Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 228 of 378
Found at i:67415821 original size:25 final size:25
Alignment explanation
Indices: 67415793--67415848 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
67415783 CTTATGAGTA
67415793 TTCCGATTAAA-GGCTCTTCGTGAGC
1 TTCCG-TTAAATGGCTCTTCGTGAGC
* *
67415818 TTCCCGTTAAATTGGGTCTTTGTGAGC
1 TT-CCGTTAAA-TGGCTCTTCGTGAGC
67415845 TTCC
1 TTCC
67415849 CGATAATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 7 0.27
26 5 0.19
27 14 0.54
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
TTCCGTTAAATGGCTCTTCGTGAGC
Found at i:67418295 original size:45 final size:45
Alignment explanation
Indices: 67418245--67418335 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
67418235 TCAAAACATG
* * *
67418245 TGTCACATACATCATGAACTCAGACCATAATTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGA
*
67418290 TGTCACATATATCATGAACTCAGACAACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGA
67418335 T
1 T
67418336 CATATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGA
Found at i:67418312 original size:24 final size:23
Alignment explanation
Indices: 67418245--67418313 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 23
67418235 TCAAAACATG
67418245 TGTCACATACATCATGAACTCAGA
1 TGTCACATA-ATCATGAACTCAGA
**
67418269 ---C-CATAATTCAATGAGTTCAGA
1 TGTCACATAA-TC-ATGAACTCAGA
67418290 TGTCACATATATCATGAACTCAGA
1 TGTCACATA-ATCATGAACTCAGA
67418314 CAACAACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
19 1 0.03
20 6 0.18
21 10 0.29
24 10 0.29
25 6 0.18
26 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (23 bp):
TGTCACATAATCATGAACTCAGA
Found at i:67420942 original size:22 final size:21
Alignment explanation
Indices: 67420905--67420956 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
67420895 TACATCATGG
*
67420905 AGTGTGAACACATTAATGTTTT
1 AGTGTGAACACATTAA-GTGTT
67420927 AGTGTGAACA-ACTTAAGTGTT
1 AGTGTGAACACA-TTAAGTGTT
67420948 AGATGTGAA
1 AG-TGTGAA
67420957 TGTGTTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (21 bp):
AGTGTGAACACATTAAGTGTT
Found at i:67424988 original size:27 final size:28
Alignment explanation
Indices: 67424932--67425001 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
67424922 AAACTTGTAC
67424932 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
67424960 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
67424987 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
67425002 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:67425012 original size:27 final size:27
Alignment explanation
Indices: 67424932--67425013 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
67424922 AAACTTGTAC
* *
67424932 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
67424960 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
67424987 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
67425014 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:67432923 original size:27 final size:28
Alignment explanation
Indices: 67432867--67432935 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
67432857 AAACTTGTAC
67432867 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
67432895 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
67432922 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
67432936 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.20
27 15 0.38
28 17 0.43
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:67432946 original size:26 final size:27
Alignment explanation
Indices: 67432867--67432947 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
67432857 AAACTTGTAC
* *
67432867 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
67432895 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
67432922 AGCACT-AGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
67432948 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 14 0.29
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:67435719 original size:22 final size:21
Alignment explanation
Indices: 67435673--67435719 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
67435663 TAACTTAAAA
* *
67435673 AAATTAATAATAATATTACTT
1 AAATTAATAATAATAATACTC
67435694 AAATT-ATAATATATTAATACTC
1 AAATTAATAATA-A-TAATACTC
67435716 AAAT
1 AAAT
67435720 AAAATATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTAATAATAATAATACTC
Found at i:67438588 original size:2 final size:2
Alignment explanation
Indices: 67438581--67438605 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67438571 CCCATCTCTT
67438581 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
67438606 GTTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67441610 original size:10 final size:10
Alignment explanation
Indices: 67441595--67441623 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
67441585 GCTCAATTAC
67441595 TTTTGTTTTA
1 TTTTGTTTTA
67441605 TTTTGTTTTA
1 TTTTGTTTTA
67441615 TTTTGTTTT
1 TTTTGTTTT
67441624 TTCTTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (10 bp):
TTTTGTTTTA
Found at i:67444872 original size:19 final size:18
Alignment explanation
Indices: 67444844--67444883 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
67444834 ATGAAATTTT
*
67444844 AATTAGTATTATGAGATAA
1 AATTAATATTATGAGA-AA
*
67444863 AATTAATATTATTAGAAA
1 AATTAATATTATGAGAAA
67444881 AAT
1 AAT
67444884 ATTACTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
AATTAATATTATGAGAAA
Found at i:67444961 original size:22 final size:24
Alignment explanation
Indices: 67444935--67444987 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
67444925 TTATTTACTG
*
67444935 TATTATT-G-ATATTTAAAATTTT
1 TATTATTAGAATATTTAAAATTAT
67444957 TATTATTAGATATATTTAAAATTAT
1 TATTATTAGA-ATATTTAAAATTAT
67444982 TATTAT
1 TATTAT
67444988 ATTATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 7 0.26
23 1 0.04
25 19 0.70
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TATTATTAGAATATTTAAAATTAT
Found at i:67447053 original size:60 final size:59
Alignment explanation
Indices: 67446974--67447110 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
67446964 AACTGTGTTA
* * *
67446974 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
67447034 ATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
67447094 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
67447111 GTTAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.77
61 14 0.22
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:67451870 original size:37 final size:37
Alignment explanation
Indices: 67451805--67451904 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
67451795 ATCCAACCAA
* * * *
67451805 AACACGCCAAGTGCTCCGAAAAGCTAATCCAATTAAT
1 AACACGCGAAATGCTCAGAAGAGCTAATCCAATTAAT
* * *
67451842 AACATG-GCAAATGCTTAGAAGAGCTAATCCAATTGAT
1 AACACGCG-AAATGCTCAGAAGAGCTAATCCAATTAAT
*
67451879 AACACGCGAAATGCTCCGAAGAGCTA
1 AACACGCGAAATGCTCAGAAGAGCTA
67451905 TACATCCGCC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
37 50 0.98
38 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (37 bp):
AACACGCGAAATGCTCAGAAGAGCTAATCCAATTAAT
Found at i:67453334 original size:40 final size:40
Alignment explanation
Indices: 67453289--67453496 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
67453279 CGGAATACAA
*
67453289 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* **
67453329 CCGGATTTAATGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
67453369 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
67453409 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
67453449 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
*
67453489 CCGAATAT
1 CCGGATAT
67453497 CATTCAATTA
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:67453436 original size:80 final size:80
Alignment explanation
Indices: 67453289--67453491 Score: 255
Period size: 80 Copynumber: 2.5 Consensus size: 80
67453279 CGGAATACAA
* * * * *
67453289 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAATGACTTGCACGAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAATCACTAGCACGAATG
*
67453354 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAAC
* *
67453369 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCAC-AATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAATCACTAGCACGAA-T
67453433 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** * ** * *
67453449 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCG
67453492 AATATCATTC
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 2 0.02
80 104 0.98
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAATCACTAGCACGAATG
CCTTCGGGTCTTAAC
Found at i:67459663 original size:14 final size:16
Alignment explanation
Indices: 67459644--67459680 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
67459634 TGAAAACGAC
67459644 GATATATGAAA-A-GT
1 GATATATGAAATAGGT
*
67459658 GATATAGGAAATAGGT
1 GATATATGAAATAGGT
67459674 GATATAT
1 GATATAT
67459681 ATATGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.53
15 1 0.05
16 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (16 bp):
GATATATGAAATAGGT
Found at i:67463688 original size:50 final size:50
Alignment explanation
Indices: 67463613--67463712 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
67463603 TTGGTATCAG
* *
67463613 AGGCCCCCAGAGTAATGATTCTTGGAAAGACTGATATCATAATATCCATT
1 AGGCCCCCAGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
* *
67463663 AGGCCCTCGGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
1 AGGCCCCCAGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
67463713 GTAAGTTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
AGGCCCCCAGAGTAACGATTCTTGGAAAGAATGATATCATAATATCCATT
Found at i:67464169 original size:40 final size:40
Alignment explanation
Indices: 67464114--67464204 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
67464104 TATTGCTAAA
*
67464114 AAAGAAAGATTTTATCAGCCATATCAAATATGGATTATTC
1 AAAGAATGATTTTATCAGCCATATCAAATATGGATTATTC
*
67464154 AAAGAATGATTTTATCAGCCATATCAAATATGGATTCTTC
1 AAAGAATGATTTTATCAGCCATATCAAATATGGATTATTC
67464194 AAAGAATGATT
1 AAAGAATGATT
67464205 GGAAGCCCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (40 bp):
AAAGAATGATTTTATCAGCCATATCAAATATGGATTATTC
Found at i:67465793 original size:34 final size:34
Alignment explanation
Indices: 67465755--67465819 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
67465745 AAACAAGTTG
*
67465755 ATAAATTGTTTATTATTGTCATACGGTCTTAATA
1 ATAAATTGTTTATTATTGTCATAAGGTCTTAATA
*
67465789 ATAAATTGTTTATTATTTTCATAAGGTCTTA
1 ATAAATTGTTTATTATTGTCATAAGGTCTTA
67465820 CTAAGCTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (34 bp):
ATAAATTGTTTATTATTGTCATAAGGTCTTAATA
Found at i:67469482 original size:28 final size:28
Alignment explanation
Indices: 67469441--67469499 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
67469431 GAAATTAGAG
*
67469441 TAAGAGTTGGGAAATTTCTCGATTTTGC
1 TAAGAGTTAGGAAATTTCTCGATTTTGC
*
67469469 TAAGAGTTATGAAATTTCTCGATTTTGC
1 TAAGAGTTAGGAAATTTCTCGATTTTGC
67469497 TAA
1 TAA
67469500 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (28 bp):
TAAGAGTTAGGAAATTTCTCGATTTTGC
Found at i:67469998 original size:2 final size:2
Alignment explanation
Indices: 67469991--67470018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67469981 TCTTTGCCTT
67469991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67470019 ATTGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67480442 original size:23 final size:23
Alignment explanation
Indices: 67480416--67480461 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67480406 ATTAGTTTCG
67480416 TAAAGAGAGAATGTACTAGTAAC
1 TAAAGAGAGAATGTACTAGTAAC
67480439 TAAAGAGAGAATGTACTAGTAAC
1 TAAAGAGAGAATGTACTAGTAAC
67480462 AACATCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.22
Consensus pattern (23 bp):
TAAAGAGAGAATGTACTAGTAAC
Found at i:67482333 original size:230 final size:230
Alignment explanation
Indices: 67481928--67482382 Score: 730
Period size: 230 Copynumber: 2.0 Consensus size: 230
67481918 CCCGACACGC
* *
67481928 CTGTGTCATAGGCCGTGTGGACAGTCGAAATGGAAGCACATGGCTGTGTCCTAGCCCATGTCTGA
1 CTGTGTCACAGGCCGTGTCGACAGTCGAAATGGAAGCACATGGCTGTGTCCTAGCCCATGTCTGA
* * *
67481993 CCCCATGTAACTCTCTGACTTAGGTCACACGGCCAACTCACATGCCCGTGTGGCTAGCCCCTGTG
66 CCCCATGTAACTCTCTGACGTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTG
** *
67482058 TCCTAAAAATGGCCATACACGCTCATGTGTGAGGTTGTATGCTAGGTCATGCCAAACCTATAGGG
131 TCCTAAAAATGGCCATACACGCTCATGTGTGAGGCCGTATGCTAGGCCATGCCAAACCTATAGGG
* *
67482123 TATACTAACTTATGCCATACGGCCAAGTCACACAT
196 TATACTAACTAATGCCACACGGCCAAGTCACACAT
* * * *
67482158 CTGTGTCACAGGTCGTGTCGACATTCGAAATGGGAGCACATGGCTGTGTCCTAGCCCGTGTCTGA
1 CTGTGTCACAGGCCGTGTCGACAGTCGAAATGGAAGCACATGGCTGTGTCCTAGCCCATGTCTGA
* *
67482223 CCCCGTGTAACTCTCTGACGTAGGTCACACGACCAACTCACACGCCCTTGTGGCTAGCCCCTGTG
66 CCCCATGTAACTCTCTGACGTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTG
* *
67482288 TCCTAAAAATGGCCATACACGCTCATGTGTGAGGCCGTGTGCTAGGCCATGCCAAACCTGTAGGG
131 TCCTAAAAATGGCCATACACGCTCATGTGTGAGGCCGTATGCTAGGCCATGCCAAACCTATAGGG
* *
67482353 TATACTGACTAATGCCACATGGCCAAGTCA
196 TATACTAACTAATGCCACACGGCCAAGTCA
67482383 TACGCCCGTG
Statistics
Matches: 205, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
230 205 1.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (230 bp):
CTGTGTCACAGGCCGTGTCGACAGTCGAAATGGAAGCACATGGCTGTGTCCTAGCCCATGTCTGA
CCCCATGTAACTCTCTGACGTAGGTCACACGACCAACTCACACGCCCGTGTGGCTAGCCCCTGTG
TCCTAAAAATGGCCATACACGCTCATGTGTGAGGCCGTATGCTAGGCCATGCCAAACCTATAGGG
TATACTAACTAATGCCACACGGCCAAGTCACACAT
Found at i:67483771 original size:124 final size:124
Alignment explanation
Indices: 67483551--67483802 Score: 486
Period size: 124 Copynumber: 2.0 Consensus size: 124
67483541 TCGGTATAAC
67483551 TCACACCAAAAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTA
1 TCACACCAAAAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTA
67483616 GCATCCTAAACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGTCGTCAAA
66 GCATCCTAAACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGTCGTCAAA
*
67483675 TCACACCAGAAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTA
1 TCACACCAAAAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTA
*
67483740 GCATCCTAAACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGTCGTCGAA
66 GCATCCTAAACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGTCGTCAAA
67483799 TCAC
1 TCAC
67483803 TATCATTCAT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (124 bp):
TCACACCAAAAGTGCTATATCATGGCCCGAAGCAACTCAATGTATCCCCTAATGACTTGTCACTA
GCATCCTAAACTATTCCTAAGGTTCAACCGGGATTTTCGAATGTCATATCGTCGTCAAA
Found at i:67485491 original size:9 final size:9
Alignment explanation
Indices: 67485474--67485516 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
67485464 TTTTTCTAAA
*
67485474 CTCTTAACT
1 CTCTCAACT
67485483 CTCTCAACT
1 CTCTCAACT
*
67485492 CTCTTAACT
1 CTCTCAACT
*
67485501 CTCTCAATT
1 CTCTCAACT
67485510 CTCTCAA
1 CTCTCAA
67485517 GTTTTGTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (9 bp):
CTCTCAACT
Found at i:67485495 original size:18 final size:18
Alignment explanation
Indices: 67485474--67485513 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
67485464 TTTTTCTAAA
67485474 CTCTTAACTCTCTCAACT
1 CTCTTAACTCTCTCAACT
*
67485492 CTCTTAACTCTCTCAATT
1 CTCTTAACTCTCTCAACT
67485510 CTCT
1 CTCT
67485514 CAAGTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (18 bp):
CTCTTAACTCTCTCAACT
Found at i:67490119 original size:40 final size:40
Alignment explanation
Indices: 67490049--67490273 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
67490039 AAACCAAGTA
* * *
67490049 CCTTCGAGATTTAG-CCGGATATCA-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
* * *
67490088 CCTTCGGGACTTAACCCGAATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
67490128 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
67490168 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
*
67490211 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
67490251 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
67490274 CATCCGAATA
Statistics
Matches: 159, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
42 1 0.01
43 36 0.23
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:67490227 original size:83 final size:80
Alignment explanation
Indices: 67490074--67490273 Score: 283
Period size: 83 Copynumber: 2.5 Consensus size: 80
67490064 CGGATATCAC
* * * * * *
67490074 AACTCGCACAAATGCCTTCGGGACTTAACCCGAATATAGTAACTCGCACACATGCCTTCGGGTCT
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACT
67490139 TAGCCCGGAAATAGT
66 TAGCCCGGAAATAGT
* *
67490154 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGG
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCGGG
*
67490219 ACTTAGCCCGGATATAGT
63 ACTTAGCCCGGAAATAGT
*
67490237 AACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
67490274 CATCCGAATA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 34 0.32
81 1 0.01
83 70 0.67
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACT
TAGCCCGGAAATAGT
Found at i:67491533 original size:39 final size:39
Alignment explanation
Indices: 67491490--67491568 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
67491480 TTATTCTTCT
67491490 CCCATTTGACTGAATGAATATTTATCAAATGCAACTCAA
1 CCCATTTGACTGAATGAATATTTATCAAATGCAACTCAA
67491529 CCCATTTGACTGAATGAATATTTATCAAATGCAACTCAA
1 CCCATTTGACTGAATGAATATTTATCAAATGCAACTCAA
67491568 C
1 C
67491569 TAACAACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (39 bp):
CCCATTTGACTGAATGAATATTTATCAAATGCAACTCAA
Found at i:67494139 original size:22 final size:19
Alignment explanation
Indices: 67494114--67494155 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
67494104 TGATAATAAC
67494114 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
67494136 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
67494155 T
1 T
67494156 CAATTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:67494146 original size:16 final size:15
Alignment explanation
Indices: 67494114--67494152 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
67494104 TGATAATAAC
67494114 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
67494130 TTATTATAATATATAT
1 TAATTATAAT-TATAT
67494146 TAATTAT
1 TAATTAT
67494153 TATCAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:67495049 original size:21 final size:21
Alignment explanation
Indices: 67495004--67495047 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
67494994 ATATTTGATA
*
67495004 TTTAATGATAGATTATGAATG
1 TTTAATGATAGATTATCAATG
67495025 TTTAATGATAG-TTATACAA-G
1 TTTAATGATAGATTAT-CAATG
67495045 TTT
1 TTT
67495048 TATTGAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (21 bp):
TTTAATGATAGATTATCAATG
Found at i:67498773 original size:40 final size:40
Alignment explanation
Indices: 67498714--67498921 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
67498704 CAATTGAATG
* * * *
67498714 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
67498754 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
67498794 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
67498834 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
67498874 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
67498914 ATATCCGG
1 ATATCCGG
67498922 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:67498852 original size:80 final size:80
Alignment explanation
Indices: 67498716--67498921 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
67498706 ATTGAATGAT
* * ** * * *
67498716 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
67498780 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
67498796 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
67498861 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
67498876 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
67498922 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:67502414 original size:16 final size:16
Alignment explanation
Indices: 67502393--67502425 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
67502383 TTTTCTTTCC
67502393 TAGGTTATGTTAGGAT
1 TAGGTTATGTTAGGAT
*
67502409 TAGGTTCTGTTAGGAT
1 TAGGTTATGTTAGGAT
67502425 T
1 T
67502426 TTTATTTCTC
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:0.21, C:0.03, G:0.30, T:0.45
Consensus pattern (16 bp):
TAGGTTATGTTAGGAT
Found at i:67503832 original size:26 final size:26
Alignment explanation
Indices: 67503803--67503854 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
67503793 GAAACACGAA
67503803 AATATATAAACTTTTTCATGCCCTTT
1 AATATATAAACTTTTTCATGCCCTTT
*
67503829 AATATATAGACTTTTTCATGCCCTTT
1 AATATATAAACTTTTTCATGCCCTTT
67503855 TAAACTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (26 bp):
AATATATAAACTTTTTCATGCCCTTT
Found at i:67503984 original size:20 final size:20
Alignment explanation
Indices: 67503959--67503997 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67503949 TAATTTTAAT
67503959 TAATTTTCTAATTATTTTCA
1 TAATTTTCTAATTATTTTCA
* *
67503979 TAATTTTTTATTTATTTTC
1 TAATTTTCTAATTATTTTC
67503998 GACTGATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TAATTTTCTAATTATTTTCA
Found at i:67512944 original size:39 final size:40
Alignment explanation
Indices: 67512858--67513138 Score: 301
Period size: 40 Copynumber: 7.1 Consensus size: 40
67512848 CGGATGACAA
*
67512858 CGAAGGCATTTGTGCTAGTGACTA-ATCCCGGGCTAAG-TCC
1 CGAAGGCATTTGTGCGAGTGACTATAT-CCGGGCTAAGAT-C
* *
67512898 CGAAGGCATTTGTGCGAGTTACTA-ATCCGGACTAAGATC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGATC
* *
67512937 CGAAGGCATTTGTGCGAGTTACTA-ATCCGGACTAAGATC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGATC
*
67512976 CGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGATC
* * *
67513016 CAAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGATC
* * * * *
67513055 CTGAAGGCATTTATGCTAGTGACCATATCCAGGCTAAGACC
1 C-GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGATC
* **
67513096 CGAAGGC-CTTGTGCGAGTGGTTATATCC-GGCTAA-ATCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGAT-C
67513134 CGAAG
1 CGAAG
67513139 ATACTTGGGT
Statistics
Matches: 211, Mismatches: 23, Indels: 16
0.84 0.09 0.06
Matches are distributed among these distances:
37 1 0.00
38 12 0.06
39 88 0.42
40 108 0.51
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGATC
Found at i:67513005 original size:79 final size:77
Alignment explanation
Indices: 67512858--67513114 Score: 304
Period size: 79 Copynumber: 3.3 Consensus size: 77
67512848 CGGATGACAA
* *
67512858 CGAAGGCATTTGTGCTAGTGACTAATCCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-
1 CGAAGGCATTTGTGCGAGTGACTAAT-CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTGCTAT
*
67512922 ATCCGGACTAAGATC
64 ATCCGG-CTAAGACC
* *
67512937 CGAAGGCATTTGTGCGAGTTACTAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATA
1 CGAAGGCATTTGTGCGAGTGACTAATCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTGCTATA
67513002 TCCGGGCTAAGACC
65 TCC-GGCTAAGACC
* * * * * *
67513016 CAAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAG-TGACCA
1 CGAAGGCATTTGTGCGAGTGACTA-ATCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTG-CTA
67513080 TATCCAGGCTAAGACC
63 TATCC-GGCTAAGACC
*
67513096 CGAAGGC-CTTGTGCGAGTG
1 CGAAGGCATTTGTGCGAGTG
67513115 GTTATATCCG
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
78 33 0.21
79 70 0.45
80 51 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (77 bp):
CGAAGGCATTTGTGCGAGTGACTAATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTGCTATAT
CCGGCTAAGACC
Found at i:67518047 original size:42 final size:41
Alignment explanation
Indices: 67517935--67518089 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 41
67517925 GTACCGTACC
* * *
67517935 AATGCCATATCCTAGATATGGTCTTACA-TATAATCTCGTATC
1 AATG-CATATCCTAGATATGGTCTTACACTA-AGTCTCATATT
* * * * * *
67517977 GATGCGGATAGCCCAGCTATAGTCTTACACGAAGTCTCATATT
1 AATGC--ATATCCTAGATATGGTCTTACACTAAGTCTCATATT
*
67518020 AATGCAATATCCTAGATATGGTCTTACACTTAGTCTCATATT
1 AATGC-ATATCCTAGATATGGTCTTACACTAAGTCTCATATT
*
67518062 GATGTCATAT-CTCAGATATGGTCTTACA
1 AATG-CATATCCT-AGATATGGTCTTACA
67518090 TGTGGTCTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
41 3 0.03
42 55 0.61
43 31 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (41 bp):
AATGCATATCCTAGATATGGTCTTACACTAAGTCTCATATT
Found at i:67522570 original size:37 final size:37
Alignment explanation
Indices: 67522528--67522638 Score: 222
Period size: 37 Copynumber: 3.0 Consensus size: 37
67522518 CCTAAAGGGT
67522528 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
1 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
67522565 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
1 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
67522602 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
1 TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
67522639 CAAGTTCTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
TTGACACTCTAATCACAAACTCAGTAAACTCAACAGG
Found at i:67525893 original size:39 final size:39
Alignment explanation
Indices: 67525835--67526027 Score: 244
Period size: 39 Copynumber: 5.0 Consensus size: 39
67525825 GTACCATTCT
* * *
67525835 AGCACGTAGCCTGCGGACTTCAAGTCCGGATATATTTCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
** * * * *
67525874 AGCACATAGCCTGTAGACTTTAAGTTCGGATATATTTCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
*
67525913 AGCACATAGCCTGCAGACCTCATGTCCGGATATATTTCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
* * *
67525952 AACACATAGCCTGTGGACCTCATGTCCGGATATATTCCC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
* *
67525991 AG-ATATAGCCTGCGGACCTCATGTCCGAATATATTTC
1 AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTC
67526028 AAATACCATG
Statistics
Matches: 135, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 31 0.23
39 104 0.77
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCTCATGTCCGGATATATTTCC
Found at i:67532633 original size:94 final size:94
Alignment explanation
Indices: 67532425--67532796 Score: 680
Period size: 94 Copynumber: 4.0 Consensus size: 94
67532415 AATGTGACCG
* *
67532425 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGC-
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
67532489 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
67532518 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
67532583 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
67532612 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
67532677 GAATTAAATGTCAC-TTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
67532705 TATATGCTATTTGAATTAAGTAAATT-CCTTATTATAATGAGTTAACATTGGCACTA-GTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
67532768 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
67532797 GAATGTCGAT
Statistics
Matches: 273, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
91 20 0.07
92 43 0.16
93 102 0.37
94 108 0.40
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:67532857 original size:24 final size:24
Alignment explanation
Indices: 67532825--67532888 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
67532815 GAAAATTTCA
* *
67532825 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
67532849 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
67532873 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
67532889 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:67532863 original size:187 final size:187
Alignment explanation
Indices: 67532426--67532806 Score: 592
Period size: 187 Copynumber: 2.0 Consensus size: 187
67532416 ATGTGACCGT
* * ** *
67532426 ATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGC-G
1 ATATGCGA-TTGAATTAAGTAAATTGCCGCACTATAATGAGTTAACATTGGCACTATGTGTGCGG
67532490 AATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTATA
65 AATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTATA
* * *
67532555 ATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTTGTGTGCAGATTTT
130 ATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGGCACTATGTGTGCAGATTTG
* ** *
67532613 ATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGG
1 ATATGCGA-TTGAATTAAGTAAATTGCCGCACTATAATGAGTTAACATTGGCACTATGTGTGCGG
67532678 AATTAAATGTCAC-TTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATT-CCTTATTATA
65 AATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTATA
67532741 ATGAGTTAACATTGGCACTA-GTGTGCGGAATTAAATGGCACTATGTGTGCAGATTTG
130 ATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGGCACTATGTGTGCAGATTTG
67532798 A-ATGTCGAT
1 ATATG-CGAT
67532807 GCATGAGTGA
Statistics
Matches: 186, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
184 4 0.02
185 37 0.20
186 30 0.16
187 101 0.54
188 14 0.08
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (187 bp):
ATATGCGATTGAATTAAGTAAATTGCCGCACTATAATGAGTTAACATTGGCACTATGTGTGCGGA
ATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTATAA
TGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGGCACTATGTGTGCAGATTTG
Found at i:67540504 original size:94 final size:94
Alignment explanation
Indices: 67540336--67540531 Score: 338
Period size: 94 Copynumber: 2.1 Consensus size: 94
67540326 TTATTAATGT
* *
67540336 GATTGTATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGT
1 GATTTTATATGCTATTTGAATTAAGTAAATTGCCATATTATAATGAGTTAACATTGGCACTATGT
67540401 GTGCAGAATTAAATGCCACTTTGTGTGCA
66 GTGCAGAATTAAATGCCACTTTGTGTGCA
* *
67540430 GATTTTATATGCTATTTGAATTACGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGT
1 GATTTTATATGCTATTTGAATTAAGTAAATTGCCATATTATAATGAGTTAACATTGGCACTATGT
* *
67540495 GTGCGGAATTAAATGTCACTTTGTGTGCA
66 GTGCAGAATTAAATGCCACTTTGTGTGCA
67540524 GATTTTAT
1 GATTTTAT
67540532 GCCAATGTGT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (94 bp):
GATTTTATATGCTATTTGAATTAAGTAAATTGCCATATTATAATGAGTTAACATTGGCACTATGT
GTGCAGAATTAAATGCCACTTTGTGTGCA
Found at i:67540514 original size:24 final size:24
Alignment explanation
Indices: 67540487--67540567 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
67540477 TTAACATTGG
67540487 CACTATGTGTGCGGAATTAAATGT
1 CACTATGTGTGCGGAATTAAATGT
* * **
67540511 CACTTTGTGTGCAG-ATTTTATG-
1 CACTATGTGTGCGGAATTAAATGT
*
67540533 C-CAATGTGTGCGGAATTAAATGT
1 CACTATGTGTGCGGAATTAAATGT
67540556 CACT-TAGTGTGC
1 CACTAT-GTGTGC
67540568 AGATTTTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
21 9 0.21
22 7 0.16
23 8 0.19
24 19 0.44
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (24 bp):
CACTATGTGTGCGGAATTAAATGT
Found at i:67540542 original size:45 final size:45
Alignment explanation
Indices: 67540491--67540576 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
67540481 CATTGGCACT
*
67540491 ATGTGTGCGGAATTAAATGTCACTTTGTGTGCAGATTTTATGCCA
1 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATGCCA
67540536 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTAT
1 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTAT
67540577 ATGCTATTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (45 bp):
ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATGCCA
Found at i:67540647 original size:139 final size:139
Alignment explanation
Indices: 67540397--67540670 Score: 503
Period size: 139 Copynumber: 2.0 Consensus size: 139
67540387 CATTGGCACT
* *
67540397 ATGTGTGCAGAATTAAATGCCACTTTGTGTGCAGATTTTATATGCTATTTGAATTACGTAAATTG
1 ATGTGTGCAGAATTAAATGCCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
*
67540462 CCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTTGTGTGCAGAT
66 CCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGAT
67540527 TTTATGCCA
131 TTTATGCCA
* *
67540536 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
1 ATGTGTGCAGAATTAAATGCCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
67540601 CCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGAT
66 CCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGAT
67540666 TTTAT
131 TTTAT
67540671 ATGCTATTTG
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 130 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (139 bp):
ATGTGTGCAGAATTAAATGCCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
CCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGAT
TTTATGCCA
Found at i:67540697 original size:94 final size:94
Alignment explanation
Indices: 67540536--67540758 Score: 421
Period size: 94 Copynumber: 2.4 Consensus size: 94
67540526 TTTTATGCCA
67540536 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
1 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
*
67540601 CCTTATTATAATGAGTTAACATTGGCACT
66 CCTTATTATAATGAGTTAACATTGGAACT
67540630 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
1 ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
67540695 CCTTATTATAATGAGTTAACATTGGAACT
66 CCTTATTATAATGAGTTAACATTGGAACT
67540724 ATGTGTGCGGAATTAAATGTCAC-TATGTGTGCAGA
1 ATGTGTGCGGAATTAAATGTCACTTA-GTGTGCAGA
67540759 CTTAAATGTC
Statistics
Matches: 127, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
93 2 0.02
94 125 0.98
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (94 bp):
ATGTGTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTG
CCTTATTATAATGAGTTAACATTGGAACT
Found at i:67540748 original size:24 final size:24
Alignment explanation
Indices: 67540721--67540768 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
67540711 TAACATTGGA
*
67540721 ACTATGTGTGCGGAATTAAATGTC
1 ACTATGTGTGCAGAATTAAATGTC
*
67540745 ACTATGTGTGCAGACTTAAATGTC
1 ACTATGTGTGCAGAATTAAATGTC
67540769 GATGCATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (24 bp):
ACTATGTGTGCAGAATTAAATGTC
Found at i:67540755 original size:233 final size:233
Alignment explanation
Indices: 67540336--67540758 Score: 765
Period size: 233 Copynumber: 1.8 Consensus size: 233
67540326 TTATTAATGT
*
67540336 GATTGTATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGT
1 GATTGTATATGCTATTTGAATTAAGTAAATTGCCATATTATAATGAGTTAACATTGGCACTATGT
* *
67540401 GTGCAGAATTAAATGCCACTTTGTGTGCAGATTTTATATGCTATTTGAATTACGTAAATTGCCTT
66 GTGCAGAATTAAATGCCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTT
* *
67540466 ATTATAATGAGTTAACATTGGCACTATGTGTGCGGAATTAAATGTCACTTTGTGTGCAGATTTTA
131 ATTATAATGAGTTAACATTGGAACTATGTGTGCGGAATTAAATGTCACTATGTGTGCAGATTTTA
67540531 TGCCAATGTGTGCGGAATTAAATGTCACTTAGTGTGCA
196 TGCCAATGTGTGCGGAATTAAATGTCACTTAGTGTGCA
* *
67540569 GATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGT
1 GATTGTATATGCTATTTGAATTAAGTAAATTGCCATATTATAATGAGTTAACATTGGCACTATGT
* *
67540634 GTGCGGAATTAAATGTCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTT
66 GTGCAGAATTAAATGCCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTT
67540699 ATTATAATGAGTTAACATTGGAACTATGTGTGCGGAATTAAATGTCACTATGTGTGCAGA
131 ATTATAATGAGTTAACATTGGAACTATGTGTGCGGAATTAAATGTCACTATGTGTGCAGA
67540759 CTTAAATGTC
Statistics
Matches: 181, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
233 181 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (233 bp):
GATTGTATATGCTATTTGAATTAAGTAAATTGCCATATTATAATGAGTTAACATTGGCACTATGT
GTGCAGAATTAAATGCCACTTAGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTT
ATTATAATGAGTTAACATTGGAACTATGTGTGCGGAATTAAATGTCACTATGTGTGCAGATTTTA
TGCCAATGTGTGCGGAATTAAATGTCACTTAGTGTGCA
Found at i:67540822 original size:24 final size:24
Alignment explanation
Indices: 67540790--67540853 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
67540780 GAAAATTTCA
* *
67540790 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
67540814 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
67540838 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
67540854 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:67541249 original size:27 final size:26
Alignment explanation
Indices: 67541190--67541306 Score: 146
Period size: 26 Copynumber: 4.5 Consensus size: 26
67541180 TGGTACAAAT
** *
67541190 TGATAATGGGTTAGGTGAATGTTCCA
1 TGATAATGAATTAGGTAAATGTTCCA
*
67541216 TGATAATGAATTAGGTAAAATATTCCA
1 TGATAATGAATTAGGT-AAATGTTCCA
*
67541243 TGATAATGAATTAGGTAAATGTTTCA
1 TGATAATGAATTAGGTAAATGTTCCA
** *
67541269 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGAATTAGGTAAATGTTCCA
67541295 TGATAA-GAATTA
1 TGATAATGAATTA
67541307 CATGTCTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
25 4 0.05
26 52 0.65
27 24 0.30
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGAATTAGGTAAATGTTCCA
Found at i:67541257 original size:53 final size:52
Alignment explanation
Indices: 67541190--67541306 Score: 146
Period size: 53 Copynumber: 2.2 Consensus size: 52
67541180 TGGTACAAAT
** *
67541190 TGATAATGGGTTAGGTGAATGTTCCATGATAATGAATTAGGTAAAATATTCCA
1 TGATAATGAATTAGGTAAATGTTCCATGATAATGAATTAGGT-AAATATTCCA
* ** * *
67541243 TGATAATGAATTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGAATTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
67541295 TGATAA-GAATTA
1 TGATAATGAATTA
67541307 CATGTCTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 6 0.11
52 14 0.25
53 36 0.64
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (52 bp):
TGATAATGAATTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
Found at i:67552180 original size:46 final size:46
Alignment explanation
Indices: 67552124--67552299 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
67552114 TGGTTGAGCA
*
67552124 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
67552170 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
67552215 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
67552263 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67552300 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:67552280 original size:93 final size:93
Alignment explanation
Indices: 67552121--67552292 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
67552111 GGATGGTTGA
* * * *
67552121 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCGTTGAGT
67552186 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
67552214 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCGTTGAGT
67552279 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
67552293 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:67555795 original size:6 final size:6
Alignment explanation
Indices: 67555778--67555814 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
67555768 TTTTCAAGTT
67555778 ATTTTC ATTTTTC ATTTTAC ATTTTC ATTTTC ATTTT
1 ATTTTC A-TTTTC ATTTT-C ATTTTC ATTTTC ATTTT
67555815 GGAAAAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTC
Found at i:67555802 original size:13 final size:12
Alignment explanation
Indices: 67555778--67555814 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
67555768 TTTTCAAGTT
67555778 ATTTTCATTTTTC
1 ATTTTCA-TTTTC
67555791 ATTTTACATTTTC
1 ATTTT-CATTTTC
67555804 ATTTTCATTTT
1 ATTTTCATTTT
67555815 GGAAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 15 0.65
14 2 0.09
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTCATTTTC
Found at i:67555846 original size:41 final size:40
Alignment explanation
Indices: 67555788--67555865 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
67555778 ATTTTCATTT
* *
67555788 TTCATTTTACATTTTCATTTTCATTTTGGAAAAAACCACA
1 TTCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACA
* *
67555828 TTCATTTTTCAATTTTCATTTTAATTTTCGAGAAAACC
1 TTCATTTTAC-ATTTTCATTTTAATTTTCGAAAAAACC
67555866 TTAATCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 9 0.27
41 24 0.73
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (40 bp):
TTCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACA
Found at i:67555874 original size:41 final size:40
Alignment explanation
Indices: 67555789--67555875 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
67555779 TTTTCATTTT
* * *
67555789 TCATTTTACATTTTCATTTTCATTTTGGAAAAAACCACAT
1 TCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACAA
* * **
67555829 TCATTTTTCAATTTTCATTTTAATTTTCGAGAAAACCTTAA
1 TCATTTTAC-ATTTTCATTTTAATTTTCGAAAAAACCACAA
67555870 TCATTT
1 TCATTT
67555876 CCAAATGATT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 31 0.79
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (40 bp):
TCATTTTACATTTTCATTTTAATTTTCGAAAAAACCACAA
Found at i:67558741 original size:13 final size:13
Alignment explanation
Indices: 67558723--67558748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67558713 ATTTTTCAGG
67558723 TCATTTTCATTTT
1 TCATTTTCATTTT
67558736 TCATTTTCATTTT
1 TCATTTTCATTTT
67558749 GGAGAAAACC
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:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:67558805 original size:12 final size:14
Alignment explanation
Indices: 67558777--67558809 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
67558767 TTCCAAATGA
67558777 TTTCATTTCTCCAT
1 TTTCATTTCTCCAT
67558791 TTTCATTT-T-CAT
1 TTTCATTTCTCCAT
67558803 TTTCATT
1 TTTCATT
67558810 CTGGAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 1 0.05
14 8 0.42
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTCATTTCTCCAT
Found at i:67558830 original size:63 final size:65
Alignment explanation
Indices: 67558724--67558856 Score: 175
Period size: 63 Copynumber: 2.1 Consensus size: 65
67558714 TTTTTCAGGT
* * *
67558724 CATTTTCATTTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTT-C-ATTTCT
1 CATTTTCATTTTTCATTTTCATTCTGGAGAAAACCACATTCATTCCCAAACG-TTTCCTATTTCT
67558787 C
65 C
**
67558788 CATTTTCA-TTTTCATTTTCATTCTGGAGAAAACC-TTTATCATTCCCAAACGTTTCCTATTTCT
1 CATTTTCATTTTTCATTTTCATTCTGGAGAAAACCACAT-TCATTCCCAAACGTTTCCTATTTCT
67558851 C
65 C
67558852 CATTT
1 CATTT
67558857 CACCAATCCT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
62 4 0.07
63 37 0.61
64 20 0.33
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.47
Consensus pattern (65 bp):
CATTTTCATTTTTCATTTTCATTCTGGAGAAAACCACATTCATTCCCAAACGTTTCCTATTTCTC
Found at i:67564454 original size:29 final size:29
Alignment explanation
Indices: 67564419--67564518 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
67564409 AATGTGACTG
*
67564419 GGCCTAACGGGCCATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAATGTGATTTA
* * *
67564448 GGCCTAATGGGCCATATATAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTA
* * *
67564477 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTA
*
67564505 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
67564519 GATACAGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTA
Found at i:67564489 original size:58 final size:57
Alignment explanation
Indices: 67564417--67564527 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
67564407 TGAATGTGAC
* * *
67564417 TGGGCCTAACGGGCCATATAAATGTGATTTAGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTAGGCCTAATGGGCCAGATACAGGTGATT
* * * *
67564475 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGT
67564528 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGTGATT
Found at i:67570067 original size:15 final size:15
Alignment explanation
Indices: 67570047--67570076 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67570037 CAAGGCAAGT
67570047 GTTAAGTTTAATTTA
1 GTTAAGTTTAATTTA
*
67570062 GTTAAGTTTTATTTA
1 GTTAAGTTTAATTTA
67570077 AGGGATTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (15 bp):
GTTAAGTTTAATTTA
Found at i:67580654 original size:45 final size:46
Alignment explanation
Indices: 67580557--67580665 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
67580547 AGCTTAAGAT
*
67580557 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
67580604 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
67580649 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
67580666 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:67580791 original size:39 final size:40
Alignment explanation
Indices: 67580736--67580820 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
67580726 AAATGAATTG
* * * *
67580736 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
67580775 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
67580815 TGCTGG
1 TGCTGG
67580821 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:67581325 original size:2 final size:2
Alignment explanation
Indices: 67581320--67581344 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67581310 TTAAGTTTTT
67581320 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
67581345 TCATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67585225 original size:40 final size:40
Alignment explanation
Indices: 67585135--67585327 Score: 264
Period size: 40 Copynumber: 4.8 Consensus size: 40
67585125 TTCTAGCGCA
* ** * * *
67585135 AGCCTACGGGTCTTTAA-CCCAAATACCATTCTAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
*
67585174 AGCCTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* *
67585214 AGCCTGTGGGTCTTTAAGCCCGGATACATTTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* *
67585254 AGCCTGTGGGTCTTTAAGCCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
67585294 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
67585328 AATATCATAC
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.12
40 122 0.88
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:67586608 original size:21 final size:21
Alignment explanation
Indices: 67586583--67586623 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
67586573 CGGCAATTTC
67586583 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
67586604 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
67586624 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:67586633 original size:21 final size:21
Alignment explanation
Indices: 67586594--67586633 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
67586584 ATTCATACCT
* *
67586594 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
67586615 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
67586634 GCTTGACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:67595999 original size:29 final size:29
Alignment explanation
Indices: 67595960--67596034 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
67595950 AGTTGAGAGA
* *
67595960 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
67595989 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
67596018 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
67596035 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:67606398 original size:28 final size:28
Alignment explanation
Indices: 67606329--67606429 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
67606319 GACAAGATTG
* * * *
67606329 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
67606359 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
67606387 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
67606416 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
67606430 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:67612459 original size:14 final size:15
Alignment explanation
Indices: 67612433--67612462 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
67612423 ATGTATGTGC
67612433 ATTAAACATTTGTTT
1 ATTAAACATTTGTTT
67612448 ATTAAA-ATTTGTTT
1 ATTAAACATTTGTTT
67612462 A
1 A
67612463 ATCGGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTAAACATTTGTTT
Found at i:67616997 original size:23 final size:23
Alignment explanation
Indices: 67616971--67617020 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
67616961 GATCAGGATC
*
67616971 GCACCAAAGTGCTAAG-AATAGGA
1 GCACCAAAGTGC-AAGTAACAGGA
67616994 GCACCAAAGTGCAAGTAACAGGA
1 GCACCAAAGTGCAAGTAACAGGA
67617017 GCAC
1 GCAC
67617021 TTATAAGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (23 bp):
GCACCAAAGTGCAAGTAACAGGA
Found at i:67619592 original size:22 final size:22
Alignment explanation
Indices: 67619506--67619581 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
67619496 CACCAAGTTA
*
67619506 ACAGGACGGCTCAACGCCGTAG
1 ACAGGACGACTCAACGCCGTAG
67619528 ACAGGACGACTCAACGCCGTAG
1 ACAGGACGACTCAACGCCGTAG
* **
67619550 ACAGGATGACTCAACATCGTAG
1 ACAGGACGACTCAACGCCGTAG
67619572 ACAGGACGAC
1 ACAGGACGAC
67619582 AAAAGGCCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.11
Consensus pattern (22 bp):
ACAGGACGACTCAACGCCGTAG
Found at i:67619857 original size:27 final size:27
Alignment explanation
Indices: 67619827--67619918 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
67619817 GGCATAATCC
* *
67619827 TCATTCTACCATACAGGGGTATTATGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
67619854 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* * *
67619881 TCATTTTA-CACTACAAGGGTATTTCAG
1 TCATTTTACCA-TACAGGGGTATTACGG
*
67619908 TAATTTTACCA
1 TCATTTTACCA
67619919 ATATTGGGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:67625076 original size:41 final size:41
Alignment explanation
Indices: 67625019--67625209 Score: 303
Period size: 41 Copynumber: 4.7 Consensus size: 41
67625009 TCGGGGTTTA
67625019 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
67625060 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
*
67625101 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* * * * * * *
67625142 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
67625182 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
67625210 TGAGTCAGCG
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 32 0.24
41 102 0.76
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
Found at i:67625203 original size:81 final size:82
Alignment explanation
Indices: 67625019--67625209 Score: 303
Period size: 81 Copynumber: 2.3 Consensus size: 82
67625009 TCGGGGTTTA
* * *
67625019 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAACCTAGTCTCGAAGGGC
* *
67625084 TTTTGAGCCAATGTCAT
66 CTTCGAGCCAATGTCAT
* *
67625101 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTTTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAACCTAGTCTCGAAGGGC
*
67625165 CTTCGGGCCAATGTCAT
66 CTTCGAGCCAATGTCAT
67625182 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
67625210 TGAGTCAGCG
Statistics
Matches: 101, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 59 0.58
82 42 0.42
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (82 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAACCTAGTCTCGAAGGGC
CTTCGAGCCAATGTCAT
Found at i:67628746 original size:27 final size:27
Alignment explanation
Indices: 67628698--67628802 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
67628688 GCGAGGCTGC
* *
67628698 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
67628725 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
67628751 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
67628778 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
67628803 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:67629208 original size:8 final size:8
Alignment explanation
Indices: 67629192--67629221 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
67629182 CTCAAAATAC
67629192 CGGCTTTT
1 CGGCTTTT
*
67629200 CGGCATTT
1 CGGCTTTT
67629208 CGGCTTTT
1 CGGCTTTT
67629216 CGGCTT
1 CGGCTT
67629222 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:67630431 original size:26 final size:26
Alignment explanation
Indices: 67630400--67630507 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
67630390 TGAAATGCCC
*
67630400 ATCATGGAACATTTACCTAAGCCATT
1 ATCATGGAACATTTACCTAACCCATT
67630426 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
67630452 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
67630478 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
67630504 ATCA
1 ATCA
67630508 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:67634603 original size:25 final size:25
Alignment explanation
Indices: 67634569--67634618 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
67634559 TAAAGTAGTC
67634569 ACTCCCCCTGAAGATGAGTGTTTTA
1 ACTCCCCCTGAAGATGAGTGTTTTA
67634594 ACTCCCCCTGAAGATGAGTGTTTTA
1 ACTCCCCCTGAAGATGAGTGTTTTA
67634619 CAAATAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
ACTCCCCCTGAAGATGAGTGTTTTA
Found at i:67635555 original size:33 final size:33
Alignment explanation
Indices: 67635517--67635615 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
67635507 GACTGAGTGG
*
67635517 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
67635550 GAGTGTTTTGCTACTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
67635583 GGGTGTTTTGTTGCTAGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
67635616 CAAGAAGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.19, C:0.10, G:0.39, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:67642406 original size:15 final size:15
Alignment explanation
Indices: 67642386--67642415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67642376 AAGCAATTAC
*
67642386 GACATGAAAATATAT
1 GACATGAAAAAATAT
67642401 GACATGAAAAAATAT
1 GACATGAAAAAATAT
67642416 ATGTACATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (15 bp):
GACATGAAAAAATAT
Found at i:67653524 original size:20 final size:19
Alignment explanation
Indices: 67653478--67653530 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
67653468 ATAACATTGA
* *
67653478 ATTTTTAAATTTTTAAATT
1 ATTTTTATATTTTTAAATG
*
67653497 TTTGTTTATATTTTTAAAATG
1 ATT-TTTATATTTTT-AAATG
67653518 ATTTTTAT-TTTTT
1 ATTTTTATATTTTT
67653531 GAATTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.25
20 15 0.54
21 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
ATTTTTATATTTTTAAATG
Found at i:67653554 original size:17 final size:17
Alignment explanation
Indices: 67653534--67653591 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
67653524 ATTTTTTGAA
*
67653534 TTTTTAAGAATTTTTAT
1 TTTTTAAAAATTTTTAT
***
67653551 TTTTTCTTAATTTTTAAT
1 TTTTTAAAAATTTTT-AT
* *
67653569 TTTTTAAAAAATTATAT
1 TTTTTAAAAATTTTTAT
67653586 TTTTTA
1 TTTTTA
67653592 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 20 0.62
18 12 0.38
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTAAAAATTTTTAT
Found at i:67653587 original size:24 final size:24
Alignment explanation
Indices: 67653560--67653611 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
67653550 TTTTTTCTTA
67653560 ATTTTTAATTTTTTAAAAAATTAT
1 ATTTTTAATTTTTTAAAAAATTAT
* *
67653584 ATTTTTTATTTTTTAAAAGATTAT
1 ATTTTTAATTTTTTAAAAAATTAT
67653608 ATTT
1 ATTT
67653612 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTTAATTTTTTAAAAAATTAT
Found at i:67653640 original size:29 final size:27
Alignment explanation
Indices: 67653560--67653625 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 27
67653550 TTTTTTCTTA
* *
67653560 ATTTTTAATTTTTTAAAAAATT-A--T
1 ATTTTTTATTTTTTAAAAGATTAATTT
67653584 ATTTTTTATTTTTTAAAAGATTATATTT
1 ATTTTTTATTTTTTAAAAGATTA-ATTT
67653612 ATTTTTTATTTTTT
1 ATTTTTTATTTTTT
67653626 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 20 0.56
26 1 0.03
28 15 0.42
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTTTTTATTTTTTAAAAGATTAATTT
Found at i:67654377 original size:23 final size:24
Alignment explanation
Indices: 67654332--67654378 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
67654322 ACCCAAATCT
*
67654332 AATTTTAAAAATATATTTCTATAA
1 AATTTTAAAAATATATATCTATAA
67654356 AATTTATAAAAAT-TATAT-TATAA
1 AATTT-TAAAAATATATATCTATAA
67654379 GTATGAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AATTTTAAAAATATATATCTATAA
Found at i:67660657 original size:22 final size:21
Alignment explanation
Indices: 67660631--67660685 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
67660621 TACAAGGCTT
*
67660631 ACACGCCCGTGT-AGTCCAAGGG
1 ACACGCCCGTGTGA-CCCAA-GG
* *
67660653 ACACGTCCGTGTGACCCTAGG
1 ACACGCCCGTGTGACCCAAGG
67660674 ACACGCCCGTGT
1 ACACGCCCGTGT
67660686 TAGAGGCCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.46
22 14 0.50
23 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCAAGG
Found at i:67662590 original size:20 final size:20
Alignment explanation
Indices: 67662565--67662603 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
67662555 TGTGTTCGTA
*
67662565 AAATTTTAGAATTTTTCATC
1 AAATTTTAGAACTTTTCATC
*
67662585 AAATTTTATAACTTTTCAT
1 AAATTTTAGAACTTTTCAT
67662604 TTTTAGTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTTTAGAACTTTTCATC
Found at i:67665466 original size:43 final size:43
Alignment explanation
Indices: 67665313--67665467 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 43
67665303 GTGTTACCTT
* * *
67665313 TAAGACTACGTCTGGGACATTGGCATCGAT-TTGAGATTTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTACATG
* * * *
67665357 TAAGACCATGTCTGGGACATCGACATCG-TATTTGATTTCATG
1 TAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACATG
* ** * *
67665399 TAACACCTTGTCTGGGGCAGTGGCATCGATATTTGATTACATG
1 TAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACATG
**
67665442 TAAGACCACGTCTGGGATGTTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
67665468 TATACGAGTT
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
42 27 0.31
43 35 0.40
44 26 0.30
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACATG
Found at i:67673024 original size:43 final size:42
Alignment explanation
Indices: 67672875--67673033 Score: 110
Period size: 43 Copynumber: 3.7 Consensus size: 42
67672865 GGTGTGTTAT
* * * *
67672875 CGTGTAAGACCACGCCTGAGACGTTGGCATCGAT-TTGAGATTTA
1 CGTGTAAGACCACGTCTGGGAAG-TGGCATCGATATT-TGA-TTA
* * * *
67672919 CGTGTAAGACCATGTCTAGGACA-TCGACATC-ATATTTGATTT
1 CGTGTAAGACCACGTCTGGGA-AGT-GGCATCGATATTTGATTA
* *
67672961 CGTGTAAGACC-CTATTTGGGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-AGTGGCATCGATATTTGATTA
* *
67673004 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGAAG-TGGCAT
67673034 TGTACGAGTT
Statistics
Matches: 88, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
42 25 0.28
43 38 0.43
44 25 0.28
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGAAGTGGCATCGATATTTGATTA
Found at i:67675278 original size:17 final size:17
Alignment explanation
Indices: 67675256--67675289 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67675246 CAATATTGCA
67675256 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
67675273 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
67675290 CATATCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TATCATATCTAAGATTG
Found at i:67675295 original size:14 final size:15
Alignment explanation
Indices: 67675258--67675295 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
67675248 ATATTGCATA
67675258 TCATATCTAAGATTG
1 TCATATCTAAGATTG
67675273 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
67675290 -CATATC
1 TCATATC
67675296 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:67676090 original size:132 final size:132
Alignment explanation
Indices: 67675919--67677029 Score: 1855
Period size: 132 Copynumber: 8.4 Consensus size: 132
67675909 ACATCCAAAA
* * * *
67675919 GTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAGGGATGCCAAATCTGCTATCTTCA
1 GTCAGATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
* * * * * *
67675984 ACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTGATCTGTTTCACTGTAAGCACAG
64 ACTTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAG
*
67676049 GAAT
129 GAGT
67676053 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTAT-TCTCAA
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCT-TCAA
*
67676117 CTTGTTCCCAATAAACATAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGG
65 CTTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGG
67676182 AGT
130 AGT
* *
67676185 ATCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATATTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
*
67676250 TTGTTCCCAATAAACAAAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
67676315 GT
131 GT
* *
67676317 GTCAGATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATTTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* *
67676382 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAAGAACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
67676447 GT
131 GT
* *
67676449 GTCAGATCTGCTATCTTCGATTTGTTTCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
*
67676514 TTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
67676579 GT
131 GT
* * *
67676581 GTTAGATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
67676646 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
67676711 GT
131 GT
* * *
67676713 GTCAAATCTGTTATCTTCGATCTGTTCCCGATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * *
67676778 TTGTTCCCAATAAACACAGGAATGCCATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAAGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
67676843 GT
131 GT
*
67676845 GTCAGATCTGCTATCTTCGATCTGTTCCCGATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * * *
67676910 TTGTTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGA
66 TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
*
67676975 AT
131 GT
67676977 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
67677030 TGTTTCTTTG
Statistics
Matches: 923, Mismatches: 52, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 909 0.98
133 1 0.00
134 12 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
TTGTTCCCAATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGA
GT
Found at i:67677924 original size:1 final size:1
Alignment explanation
Indices: 67677918--67677979 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
67677908 GGCCTCTCCA
* * * * * * * *
67677918 TTTTTTTCTTTTTATTATTTTTTTCTTTTTCTTTTTCTTTTTCTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
67677980 GAAATAGAAG
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:67677946 original size:6 final size:6
Alignment explanation
Indices: 67677920--67677979 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
67677910 CCTCTCCATT
* *
67677920 TTTTTC TTTTTA TTATT- TTTTTC TTTTTC TTTTTC TTTTTC -TTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
67677965 TTTTTC TTTTT- TTTT
1 TTTTTC TTTTTC TTTT
67677980 GAAATAGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
5 16 0.33
6 32 0.67
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:67677952 original size:12 final size:11
Alignment explanation
Indices: 67677918--67677979 Score: 74
Period size: 11 Copynumber: 5.5 Consensus size: 11
67677908 GGCCTCTCCA
67677918 TTTTTTTCTTT
1 TTTTTTTCTTT
67677929 TTATTATTT-TTT
1 TT-TT-TTTCTTT
*
67677941 TCTTTTTCTTT
1 TTTTTTTCTTT
67677952 TTCTTTTTC-TT
1 TT-TTTTTCTTT
67677963 TTTTTTTCTTT
1 TTTTTTTCTTT
67677974 TTTTTT
1 TTTTTT
67677980 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 9 0.20
11 20 0.45
12 12 0.27
13 3 0.07
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:67677952 original size:29 final size:27
Alignment explanation
Indices: 67677918--67677979 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 27
67677908 GGCCTCTCCA
67677918 TTTTTTTCTTTTTATTATTTTTTTCTTT
1 TTTTTTTCTTTTTATT-TTTTTTTCTTT
*
67677946 TTCTTTTTCTTTTTCTTTTTTTTTCTTT
1 TT-TTTTTCTTTTTATTTTTTTTTCTTT
67677974 TTTTTT
1 TTTTTT
67677980 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 4 0.12
28 15 0.47
29 13 0.41
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (27 bp):
TTTTTTTCTTTTTATTTTTTTTTCTTT
Found at i:67677969 original size:17 final size:16
Alignment explanation
Indices: 67677918--67677976 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 16
67677908 GGCCTCTCCA
*
67677918 TTTTTTTCTTTTTATTA
1 TTTTTTTCTTTTT-TTT
67677935 TTTTTTTCTTTTTCTTT
1 TTTTTTTCTTTTT-TTT
67677952 TTCTTTTTCTTTTTTTT
1 TT-TTTTTCTTTTTTTT
67677969 TCTTTTTT
1 T-TTTTTT
67677977 TTTGAAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 26 0.68
18 12 0.32
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTT
Found at i:67681792 original size:22 final size:22
Alignment explanation
Indices: 67681750--67681808 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
67681740 CTTAAACTGT
**
67681750 TTTTTATTTTTATTTTTTATTC
1 TTTTTATTTTTATTTAGTATTC
67681772 TTTTTATTTGTT-TTTAGTATTC
1 TTTTTATTT-TTATTTAGTATTC
* *
67681794 TATGTATTATTTATT
1 TTTTTATT-TTTATT
67681809 ATAAGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTATTTTTATTTAGTATTC
Found at i:67681879 original size:21 final size:21
Alignment explanation
Indices: 67681855--67681894 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67681845 TACTTGTGTC
67681855 TATAT-TATTTGTTATAAAATT
1 TATATATATTT-TTATAAAATT
*
67681876 TATATATATTTTTTTAAAA
1 TATATATATTTTTATAAAA
67681895 AAATTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TATATATATTTTTATAAAATT
Found at i:67682737 original size:23 final size:23
Alignment explanation
Indices: 67682707--67682756 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
67682697 TTCGTAGACT
67682707 AAAAATACCGTTTTAGTAAACTA
1 AAAAATACCGTTTTAGTAAACTA
67682730 AAAAATACCGTTTTAGTAAACTA
1 AAAAATACCGTTTTAGTAAACTA
67682753 AAAA
1 AAAA
67682757 TTGTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (23 bp):
AAAAATACCGTTTTAGTAAACTA
Found at i:67683535 original size:16 final size:14
Alignment explanation
Indices: 67683494--67683546 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
67683484 TTTATAATTT
67683494 TGAATGCAAATG-A
1 TGAATGCAAATGCA
67683507 TGCAATG-AAATGCTA
1 TG-AATGCAAATGC-A
67683522 TGAGATGCAAATGCA
1 TGA-ATGCAAATGCA
67683537 TGAATGCAAA
1 TGAATGCAAA
67683547 AGGTATCGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (14 bp):
TGAATGCAAATGCA
Found at i:67686125 original size:93 final size:93
Alignment explanation
Indices: 67686013--67686182 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
67686003 CCCATAAGCA
*
67686013 AACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67686077 CGAGCTCGGATGCCTAGTTACATCTCACG
65 CGAGCTCGGATGCCTAGTTACATCTCACG
*
67686106 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
67686171 GAGTTCGGATGC
66 GAGCTCGGATGC
67686183 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:67686174 original size:46 final size:46
Alignment explanation
Indices: 67686004--67686179 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
67685994 TGTAACCCGC
* *
67686004 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
67686050 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
67686100 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
67686143 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
67686180 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:67690497 original size:29 final size:29
Alignment explanation
Indices: 67690403--67690561 Score: 198
Period size: 29 Copynumber: 5.5 Consensus size: 29
67690393 GACAAGATTG
* * * * *
67690403 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* * *
67690433 GCACTAAGTGTGCGAGTTTG--ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
67690461 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
67690490 GCACTAAGTGTGCGA-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
67690519 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
67690548 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
67690562 GATTCACTAT
Statistics
Matches: 117, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 28 0.24
29 63 0.54
30 22 0.19
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:67698477 original size:30 final size:30
Alignment explanation
Indices: 67698441--67698600 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
67698431 GACAAGATTG
* * * * *
67698441 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
67698471 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
67698499 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
67698528 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
67698558 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
67698587 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
67698601 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:67698569 original size:59 final size:57
Alignment explanation
Indices: 67698441--67698600 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
67698431 GACAAGATTG
* * * * * *
67698441 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
67698499 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
67698558 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
67698601 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:67701437 original size:28 final size:28
Alignment explanation
Indices: 67701405--67701503 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
67701395 GCAATAAGCC
*
67701405 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
67701433 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
67701461 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
67701490 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67701504 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:67709100 original size:28 final size:28
Alignment explanation
Indices: 67709068--67709166 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
67709058 GCAATAAGCC
*
67709068 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
67709096 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
67709124 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
67709153 CGCACACTTAGTGC
1 CGCACACTTAGTGC
67709167 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:67714350 original size:24 final size:24
Alignment explanation
Indices: 67714316--67714379 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
67714306 AGTAAACATC
67714316 AAATCTATATATTAAGAATA-TAAAT
1 AAATC-ATATATTAA-AATAGTAAAT
* *
67714341 AAATCATATATT-ATATAGTACAT
1 AAATCATATATTAAAATAGTAAAT
67714364 ATAATCATATATTAAA
1 A-AATCATATATTAAA
67714380 TTGTGTGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 3 0.09
23 6 0.18
24 18 0.55
25 6 0.18
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (24 bp):
AAATCATATATTAAAATAGTAAAT
Found at i:67724421 original size:2 final size:2
Alignment explanation
Indices: 67724414--67724450 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
67724404 TGTAATCCAA
67724414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67724451 AAACTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67726503 original size:2 final size:2
Alignment explanation
Indices: 67726496--67726524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
67726486 GTGGTAAAGA
67726496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67726525 AATTTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.