Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 188 of 425
Found at i:57064141 original size:44 final size:42
Alignment explanation
Indices: 57064062--57064161 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 42
57064052 TCCCAGACAG
* * * * * *
57064062 GGTCTTACACGAAATCAAATACGATGTCGATGTCCCATATGT
1 GGTCTTACACGAAAACAAAGACGATGCCAACGTCCCAAATGT
57064104 GGTCTTACACGTAAAACAGAAGACGATGCCAACGTCCCAAATGT
1 GGTCTTACACG-AAAACA-AAGACGATGCCAACGTCCCAAATGT
*
57064148 GGTCTTACATGAAA
1 GGTCTTACACGAAA
57064162 TCACATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 11 0.22
43 8 0.16
44 30 0.61
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAAACAAAGACGATGCCAACGTCCCAAATGT
Found at i:57067374 original size:93 final size:93
Alignment explanation
Indices: 57067262--57067433 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57067252 CGCCCATAAG
* *
57067262 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57067327 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57067355 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57067420 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57067434 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57067430 original size:46 final size:46
Alignment explanation
Indices: 57067255--57067430 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57067245 TGTAACCCGC
* * *
57067255 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57067301 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57067351 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57067394 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57067431 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57074942 original size:93 final size:93
Alignment explanation
Indices: 57074830--57075001 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57074820 CGCCCATAAG
* *
57074830 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57074895 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57074923 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57074988 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57075002 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57074998 original size:46 final size:46
Alignment explanation
Indices: 57074823--57074998 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57074813 TGTAACCCGC
* * *
57074823 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57074869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57074919 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57074962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57074999 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57079365 original size:30 final size:30
Alignment explanation
Indices: 57079331--57079391 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57079321 TCCTTAACTC
57079331 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57079361 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57079391 A
1 A
57079392 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57082691 original size:28 final size:28
Alignment explanation
Indices: 57082622--57082720 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
57082612 GACAAGATTG
* * * *
57082622 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
57082652 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57082680 GCACTAAGTGTGCGAG-CTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57082707 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57082721 GCTTATTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
30 18 0.28
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57082708 original size:27 final size:27
Alignment explanation
Indices: 57082651--57082731 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
57082641 AAAATTGTAC
*
57082651 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTGATTATAT
57082679 AGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
*
57082706 AGCACTAAGTGTGCG-GCTTATTATAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
57082732 GCTTTTGCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 10 0.20
27 24 0.47
28 17 0.33
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATAT
Found at i:57090611 original size:27 final size:28
Alignment explanation
Indices: 57090554--57090623 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
57090544 AAATTTGTAC
**
57090554 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
57090582 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
57090609 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57090624 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:57090632 original size:27 final size:27
Alignment explanation
Indices: 57090554--57090635 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
57090544 AAATTTGTAC
* *
57090554 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
57090582 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
57090609 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
57090636 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:57095222 original size:36 final size:36
Alignment explanation
Indices: 57095175--57095261 Score: 174
Period size: 36 Copynumber: 2.4 Consensus size: 36
57095165 CCAAGCCGAG
57095175 TTTGGGGTGTTACAATACAAAAATAATTATTTAAAA
1 TTTGGGGTGTTACAATACAAAAATAATTATTTAAAA
57095211 TTTGGGGTGTTACAATACAAAAATAATTATTTAAAA
1 TTTGGGGTGTTACAATACAAAAATAATTATTTAAAA
57095247 TTTGGGGTGTTACAA
1 TTTGGGGTGTTACAA
57095262 CTTTACCCCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (36 bp):
TTTGGGGTGTTACAATACAAAAATAATTATTTAAAA
Found at i:57102135 original size:80 final size:80
Alignment explanation
Indices: 57101987--57102152 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
57101977 TTTTCAGAAT
* * ** **
57101987 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTACCAC
* *
57102051 AAATGCCTTCGGGTC
66 AAATGCCTTCGAGAC
** * *
57102066 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTACCA
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTACCA
*
57102130 TAAATGCCTTCGAGAC
65 CAAATGCCTTCGAGAC
57102146 TTAGCCC
1 TTAGCCC
57102153 AGGTATCATT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 4 0.06
80 66 0.92
81 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTACCAC
AAATGCCTTCGAGAC
Found at i:57102136 original size:40 final size:40
Alignment explanation
Indices: 57101987--57102152 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
57101977 TTTTCAGAAT
* * * *
57101987 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTACCACAAATGCCTTCGGGTC
* * ** * **
57102026 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTACCACAAATGCCTTCGGGTC
*
57102066 TTAGCCCGGATATAA-CAACT-CGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAC-CACAAATGCCTTCGGGTC
* * *
57102106 TTAGCCCGGATATAATCACTACCATAAATGCCTTCGAGAC
1 TTAGCCCGGATATAATCACTACCACAAATGCCTTCGGGTC
57102146 TTAGCCC
1 TTAGCCC
57102153 AGGTATCATT
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.03
40 97 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTACCACAAATGCCTTCGGGTC
Found at i:57108813 original size:80 final size:80
Alignment explanation
Indices: 57108729--57108877 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57108719 TATGGTAACC
* * * *
57108729 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57108793 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57108809 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57108874 CCGG
66 CCGG
57108878 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57108819 original size:40 final size:38
Alignment explanation
Indices: 57108770--57108877 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57108760 ATCACGATTT
*
57108770 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57108810 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57108850 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57108878 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57116932 original size:80 final size:80
Alignment explanation
Indices: 57116848--57116996 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57116838 TATGGTAACC
* * * *
57116848 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57116912 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57116928 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57116993 CCGG
66 CCGG
57116997 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57116938 original size:40 final size:38
Alignment explanation
Indices: 57116889--57116996 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57116879 ATCACGATTT
*
57116889 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57116929 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57116969 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57116997 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57120225 original size:18 final size:20
Alignment explanation
Indices: 57120202--57120240 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57120192 AAGGGAGAAT
57120202 AAAG-AAATG-GAAAAAAAA
1 AAAGAAAATGAGAAAAAAAA
57120220 AAAGAAAATGATGAAAAAAAA
1 AAAGAAAATGA-GAAAAAAAA
57120241 TGGGTGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
21 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAGAAAATGAGAAAAAAAA
Found at i:57121637 original size:30 final size:29
Alignment explanation
Indices: 57121576--57121678 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
57121566 AAAATTGTAC
* *
57121576 AGCACTAAGTGTGCGAACTGAAAACATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
57121605 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
57121635 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
57121664 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57121679 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 43 0.61
30 28 0.39
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:57121642 original size:59 final size:60
Alignment explanation
Indices: 57121546--57121678 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
57121536 GACAAGATTG
* * *
57121546 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAACATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
* * * *
57121606 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
57121665 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57121679 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 51 0.77
60 15 0.23
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
Found at i:57128108 original size:19 final size:21
Alignment explanation
Indices: 57128084--57128124 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
57128074 AAGGGAGAAT
57128084 AAAG-AAATG-GAAAAAAAAA
1 AAAGAAAATGAGAAAAAAAAA
57128103 AAAGAAAATGATGAAAAAAAAA
1 AAAGAAAATGA-GAAAAAAAAA
57128125 TGGGTGTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
22 10 0.53
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (21 bp):
AAAGAAAATGAGAAAAAAAAA
Found at i:57129521 original size:30 final size:29
Alignment explanation
Indices: 57129460--57129562 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
57129450 AAAATTGTAC
* *
57129460 AGCACTAAGTGTGCGAACTGAAAACATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
57129489 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
57129519 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
57129548 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57129563 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 43 0.61
30 28 0.39
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:57129526 original size:59 final size:60
Alignment explanation
Indices: 57129430--57129562 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
57129420 GACAAGATTG
* * *
57129430 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAACATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
* * * *
57129490 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
57129549 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57129563 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 51 0.77
60 15 0.23
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAACATATA
Found at i:57138735 original size:16 final size:16
Alignment explanation
Indices: 57138714--57138744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57138704 TATATTTTTC
*
57138714 ATTTACATCATATATG
1 ATTTACAACATATATG
57138730 ATTTACAACATATAT
1 ATTTACAACATATAT
57138745 CAATTAACTT
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:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTTACAACATATATG
Found at i:57140056 original size:9 final size:9
Alignment explanation
Indices: 57140042--57140072 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
57140032 CTTACTATAA
57140042 AATTTTAAT
1 AATTTTAAT
57140051 AATTTTAAT
1 AATTTTAAT
57140060 AATTTTAAT
1 AATTTTAAT
57140069 AATT
1 AATT
57140073 CAAGTATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
AATTTTAAT
Found at i:57151510 original size:14 final size:14
Alignment explanation
Indices: 57151477--57151516 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
57151467 ATGTTTAAAA
57151477 ACTTTTA-TTTATT
1 ACTTTTATTTTATT
*
57151490 A-TTTTATTTTTTT
1 ACTTTTATTTTATT
57151503 ACTTTTATTTTATT
1 ACTTTTATTTTATT
57151517 TTAAGACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (14 bp):
ACTTTTATTTTATT
Found at i:57160229 original size:24 final size:24
Alignment explanation
Indices: 57160202--57160315 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
57160192 GCTGGAAATA
57160202 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57160226 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57160250 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
57160274 TAT-GCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
57160297 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
57160316 ACATAATAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
23 21 0.24
24 66 0.76
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57160300 original size:47 final size:48
Alignment explanation
Indices: 57160202--57160315 Score: 203
Period size: 47 Copynumber: 2.4 Consensus size: 48
57160192 GCTGGAAATA
*
57160202 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
*
57160250 TATGGCACTATGTGTGCGATTTACTAT-GCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
57160297 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
57160316 ACATAATAAG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 37 0.58
48 27 0.42
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
Found at i:57160329 original size:71 final size:71
Alignment explanation
Indices: 57160206--57160337 Score: 194
Period size: 71 Copynumber: 1.9 Consensus size: 71
57160196 GAAATATATG
* ** * *
57160206 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
57160271 TACTAT
66 TACTAT
*
57160277 GCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
57160338 CACATTCGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 49 0.91
72 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (71 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
TACTAT
Found at i:57163348 original size:30 final size:30
Alignment explanation
Indices: 57163293--57163423 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
57163283 ATAGTGAATC
*
57163293 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
57163322 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
57163352 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
57163380 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
57163410 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57163424 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:57163403 original size:58 final size:58
Alignment explanation
Indices: 57163292--57163423 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
57163282 TATAGTGAAT
* * * * *
57163292 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
57163351 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
57163409 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
57163424 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:57170597 original size:29 final size:28
Alignment explanation
Indices: 57170563--57170665 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
57170553 TACTCAATCA
*
57170563 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCATGT-ATTCAAGCT
* * * *
57170592 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATGTA-TTCAAGCT
* **
57170621 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATGTATT-CAAGCT
*
57170650 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57170666 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGTATTCAAGCT
Found at i:57180606 original size:45 final size:45
Alignment explanation
Indices: 57180506--57180632 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
57180496 TTTTCTCAAA
* *
57180506 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
57180548 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * * *
57180592 CTCACCGGCATTATAGTTTGCTAAGCTCAAACGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
57180633 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:57181009 original size:43 final size:43
Alignment explanation
Indices: 57180961--57181061 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
57180951 ACCGGTACGA
57180961 CTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGC
* *
57181004 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGC
57181047 CTGCTAGGCACGAAG
1 CTGCTAGGCACGAAG
57181062 TGTAGCACCC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGC
Found at i:57182508 original size:40 final size:41
Alignment explanation
Indices: 57182415--57182703 Score: 294
Period size: 40 Copynumber: 7.3 Consensus size: 41
57182405 ACCCAAGTAT
* ** *
57182415 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTCACTCGCACAAATGC
* * * * *
57182453 CATCGGGTCTTAGCCCGGATA-TGGTCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTCACTCGCACAAATGC
*
57182493 CTTCGGGTCTTAGCCCGGATA-TAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTC-ACTCGCACAAATGC
* * *
57182533 CTTCGAGACTTAGCCCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTCACTCGCACAAATGC
* *
57182573 CTTCGGGACTTGGCCCGGA-ATTAGT-ATCTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATTAGTCA-CTCGCACAAATGC
* *
57182613 CTTCGGGACTTAGCCCGGAT-GTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTCACTCGCACAAATGC
* * * *
57182653 CTTCGGGACTTAGCCC-GAAATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTCACTCGCACAAATGC
57182693 CTTCGGGACTT
1 CTTCGGGACTT
57182704 GACCCCGTTA
Statistics
Matches: 212, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
38 10 0.05
39 21 0.10
40 180 0.85
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTCACTCGCACAAATGC
Found at i:57182626 original size:120 final size:120
Alignment explanation
Indices: 57182483--57182704 Score: 336
Period size: 120 Copynumber: 1.9 Consensus size: 120
57182473 ATGGTCACTA
* *
57182483 GCACAAATGTCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCC
* * * *
57182548 CGGAATTAGTAACTCGCACCAATGCCTTCGGGACTTGGCCCGGAATTAGTATCTC
66 CGAAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGGAATTAGTATCTC
* * * *
57182603 GCACAATTGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCC
* *
57182668 CGAAATTAATCACTAGCACAAATGTCTTCGGGACTTG
66 CGAAATTAATAACTAGCACAAATGCCTTCGGGACTTG
57182705 ACCCCGTTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 90 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCC
CGAAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGGAATTAGTATCTC
Found at i:57190723 original size:40 final size:40
Alignment explanation
Indices: 57190630--57190917 Score: 268
Period size: 40 Copynumber: 7.3 Consensus size: 40
57190620 ACCCAAGTAT
* ** * *
57190630 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
57190668 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
57190708 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
57190748 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCA-CACCAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACT-AGCACAAATGC
* * * *
57190788 CTTCGGGACTTGGCCC-GAAATTAGT-ATCTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCA-CTAGCACAAATGC
* * *
57190828 CTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
57190868 CTTCGGGACTTAGCCCGAAT-TAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
57190907 CTTCGGGACTT
1 CTTCGGGACTT
57190918 GACCCCGTTA
Statistics
Matches: 209, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
38 10 0.05
39 47 0.22
40 149 0.71
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:57190842 original size:120 final size:119
Alignment explanation
Indices: 57190698--57190918 Score: 336
Period size: 120 Copynumber: 1.8 Consensus size: 119
57190688 ATGGTCACTA
* *
57190698 GCACAAATGTCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
57190763 CGGAATTAGTAACTCA-CACCAATGCCTTCGGGACTTGGCCCGAAATTAGTATCTC
66 C-GAATTAATAACT-AGCACAAATGCCTTCGGGACTTGGCCCGAAATTAGTATCTC
* * *
57190818 GCACAATTGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
57190883 CGAATTAATCACTAGCACAAATGTCTTCGGGACTTG
66 CGAATTAATAACTAGCACAAATGCCTTCGGGACTTG
57190919 ACCCCGTTAG
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
118 1 0.01
119 29 0.32
120 61 0.67
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
CGAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGAAATTAGTATCTC
Found at i:57196529 original size:44 final size:44
Alignment explanation
Indices: 57196480--57196622 Score: 110
Period size: 44 Copynumber: 3.1 Consensus size: 44
57196470 TGCCCGTGCC
*
57196480 GATGCCTATTCCCGATATGTCTTACGCTTAGCACAAGTCGAGCT
1 GATGCCTATTCCCGATAGGTCTTACGCTTAGCACAAGTCGAGCT
* * ** * * * * *
57196524 GATGCCAAGTCCCCGACGGGTCTTACAC-TAGCACTCACTGGGCTGTGCC
1 GATGCCTA-TTCCCGATAGGTCTTACGCTTAGCA--CA--AGTC-GAGCT
*
57196573 GATGCTTA-TCCCAGATAGGTCTTACGCTTAGCACAAGTCGAGCT
1 GATGCCTATTCCC-GATAGGTCTTACGCTTAGCACAAGTCGAGCT
57196617 GATGCC
1 GATGCC
57196623 ACATCCCCGA
Statistics
Matches: 70, Mismatches: 21, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
44 20 0.29
45 16 0.23
46 2 0.03
47 5 0.07
48 13 0.19
49 14 0.20
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (44 bp):
GATGCCTATTCCCGATAGGTCTTACGCTTAGCACAAGTCGAGCT
Found at i:57196547 original size:45 final size:45
Alignment explanation
Indices: 57196498--57196642 Score: 127
Period size: 45 Copynumber: 3.2 Consensus size: 45
57196488 TTCCCGATAT
57196498 GTCTTACGCTTAGCACAAGTCGAGCTGATGCCAAGTCCCCGACGG
1 GTCTTACGCTTAGCACAAGTCGAGCTGATGCCAAGTCCCCGACGG
* * * * * * **
57196543 GTCTTACAC-TAGCACTCACT-GGGCTG-TGCCGATGCTTATCCCAGATAG
1 GTCTTACGCTTAGCAC-AAGTCGAGCTGATGCC-AAG----TCCCCGACGG
57196591 GTCTTACGCTTAGCACAAGTCGAGCTGATGCCACA-TCCCCGACGG
1 GTCTTACGCTTAGCACAAGTCGAGCTGATGCCA-AGTCCCCGACGG
57196636 GTCTTAC
1 GTCTTAC
57196643 ACTAGTTCAT
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
43 4 0.05
44 13 0.18
45 24 0.32
48 17 0.23
49 12 0.16
50 4 0.05
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.23
Consensus pattern (45 bp):
GTCTTACGCTTAGCACAAGTCGAGCTGATGCCAAGTCCCCGACGG
Found at i:57196572 original size:93 final size:93
Alignment explanation
Indices: 57196475--57196647 Score: 296
Period size: 93 Copynumber: 1.9 Consensus size: 93
57196465 TGCTCTGCCC
*
57196475 GTGCCGATGCCTATTCCC-GATATGTCTTACGCTTAGCACAAGTCGAGCTGATGCCA-AGTCCCC
1 GTGCCGATGCCTA-TCCCAGATAGGTCTTACGCTTAGCACAAGTCGAGCTGATGCCACA-TCCCC
57196538 GACGGGTCTTACACTAGCACTCACTGGGCT
64 GACGGGTCTTACACTAGCACTCACTGGGCT
*
57196568 GTGCCGATGCTTATCCCAGATAGGTCTTACGCTTAGCACAAGTCGAGCTGATGCCACATCCCCGA
1 GTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCACAAGTCGAGCTGATGCCACATCCCCGA
57196633 CGGGTCTTACACTAG
66 CGGGTCTTACACTAG
57196648 TTCATCTGTC
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
92 4 0.05
93 71 0.93
94 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (93 bp):
GTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCACAAGTCGAGCTGATGCCACATCCCCGA
CGGGTCTTACACTAGCACTCACTGGGCT
Found at i:57197785 original size:43 final size:44
Alignment explanation
Indices: 57197719--57197845 Score: 118
Period size: 45 Copynumber: 2.9 Consensus size: 44
57197709 TTTTCTCAAA
* * *
57197719 TCACTGGCATT-TCGCCTGTTAGGCTC-AAGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA-AT-AGATC
*
57197761 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAG-ATC
* ** * *
57197806 TCACCAGCATTATAGTTTGCTAAGCTCAAAGGCCCAAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
57197846 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.17
43 15 0.21
44 10 0.14
45 34 0.48
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGATC
Found at i:57198225 original size:43 final size:43
Alignment explanation
Indices: 57198162--57198329 Score: 255
Period size: 43 Copynumber: 3.9 Consensus size: 43
57198152 ACATATCATT
* * *
57198162 TCACCGGCATTACGGCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
57198205 TCACCGGCACGAAGCTTGCTAGGTACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
57198248 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
57198291 TCACCGGCACTAAGCCTACTAGGCACGAAGGCCCAAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
57198330 TAATACCAGC
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:57198387 original size:38 final size:38
Alignment explanation
Indices: 57198327--57198401 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
57198317 GAAGGCCCAA
* ** * *
57198327 ATATAATACCAGCATTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAACACAAAGCCTGCGGGATTTAACCCGG
57198365 ATATAATACCAACACAAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAACACAAAGCCTGCGGGATTTAACCCG
57198402 AATACACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
ATATAATACCAACACAAAGCCTGCGGGATTTAACCCGG
Found at i:57200190 original size:92 final size:93
Alignment explanation
Indices: 57200083--57200253 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
57200073 CGCCCATAAG
** * *
57200083 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTC-ACTCA
1 CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
57200147 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
57200175 CGAACTCAAACTCAACTCAACGAGTTCGGACATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57200240 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
57200254 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 53 0.75
93 18 0.25
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:57200226 original size:46 final size:46
Alignment explanation
Indices: 57200076--57200250 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
57200066 TGTAACCCGC
* * * *
57200076 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57200122 CCATAAGTGAACTCGGACTC-ACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * **
57200171 -C-TCA-CGAACTCAAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57200214 CCATGAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57200251 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 16 0.15
46 55 0.53
47 18 0.17
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57206312 original size:23 final size:22
Alignment explanation
Indices: 57206270--57206312 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
57206260 TATCCCCACA
* *
57206270 TGGAGTGTAGGGTTGGATGGAG
1 TGGAGTGCAGGGATGGATGGAG
57206292 TGGAGTGCAGAGGATGGATGG
1 TGGAGTGCAG-GGATGGATGG
57206313 GTAGGATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (22 bp):
TGGAGTGCAGGGATGGATGGAG
Found at i:57207064 original size:13 final size:13
Alignment explanation
Indices: 57207046--57207071 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57207036 TCCCTAAGGG
57207046 GGGAGAGTTGTAA
1 GGGAGAGTTGTAA
57207059 GGGAGAGTTGTAA
1 GGGAGAGTTGTAA
57207072 CAGCTCAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (13 bp):
GGGAGAGTTGTAA
Found at i:57221858 original size:80 final size:80
Alignment explanation
Indices: 57221774--57221922 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57221764 TATGGTAACC
* * * *
57221774 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57221838 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57221854 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57221919 CCGG
66 CCGG
57221923 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57221864 original size:40 final size:38
Alignment explanation
Indices: 57221815--57221922 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57221805 ATCACGATTT
*
57221815 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57221855 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57221895 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57221923 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57229969 original size:80 final size:80
Alignment explanation
Indices: 57229885--57230033 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57229875 TATGGTAACC
* * * *
57229885 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57229949 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57229965 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57230030 CCGG
66 CCGG
57230034 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57229975 original size:40 final size:38
Alignment explanation
Indices: 57229926--57230033 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57229916 ATCACGATTT
*
57229926 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57229966 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57230006 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57230034 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57235438 original size:24 final size:24
Alignment explanation
Indices: 57235411--57235525 Score: 212
Period size: 24 Copynumber: 4.8 Consensus size: 24
57235401 GCTGGAAATA
57235411 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57235435 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57235459 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
57235483 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
57235507 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
57235526 ACATAATAAG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57235539 original size:72 final size:72
Alignment explanation
Indices: 57235411--57235547 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
57235401 GCTGGAAATA
* ** * *
57235411 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
57235476 GATTTAC
66 GATTTAC
*
57235483 TATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATAGCACTATGTGTG
57235547 C
65 C
57235548 CACATTCGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 53 0.91
73 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (72 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
GATTTAC
Found at i:57243321 original size:24 final size:24
Alignment explanation
Indices: 57243294--57243432 Score: 260
Period size: 24 Copynumber: 5.8 Consensus size: 24
57243284 GCTGGAAATA
57243294 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57243318 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57243342 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57243366 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
57243390 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
57243414 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
57243433 ACATAATAAG
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 113 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57243446 original size:72 final size:72
Alignment explanation
Indices: 57243293--57243454 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
57243283 TGCTGGAAAT
* *
57243293 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
**
57243358 CGATTTA
66 CGACATA
* * *
57243365 CTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
57243430 CGAACATA
66 CG-ACATA
57243438 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
57243455 CACATTCGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 77 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
CGACATA
Found at i:57251228 original size:24 final size:24
Alignment explanation
Indices: 57251201--57251339 Score: 260
Period size: 24 Copynumber: 5.8 Consensus size: 24
57251191 GCTGGAAATA
57251201 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57251225 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57251249 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57251273 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
57251297 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
57251321 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
57251340 ACATAATAAG
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 113 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57251353 original size:72 final size:72
Alignment explanation
Indices: 57251200--57251361 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
57251190 TGCTGGAAAT
* *
57251200 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
**
57251265 CGATTTA
66 CGACATA
* * *
57251272 CTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTG
1 ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
57251337 CGAACATA
66 CG-ACATA
57251345 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
57251362 CACATTCGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 77 0.94
73 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (72 bp):
ATATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTG
CGACATA
Found at i:57253366 original size:27 final size:27
Alignment explanation
Indices: 57253329--57253476 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
57253319 ATATCCTCAA
*
57253329 TTGTAAAATTA-CCAAAGTACCCTCGGT
1 TTGTAAAATTATCCAAA-TACCCTCGAT
* * * **
57253356 TTATAAAATTACCCAAATATCCTTAAT
1 TTGTAAAATTATCCAAATACCCTCGAT
*
57253383 TTGTAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTATCCAAATACCCTCGA-T
* ** *
57253410 TTGCAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTATCCAAATACCCTCGAT
*
57253437 ATGTAAAATTAT-CAAAGTACCCTCGAT
1 TTGTAAAATTATCCAAA-TACCCTCGAT
**
57253464 TTACAAAATTATC
1 TTGTAAAATTATC
57253477 ATTTTACCCT
Statistics
Matches: 96, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.04
27 86 0.90
28 6 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTATCCAAATACCCTCGAT
Found at i:57253475 original size:54 final size:52
Alignment explanation
Indices: 57253302--57253474 Score: 179
Period size: 54 Copynumber: 3.2 Consensus size: 52
57253292 AATACTTTAG
* * *
57253302 TTTACCAAATTACTGAAATATCCTCAATTGTAAAATTACCAAAGTACCCTCGG
1 TTTACAAAATTACTGAAATATCCTCAA-TGTAAAATTATCAAAGTACCCTCGA
* ** *
57253355 TTTATAAAATTACCCAAATATCCTTAATTTGTAAAATTATCGAAA-TACCCTC-A
1 TTTACAAAATTACTGAAATATCCTCAA--TGTAAAATTATC-AAAGTACCCTCGA
* * *
57253408 GTTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTGAAATATCCTC-A-ATGTAAAATTATCAAAGTACCCTCGA
57253463 TTTACAAAATTA
1 TTTACAAAATTA
57253475 TCATTTTACC
Statistics
Matches: 98, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
53 25 0.26
54 67 0.68
55 5 0.05
56 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (52 bp):
TTTACAAAATTACTGAAATATCCTCAATGTAAAATTATCAAAGTACCCTCGA
Found at i:57253477 original size:27 final size:26
Alignment explanation
Indices: 57253333--57253528 Score: 117
Period size: 27 Copynumber: 7.3 Consensus size: 26
57253323 CCTCAATTGT
* * *
57253333 AAAATTACCAAAGTACCCTCGGTTTAT
1 AAAATTATCAAA-TACCCTCGATTTAC
* * ** **
57253360 AAAATTACCCAAATATCCTTAATTTGT
1 AAAATTA-TCAAATACCCTCGATTTAC
*
57253387 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATC-AAATACCCTCGA-TTTAC
* ** **
57253414 AAAATTATTGAAATACCCTCGACATGT
1 AAAATTA-TCAAATACCCTCGATTTAC
57253441 AAAATTATCAAAGTACCCTCGATTTAC
1 AAAATTATCAAA-TACCCTCGATTTAC
**
57253468 AAAATTATCATTTTACCCTCGATTTAC
1 AAAATTATCA-AATACCCTCGATTTAC
* **
57253495 AGAATTA-CTATTTTACCCTCGATTTAC
1 AAAATTATC-A-AATACCCTCGATTTAC
57253522 AAAATTA
1 AAAATTA
57253529 CTATTTTACC
Statistics
Matches: 139, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.05
27 125 0.90
28 7 0.05
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (26 bp):
AAAATTATCAAATACCCTCGATTTAC
Found at i:57253485 original size:54 final size:53
Alignment explanation
Indices: 57253384--57253543 Score: 134
Period size: 54 Copynumber: 3.0 Consensus size: 53
57253374 ATCCTTAATT
* * **
57253384 TGTAAAATTATCGAAATACCCTC-AGTTTGCAAAATTATTGA-AATACCCTCGACA
1 TGTAAAATTATCGAAATACCCTCGA-TTTACAAAATTA-TCATTTTACCCTCGA-A
57253438 TGTAAAATTATC-AAAGTACCCTCGATTTACAAAATTATCATTTTACCCTCG-A
1 TGTAAAATTATCGAAA-TACCCTCGATTTACAAAATTATCATTTTACCCTCGAA
* * **
57253490 TTTACAGAATTA-CTATTTTACCCTCGATTTACAAAATTA-CTATTTTACCCTCGA
1 TGTA-A-AATTATCGA-AATACCCTCGATTTACAAAATTATC-ATTTTACCCTCGA
57253544 TTTACAGAGT
Statistics
Matches: 90, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
52 4 0.04
53 8 0.09
54 77 0.86
55 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (53 bp):
TGTAAAATTATCGAAATACCCTCGATTTACAAAATTATCATTTTACCCTCGAA
Found at i:57253529 original size:27 final size:27
Alignment explanation
Indices: 57253454--57253693 Score: 320
Period size: 27 Copynumber: 8.9 Consensus size: 27
57253444 ATTATCAAAG
*
57253454 TACCCTCGATTTACAAAATTA-TCATTT
1 TACCCTCGATTTACAGAATTACT-ATTT
57253481 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
57253508 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
57253535 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
57253562 TACTCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
** *
57253589 TACCCTCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACTATTT
* *
57253616 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
57253643 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
57253670 TACCCTCGATTTAGAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
57253694 AAATACCCCT
Statistics
Matches: 190, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 189 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:57253700 original size:27 final size:27
Alignment explanation
Indices: 57253441--57253728 Score: 179
Period size: 27 Copynumber: 10.7 Consensus size: 27
57253431 CTCGACATGT
*
57253441 AAAATTA-TCAAAGTACCCTCGATTTAC
1 AAAATTACT-AAATTACCCTCGATTTAC
**
57253468 AAAATTA-TCATTTTACCCTCGATTTAC
1 AAAATTACT-AAATTACCCTCGATTTAC
* **
57253495 AGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
**
57253522 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
* * ** * * *
57253549 AGAGTTACTATTTTACTCTTGAATTAC
1 AAAATTACTAAATTACCCTCGATTTAC
**
57253576 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTAC
* *** *
57253603 AGAATTAC-CGTTCTACCCTCGATTTAT
1 AAAATTACTAAAT-TACCCTCGATTTAC
* * ** *
57253630 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACTAAATTACCCTCGATTTAC
* * ** *
57253657 AGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACTAAATTACCCTCGATTTAC
* * **
57253684 AAAATTACTAAAATACCC-CTAGTTTGT
1 AAAATTACTAAATTACCCTCGA-TTTAC
*
57253711 AAAATTACTAAAATACCC
1 AAAATTACTAAATTACCC
57253729 CTGTAGGTTA
Statistics
Matches: 227, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.02
27 220 0.97
28 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
AAAATTACTAAATTACCCTCGATTTAC
Found at i:57253743 original size:27 final size:27
Alignment explanation
Indices: 57253686--57254230 Score: 640
Period size: 27 Copynumber: 20.2 Consensus size: 27
57253676 CGATTTAGAA
* ** *
57253686 AATTACTAAAATACCCCTAGT-TTGTAA
1 AATTACTGAAATACCCCT-GTAGGGTAG
* *
57253713 AATTACTAAAATACCCCTGTAGGTTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57253740 AATTA-TCGAATTACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
57253767 AATAACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57253794 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57253821 AATTA-TCGTAATATCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
57253848 GATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
57253875 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
57253902 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
57253929 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57253956 GATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
57253983 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
57254010 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57254037 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
57254064 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
57254091 AATTA-TCGAAATACCCCAGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
57254118 AATTA-TCGCAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
57254145 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
57254172 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
57254199 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
57254225 AATTAC
1 AATTAC
57254231 CATTTTGCCC
Statistics
Matches: 456, Mismatches: 53, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
26 19 0.04
27 437 0.96
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:57253779 original size:81 final size:82
Alignment explanation
Indices: 57253694--57254213 Score: 707
Period size: 81 Copynumber: 6.4 Consensus size: 82
57253684 AAAATTACTA
** * ** * *
57253694 AAATACCCCTAGT-TTGTAAAATTACTAAAATACCCCTGTAGGTTAGAATTATCGAATTACCCCT
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCT
*
57253758 GTAGGGTAGAATAACCG
66 GTAGGGTAGAATTACCG
* * * *
57253775 AAATA-CCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGTAATATCCTT
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCT
*
57253839 GTAGGGTAGGATTACCG
66 GTAGGGTAGAATTACCG
* *
57253856 AAATA-CCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCT
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCT
*
57253920 GTAGGGTAGAATTATCG
66 GTAGGGTAGAATTACCG
* *
57253937 CAATACCCCT-GTAGGGTAGGATTACCGAAATACCCCTGTAGGGTAGAATTA-CTGAAATACCCC
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCC
57254000 TGTAGGGTAGAATTACCG
65 TGTAGGGTAGAATTACCG
*
57254018 AAATACCCCTA-TAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CTGAAATACCCC
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCC
*
57254081 TGTAGGGTAGAATTATCG
65 TGTAGGGTAGAATTACCG
* * * *
57254099 AAATACCCC-AGTAGGGTAGAATTATCGCAATACCCCTATAGGGTAGAATTACCGAAATACCCCT
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCT
**
57254163 GTAGGGTAGAATTACTA
66 GTAGGGTAGAATTACCG
* *
57254180 AAATACCCCT-GTAGGGTGGAATTACCGAGATACC
1 AAATACCCCTAGTAGGGTAGAATTACCGAAATACC
57254214 TTGTGGGGTA
Statistics
Matches: 394, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
80 8 0.02
81 381 0.97
82 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (82 bp):
AAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCT
GTAGGGTAGAATTACCG
Found at i:57254461 original size:27 final size:26
Alignment explanation
Indices: 57254431--57254512 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
57254421 GGAGGAAGCA
*
57254431 TTCTGGTGGCTTTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
*
57254458 TTCTGGTGGCTCTGCCACAATATCTA
1 TTCTGGTGGCTCTGCCACAATATCTG
* * *
57254484 TATTTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
57254511 TT
1 TT
57254513 GACCGATCGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:57254632 original size:22 final size:22
Alignment explanation
Indices: 57254600--57254658 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57254590 CCCGTTATTA
*
57254600 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
57254622 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
57254644 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
57254659 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:57254869 original size:27 final size:26
Alignment explanation
Indices: 57254823--57254896 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
57254813 TAGGTGGGTT
* * *
57254823 TGCCACATTATTTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACTC
57254850 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
57254877 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
57254897 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:57255050 original size:6 final size:6
Alignment explanation
Indices: 57255039--57255115 Score: 97
Period size: 6 Copynumber: 12.8 Consensus size: 6
57255029 TTGTCACCTA
*
57255039 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
57255087 ATTCT- ATTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
57255116 CATTTTGGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
5 6 0.10
6 52 0.83
7 4 0.06
8 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:57255077 original size:30 final size:30
Alignment explanation
Indices: 57255014--57255115 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
57255004 TTGCATTCAC
* *
57255014 ATTCTGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
57255045 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* *
57255075 ATTCTGATTCTGATTCTATTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
57255105 ATTCTGATTCT
1 ATTCTGATTCT
57255116 CATTTTGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.68
31 20 0.31
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:57255133 original size:30 final size:30
Alignment explanation
Indices: 57255014--57255136 Score: 133
Period size: 30 Copynumber: 4.1 Consensus size: 30
57255004 TTGCATTCAC
* *
57255014 ATTCTGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
57255045 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
* **
57255075 ATTCTGATTCTGATTCTATTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
57255105 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
57255135 AT
1 AT
57255137 AATGTTTCTT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
29 1 0.01
30 55 0.70
31 23 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:57258860 original size:16 final size:16
Alignment explanation
Indices: 57258839--57258871 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57258829 AACTGATTTC
57258839 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
57258855 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
57258871 T
1 T
57258872 TTTCTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:57260164 original size:27 final size:27
Alignment explanation
Indices: 57260059--57260165 Score: 121
Period size: 27 Copynumber: 3.9 Consensus size: 27
57260049 AGGAAGCGTC
*
57260059 CTGGTGGCTAC-GCCACAATTATCT-AAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGTAT
57260086 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
57260113 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
57260141 CTGGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
57260166 TTTGGCAGCC
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.04
27 51 0.73
28 16 0.23
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:57262705 original size:28 final size:28
Alignment explanation
Indices: 57262669--57262728 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
57262659 CTCCTTGAAT
*
57262669 CCTCCTCC-AAATTCCTCGTGTAAAAATC
1 CCTCCTCCAAAATT-CTCATGTAAAAATC
57262697 CCTCCTCCAAAATTCTCATGTAAAAATC
1 CCTCCTCCAAAATTCTCATGTAAAAATC
57262725 CCTC
1 CCTC
57262729 ACCTCTCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (28 bp):
CCTCCTCCAAAATTCTCATGTAAAAATC
Found at i:57266045 original size:63 final size:64
Alignment explanation
Indices: 57265970--57266152 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
57265960 AGACATTATG
* * *
57265970 ATGTAGCTAGGTC-CATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
57266033 ATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57266098 AA
63 AA
* *
57266100 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
57266153 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 32 0.32
64 11 0.11
66 22 0.22
67 33 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57274881 original size:40 final size:40
Alignment explanation
Indices: 57274787--57274931 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
57274777 TACTCGAATG
*
57274787 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57274828 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57274868 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
57274908 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57274932 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57277968 original size:46 final size:46
Alignment explanation
Indices: 57277828--57278128 Score: 189
Period size: 46 Copynumber: 6.4 Consensus size: 46
57277818 GCGCTAATGC
* * * *
57277828 AAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCTACGA-GATGTA-AGCTAGTGT
* * *
57277874 AAGACCATGTCTGGGGCATGGCATCGG-TATTGAGACG-AGAGCTAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGTA-AGCTAGTGT
*
57277922 AAGACATGTCTGGGACATGTATCGAGCT-CGAGATGTAAGCTAGTGT
1 AAGACATGTCTGGGACATGCATCG-GCTACGAGATGTAAGCTAGTGT
57277968 AAGACATGTCTGGGACATGCATCGGCTACGAGATGT--G-TCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCT-AGTGT
* * * * *
57278012 AAGACCAAGTTTGGGACATGGCATCGGC-AC-ATATAG-AGGCGTCAATGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCTACGAGAT-GTAAGC-T-AGTGT
* *
57278060 AAGACCATGTCT-GGACATGGCATCGGC-ACGAATATGTGAGAGCTAATGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCTACG-AGATGT-A-AGCTAGTGT
57278109 AAGACCATGTCTAGGG-CATG
1 AAGA-CATGTCT-GGGACATG
57278129 GCGTCGACCT
Statistics
Matches: 213, Mismatches: 19, Indels: 43
0.77 0.07 0.16
Matches are distributed among these distances:
43 1 0.00
44 13 0.06
45 18 0.08
46 63 0.30
47 46 0.22
48 40 0.19
49 23 0.11
50 5 0.02
51 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCTAGTGT
Found at i:57278120 original size:49 final size:49
Alignment explanation
Indices: 57277828--57278232 Score: 281
Period size: 47 Copynumber: 8.6 Consensus size: 49
57277818 GCGCTAATGC
* * *
57277828 AAGA-CATGTCTGGGACAT-GCATCAGCCAC-AT-TATGAGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATC-GGCACGATATGTGAGAGCTAGTGT
* * * * *
57277874 AAGACCATGTCTGGGGCATGGCATCGGTATTGAGA--CGAGAGCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCA-CGATATGTGAGAGCTAGTGT
* * *
57277922 AAGA-CATGTCTGGGACAT-GTATCGAGCTCGAGATGT-A-AGCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCG-GCACGATATGTGAGAGCTAGTGT
* *
57277968 AAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT--G-TC-AGTGT
1 AAGACCATGTCTGGGACATGGCATCGGC-ACGATATGTGAGAGCTAGTGT
* * * *
57278012 AAGACCAAGTTTGGGACATGGCATCGGCAC-ATAT-AGAG-GCGTCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCACGATATGTGAGAGC-T-AGTGT
*
57278060 AAGACCATGTCT-GGACATGGCATCGGCACGAATATGTGAGAGCTAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCACG-ATATGTGAGAGCTAGTGT
* * * * *
57278109 AAGACCATGTCTAGGG-CATGGCGTCGACCTCGAT-TTTGATAG-TCAGTGT
1 AAGACCATGTCT-GGGACATGGCATCG-GCACGATATGTGAGAGCT-AGTGT
* *
57278158 AAGACCATGTCTAGGACATGGCATC-G-AC-TTGATG-GATGAGCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTGA-GAGCTAGTGT
57278205 AAGACCATGTCTGGGACATGGCAT-GGCA
1 AAGACCATGTCTGGGACATGGCATCGGCA
57278233 TTACACCCTA
Statistics
Matches: 288, Mismatches: 39, Indels: 62
0.74 0.10 0.16
Matches are distributed among these distances:
44 12 0.04
45 20 0.07
46 64 0.22
47 79 0.27
48 39 0.14
49 52 0.18
50 15 0.05
51 7 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
AAGACCATGTCTGGGACATGGCATCGGCACGATATGTGAGAGCTAGTGT
Found at i:57283128 original size:40 final size:40
Alignment explanation
Indices: 57283054--57283199 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
57283044 CCGCACCAAG
* * * * * *
57283054 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
57283094 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
57283134 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
57283174 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
57283200 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:57283214 original size:40 final size:40
Alignment explanation
Indices: 57283086--57283237 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
57283076 ATCACGATTT
* * * **
57283086 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
57283126 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
57283166 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
57283206 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
57283238 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:57291236 original size:40 final size:40
Alignment explanation
Indices: 57291162--57291307 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
57291152 CCGCACCAAG
* * * * * *
57291162 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
57291202 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
57291242 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
57291282 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
57291308 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:57291322 original size:40 final size:40
Alignment explanation
Indices: 57291194--57291345 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
57291184 ATCACGATTT
* * * **
57291194 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
57291234 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
57291274 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
57291314 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
57291346 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:57293845 original size:22 final size:22
Alignment explanation
Indices: 57293817--57293859 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57293807 GCTACTTCGG
57293817 TGACAAGGCTATTACAAAAGGA
1 TGACAAGGCTATTACAAAAGGA
* *
57293839 TGACAAGGTTGTTACAAAAGG
1 TGACAAGGCTATTACAAAAGG
57293860 TTGTCAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.21
Consensus pattern (22 bp):
TGACAAGGCTATTACAAAAGGA
Found at i:57297081 original size:47 final size:44
Alignment explanation
Indices: 57296971--57297095 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 44
57296961 TCATTGGTGT
*
57296971 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTATGAGA
* *
57297017 GAC-AGTGTAATACCATGTCTGGGACATGGCATCAG-TATTGAGATGAGA
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATT---ATGAGA
57297065 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
57297096 GGGTGTAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
45 3 0.04
46 14 0.21
47 30 0.44
48 21 0.31
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTATGAGA
Found at i:57298387 original size:43 final size:44
Alignment explanation
Indices: 57298322--57298461 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 44
57298312 GCCCCGGATG
* * *
57298322 TGGTCTTACATGTAATTC-AATATCGATGCCTCTGTCCCAGACA
1 TGGTCTTACACGTAAATCAAATATCGATGCCTATGTCCCAGACA
* * *
57298365 GGGTCTTACACG-AAATCAAATAT-GATGCCGATGTTCCAGACA
1 TGGTCTTACACGTAAATCAAATATCGATGCCTATGTCCCAGACA
* * * * * *
57298407 TGGTCTTATACGTAAAT-ATCA-ATCCAGGCTTGTGTCCCAGACA
1 TGGTCTTACACGTAAATCA-AATATCGATGCCTATGTCCCAGACA
57298450 TGGTCTTACACG
1 TGGTCTTACACG
57298462 ATATCTCAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
42 33 0.43
43 44 0.57
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TGGTCTTACACGTAAATCAAATATCGATGCCTATGTCCCAGACA
Found at i:57298405 original size:42 final size:43
Alignment explanation
Indices: 57298323--57298423 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
57298313 CCCCGGATGT
* * **
57298323 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
* *
57298366 GGTCTTACACG-AAATCAAATAT-GATGCCGATGTTCCAGACAT
1 GGTCTTACACGTAAATC-AATATCGATGCCGATGTCCCAGACAG
*
57298408 GGTCTTATACGTAAAT
1 GGTCTTACACGTAAAT
57298424 ATCAATCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 30 0.61
43 19 0.39
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:57315140 original size:27 final size:27
Alignment explanation
Indices: 57315105--57315180 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
57315095 GGAAAAACAA
*
57315105 TCATTTTAC-CGTACAGGGGTATGTCAG
1 TCATTTTACAC-TACAAGGGTATGTCAG
* *
57315132 TCATTTTACACTACAAGGGTGTTTCAG
1 TCATTTTACACTACAAGGGTATGTCAG
*
57315159 TAATTTTACACTACAAGGGTAT
1 TCATTTTACACTACAAGGGTAT
57315181 TTCGATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCAG
Found at i:57315183 original size:27 final size:26
Alignment explanation
Indices: 57315121--57315591 Score: 246
Period size: 27 Copynumber: 17.7 Consensus size: 26
57315111 TACCGTACAG
* * *
57315121 GGGTATGTCAGTCATTTTACACTACAA
1 GGGTATTTCAGTAATTTTACA-TACGA
* *
57315148 GGGTGTTTCAGTAATTTTACACTACAA
1 GGGTATTTCAGTAATTTTACA-TACGA
* *
57315175 GGGTATTTC-GATAATTTTACAAATCGG
1 GGGTATTTCAG-TAATTTTACATA-CGA
* ** *
57315202 GGGTGTTTTGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACATA-CGA
*
57315229 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACATA-CGA
* * * * *
57315256 GGGTATTT-TGCTAATTTCACAAATTGG
1 GGGTATTTCAG-TAATTTTACATA-CGA
*
57315283 GGGTATTTC-GATAATTTTACAAATCGA
1 GGGTATTTCAG-TAATTTTACATA-CGA
* * * *
57315310 GGGCATTT-TGATAATTTCACA-ATTGA
1 GGGTATTTCAG-TAATTTTACATA-CGA
* * * * *
57315336 CGGTATTTCGGTAATTTTAAAAATTGA
1 GGGTATTTCAGTAATTTTACATA-CGA
* * *
57315363 AGGTATTTCAGTAATTTCACA-ATCAA
1 GGGTATTTCAGTAATTTTACATA-CGA
57315389 GGGTATTTC-GATAATTTTACA-ATCGA
1 GGGTATTTCAG-TAATTTTACATA-CGA
** * *
57315415 GGGTATTTTGGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACATA-CGA
*
57315442 GGGTATTTCAGTAATTTCACA-ATCGA
1 GGGTATTTCAGTAATTTTACATA-CGA
* ** *
57315468 GTGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACATA-CGA
*
57315495 GGGTATTTCAGTAATTTCACA-ATCGA
1 GGGTATTTCAGTAATTTTACATA-CGA
* *
57315521 GGGTATTTC-GATAATTTTACAAATCGG
1 GGGTATTTCAG-TAATTTTACATA-CGA
* *
57315548 GGGTATTTC-GATAATTTTACAAATTGA
1 GGGTATTTCAG-TAATTTTACATA-CGA
57315575 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
57315592 CTCTTTATTA
Statistics
Matches: 373, Mismatches: 56, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.01
26 107 0.29
27 262 0.70
28 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTTACATACGA
Found at i:57315206 original size:54 final size:54
Alignment explanation
Indices: 57315147--57315591 Score: 455
Period size: 53 Copynumber: 8.3 Consensus size: 54
57315137 TTACACTACA
* * *
57315147 AGGGTGTTTCAGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAATCG
* * **
57315201 GGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCG
* * * *
57315255 AGGGTATTT-TGCTAATTTCACAAATTGGGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
* * * * * * * *
57315309 AGGGCATTT-TGATAATTTCAC-AATTGACGGTATTTCGGTAATTTTAAAAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
* * *
57315362 AAGGTATTTCAGTAATTTCAC-AATCAAGGGTATTTCGATAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
** * *
57315414 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCG
* ** *
57315467 AGTGTATTTTGGTAATTTTACAAATCGAGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCG
* *
57315520 AGGGTATTTC-GATAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
57315574 AGGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
57315592 CTCTTTATTA
Statistics
Matches: 341, Mismatches: 39, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
52 23 0.07
53 185 0.54
54 129 0.38
55 4 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCG
Found at i:57319924 original size:22 final size:19
Alignment explanation
Indices: 57319880--57319918 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
57319870 TATGGATATG
57319880 TTCAAAAATGATTCGATGA
1 TTCAAAAATGATTCGATGA
57319899 TTCAAAAATGATTCGATGA
1 TTCAAAAATGATTCGATGA
57319918 T
1 T
57319919 GATTCAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCAAAAATGATTCGATGA
Found at i:57322881 original size:40 final size:40
Alignment explanation
Indices: 57322788--57323107 Score: 331
Period size: 40 Copynumber: 8.0 Consensus size: 40
57322778 TATTTGATTT
* * * * *
57322788 AGGGTTACCAAAGTATAAATAGGGGCTCGTATGTGCAATC
1 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
* ** * * *
57322828 A-AGGTACTGAAGTACAAACAAGGGCACATTTGTGCAATT
1 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
** *
57322867 AGGGGTACCAAAGTACAAACAGGGGCTTATATGTACAATC
1 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
* * *
57322907 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTACAATC
1 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
* * * *
57322947 -GGGGTTATCAAAGTACAAATAGGGGCACGTATGTGCAATT
1 AGGGG-TACCAAAGTACAAACAGGGGCACATATGTGCAATC
* *
57322987 ATGGGTATCGAAA-TACAAACAGGGGCACATATGTGCAATC
1 AGGGGTA-CCAAAGTACAAACAGGGGCACATATGTGCAATC
* *
57323027 AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATC
1 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
* * * * *
57323067 AGGGGCACCGAAGTACAAATAGGGGAACGTATGTGCAATC
1 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
57323107 A
1 A
57323108 TACAATAATT
Statistics
Matches: 233, Mismatches: 42, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
39 36 0.15
40 191 0.82
41 6 0.03
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.20
Consensus pattern (40 bp):
AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATC
Found at i:57322922 original size:20 final size:20
Alignment explanation
Indices: 57322899--57323084 Score: 78
Period size: 20 Copynumber: 9.3 Consensus size: 20
57322889 GGGCTTATAT
*
57322899 GTACAATCAGGGGTACCGAA
1 GTACAATCAGGGGCACCGAA
* *
57322919 GTACAAACAGGGGCA-CGTAT
1 GTACAATCAGGGGCACCG-AA
* * *
57322939 GTACAATC-GGGGTTATCAAA
1 GTACAATCAGGGG-CACCGAA
*
57322959 GTACAAAT-AGGGGCA-CGTAT
1 GTAC-AATCAGGGGCACCG-AA
* * * * *
57322979 GTGCAATTATGGGTATCGAA
1 GTACAATCAGGGGCACCGAA
* * ** *
57322999 ATACAAACAGGGGCACATAT
1 GTACAATCAGGGGCACCGAA
* * *
57323019 GTGCAATCAGGGGTACCAAA
1 GTACAATCAGGGGCACCGAA
*
57323039 GTACAAAT-AGGGGCA-CGTAT
1 GTAC-AATCAGGGGCACCG-AA
*
57323059 GTGCAATCAGGGGCACCGAA
1 GTACAATCAGGGGCACCGAA
57323079 GTACAA
1 GTACAA
57323085 ATAGGGGAAC
Statistics
Matches: 116, Mismatches: 38, Indels: 24
0.65 0.21 0.13
Matches are distributed among these distances:
19 14 0.12
20 87 0.75
21 15 0.13
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (20 bp):
GTACAATCAGGGGCACCGAA
Found at i:57323010 original size:120 final size:120
Alignment explanation
Indices: 57322788--57323105 Score: 372
Period size: 120 Copynumber: 2.7 Consensus size: 120
57322778 TATTTGATTT
* * * * * * * ** * *
57322788 AGGGTTACCAAAGTATAAATAGGGGCTCGTATGTGCAATCA-AGGTACTGAAGTACAAACAAGGG
1 AGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATCAGGGGCACCAAAGTACAAATAGGGG
* * **
57322852 CACATTTGTGCAATTAGGGGTACCAAAGTACAAACAGGGGCTTATATGTACAATC
66 CACGTATGTGCAATTAGGGGTACCAAAGTACAAACAGGGGCACATATGTACAATC
* * *
57322907 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTACAATC-GGGGTTATCAAAGTACAAATAGGG
1 AGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATCAGGGG-CACCAAAGTACAAATAGGG
* * *
57322971 GCACGTATGTGCAATTATGGGTATCGAAA-TACAAACAGGGGCACATATGTGCAATC
65 GCACGTATGTGCAATTAGGGGTA-CCAAAGTACAAACAGGGGCACATATGTACAATC
* * *
57323027 AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGCACCGAAGTACAAATAGGGG
1 AGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATCAGGGGCACCAAAGTACAAATAGGGG
*
57323092 AACGTATGTGCAAT
66 CACGTATGTGCAAT
57323106 CATACAATAA
Statistics
Matches: 169, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
119 36 0.21
120 125 0.74
121 8 0.05
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (120 bp):
AGGGGTACCAAAGTACAAACAGGGGCACGTATGTACAATCAGGGGCACCAAAGTACAAATAGGGG
CACGTATGTGCAATTAGGGGTACCAAAGTACAAACAGGGGCACATATGTACAATC
Found at i:57323107 original size:80 final size:80
Alignment explanation
Indices: 57322788--57323107 Score: 401
Period size: 80 Copynumber: 4.0 Consensus size: 80
57322778 TATTTGATTT
* * * * * *
57322788 AGGGTTACCAAAGTATAAATAGGGGCTCGTATGTGCAATCA-AGGTACTGAAGTACAAACAAGGG
1 AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGG
* *
57322852 CACATTTGTGCAATT
66 CACATATGTGCAATC
* *** *
57322867 AGGGGTACCAAAGTACAAACAGGGGCTTATATGTACAATCAGGGGTACCGAAGTACAAACAGGGG
1 AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGG
* *
57322932 CACGTATGTACAATC
66 CACATATGTGCAATC
* * * * *
57322947 -GGGGTTATCAAAGTACAAATAGGGGCACGTATGTGCAATTATGGGTATCGAAATACAAACAGGG
1 AGGGG-TACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGG
57323011 GCACATATGTGCAATC
65 GCACATATGTGCAATC
* *
57323027 AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGCACCGAAGTACAAATAGGGG
1 AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGG
* *
57323092 AACGTATGTGCAATC
66 CACATATGTGCAATC
57323107 A
1 A
57323108 TACAATAATT
Statistics
Matches: 204, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
79 39 0.19
80 161 0.79
81 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.20
Consensus pattern (80 bp):
AGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGG
CACATATGTGCAATC
Found at i:57324621 original size:54 final size:54
Alignment explanation
Indices: 57324539--57324643 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
57324529 ATTTTCTCAA
*
57324539 GTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAGACTGATTCTTTTAGTAACAC
1 GTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAAACTGATTCTTTTAGTAACAC
*
57324593 GTTTAGGAGGTAAAGTTAATCTGTAAGCTACAAAACTGATTCTTTTAGTAA
1 GTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAAACTGATTCTTTTAGTAA
57324644 TCTCGTACGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (54 bp):
GTTTAGGAGGTAAAGCTAATCTGTAAGCTACAAAACTGATTCTTTTAGTAACAC
Found at i:57336252 original size:42 final size:42
Alignment explanation
Indices: 57336205--57336406 Score: 190
Period size: 42 Copynumber: 4.6 Consensus size: 42
57336195 TAAGATGCCA
*
57336205 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCT
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
* * * * *
57336247 ATGCCAATAGCCTAGCTATGGTCTTACATGATG-TCGCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATG-GGATCACATATCG
* * * ** *
57336290 ATGCCATGTCCCAGACAAGGTCTTACATGAAATCACATATTGATGCCA
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCAC--A-T-AT--CG
*
57336338 ATGCCATATCCCAGATATGGTCTTACATGGGATCATATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
* *
57336380 AGGCCGTATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
57336407 CGAAACCACA
Statistics
Matches: 126, Mismatches: 25, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
42 52 0.41
43 34 0.27
44 4 0.03
45 2 0.02
46 3 0.02
48 31 0.25
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
Found at i:57340500 original size:49 final size:49
Alignment explanation
Indices: 57340442--57340824 Score: 621
Period size: 49 Copynumber: 7.9 Consensus size: 49
57340432 GTATGAGATG
* *
57340442 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGACAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
57340491 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
57340540 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
57340589 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
57340638 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
57340685 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
57340732 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
57340781 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
57340825 TATATGTGTG
Statistics
Matches: 320, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 90 0.28
49 230 0.72
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:57340878 original size:48 final size:48
Alignment explanation
Indices: 57340820--57340967 Score: 251
Period size: 48 Copynumber: 3.1 Consensus size: 48
57340810 GTGATGAATG
*
57340820 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATA
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATA
* *
57340868 TGAGATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATA
* *
57340916 TGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATA
57340964 TGAA
1 TGAA
57340968 TGTTGTAACA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 95 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATA
Found at i:57341062 original size:37 final size:37
Alignment explanation
Indices: 57341012--57341097 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
57341002 GGAAATATAT
*
57341012 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
57341049 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
57341086 TCCGGGTAAGAC
1 TCCGGGTAAGAC
57341098 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:57343045 original size:27 final size:26
Alignment explanation
Indices: 57342989--57343099 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
57342979 AGCAAGGCTG
* *
57342989 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
57343015 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
57343042 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
57343069 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
57343096 CCAG
1 CCAG
57343100 GACGCATCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:57343530 original size:8 final size:8
Alignment explanation
Indices: 57343514--57343545 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
57343504 CTCAAAATAC
57343514 CGGCTTTT
1 CGGCTTTT
*
57343522 CGGCATTT
1 CGGCTTTT
57343530 CGGCTTTT
1 CGGCTTTT
57343538 CGGCTTTT
1 CGGCTTTT
57343546 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:57344565 original size:24 final size:24
Alignment explanation
Indices: 57344514--57344584 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
57344504 CCAACACTAT
* *
57344514 CCTCCCTAATCAGCT-CTAAATTC
1 CCTCCCTTATCAGCTCCTAAATCC
*
57344537 TCTCCCTTATCAGCTCCTAAATCC
1 CCTCCCTTATCAGCTCCTAAATCC
57344561 CCTCCCTTATCAGCTCCTAAATCC
1 CCTCCCTTATCAGCTCCTAAATCC
57344585 TTTCCTGACA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 13 0.30
24 30 0.70
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (24 bp):
CCTCCCTTATCAGCTCCTAAATCC
Found at i:57347691 original size:43 final size:43
Alignment explanation
Indices: 57347631--57347764 Score: 109
Period size: 43 Copynumber: 3.1 Consensus size: 43
57347621 GCCCCAGACA
* * *
57347631 TGGTCTTACATGT-AATCAAATATCAATGCCACTGTTCCAGATAG
1 TGGTCCTACACGTAAATCAAATATCAATGCCAC-GTGCCAGAT-G
* *
57347675 -GGTCCTACACG-AAATCAAGTA-CGATGCCAACGTGCCAGATG
1 TGGTCCTACACGTAAATCAAATATCAATGCC-ACGTGCCAGATG
* *
57347716 TGGTCTTACACGTAAATCATAA-GTCAATGCCAACGT-CTCAGATG
1 TGGTCCTACACGTAAATCA-AATATCAATGCC-ACGTGC-CAGATG
57347760 TGGTC
1 TGGTC
57347765 TTACCCGAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.32
43 26 0.35
44 23 0.31
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
TGGTCCTACACGTAAATCAAATATCAATGCCACGTGCCAGATG
Found at i:57347713 original size:42 final size:43
Alignment explanation
Indices: 57347631--57347764 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 43
57347621 GCCCCAGACA
* * * *
57347631 TGGTCTTACATGT-AATCAAATATCAATGCC-ACTGTTCCAGATAG
1 TGGTCCTACACGTAAATCAAA-GTCAATGCCAAC-GTGCCAGAT-G
*
57347675 -GGTCCTACACG-AAATC-AAGTACGATGCCAACGTGCCAGATG
1 TGGTCCTACACGTAAATCAAAGT-CAATGCCAACGTGCCAGATG
*
57347716 TGGTCTTACACGTAAATCATAAGTCAATGCCAACGT-CTCAGATG
1 TGGTCCTACACGTAAATCA-AAGTCAATGCCAACGTGC-CAGATG
57347760 TGGTC
1 TGGTC
57347765 TTACCCGAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
41 2 0.03
42 26 0.35
43 21 0.28
44 22 0.29
45 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
TGGTCCTACACGTAAATCAAAGTCAATGCCAACGTGCCAGATG
Found at i:57357352 original size:27 final size:26
Alignment explanation
Indices: 57357285--57357352 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
57357275 CCTTTACAAT
*
57357285 ATGCTCACACAAGCTGTGAAAAGAGT
1 ATGCTCACACAAGCTGTGAAAAGAGC
*
57357311 ATGCTCACACAAGCTGTGAAAATGGGC
1 ATGCTCACACAAGCTGTGAAAA-GAGC
* *
57357338 CTGCTCACACGAGCT
1 ATGCTCACACAAGCT
57357353 ATAGGTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 22 0.59
27 15 0.41
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (26 bp):
ATGCTCACACAAGCTGTGAAAAGAGC
Found at i:57365060 original size:42 final size:41
Alignment explanation
Indices: 57364942--57365060 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 41
57364932 CATACCGATT
* * *
57364942 CCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACAT-GAATTTCATATAGATG
* *
57364984 CCAATAGCCCAGCTATGGTCTTACATGAAGTTTCATATAGATG
1 CC-ATATCCCAGATATGGTCTTACATGAA-TTTCATATAGATG
* *
57365027 TCATATCCCAGATATGGTCTTACACGTAATTTCA
1 CCATATCCCAGATATGGTCTTACATG-AATTTCA
57365061 AATAACCCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACATGAATTTCATATAGATG
Found at i:57373311 original size:49 final size:50
Alignment explanation
Indices: 57373234--57373411 Score: 205
Period size: 52 Copynumber: 3.5 Consensus size: 50
57373224 ATTAGTGACT
* * * *
57373234 CAAGTGTGGTACTATATGAAGGCTACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
* *
57373283 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATTTTTTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAG-CTTTGTCA
* * * *
57373335 TAAGAGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-A
* **
57373386 CAAGGGTGGTACTATGTTCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
57373412 CGAGTATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
49 32 0.29
50 4 0.04
51 35 0.32
52 38 0.35
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
Found at i:57376631 original size:27 final size:27
Alignment explanation
Indices: 57376482--57376632 Score: 221
Period size: 27 Copynumber: 5.6 Consensus size: 27
57376472 TTTCCCCTTA
* * *
57376482 TAAGGTAAAATGACCGAAATACCCCTA
1 TAAGGTAAAATGACTGTAATACCCCTG
* *
57376509 TAAGGTAAAATAACTGTAATACCCCTA
1 TAAGGTAAAATGACTGTAATACCCCTG
* *
57376536 TAGGGTAAAATGACTGTGATACCCCTG
1 TAAGGTAAAATGACTGTAATACCCCTG
*
57376563 TAAGGTAAAATGACTGTAACACCCCTG
1 TAAGGTAAAATGACTGTAATACCCCTG
*
57376590 TAAGGTAAAATGACTGTAACACCCCTG
1 TAAGGTAAAATGACTGTAATACCCCTG
57376617 TAAGGTAAAATGACTG
1 TAAGGTAAAATGACTG
57376633 ATTTTCCCTA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
TAAGGTAAAATGACTGTAATACCCCTG
Found at i:57378612 original size:40 final size:40
Alignment explanation
Indices: 57378504--57378713 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57378494 CGGGATTTAA
* * * * *
57378504 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
57378544 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57378584 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57378624 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57378664 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57378704 CCGGATATAT
1 CCGGATATAT
57378714 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57386747 original size:40 final size:40
Alignment explanation
Indices: 57386639--57386848 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57386629 CGGGATTTAA
* * * * *
57386639 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
57386679 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57386719 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57386759 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57386799 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57386839 CCGGATATAT
1 CCGGATATAT
57386849 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57389519 original size:3 final size:3
Alignment explanation
Indices: 57389511--57389547 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
57389501 TGTTTATGAA
57389511 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
57389548 GTAGTAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:57389552 original size:3 final size:3
Alignment explanation
Indices: 57389546--57389574 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
57389536 TTATTATTAT
57389546 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
57389575 ATTAAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:57391974 original size:25 final size:25
Alignment explanation
Indices: 57391940--57392010 Score: 106
Period size: 26 Copynumber: 2.8 Consensus size: 25
57391930 GAGGAAGTGC
*
57391940 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
57391965 AAAAGGGCTTTTACCCTAGTTTACCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
57391991 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57392011 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57392268 original size:31 final size:31
Alignment explanation
Indices: 57392230--57392343 Score: 176
Period size: 31 Copynumber: 3.7 Consensus size: 31
57392220 TTGTTGCAGT
*
57392230 AAAGGCTTCGACCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
57392261 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
57392292 AAAGGCTTCGGCCCAATGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
57392323 AAAGGCTTCGGACCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
57392344 ATTGAGCTTG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 72 0.95
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:57393822 original size:43 final size:43
Alignment explanation
Indices: 57393751--57393873 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
57393741 CAAAAAGCTC
* * * *
57393751 ATACTATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCGA
1 ATACGATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAA
* * *
57393793 ATATCGATGCC-ACTGTCCCAGACAAGGTCTGACACGAAATCAA
1 ATA-CGATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAA
* * *
57393836 ATACGATGCCGA-TGTCCCGGACATGGACTTACACGTAA
1 ATACGATGCCAACTGTCCCAGACATGGTCTTACACGTAA
57393874 ATCATAAGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (43 bp):
ATACGATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:57393870 original size:42 final size:43
Alignment explanation
Indices: 57393756--57393877 Score: 124
Period size: 43 Copynumber: 2.8 Consensus size: 43
57393746 AGCTCATACT
* * * *
57393756 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCGAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
57393799 ATGCCACTGTCCCAGACAAGGTCTGACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
57393841 ATGCCGA-TGTCCCGGACATGGACTTACACGTAAATCA
1 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AAATCA
57393878 TAAGTCAATG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 28 0.42
43 38 0.58
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:57396899 original size:19 final size:18
Alignment explanation
Indices: 57396875--57396917 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
57396865 TTCAAAACAA
57396875 TCATTTATC-AAATATCAT
1 TCATTTA-CGAAATATCAT
57396893 CTCATTTACGTAAATATCAT
1 -TCATTTACG-AAATATCAT
57396913 TCATT
1 TCATT
57396918 CACATTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 9 0.41
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (18 bp):
TCATTTACGAAATATCAT
Found at i:57398146 original size:23 final size:23
Alignment explanation
Indices: 57398117--57398275 Score: 128
Period size: 23 Copynumber: 7.0 Consensus size: 23
57398107 GAGTTGATGG
57398117 ACAGTAAGCTCTAATGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* * * *
57398140 ACGGTAAACTCTATTAAGCTG-A
1 ACAGTAAGCTCTAATGAGCTGAA
* *
57398162 ATAGTAAGCTCT-ATCGAGTTGAA
1 ACAGTAAGCTCTAAT-GAGCTGAA
* * *
57398185 TCAGTAAGCTCCAATGTGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* **
57398208 ACAGTAAGATCTTCTGAGCT-AA
1 ACAGTAAGCTCTAATGAGCTGAA
* *
57398230 ATCGGTAAGCT-TCAATGAGTTGAA
1 A-CAGTAAGCTCT-AATGAGCTGAA
*
57398254 ACAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTCTAATGAGCTGA
57398276 GTCGATAAGC
Statistics
Matches: 100, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.18
23 75 0.75
24 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (23 bp):
ACAGTAAGCTCTAATGAGCTGAA
Found at i:57398285 original size:46 final size:46
Alignment explanation
Indices: 57398117--57398287 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 46
57398107 GAGTTGATGG
* * * * * *
57398117 ACAGTAAGCTCTAATGAGCTGAAACGGTAAAC-TCTATTAAGCTG-A
1 ACAGTAAGCTCTTATGAGCTGAATCGATAAGCTTC-AATGAGCTGAA
* * * *
57398162 ATAGTAAGCTC-TATCGAGTTGAATC-AGTAAGCTCCAATGTGCTGAA
1 ACAGTAAGCTCTTAT-GAGCTGAATCGA-TAAGCTTCAATGAGCTGAA
* * * * *
57398208 ACAGTAAGATCTTCTGAGCTAAATCGGTAAGCTTCAATGAGTTGAA
1 ACAGTAAGCTCTTATGAGCTGAATCGATAAGCTTCAATGAGCTGAA
*
57398254 ACAGTAAGCTCTTATGAGCTGAGTCGATAAGCTT
1 ACAGTAAGCTCTTATGAGCTGAATCGATAAGCTT
57398288 ATACGAGCTG
Statistics
Matches: 96, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
44 2 0.02
45 28 0.29
46 64 0.67
47 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (46 bp):
ACAGTAAGCTCTTATGAGCTGAATCGATAAGCTTCAATGAGCTGAA
Done.