Statistics
Matches: 256, Mismatches: 35, Indels: 79
0.69 0.09 0.21
Matches are distributed among these distances:
44 14 0.05
45 10 0.04
47 16 0.06
49 28 0.11
50 32 0.12
51 19 0.07
52 38 0.15
53 10 0.04
54 9 0.04
55 29 0.11
56 2 0.01
57 13 0.05
58 4 0.02
59 10 0.04
60 4 0.02
61 1 0.00
62 2 0.01
63 10 0.04
64 1 0.00
65 4 0.02
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (49 bp):
TTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAAC
Found at i:76795017 original size:10 final size:11
Alignment explanation
Indices: 76794994--76795023 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
76794984 AATAACTTAC
76794994 ATAACTTATAT
1 ATAACTTATAT
76795005 ATAAACTTATAT
1 AT-AACTTATAT
76795017 ATAACTT
1 ATAACTT
76795024 TCACAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAACTTATAT
Found at i:76795037 original size:96 final size:97
Alignment explanation
Indices: 76794849--76795043 Score: 331
Period size: 96 Copynumber: 2.0 Consensus size: 97
76794839 ATAACATATA
*
76794849 AAAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAACTTATATATAAA
1 AAAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAA
*
76794914 CTTATATATAACTTACATATATAACTTA-AAT
66 CTTATATATAACTTACACATATAACTTATAAT
76794945 AAAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAA
1 AAAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAA
* *
76795010 CTTATATATAACTTTCACA-ACTTACTTATAAT
66 CTTATATATAACTTACACATA-TAACTTATAAT
76795042 AA
1 AA
76795044 CTTACATAAC
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
95 1 0.01
96 87 0.94
97 5 0.05
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (97 bp):
AAAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAA
CTTATATATAACTTACACATATAACTTATAAT
Found at i:76795040 original size:32 final size:32
Alignment explanation
Indices: 76794879--76795040 Score: 115
Period size: 32 Copynumber: 5.0 Consensus size: 32
76794869 CACAACACAT
*
76794879 AACTTACATAATAACTTACATAACTTA-TATATA
1 AACTTATAT-ATAACTTACATAACTTACT-TATA
*
76794912 AACTTATATATAACTTACATATA-TAACTTAAATAA
1 AACTTATATATAACTTACATA-ACTTACTT--AT-A
* *
76794947 AATTTATATATAAACTTACACAAC--AC--AT-
1 AACTTATATAT-AACTTACATAACTTACTTATA
* *
76794975 AACTTACACAATAACTTACATAACTTA-TATATA
1 AACTTATA-TATAACTTACATAACTTACT-TATA
* *
76795008 AACTTATATATAACTTTCACAACTTACTTATA
1 AACTTATATATAACTTACATAACTTACTTATA
76795040 A
1 A
76795041 TAACTTACAT
Statistics
Matches: 102, Mismatches: 12, Indels: 31
0.70 0.08 0.21
Matches are distributed among these distances:
28 17 0.17
29 2 0.02
30 3 0.03
32 37 0.36
33 18 0.18
34 4 0.04
35 12 0.12
36 9 0.09
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (32 bp):
AACTTATATATAACTTACATAACTTACTTATA
Found at i:76795081 original size:16 final size:16
Alignment explanation
Indices: 76795068--76795143 Score: 89
Period size: 16 Copynumber: 4.6 Consensus size: 16
76795058 AGCCTACATG
76795068 ACTTACATAATACACA
1 ACTTACATAATACACA
* *
76795084 ACTTAAATAACTTAAACA
1 ACTTACATAA--TACACA
*
76795102 ACTTACATAATACATA
1 ACTTACATAATACACA
* *
76795118 ACTTACATTACACACA
1 ACTTACATAATACACA
76795134 ACTTACATAA
1 ACTTACATAA
76795144 CTTACATTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 35 0.71
18 14 0.29
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (16 bp):
ACTTACATAATACACA
Found at i:76795124 original size:9 final size:9
Alignment explanation
Indices: 76795040--76795385 Score: 128
Period size: 9 Copynumber: 40.9 Consensus size: 9
76795030 CTTACTTATA
76795040 ATAACTTAC
1 ATAACTTAC
76795049 ATAAC--AC
1 ATAACTTAC
* *
76795056 ATAGCCTAC
1 ATAACTTAC
*
76795065 ATGACTTAC
1 ATAACTTAC
76795074 ATAA--TAC
1 ATAACTTAC
* *
76795081 ACAACTTAA
1 ATAACTTAC
*
76795090 ATAACTTAA
1 ATAACTTAC
*
76795099 ACAACTTAC
1 ATAACTTAC
76795108 ATAA--TAC
1 ATAACTTAC
76795115 ATAACTTAC
1 ATAACTTAC
*
76795124 ATTAC--AC
1 ATAACTTAC
*
76795131 ACAACTTAC
1 ATAACTTAC
76795140 ATAACTTAC
1 ATAACTTAC
76795149 ---A-TT-C
1 ATAACTTAC
76795153 ATAACTTGA-
1 ATAACTT-AC
* *
76795162 ATAAAATTTATAT
1 AT--AA-CT-TAC
76795175 ATAAACTTAC
1 AT-AACTTAC
*
76795185 ACAAC--AC
1 ATAACTTAC
76795192 ATAACTTAC
1 ATAACTTAC
76795201 AT-A--T--
1 ATAACTTAC
76795205 ATAACTTAC
1 ATAACTTAC
*
76795214 ATAACTTATAT
1 ATAAC-T-TAC
*
76795225 ATAAACTTATAT
1 AT-AAC-T-TAC
*
76795237 ATAACTTTC
1 ATAACTTAC
76795246 ATAACTTAC
1 ATAACTTAC
*
76795255 -TTA-TT--
1 ATAACTTAC
76795260 ATAACTTAC
1 ATAACTTAC
76795269 ATAA--TAC
1 ATAACTTAC
* *
76795276 ATAGCCTAC
1 ATAACTTAC
*
76795285 ATGACTTAC
1 ATAACTTAC
76795294 ATAA--TAC
1 ATAACTTAC
* *
76795301 ACAACTTAA
1 ATAACTTAC
76795310 ATAACTTAC
1 ATAACTTAC
76795319 ATAA--TAC
1 ATAACTTAC
*
76795326 ATAACTTTC
1 ATAACTTAC
76795335 ATAACTTAC
1 ATAACTTAC
*
76795344 ATTA--TAC
1 ATAACTTAC
* *
76795351 ACAACTTAT
1 ATAACTTAC
76795360 ATAACTTAC
1 ATAACTTAC
76795369 ATAACTTAC
1 ATAACTTAC
*
76795378 ATAGCTTA
1 ATAACTTA
76795386 ATTATACTTA
Statistics
Matches: 252, Mismatches: 44, Indels: 82
0.67 0.12 0.22
Matches are distributed among these distances:
4 3 0.01
5 3 0.01
6 4 0.02
7 60 0.24
8 5 0.02
9 143 0.57
10 5 0.02
11 10 0.04
12 16 0.06
13 3 0.01
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:76795151 original size:25 final size:25
Alignment explanation
Indices: 76795040--76795150 Score: 100
Period size: 25 Copynumber: 4.4 Consensus size: 25
76795030 CTTACTTATA
* * *
76795040 ATAACTTACATAACACATAGCCTAC
1 ATAACTTACATAACACACAACTTAC
* * *
76795065 ATGACTTACATAATACACAACTTAA
1 ATAACTTACATAACACACAACTTAC
* * *
76795090 ATAACTTAAACAACTTACATAA--TAC
1 ATAACTTACATAAC--ACACAACTTAC
*
76795115 ATAACTTACATTACACACAACTTAC
1 ATAACTTACATAACACACAACTTAC
76795140 ATAACTTACAT
1 ATAACTTACAT
76795151 TCATAACTTG
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 5 0.08
25 56 0.85
27 5 0.08
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAACTTACATAACACACAACTTAC
Found at i:76795201 original size:52 final size:51
Alignment explanation
Indices: 76795129--76795272 Score: 141
Period size: 52 Copynumber: 2.7 Consensus size: 51
76795119 CTTACATTAC
*
76795129 ACACAACTTACATAACTTACAT-TCATAACTTGA-ATAAAATTTATATATAAACTT
1 ACACAAC-TACATAACTTACATAT-ATAACTT-ACAT--AACTTATATATAAACTT
76795183 ACACAAC-ACATAACTTACATATATAACTTACATAACTTATATATAAACTTAT
1 ACACAACTACATAACTTACATATATAACTTACATAACTTATATATAAAC-T-T
* * * *
76795235 ATATAACTTTCATAACTTACTTATTATAACTTACATAA
1 ACACAAC-TACATAACTTACATA-TATAACTTACATAA
76795273 TACATAGCCT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
50 14 0.18
51 2 0.03
52 28 0.36
53 1 0.01
54 19 0.24
55 14 0.18
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (51 bp):
ACACAACTACATAACTTACATATATAACTTACATAACTTATATATAAACTT
Found at i:76795210 original size:13 final size:13
Alignment explanation
Indices: 76795192--76795216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76795182 TACACAACAC
76795192 ATAACTTACATAT
1 ATAACTTACATAT
76795205 ATAACTTACATA
1 ATAACTTACATA
76795217 ACTTATATAT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAACTTACATAT
Found at i:76795217 original size:61 final size:62
Alignment explanation
Indices: 76795117--76795240 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 62
76795107 CATAATACAT
** * *
76795117 AACTTACATTACACACAACTTACATAACTTACATTCATAACTTGA-ATA-AAATTTATATATA
1 AACTTACACAACACACAACTTACATAACTAACATTCATAACTT-ATATATAAACTTATATATA
*
76795178 AACTTACACAACACATAACTTACATATA-TAAC-TTACATAACTTATATATAAACTTATATATA
1 AACTTACACAACACACAACTTACATA-ACTAACATT-CATAACTTATATATAAACTTATATATA
76795240 A
1 A
76795241 CTTTCATAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
60 3 0.06
61 37 0.69
62 14 0.26
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.34
Consensus pattern (62 bp):
AACTTACACAACACACAACTTACATAACTAACATTCATAACTTATATATAAACTTATATATA
Found at i:76795237 original size:10 final size:11
Alignment explanation
Indices: 76795201--76795243 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
76795191 CATAACTTAC
76795201 ATATATAAC-T
1 ATATATAACTT
*
76795211 -TACATAACTT
1 ATATATAACTT
76795221 ATATATAAACTT
1 ATATAT-AACTT
76795233 ATATATAACTT
1 ATATATAACTT
76795244 TCATAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 7 0.25
10 1 0.04
11 9 0.32
12 11 0.39
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATATAACTT
Found at i:76795266 original size:34 final size:31
Alignment explanation
Indices: 76795192--76795267 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 31
76795182 TACACAACAC
76795192 ATAACTTACATATATAACTTACATAACTTATAT
1 ATAACTT--ATATATAACTTACATAACTTATAT
*
76795225 ATAAACTTATATATAACTTTCATAACTTACTTATT
1 AT-AACTTATATATAACTTACATAACTTA--TA-T
76795260 ATAACTTA
1 ATAACTTA
76795268 CATAATACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 20 0.53
33 2 0.05
34 13 0.34
35 3 0.08
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.42
Consensus pattern (31 bp):
ATAACTTATATATAACTTACATAACTTATAT
Found at i:76795266 original size:220 final size:218
Alignment explanation
Indices: 76794921--76795371 Score: 753
Period size: 220 Copynumber: 2.1 Consensus size: 218
76794911 AAACTTATAT
76794921 ATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACAA
1 ATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACAA
76794986 TAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACAT
66 TAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACAT
76795051 AACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAACTTACATAA-TAC
131 AACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAA--TACATAACTAC
76795115 ATAACTTACATTACACACAACTTAC
194 ATAACTTACATTACACACAACTTAC
* *
76795140 ATAACTTACAT-TCATAACTTGAATAAAATTTATATATAAACTTACACAACACATAACTTACATA
1 ATAACTTACATAT-ATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACA
* *
76795204 TATAACTTACATAACTTATATATAAACTTATATATAACTTTCATAACTTACTTATTATAACTTAC
65 -ATAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTAC
* * * *
76795269 ATAATACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTACATAATACATAACTTT
129 ATAACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAATACATAAC-TA
* *
76795334 CATAACTTACATTATACACAACTTAT
193 CATAACTTACATTACACACAACTTAC
76795360 ATAACTTACATA
1 ATAACTTACATA
76795372 ACTTACATAG
Statistics
Matches: 217, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
218 8 0.04
219 60 0.28
220 149 0.69
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (218 bp):
ATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTACACAA
TAACTTACATAACTTATATATAAACTTATATATAACTTTCACAACTTACTTATAATAACTTACAT
AACACATAGCCTACATGACTTACATAATACACAACTTAAATAACTTAAACAATACATAACTACAT
AACTTACATTACACACAACTTAC
Found at i:76795292 original size:25 final size:25
Alignment explanation
Indices: 76795260--76795372 Score: 145
Period size: 25 Copynumber: 4.5 Consensus size: 25
76795250 CTTACTTATT
* *
76795260 ATAACTTACATAATACATAGCCTAC
1 ATAACTTACATAATACATAACTTAC
* * *
76795285 ATGACTTACATAATACACAACTTAA
1 ATAACTTACATAATACATAACTTAC
*
76795310 ATAACTTACATAATACATAACTTTC
1 ATAACTTACATAATACATAACTTAC
* * *
76795335 ATAACTTACATTATACACAACTTAT
1 ATAACTTACATAATACATAACTTAC
76795360 ATAACTTACATAA
1 ATAACTTACATAA
76795373 CTTACATAGC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATACATAACTTAC
Found at i:76795318 original size:50 final size:50
Alignment explanation
Indices: 76795260--76795382 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 50
76795250 CTTACTTATT
*
76795260 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAA
1 ATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTAA
* * * * *
76795310 ATAACTTACATAATACATAACTTTCATAACTTACATTATACACAACTTAT
1 ATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTAA
76795360 ATAACTTACATAACTTACATAGC
1 ATAACTTACATAA--TACATAGC
76795383 TTAATTATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 57 0.89
52 7 0.11
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (50 bp):
ATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTAA
Found at i:76797816 original size:21 final size:21
Alignment explanation
Indices: 76797792--76797850 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
76797782 GCAGATGCGA
*
76797792 CAGCGAGAGAAGTAGAGGCTG
1 CAGCGAGGGAAGTAGAGGCTG
76797813 CAGCGAGGGAAGTAGAGGCTG
1 CAGCGAGGGAAGTAGAGGCTG
*
76797834 CAGCGAGGGAAGCAGAG
1 CAGCGAGGGAAGTAGAG
76797851 CACCGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.46, T:0.07
Consensus pattern (21 bp):
CAGCGAGGGAAGTAGAGGCTG
Found at i:76798246 original size:43 final size:43
Alignment explanation
Indices: 76798202--76798437 Score: 282
Period size: 43 Copynumber: 5.5 Consensus size: 43
76798192 AACGCCACTA
* *
76798202 AAAG-TCATAGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCT
*
76798244 AAAGATCATGGTCTTCAGCGGCGTTTGTTGG-AAAGACGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAG-CGCCGCT
* * *
76798287 AACGATCAGGGTCTTTAGCGGCGTTT-TCTGGAGAAGCGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGT-TGGAAAAGCGCCGCT
* * *
76798330 AAAGATCAGGGTCTTTAGCGGCGTTTGTTGGAGAAGTGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCT
* ** *
76798373 AAAGACCATGACCTTTAGCGGCGTTTG-TGGTGAAAGCGCCGCT
1 AAAGATCATGGTCTTTAGCGGCGTTTGTTGG-AAAAGCGCCGCT
* *
76798416 AAAGGTCTTGGTCTTTAGCGGC
1 AAAGATCATGGTCTTTAGCGGC
76798438 ATTTATTTCT
Statistics
Matches: 167, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
42 12 0.07
43 151 0.90
44 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
AAAGATCATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCT
Found at i:76798525 original size:22 final size:22
Alignment explanation
Indices: 76798497--76798540 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
76798487 ATTTATTTCT
*
76798497 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
76798519 AAAAAGCGCTGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
76798541 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:76799516 original size:17 final size:17
Alignment explanation
Indices: 76799494--76799526 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
76799484 ATGACTAAAT
76799494 TATAAAATTTTAATTAC
1 TATAAAATTTTAATTAC
*
76799511 TATAAATTTTTAATTA
1 TATAAAATTTTAATTA
76799527 GAAAATTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAAAATTTTAATTAC
Found at i:76800222 original size:27 final size:27
Alignment explanation
Indices: 76800181--76800260 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
76800171 TAGTATTGGC
* *
76800181 GCCTATCTGGAAGGCACCAATGGTGAT
1 GCCTATCTGGGAGGCGCCAATGGTGAT
*
76800208 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGAT
76800235 GCCTATCTGGGAGGCGCCAAT-GTGAT
1 GCCTATCTGGGAGGCGCCAATGGTGAT
76800261 TTTTCTCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGAT
Found at i:76800369 original size:22 final size:21
Alignment explanation
Indices: 76800315--76800368 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
76800305 GAAACAGAAG
76800315 AAAGAAGAAAAGAAGGAAGGA
1 AAAGAAGAAAAGAAGGAAGGA
*
76800336 AGCAGAAGAAAAGAAGGAAGGA
1 A-AAGAAGAAAAGAAGGAAGGA
76800358 AAAGAAGAAAA
1 AAAGAAGAAAA
76800369 AAATTAGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAAAGAAGGAAGGA
Found at i:76805256 original size:22 final size:22
Alignment explanation
Indices: 76805224--76805461 Score: 171
Period size: 22 Copynumber: 11.0 Consensus size: 22
76805214 TNAAAATTAC
76805224 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
*
76805246 AAAATTGCAATATTCATACAAAA
1 AAAATTACAATATTCATAC-AAA
76805269 CTATAATATTACAATATTCATACAAA
1 --A-AA-ATTACAATATTCATACAAA
* *
76805295 AAATTTATAATATTCATAC---
1 AAAATTACAATATTCATACAAA
*
76805314 AAAATTATAATATTCATAC-AA
1 AAAATTACAATATTCATACAAA
* *
76805335 AAAATTACTA-ATCCA-A-AACTA
1 AAAATTACAATATTCATACAA--A
* * *
76805356 TAAA-TACAA-ATTTAATTATAAA
1 AAAATTACAATA-TTCA-TACAAA
*
76805378 ATAATTACAATATTCATAC---
1 AAAATTACAATATTCATACAAA
*
76805397 AACATTACAATATTCAT--AAA
1 AAAATTACAATATTCATACAAA
*
76805417 AAAATTATAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
* *
76805439 AAATTTAAAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
76805461 A
1 A
76805462 TTCTAATCTA
Statistics
Matches: 173, Mismatches: 22, Indels: 42
0.73 0.09 0.18
Matches are distributed among these distances:
19 35 0.20
20 24 0.14
21 14 0.08
22 61 0.35
23 14 0.08
24 4 0.02
25 1 0.01
26 5 0.03
27 15 0.09
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTACAATATTCATACAAA
Found at i:76805307 original size:49 final size:49
Alignment explanation
Indices: 76805227--76805327 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
76805217 AAATTACAAA
*
76805227 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTATAAT
* * *
76805276 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTATAAT
76805325 ATT
1 ATT
76805328 CATACAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (49 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTATAAT
Found at i:76805641 original size:3 final size:3
Alignment explanation
Indices: 76805635--76805664 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
76805625 TTTTCTTTCT
76805635 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
76805665 CCTCCTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:76805644 original size:14 final size:15
Alignment explanation
Indices: 76805627--76805665 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
76805617 ACCTTTTTTT
76805627 TTCTTTCTT-TCTTC
1 TTCTTTCTTCTCTTC
76805641 TTC-TTCTTCTCTTC
1 TTCTTTCTTCTCTTC
76805655 TTC-TTCTTCTC
1 TTCTTTCTTCTC
76805666 CTCCTCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTTCTTCTCTTC
Found at i:76805655 original size:17 final size:17
Alignment explanation
Indices: 76805631--76805675 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
76805621 TTTTTTTTCT
76805631 TTCT-TTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
76805647 TTCTCTTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
* *
76805664 TCCTCCTCTTCT
1 TTCTCTTCTTCT
76805676 CCTCCTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTCTTCTTCTTCTTC
Found at i:76805673 original size:14 final size:14
Alignment explanation
Indices: 76805642--76805681 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
76805632 TCTTTCTTCT
* *
76805642 TCTTCTTCTCTTCT
1 TCTTCTTCTCCTCC
76805656 TCTTCTTCTCCTCC
1 TCTTCTTCTCCTCC
*
76805670 TCTTCTCCTCCT
1 TCTTCTTCTCCT
76805682 TTCTCTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (14 bp):
TCTTCTTCTCCTCC
Found at i:76805689 original size:17 final size:16
Alignment explanation
Indices: 76805633--76805690 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
76805623 TTTTTTCTTT
*
76805633 CTTTCTTCTTCTTCTT
1 CTTTCTTCTTCTTCTC
76805649 CTCTTCTTCTTCTTCTC
1 CT-TTCTTCTTCTTCTC
* *
76805666 C--TCCTCTTCTCCTC
1 CTTTCTTCTTCTTCTC
76805680 CTTTCTCTCTT
1 CTTTCT-TCTT
76805691 TTTTTTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 12 0.35
16 4 0.12
17 18 0.53
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
CTTTCTTCTTCTTCTC
Found at i:76811908 original size:17 final size:18
Alignment explanation
Indices: 76811886--76811922 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
76811876 TGAAAATATT
*
76811886 AATTTTCAATTGATT-TA
1 AATTTTCAATGGATTGTA
76811903 AATTTTCAATGGATTGTA
1 AATTTTCAATGGATTGTA
76811921 AA
1 AA
76811923 AGTGATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (18 bp):
AATTTTCAATGGATTGTA
Found at i:76814925 original size:27 final size:28
Alignment explanation
Indices: 76814895--76814952 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
76814885 AAAGATTTTT
*
76814895 AAAACTCTTCTAAAAG-AAAACTC-AAGA
1 AAAACTCTT-GAAAAGAAAAACTCAAAGA
*
76814922 AAAATTCTTGAAAAGAAAAACTCAAAGA
1 AAAACTCTTGAAAAGAAAAACTCAAAGA
76814950 AAA
1 AAA
76814953 TATATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 15 0.56
28 7 0.26
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.17
Consensus pattern (28 bp):
AAAACTCTTGAAAAGAAAAACTCAAAGA
Found at i:76817693 original size:42 final size:42
Alignment explanation
Indices: 76817641--76817746 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
76817631 TAATGATATT
* *
76817641 TGATTCGCATGTTAAGCTTGCCGATTATGATGAAT-TAAGATC
1 TGATTCGCATGTTAAGCATGCCGATTATGATG-ATCTAAGATA
* * * * *
76817683 TGATTTGCATGTTAAGCAGGTCGATTATGTTGATCTTAGATA
1 TGATTCGCATGTTAAGCATGCCGATTATGATGATCTAAGATA
*
76817725 TGATTCGCATGTTAAGCGTGCC
1 TGATTCGCATGTTAAGCATGCC
76817747 TACTGATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 2 0.04
42 50 0.96
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (42 bp):
TGATTCGCATGTTAAGCATGCCGATTATGATGATCTAAGATA
Found at i:76817911 original size:24 final size:24
Alignment explanation
Indices: 76817834--76817947 Score: 85
Period size: 24 Copynumber: 4.8 Consensus size: 24
76817824 TTACTGTAAA
*
76817834 ATTGAGTGGCTTGTCCACAACAAT
1 ATTGAGTGGCTTGACCACAACAAT
* *
76817858 A-TGAGTAGCTTG-CCTACAA-AGCT
1 ATTGAGTGGCTTGACC-ACAACA-AT
** *
76817881 AACGAGTGACTTGACCACAACAAT
1 ATTGAGTGGCTTGACCACAACAAT
*
76817905 ATTGAGTGGCTTGGA-CACAAC-GT
1 ATTGAGTGGCTT-GACCACAACAAT
*
76817928 AATTGAGTGGTTTGACCACA
1 -ATTGAGTGGCTTGACCACA
76817948 CCATGCAGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
22 3 0.04
23 19 0.27
24 44 0.62
25 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACAAT
Found at i:76817936 original size:48 final size:48
Alignment explanation
Indices: 76817833--76817947 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
76817823 TTTACTGTAA
* *
76817833 AATTGAGTGGCTTGTCCACAACAATATGAGTAGCTTGCCTACAAAGCT
1 AATTGAGTGGCTTGACCACAACAATATGAGTAGCTTGACTACAAAGCT
* * * *
76817881 AA-CGAGTGACTTGACCACAACAATATTGAGTGGCTTGGAC-ACAACG-T
1 AATTGAGTGGCTTGACCACAACAATA-TGAGTAGCTT-GACTACAAAGCT
*
76817928 AATTGAGTGGTTTGACCACA
1 AATTGAGTGGCTTGACCACA
76817948 CCATGCAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
47 23 0.42
48 30 0.55
49 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (48 bp):
AATTGAGTGGCTTGACCACAACAATATGAGTAGCTTGACTACAAAGCT
Found at i:76819090 original size:15 final size:15
Alignment explanation
Indices: 76819070--76819099 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
76819060 AACTTTGTTA
76819070 GGTCAAATGAAAACT
1 GGTCAAATGAAAACT
76819085 GGTCAAATGAAAACT
1 GGTCAAATGAAAACT
76819100 AACACAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GGTCAAATGAAAACT
Found at i:76821325 original size:25 final size:24
Alignment explanation
Indices: 76821285--76821333 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
76821275 ATATATATAT
76821285 TCTAAAAAAGAAAAAGGAATACCTAA
1 TCTAAAAAAGAAAAA-GAA-ACCTAA
*
76821311 TCTAAAAATG-AAAAGAAACCTAA
1 TCTAAAAAAGAAAAAGAAACCTAA
76821334 CTTAAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 3 0.14
25 4 0.18
26 9 0.41
ACGTcount: A:0.61, C:0.12, G:0.10, T:0.16
Consensus pattern (24 bp):
TCTAAAAAAGAAAAAGAAACCTAA
Found at i:76824907 original size:24 final size:24
Alignment explanation
Indices: 76824856--76824907 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
76824846 CAAAATAATG
*
76824856 GGAAAGGTTGAAAAGGATAACAAT
1 GGAAAGGTTGAAAAGGATAACAAC
*
76824880 GGAAAGGTTGAAAATGG-TAGCAAC
1 GGAAAGGTTGAAAA-GGATAACAAC
76824904 GGAA
1 GGAA
76824908 TGGATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.46, C:0.06, G:0.33, T:0.15
Consensus pattern (24 bp):
GGAAAGGTTGAAAAGGATAACAAC
Found at i:76828825 original size:26 final size:26
Alignment explanation
Indices: 76828789--76828849 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
76828779 ATATATTTTC
*
76828789 TCAAAATTTTAC-CAGGGGTAAAATCG
1 TCAAAATTTTACTCA-GGGTAAAATCA
* *
76828815 TCAAACTTTTACTTAGGGTAAAATCA
1 TCAAAATTTTACTCAGGGTAAAATCA
76828841 TCAAAATTT
1 TCAAAATTT
76828850 GTTGGGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTCAGGGTAAAATCA
Found at i:76830572 original size:14 final size:13
Alignment explanation
Indices: 76830553--76830582 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
76830543 CTTGATTAGG
76830553 AATTAATTAATCTT
1 AATTAATTAA-CTT
76830567 AATTAATTAACTT
1 AATTAATTAACTT
76830580 AAT
1 AAT
76830583 CATGACTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATTAACTT
Found at i:76838703 original size:20 final size:20
Alignment explanation
Indices: 76838678--76838731 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
76838668 TAGGGAATTT
** *
76838678 GGGGAAAATAAATTTTTTTA
1 GGGGAAAATAAAAGTTTTAA
*
76838698 GGGGAAAGTAAAAGTTTTAA
1 GGGGAAAATAAAAGTTTTAA
*
76838718 AGGGAAAATAAAAG
1 GGGGAAAATAAAAG
76838732 GAAAAAAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
GGGGAAAATAAAAGTTTTAA
Found at i:76841418 original size:18 final size:18
Alignment explanation
Indices: 76841395--76841437 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
76841385 TGCCAGGTGC
*
76841395 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
76841413 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
76841431 GTTTCCT
1 GTATCCT
76841438 TTTCCCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:76841699 original size:21 final size:21
Alignment explanation
Indices: 76841675--76841715 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
76841665 CCAACACCCA
76841675 CAACCACAACCCCCACCGGAG
1 CAACCACAACCCCCACCGGAG
*
76841696 CAACCACAACCCCCGCCGGA
1 CAACCACAACCCCCACCGGA
76841716 AGCTTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.54, G:0.15, T:0.00
Consensus pattern (21 bp):
CAACCACAACCCCCACCGGAG
Found at i:76845172 original size:126 final size:126
Alignment explanation
Indices: 76844935--76845199 Score: 349
Period size: 126 Copynumber: 2.1 Consensus size: 126
76844925 GCCAAACAGT
* * *
76844935 AACTACTGTAGAATAAGAGCGCCCACGTGGGAGCTTTTTTTAGTATTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAATAAGAGCGCCCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATCC
* * * * *
76845000 TGCTTGAAGTGTTTTTGACACTATTTGTTCAGAATAGTCTTCTCAAAATTATTTTTTTAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACAGTCTTATCAAAATTAATTTTTTAGG
* **
76845061 AACTATTGTAGTAA-AAGAGCGGTCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATC
1 AACTACTGTAG-AATAAGAGCGCCCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATC
* *
76845125 CTGCTTAAAGCGTTTTTGACATTATCTT-TTCAGAACCA-TCTTATCAAAATTAATTTTTCT-GA
65 CTGCTTAAAGCGTTTTTGACACTAT-TTGTTCAGAA-CAGTCTTATCAAAATTAATTTTT-TAGG
76845187 AACTACTGTAGAA
1 AACTACTGTAGAA
76845200 AAAAAACAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
125 2 0.02
126 113 0.93
127 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAATAAGAGCGCCCACGTGGAAGCTTCTTTTAGTAATTTTGCTGACAGTGCATCC
TGCTTAAAGCGTTTTTGACACTATTTGTTCAGAACAGTCTTATCAAAATTAATTTTTTAGG
Found at i:76845491 original size:29 final size:28
Alignment explanation
Indices: 76845445--76845509 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
76845435 ACAAAAGCTT
76845445 AAACCCT-AAACCTAAATTATTTTAACA
1 AAACCCTAAAACCTAAATTATTTTAACA
*
76845472 AAATCCTAAAACCATAAATTATTTTAACA
1 AAACCCTAAAACC-TAAATTATTTTAACA
76845501 AAACCCTAA
1 AAACCCTAA
76845510 CACTAAACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 6 0.18
28 5 0.15
29 23 0.68
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
AAACCCTAAAACCTAAATTATTTTAACA
Found at i:76846752 original size:4 final size:4
Alignment explanation
Indices: 76846743--76846774 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
76846733 TTCTGCAACA
*
76846743 CCTC CCTC CCTC TCTC CCTC CCTC CCTC CCTC
1 CCTC CCTC CCTC CCTC CCTC CCTC CCTC CCTC
76846775 TCTCTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (4 bp):
CCTC
Found at i:76846761 original size:12 final size:12
Alignment explanation
Indices: 76846744--76846782 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
76846734 TCTGCAACAC
76846744 CTCCCTCCCTCT
1 CTCCCTCCCTCT
*
76846756 CTCCCTCCCTCC
1 CTCCCTCCCTCT
*
76846768 CTCCCTCTCTCT
1 CTCCCTCCCTCT
76846780 CTC
1 CTC
76846783 TCTCTGCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCCCTCCCTCT
Found at i:76846787 original size:12 final size:12
Alignment explanation
Indices: 76846744--76846787 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
76846734 TCTGCAACAC
*
76846744 CTCCCTCCCTCT
1 CTCCCTCTCTCT
* *
76846756 CTCCCTCCCTCC
1 CTCCCTCTCTCT
76846768 CTCCCTCTCTCT
1 CTCCCTCTCTCT
*
76846780 CTCTCTCT
1 CTCCCTCT
76846788 GCAACCATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (12 bp):
CTCCCTCTCTCT
Found at i:76846912 original size:93 final size:94
Alignment explanation
Indices: 76846801--76847034 Score: 301
Period size: 99 Copynumber: 2.4 Consensus size: 94
76846791 ACCATGACTG
* *
76846801 CCACGATGGGTCCACCGCC-TCCCAGT-AACCCTAACCCCTCGACCGAACCCGAGTCGATAGCCC
1 CCACGATGGGTCCTCCGCCTTCCCA-TAAACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCC
*
76846864 AAGAAGAATCCGAACCCAGAACAGCCAAAA
65 AAGAAGAATCCGAACCCAGAAAAGCCAAAA
76846894 CCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAACCCCGCGACCGAACCCGAGTCGATA
1 CCACGATGGGTCCTCCG----C-CTTCCCATAAACCCTAACCCCGCGACCGAACCCGAGTCGATA
* * *
76846959 GCCCTAGAAGAATCCGAACTCATAAAAGCCAAAA
61 GCCCAAGAAGAATCCGAACCCAGAAAAGCCAAAA
76846993 CCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAACC
1 CCACGATGGGTCCTCCG----C-CTTCCCATAAACCCTAACC
76847035 TGCAAAATCC
Statistics
Matches: 128, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
93 16 0.12
97 1 0.01
98 2 0.02
99 109 0.85
ACGTcount: A:0.30, C:0.41, G:0.16, T:0.13
Consensus pattern (94 bp):
CCACGATGGGTCCTCCGCCTTCCCATAAACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCA
AGAAGAATCCGAACCCAGAAAAGCCAAAA
Found at i:76846968 original size:99 final size:99
Alignment explanation
Indices: 76846827--76847034 Score: 371
Period size: 99 Copynumber: 2.1 Consensus size: 99
76846817 GCCTCCCAGT
* *
76846827 AACCCTAACCCCTCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAACAGCCAA
1 AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAAAAGCCAA
76846892 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
* * *
76846926 AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCTAGAAGAATCCGAACTCATAAAAGCCAA
1 AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAAAAGCCAA
76846991 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
76847025 AACCCTAACC
1 AACCCTAACC
76847035 TGCAAAATCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.32, C:0.40, G:0.15, T:0.13
Consensus pattern (99 bp):
AACCCTAACCCCGCGACCGAACCCGAGTCGATAGCCCAAGAAGAATCCGAACCCAGAAAAGCCAA
AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
Found at i:76855939 original size:22 final size:24
Alignment explanation
Indices: 76855913--76855956 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
76855903 GAAAAATATT
76855913 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
76855935 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
76855957 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:76856067 original size:9 final size:9
Alignment explanation
Indices: 76856053--76856089 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
76856043 TTTTGTTACA
76856053 ACAATTAAT
1 ACAATTAAT
76856062 ACAATTAAT
1 ACAATTAAT
76856071 ACAATTAAT
1 ACAATTAAT
76856080 ACAATTAAT
1 ACAATTAAT
76856089 A
1 A
76856090 ATTTGATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:76856111 original size:77 final size:77
Alignment explanation
Indices: 76856021--76856223 Score: 302
Period size: 68 Copynumber: 2.8 Consensus size: 77
76856011 CATCAAGTTT
76856021 GTTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATT
1 GTTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATT
76856086 AATAATTTGATA
66 AATAATTTGATA
76856098 GTTTTACTAATCAAATGTTAGATTTTGTT---AC-----A-ACAATTAATACAATTAATACAATT
1 GTTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATT
76856154 AATAATTTGATA
66 AATAATTTGATA
** *
76856166 AATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATA
1 GTTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATA
76856224 ATTTGATAAT
Statistics
Matches: 114, Mismatches: 3, Indels: 20
0.83 0.02 0.15
Matches are distributed among these distances:
68 62 0.54
69 1 0.01
71 2 0.02
74 2 0.02
75 10 0.09
76 2 0.02
77 35 0.31
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (77 bp):
GTTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATACAATT
AATAATTTGATA
Found at i:76856138 original size:68 final size:68
Alignment explanation
Indices: 76856062--76856241 Score: 319
Period size: 68 Copynumber: 2.7 Consensus size: 68
76856052 AACAATTAAT
* *
76856062 ACAATTAATACAATTAATACAATTAATAATTTGATAGTTTTACTAATCAAATGTTAGATTTTGTT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTATT
76856127 ACA
66 ACA
*
76856130 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTATT
76856195 ACA
66 ACA
76856198 ACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATACAATTAATAATTTGATAATTTTACTAA
76856242 CAATTAATTT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
66 27 0.25
67 1 0.01
68 80 0.74
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
ACAATTAATACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTATT
ACA
Found at i:76856144 original size:9 final size:9
Alignment explanation
Indices: 76856130--76856157 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
76856120 TTTTGTTACA
76856130 ACAATTAAT
1 ACAATTAAT
76856139 ACAATTAAT
1 ACAATTAAT
76856148 ACAATTAAT
1 ACAATTAAT
76856157 A
1 A
76856158 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:76856251 original size:16 final size:16
Alignment explanation
Indices: 76856230--76856271 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
76856220 AATAATTTGA
*
76856230 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
76856246 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
76856262 TATTTTTAAT
1 TAATTTTAAT
76856272 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:76856255 original size:22 final size:23
Alignment explanation
Indices: 76856245--76856300 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
76856235 TTACTAACAA
* * *
76856245 TTAATTTTAAT-AACAATTATTT
1 TTAATTTTAATAAAAAAATAATT
*
76856267 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
76856290 TTAATTTTAAT
1 TTAATTTTAAT
76856301 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:76856260 original size:59 final size:66
Alignment explanation
Indices: 76856062--76856263 Score: 274
Period size: 68 Copynumber: 3.1 Consensus size: 66
76856052 AACAATTAAT
** *
76856062 ACAATTAATACAATTAATACAATTAATAATTTGATAGTTTTACTAATCAAATGTTAGATTTTGTT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTT-AT
76856127 ACA
64 ACA
76856130 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-T
76856195 ACA
64 ACA
* *
76856198 ACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-AT
1 ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATAC
76856256 A
66 A
76856257 ACAATTA
1 ACAATTA
76856264 TTTTTAATTT
Statistics
Matches: 128, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.21
67 1 0.01
68 79 0.62
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (66 bp):
ACAATTAATACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATAC
A
Found at i:76860446 original size:44 final size:43
Alignment explanation
Indices: 76860382--76860465 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
76860372 ACAGTCATCA
*
76860382 AATAAGAACAGTAGTCATAGACAACTTGATTGGGGGGGGGGGGG
1 AATAAGAACAGTAGTCATAGACAACTTGA-AGGGGGGGGGGGGG
*
76860426 AATAAGAACAGTAGTTATAGACAACTTGAAGGGGGGGGGG
1 AATAAGAACAGTAGTCATAGACAACTTGAAGGGGGGGGGG
76860466 TTCTTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 10 0.26
44 28 0.74
ACGTcount: A:0.35, C:0.08, G:0.39, T:0.18
Consensus pattern (43 bp):
AATAAGAACAGTAGTCATAGACAACTTGAAGGGGGGGGGGGGG
Found at i:76862573 original size:22 final size:23
Alignment explanation
Indices: 76862548--76862594 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
76862538 AGTTAAAAAA
76862548 TTAAAAATATTATTTTTA-ATTT
1 TTAAAAATATTATTTTTACATTT
* * *
76862570 TTAAAATTTTTTTTTTTACATTT
1 TTAAAAATATTATTTTTACATTT
76862593 TT
1 TT
76862595 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTAAAAATATTATTTTTACATTT
Found at i:76866500 original size:22 final size:22
Alignment explanation
Indices: 76866475--76866516 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
76866465 ATAGACATAA
*
76866475 AAATTAAAATATATTTAGATTT
1 AAATTAAAATAAATTTAGATTT
*
76866497 AAATTATAATAAATTTAGAT
1 AAATTAAAATAAATTTAGAT
76866517 AAAATCCAAT
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:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTAAAATAAATTTAGATTT
Found at i:76870857 original size:19 final size:19
Alignment explanation
Indices: 76870833--76870890 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
76870823 TTCAATTTCT
76870833 CAATTTATTCTTTATAGAA
1 CAATTTATTCTTTATAGAA
76870852 CAA--T-TTC--TATA-AA
1 CAATTTATTCTTTATAGAA
*
76870865 GAATTTATTCTTTATAGAA
1 CAATTTATTCTTTATAGAA
76870884 CAATTTA
1 CAATTTA
76870891 GGAACGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 1 0.03
16 6 0.19
17 1 0.03
18 4 0.13
19 11 0.35
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (19 bp):
CAATTTATTCTTTATAGAA
Found at i:76873267 original size:21 final size:21
Alignment explanation
Indices: 76873243--76873283 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
76873233 TGATTAACTA
*
76873243 AAATTATAATAAACTTAAAAT
1 AAATTATAATAAACATAAAAT
*
76873264 AAATTATAATATACATAAAA
1 AAATTATAATAAACATAAAA
76873284 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATTATAATAAACATAAAAT
Found at i:76875249 original size:36 final size:36
Alignment explanation
Indices: 76875209--76875278 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 36
76875199 TGTGGAGCTC
76875209 GATGA-TTAGTGTTTG-TTTTAGGTGTTGGTCTTTTTT
1 GATGACTT-GTGTTTGTTTTTAGGTGTTGG-CTTTTTT
76875245 GATGACTTGTGTTTGTTTTTAGGTGTTGGCTTTT
1 GATGACTTGTGTTTGTTTTTAGGTGTTGGCTTTT
76875279 CTATAACTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
36 17 0.53
37 15 0.47
ACGTcount: A:0.10, C:0.04, G:0.29, T:0.57
Consensus pattern (36 bp):
GATGACTTGTGTTTGTTTTTAGGTGTTGGCTTTTTT
Found at i:76875554 original size:22 final size:22
Alignment explanation
Indices: 76875524--76875567 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
76875514 CACACAAAAA
* *
76875524 TAGGTTTTTAGCGGCGTTTTTT
1 TAGGCTTTTAGCGGCGCTTTTT
76875546 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCTTTTAGCGGCGCTTTTT
76875568 AGCGCCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.14, G:0.27, T:0.50
Consensus pattern (22 bp):
TAGGCTTTTAGCGGCGCTTTTT
Found at i:76875659 original size:43 final size:43
Alignment explanation
Indices: 76875598--76875810 Score: 322
Period size: 43 Copynumber: 5.0 Consensus size: 43
76875588 CGGCACTTAC
* *
76875598 CCCACAAACGCCGCTATAGATCATGACCTTTAGCAGCGCTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
**
76875641 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGTACTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
* * *
76875684 CCCGCAAATGCTGCTATAGATCATGACTTTTAGCGGCGCTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
* * *
76875727 CCCACAAACGCCGCTAAAGGTCATGACTTTTAACGGCGC-TTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
76875769 CCC-CAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
1 CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
76875811 TCTATAAACT
Statistics
Matches: 151, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 32 0.21
42 9 0.06
43 110 0.73
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
CCCACAAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTT
Found at i:76878810 original size:28 final size:28
Alignment explanation
Indices: 76878773--76878873 Score: 150
Period size: 28 Copynumber: 3.6 Consensus size: 28
76878763 TGATAATGAG
* *
76878773 ATTAA-CACTAAGTGTGCAAGTTTAATT
1 ATTAAGCACTAAGTGTGCAAGATTGATT
* * *
76878800 GTAAAGCACTAAGTGTGCGAGATTGATT
1 ATTAAGCACTAAGTGTGCAAGATTGATT
76878828 ATTAAGCACTAAGTGTGCAAGATTGATT
1 ATTAAGCACTAAGTGTGCAAGATTGATT
76878856 ATTAAGCACTAAGTGTGC
1 ATTAAGCACTAAGTGTGC
76878874 GAACTTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 3 0.05
28 62 0.95
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (28 bp):
ATTAAGCACTAAGTGTGCAAGATTGATT
Found at i:76879780 original size:25 final size:24
Alignment explanation
Indices: 76879578--76879852 Score: 178
Period size: 23 Copynumber: 11.7 Consensus size: 24
76879568 TGATGCTTAA
* * *
76879578 ATGCTGCCCAA-TTCGTTGTATTT
1 ATGCTGTCCAATTTTGTTGTATAT
*
76879601 ATGCTG-CCTAA-ATTGTTGTATAT
1 ATGCTGTCC-AATTTTGTTGTATAT
* * * *
76879624 ATGCTATCCAATTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* * *
76879648 ATGTTG-CTCAA-TTTGGTATATAT
1 ATGCTGTC-CAATTTTGTTGTATAT
76879671 ATGCTG-CCTAAATTTT-TT-TATAT
1 ATGCTGTCC--AATTTTGTTGTATAT
* * *
76879694 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAATTTTGTTGTATAT
* * *
76879718 ATGTTG-CTCAA-TTTGGTATATAT
1 ATGCTGTC-CAATTTTGTTGTATAT
*
76879741 ATGCTGCCCAA-TTTGTTGTATAT
1 ATGCTGTCCAATTTTGTTGTATAT
* * * *
76879764 ATGCTATCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA-TTTTGTTGTATAT
*
76879789 ATGCTGTTCAATTTTGTTGTATAT
1 ATGCTGTCCAATTTTGTTGTATAT
* *
76879813 ATGCTGCCCAA-ATTGTTGTATAT
1 ATGCTGTCCAATTTTGTTGTATAT
76879836 ATGCTGTCCAAATTTTG
1 ATGCTGTCC-AATTTTG
76879853 GTGTGAAAAT
Statistics
Matches: 194, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
22 9 0.05
23 106 0.55
24 55 0.28
25 24 0.12
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (24 bp):
ATGCTGTCCAATTTTGTTGTATAT
Found at i:76879829 original size:72 final size:70
Alignment explanation
Indices: 76879576--76879905 Score: 383
Period size: 70 Copynumber: 4.7 Consensus size: 70
76879566 TTTGATGCTT
* * * * * *
76879576 AAATGCTGCCCAATTCGTTGTATTTATGCTGCCTAAATTGTTGTATATATGCTATCCAATTTTGA
1 AAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTATCCAATTTTGA
76879641 TGTAA
66 TGTAA
* * * * *
76879646 AAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTTTTTTATATATGCTGTCCAATTTTGA
1 AAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTATCCAATTTTGA
76879711 TGTAA
66 TGTAA
* *
76879716 AAATGTTGCTCAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTATCCAATTTTTG
1 AAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTATCCAA-TTTTG
*
76879781 GTGTAA
65 ATGTAA
* * * *
76879787 AAATGCTGTTCAATTTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTT
1 AAATGCTGCTCAA-TTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTATCC-AATTTT
* *
76879852 GGTGTGA
64 GATGTAA
* * * * * *
76879859 AAATGCTG-TCTAGTTTAGTATATAAATGTTGTCCAAATTGATGTATA
1 AAATGCTGCTC-AATTTGGTATATATATGCTGCCCAAATTGTTGTATA
76879906 AGGGTTGTCC
Statistics
Matches: 226, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
70 115 0.51
71 50 0.22
72 59 0.26
73 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (70 bp):
AAATGCTGCTCAATTTGGTATATATATGCTGCCCAAATTGTTGTATATATGCTATCCAATTTTGA
TGTAA
Found at i:76884513 original size:25 final size:25
Alignment explanation
Indices: 76884433--76884705 Score: 167
Period size: 25 Copynumber: 11.0 Consensus size: 25
76884423 ATATATTTAT
*
76884433 TTATGCAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATGTAAGTTATGT-A
* *
76884457 GTAATGTAAGTTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGT-A
* *
76884482 GTTATGTAAGTTGTGTAAGTTCTGTA
1 -TTATGTAAGTTATGTAAGTTATGTA
* * *
76884508 TGATGTAAGTTTTGTAAGTTGTG-A
1 TTATGTAAGTTATGTAAGTTATGTA
* * * * *
76884532 ATACTGTAATTTACGTAATTTGTGTA
1 TTA-TGTAAGTTATGTAAGTTATGTA
* *
76884558 TTATGGAAGTTATGTAAGTAATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
76884583 TTATGTAAGTTATGT-A-TTATATAA
1 TTATGTAAGTTATGTAAGTTATGT-A
*
76884607 GTCT-TGTAACTTATGTAAGTTATGTAAA
1 -T-TATGTAAGTTATGTAAGTTATGT--A
*
76884635 TTATGTAAGTTATG-AAATT-TG-A
1 TTATGTAAGTTATGTAAGTTATGTA
*
76884657 TCT-T-TAAATTATGTAAGTTATGTA
1 T-TATGTAAGTTATGTAAGTTATGTA
* *
76884681 TTATGTAAATTATGTAAATTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
76884706 AGTTAAAATA
Statistics
Matches: 200, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
21 8 0.04
22 7 0.04
23 8 0.04
24 7 0.04
25 135 0.68
26 12 0.06
27 21 0.10
28 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTATGTA
Found at i:76884527 original size:34 final size:34
Alignment explanation
Indices: 76884449--76884530 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
76884439 AAGTTATGTA
** * *
76884449 TTATGTAAGTAATGTAAGTTGTGTATTATGTAAG
1 TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
76884483 TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
1 TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
*
76884517 TTTTGTAAGTTGTG
1 TTATGTAAGTTGTG
76884531 AATACTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTGTGTAAGTTCTGTATGATGTAAG
Found at i:76884595 original size:9 final size:9
Alignment explanation
Indices: 76884433--76884710 Score: 178
Period size: 9 Copynumber: 32.3 Consensus size: 9
76884423 ATATATTTAT
*
76884433 TTATGCAAG
1 TTATGTAAG
76884442 TTATGT-A-
1 TTATGTAAG
76884449 TTATGTAAG
1 TTATGTAAG
*
76884458 TAATGTAAG
1 TTATGTAAG
*
76884467 TTGTGT-A-
1 TTATGTAAG
76884474 TTATGTAAG
1 TTATGTAAG
76884483 TTATGTAAG
1 TTATGTAAG
*
76884492 TTGTGTAAG
1 TTATGTAAG
*
76884501 TTCTGT-A-
1 TTATGTAAG
*
76884508 TGATGTAAG
1 TTATGTAAG
*
76884517 TTTTGTAAG
1 TTATGTAAG
*
76884526 TTGTG-AA-
1 TTATGTAAG
*
76884533 -TACTGTAAT
1 TTA-TGTAAG
* *
76884542 TTACGTAAT
1 TTATGTAAG
*
76884551 TTGTGT-A-
1 TTATGTAAG
*
76884558 TTATGGAAG
1 TTATGTAAG
76884567 TTATGTAAG
1 TTATGTAAG
*
76884576 TAATGT-A-
1 TTATGTAAG
76884583 TTATGTAAG
1 TTATGTAAG
76884592 TTATGT-A-
1 TTATGTAAG
*
76884599 TTATATAAG
1 TTATGTAAG
*
76884608 TCT-TGTAAC
1 T-TATGTAAG
76884617 TTATGTAAG
1 TTATGTAAG
*
76884626 TTATGTAAA
1 TTATGTAAG
76884635 TTATGTAAG
1 TTATGTAAG
* *
76884644 TTATGAAAT
1 TTATGTAAG
* *
76884653 TTGATCTTTAAA
1 TT-A--TGTAAG
76884665 TTATGTAAG
1 TTATGTAAG
76884674 TTATGT-A-
1 TTATGTAAG
*
76884681 TTATGTAAA
1 TTATGTAAG
*
76884690 TTATGTAAA
1 TTATGTAAG
76884699 TTATGTAAG
1 TTATGTAAG
76884708 TTA
1 TTA
76884711 AAATATTTGA
Statistics
Matches: 211, Mismatches: 35, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
6 1 0.00
7 37 0.18
8 19 0.09
9 144 0.68
10 4 0.02
11 1 0.00
12 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:76884596 original size:34 final size:34
Alignment explanation
Indices: 76884558--76884765 Score: 129
Period size: 34 Copynumber: 6.3 Consensus size: 34
76884548 AATTTGTGTA
* *
76884558 TTATGGAAGTTATGTAAGTAATGTATTATGTAAG
1 TTATGGAAATTATGTAAGTTATGTATTATGTAAG
* *
76884592 TTAT-G-TATTATATAAGTCT-TGTAACTTATGTAAG
1 TTATGGAAATTATGTAAGT-TATGT-A-TTATGTAAG
* * **
76884626 TTATGTAAATTATGTAAGTTATGAAATT-TG-ATC
1 TTATGGAAATTATGTAAGTTATG-TATTATGTAAG
*
76884659 TT-T--AAATTATGTAAGTTATGTATTATGTAAA
1 TTATGGAAATTATGTAAGTTATGTATTATGTAAG
* ** *
76884690 TTATGTAAATTATGTAAGTTAAAATATT-TG-ATG
1 TTATGGAAATTATGTAAGTT-ATGTATTATGTAAG
*
76884723 TT-T-G-AATTATGTAAGTTATATAAATTATGTAAG
1 TTATGGAAATTATGTAAGTTATGT--ATTATGTAAG
76884756 TTAT-GAAATT
1 TTATGGAAATT
76884766 TTATCTTTAA
Statistics
Matches: 135, Mismatches: 20, Indels: 37
0.70 0.10 0.19
Matches are distributed among these distances:
29 6 0.04
30 32 0.24
31 6 0.04
32 17 0.13
33 12 0.09
34 37 0.27
35 12 0.09
36 13 0.10
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (34 bp):
TTATGGAAATTATGTAAGTTATGTATTATGTAAG
Found at i:76884667 original size:30 final size:29
Alignment explanation
Indices: 76884631--76884741 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 29
76884621 GTAAGTTATG
76884631 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGAT-TT
*
76884661 TAAATTATGTAAGTTATG-TATTATGTAAATTAT
1 TAAATTATGTAAGTTATGAAATT-TG---ATT-T
*
76884694 GTAAATTATGTAAGTTA-AAATATTTGATGTT
1 -TAAATTATGTAAGTTATGAA-ATTTGAT-TT
*
76884725 TGAATTATGTAAGTTAT
1 TAAATTATGTAAGTTAT
76884742 ATAAATTATG
Statistics
Matches: 67, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 3 0.04
32 2 0.03
33 3 0.04
34 18 0.27
35 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (29 bp):
TAAATTATGTAAGTTATGAAATTTGATTT
Found at i:76884696 original size:64 final size:65
Alignment explanation
Indices: 76884617--76884765 Score: 214
Period size: 64 Copynumber: 2.3 Consensus size: 65
76884607 GTCTTGTAAC
* *
76884617 TTATGTAAGTTATGTAAATTATGTAAGTTATGAA-ATTTGATCTTTAAATTATGTAAGTTATGT-
1 TTATGTAAGTTATGTAAATTATGTAAGTTA-AAATATTTGATCTTTAAATTATGTAAGTTATATA
76884680 A
65 A
* * *
76884681 TTATGTAAATTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGAATTATGTAAGTTATATAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT-A
76884746 A
65 A
76884747 TTATGTAAGTTATG-AAATT
1 TTATGTAAGTTATGTAAATT
76884766 TTATCTTTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
63 2 0.03
64 55 0.72
65 5 0.07
66 14 0.18
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (65 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATATAA
Found at i:76884779 original size:48 final size:48
Alignment explanation
Indices: 76884680--76884787 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 48
76884670 TAAGTTATGT
* * * *
76884680 ATTATGTAAATTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGA
1 ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
76884728 ATTATGTAAGTTATATAAATTATGTAAGTTATGAAAT-TTT-ATCTTTAA
1 ATTATGTAAGTTATATAAATTATGTAAGTTA--AAATATTTGATCTTTAA
76884776 ATTATGTAAGTT
1 ATTATGTAAGTT
76884788 GTGTATTAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 47 0.87
49 3 0.06
50 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (48 bp):
ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
Found at i:76884924 original size:30 final size:31
Alignment explanation
Indices: 76884890--76884948 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
76884880 GTATTATATT
*
76884890 TAAATTATGTAATTTATG-AAATTTGAACCG
1 TAAATTATGTAAGTTATGTAAATTTGAACCG
76884920 TAAATTATGTAAGTTATGTAAATTTGAAC
1 TAAATTATGTAAGTTATGTAAATTTGAAC
76884949 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (31 bp):
TAAATTATGTAAGTTATGTAAATTTGAACCG
Found at i:76890120 original size:45 final size:45
Alignment explanation
Indices: 76890056--76890142 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
76890046 ATAGTTTTGA
*
76890056 ACCCTGATCTATTTGGTGGCATATTATTGACAGATTGTACACCAG
1 ACCCTGATCTAGTTGGTGGCATATTATTGACAGATTGTACACCAG
*
76890101 ACCCTGATCTAGTTGGTGGCATATTGTTGACAGATTGTACAC
1 ACCCTGATCTAGTTGGTGGCATATTATTGACAGATTGTACAC
76890143 TAGAAACAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCCTGATCTAGTTGGTGGCATATTATTGACAGATTGTACACCAG
Found at i:76892569 original size:8 final size:7
Alignment explanation
Indices: 76892518--76892678 Score: 67
Period size: 7 Copynumber: 22.1 Consensus size: 7
76892508 ATCCAATAAC
*
76892518 CCCTAGA
1 CCCTAAA
*
76892525 CCCTAAG
1 CCCTAAA
*
76892532 CCATAAA
1 CCCTAAA
76892539 CCCTAAA
1 CCCTAAA
76892546 CCCTAAA
1 CCCTAAA
**
76892553 CATTAAAA
1 CCCT-AAA
76892561 CCCTTAAA
1 CCC-TAAA
* *
76892569 CTTCTATA
1 C-CCTAAA
* *
76892577 CCATATA
1 CCCTAAA
*
76892584 CACTAAA
1 CCCTAAA
76892591 CCCTAAA
1 CCCTAAA
76892598 CCCTTAAA
1 CCC-TAAA
76892606 CCCGT-AA
1 CCC-TAAA
*
76892613 CCTTAAA
1 CCCTAAA
76892620 CCACT-AA
1 CC-CTAAA
*
76892627 CCCTTAGA
1 CCC-TAAA
76892635 CCCT-AA
1 CCCTAAA
*
76892641 GCCTATAA
1 CCCTA-AA
76892649 CCCCTAAA
1 -CCCTAAA
* *
76892657 CCTTAAG
1 CCCTAAA
* *
76892664 CCCTCAC
1 CCCTAAA
76892671 CCCTAAA
1 CCCTAAA
76892678 C
1 C
76892679 ACTCAACATG
Statistics
Matches: 112, Mismatches: 31, Indels: 22
0.68 0.19 0.13
Matches are distributed among these distances:
6 6 0.05
7 71 0.63
8 29 0.26
9 6 0.05
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:76892619 original size:29 final size:30
Alignment explanation
Indices: 76892587--76892667 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
76892577 CCATATACAC
76892587 TAAACCCTAAACCCTTAAACCCGTAA-CCT-
1 TAAACCCTAAACCCTTAAACCC-TAAGCCTA
*
76892616 TAAACCACT-AACCCTTAGACCCTAAGCCTA
1 TAAACC-CTAAACCCTTAAACCCTAAGCCTA
* *
76892646 TAACCCCTAAA-CCTTAAGCCCT
1 TAAACCCTAAACCCTTAAACCCT
76892668 CACCCCTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 3 0.07
29 32 0.73
30 9 0.20
ACGTcount: A:0.36, C:0.38, G:0.05, T:0.21
Consensus pattern (30 bp):
TAAACCCTAAACCCTTAAACCCTAAGCCTA
Found at i:76892663 original size:22 final size:21
Alignment explanation
Indices: 76892611--76892678 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
76892601 TTAAACCCGT
* *
76892611 AACCTTAAACCACTAACCCTTA
1 AACCTTAAGCCA-TAACCCCTA
* *
76892633 GACCCTAAGCCTATAACCCCTA
1 AACCTTAAGCC-ATAACCCCTA
* *
76892655 AACCTTAAGCCCTCACCCCTA
1 AACCTTAAGCCATAACCCCTA
76892676 AAC
1 AAC
76892679 ACTCAACATG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.35, C:0.41, G:0.04, T:0.19
Consensus pattern (21 bp):
AACCTTAAGCCATAACCCCTA
Found at i:76892737 original size:13 final size:13
Alignment explanation
Indices: 76892697--76892741 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
76892687 TGTAAATTAA
*
76892697 AAACATACACCAT
1 AAACCTACACCAT
*
76892710 AAACACTAAACCAT
1 AAAC-CTACACCAT
76892724 AAACCTACACCAT
1 AAACCTACACCAT
76892737 AAACC
1 AAACC
76892742 GTAAACACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (13 bp):
AAACCTACACCAT
Found at i:76893664 original size:166 final size:166
Alignment explanation
Indices: 76893345--76893665 Score: 416
Period size: 167 Copynumber: 1.9 Consensus size: 166
76893335 TTGATAAAAG
* * * * *
76893345 CCGCAAATCCTAGATCTTTACCGACGTTTCCATATAAACGCCGCTAGTGTCACTCTAGGTCAAAG
1 CCGCAAATACTAGATCTTTACCGACGTTTCCATATAAACGCCGCTACTGCCACTATAGATCAAAG
** * *
76893410 TTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATTCTAGCGCCGCT
66 TTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATGATAGCGCCACA
* * *
76893475 AATGTACCGATCTTTAGCGGCGTTTCTTGATAAGTA
131 AATGTACAGATATTTACCGGCGTTTCTTGATAAGTA
* * * *
76893511 CCGCAAATACTAGATCTTTACCGGCGTTTTCATATAAAC-CTGCTACTGCCACTAATATTATCAA
1 CCGCAAATACTAGATCTTTACCGACGTTTCCATATAAACGCCGCTACTGCCACT-ATA-GATCAA
* *
76893575 AGTTAAACGACGGCGTTCTGCTTAATTATTTGCGGAGCATTAGTGGCGTTTTT-TGATAAGCGCC
64 AGTTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATGAT-AGCGCC
76893639 ACAAAT-T-CTAGATATTTACCGGCGTTT
128 ACAAATGTAC-AGATATTTACCGGCGTTT
76893666 TCAGATAAAC
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
165 12 0.09
166 56 0.42
167 65 0.49
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (166 bp):
CCGCAAATACTAGATCTTTACCGACGTTTCCATATAAACGCCGCTACTGCCACTATAGATCAAAG
TTAAACGACGGCGTTCTGCTTAATTATTTACGGAGCAATAGTGGCGTTTTTATGATAGCGCCACA
AATGTACAGATATTTACCGGCGTTTCTTGATAAGTA
Found at i:76896361 original size:44 final size:44
Alignment explanation
Indices: 76896298--76896469 Score: 227
Period size: 44 Copynumber: 3.9 Consensus size: 44
76896288 GCTATACACC
* *
76896298 TAAAATGAGTAAGACCATAGCTGAGAGATGTTATGGTATCGGGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
*
76896342 TAAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCGGGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
* * * **
76896386 TAAAATGAGTAAGACCGTAACTGAAAGATGTTATGACATCATGA
1 TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
* * * *
76896430 TTGAAATGAGTAAGACCATGGTTGAAAGATGTTCTGGCAT
1 -TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCAT
76896470 AATGAGAAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 79 0.71
45 32 0.29
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCGGGA
Found at i:76896738 original size:27 final size:27
Alignment explanation
Indices: 76896687--76896760 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
76896677 ACATCATATT
* * *
76896687 TAGTCCAATGGGACGTTAAAAACGAGA
1 TAGTCTAACGGGACATTAAAAACGAGA
* *
76896714 TAG-CTCAAGGGGACATTAAACACGAGA
1 TAGTCT-AACGGGACATTAAAAACGAGA
*
76896741 TAGTCTAACGGGACACTAAA
1 TAGTCTAACGGGACATTAAA
76896761 GGGGTAGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.92
28 2 0.05
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (27 bp):
TAGTCTAACGGGACATTAAAAACGAGA
Found at i:76899544 original size:26 final size:27
Alignment explanation
Indices: 76899515--76899566 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
76899505 TTTGTTTTTC
*
76899515 TATTTCCCA-AAATAAACTTCTCAATG
1 TATTTCCAATAAATAAACTTCTCAATG
*
76899541 TATTTCCAATTAAATAATCTTCTCAA
1 TATTTCCAA-TAAATAAACTTCTCAA
76899567 CTCAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAACTTCTCAATG
Found at i:76899819 original size:57 final size:57
Alignment explanation
Indices: 76899726--76899906 Score: 236
Period size: 57 Copynumber: 3.1 Consensus size: 57
76899716 TTTTTTAGGT
* * * *
76899726 CATTTTCATTTTCGTTTTGGAGAAAACCACATTCATTTTCAAATGTTTCTACTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
* * * *
76899783 CATTATCATTTTCATTTTTGAGAAAACCATAATCATTTTCAAATGATTCCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
* * * *
76899840 CATTTTTATTTTCATTTTGGACAAAACCATAATTATTTCCAAATGATTTCTCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATG-TTTCT-ATTTCTC
76899899 CATTTTCA
1 CATTTTCA
76899907 CTATTTCTAT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
57 88 0.84
58 3 0.03
59 14 0.13
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (57 bp):
CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
Done.