Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 240 of 425
Found at i:73452168 original size:29 final size:30
Alignment explanation
Indices: 73452135--73452196 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
73452125 CCTTTTCATG
73452135 TTTCATATTCCATAACACT-GCCGAAGCCT
1 TTTCATATTCCATAACACTGGCCGAAGCCT
* **
73452164 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACT-GGCCGAAGCCT
73452195 TT
1 TT
73452197 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.57
31 12 0.43
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (30 bp):
TTTCATATTCCATAACACTGGCCGAAGCCT
Found at i:73452468 original size:24 final size:24
Alignment explanation
Indices: 73452388--73452506 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
73452378 GCTTTATCAT
* *
73452388 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
73452413 ATAACTGGGGTA-AGAGCCCTTTT-
1 ATAACTGGGGCATA-AGCCCTTTTG
73452436 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
73452460 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
73452484 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
73452507 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 20 0.23
24 55 0.63
25 12 0.14
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:73452581 original size:20 final size:20
Alignment explanation
Indices: 73452556--73452616 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
73452546 TTATGATTAC
73452556 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
73452576 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
73452596 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
73452616 A
1 A
73452617 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:73452691 original size:25 final size:25
Alignment explanation
Indices: 73452659--73452706 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
73452649 ATACATAAAC
* * *
73452659 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
73452684 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
73452707 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:73454327 original size:27 final size:27
Alignment explanation
Indices: 73453944--73454316 Score: 448
Period size: 27 Copynumber: 13.8 Consensus size: 27
73453934 GGGTATTTTA
* * *
73453944 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
73453971 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
73453998 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
73454025 GTAATTCTGTAAATCTAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
73454052 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
73454079 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
* * *
73454106 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
73454133 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
73454160 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
**
73454187 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
73454214 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
73454241 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
73454268 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
73454295 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
73454317 CTTTGGTAAT
Statistics
Matches: 308, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.01
27 302 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:73454338 original size:27 final size:27
Alignment explanation
Indices: 73454267--73454543 Score: 242
Period size: 27 Copynumber: 10.3 Consensus size: 27
73454257 AGGGTAAAAC
* ****
73454267 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCTAGGGTATTTT
* * * *
73454294 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCTAGGGTATTTT
* * *
73454321 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCTAGGGTATTTT
** ** *
73454348 AATAATTTTACAGGTC-AGGGTATTTC
1 GGTAATTTTACAAATCTAGGGTATTTT
* *
73454374 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCTA-GGGTATTTT
*
73454401 GGTAATTTTAGAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCTA-GGGTATTTT
*
73454428 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCTA-GGGTATTTT
73454455 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCTA-GGGTATTTT
* * *
73454482 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCTAGGGTATTTT
* *
73454509 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCTAGGGTATTTT
73454535 GGTAATTTT
1 GGTAATTTT
73454544 GTAAACCAAA
Statistics
Matches: 215, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 40 0.19
27 173 0.80
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCTAGGGTATTTT
Found at i:73454373 original size:26 final size:27
Alignment explanation
Indices: 73454323--73454386 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
73454313 GGTACTTTGG
73454323 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
73454350 TAATTTTACAGGTC-AGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
73454376 TAATTTCACAA
1 TAATTTTACAA
73454387 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:73454481 original size:81 final size:80
Alignment explanation
Indices: 73454312--73454543 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 80
73454302 TATAAATCGA
* * ** * * * * **
73454312 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTAGAAACCAAGGGTATTTTAGTAATTTTACAAAG-CAGGGTATTTTGG
* *
73454376 TAATTTCACAAATTAG
65 TAATTTTACAAACTAG
* *
73454392 GGGTATTTTGGTAATTTTAGAAACTAGGGGTATTTT-GATAATTTTACAAA-CTAGGGGTATTTT
1 GGGTATTTTGGTAATTTTAGAAACCAAGGGTATTTTAG-TAATTTTACAAAGC-A-GGGTATTTT
73454455 GGTAATTTTACAAACTAG
63 GGTAATTTTACAAACTAG
*
73454473 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGCAGGGTATTTTGGT
1 GGGTATTTTGGTAATTTTAGAAACCAAGGGTATTTTAGTAATTTTACAAAGCAGGGTATTTTGGT
73454538 AATTTT
66 AATTTT
73454544 GTAAACCAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 56 0.43
81 70 0.54
82 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTAGAAACCAAGGGTATTTTAGTAATTTTACAAAGCAGGGTATTTTGGT
AATTTTACAAACTAG
Found at i:73454557 original size:26 final size:26
Alignment explanation
Indices: 73454393--73454560 Score: 165
Period size: 27 Copynumber: 6.3 Consensus size: 26
73454383 ACAAATTAGG
* * *
73454393 GGTATTTTGGTAATTTTAGAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
73454420 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
73454447 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
73454474 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
73454500 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
73454527 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
73454553 AGTATTTT
1 GGTATTTT
73454561 AAACATGGAT
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 28 0.23
27 96 0.77
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:73455372 original size:85 final size:85
Alignment explanation
Indices: 73455229--73455400 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
73455219 CCAAGGCTTG
*
73455229 AACCCAAGCTCCCATACAACCTTAATGACGCCACAACCACTAGACTACATGCTTCCTTGTGTCAT
1 AACCCAAGCTCCCATACAACCTTAATGACACCACAACCACTAGACTACATGCTTCCTTGTGTCAT
73455294 TTATTTACCACAATAATTTA
66 TTATTTACCACAATAATTTA
73455314 AACCCAAGCTCCCATACAACCTTAATGACACCACAACCACTAGACTACATGCTTCCTTGTGTCAT
1 AACCCAAGCTCCCATACAACCTTAATGACACCACAACCACTAGACTACATGCTTCCTTGTGTCAT
73455379 TTATTTACCACAATAATTTA
66 TTATTTACCACAATAATTTA
73455399 AA
1 AA
73455401 AGGCCCTCAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (85 bp):
AACCCAAGCTCCCATACAACCTTAATGACACCACAACCACTAGACTACATGCTTCCTTGTGTCAT
TTATTTACCACAATAATTTA
Found at i:73457409 original size:31 final size:31
Alignment explanation
Indices: 73457374--73457437 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
73457364 CTTTTTCATG
73457374 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
73457405 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
73457436 TT
1 TT
73457438 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:73457915 original size:85 final size:85
Alignment explanation
Indices: 73457770--73457941 Score: 326
Period size: 85 Copynumber: 2.0 Consensus size: 85
73457760 CGAAGGCTTG
73457770 AACCCAAGCTCCCATACAACCTTAATGACGCCACAACCACTAGACTACATGCTTCATTGTGTCAT
1 AACCCAAGCTCCCATACAACCTTAATGACGCCACAACCACTAGACTACATGCTTCATTGTGTCAT
73457835 TTATTTACCACAATAATTTA
66 TTATTTACCACAATAATTTA
* *
73457855 AACCCAAGCTCCCGTACAACCTTAATGACGCCACAACCACTAGACTACATGCTTCCTTGTGTCAT
1 AACCCAAGCTCCCATACAACCTTAATGACGCCACAACCACTAGACTACATGCTTCATTGTGTCAT
73457920 TTATTTACCACAATAATTTA
66 TTATTTACCACAATAATTTA
73457940 AA
1 AA
73457942 AGGCCCTCAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.28
Consensus pattern (85 bp):
AACCCAAGCTCCCATACAACCTTAATGACGCCACAACCACTAGACTACATGCTTCATTGTGTCAT
TTATTTACCACAATAATTTA
Found at i:73460846 original size:40 final size:40
Alignment explanation
Indices: 73460785--73460988 Score: 248
Period size: 40 Copynumber: 5.1 Consensus size: 40
73460775 CGGAATTTAG
* * * *
73460785 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
73460825 CCGGGTATAGCAACTCGCACAAATGCCTTCAGGTCTTAGC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* *
73460865 TCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
*
73460905 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
73460945 CCGAATATAATC-ACTAGCATAAATGCCTTCGGGGCTTAGC
1 CCGGATAT-AGCAACTAGCACAAATGCCTTCGGGTCTTAAC
73460985 CCGG
1 CCGG
73460989 GTATCATTCA
Statistics
Matches: 139, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 137 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:73460919 original size:80 final size:78
Alignment explanation
Indices: 73460781--73460988 Score: 290
Period size: 80 Copynumber: 2.6 Consensus size: 78
73460771 TCTTCGGAAT
* * *
73460781 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
73460846 AATGCCTTCAGGTC
65 AATGCCTTCAGGTC
73460860 TTAGCTCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGC-CGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
*
73460925 AAATGCCTTCGGGTC
64 AAATGCCTTCAGGTC
* * * * *
73460940 TTAACCCGAATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
1 TT-AGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGG
73460989 GTATCATTCA
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 6 0.05
80 107 0.92
81 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
TTAGCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAA
ATGCCTTCAGGTC
Found at i:73464975 original size:27 final size:27
Alignment explanation
Indices: 73464945--73464999 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
73464935 GTGAAATGTG
73464945 TTTATTTTGATGTTTTATGGTAGAATA
1 TTTATTTTGATGTTTTATGGTAGAATA
73464972 TTTATTTTGATGTTTTATGGTAGAATA
1 TTTATTTTGATGTTTTATGGTAGAATA
73464999 T
1 T
73465000 GAAGCTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.56
Consensus pattern (27 bp):
TTTATTTTGATGTTTTATGGTAGAATA
Found at i:73467016 original size:16 final size:16
Alignment explanation
Indices: 73466997--73467033 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
73466987 TCTTGAGATA
73466997 TGTTTACTACGAGAAT
1 TGTTTACTACGAGAAT
73467013 TGTTTACTACGAGAAT
1 TGTTTACTACGAGAAT
73467029 TGTTT
1 TGTTT
73467034 GAACTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (16 bp):
TGTTTACTACGAGAAT
Found at i:73469602 original size:40 final size:40
Alignment explanation
Indices: 73469517--73469667 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
73469507 AATTGAATGA
* * *
73469517 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
73469557 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
73469598 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
73469637 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
73469668 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:73469681 original size:40 final size:40
Alignment explanation
Indices: 73469554--73469683 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
73469544 ATGCTGGAAA
* * * *
73469554 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
73469594 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
73469634 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
73469674 TTATATCCGG
1 TTATATCCGG
73469684 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:73474632 original size:40 final size:40
Alignment explanation
Indices: 73474547--73474697 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
73474537 AATTGAATGA
* * *
73474547 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
73474587 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
73474628 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
73474667 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
73474698 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:73474711 original size:40 final size:40
Alignment explanation
Indices: 73474584--73474713 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
73474574 ATGCTGGAAA
* * * *
73474584 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
73474624 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
73474664 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
73474704 TTATATCCGG
1 TTATATCCGG
73474714 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:73476503 original size:9 final size:9
Alignment explanation
Indices: 73476479--73476517 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
73476469 TCGAATCAAG
*
73476479 TTAATCGAG
1 TTAATCGAA
73476488 TTAATCGAA
1 TTAATCGAA
73476497 TTAATCGAA
1 TTAATCGAA
*
73476506 TCAACTCGAA
1 TTAA-TCGAA
73476516 TT
1 TT
73476518 TTTTTTTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (9 bp):
TTAATCGAA
Found at i:73476516 original size:19 final size:18
Alignment explanation
Indices: 73476460--73476517 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
73476450 AATTTGAATT
*
73476460 TCGAATTATTCGAATCAA
1 TCGAATTAATCGAATCAA
* *
73476478 --G--TTAATCGAGTTAA
1 TCGAATTAATCGAATCAA
73476492 TCGAATTAATCGAATCAA
1 TCGAATTAATCGAATCAA
73476510 CTCGAATT
1 -TCGAATT
73476518 TTTTTTTCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 9
0.68 0.11 0.20
Matches are distributed among these distances:
14 10 0.33
16 2 0.07
18 11 0.37
19 7 0.23
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
TCGAATTAATCGAATCAA
Found at i:73476618 original size:11 final size:11
Alignment explanation
Indices: 73476604--73476628 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73476594 ATAAACAATA
73476604 TTTTTTAAAAT
1 TTTTTTAAAAT
73476615 TTTTTTAAAAT
1 TTTTTTAAAAT
73476626 TTT
1 TTT
73476629 AAACTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:73494960 original size:18 final size:18
Alignment explanation
Indices: 73494937--73494972 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
73494927 ATTTAAATAA
73494937 TTTATTA-ATTCTTTTTAT
1 TTTATTATATT-TTTTTAT
73494955 TTTATTATATTTTTTTAT
1 TTTATTATATTTTTTTAT
73494973 CATATGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTATATTTTTTTAT
Found at i:73495188 original size:49 final size:50
Alignment explanation
Indices: 73495119--73495351 Score: 281
Period size: 49 Copynumber: 4.7 Consensus size: 50
73495109 ATCTATTGTA
*
73495119 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
73495169 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
73495219 CGATCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
73495269 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
73495319 -GGTCGCATGTGAAATACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
73495352 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 72 0.46
50 45 0.29
51 38 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:73495316 original size:101 final size:98
Alignment explanation
Indices: 73495122--73495363 Score: 295
Period size: 100 Copynumber: 2.4 Consensus size: 98
73495112 TATTGTAAGG
* * *
73495122 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCACATGTGTAGTACT
1 TCACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
*
73495187 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * * * *
73495222 TCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTAC
* * ** *
73495287 TAAGTGCAGGCTACTACGTGTTCTGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * * *
73495321 TCGCATGTGAAATACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TCACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGAT
73495364 AGCTTTGGCT
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 37 0.31
100 43 0.36
101 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:73497267 original size:12 final size:12
Alignment explanation
Indices: 73497250--73497278 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
73497240 GTACTCAAAG
73497250 AAACGATCACAA
1 AAACGATCACAA
73497262 AAACGATCACAA
1 AAACGATCACAA
73497274 AAACG
1 AAACG
73497279 TATAAATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.24, G:0.10, T:0.07
Consensus pattern (12 bp):
AAACGATCACAA
Found at i:73498487 original size:42 final size:42
Alignment explanation
Indices: 73498372--73498526 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
73498362 TACCATACCA
* * *
73498372 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATACCAGATATGGTCTTACACGAAG-TCTCGTATCG
73498414 ATGCCA-ATAGCCCA-ACTATGGTCTTACACGAAGTCTCGTATCG
1 ATGCCATATA--CCAGA-TATGGTCTTACACGAAGTCTCGTATCG
* **
73498457 ATGCCATATACCAGATATGGTCTTACACGAAGTCTCATATAA
1 ATGCCATATACCAGATATGGTCTTACACGAAGTCTCGTATCG
* * *
73498499 ATGTCATATCCCAGATATGATCTTACAC
1 ATGCCATATACCAGATATGGTCTTACAC
73498527 ATAGTCTTAG
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 59 0.60
43 33 0.34
44 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATACCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:73501529 original size:40 final size:39
Alignment explanation
Indices: 73501369--73501531 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
73501359 TGTGTATGAA
*
73501369 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
73501408 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
73501447 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
73501486 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
73501526 TGTGCG
1 TGTGCG
73501532 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:73501547 original size:40 final size:39
Alignment explanation
Indices: 73501369--73501562 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
73501359 TGTGTATGAA
* *
73501369 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
73501408 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
73501447 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
73501486 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
73501526 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
73501563 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:73509446 original size:40 final size:39
Alignment explanation
Indices: 73509288--73509448 Score: 259
Period size: 39 Copynumber: 4.1 Consensus size: 39
73509278 GTGTATGAAT
*
73509288 TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
*
73509327 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGG
1 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
* *
73509366 TGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
* *
73509405 TGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTG
1 TGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATTG
73509445 TGCG
1 TGCG
73509449 GGTTACCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
Found at i:73509464 original size:40 final size:39
Alignment explanation
Indices: 73509288--73509479 Score: 249
Period size: 39 Copynumber: 4.9 Consensus size: 39
73509278 GTGTATGAAT
* *
73509288 TGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
* *
73509327 TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGG
1 TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
*
73509366 TGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTG
1 TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
* * *
73509405 TGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTG
1 TGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATTG
* ** * *
73509445 TGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
73509480 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 95 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTG
Found at i:73515666 original size:30 final size:30
Alignment explanation
Indices: 73515620--73515680 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
73515610 TTCCCGAGCC
73515620 TAGGAGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGAGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
73515650 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGAGCAAAAGTGTAAATATGCAAAAGTT
73515680 T
1 T
73515681 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (30 bp):
TAGGAGCAAAAGTGTAAATATGCAAAAGTT
Found at i:73515938 original size:23 final size:23
Alignment explanation
Indices: 73515911--73515958 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
73515901 GTATTGAAAG
73515911 TATGTAAGTTGGTATGATAATAA
1 TATGTAAGTTGGTATGATAATAA
73515934 TATGTAAGTTGGTATGATAATAA
1 TATGTAAGTTGGTATGATAATAA
73515957 TA
1 TA
73515959 CAACAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (23 bp):
TATGTAAGTTGGTATGATAATAA
Found at i:73516486 original size:68 final size:67
Alignment explanation
Indices: 73516414--73516563 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
73516404 CATCATGTGT
* * * *
73516414 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
73516476 ATGTAG
62 ATGTAG
** * *
73516482 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
73516547 AG
66 AG
73516549 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
73516564 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:73516519 original size:64 final size:64
Alignment explanation
Indices: 73516438--73516621 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
73516428 AGACATTATG
* *
73516438 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
73516502 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
73516567 AA
63 AA
* * * *
73516569 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
73516622 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:73519788 original size:13 final size:13
Alignment explanation
Indices: 73519770--73519796 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73519760 CGTGTGGGTG
73519770 CACACGGCCGTGT
1 CACACGGCCGTGT
73519783 CACACGGCCGTGT
1 CACACGGCCGTGT
73519796 C
1 C
73519797 TGGCATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGCCGTGT
Found at i:73522916 original size:3 final size:3
Alignment explanation
Indices: 73522903--73522939 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
73522893 AAAAGTAAAT
73522903 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73522940 ATTAAATTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:73538561 original size:46 final size:44
Alignment explanation
Indices: 73538502--73538616 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
73538492 ACAGGACAGA
* *
73538502 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
73538548 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
73538592 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
73538617 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:73538597 original size:44 final size:45
Alignment explanation
Indices: 73538502--73538635 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
73538492 ACAGGACAGA
* *
73538502 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
73538548 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
73538592 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
73538636 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:73544702 original size:46 final size:44
Alignment explanation
Indices: 73544643--73544757 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
73544633 ACAGGACAGA
* *
73544643 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
73544689 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
73544733 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
73544758 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:73544738 original size:44 final size:45
Alignment explanation
Indices: 73544643--73544776 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
73544633 ACAGGACAGA
* *
73544643 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
73544689 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
73544733 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
73544777 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:73550836 original size:46 final size:44
Alignment explanation
Indices: 73550777--73550891 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
73550767 ACAGGACAGA
* *
73550777 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
73550823 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
73550867 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
73550892 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:73550872 original size:44 final size:45
Alignment explanation
Indices: 73550777--73550910 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
73550767 ACAGGACAGA
* *
73550777 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
73550823 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
73550867 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
73550911 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:73558435 original size:93 final size:93
Alignment explanation
Indices: 73558328--73558513 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
73558318 CCATACATCA
73558328 TTCAATCTCAAACTAAACTTACCAAAACTTACTTACTACAACATACCACAATTACATATTAACAT
1 TTCAATCTCAAACTAAACTTACCAAAACTTACTTACTACAACATACCACAATTACATATTAACAT
73558393 CACCTACCATAAGCCATTATCAATTATG
66 CACCTACCATAAGCCATTATCAATTATG
73558421 TTCAATCTCAAACTAAACTTACCAAAACTTACTTACTACAACATACCACAATTACATATTAACAT
1 TTCAATCTCAAACTAAACTTACCAAAACTTACTTACTACAACATACCACAATTACATATTAACAT
73558486 CACCTACCATAAGCCATTATCAATTATG
66 CACCTACCATAAGCCATTATCAATTATG
73558514 AGTTTAAACA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (93 bp):
TTCAATCTCAAACTAAACTTACCAAAACTTACTTACTACAACATACCACAATTACATATTAACAT
CACCTACCATAAGCCATTATCAATTATG
Found at i:73560425 original size:49 final size:49
Alignment explanation
Indices: 73560369--73560600 Score: 277
Period size: 49 Copynumber: 4.7 Consensus size: 49
73560359 CTGGTATGCA
* *
73560369 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATATACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
* * ** *
73560418 TAGTAGCCTTCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGATACACG
* * * * * *
73560468 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGATACACG
* *
73560519 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCC-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGA-TACACG
*
73560568 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
73560601 TCACAATAGA
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
49 69 0.45
50 47 0.31
51 38 0.25
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
Found at i:73560591 original size:100 final size:99
Alignment explanation
Indices: 73560369--73560600 Score: 297
Period size: 100 Copynumber: 2.3 Consensus size: 99
73560359 CTGGTATGCA
* * * * *
73560369 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATATACGTAGTAGCCTTCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
* * *
73560434 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCAGATACACG
* * * *
73560468 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACATAGTAGCCTGCACT
* *
73560533 TAGTACTACACATGCGACC-AATAATCCAG-TACACG
64 TAGTACTACACACGCGACCTAACAAT-CAGATACACG
73560568 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
73560601 TCACAATAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 41 0.36
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACAATCAGATACACG
Found at i:73560877 original size:27 final size:27
Alignment explanation
Indices: 73560847--73560900 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
73560837 TCATACAACC
* *
73560847 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
73560874 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
73560901 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:73562705 original size:13 final size:13
Alignment explanation
Indices: 73562687--73562712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73562677 TTTTATATTT
73562687 TATATAAAATATA
1 TATATAAAATATA
73562700 TATATAAAATATA
1 TATATAAAATATA
73562713 AAAAAAGGTA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATATAAAATATA
Found at i:73564194 original size:29 final size:29
Alignment explanation
Indices: 73564152--73564209 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
73564142 TATCTTCTAT
* *
73564152 TAGGAATAGCGTTTTGATATGATAATAAA
1 TAGGAATAACGTTTCGATATGATAATAAA
73564181 TAGGAATAACGTTTCGATATGATAATAAA
1 TAGGAATAACGTTTCGATATGATAATAAA
73564210 AATGGGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (29 bp):
TAGGAATAACGTTTCGATATGATAATAAA
Found at i:73575984 original size:21 final size:21
Alignment explanation
Indices: 73575942--73575984 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
73575932 AGCACATGTA
* *
73575942 TTCATAAAATTTTATAATTTT
1 TTCATAAAATTTTACAACTTT
*
73575963 TTCATCAAATTTTACAACTTT
1 TTCATAAAATTTTACAACTTT
73575984 T
1 T
73575985 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
TTCATAAAATTTTACAACTTT
Found at i:73579688 original size:26 final size:26
Alignment explanation
Indices: 73579638--73579688 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
73579628 ATTTCCCTTT
*
73579638 TCTTTTTCTTTCCTTCTTTCTTTCTC
1 TCTTTTTCTTTCCTTCTTTCGTTCTC
*
73579664 TCTTTTTCGTTTCTTTCTTT-GTTCT
1 TCTTTTTC-TTTCCTTCTTTCGTTCT
73579689 TATTCTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (26 bp):
TCTTTTTCTTTCCTTCTTTCGTTCTC
Found at i:73579722 original size:21 final size:22
Alignment explanation
Indices: 73579688--73579741 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
73579678 TTCTTTGTTC
* * *
73579688 TTATTCTTTTGTTTTATTTTAT
1 TTATTATTATGTTTTATTATAT
73579710 TTATT-TTATGTTTTATTATAT
1 TTATTATTATGTTTTATTATAT
73579731 TATATTATTAT
1 T-TATTATTAT
73579742 ATCTTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.54
22 9 0.32
23 4 0.14
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTATTATTATGTTTTATTATAT
Found at i:73584211 original size:40 final size:39
Alignment explanation
Indices: 73584062--73584244 Score: 267
Period size: 39 Copynumber: 4.6 Consensus size: 39
73584052 AATGTTCGAG
73584062 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
73584101 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
73584140 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
73584179 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
73584219 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
73584245 GTTTGAACGA
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 90 0.69
40 41 0.31
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:73588761 original size:15 final size:16
Alignment explanation
Indices: 73588741--73588770 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
73588731 ATAATAACAA
73588741 TACTTACC-TTTATAC
1 TACTTACCATTTATAC
73588756 TACTTACCATTTATA
1 TACTTACCATTTATA
73588771 TATAATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (16 bp):
TACTTACCATTTATAC
Found at i:73589390 original size:4 final size:4
Alignment explanation
Indices: 73589381--73589444 Score: 60
Period size: 4 Copynumber: 16.2 Consensus size: 4
73589371 CCTTTTTCTT
* ** * *
73589381 TTTC TTTC TTTC CTTC TTTC TTTC CCTC TTTC CTTC TTTC TTTC TCTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
73589429 -TT- TTTC GTTTC TTTC T
1 TTTC TTTC -TTTC TTTC T
73589445 CTGTTCTTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
3 3 0.06
4 40 0.85
5 4 0.09
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:73589397 original size:12 final size:12
Alignment explanation
Indices: 73589371--73589425 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
73589361 CCTAAATTTC
73589371 CCTT-TTTCTTT
1 CCTTCTTTCTTT
73589382 --TTCTTTCTTT
1 CCTTCTTTCTTT
73589392 CCTTCTTTCTTT
1 CCTTCTTTCTTT
* *
73589404 CCCTCTTTCCTT
1 CCTTCTTTCTTT
*
73589416 CTTTCTTTCT
1 CCTTCTTTCT
73589426 CTCTTTTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 2 0.06
10 7 0.19
12 27 0.75
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
CCTTCTTTCTTT
Found at i:73589410 original size:20 final size:20
Alignment explanation
Indices: 73589387--73589443 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
73589377 TCTTTTTCTT
73589387 TCTTTCCTTCTTTCTTTCCC
1 TCTTTCCTTCTTTCTTTCCC
*
73589407 TCTTTCCTTCTTTCTTTCTC
1 TCTTTCCTTCTTTCTTTCCC
73589427 TCTTT--TTCGTTTCTTTC
1 TCTTTCCTTC-TTTCTTTC
73589444 TCTGTTCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 3 0.09
19 8 0.23
20 24 0.69
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (20 bp):
TCTTTCCTTCTTTCTTTCCC
Found at i:73589504 original size:8 final size:8
Alignment explanation
Indices: 73589493--73589525 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
73589483 TTTTATTATG
73589493 TTATATTA
1 TTATATTA
73589501 TTATATTA
1 TTATATTA
*
73589509 ATATATTA
1 TTATATTA
73589517 TTATATTA
1 TTATATTA
73589525 T
1 T
73589526 ATACTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:73589526 original size:13 final size:13
Alignment explanation
Indices: 73589485--73589527 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
73589475 ATTTTATGTT
*
73589485 TTATTATGTTATA
1 TTATTATATTATA
73589498 TTATTATATTAATATA
1 TTATTATA-T--TATA
73589514 TTATTATATTATA
1 TTATTATATTATA
73589527 T
1 T
73589528 ACTTAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
15 1 0.04
16 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:73603660 original size:43 final size:44
Alignment explanation
Indices: 73603592--73603736 Score: 115
Period size: 43 Copynumber: 3.4 Consensus size: 44
73603582 AAAGCTCATA
* *
73603592 CAATGCCAAC-GTCCCAAAC-GTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACTGTCCCAGACAG-GGTCTTACATGTAATAAAATAT
***
73603635 CAATGCC-ACTGTCCCAGACAGGGTCTTACACAAAATAAAATAT
1 CAATGCCAACTGTCCCAGACAGGGTCTTACATGTAATAAAATAT
* * * * *
73603678 -GATGCCGA-TGTCCCGGACATGGTCTTACATGTAA-AACATATGT
1 CAATGCCAACTGTCCCAGACAGGGTCTTACATGTAATAA-A-ATAT
*
73603721 CGATGCCAAC-GTCCCA
1 CAATGCCAACTGTCCCA
73603737 AATGTGGTCT
Statistics
Matches: 81, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.36
43 37 0.46
44 13 0.16
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (44 bp):
CAATGCCAACTGTCCCAGACAGGGTCTTACATGTAATAAAATAT
Found at i:73611328 original size:42 final size:43
Alignment explanation
Indices: 73611229--73611384 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
73611219 AATGCCAACA
* * *
73611229 TCCCATACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAAACATGGTCTTACATGAAATCAAATATCGATGCCACTG
* * *
73611272 TCCCAGACAGGGTCTTACATGAAATTAAATAT-GATGCCGA-TG
1 TCCCAAACATGGTCTTACATGAAATCAAATATCGATGCC-ACTG
* *
73611314 TCCCAAACATGGTCTTACACGTAAATCATAA-GTCGATGCCAGC-G
1 TCCCAAACATGGTCTTACATG-AAATCA-AATATCGATGCCA-CTG
* * * *
73611358 TCCTAGACGTGGTCTTACACGAAATCA
1 TCCCAAACATGGTCTTACATGAAATCA
73611385 CATAACAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.28
43 41 0.44
44 27 0.29
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACATGAAATCAAATATCGATGCCACTG
Found at i:73613313 original size:23 final size:21
Alignment explanation
Indices: 73613277--73613331 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
73613267 ATGGCCTTGT
73613277 CACAC-GGC-TGTACCCCTGC
1 CACACGGGCATGTACCCCTGC
*
73613296 GCTACACGGGCATGTACCTCTGC
1 -C-ACACGGGCATGTACCCCTGC
*
73613319 CACACGGCCATGT
1 CACACGGGCATGT
73613332 GTGCTACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 15 0.50
22 4 0.13
23 10 0.33
ACGTcount: A:0.18, C:0.40, G:0.24, T:0.18
Consensus pattern (21 bp):
CACACGGGCATGTACCCCTGC
Found at i:73613683 original size:14 final size:14
Alignment explanation
Indices: 73613666--73613696 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
73613656 ATACATCCAA
73613666 ATACATACATCTGC
1 ATACATACATCTGC
*
73613680 ATACATTCATCTGC
1 ATACATACATCTGC
73613694 ATA
1 ATA
73613697 TAAATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (14 bp):
ATACATACATCTGC
Found at i:73616954 original size:21 final size:21
Alignment explanation
Indices: 73616928--73616992 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
73616918 GCCACTGCGC
* *
73616928 CACACAGGCGTTTGTCTCTGT
1 CACACAGGCGTGTGCCTCTGT
73616949 CACACAGGCGTGTGCCTCTGT
1 CACACAGGCGTGTGCCTCTGT
*
73616970 CACACGGGCGTGTGCCTCTGT
1 CACACAGGCGTGTGCCTCTGT
73616991 CA
1 CA
73616993 GACGACTGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.14, C:0.32, G:0.28, T:0.26
Consensus pattern (21 bp):
CACACAGGCGTGTGCCTCTGT
Found at i:73617003 original size:21 final size:21
Alignment explanation
Indices: 73616943--73617005 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
73616933 AGGCGTTTGT
73616943 CTCTGTCACACAGG-CGTGTGC
1 CTCTGTCACAC-GGACGTGTGC
*
73616964 CTCTGTCACACGGGCGTGTGC
1 CTCTGTCACACGGACGTGTGC
*
73616985 CTCTGTCAGAC-GACTGTGTGC
1 CTCTGTCACACGGAC-GTGTGC
73617006 TACCCTTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.13, C:0.32, G:0.30, T:0.25
Consensus pattern (21 bp):
CTCTGTCACACGGACGTGTGC
Found at i:73621410 original size:40 final size:40
Alignment explanation
Indices: 73621356--73621541 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
73621346 TGAATGATAC
* * *
73621356 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
73621395 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
73621435 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
73621475 CC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
73621514 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGTTAAGACCCGAAGGCATTTGTGC
73621542 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 45 0.34
40 87 0.65
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:73621570 original size:79 final size:79
Alignment explanation
Indices: 73621352--73621561 Score: 314
Period size: 79 Copynumber: 2.7 Consensus size: 79
73621342 CAATTGAATG
* * * *
73621352 ATACCCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCC-GGCTAAGACCCGAAGGCA
73621416 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
* * *
73621431 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAGACCCGAAGGCAT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGCTAAGACCCGAAGGCAT
73621496 TTGTGCGAGTTGCT
66 TTGTGCGAGTTGCT
* * *
73621510 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCTGGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGCTAA
73621562 ATTCCGAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 90 0.77
80 27 0.23
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:73623621 original size:17 final size:17
Alignment explanation
Indices: 73623599--73623633 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
73623589 ATATCATCAG
73623599 AGATTTGTTGATCAAAA
1 AGATTTGTTGATCAAAA
73623616 AGATTTGTTGATCAAAA
1 AGATTTGTTGATCAAAA
73623633 A
1 A
73623634 CGGAAGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
AGATTTGTTGATCAAAA
Found at i:73629491 original size:40 final size:40
Alignment explanation
Indices: 73629435--73629638 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
73629425 TGAATGATAC
* * * *
73629435 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
73629475 CCGGGTTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
73629515 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
73629555 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
73629594 CTCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 C-CGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
73629635 CCGG
1 CCGG
73629639 CTAAATTCCG
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 141 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:73633482 original size:26 final size:25
Alignment explanation
Indices: 73633431--73633482 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
73633421 CTTAACCCTA
* *
73633431 AGGGTATATCAGTAATTTTACTCCT
1 AGGGTAAATCAGTAATTTTACACCT
* *
73633456 AGGGTAAATCTGTAAATTTTCCACCT
1 AGGGTAAATCAGT-AATTTTACACCT
73633482 A
1 A
73633483 TAAAGGTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (25 bp):
AGGGTAAATCAGTAATTTTACACCT
Found at i:73638671 original size:75 final size:75
Alignment explanation
Indices: 73638534--73638784 Score: 318
Period size: 75 Copynumber: 3.3 Consensus size: 75
73638524 TCGAATGATG
* * *
73638534 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-ATCCGGA--AAG-TCCGAAGGCATTT
73638599 GTGCGAGTTACTAAT
61 GTGCGAGTTACTAAT
73638614 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAATCCGGAAAGTCCGAAGGCATTTGTGC
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTAATCCGGAAAGTCCGAAGGCATTTGTGC
73638678 GAGTTACTAAT
65 GAGTTACTAAT
*
73638689 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAATCCGGGTTAAGT-C---GGCATTTGTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAATCC-GG-AAAGTCCGAAGGCATTTGTG
73638749 CGAGTTACT-AT
64 CGAGTTACTAAT
* *
73638760 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
73638785 TGAACGAGTA
Statistics
Matches: 160, Mismatches: 6, Indels: 17
0.87 0.03 0.09
Matches are distributed among these distances:
71 2 0.01
72 28 0.17
73 12 0.08
74 17 0.11
75 54 0.34
76 7 0.04
78 7 0.04
79 18 0.11
80 15 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (75 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAATCCGGAAAGTCCGAAGGCATTTGTGCG
AGTTACTAAT
Found at i:73638678 original size:36 final size:38
Alignment explanation
Indices: 73638534--73638786 Score: 288
Period size: 40 Copynumber: 6.7 Consensus size: 38
73638524 TCGAATGATG
* *
73638534 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTA-A
*
73638574 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
* *
73638613 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
*
73638652 TCC-GG-AAAGTCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
*
73638688 TTCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
*
73638726 TCCGGGTTAAGT-C---GGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-A
* *
73638761 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
73638787 AACGAGTAGC
Statistics
Matches: 184, Mismatches: 16, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
33 4 0.02
34 15 0.08
35 10 0.05
36 29 0.16
37 16 0.09
38 21 0.11
39 38 0.21
40 43 0.23
41 8 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:73646830 original size:38 final size:40
Alignment explanation
Indices: 73646719--73646836 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
73646709 TCGAATGATG
* * * *
73646719 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACT-ATA
1 TCCGGGCTAAGACCCGAAGGCATTGTGC-GAGTTACTAATA
* *
73646759 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTACTAATA
73646799 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTACTAAT
73646837 CATGCGAAGG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
38 17 0.25
39 9 0.13
40 34 0.50
41 8 0.12
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTACTAATA
Found at i:73646931 original size:86 final size:85
Alignment explanation
Indices: 73646772--73646936 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
73646762 GGACTAAGAT
* *
73646772 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAT
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTCACTAAG
73646837 CATGCGAAGGCATTGAGTTA
66 CATGCGAAGGCATTGAGTTA
* *
73646857 CCGAAGGACATTTGTGCGAGTTACTTAA-TCC-GGTTAAGTCCGAAGGC-TTGT-CGAGTCA-TA
1 CCGAAGG-CATTTGTGCGAGTTAC-TAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTCACTA
73646917 ACGCTATGTCCGAAGGCATT
64 A-GC-ATG--CGAAGGCATT
73646937 TGAACGAGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
82 3 0.04
83 7 0.10
84 7 0.10
85 21 0.30
86 29 0.41
87 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (85 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTCACTAAG
CATGCGAAGGCATTGAGTTA
Found at i:73652474 original size:40 final size:40
Alignment explanation
Indices: 73652389--73652539 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
73652379 AATTGAATGA
* * *
73652389 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
73652429 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
73652470 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
73652509 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
73652540 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:73652553 original size:40 final size:40
Alignment explanation
Indices: 73652426--73652555 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
73652416 ATGCTGGAAA
* * * *
73652426 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
73652466 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
73652506 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
73652546 TTATATCCGG
1 TTATATCCGG
73652556 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:73653938 original size:14 final size:14
Alignment explanation
Indices: 73653916--73653967 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
73653906 TGTTACAGTG
*
73653916 CATCTGCATTCATA
1 CATCTGCATACATA
*
73653930 CATCCGCATACATA
1 CATCTGCATACATA
73653944 CATCTGCATACATA
1 CATCTGCATACATA
73653958 CATCTGCATA
1 CATCTGCATA
73653968 TAAAGTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.29
Consensus pattern (14 bp):
CATCTGCATACATA
Found at i:73657512 original size:8 final size:8
Alignment explanation
Indices: 73657495--73657589 Score: 52
Period size: 8 Copynumber: 11.4 Consensus size: 8
73657485 GCCCCTAATC
73657495 TTTTTA-T
1 TTTTTATT
73657502 TTTTTA--
1 TTTTTATT
73657508 TTTTTATT
1 TTTTTATT
*
73657516 TCTTTATT
1 TTTTTATT
* *
73657524 ATTCTATT
1 TTTTTATT
*
73657532 ATTTTATT
1 TTTTTATT
73657540 TTATTTAGTAAT
1 TT-TTTA-T--T
*
73657552 ATTATTATT
1 -TTTTTATT
73657561 TTTATTATT
1 TTT-TTATT
73657570 TCTTTTATT
1 T-TTTTATT
*
73657579 ATTTTATT
1 TTTTTATT
73657587 TTT
1 TTT
73657590 AGCCCCACTA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
6 6 0.09
7 6 0.09
8 31 0.45
9 16 0.23
10 3 0.04
11 1 0.01
12 4 0.06
13 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:73657537 original size:16 final size:13
Alignment explanation
Indices: 73657495--73657589 Score: 61
Period size: 13 Copynumber: 6.8 Consensus size: 13
73657485 GCCCCTAATC
73657495 TTTTTATTTTTTA
1 TTTTTATTTTTTA
73657508 TTTTTATTTCTTTA
1 TTTTTATTT-TTTA
73657522 TTATTCTATTATTTTA
1 TT-TT-TATT-TTTTA
*
73657538 -TTTTATTTAGTAATA
1 TTTTTATTT--T-TTA
*
73657553 TTATTA-TTTTTA
1 TTTTTATTTTTTA
*
73657565 TTATTTCTTTTATTA
1 TT-TTTATTTT-TTA
73657580 -TTTTATTTTT
1 TTTTTATTTTT
73657590 AGCCCCACTA
Statistics
Matches: 65, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
12 6 0.09
13 23 0.35
14 13 0.20
15 10 0.15
16 12 0.18
17 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:73657541 original size:29 final size:28
Alignment explanation
Indices: 73657497--73657582 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
73657487 CCCTAATCTT
73657497 TTTATT-TTTTATTTTTATTTCTTTATTA
1 TTTATTATTTTA-TTTTATTTCTTTATTA
** *
73657525 TTCTATTATTTTATTTTATTT-AGTAATA
1 TT-TATTATTTTATTTTATTTCTTTATTA
*
73657553 -TTATTATTTT-TATTATTTCTTTTATTA
1 TTTATTATTTTATTTTATTTC-TTTATTA
73657580 TTT
1 TTT
73657583 TATTTTTAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
25 7 0.15
26 9 0.20
27 5 0.11
28 8 0.17
29 12 0.26
30 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.73
Consensus pattern (28 bp):
TTTATTATTTTATTTTATTTCTTTATTA
Found at i:73657542 original size:21 final size:21
Alignment explanation
Indices: 73657496--73657588 Score: 54
Period size: 20 Copynumber: 4.4 Consensus size: 21
73657486 CCCCTAATCT
73657496 TTTTATTTT-TTATT-T-TTA
1 TTTTATTTTATTATTCTATTA
*
73657514 -TTT-CTTTATTATTCTATTA
1 TTTTATTTTATTATTCTATTA
** *
73657533 TTTTATTTTATT-TAGTAATA
1 TTTTATTTTATTATTCTATTA
73657553 TTATTATTTTTATTATTTCTTTTATTA
1 TT-TTA-TTTTATTA-TTC---TATTA
73657580 TTTTATTTT
1 TTTTATTTT
73657589 TAGCCCCACT
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.05
17 8 0.15
18 1 0.02
19 3 0.05
20 10 0.18
21 9 0.16
22 7 0.13
24 1 0.02
25 4 0.07
26 3 0.05
27 6 0.11
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (21 bp):
TTTTATTTTATTATTCTATTA
Found at i:73661568 original size:40 final size:39
Alignment explanation
Indices: 73661441--73661570 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
73661431 ATGCTGGAAA
* * *
73661441 TTATATCCAGGTTAAGACCCGAAGGCAATT-GTGTTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTG-CAGTGG
* * *
73661481 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
73661521 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
73661561 TTATATCCGG
1 TTATATCCGG
73661571 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:73669293 original size:40 final size:40
Alignment explanation
Indices: 73669166--73669295 Score: 167
Period size: 40 Copynumber: 3.2 Consensus size: 40
73669156 ATGCTGGAAA
*
73669166 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGG
* * *
73669206 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-ATGTGG
*
73669246 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
73669286 TTATATCCGG
1 TTATATCCGG
73669296 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
Found at i:73672870 original size:6 final size:6
Alignment explanation
Indices: 73672859--73672893 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
73672849 AGTTTATTTC
73672859 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
73672894 CTTGTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:73674016 original size:18 final size:19
Alignment explanation
Indices: 73673976--73674025 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
73673966 TAAGAAGCTT
*
73673976 TTTTTTATTCTTGCACTTA
1 TTTTTTATTCTAGCACTTA
* *
73673995 TTTTTTATTC-AGCATTTG
1 TTTTTTATTCTAGCACTTA
*
73674013 TTTTTTTTTCTAG
1 TTTTTTATTCTAG
73674026 TTTGGTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.14, C:0.12, G:0.08, T:0.66
Consensus pattern (19 bp):
TTTTTTATTCTAGCACTTA
Found at i:73674689 original size:34 final size:33
Alignment explanation
Indices: 73674651--73674727 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
73674641 CACAGTGCAT
*
73674651 ATAGTAACAGTCTAGGCCAAAGCCCT-ATTCAGTA
1 ATAGT-ACAATCTAGGCCAAAG-CCTAATTCAGTA
* *
73674685 ATAGTACAATCTGGGCCTAAGCCTAATTCAGT-
1 ATAGTACAATCTAGGCCAAAGCCTAATTCAGTA
73674717 ATCAGTACAAT
1 AT-AGTACAAT
73674728 GCAGGTATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
32 5 0.13
33 28 0.74
34 5 0.13
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (33 bp):
ATAGTACAATCTAGGCCAAAGCCTAATTCAGTA
Found at i:73675115 original size:27 final size:28
Alignment explanation
Indices: 73675060--73675118 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
73675050 CTACCTCTAA
* *
73675060 GGTAGAATAGTCATTTCTATCCATTAGG
1 GGTAGAATAGTAATTTCTATCCATCAGG
73675088 GGTAGAATAGTAATTT-TATCTCA-CAGG
1 GGTAGAATAGTAATTTCTATC-CATCAGG
73675115 GGTA
1 GGTA
73675119 TTTCGGTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (28 bp):
GGTAGAATAGTAATTTCTATCCATCAGG
Found at i:73678136 original size:37 final size:37
Alignment explanation
Indices: 73678035--73678137 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
73678025 TTTGAGTACG
**
73678035 TGTAAGACCATAGTTGGGCTATGGCATCATAATGACA
1 TGTAAGACCATAGTTGGGCTATGGCATTGTAATGACA
* *
73678072 TGTAAGACCATAGTTGGGCTATGGCATTGTTATGCCA
1 TGTAAGACCATAGTTGGGCTATGGCATTGTAATGACA
73678109 TGTAAGACCAT-GTTTGGGAC-ATGGCATTG
1 TGTAAGACCATAG-TTGGG-CTATGGCATTG
73678138 GCATTGATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 58 0.97
38 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (37 bp):
TGTAAGACCATAGTTGGGCTATGGCATTGTAATGACA
Found at i:73678161 original size:48 final size:48
Alignment explanation
Indices: 73678106--73678327 Score: 345
Period size: 48 Copynumber: 4.6 Consensus size: 48
73678096 CATTGTTATG
* *
73678106 CCATGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
*
73678154 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
*
73678202 CCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
* ** * *
73678250 CCATGTAAGACCATATCCAGGAAATGGCATTGGCATCGATATGTGATT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
* *
73678298 TCGTGTAAGACCATGTCTGGGACATGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCAT
73678328 CAATATGAGA
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
Found at i:73678185 original size:42 final size:42
Alignment explanation
Indices: 73678136--73678369 Score: 150
Period size: 48 Copynumber: 5.1 Consensus size: 42
73678126 GACATGGCAT
73678136 TGGCATTGATATGTGATCCCATGTAAGACCATGTCTGGGACA
1 TGGCATTGATATGTGATCCCATGTAAGACCATGTCTGGGACA
*
73678178 TGGCATTGGCATCGAAATGTGATCCCATGTAAGACCATGTCTAGGACA
1 TGGCATT-G-AT----ATGTGATCCCATGTAAGACCATGTCTGGGACA
* * *
73678226 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATCCAGGAAATGGCA
1 TGGCA-T----T-GATATGTGATCCCATGTAAGACCATGT-CTGG----GACA
* ** *
73678279 TTGGCATCGATATGTGATTTCGTGTAAGACCATGTCTGGGACA
1 -TGGCATTGATATGTGATCCCATGTAAGACCATGTCTGGGACA
** * *
73678322 TGGCATCAATATGAGA-CTTCATGTAAGACCATAGT-T-GGACTA
1 TGGCATTGATATGTGATC-CCATGTAAGACCAT-GTCTGGGAC-A
73678364 TGGCAT
1 TGGCAT
73678370 CAAGTAAACG
Statistics
Matches: 155, Mismatches: 17, Indels: 40
0.73 0.08 0.19
Matches are distributed among these distances:
41 4 0.03
42 42 0.27
43 6 0.04
44 2 0.01
47 3 0.02
48 82 0.53
49 3 0.02
52 2 0.01
53 6 0.04
54 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (42 bp):
TGGCATTGATATGTGATCCCATGTAAGACCATGTCTGGGACA
Found at i:73678370 original size:42 final size:42
Alignment explanation
Indices: 73678280--73678372 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
73678270 GAAATGGCAT
* * * *
73678280 TGGCATCGATATGTGATTTCGTGTAAGACCATGTCTGGGACA
1 TGGCATCAATATGAGACTTCATGTAAGACCATGTCTGGGACA
73678322 TGGCATCAATATGAGACTTCATGTAAGACCATAGT-T-GGACTA
1 TGGCATCAATATGAGACTTCATGTAAGACCAT-GTCTGGGAC-A
73678364 TGGCATCAA
1 TGGCATCAA
73678373 GTAAACGACG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.09
42 39 0.87
43 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGGCATCAATATGAGACTTCATGTAAGACCATGTCTGGGACA
Found at i:73682116 original size:13 final size:13
Alignment explanation
Indices: 73682083--73682121 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
73682073 TTTTGGGATG
73682083 AATTGATTAATAT
1 AATTGATTAATAT
73682096 AA-TGATTAATAT
1 AATTGATTAATAT
73682108 AATTGATTAATAT
1 AATTGATTAATAT
73682121 A
1 A
73682122 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
AATTGATTAATAT
Found at i:73690371 original size:40 final size:40
Alignment explanation
Indices: 73690165--73690367 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
73690155 CGGGCTTTAA
** * *
73690165 CCGGATATAGCCACTCGCTCAAATGCCTTCAGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
73690205 CCGGATATAGTAGTTCGCACAAATGTCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
73690244 CCGGATATAGTAACTCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
73690283 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73690323 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
73690363 CCGGA
1 CCGGA
73690368 ATTATCATCG
Statistics
Matches: 149, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
38 9 0.06
39 55 0.37
40 85 0.57
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:73700579 original size:40 final size:40
Alignment explanation
Indices: 73700542--73700727 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
73700532 GCTACTCGTT
*
73700542 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
73700582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
73700622 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
73700662 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
73700703 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73700728 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:73703871 original size:27 final size:27
Alignment explanation
Indices: 73703837--73703982 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
73703827 TGGATAAGTT
*
73703837 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
73703864 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
73703891 GTAGAAATACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
73703918 GTAGAAATCCCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
73703945 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
73703972 GTAAAATTACC
1 GTAGAATTACC
73703983 AGTTTGCCCC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:73706097 original size:28 final size:27
Alignment explanation
Indices: 73706034--73706103 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
73706024 ATAGTGAGTC
73706034 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
73706061 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
73706089 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73706104 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:73713773 original size:28 final size:28
Alignment explanation
Indices: 73713708--73713808 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
73713698 ATAGTGAATC
*
73713708 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
73713737 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
73713765 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
73713795 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73713809 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73721695 original size:28 final size:28
Alignment explanation
Indices: 73721630--73721730 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
73721620 ATAGTGAATC
*
73721630 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
73721659 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
73721687 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
73721717 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73721731 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73724271 original size:46 final size:46
Alignment explanation
Indices: 73724221--73724396 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73724211 TGGTTGAGCA
73724221 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73724267 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
73724312 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
73724360 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73724397 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73724377 original size:93 final size:93
Alignment explanation
Indices: 73724218--73724389 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73724208 GGATGGTTGA
* *
73724218 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73724283 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
73724311 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73724376 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
73724390 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73730589 original size:42 final size:42
Alignment explanation
Indices: 73730516--73730663 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
73730506 TCTCACGAGC
* * * * *
73730516 TTCTG-TTAACTCATATGAGTTTCTATTTAACCCTAATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCCATTTAACCCTTATGGGT
*
73730557 TTCTGTTTAGCTCTTTTGAGCTT-CAGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCCA-TTTAACCCTTATGGGT
* *
73730599 TT-TCGTTCAGCTCTTATGAGCTTCCATTCAACCCTTATGGGT
1 TTCT-GTTTAGCTCTTATGAGCTTCCATTTAACCCTTATGGGT
* *
73730641 TTCTGTTTAGCACTTATGTGCTT
1 TTCTGTTTAGCTCTTATGAGCTT
73730664 TTGTGTAGCC
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 7 0.08
42 80 0.89
43 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTATGAGCTTCCATTTAACCCTTATGGGT
Found at i:73730656 original size:21 final size:21
Alignment explanation
Indices: 73730529--73730658 Score: 73
Period size: 21 Copynumber: 6.2 Consensus size: 21
73730519 TGTTAACTCA
* * *
73730529 TATGAGTTTCTATTTAACCCT
1 TATGGGTTTCTGTTTAGCCCT
* *
73730550 AATGGGTTTCTGTTTAGCTCT
1 TATGGGTTTCTGTTTAGCCCT
* * * * *
73730571 TTTGAGCTTCAGTTTAACCCT
1 TATGGGTTTCTGTTTAGCCCT
* *
73730592 TATGGGTTT-TCGTTCAGCTCT
1 TATGGGTTTCT-GTTTAGCCCT
* * ** * *
73730613 TATGAGCTTCCATTCAACCCT
1 TATGGGTTTCTGTTTAGCCCT
*
73730634 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCTGTTTAGCCCT
73730655 TATG
1 TATG
73730659 TGCTTTTGTG
Statistics
Matches: 75, Mismatches: 32, Indels: 4
0.68 0.29 0.04
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGGGTTTCTGTTTAGCCCT
Found at i:73735374 original size:26 final size:28
Alignment explanation
Indices: 73735308--73735377 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
73735298 ATAGTGAATC
* * *
73735308 CGCACACTTAGTGCTATATGTATTCCACT
1 CGCACACTTAGTGCTATA-GTAATCAAAT
73735337 CGCACACTTAGTGCTATA-TAATCAAAT
1 CGCACACTTAGTGCTATAGTAATCAAAT
73735364 -GCACACTTAGTGCT
1 CGCACACTTAGTGCT
73735378 GTACAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.37
27 6 0.16
29 18 0.47
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAAAT
Found at i:73737998 original size:11 final size:10
Alignment explanation
Indices: 73737975--73738008 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
73737965 AAGTGTAGAG
73737975 AAAAAAAACT
1 AAAAAAAACT
*
73737985 AAAGAAAACAT
1 AAAAAAAAC-T
73737996 AAAAAAAACT
1 AAAAAAAACT
73738006 AAA
1 AAA
73738009 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (10 bp):
AAAAAAAACT
Found at i:73740337 original size:35 final size:35
Alignment explanation
Indices: 73740291--73740370 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
73740281 GTCCAAAAAC
*
73740291 AAAATTAAATGTGTTTAACCATTTACATGCGGCGT
1 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
73740326 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
1 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
73740361 AAAATTAAAT
1 AAAATTAAAT
73740371 AAAATTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (35 bp):
AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
Found at i:73742980 original size:28 final size:28
Alignment explanation
Indices: 73742948--73743072 Score: 209
Period size: 28 Copynumber: 4.4 Consensus size: 28
73742938 AGTAAGTCCA
73742948 CACACTTAGTGCT-TA-ATATTCAAACTCG
1 CACACTTAGTGCTATACA-ATT-AAACTCG
73742976 CACACTTAGTGCTATACAATTCAAACTCG
1 CACACTTAGTGCTATACAATT-AAACTCG
73743005 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATTAAACTCG
73743033 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATTAAACTCG
73743061 CACACTTAGTGC
1 CACACTTAGTGC
73743073 CAATCTCATT
Statistics
Matches: 95, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
28 60 0.63
29 34 0.36
30 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATTAAACTCG
Found at i:73743030 original size:57 final size:56
Alignment explanation
Indices: 73742948--73743072 Score: 209
Period size: 57 Copynumber: 2.2 Consensus size: 56
73742938 AGTAAGTCCA
73742948 CACACTTAGTGCTTAATATTCAAACTCGCACACTTAGTGCTATACAATTCAAACTCG
1 CACACTTAGTGCTTAATATTCAAACTCGCACACTTAGTGCTATACAATT-AAACTCG
73743005 CACACTTAGTGCTATACA-ATT-AAACTCGCACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCT-TA-ATATTCAAACTCGCACACTTAGTGCTATACAATTAAACTCG
73743061 CACACTTAGTGC
1 CACACTTAGTGC
73743073 CAATCTCATT
Statistics
Matches: 66, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
56 19 0.29
57 41 0.62
58 5 0.08
59 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (56 bp):
CACACTTAGTGCTTAATATTCAAACTCGCACACTTAGTGCTATACAATTAAACTCG
Found at i:73744194 original size:17 final size:18
Alignment explanation
Indices: 73744157--73744194 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
73744147 ACACTTTTTT
73744157 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
73744176 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
73744193 TT
1 TT
73744195 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:73748613 original size:40 final size:40
Alignment explanation
Indices: 73748554--73748695 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
73748544 AAATTGAATG
* * *
73748554 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
73748594 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
73748634 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
73748674 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
73748696 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:73748696 original size:40 final size:39
Alignment explanation
Indices: 73748593--73748721 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
73748583 TGCTGGAAAT
* * *
73748593 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
73748633 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
73748673 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
73748713 TATATCCGG
1 TATATCCGG
73748722 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:73756614 original size:40 final size:40
Alignment explanation
Indices: 73756555--73756696 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
73756545 AAATTGAATG
* * *
73756555 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
73756595 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
73756635 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
73756675 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
73756697 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:73756697 original size:40 final size:39
Alignment explanation
Indices: 73756594--73756722 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
73756584 TGCTGGAAAT
* * *
73756594 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
73756634 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
73756674 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
73756714 TATATCCGG
1 TATATCCGG
73756723 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:73766956 original size:27 final size:28
Alignment explanation
Indices: 73766926--73766995 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73766916 ATAATAAGTC
*
73766926 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
73766953 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
73766981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73766996 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73774881 original size:27 final size:28
Alignment explanation
Indices: 73774851--73774920 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73774841 ATAATAAGTC
*
73774851 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
73774878 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
73774906 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73774921 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73777247 original size:25 final size:25
Alignment explanation
Indices: 73777219--73777266 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
73777209 TTATAATATG
* * *
73777219 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
73777244 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
73777267 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:73777335 original size:20 final size:20
Alignment explanation
Indices: 73777310--73777368 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
73777300 TAAATATGGT
73777310 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
73777330 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
*
73777350 ATGTATGATAGGCACATGA
1 ATGTATGATATGCACATGA
73777369 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:73777473 original size:23 final size:24
Alignment explanation
Indices: 73777419--73777518 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
73777409 GAGGAAGTGA
*
73777419 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
73777443 AAAAGGGCTTATGCCCTAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
73777466 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
73777490 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
73777514 AAAAG
1 AAAAG
73777519 AGACTAGGCC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
23 21 0.30
24 48 0.70
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:73777488 original size:47 final size:48
Alignment explanation
Indices: 73777419--73777518 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 48
73777409 GAGGAAGTGA
*
73777419 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
73777466 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
73777514 AAAAG
1 AAAAG
73777519 AGACTAGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:73777764 original size:31 final size:31
Alignment explanation
Indices: 73777729--73777823 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
73777719 CGTTTACAGT
73777729 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
73777760 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
73777791 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
73777822 AA
1 AA
73777824 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Done.