Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 10 of 228
Found at i:3603913 original size:20 final size:18
Alignment explanation
Indices: 3603873--3603935 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
3603863 GGATTGGTGC
*
3603873 AAAATTA-AAAAAATTTT
1 AAAATTATAAAAAATTTA
3603890 AAAATTATAAAAAATATTGA
1 AAAATTATAAAAAAT-TT-A
*
3603910 AAAATTATAAAATACATATA
1 AAAATTATAAAA-A-ATTTA
3603930 AAAATT
1 AAAATT
3603936 TCAAATTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.18
18 7 0.18
19 2 0.05
20 19 0.49
21 2 0.05
22 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAATTATAAAAAATTTA
Found at i:3616332 original size:33 final size:33
Alignment explanation
Indices: 3616290--3616356 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
3616280 CGTTTCTTTT
3616290 GTATCTTTT-CTTCTTGTGTGACCACCCCGTTGG
1 GTATCTTTTCCTT-TTGTGTGACCACCCCGTTGG
*
3616323 GTATCTTTTCCTTTTGTGTGACCACCCTGTTGG
1 GTATCTTTTCCTTTTGTGTGACCACCCCGTTGG
3616356 G
1 G
3616357 GCTTTCTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.43
Consensus pattern (33 bp):
GTATCTTTTCCTTTTGTGTGACCACCCCGTTGG
Found at i:3619551 original size:16 final size:17
Alignment explanation
Indices: 3619530--3619564 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3619520 AAAAATTGAC
3619530 ATTG-AAAATATTTTTT
1 ATTGAAAAATATTTTTT
3619546 ATTGAAAAATATTTTTT
1 ATTGAAAAATATTTTTT
3619563 AT
1 AT
3619565 AAATTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
ATTGAAAAATATTTTTT
Found at i:3623283 original size:20 final size:20
Alignment explanation
Indices: 3623258--3623307 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3623248 TGGCTTAAAA
3623258 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3623278 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3623295 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3623308 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3627922 original size:20 final size:20
Alignment explanation
Indices: 3627897--3627946 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3627887 TGGCTTAAAA
3627897 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3627917 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3627934 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3627947 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3643585 original size:29 final size:31
Alignment explanation
Indices: 3643535--3643600 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
3643525 TATTAATTTT
**
3643535 AAAATAATATTAATTTACTTAT-TTCAAATA
1 AAAATAATATTAATGCACTTATCTTCAAATA
* * *
3643565 AAAATAA-ATTAATGCATTTATCTTCAATTT
1 AAAATAATATTAATGCACTTATCTTCAAATA
3643595 AAAATA
1 AAAATA
3643601 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.41
Consensus pattern (31 bp):
AAAATAATATTAATGCACTTATCTTCAAATA
Found at i:3643637 original size:18 final size:18
Alignment explanation
Indices: 3643590--3643649 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
3643580 ATTTATCTTC
3643590 AATTTAAAATATTTTTTT
1 AATTTAAAATATTTTTTT
*
3643608 AAATATT-TAATATTTTTTT
1 -AAT-TTAAAATATTTTTTT
**
3643627 AATTTAAAATATAATTTT
1 AATTTAAAATATTTTTTT
3643645 AATTT
1 AATTT
3643650 GATATTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.06
18 17 0.49
19 14 0.40
20 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTAAAATATTTTTTT
Found at i:3643659 original size:16 final size:16
Alignment explanation
Indices: 3643612--3643659 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
3643602 TTTTTTAAAT
*
3643612 ATTTAATATTTTTTTA
1 ATTTAATATTATTTTA
*
3643628 ATTTAAAATATAATTTTA
1 ATTT--AATATTATTTTA
*
3643646 ATTTGATATTATTT
1 ATTTAATATTATTT
3643660 AAAATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTTAATATTATTTTA
Found at i:3644249 original size:17 final size:17
Alignment explanation
Indices: 3644227--3644260 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3644217 ATCCACTAAT
*
3644227 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3644244 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3644261 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3648888 original size:17 final size:17
Alignment explanation
Indices: 3648866--3648899 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3648856 ATCCACTAAT
*
3648866 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3648883 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3648900 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3654976 original size:20 final size:21
Alignment explanation
Indices: 3654932--3654978 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
3654922 CTTTTTTACT
*
3654932 CAAAAGAT-AAAAAAAAGTTA
1 CAAAATATAAAAAAAAAGTTA
3654952 CAAAATATAAAAAAAAAG-TA
1 CAAAATATAAAAAAAAAGTTA
*
3654972 TAAAATA
1 CAAAATA
3654979 GTTGAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (21 bp):
CAAAATATAAAAAAAAAGTTA
Found at i:3657018 original size:21 final size:22
Alignment explanation
Indices: 3656977--3657024 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
3656967 AAAATAAATA
*
3656977 TAAATTTTATGGATGAATTTAAT
1 TAAATTTTATGGA-CAATTTAAT
*
3657000 TAAATTTTATGG-CAATTTATT
1 TAAATTTTATGGACAATTTAAT
3657021 TAAA
1 TAAA
3657025 ACAAGTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
23 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
TAAATTTTATGGACAATTTAAT
Found at i:3659807 original size:31 final size:32
Alignment explanation
Indices: 3659772--3659841 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
3659762 TTAAAGCTTC
*
3659772 GTACTTGAACTT-GACCTTTTTTCTTAATTTG
1 GTACTTAAACTTAGACCTTTTTTCTTAATTTG
* * **
3659803 GTACTTAAATTTAATATTTTTTTTCTTAATTTG
1 GTACTTAAACTT-AGACCTTTTTTCTTAATTTG
3659836 GTACTT
1 GTACTT
3659842 TAGTTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 10 0.31
33 22 0.69
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (32 bp):
GTACTTAAACTTAGACCTTTTTTCTTAATTTG
Found at i:3661131 original size:15 final size:15
Alignment explanation
Indices: 3661111--3661141 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3661101 ATTTAACAAA
*
3661111 TGTCTAATCAATATT
1 TGTCTAATAAATATT
3661126 TGTCTAATAAATATT
1 TGTCTAATAAATATT
3661141 T
1 T
3661142 TAGAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (15 bp):
TGTCTAATAAATATT
Found at i:3668906 original size:27 final size:27
Alignment explanation
Indices: 3668876--3668935 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3668866 CAAAGAAAAG
* * * *
3668876 AAAATTTAAAATGTAAAAATTAAATTA
1 AAAATTAAAAATATAAAAATAAAAATA
* *
3668903 AAAATAAAAAATATTAAAATAAAAATA
1 AAAATTAAAAATATAAAAATAAAAATA
3668930 AAAATT
1 AAAATT
3668936 GGCTAAATTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAATTAAAAATATAAAAATAAAAATA
Found at i:3668920 original size:21 final size:20
Alignment explanation
Indices: 3668890--3668933 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
3668880 TTTAAAATGT
*
3668890 AAAAATTAAATTAAAAATAA
1 AAAAATTAAAATAAAAATAA
3668910 AAAATATTAAAATAAAAATAA
1 AAAA-ATTAAAATAAAAATAA
3668931 AAA
1 AAA
3668934 TTGGCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATTAAAATAAAAATAA
Found at i:3669409 original size:14 final size:14
Alignment explanation
Indices: 3669390--3669421 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3669380 ATTTAAAAGG
3669390 GCATGTAAAGAAAA
1 GCATGTAAAGAAAA
*
3669404 GCATGTAAAGTAAA
1 GCATGTAAAGAAAA
3669418 GCAT
1 GCAT
3669422 TCAACAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (14 bp):
GCATGTAAAGAAAA
Found at i:3669932 original size:21 final size:20
Alignment explanation
Indices: 3669904--3669944 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
3669894 TGCTTCTTGG
*
3669904 CAAATGGATATTGCGATACC
1 CAAATGGATATCGCGATACC
3669924 CAAAGTGGATATCGCGATACC
1 CAAA-TGGATATCGCGATACC
3669945 ATTGAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
CAAATGGATATCGCGATACC
Found at i:3673159 original size:30 final size:28
Alignment explanation
Indices: 3673123--3673185 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
3673113 AAAAAGCCCT
3673123 TTTTTTTAAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** * *
3673153 TTTTTTTATTATTTACCGGAATGGTCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
3673181 TTTTT
1 TTTTT
3673186 CGGGAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 16 0.55
30 7 0.24
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:3673451 original size:13 final size:13
Alignment explanation
Indices: 3673433--3673474 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
3673423 ATATTCCCTA
*
3673433 AATTAAATGTAAT
1 AATTAAATATAAT
3673446 AATT-AATAATAA-
1 AATTAAAT-ATAAT
3673458 AATTAAATATAAT
1 AATTAAATATAAT
3673471 AATT
1 AATT
3673475 TTATTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
AATTAAATATAAT
Found at i:3674947 original size:29 final size:30
Alignment explanation
Indices: 3674904--3674962 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
3674894 TTAAGTTTAA
*
3674904 TGTGCAATTTTATACATG-AATGTTGATTT
1 TGTGCAATTTCATACATGAAATGTTGATTT
* *
3674933 TGTGTAATTTCATACATGAAATTTTGATTT
1 TGTGCAATTTCATACATGAAATGTTGATTT
3674963 GATTCAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTTCATACATGAAATGTTGATTT
Found at i:3679089 original size:16 final size:16
Alignment explanation
Indices: 3679068--3679135 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
3679058 TTTGGTTCGC
3679068 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
3679084 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
3679100 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
3679116 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
3679132 TGTA
1 TGTA
3679136 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:3679175 original size:45 final size:44
Alignment explanation
Indices: 3679116--3679206 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
3679106 GGATTAGAGG
* *
3679116 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
3679161 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
3679205 TG
1 TG
3679207 GAATAGTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:3679375 original size:16 final size:16
Alignment explanation
Indices: 3679338--3679379 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3679328 TTAATCATAT
*
3679338 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
3679354 TT-AAATATATTATAA
1 TTAAAATATATTATAA
3679369 TTAAAATATAT
1 TTAAAATATAT
3679380 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:3679386 original size:14 final size:15
Alignment explanation
Indices: 3679347--3679388 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3679337 TTTAAACATA
*
3679347 ATTATTATTAAATAT
1 ATTATAATTAAATAT
3679362 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
3679376 A-TATAATTTAATA
1 ATTATAATTAAATA
3679389 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:3679438 original size:61 final size:61
Alignment explanation
Indices: 3679373--3679560 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
3679363 TTATAATTAA
3679373 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
3679434 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
3679493 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
3679554 AATATAT
1 AATATAT
3679561 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.25
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:3679486 original size:120 final size:120
Alignment explanation
Indices: 3679341--3679570 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
3679331 ATCATATTTA
3679341 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
3679406 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3679461 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
3679526 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
3679571 TTTACTCAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:3679506 original size:14 final size:15
Alignment explanation
Indices: 3679457--3679508 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3679447 ATAAAATATA
3679457 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3679472 TATTAAATATATTAT
1 AATTAAATATATTAT
3679487 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3679500 AATTTAATA
1 AATTAAATA
3679509 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3679559 original size:59 final size:59
Alignment explanation
Indices: 3679376--3679559 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
3679366 TAATTAAAAT
3679376 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
3679435 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
3679494 AT-
57 ATA
3679496 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
3679555 ATATA
1 ATATA
3679560 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:3684136 original size:16 final size:16
Alignment explanation
Indices: 3684111--3684183 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 16
3684101 AAAAATTTAA
3684111 TTAAAACACGAGAATT
1 TTAAAACACGAGAATT
*
3684127 TTAAAGCAC--G-ATT
1 TTAAAACACGAGAATT
**
3684140 TT-TTACACGAGAATTT
1 TTAAAACACGAGAA-TT
3684156 TTGAAAACACGAGAATTT
1 TT-AAAACACGAGAA-TT
3684174 TTAAAACACG
1 TTAAAACACG
3684184 GAAATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
12 3 0.07
13 5 0.11
14 2 0.04
15 1 0.02
16 12 0.27
17 8 0.18
18 14 0.31
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (16 bp):
TTAAAACACGAGAATT
Found at i:3684167 original size:18 final size:17
Alignment explanation
Indices: 3684111--3684193 Score: 81
Period size: 17 Copynumber: 5.2 Consensus size: 17
3684101 AAAAATTTAA
3684111 TTAAAACACGAGAA-TT
1 TTAAAACACGAGAATTT
*
3684127 TTAAAGCAC--G-ATTT
1 TTAAAACACGAGAATTT
*
3684141 TT--TACACGAGAATTT
1 TTAAAACACGAGAATTT
3684156 TTGAAAACACGAGAATTT
1 TT-AAAACACGAGAATTT
3684174 TTAAAACACG-GAAATTT
1 TTAAAACACGAG-AATTT
3684191 TTA
1 TTA
3684194 CAAGACAGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
12 3 0.05
13 1 0.02
14 6 0.11
15 6 0.11
16 9 0.16
17 16 0.29
18 14 0.25
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (17 bp):
TTAAAACACGAGAATTT
Found at i:3684258 original size:18 final size:18
Alignment explanation
Indices: 3684235--3684307 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
3684225 AATCACCGGA
*
3684235 ATTTTTGGAAACACGAAG
1 ATTTTTGAAAACACGAAG
*
3684253 ATTTTTGAAAACATGAAGAG
1 ATTTTTGAAAACACG-A-AG
* *
3684273 ATTTTTTAAAAAACACGAAA
1 A-TTTTT-GAAAACACGAAG
*
3684293 ATTTTT-AAAATACGA
1 ATTTTTGAAAACACGA
3684308 GAAATTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.18
18 13 0.29
19 6 0.13
20 5 0.11
21 6 0.13
22 7 0.16
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAG
Found at i:3684311 original size:19 final size:19
Alignment explanation
Indices: 3684243--3684302 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
3684233 GAATTTTTGG
* *
3684243 AAACACGAAGATTTTT-GA
1 AAACACGAAAATTTTTAAA
*
3684261 AAACATGAAGAGATTTTTTAAA
1 AAACACGAA-A-A-TTTTTAAA
3684283 AAACACGAAAATTTTTAAA
1 AAACACGAAAATTTTTAAA
3684302 A
1 A
3684303 TACGAGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 8 0.24
19 9 0.26
20 2 0.06
21 6 0.18
22 9 0.26
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (19 bp):
AAACACGAAAATTTTTAAA
Found at i:3684420 original size:18 final size:17
Alignment explanation
Indices: 3684379--3684437 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
3684369 GCGAAAAGTC
*
3684379 AAAAATTTTGAAATACG
1 AAAATTTTTGAAATACG
*
3684396 AGTAATTTTTGAAAATACG
1 A-AAATTTTTG-AAATACG
*
3684415 AAAA--TTTGAAACACG
1 AAAATTTTTGAAATACG
3684430 -AAATTTTT
1 AAAATTTTT
3684438 TTATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 3 0.09
15 6 0.18
16 7 0.21
17 1 0.03
18 9 0.26
19 8 0.24
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (17 bp):
AAAATTTTTGAAATACG
Found at i:3685359 original size:19 final size:19
Alignment explanation
Indices: 3685337--3685405 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 19
3685327 TTCTCTTCTC
* *
3685337 TTTTTCTTCTTTGCTTGTT
1 TTTTTTTTCTTTGCTTGCT
3685356 TTTTTTTTCTTTTTGCTTGCT
1 TTTTTTTTC--TTTGCTTGCT
*
3685377 GTTTTTTTCTTTGACTTTGCT
1 TTTTTTTTCTTTG-C-TTGCT
3685398 TTTTTTTT
1 TTTTTTTT
3685406 ATTTATTGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
19 12 0.29
20 1 0.02
21 29 0.69
ACGTcount: A:0.01, C:0.13, G:0.10, T:0.75
Consensus pattern (19 bp):
TTTTTTTTCTTTGCTTGCT
Found at i:3685370 original size:21 final size:21
Alignment explanation
Indices: 3685337--3685388 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
3685327 TTCTCTTCTC
* *
3685337 TTTTTCTTCTTTGCTTGTTTTT
1 TTTTTCTT-TTTGCTTGCTGTT
3685359 TTTTTCTTTTTGCTTGCTGTT
1 TTTTTCTTTTTGCTTGCTGTT
3685380 TTTTTCTTT
1 TTTTTCTTT
3685389 GACTTTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (21 bp):
TTTTTCTTTTTGCTTGCTGTT
Found at i:3685861 original size:59 final size:59
Alignment explanation
Indices: 3685794--3685950 Score: 174
Period size: 59 Copynumber: 2.7 Consensus size: 59
3685784 TGGGGCTAAT
* * *
3685794 ATGTAATTTATAGAATGTTTAGGGGCCCAAATGAAATTTAGAAAAGTTTAGGAGTAGAA
1 ATGTAATTTATAGAAAGTTTAGGGGCCAAAATGTAATTTAGAAAAGTTTAGGAGTAGAA
* *** * * * *
3685853 ATGTAATTT-TGAGAAAGTTTAAGGGTTGAAATGTAATTTTGAAAAGTTTAGGGGTTGAG
1 ATGTAATTTAT-AGAAAGTTTAGGGGCCAAAATGTAATTTAGAAAAGTTTAGGAGTAGAA
* *
3685912 ATGTAATTTAGA-AAAGTTCAGGGGCCAAAATGTAATTTA
1 ATGTAATTTATAGAAAGTTTAGGGGCCAAAATGTAATTTA
3685951 TATTTTTGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
58 22 0.28
59 57 0.72
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (59 bp):
ATGTAATTTATAGAAAGTTTAGGGGCCAAAATGTAATTTAGAAAAGTTTAGGAGTAGAA
Found at i:3685935 original size:29 final size:29
Alignment explanation
Indices: 3685794--3685950 Score: 152
Period size: 29 Copynumber: 5.3 Consensus size: 29
3685784 TGGGGCTAAT
* * ***
3685794 ATGTAATTTATAGAATGTTTAGGGGCCCAA
1 ATGTAATTTAGA-AAAGTTTAGGGGTTGAA
* * *
3685824 ATGAAATTTAGAAAAGTTTAGGAGTAGAA
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
* *
3685853 ATGTAATTTTGAGAAAGTTTAAGGGTTGAA
1 ATGTAATTTAGA-AAAGTTTAGGGGTTGAA
* *
3685883 ATGTAATTTTGAAAAGTTTAGGGGTTGAG
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
* ***
3685912 ATGTAATTTAGAAAAGTTCAGGGGCCAAA
1 ATGTAATTTAGAAAAGTTTAGGGGTTGAA
3685941 ATGTAATTTA
1 ATGTAATTTA
3685951 TATTTTTGTA
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
29 70 0.66
30 36 0.34
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (29 bp):
ATGTAATTTAGAAAAGTTTAGGGGTTGAA
Found at i:3687049 original size:29 final size:31
Alignment explanation
Indices: 3687009--3687076 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 31
3686999 AAGTTATAGA
*
3687009 TTTAGTCCTTGTACTTTT-AA-TTGATCACT
1 TTTAGTCCTTGTACTTTTCAAGTCGATCACT
* * *
3687038 TTTAGTCTTTGTATTTTTCAAGTCGGTCACT
1 TTTAGTCCTTGTACTTTTCAAGTCGATCACT
3687069 TTTAGTCC
1 TTTAGTCC
3687077 CAATACTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 2 0.06
31 14 0.44
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (31 bp):
TTTAGTCCTTGTACTTTTCAAGTCGATCACT
Found at i:3687832 original size:3 final size:3
Alignment explanation
Indices: 3687824--3687849 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3687814 CTGGTACTCG
3687824 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
3687850 GCTATTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:3711185 original size:13 final size:13
Alignment explanation
Indices: 3711167--3711198 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3711157 ACAATATATT
3711167 TATTAATTAAAAA
1 TATTAATTAAAAA
3711180 TATTAATTAAAAA
1 TATTAATTAAAAA
*
3711193 TTTTAA
1 TATTAA
3711199 AAAAAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:3716998 original size:25 final size:24
Alignment explanation
Indices: 3716970--3717017 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
3716960 CAGAAAAACC
*
3716970 AAAAGAGCGTGTCAACAAGACAGAG
1 AAAAAAGCGTGTCAA-AAGACAGAG
3716995 AAAAAAGCGTGTCAAAAGACAGA
1 AAAAAAGCGTGTCAAAAGACAGA
3717018 TCTAAGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.52, C:0.15, G:0.25, T:0.08
Consensus pattern (24 bp):
AAAAAAGCGTGTCAAAAGACAGAG
Found at i:3718790 original size:27 final size:28
Alignment explanation
Indices: 3718760--3718826 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
3718750 ATTAATTATT
3718760 TTTTTAAAATTAAAAATAT-TAAAAATA
1 TTTTTAAAATTAAAAATATATAAAAATA
* * *
3718787 TTTTTAAAAAT-AAAATGTATAAAATTA
1 TTTTTAAAATTAAAAATATATAAAAATA
*
3718814 TTTTAAAAATTAA
1 TTTTTAAAATTAA
3718827 TTAATTGCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (28 bp):
TTTTTAAAATTAAAAATATATAAAAATA
Found at i:3721544 original size:17 final size:17
Alignment explanation
Indices: 3721522--3721555 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3721512 ATCCACTAAT
*
3721522 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3721539 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3721556 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3726184 original size:17 final size:17
Alignment explanation
Indices: 3726162--3726195 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3726152 ATCCACTAAT
*
3726162 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3726179 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3726196 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3727491 original size:16 final size:14
Alignment explanation
Indices: 3727465--3727504 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
3727455 ATGTCTCAGG
*
3727465 TTTTCTTGTTTGGTT
1 TTTTTTTGTTT-GTT
3727480 TTTTGTTTGTTTGTT
1 TTTT-TTTGTTTGTT
3727495 TTTTTTTGTT
1 TTTTTTTGTT
3727505 ACTGCCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 11 0.48
16 6 0.26
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.80
Consensus pattern (14 bp):
TTTTTTTGTTTGTT
Found at i:3734474 original size:29 final size:28
Alignment explanation
Indices: 3734417--3734475 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
3734407 ATATTTTTAT
* *
3734417 TTTAAATAATTAATATAGAGTAATAATA
1 TTTAAAAAATTAATATAGAGTAAAAATA
*
3734445 TTTAAAAAATTTAATATA-ATTAAAATATA
1 TTTAAAAAA-TTAATATAGAGTAAAA-ATA
3734474 TT
1 TT
3734476 AATTATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
TTTAAAAAATTAATATAGAGTAAAAATA
Found at i:3740181 original size:6 final size:6
Alignment explanation
Indices: 3740170--3740198 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3740160 ATAAATACAA
3740170 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
3740199 TAAGGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:3741404 original size:43 final size:42
Alignment explanation
Indices: 3741356--3741474 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 42
3741346 TTTGCGGCGT
*
3741356 TTCTTTAGCGGCGCATTTTACACAAACGCCGCTAAAG-AACATG
1 TTCTTTAGCGGCGC-TTTTACACAAACGCCACTAAAGCAA-ATG
*
3741399 TTCTTTAGCGGCGCTTCTTACACAAACGCCACTAAAGCTAATG
1 TTCTTTAGCGGCGCTT-TTACACAAACGCCACTAAAGCAAATG
3741442 TTCTTTAGCGGCGCTTTTTACACAAACGCCACT
1 TTCTTTAGCGGCGC-TTTTACACAAACGCCACT
3741475 TTTTGTTTGG
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
42 2 0.03
43 66 0.93
44 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (42 bp):
TTCTTTAGCGGCGCTTTTACACAAACGCCACTAAAGCAAATG
Found at i:3741897 original size:66 final size:66
Alignment explanation
Indices: 3741820--3741955 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 66
3741810 CTCGCTGTAG
* * *
3741820 CCTCTGCTTCTCTGGA-TGCCGCATCAGCTTTAAGTTGTCGCTGGAGTTCTTCATATTTCTTTTG
1 CCTCTGCTTCTCT-CACTGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTG
3741884 AA
65 AA
*
3741886 CCTCTGCTTCTCTCACTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
1 CCTCTGCTTCTCTCACTGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
3741951 A
66 A
3741952 CCTC
1 CCTC
3741956 AACTGTGATC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 64 0.98
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCTGCTTCTCTCACTGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
A
Found at i:3747344 original size:9 final size:9
Alignment explanation
Indices: 3747316--3747805 Score: 495
Period size: 9 Copynumber: 54.0 Consensus size: 9
3747306 ATTTGCACGG
3747316 GTAAGTTACT
1 GTAAGTTA-T
*
3747326 -TAATTTAT
1 GTAAGTTAT
3747334 GTAAGTTAT
1 GTAAGTTAT
3747343 GTAAGTTAT
1 GTAAGTTAT
* *
3747352 TTAATTTAT
1 GTAAGTTAT
* *
3747361 ATAGGTTAT
1 GTAAGTTAT
3747370 GTAAGTTAT
1 GTAAGTTAT
***
3747379 GTAACCCATT
1 GTAAGTTA-T
* *
3747389 GAAATTTAT
1 GTAAGTTAT
*
3747398 GTAGGTTAT
1 GTAAGTTAT
3747407 GTAAGTTAT
1 GTAAGTTAT
3747416 GTAAGTTAT
1 GTAAGTTAT
* *
3747425 TTAATTTAT
1 GTAAGTTAT
*
3747434 GCAAGTTTAT
1 GTAAG-TTAT
3747444 GTAAGTTACT
1 GTAAGTTA-T
*
3747454 -TAATTTAT
1 GTAAGTTAT
3747462 GTAAGTTAT
1 GTAAGTTAT
3747471 GTAAGTTAT
1 GTAAGTTAT
* *
3747480 TTAATTTAT
1 GTAAGTTAT
*
3747489 GTACGTTAT
1 GTAAGTTAT
3747498 GTAAGTTAT
1 GTAAGTTAT
3747507 GTAAGTTAT
1 GTAAGTTAT
* *
3747516 TTAATTTAT
1 GTAAGTTAT
*
3747525 GCAAGTTTAT
1 GTAAG-TTAT
3747535 GTAAGTTAT
1 GTAAGTTAT
3747544 GTAAGTTAT
1 GTAAGTTAT
*
3747553 GTAGGTTAT
1 GTAAGTTAT
3747562 GTAAGTTAT
1 GTAAGTTAT
3747571 GTAAGTTAT
1 GTAAGTTAT
**
3747580 -TTTGTTTAT
1 GTAAG-TTAT
*
3747589 GTAGGTTAT
1 GTAAGTTAT
3747598 GTAAGTTAT
1 GTAAGTTAT
3747607 GTAAGTTACT
1 GTAAGTTA-T
* *
3747617 -TAATTTAC
1 GTAAGTTAT
3747625 GTAAGTTAT
1 GTAAGTTAT
*
3747634 GTAGGTTAT
1 GTAAGTTAT
3747643 GTAAGTTAT
1 GTAAGTTAT
3747652 GTAAGTTACT
1 GTAAGTTA-T
* *
3747662 -TAATTTAC
1 GTAAGTTAT
3747670 GTAAGTTAT
1 GTAAGTTAT
*
3747679 GTAGGTTAT
1 GTAAGTTAT
3747688 GTAAGTTAT
1 GTAAGTTAT
*
3747697 GTAGGTTAT
1 GTAAGTTAT
3747706 GTAAGTTAT
1 GTAAGTTAT
*
3747715 ATAAGTTAT
1 GTAAGTTAT
* *
3747724 TTAATTTAT
1 GTAAGTTAT
*
3747733 GCAAGTTAT
1 GTAAGTTAT
* *
3747742 TTAATTTAT
1 GTAAGTTAT
*
3747751 GCAAGTTTAT
1 GTAAG-TTAT
3747761 GTAAGTTAT
1 GTAAGTTAT
3747770 GTAAGTTAT
1 GTAAGTTAT
* *
3747779 TTAATTTAT
1 GTAAGTTAT
3747788 GTAAGTTAT
1 GTAAGTTAT
3747797 GTAAGTTAT
1 GTAAGTTAT
3747806 TGTTTTTGTG
Statistics
Matches: 389, Mismatches: 78, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
8 4 0.01
9 351 0.90
10 34 0.09
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:3747404 original size:37 final size:36
Alignment explanation
Indices: 3747330--3747419 Score: 126
Period size: 37 Copynumber: 2.5 Consensus size: 36
3747320 GTTACTTAAT
*** *
3747330 TTATGTAAGTTATGTAAGTTATTTAATTTATATAGG
1 TTATGTAAGTTATGTAACCCATTAAATTTATATAGG
*
3747366 TTATGTAAGTTATGTAACCCATTGAAATTTATGTAGG
1 TTATGTAAGTTATGTAACCCATT-AAATTTATATAGG
3747403 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
3747420 GTTATTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 20 0.42
37 28 0.58
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (36 bp):
TTATGTAAGTTATGTAACCCATTAAATTTATATAGG
Found at i:3747882 original size:12 final size:12
Alignment explanation
Indices: 3747859--3747928 Score: 81
Period size: 12 Copynumber: 6.0 Consensus size: 12
3747849 TTATGTATTG
*
3747859 TTATATAAGTTA
1 TTATGTAAGTTA
*
3747871 TTATGTAGGTTA
1 TTATGTAAGTTA
3747883 TTATGTAAGTT-
1 TTATGTAAGTTA
3747894 TT-TGTAAGTTA
1 TTATGTAAGTTA
* *
3747905 TTATGTACGATA
1 TTATGTAAGTTA
*
3747917 CTATGTAAGTTA
1 TTATGTAAGTTA
3747929 GGATATTATG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.17
11 4 0.08
12 36 0.75
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:3748035 original size:9 final size:9
Alignment explanation
Indices: 3748021--3748077 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
3748011 ATTATATATT
*
3748021 TAAATTTTG
1 TAAATTATG
3748030 TAAATTATG
1 TAAATTATG
3748039 --AATTATG
1 TAAATTATG
3748046 TAAATTATG
1 TAAATTATG
* *
3748055 TAAAATACG
1 TAAATTATG
*
3748064 TAAGTTATG
1 TAAATTATG
3748073 -AAATT
1 TAAATT
3748078 TGAACTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 7 0.18
8 4 0.10
9 28 0.72
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (9 bp):
TAAATTATG
Found at i:3748047 original size:16 final size:16
Alignment explanation
Indices: 3748023--3748054 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3748013 TATATATTTA
*
3748023 AATTTTGTAAATTATG
1 AATTATGTAAATTATG
3748039 AATTATGTAAATTATG
1 AATTATGTAAATTATG
3748055 TAAAATACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
AATTATGTAAATTATG
Found at i:3748247 original size:29 final size:29
Alignment explanation
Indices: 3748206--3748263 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
3748196 CAAAATATAT
3748206 TTTTGGAAATGAAATAGTTGACAAATGGA
1 TTTTGGAAATGAAATAGTTGACAAATGGA
3748235 TTTTGGAAATGAAATAGTTGACAAATGGA
1 TTTTGGAAATGAAATAGTTGACAAATGGA
3748264 AGAAGATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (29 bp):
TTTTGGAAATGAAATAGTTGACAAATGGA
Found at i:3752411 original size:22 final size:21
Alignment explanation
Indices: 3752372--3752412 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
3752362 ACTCTGACTA
3752372 TAAAAACTAAACTCCAAACTT
1 TAAAAACTAAACTCCAAACTT
3752393 TAAAACACTAAA-TCACAAAC
1 TAAAA-ACTAAACTC-CAAAC
3752413 CCAATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACTAAACTCCAAACTT
Found at i:3752456 original size:23 final size:23
Alignment explanation
Indices: 3752429--3752503 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
3752419 TAACAAACCC
*
3752429 TAAACCATAAACTATAAAACCTT
1 TAAACCATAAACTATAAAACCAT
* * *
3752452 TAAACTACATACTATAGTAAA-CAT
1 TAAACCATAAACTATA--AAACCAT
* *
3752476 TAAACCTTAAACTATAAAACCCT
1 TAAACCATAAACTATAAAACCAT
3752499 TAAAC
1 TAAAC
3752504 TACATACTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 3 0.08
23 20 0.50
24 14 0.35
25 3 0.08
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (23 bp):
TAAACCATAAACTATAAAACCAT
Found at i:3752512 original size:23 final size:23
Alignment explanation
Indices: 3752439--3752514 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
3752429 TAAACCATAA
*
3752439 ACTATAAAACCTTTAAACTACAT
1 ACTATAAAACCATTAAACTACAT
3752462 ACTATAGTAAA-CATTAAACCTTA-A-
1 ACTATA--AAACCATTAAA-C-TACAT
*
3752486 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCATTAAACTACAT
3752509 ACTATA
1 ACTATA
3752515 GCCCTTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.11
23 18 0.41
24 12 0.27
25 5 0.11
26 2 0.05
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (23 bp):
ACTATAAAACCATTAAACTACAT
Found at i:3752986 original size:41 final size:41
Alignment explanation
Indices: 3752956--3753140 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
3752946 CGGCGGATCA
*
3752956 ATAAAAACGCCGCTAAAGCCCAGAACATTAGCAGCGCTTA-
1 ATAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAC
* *
3752996 ATTAAAAACGCCACTAAATCCCAGAACATTAGCGGCGCTTAC
1 A-TAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAC
*
3753038 ATAAAAACGCCGCTAAATCCCAGAACATTAGCGGCGCTTAC
1 ATAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAC
* *
3753079 ATAAAAACGCCGCGAAAGCTCAGAACATTAGCGGCGCTTAC
1 ATAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAC
3753120 ATAAAAACGCCGCTAAAGCCC
1 ATAAAAACGCCGCTAAAGCCC
3753141 CTGAAAAGTC
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 1 0.01
41 132 0.99
42 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (41 bp):
ATAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTAC
Found at i:3760475 original size:21 final size:21
Alignment explanation
Indices: 3760449--3760492 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3760439 TTGTATACTG
3760449 TAAAAATAAAATAAAATTAAA
1 TAAAAATAAAATAAAATTAAA
* *
3760470 TAAAAATCAAATTAAATTAAA
1 TAAAAATAAAATAAAATTAAA
3760491 TA
1 TA
3760493 GTTGAAGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAATAAAATAAAATTAAA
Found at i:3760481 original size:16 final size:15
Alignment explanation
Indices: 3760452--3760492 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
3760442 TATACTGTAA
3760452 AAATAAAATAAAATT
1 AAATAAAATAAAATT
*
3760467 AAATAAAAATCAAATT
1 AAAT-AAAATAAAATT
*
3760483 AAATTAAATA
1 AAATAAAATA
3760493 GTTGAAGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATAAAATT
Found at i:3760592 original size:3 final size:3
Alignment explanation
Indices: 3760584--3760624 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
3760574 GCCGCTGTTG
* *
3760584 CTT CTT CTT CTT CTT CTT CTT CTT CCT CTT CCT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
3760625 CACTTTCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:3780699 original size:78 final size:78
Alignment explanation
Indices: 3780570--3780727 Score: 289
Period size: 78 Copynumber: 2.0 Consensus size: 78
3780560 TATTGACAAC
*
3780570 AACTGTAGCTTGTAGGTGATAATGCTAAATACTAAAACTCACCCTAAACAATGTTTACTTTCATC
1 AACTGTAGCTTGTAGGTGATAATGCTAAATACGAAAACTCACCCTAAACAATGTTTACTTTCATC
3780635 TACATTCAGAACT
66 TACATTCAGAACT
**
3780648 AACTGTAGCTTGTAGGTGATAATGCTAAATACGAAAGTTCACCCTAAACAATGTTTACTTTCATC
1 AACTGTAGCTTGTAGGTGATAATGCTAAATACGAAAACTCACCCTAAACAATGTTTACTTTCATC
3780713 TACATTCAGAACT
66 TACATTCAGAACT
3780726 AA
1 AA
3780728 GTCCAATAAC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (78 bp):
AACTGTAGCTTGTAGGTGATAATGCTAAATACGAAAACTCACCCTAAACAATGTTTACTTTCATC
TACATTCAGAACT
Found at i:3792163 original size:32 final size:33
Alignment explanation
Indices: 3792122--3792197 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 33
3792112 ATCTTAATAT
* *
3792122 ATATATATGGTAATTGC-TTTTTATTAATTTTA
1 ATATATATGGTAATTACTTTTTTATTAACTTTA
*
3792154 ATATATATGGTAATTACTTTTTTTATTACCTTTA
1 ATATATATGGTAATTAC-TTTTTTATTAACTTTA
3792188 ATATATATGG
1 ATATATATGG
3792198 CAATAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
32 16 0.41
34 23 0.59
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (33 bp):
ATATATATGGTAATTACTTTTTTATTAACTTTA
Found at i:3792234 original size:47 final size:47
Alignment explanation
Indices: 3792173--3792309 Score: 238
Period size: 47 Copynumber: 2.9 Consensus size: 47
3792163 GTAATTACTT
* *
3792173 TTTTTATTACCTTTAATATATATGGCAATAATATTATGGTAATGTTC
1 TTTTTATTGCCTTTAATATATATGGTAATAATATTATGGTAATGTTC
3792220 TTTTTATTGCCTTTAATATATATGGTAATAATATTATGGTAATGTTC
1 TTTTTATTGCCTTTAATATATATGGTAATAATATTATGGTAATGTTC
* *
3792267 TTTTCATTGCCTTCAATATATATGGTAATAATATTATGGTAAT
1 TTTTTATTGCCTTTAATATATATGGTAATAATATTATGGTAAT
3792310 TGCTATTTTA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (47 bp):
TTTTTATTGCCTTTAATATATATGGTAATAATATTATGGTAATGTTC
Found at i:3792259 original size:14 final size:15
Alignment explanation
Indices: 3792233--3792262 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3792223 TTATTGCCTT
3792233 TAATATATATGGTAA
1 TAATATATATGGTAA
3792248 TAATAT-TATGGTAA
1 TAATATATATGGTAA
3792262 T
1 T
3792263 GTTCTTTTCA
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:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (15 bp):
TAATATATATGGTAA
Found at i:3792306 original size:14 final size:15
Alignment explanation
Indices: 3792281--3792309 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3792271 CATTGCCTTC
3792281 AATATATATGGTAAT
1 AATATATATGGTAAT
3792296 AATAT-TATGGTAAT
1 AATATATATGGTAAT
3792310 TGCTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (15 bp):
AATATATATGGTAAT
Found at i:3792828 original size:14 final size:14
Alignment explanation
Indices: 3792809--3792850 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
3792799 TTATATTTTA
3792809 AAAAAATTTAATAT
1 AAAAAATTTAATAT
**
3792823 AAAAAATAAAATTAT
1 AAAAAATTTAA-TAT
3792838 AAAAAA-TTAATAT
1 AAAAAATTTAATAT
3792851 GGGTCGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAAATTTAATAT
Found at i:3814424 original size:21 final size:20
Alignment explanation
Indices: 3814396--3814434 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3814386 CACTTCCACC
* *
3814396 TTTTATATTTTCTGAATTGA
1 TTTTATATATTCTCAATTGA
3814416 TTTTGATATATTCTCAATT
1 TTTT-ATATATTCTCAATT
3814435 TAATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTTATATATTCTCAATTGA
Found at i:3815977 original size:16 final size:16
Alignment explanation
Indices: 3815956--3815986 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3815946 CGCTCTCCAA
3815956 CCTCACAAGAATAAAC
1 CCTCACAAGAATAAAC
3815972 CCTCACAAGAATAAA
1 CCTCACAAGAATAAA
3815987 TGGTGTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.29, G:0.06, T:0.13
Consensus pattern (16 bp):
CCTCACAAGAATAAAC
Found at i:3820514 original size:18 final size:18
Alignment explanation
Indices: 3820491--3820583 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
3820481 TACGACCGTT
3820491 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
3820509 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
3820527 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
3820545 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
3820563 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
3820581 TAC
1 TAC
3820584 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:3820544 original size:36 final size:36
Alignment explanation
Indices: 3820497--3820583 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
3820487 CGTTTACGGC
3820497 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
3820533 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
3820569 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
3820584 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:3826537 original size:4 final size:4
Alignment explanation
Indices: 3826528--3826574 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
3826518 TGACCCCTAT
3826528 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
3826575 TATCGTCGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:3831503 original size:51 final size:51
Alignment explanation
Indices: 3831407--3831503 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
3831397 TTGTGTTTTC
* * * *
3831407 TGCTTTCATGTTCCAATTTTGTATTTTTTATTGGAAATTATAATTACCTTT
1 TGCTTTCATGTTCCAATTTTGAATATTTTATAGGAAAATATAATTACCTTT
* *
3831458 TGCTTTCATGTTCCAATTTTGAAATATTTTCTAGTAAAATA-AATTA
1 TGCTTTCATGTTCCAATTTTG-AATATTTTATAGGAAAATATAATTA
3831504 AAAAAGGGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 26 0.67
52 13 0.33
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (51 bp):
TGCTTTCATGTTCCAATTTTGAATATTTTATAGGAAAATATAATTACCTTT
Found at i:3837006 original size:19 final size:17
Alignment explanation
Indices: 3836979--3837019 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
3836969 AAAAAATTTA
3836979 TTTTAGTCTTTTATTTAAT
1 TTTTAGTC-TTT-TTTAAT
*
3836998 TTTTCGTCTTTTTTAAT
1 TTTTAGTCTTTTTTAAT
3837015 TTTTA
1 TTTTA
3837020 AAATTTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 3 0.15
19 7 0.35
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTAGTCTTTTTTAAT
Found at i:3839829 original size:16 final size:15
Alignment explanation
Indices: 3839801--3839830 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3839791 ACGTTTACGA
3839801 ATAAAATAAATATAT
1 ATAAAATAAATATAT
3839816 ATAAAATAAA-ATAT
1 ATAAAATAAATATAT
3839830 A
1 A
3839831 AATAGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAATAAATATAT
Found at i:3841903 original size:56 final size:55
Alignment explanation
Indices: 3841828--3841949 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 55
3841818 TTAAAAAAAT
* * *
3841828 TTGGTTGTCGTCGGTATGTCAGGCAACACCAGTAAATATTTAATAAAAAAAAT-TTTG
1 TTGG-TGTCGCCGGAATGTCAGACAACACCAGTAAA-ATTTAA-AAAAAAAATATTTG
* * * *
3841885 TTGGTGTCGCCGGAATGTCAGACGACACCCGTTAAATTTAAAAAAAAAATATTTT
1 TTGGTGTCGCCGGAATGTCAGACAACACCAGTAAAATTTAAAAAAAAAATATTTG
3841940 TTAGGTGTCG
1 TT-GGTGTCG
3841950 TTGTCGTGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
54 9 0.16
55 11 0.20
56 32 0.57
57 4 0.07
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (55 bp):
TTGGTGTCGCCGGAATGTCAGACAACACCAGTAAAATTTAAAAAAAAAATATTTG
Found at i:3842018 original size:11 final size:11
Alignment explanation
Indices: 3842002--3842028 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3841992 TTGCAGAAAG
3842002 AATATTTAAAA
1 AATATTTAAAA
3842013 AATATTTAAAA
1 AATATTTAAAA
3842024 AATAT
1 AATAT
3842029 ATATTGCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATTTAAAA
Found at i:3842504 original size:47 final size:46
Alignment explanation
Indices: 3842426--3842534 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 46
3842416 ATTTAATATT
* * *
3842426 TTATTATTTTCCACATCTGATATTTTATTTCC-TTTCTCATATTTGA
1 TTATTATTTTCCATATATGATATTCTATTTCCTTTTCT-ATATTTGA
* *
3842472 TTATGTATTTTCCATATATGTTATTCTCTTTCCTTTTCTATATTTGA
1 TTAT-TATTTTCCATATATGATATTCTATTTCCTTTTCTATATTTGA
*
3842519 TTCTCTATTTTCCATA
1 TTAT-TATTTTCCATA
3842535 AAATATTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 4 0.07
47 45 0.83
48 5 0.09
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.58
Consensus pattern (46 bp):
TTATTATTTTCCATATATGATATTCTATTTCCTTTTCTATATTTGA
Found at i:3842581 original size:84 final size:84
Alignment explanation
Indices: 3842477--3842685 Score: 249
Period size: 84 Copynumber: 2.5 Consensus size: 84
3842467 TTTGATTATG
* * * * * * *
3842477 TATTTTCCATATATGTTATTCTCTTTCCTTTTCTATATTTGATTCTCTATTTTCCATAAAATATT
1 TATTTTCTATATTTGTTATTCTCTTTCCTTTCCTATATTAGATTCTCCATTTTCAACAAAATATT
3842542 AAATT-TCCTTTCATATCTC
66 AAATTCT-CTTTCATATCTC
*
3842561 TATTTTCTATATTTGTTATTCTATTTCCTTTCCTATATTAGATTCTCCATTTTCAACAAAATATT
1 TATTTTCTATATTTGTTATTCTCTTTCCTTTCCTATATTAGATTCTCCATTTTCAACAAAATATT
* *
3842626 CAATTCTCTTTCATATTTC
66 AAATTCTCTTTCATATCTC
* * * * *
3842645 TATTGTACATATAGTTGTTATTCTCTTGCATTTCCCATATT
1 TATT-TTC-TATATTTGTTATTCTCTTTCCTTTCCTATATT
3842686 GACATTCATT
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 76 0.72
85 3 0.03
86 27 0.25
ACGTcount: A:0.24, C:0.19, G:0.04, T:0.54
Consensus pattern (84 bp):
TATTTTCTATATTTGTTATTCTCTTTCCTTTCCTATATTAGATTCTCCATTTTCAACAAAATATT
AAATTCTCTTTCATATCTC
Found at i:3843468 original size:17 final size:17
Alignment explanation
Indices: 3843446--3843479 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3843436 GATAACAACT
3843446 ACTTATCACTTAATGAA
1 ACTTATCACTTAATGAA
3843463 ACTTATCACTTAATGAA
1 ACTTATCACTTAATGAA
3843480 GAATACTTTA
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:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
ACTTATCACTTAATGAA
Found at i:3844133 original size:43 final size:43
Alignment explanation
Indices: 3844035--3844273 Score: 302
Period size: 43 Copynumber: 5.6 Consensus size: 43
3844025 TATGGAAAAC
* * * * *
3844035 CGCCGCTATAGAACGTGACCTTTAGCTGCGCTTT-TCCACAAA
1 CGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
* *
3844077 CGACACTAAAGAACATGACCTTTAGCGGCTCTTTCCCCACAAA
1 CGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
* *
3844120 CGCCACTATAGAACATGACCTTTAGCGGCGCTGT-CCCACAAA
1 CGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
*
3844162 CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
*** * ** *
3844205 CGCGGTTAAAAAACATGACCTTTAGCGGTACTTTCCCTACAAA
1 CGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
*
3844248 CGCCACTACAGAACATGACCTTTAGC
1 CGCCACTAAAGAACATGACCTTTAGC
3844274 AGCGTTTGTG
Statistics
Matches: 170, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
42 67 0.39
43 103 0.61
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
CGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAA
Found at i:3844183 original size:85 final size:85
Alignment explanation
Indices: 3844035--3844273 Score: 334
Period size: 85 Copynumber: 2.8 Consensus size: 85
3844025 TATGGAAAAC
* * * *
3844035 CGCCGCTATAGAACGTGACCTTTAGCTGCGCTTTTCCACAAACGACACTAAAGAACATGACCTTT
1 CGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCCACAAACGCCACTAAAGAACATGACCTTT
*
3844100 AGCGGCTCTTTCCCCACAAA
66 AGCGGCGCTTTCCCCACAAA
* * *
3844120 CGCCACTATAGAACATGACCTTTAGCGGCGCTGTCCCACAAACGCCGCTAAAGAACATGACCTTT
1 CGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCCACAAACGCCACTAAAGAACATGACCTTT
3844185 AGCGGCGCTTTCCCCACAAA
66 AGCGGCGCTTTCCCCACAAA
* * * * ** *
3844205 CGCGGTTAAAAAACATGACCTTTAGCGGTACTTTCCCTACAAACGCCACTACAGAACATGACCTT
1 CGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCC-ACAAACGCCACTAAAGAACATGACCTT
3844270 TAGC
65 TAGC
3844274 AGCGTTTGTG
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
85 106 0.79
86 29 0.21
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (85 bp):
CGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCCCACAAACGCCACTAAAGAACATGACCTTT
AGCGGCGCTTTCCCCACAAA
Found at i:3846597 original size:13 final size:13
Alignment explanation
Indices: 3846579--3846603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3846569 GAATTTACTT
3846579 GTGTGAAAATTTC
1 GTGTGAAAATTTC
3846592 GTGTGAAAATTT
1 GTGTGAAAATTT
3846604 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:3847682 original size:63 final size:63
Alignment explanation
Indices: 3847603--3847926 Score: 179
Period size: 63 Copynumber: 5.0 Consensus size: 63
3847593 ATATATATGT
* * *
3847603 TTTGAATTTTATAAGTTAAAATAAAATGTATGAATTGTATATATATGTGTTAGTC-AATGTATA
1 TTTGAGTTTTATAAGTTAAAATAAAATGTATGAATTCTATATATAT-TGTTAGCCGAATGTATA
* * *
3847666 TTTGAGTTTTATAAGTTAAAAT-AAAT-TACAGAAATTCTATAGATA-T-TTAGCCGAATATATA
1 TTTGAGTTTTATAAGTTAAAATAAAATGTA-TG-AATTCTATATATATTGTTAGCCG-A-ATGTA
3847727 TA
62 TA
* * * * * *
3847729 TGTTGGGTTTTGTAAGTT-GAATGAAATTTAATGAA-T-TACATATA-TGTTAGCCGAATGTATA
1 T-TTGAGTTTTATAAGTTAAAATAAAATGT-ATGAATTCTATATATATTGTTAGCCGAATG----
3847790 TATA
60 TATA
* * *
3847794 TGTTTTGAATTTTATAAGTTAAAATAAAATGTATGAATTGTATATATATATATATGTGTTAGTC-
1 ---TTTGAGTTTTATAAGTTAAAATAAAATGTATG-A----AT-TCTATATATAT-TGTTAGCCG
*
3847858 AAAGTATA
56 AATGTATA
* * * * *
3847866 TTTGAG-TTTATAAGATAAAATAAATTGCATAAATTCTATATATA-T-TTAGCCGAATATATA
1 TTTGAGTTTTATAAGTTAAAATAAAATGTATGAATTCTATATATATTGTTAGCCGAATGTATA
3847926 T
1 T
3847927 ATATGCTGAG
Statistics
Matches: 201, Mismatches: 31, Indels: 61
0.69 0.11 0.21
Matches are distributed among these distances:
59 5 0.02
60 13 0.06
61 5 0.02
62 23 0.11
63 52 0.26
64 20 0.10
65 6 0.03
66 1 0.00
67 17 0.08
68 31 0.15
69 5 0.02
72 5 0.02
74 1 0.00
75 7 0.03
76 3 0.01
77 7 0.03
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (63 bp):
TTTGAGTTTTATAAGTTAAAATAAAATGTATGAATTCTATATATATTGTTAGCCGAATGTATA
Found at i:3847785 original size:194 final size:196
Alignment explanation
Indices: 3847578--3847986 Score: 671
Period size: 201 Copynumber: 2.1 Consensus size: 196
3847568 TTGTATAAAA
3847578 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAAAATAAAATGTATGAATTG-TA
1 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAAAATAAAATGTATGAATTGATA
* *
3847642 TATATATGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAATAAATTACAGAAATTCTATA
66 TATATATGTGTTAGTCAAAGTATATTTGAG-TTTATAAGATAAAATAAATTACAGAAATTCTATA
* * *
3847707 GATATTTAGCCG-A-ATATATATATGTTGGGTTTTGTAAGTTGAATGAAATTTAATGAATTACAT
130 GATATTTAGCCGAATATATATATATGCTGAGCTTTGTAAGTTGAATGAAATTTAATGAATTACAT
3847770 AT
195 AT
3847772 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAAAATAAAATGTATGAATTGTAT
1 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAAAATAAAATGTATGAATTG---
* *
3847837 ATATATATATATGTGTTAGTCAAAGTATATTTGAGTTTATAAGATAAAATAAATTGCATAAATTC
63 --ATATATATATGTGTTAGTCAAAGTATATTTGAGTTTATAAGATAAAATAAATTACAGAAATTC
*
3847902 TATATATATTTAGCCGAATATATATATATGCTGAGCTTTGTAAGTTGAATGAAATTTAATGAATT
126 TATAGATATTTAGCCGAATATATATATATGCTGAGCTTTGTAAGTTGAATGAAATTTAATGAATT
3847967 ACATAT
191 ACATAT
3847973 ATGTTAGCCGAATG
1 ATGTTAGCCGAATG
3847987 CATGTATTGA
Statistics
Matches: 199, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
194 62 0.31
199 42 0.21
200 32 0.16
201 63 0.32
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (196 bp):
ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAAAATAAAATGTATGAATTGATA
TATATATGTGTTAGTCAAAGTATATTTGAGTTTATAAGATAAAATAAATTACAGAAATTCTATAG
ATATTTAGCCGAATATATATATATGCTGAGCTTTGTAAGTTGAATGAAATTTAATGAATTACATA
T
Found at i:3848368 original size:41 final size:41
Alignment explanation
Indices: 3848322--3848495 Score: 224
Period size: 41 Copynumber: 4.2 Consensus size: 41
3848312 GGCTCGATGC
* *
3848322 CTAGCAGGTTTAATACCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* * *
3848363 TTAGCAGGATTAATGCCGGTGAATTATTTCAGACTTTATAT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
3848404 CTAGCAGGCTTAATGCCAGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* * * * *
3848445 CTAGCAGGCTTAAGGCTGGTGAAATGA-TTCGGACTTTAAGT
1 CTAGCAGGCTTAATGCCGGTG-AATTATTTCAGACTTTATGT
*
3848486 CCAGCAGGCT
1 CTAGCAGGCT
3848496 AAGTGCCAGT
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
41 113 0.97
42 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
Found at i:3848533 original size:41 final size:41
Alignment explanation
Indices: 3848488--3848584 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
3848478 CTTTAAGTCC
*
3848488 AGCAGGCTAAGTGCCAGTGATCTGAATCAAGTTATAAACCT
1 AGCAGGCTAAGTGCCAGTGATCTGAATCAAGCTATAAACCT
* * * *
3848529 AGCAGGCTAAGTACCGGTGATCTGAATCAGGCTATAAGCCT
1 AGCAGGCTAAGTGCCAGTGATCTGAATCAAGCTATAAACCT
3848570 AGCAGGCTAAGTGCC
1 AGCAGGCTAAGTGCC
3848585 CATGAATATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (41 bp):
AGCAGGCTAAGTGCCAGTGATCTGAATCAAGCTATAAACCT
Found at i:3852183 original size:41 final size:37
Alignment explanation
Indices: 3852137--3852279 Score: 147
Period size: 36 Copynumber: 3.8 Consensus size: 37
3852127 TGTGATTTTC
3852137 ATATATTTTGATCCAAAGTTTTATGTAAGTTATGATATGAT
1 ATATATTTTGAT---AAG-TTTATGTAAGTTATGATATGAT
3852178 ATATATATTT-AT--GTATTATGTAAGTTATGATATGAT
1 ATATAT-TTTGATAAGT-TTATGTAAGTTATGATATGAT
*
3852214 ATATATTTTTG-TAAG-TTACGTAAGTTATGATATGAT
1 ATATA-TTTTGATAAGTTTATGTAAGTTATGATATGAT
*
3852250 ATATACTTATG-TAAG-TTATGTAAGTTATGA
1 ATATA-TTTTGATAAGTTTATGTAAGTTATGA
3852280 AATTTGAACT
Statistics
Matches: 92, Mismatches: 4, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
35 1 0.01
36 78 0.85
37 1 0.01
38 1 0.01
41 8 0.09
42 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (37 bp):
ATATATTTTGATAAGTTTATGTAAGTTATGATATGAT
Found at i:3852198 original size:36 final size:38
Alignment explanation
Indices: 3852157--3852279 Score: 186
Period size: 36 Copynumber: 3.4 Consensus size: 38
3852147 ATCCAAAGTT
3852157 TTATGTAAGTTATGATATGATATATATATTTATGT-A-
1 TTATGTAAGTTATGATATGATATATATATTTATGTAAG
3852193 TTATGTAAGTTATGATATGATATATAT-TTT-TGTAAG
1 TTATGTAAGTTATGATATGATATATATATTTATGTAAG
* *
3852229 TTACGTAAGTTATGATATG--ATATATACTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATATTTATGTAAG
3852265 TTATGTAAGTTATGA
1 TTATGTAAGTTATGA
3852280 AATTTGAACT
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
34 9 0.11
35 6 0.08
36 65 0.81
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (38 bp):
TTATGTAAGTTATGATATGATATATATATTTATGTAAG
Found at i:3852270 original size:9 final size:9
Alignment explanation
Indices: 3852157--3852278 Score: 54
Period size: 9 Copynumber: 13.6 Consensus size: 9
3852147 ATCCAAAGTT
3852157 TTATGTAAG
1 TTATGTAAG
*
3852166 TTATGATATG
1 TTATG-TAAG
* * *
3852176 ATATATATAT
1 TTATGTA-AG
3852186 TTATGT-A-
1 TTATGTAAG
3852193 TTATGTAAG
1 TTATGTAAG
*
3852202 TTATGATATG
1 TTATG-TAAG
* * *
3852212 ATATAT-AT
1 TTATGTAAG
*
3852220 TTTTGTAAG
1 TTATGTAAG
*
3852229 TTACGTAAG
1 TTATGTAAG
*
3852238 TTATGATATG
1 TTATG-TAAG
* * *
3852248 ATATAT-AC
1 TTATGTAAG
3852256 TTATGTAAG
1 TTATGTAAG
3852265 TTATGTAAG
1 TTATGTAAG
3852274 TTATG
1 TTATG
3852279 AAATTTGAAC
Statistics
Matches: 78, Mismatches: 27, Indels: 16
0.64 0.22 0.13
Matches are distributed among these distances:
7 6 0.08
8 9 0.12
9 41 0.53
10 22 0.28
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:3854385 original size:23 final size:23
Alignment explanation
Indices: 3854355--3854399 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
3854345 AGTTTGCAAG
3854355 TATAGGACAATGAAGGCTTTAAA
1 TATAGGACAATGAAGGCTTTAAA
3854378 TATAGGACAATGAAGGCTTTAA
1 TATAGGACAATGAAGGCTTTAA
3854400 CAGTTTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (23 bp):
TATAGGACAATGAAGGCTTTAAA
Found at i:3868613 original size:28 final size:27
Alignment explanation
Indices: 3868568--3868630 Score: 108
Period size: 28 Copynumber: 2.3 Consensus size: 27
3868558 AATTTTGATT
*
3868568 CAAACTTTCAAGTTTGACTTGATCAAC
1 CAAATTTTCAAGTTTGACTTGATCAAC
3868595 CAGAATTTTCAAGTTTGACTTGATCAAC
1 CA-AATTTTCAAGTTTGACTTGATCAAC
3868623 CAAATTTT
1 CAAATTTT
3868631 AACATGAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (27 bp):
CAAATTTTCAAGTTTGACTTGATCAAC
Found at i:3870649 original size:13 final size:13
Alignment explanation
Indices: 3870631--3870660 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3870621 AATATTTATA
*
3870631 AAAGATCGAACCC
1 AAAGATCAAACCC
3870644 AAAGATCAAACCC
1 AAAGATCAAACCC
3870657 AAAG
1 AAAG
3870661 GAAAAGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.27, G:0.13, T:0.07
Consensus pattern (13 bp):
AAAGATCAAACCC
Found at i:3871031 original size:19 final size:18
Alignment explanation
Indices: 3871003--3871038 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3870993 AAGCAGCTAT
3871003 AAAAGTAAAACTTAAGAA
1 AAAAGTAAAACTTAAGAA
*
3871021 AAAATGTAAAAGTTAAGA
1 AAAA-GTAAAACTTAAGA
3871039 TTTTCATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (18 bp):
AAAAGTAAAACTTAAGAA
Found at i:3871367 original size:11 final size:11
Alignment explanation
Indices: 3871337--3871378 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
3871327 ACCTAAGTGC
*
3871337 AGAGAAAAACT
1 AGAGAAAACCT
*
3871348 AAAGAAAACCT
1 AGAGAAAACCT
*
3871359 AGAGAAAACTT
1 AGAGAAAACCT
3871370 AGAGAAAAC
1 AGAGAAAAC
3871379 TAAACCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.62, C:0.12, G:0.17, T:0.10
Consensus pattern (11 bp):
AGAGAAAACCT
Found at i:3874863 original size:12 final size:12
Alignment explanation
Indices: 3874844--3874872 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3874834 TATGATTAAA
3874844 AATA-TTATCTT
1 AATATTTATCTT
3874855 AATATTTATCTT
1 AATATTTATCTT
3874867 AATATT
1 AATATT
3874873 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (12 bp):
AATATTTATCTT
Found at i:3880267 original size:22 final size:21
Alignment explanation
Indices: 3880242--3880290 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
3880232 TTTTATTTTT
*
3880242 ATTTATGTTT-ATTGCCTATTTA
1 ATTT-TGTTTAATTG-CAATTTA
3880264 ATTTTGTTTTAATTGCAATTTA
1 ATTTTG-TTTAATTGCAATTTA
3880286 ATTTT
1 ATTTT
3880291 TGTTCCTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (21 bp):
ATTTTGTTTAATTGCAATTTA
Found at i:3911467 original size:14 final size:14
Alignment explanation
Indices: 3911446--3911479 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3911436 TGGTATGGGT
3911446 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
3911459 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
3911473 TTATAGG
1 TTATAGG
3911480 AAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:3911803 original size:15 final size:15
Alignment explanation
Indices: 3911783--3911833 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
3911773 ACAACATGAT
3911783 AACGTAAATGACTAA
1 AACGTAAATGACTAA
* *
3911798 AACGTAACAT--TTCA
1 AACGTAA-ATGACTAA
*
3911812 AACATAAATGACTAA
1 AACGTAAATGACTAA
3911827 AACGTAA
1 AACGTAA
3911834 CCTAAGGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.22
Consensus pattern (15 bp):
AACGTAAATGACTAA
Found at i:3913311 original size:15 final size:15
Alignment explanation
Indices: 3913291--3913398 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
3913281 TTTATGGAAA
3913291 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
3913306 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
3913320 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3913336 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3913350 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3913366 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3913380 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
3913396 ATC
1 ATC
3913399 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:3913328 original size:30 final size:30
Alignment explanation
Indices: 3913285--3913408 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
3913275 TCCATATTTA
* *
3913285 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
3913315 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
3913345 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
3913375 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
3913406 TGG
1 TGG
3913409 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:3917849 original size:15 final size:15
Alignment explanation
Indices: 3917829--3917936 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
3917819 TTTATGGAAA
3917829 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
3917844 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
* *
3917858 AGTCAAAAATATGTGT
1 A-TCAAAGATATGGGT
* **
3917874 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3917888 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3917904 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3917918 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
3917934 ATC
1 ATC
3917937 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:3917870 original size:30 final size:30
Alignment explanation
Indices: 3917823--3917946 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
3917813 TCCATATTTA
* *
3917823 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* * *
3917853 TAGAAAGTCAAAAATATGTGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
3917883 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
3917913 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
3917944 TGG
1 TGG
3917947 CATAATAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 76 0.90
31 8 0.10
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:3921039 original size:12 final size:12
Alignment explanation
Indices: 3921011--3921042 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3921001 TATTTTTTAT
3921011 GAGAT-AATTAA
1 GAGATAAATTAA
3921022 -AGATAAATTAA
1 GAGATAAATTAA
3921033 GAGATAAATT
1 GAGATAAATT
3921043 CAACTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.21
11 6 0.32
12 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
GAGATAAATTAA
Found at i:3924812 original size:23 final size:22
Alignment explanation
Indices: 3924782--3924826 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
3924772 TGTTAAGAGT
*
3924782 TATATTTT-TAATTGATATTTAA
1 TATATTTTATAA-TGAAATTTAA
3924804 TATACTTTTATAATGAAATTTAA
1 TATA-TTTTATAATGAAATTTAA
3924827 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
TATATTTTATAATGAAATTTAA
Found at i:3926934 original size:26 final size:26
Alignment explanation
Indices: 3926861--3926936 Score: 102
Period size: 25 Copynumber: 3.0 Consensus size: 26
3926851 CAAAGTCCCG
* * *
3926861 ATTCATAGCTCGTGTGAGTAATTTAT
1 ATTCACAGCTCGTGTGAGCAAATTAT
*
3926887 -TTCACAGCTCGTGTTAGC-AATTAT
1 ATTCACAGCTCGTGTGAGCAAATTAT
3926911 ATTCACAGCTCGTGTGAGCAAATTAT
1 ATTCACAGCTCGTGTGAGCAAATTAT
3926937 GTCATGTGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
24 5 0.12
25 32 0.74
26 6 0.14
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTCACAGCTCGTGTGAGCAAATTAT
Found at i:3929171 original size:15 final size:16
Alignment explanation
Indices: 3929137--3929183 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
3929127 CAGTTATTCG
*
3929137 GAACAACCTCAATATTGA
1 GAACAA-CTC-ATGTTGA
3929155 GAACAACT-ATGTTGA
1 GAACAACTCATGTTGA
3929170 GAACAACTCATGTT
1 GAACAACTCATGTT
3929184 TGGAACAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
16 5 0.19
17 2 0.07
18 6 0.22
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (16 bp):
GAACAACTCATGTTGA
Found at i:3935405 original size:24 final size:24
Alignment explanation
Indices: 3935350--3935407 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
3935340 GTTACATAAA
* * *
3935350 AATTCAAAATACTAATTTAAAAAT
1 AATTTAAAATAATAATTCAAAAAT
** *
3935374 AAGATAAAATAATAATTCAAAATT
1 AATTTAAAATAATAATTCAAAAAT
3935398 AATTTAAAAT
1 AATTTAAAAT
3935408 CAAGATAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTAAAATAATAATTCAAAAAT
Found at i:3935406 original size:35 final size:37
Alignment explanation
Indices: 3935345--3935420 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
3935335 AGATAGTTAC
3935345 ATAAAAATTCAAAATACTAATTTAAAAAT-AAGATAA-A
1 ATAAAAATTCAAAATA-TAATTT-AAAATCAAGATAATA
*
3935382 ATAATAATTCAAAAT-TAATTTAAAATCAAGATAATA
1 ATAAAAATTCAAAATATAATTTAAAATCAAGATAATA
3935418 ATA
1 ATA
3935421 GCTAATCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 5 0.14
35 13 0.36
36 4 0.11
37 14 0.39
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (37 bp):
ATAAAAATTCAAAATATAATTTAAAATCAAGATAATA
Found at i:3937201 original size:28 final size:28
Alignment explanation
Indices: 3937151--3937204 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
3937141 AACTTAACCT
**
3937151 TTCTCTTCCCTTTTTTTTTTCTTTTCCA
1 TTCTCTTCCCTTTTTTAGTTCTTTTCCA
3937179 TTCT-TTCCCTTTTATTAGTTCTTTTC
1 TTCTCTTCCCTTTT-TTAGTTCTTTTC
3937205 TTCAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.06, C:0.26, G:0.02, T:0.67
Consensus pattern (28 bp):
TTCTCTTCCCTTTTTTAGTTCTTTTCCA
Found at i:3937875 original size:22 final size:22
Alignment explanation
Indices: 3937833--3937875 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3937823 AAATATTAAA
* *
3937833 ATATATTTTTATTTGATATTTT
1 ATATATTTTTAATTGAAATTTT
3937855 ATATATTTTATAATT-AAATTT
1 ATATATTTT-TAATTGAAATTT
3937876 AAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATATTTTTAATTGAAATTTT
Found at i:3947995 original size:106 final size:106
Alignment explanation
Indices: 3947810--3948010 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
3947800 AAGCTTTAAG
*
3947810 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTTCTCGA
3947875 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
3947916 AGGATATTTGGCTATTTGGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTTCTCGA
3947981 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
3948011 GAAAATTTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:3948530 original size:38 final size:38
Alignment explanation
Indices: 3948471--3948576 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
3948461 TATTTTTAAG
*
3948471 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
3948508 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
3948546 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
3948577 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:3948911 original size:22 final size:23
Alignment explanation
Indices: 3948855--3948911 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
3948845 AGTTTAAAAT
3948855 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
3948878 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
3948899 AAAATATATAAAA
1 AAAATATATAAAA
3948912 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:3949640 original size:13 final size:13
Alignment explanation
Indices: 3949622--3949646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3949612 AAATGCGTAG
3949622 ATAAATAAATGAA
1 ATAAATAAATGAA
3949635 ATAAATAAATGA
1 ATAAATAAATGA
3949647 TAGATGATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:3954401 original size:85 final size:85
Alignment explanation
Indices: 3954297--3954467 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
3954287 TTATCAATCT
3954297 CCTCAAAAACATTCCAATACATCCAAGGCTTGATTCCCATTGTTAACAATCCAACTCATAACATT
1 CCTCAAAAACATTCCAATACATCCAAGGCTTGATTCCCATTGTTAACAATCCAACTCATAACATT
3954362 ACAGGCATAAGATTCGATAA
66 ACAGGCATAAGATTCGATAA
3954382 CCTCAAAAACATTCCAATACATCCAAGGCTTGATTCCCATTGTTAACAATCCAACTCATAACATT
1 CCTCAAAAACATTCCAATACATCCAAGGCTTGATTCCCATTGTTAACAATCCAACTCATAACATT
3954447 ACAGGCATAAGATTCGATAA
66 ACAGGCATAAGATTCGATAA
3954467 C
1 C
3954468 AAGACAGTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (85 bp):
CCTCAAAAACATTCCAATACATCCAAGGCTTGATTCCCATTGTTAACAATCCAACTCATAACATT
ACAGGCATAAGATTCGATAA
Found at i:3955455 original size:16 final size:16
Alignment explanation
Indices: 3955434--3955467 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3955424 TTGGACTTTC
3955434 TTAGGTGTAAAATAAT
1 TTAGGTGTAAAATAAT
3955450 TTAGGTGTAAAATAAT
1 TTAGGTGTAAAATAAT
3955466 TT
1 TT
3955468 GTAGGATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
TTAGGTGTAAAATAAT
Found at i:3959331 original size:45 final size:45
Alignment explanation
Indices: 3959273--3959959 Score: 891
Period size: 45 Copynumber: 15.3 Consensus size: 45
3959263 GCAGGAAAGT
*
3959273 AAGATCTGTTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
*
3959318 AAGATCTGCTATCTTCAGTCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
* * *
3959363 AAGA-CTTGCTATATTC-GATCTACTTCGCTGCCAGTACAGAAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
* *
3959408 ATGATCTGCTATCTTCAGTCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
* * *
3959453 GAGA-CTTGCTATCTTC-GATCTACTTTGTTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
3959498 AAGATCTGCTATCTTCAGTCTACCTT-GCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTA-CTTCGCTGCCAATACAGGAAGAC
*
3959543 AAGA-CTTGCTATCTTC-GATCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
* *
3959588 AAGATCTGCTATCTTTAGTCTACTTCGCTGCCAATACAGGAAGAT
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
*
3959633 AAGA-CTTGCTATCTTC-GATCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
* * * * * *
3959678 AATATATGTTATCTTCAGTCTATTTTGCTGCCAATACAGGAAGAT
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
*
3959723 AAGA-CTTGCTATCTT-TGATCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
3959768 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
*
3959813 AAGA-CTTGCTATCTTC-GATCTACTTCGCTACCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
* ** *
3959858 AATATCTATTATCTTCAGTCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
3959903 AAGA-CTTGCTATCTTC-GATCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATC-TGCTATCTTCAG-TCTACTTCGCTGCCAATACAGGAAGAC
*
3959948 AAGATCTACTAT
1 AAGATCTGCTAT
3959960 AATGACTTCA
Statistics
Matches: 567, Mismatches: 46, Indels: 58
0.85 0.07 0.09
Matches are distributed among these distances:
44 16 0.03
45 536 0.95
46 15 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
AAGATCTGCTATCTTCAGTCTACTTCGCTGCCAATACAGGAAGAC
Done.