Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 68 of 349
Found at i:19946899 original size:42 final size:42
Alignment explanation
Indices: 19946852--19946940 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
19946842 ACGGGTGTGC
*
19946852 GGTCACTCGTGTGGTAGGCCT-TGTGCCCTAACACGGGCATGT
1 GGTCACCCGTGTGGTAGG-CTGTGTGCCCTAACACGGGCATGT
*
19946894 GGTCACCCGTGTGGTAGGCTGTGTGCCCTAACACGGGCGTGT
1 GGTCACCCGTGTGGTAGGCTGTGTGCCCTAACACGGGCATGT
*
19946936 AGTCA
1 GGTCA
19946941 ACGAGACTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.15, C:0.26, G:0.35, T:0.25
Consensus pattern (42 bp):
GGTCACCCGTGTGGTAGGCTGTGTGCCCTAACACGGGCATGT
Found at i:19947608 original size:34 final size:35
Alignment explanation
Indices: 19947565--19947634 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
19947555 ACTGATGATA
19947565 TGATAGGCTAAGGCCCTAATGCATA-CTGATACTG
1 TGATAGGCTAAGGCCCTAATGCATATCTGATACTG
* * * *
19947599 TGATGGGCTAAGGCTCTACTGCATATTTGATACTG
1 TGATAGGCTAAGGCCCTAATGCATATCTGATACTG
19947634 T
1 T
19947635 ATTGAGATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (35 bp):
TGATAGGCTAAGGCCCTAATGCATATCTGATACTG
Found at i:19948136 original size:18 final size:18
Alignment explanation
Indices: 19948113--19948154 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
19948103 TCGACTAAAT
*
19948113 AAATAAAATGATTTTTGG
1 AAATAAAACGATTTTTGG
*
19948131 AAATAATACGATTTTTGG
1 AAATAAAACGATTTTTGG
19948149 AAATAA
1 AAATAA
19948155 TAAGATCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (18 bp):
AAATAAAACGATTTTTGG
Found at i:19948155 original size:18 final size:18
Alignment explanation
Indices: 19948122--19948156 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19948112 TAAATAAAAT
19948122 GATTTTTGGAAATAATAC
1 GATTTTTGGAAATAATAC
19948140 GATTTTTGGAAATAATA
1 GATTTTTGGAAATAATA
19948157 AGATCTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (18 bp):
GATTTTTGGAAATAATAC
Found at i:19955794 original size:43 final size:43
Alignment explanation
Indices: 19955738--19955844 Score: 178
Period size: 43 Copynumber: 2.5 Consensus size: 43
19955728 GATAAACGGA
**
19955738 TCTCCAAAAACAACCAATATAATGTGTAGCATAAAGCTATCAC
1 TCTCCAAGCACAACCAATATAATGTGTAGCATAAAGCTATCAC
*
19955781 TCTCCAAGCACAACTAATATAATGTGTAGCATAAAGCTATCAC
1 TCTCCAAGCACAACCAATATAATGTGTAGCATAAAGCTATCAC
*
19955824 ACTCCAAGCACAACCAATATA
1 TCTCCAAGCACAACCAATATA
19955845 CCCTCCAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.22
Consensus pattern (43 bp):
TCTCCAAGCACAACCAATATAATGTGTAGCATAAAGCTATCAC
Found at i:19955850 original size:22 final size:22
Alignment explanation
Indices: 19955825--19955866 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19955815 AGCTATCACA
*
19955825 CTCCAAGCACAACCAATATACC
1 CTCCAAACACAACCAATATACC
*
19955847 CTCCAAACACAACTAATATA
1 CTCCAAACACAACCAATATA
19955867 ACATGTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (22 bp):
CTCCAAACACAACCAATATACC
Found at i:19956052 original size:19 final size:19
Alignment explanation
Indices: 19956002--19956052 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
19955992 TGACATTTTC
*
19956002 ACATCACATATAATCATAT
1 ACATCACATATAAACATAT
* **
19956021 -CAACTTATCATAAACATAT
1 ACATCACAT-ATAAACATAT
19956040 ACATCACATATAA
1 ACATCACATATAA
19956053 GCTTTATTTG
Statistics
Matches: 23, Mismatches: 7, Indels: 4
0.68 0.21 0.12
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (19 bp):
ACATCACATATAAACATAT
Found at i:19958616 original size:127 final size:127
Alignment explanation
Indices: 19958385--19958647 Score: 472
Period size: 127 Copynumber: 2.1 Consensus size: 127
19958375 TTCCTCCCTT
* *
19958385 TTTCAAATCAGTCCTTTTGTTTAATTAAAATATATATTCTTAATTATTTTCAAATTGGGTTCCGT
1 TTTCTAATCAGTCCTTTTGTTTAATTAAAACATATATTCTTAATTATTTTCAAATTGGGTTCCGT
19958450 TTTTAAAATCCATTTTAAACAAATAAATTCCCGAACACTTAATTTTAATTTCCCCTATTAAA
66 TTTTAAAATCCATTTTAAACAAATAAATTCCCGAACACTTAATTTTAATTTCCCCTATTAAA
* *
19958512 TTTCTAATCAGTCCTTTTGTTTAATTAAGACATATATTCTTAATTATTTTCAAATTGGGTTTCGT
1 TTTCTAATCAGTCCTTTTGTTTAATTAAAACATATATTCTTAATTATTTTCAAATTGGGTTCCGT
* *
19958577 TTTTAAAATCCATTTTAAACAAATGAATTCCCGAACACTTAATTTTAATTTTCCCTATTAAA
66 TTTTAAAATCCATTTTAAACAAATAAATTCCCGAACACTTAATTTTAATTTCCCCTATTAAA
19958639 TTTCTAATC
1 TTTCTAATC
19958648 CCAAATATTA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 130 1.00
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (127 bp):
TTTCTAATCAGTCCTTTTGTTTAATTAAAACATATATTCTTAATTATTTTCAAATTGGGTTCCGT
TTTTAAAATCCATTTTAAACAAATAAATTCCCGAACACTTAATTTTAATTTCCCCTATTAAA
Found at i:19961898 original size:22 final size:22
Alignment explanation
Indices: 19961873--19961916 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19961863 TAGTCATATA
19961873 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
19961895 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
19961917 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:19961952 original size:13 final size:14
Alignment explanation
Indices: 19961936--19961977 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
19961926 TTTCAATTTT
19961936 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
19961949 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
19961964 ATTTTACATAATAT
1 ATTTTA-ATAATAT
19961978 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 9 0.38
16 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:19962570 original size:15 final size:14
Alignment explanation
Indices: 19962525--19962570 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
19962515 CTAGAAAAAT
19962525 AAATTATTTTCTA-A
1 AAATTATTTT-TAGA
*
19962539 AAATTATTTTTCGA
1 AAATTATTTTTAGA
19962553 AAATTATTTTTAGTA
1 AAATTATTTTTAG-A
19962568 AAA
1 AAA
19962571 CAAATGGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 23 0.82
15 4 0.14
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (14 bp):
AAATTATTTTTAGA
Found at i:19963394 original size:22 final size:22
Alignment explanation
Indices: 19963344--19963409 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
19963334 TCAGTTTTTT
* *
19963344 TTTTAATTTTTTATTTTAATTA
1 TTTTAATTTTTAATTTTAATAA
*
19963366 TTGTAATTTTTGAATTTTAA-AA
1 TTTTAATTTTT-AATTTTAATAA
* *
19963388 TTTTAA-TTTCAATTTAAATAA
1 TTTTAATTTTTAATTTTAATAA
19963409 T
1 T
19963410 AGTAAACTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 7 0.19
21 6 0.17
22 16 0.44
23 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTTAATTTTTAATTTTAATAA
Found at i:19967633 original size:24 final size:24
Alignment explanation
Indices: 19967606--19967654 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
19967596 TTAAATTCTT
* *
19967606 TAAAATATAATTATATGGATTAAA
1 TAAAATATAAATATACGGATTAAA
19967630 TAAAATATAAATATACGGATTAAA
1 TAAAATATAAATATACGGATTAAA
19967654 T
1 T
19967655 TTCAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (24 bp):
TAAAATATAAATATACGGATTAAA
Found at i:19973504 original size:18 final size:18
Alignment explanation
Indices: 19973481--19973518 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19973471 TACAAGGTGC
*
19973481 GTATCCTAGCCATTATAT
1 GTATCCTAACCATTATAT
*
19973499 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
19973517 GT
1 GT
19973519 TTTCTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:19973810 original size:21 final size:22
Alignment explanation
Indices: 19973774--19973816 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
19973764 CAACCAGAAT
*
19973774 AACCACAACATTCGCCA-AAGC
1 AACCACAACATCCGCCAGAAGC
*
19973795 AACCACAACCTCCGCCAGAAGC
1 AACCACAACATCCGCCAGAAGC
19973817 TGAATCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.42, G:0.12, T:0.07
Consensus pattern (22 bp):
AACCACAACATCCGCCAGAAGC
Found at i:19977295 original size:126 final size:126
Alignment explanation
Indices: 19977060--19977584 Score: 615
Period size: 126 Copynumber: 4.2 Consensus size: 126
19977050 TAAGGCTAAG
* * **
19977060 CAGGAACTACTGTAGAAAAGGAGCGTCCACATGGAAGCTTTTTTTTGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACATGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
19977125 ATCCTGCTTGAAGCGTTTTTTAAACTATTTTTTCATAA-TCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAAAACT-GTCTTCTCAAAATTATTTTTT
* * * * *
19977186 CAAGAACTACTGTAGAAAAAGAACGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACATGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
19977251 ATCCTGCTTGAAGCCTTTTTTATACTATTTTCTCAAAACTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
* * * * * * * **
19977312 CAGGAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTAACAGCAC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACATGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
19977377 ATCTTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACTGTATTTTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
* * * *
19977438 TAGGAACTACTGTAGAGAAAGAGA-GTTCACATGAAAGCTTTTTTCAGTAATTTTGCTGACAGTT
1 CAGGAACTACTGTAGAAAAAGA-ACGTCCACATGGAAGCTTTTTTCAGTAATTTTGCTGACAG-T
* * * * * * * * *
19977502 GCATCCTGCTTGAAACATTCTTAACATTAACTTTTT-AGAACCGTCTTCTCAAAATTAATTTTT
64 GCATCCTGCTTGAAGCGTTTTTTACACT-ATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
* *
19977565 CTGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
19977585 AAAACAAAAT
Statistics
Matches: 336, Mismatches: 59, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
126 270 0.80
127 60 0.18
128 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAACGTCCACATGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTTACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTT
Found at i:19977720 original size:34 final size:33
Alignment explanation
Indices: 19977670--19977799 Score: 133
Period size: 33 Copynumber: 3.9 Consensus size: 33
19977660 CAAACACAAA
*
19977670 AATTATTTTTTTAAAAAAACTAAACCCTAATTT
1 AATTAATTTTTTAAAAAAACTAAACCCTAATTT
*
19977703 AATTAATTTTTT-AAAAAACTTAAACCTTAATTT
1 AATTAATTTTTTAAAAAAAC-TAAACCCTAATTT
***
19977736 AATTAATTTATTTAAAACCCCTCAAA-CCTAATTT
1 AATTAATTT-TTTAAAAAAACT-AAACCCTAATTT
*
19977770 AATTAA--TTTAAAAAAAACTCTAAACCCTAA
1 AATTAATTTTTTAAAAAAA--CTAAACCCTAA
19977800 ATTTTTATAA
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
31 6 0.08
32 11 0.14
33 39 0.49
34 17 0.21
35 7 0.09
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (33 bp):
AATTAATTTTTTAAAAAAACTAAACCCTAATTT
Found at i:19977874 original size:22 final size:23
Alignment explanation
Indices: 19977849--19977904 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
19977839 TTATTTTAAC
19977849 AAAACACTAACAC-CAC-AACCCT
1 AAAACACTAA-ACTCACAAACCCT
*
19977871 AAAACCCTAAACTCACAAACCCT
1 AAAACACTAAACTCACAAACCCT
*
19977894 -AAGCACTAAAC
1 AAAACACTAAAC
19977905 ATGCAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 21 0.72
23 6 0.21
ACGTcount: A:0.50, C:0.38, G:0.02, T:0.11
Consensus pattern (23 bp):
AAAACACTAAACTCACAAACCCT
Found at i:19988915 original size:18 final size:18
Alignment explanation
Indices: 19988880--19988922 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
19988870 CGCATAAAAA
* * *
19988880 GAAAGCAAATAAATAAAT
1 GAAAGAAAAGAAACAAAT
19988898 GAAAGAAAAGAAACAAAT
1 GAAAGAAAAGAAACAAAT
19988916 GAAAGAA
1 GAAAGAA
19988923 GGGGGAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.09
Consensus pattern (18 bp):
GAAAGAAAAGAAACAAAT
Found at i:19988960 original size:18 final size:19
Alignment explanation
Indices: 19988916--19988964 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
19988906 AGAAACAAAT
* *
19988916 GAAAGAAGGGGGAAAGAGG
1 GAAAGGAGGGAGAAAGAGG
19988935 GAGGAAGGAGGGAGAAAG-GG
1 GA--AAGGAGGGAGAAAGAGG
19988955 GAAAGGAGGG
1 GAAAGGAGGG
19988965 GCATCCTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.31
19 2 0.08
20 4 0.15
21 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (19 bp):
GAAAGGAGGGAGAAAGAGG
Found at i:19989009 original size:5 final size:5
Alignment explanation
Indices: 19988999--19989030 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
19988989 AAGCTGTGAA
19988999 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
19989031 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:19989024 original size:9 final size:9
Alignment explanation
Indices: 19989000--19989030 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
19988990 AGCTGTGAAA
19989000 AAATAAAAT
1 AAATAAAAT
19989009 AAAATAAAAT
1 -AAATAAAAT
19989019 AAATAAAAT
1 AAATAAAAT
19989028 AAA
1 AAA
19989031 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:19993442 original size:5 final size:5
Alignment explanation
Indices: 19993432--19993463 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
19993422 AATTTGTGAA
19993432 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
19993464 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:19993457 original size:9 final size:9
Alignment explanation
Indices: 19993433--19993463 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
19993423 ATTTGTGAAA
19993433 AAATAAAAT
1 AAATAAAAT
19993442 AAAATAAAAT
1 -AAATAAAAT
19993452 AAATAAAAT
1 AAATAAAAT
19993461 AAA
1 AAA
19993464 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:19995500 original size:4 final size:4
Alignment explanation
Indices: 19995491--19995551 Score: 77
Period size: 4 Copynumber: 15.2 Consensus size: 4
19995481 TAAATAAGTG
* * * *
19995491 CTCT CTCT CTCT CTCT GTCT CTCT CTCT CCCT CTCT CTCT CTCC CTCC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
*
19995539 CTCT CCCT CTCT C
1 CTCT CTCT CTCT C
19995552 CCCCCCTCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.00, C:0.56, G:0.02, T:0.43
Consensus pattern (4 bp):
CTCT
Found at i:19995502 original size:6 final size:6
Alignment explanation
Indices: 19995491--19995551 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
19995481 TAAATAAGTG
* * * *
19995491 CTCTCT CTCTCT CTCTGT CTCTCT CTCTCC CTCTCT CTCTCT CCCTCC
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
*
19995539 CTCTCC CTCTCT C
1 CTCTCT CTCTCT C
19995552 CCCCCCTCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.00, C:0.56, G:0.02, T:0.43
Consensus pattern (6 bp):
CTCTCT
Found at i:19995534 original size:14 final size:14
Alignment explanation
Indices: 19995493--19995543 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
19995483 AATAAGTGCT
*
19995493 CTCTCTCTCTCTCT
1 CTCTCTCTCTCTCC
*
19995507 GTCTCTCTCTCTCC
1 CTCTCTCTCTCTCC
19995521 CTCTCTCTCTCTCC
1 CTCTCTCTCTCTCC
*
19995535 CTCCCTCTC
1 CTCTCTCTC
19995544 CCTCTCTCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.00, C:0.55, G:0.02, T:0.43
Consensus pattern (14 bp):
CTCTCTCTCTCTCC
Found at i:19995538 original size:18 final size:18
Alignment explanation
Indices: 19995491--19995561 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
19995481 TAAATAAGTG
* * *
19995491 CTCTCTCTCTCTCTCTGT
1 CTCTCTCCCTCCCTCTCT
*
19995509 CTCTCTCTCTCCCTCTCT
1 CTCTCTCCCTCCCTCTCT
*
19995527 CTCTCTCCCTCCCTCTCC
1 CTCTCTCCCTCCCTCTCT
*
19995545 CTCTCTCCCCCCCTCTC
1 CTCTCTCCCTCCCTCTC
19995562 CCTCCCCCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.00, C:0.59, G:0.01, T:0.39
Consensus pattern (18 bp):
CTCTCTCCCTCCCTCTCT
Found at i:19995552 original size:14 final size:14
Alignment explanation
Indices: 19995493--19995577 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
19995483 AATAAGTGCT
* *
19995493 CTCTCTCTCTCTCT
1 CTCTCTCCCTCTCC
* *
19995507 GTCTCTCTCTCTCC
1 CTCTCTCCCTCTCC
*
19995521 CTCTCTCTCTCTCC
1 CTCTCTCCCTCTCC
19995535 CTCCCTCTCCCTCTCTC
1 CT--CTCTCCCTCTC-C
19995552 C-C-C-CCCTCTCC
1 CTCTCTCCCTCTCC
19995563 CTC-C-CCCTCTCC
1 CTCTCTCCCTCTCC
19995575 CTC
1 CTC
19995578 AGATCAAAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
11 2 0.03
12 20 0.32
13 1 0.02
14 28 0.44
16 10 0.16
17 2 0.03
ACGTcount: A:0.00, C:0.62, G:0.01, T:0.36
Consensus pattern (14 bp):
CTCTCTCCCTCTCC
Found at i:19995574 original size:12 final size:12
Alignment explanation
Indices: 19995535--19995577 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
19995525 CTCTCTCTCC
*
19995535 CTCCCTCTCCCT
1 CTCCCTCCCCCT
19995547 CTCTCC-CCCCCT
1 CTC-CCTCCCCCT
19995559 CTCCCTCCCCCT
1 CTCCCTCCCCCT
19995571 CTCCCTC
1 CTCCCTC
19995578 AGATCAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (12 bp):
CTCCCTCCCCCT
Found at i:19995576 original size:18 final size:18
Alignment explanation
Indices: 19995517--19995577 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
19995507 GTCTCTCTCT
* *
19995517 CTCCCTCTCTCTCTCTCC
1 CTCCCTCTCCCTCTCCCC
19995535 CTCCCTCTCCCTCTCTCCC
1 CTCCCTCTCCCTCTC-CCC
19995554 C-CCCTCTCCCTC-CCCC
1 CTCCCTCTCCCTCTCCCC
19995570 TCTCCCTC
1 -CTCCCTC
19995578 AGATCAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
16 3 0.08
17 2 0.05
18 30 0.79
19 3 0.08
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (18 bp):
CTCCCTCTCCCTCTCCCC
Found at i:19996895 original size:2 final size:2
Alignment explanation
Indices: 19996888--19996951 Score: 67
Period size: 2 Copynumber: 32.5 Consensus size: 2
19996878 CTTATTTGTA
* * * *
19996888 CT CT CT CT CT CC CT C- CC CC CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
19996929 TT CT CT CT CT CT CC CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
19996952 ATGCAAAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:20001700 original size:20 final size:20
Alignment explanation
Indices: 20001654--20001691 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20001644 CCAATTTTTT
*
20001654 TTACTTTCATTTGCATTTCA
1 TTACTTTCAATTGCATTTCA
20001674 TTACTTTCAATTGCATTT
1 TTACTTTCAATTGCATTT
20001692 ACTTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.55
Consensus pattern (20 bp):
TTACTTTCAATTGCATTTCA
Found at i:20004886 original size:25 final size:20
Alignment explanation
Indices: 20004838--20004877 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20004828 CTCTTTTCCA
20004838 TAACTTTTCATCTAATCTAT
1 TAACTTTTCATCTAATCTAT
20004858 TAACTTTTCATCTAATCTAT
1 TAACTTTTCATCTAATCTAT
20004878 ACATTTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (20 bp):
TAACTTTTCATCTAATCTAT
Found at i:20011538 original size:16 final size:16
Alignment explanation
Indices: 20011519--20011549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20011509 CTTCTTCACT
20011519 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
20011535 TACTTACTTACTTAA
1 TACTCACTTACTTAA
20011550 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:20011555 original size:20 final size:20
Alignment explanation
Indices: 20011516--20011555 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20011506 AAACTTCTTC
* *
20011516 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
20011536 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
20011556 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:20011931 original size:55 final size:53
Alignment explanation
Indices: 20011793--20011995 Score: 214
Period size: 55 Copynumber: 3.8 Consensus size: 53
20011783 TTTGAAACCT
* *
20011793 ACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
* * *
20011846 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTC
* *** *
20011901 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTC
* *
20011955 ACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 ACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
20011996 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 9 0.07
55 71 0.56
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
Found at i:20019353 original size:24 final size:24
Alignment explanation
Indices: 20019294--20019354 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
20019284 ACATACCGGT
20019294 ACTTATAGAATACGCCACAAAGGC
1 ACTTATAGAATACGCCACAAAGGC
* * *
20019318 ATTTACACAATACGCCACAAAGGC
1 ACTTATAGAATACGCCACAAAGGC
20019342 ACTTATAGAATAC
1 ACTTATAGAATAC
20019355 CCTGCCTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.20
Consensus pattern (24 bp):
ACTTATAGAATACGCCACAAAGGC
Found at i:20020077 original size:30 final size:30
Alignment explanation
Indices: 20020012--20020095 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
20020002 AGCACGACAT
20020012 TCATCGGCTTCTGTCAGACACAATCAGTAG
1 TCATCGGCTTCTGTCAGACACAATCAGTAG
* *
20020042 CCATCGGCTTCTGTCAGACGCAATC-GATAG
1 TCATCGGCTTCTGTCAGACACAATCAG-TAG
** * *
20020072 TCATCGATTTTTGTCACACACAAT
1 TCATCGGCTTCTGTCAGACACAAT
20020096 TGGTAGTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
29 1 0.02
30 44 0.98
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (30 bp):
TCATCGGCTTCTGTCAGACACAATCAGTAG
Found at i:20025732 original size:45 final size:47
Alignment explanation
Indices: 20025681--20025773 Score: 154
Period size: 45 Copynumber: 2.0 Consensus size: 47
20025671 AACATAAAAG
20025681 TTTCAAACATTCCAAGTTGAG-TTTAATCAAGCAAA-ATAGGTGTCT
1 TTTCAAACATTCCAAGTTGAGATTTAATCAAGCAAACATAGGTGTCT
*
20025726 TTTCAAACATTCCAAGTTGAGTATTTAATCATGCAAACATAGGTGTCT
1 TTTCAAACATTCCAAGTTGAG-ATTTAATCAAGCAAACATAGGTGTCT
20025774 CTCCGCATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 21 0.48
47 13 0.30
48 10 0.23
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (47 bp):
TTTCAAACATTCCAAGTTGAGATTTAATCAAGCAAACATAGGTGTCT
Found at i:20039690 original size:13 final size:14
Alignment explanation
Indices: 20039667--20039696 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
20039657 TTTGAGAAGA
20039667 GATTTGGAGATG-T
1 GATTTGGAGATGCT
20039680 GATTTGGAGATGCT
1 GATTTGGAGATGCT
20039694 GAT
1 GAT
20039697 GTTTATATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (14 bp):
GATTTGGAGATGCT
Found at i:20039776 original size:29 final size:29
Alignment explanation
Indices: 20039736--20039839 Score: 123
Period size: 28 Copynumber: 3.8 Consensus size: 29
20039726 GCACTCTGTG
*
20039736 TTATTCTGGTGTGTTTTGGATGGATTATA
1 TTATTCTGGTGTGTTTTGGATGGATTACA
*
20039765 TTATTCTGGTGTGTTTGGGA-GGATTACA
1 TTATTCTGGTGTGTTTTGGATGGATTACA
* *
20039793 TTATACTGGTGTGTTTTGGTTGG---ACA
1 TTATTCTGGTGTGTTTTGGATGGATTACA
20039819 -T-TTCTGGTGTG-TTTGGATGGA
1 TTATTCTGGTGTGTTTTGGATGGA
20039840 ATCCGTGTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
23 8 0.12
24 9 0.14
25 1 0.02
26 3 0.05
28 24 0.36
29 21 0.32
ACGTcount: A:0.15, C:0.06, G:0.32, T:0.47
Consensus pattern (29 bp):
TTATTCTGGTGTGTTTTGGATGGATTACA
Found at i:20041655 original size:29 final size:29
Alignment explanation
Indices: 20041599--20041663 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
20041589 ATTTGAGGGG
** *
20041599 ATTTGGCGATTTTATTGCACTTATTCATT
1 ATTTGGCGATTTTATCACACTTAGTCATT
* *
20041628 ATTTGGCGGTTTTATCACATTTAGTCATT
1 ATTTGGCGATTTTATCACACTTAGTCATT
*
20041657 TTTTGGC
1 ATTTGGC
20041664 ATAATTTCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (29 bp):
ATTTGGCGATTTTATCACACTTAGTCATT
Found at i:20063955 original size:26 final size:29
Alignment explanation
Indices: 20063900--20063972 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 29
20063890 TTATTTTCAC
20063900 TTTTATCTTTATTTATCTTCTTTAAGTATT-T
1 TTTTAT-TTTATTT-TC-TCTTTAAGTATTAT
20063931 TTTTATTTTATTTTC-CTTTAA-TATTAT
1 TTTTATTTTATTTTCTCTTTAAGTATTAT
*
20063958 TTTAATTTTAGTTTT
1 TTTTATTTTA-TTTT
20063973 TATAATTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 4 0.10
27 16 0.41
28 4 0.10
29 2 0.05
30 7 0.18
31 6 0.15
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTTATTTTATTTTCTCTTTAAGTATTAT
Found at i:20078924 original size:13 final size:13
Alignment explanation
Indices: 20078906--20078930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20078896 GGGCCGTGTG
20078906 AGGGACACGGGCC
1 AGGGACACGGGCC
20078919 AGGGACACGGGC
1 AGGGACACGGGC
20078931 GTGTGCTTTG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:20082767 original size:11 final size:11
Alignment explanation
Indices: 20082747--20082780 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
20082737 ATGAAAAAAG
*
20082747 GAAAAGAGAAA
1 GAAAAAAGAAA
20082758 GAAAAAAGAAA
1 GAAAAAAGAAA
*
20082769 AAAAAAAGAAA
1 GAAAAAAGAAA
20082780 G
1 G
20082781 GCTCTCATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:20082768 original size:18 final size:19
Alignment explanation
Indices: 20082739--20082779 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
20082729 AAATGATGAT
* *
20082739 GAAAAAAGGAAAAGAGAAA
1 GAAAAAAGGAAAAAAAAAA
20082758 GAAAAAA-GAAAAAAAAAA
1 GAAAAAAGGAAAAAAAAAA
20082776 GAAA
1 GAAA
20082780 GGCTCTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
GAAAAAAGGAAAAAAAAAA
Found at i:20084089 original size:40 final size:40
Alignment explanation
Indices: 20084034--20084214 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
20084024 TATTTGGATG
20084034 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
20084074 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
20084114 ATATCTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
20084154 ATATCCGGGCTATGTCCCGAAGGCA-ATGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
20084193 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
20084215 TACTTGGCTT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.12
39 14 0.11
40 99 0.77
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:20087511 original size:23 final size:23
Alignment explanation
Indices: 20087468--20087518 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
20087458 TTTTTTACAG
*
20087468 AGAAATACAAAAAAAAATCAAAT
1 AGAAATACAAAAAAAAATCAAAA
* *
20087491 AGAAAT-CAAATATAAACTCAAAA
1 AGAAATACAAA-AAAAAATCAAAA
20087514 AGAAA
1 AGAAA
20087519 GGTGATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.14
Consensus pattern (23 bp):
AGAAATACAAAAAAAAATCAAAA
Found at i:20092718 original size:37 final size:37
Alignment explanation
Indices: 20092668--20092742 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
20092658 ATTCAGAGAT
*
20092668 GTTCATCGTGTTCATCTTCAGTCCTCTAATACACTAG
1 GTTCATCGTGTTCATCTTCAGTCCTCGAATACACTAG
20092705 GTTCATCGTGTTCATCTTCAGTCCTCGAATACACTAG
1 GTTCATCGTGTTCATCTTCAGTCCTCGAATACACTAG
20092742 G
1 G
20092743 ATGTCATCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (37 bp):
GTTCATCGTGTTCATCTTCAGTCCTCGAATACACTAG
Found at i:20098330 original size:5 final size:5
Alignment explanation
Indices: 20098320--20098362 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
20098310 CGAACATCTA
20098320 TTTAT TTTAT TTTAT TTTAT TTTACT ATTTAT TATTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T -TTTAT T-TTAT TTTAT
20098363 AATCTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 24 0.69
6 7 0.20
7 4 0.11
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:20098351 original size:22 final size:21
Alignment explanation
Indices: 20098325--20098375 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
20098315 ATCTATTTAT
**
20098325 TTTATTTTATTTTATTTTACTA
1 TTTATTTTATTTTATAAT-CTA
20098347 TTTATTATTATTTTATAATCTA
1 TTTATT-TTATTTTATAATCTA
20098369 TTTATTT
1 TTTATTT
20098376 ATTCATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.58
23 10 0.38
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTTTATTTTATAATCTA
Found at i:20098370 original size:18 final size:17
Alignment explanation
Indices: 20098315--20098375 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 17
20098305 TTCATCGAAC
20098315 ATCTA-TTTATTTTA-T
1 ATCTATTTTATTTTACT
*
20098330 -TTTATTTTATTTTACT
1 ATCTATTTTATTTTACT
*
20098346 ATTTATTATTATTTTA-T
1 ATCTATT-TTATTTTACT
20098363 AATCTA-TTTATTT
1 -ATCTATTTTATTT
20098376 ATTCATTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.08
15 9 0.23
16 7 0.18
17 8 0.21
18 12 0.31
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
ATCTATTTTATTTTACT
Found at i:20098453 original size:63 final size:63
Alignment explanation
Indices: 20098346--20098475 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
20098336 TTATTTTACT
*
20098346 ATTTATTATTATTTTATAATCTATTTATTTATTCATTCATTCTTTTACATTTTAAATACTTAA
1 ATTTAATATTATTTTATAATCTATTTATTTATTCATTCATTCTTTTACATTTTAAATACTTAA
* * * ** * *
20098409 ATTTAATATTATTTGTTTCATCTATTTATTTATTTATT-ATTCTTTTATTTTTTTAATATTTAA
1 ATTTAATATTATTT-TATAATCTATTTATTTATTCATTCATTCTTTTACATTTTAAATACTTAA
20098472 ATTT
1 ATTT
20098476 GATACTACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 38 0.66
64 20 0.34
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (63 bp):
ATTTAATATTATTTTATAATCTATTTATTTATTCATTCATTCTTTTACATTTTAAATACTTAA
Found at i:20103029 original size:12 final size:12
Alignment explanation
Indices: 20103012--20103036 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20103002 ACCAATACCG
20103012 ATTGAATCAACC
1 ATTGAATCAACC
20103024 ATTGAATCAACC
1 ATTGAATCAACC
20103036 A
1 A
20103037 AGTCGTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
ATTGAATCAACC
Found at i:20112476 original size:13 final size:13
Alignment explanation
Indices: 20112458--20112486 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20112448 ACATCCTCAC
20112458 CGGGCAGACCACA
1 CGGGCAGACCACA
20112471 CGGGCAGACCACA
1 CGGGCAGACCACA
20112484 CGG
1 CGG
20112487 CCGTGTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.34, T:0.00
Consensus pattern (13 bp):
CGGGCAGACCACA
Found at i:20116469 original size:15 final size:15
Alignment explanation
Indices: 20116432--20116489 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
20116422 GAGATGACAT
*
20116432 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
20116447 GAAGTCCAGGATAAT
1 GAAATCCAAGATAAA
*
20116462 GAAATCCATGATAAA
1 GAAATCCAAGATAAA
20116477 GAAATCCAAGATA
1 GAAATCCAAGATA
20116490 CAATATCACA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.16
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:20116475 original size:30 final size:30
Alignment explanation
Indices: 20116430--20116489 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20116420 TAGAGATGAC
* *
20116430 ATGAAAACCAAGATAAAGAAGTCCAGGATA
1 ATGAAAACCAAGATAAAGAAATCCAAGATA
* *
20116460 ATGAAATCCATGATAAAGAAATCCAAGATA
1 ATGAAAACCAAGATAAAGAAATCCAAGATA
20116490 CAATATCACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (30 bp):
ATGAAAACCAAGATAAAGAAATCCAAGATA
Found at i:20118582 original size:40 final size:40
Alignment explanation
Indices: 20118538--20118669 Score: 230
Period size: 40 Copynumber: 3.3 Consensus size: 40
20118528 GCTATTCGTT
* *
20118538 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
20118578 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
20118618 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
20118658 CAAATGCCTTCG
1 CAAATGCCTTCG
20118670 AATCTTAGTC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20118707 original size:80 final size:81
Alignment explanation
Indices: 20118538--20118723 Score: 236
Period size: 80 Copynumber: 2.3 Consensus size: 81
20118528 GCTATTCGTT
* * *
20118538 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCA
* *
20118602 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* **
20118618 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GAATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAA-CTTAACCC
* *
20118681 AGATATGGTCACCTAGCA
65 AGATATAGT-AACTAGCA
20118699 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20118724 CATCATTCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 78 0.85
81 12 0.13
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCA
GATATAGTAACTAGCA
Found at i:20123031 original size:78 final size:81
Alignment explanation
Indices: 20122888--20123071 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 81
20122878 GCTACTCGTT
* *
20122888 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
20122953 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* **
20122968 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
20123030 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
20123047 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20123072 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
77 3 0.03
78 46 0.50
79 29 0.32
80 14 0.15
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:20123071 original size:40 final size:40
Alignment explanation
Indices: 20122869--20123071 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
20122859 CGGAATTTAA
** *
20122869 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20122909 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20122949 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20122988 CCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20123027 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20123067 CCGGA
1 CCGGA
20123072 CATCATTCAA
Statistics
Matches: 142, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.01
38 22 0.15
39 23 0.16
40 84 0.59
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20143555 original size:45 final size:45
Alignment explanation
Indices: 20143439--20144413 Score: 492
Period size: 45 Copynumber: 20.9 Consensus size: 45
20143429 AATTAAAAAT
* * *
20143439 AAATCTTATCGCCCTGAAGTTGCATTGGAGCAGTTTGAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* *
20143484 AAA-CCTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * *
20143528 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * * * *
20143573 GAATCTTATTTCCCTTAAGTTACAGTGGAAG-AAATTAAAGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATT---G--A-AAATAAC
* * ***
20143624 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTG-AAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * **
20143668 AAATCTTACCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * * **
20143713 GAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTTAAAATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * * *
20143758 GAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACGAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA---A--A-TAAC
* * * *
20143809 AAATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATT-AAAGATACC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATAAC
* * * * * *
20143854 TAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATT-AAAGCTACAAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA---ATAA-C
* * * *
20143902 TACTAATCTTATCTCCCTGAAGCTGCAGTGGAGCATATTGAAGATAGC
1 -A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * * * * * *
20143950 AAACCTTATCTCCTTGGATTTGGAGTGGAGAAAATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * **
20143995 AAATCTTATTTCCCTGAAATTGCAGTGGAGCAGATT-AAGCT-AC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * * *
20144038 GAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTG-AAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * *
20144082 AAATCTTATCTCCCTAAAGTTGTAGTGGAGAAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
* * * * * *
20144127 GAATCTTATGTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AAATAAC
* * * ** * *
20144178 AAATCTTATTTCCCAGAAATTGCAGTGGAATAGATTAAAGCTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA----AA-TAAC
* * * *
20144228 AAATCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTGAAGATAGA-
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATA-AC
* * * * * *
20144273 AAATCTTATTTCTCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AAATAAC
* * * * * * * *
20144324 AAATCTTATTTCCCTAAAATTGTAGTGGAACAGAATAAGGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-AT--TG--A-AAATAAC
*
20144375 AAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
20144414 GCGACAATTC
Statistics
Matches: 717, Mismatches: 165, Indels: 96
0.73 0.17 0.10
Matches are distributed among these distances:
43 33 0.05
44 116 0.16
45 298 0.42
46 8 0.01
47 4 0.01
48 8 0.01
49 3 0.00
50 45 0.06
51 198 0.28
52 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
Found at i:20143640 original size:96 final size:96
Alignment explanation
Indices: 20143439--20144414 Score: 637
Period size: 96 Copynumber: 10.4 Consensus size: 96
20143429 AATTAAAAAT
* * * * * * *
20143439 AAATCTTATCGCCCTGAAGTTGCATTGGAGCAGTTTGAAAATAAC-AAACCTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
* * *
20143503 TGTAGTGG-AGCAGATT---G--A-AAATAAC
66 TGCAGTGGAAG-AGATTAAAGCTACAAGTTAC
* * * * *
20143528 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTTAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
* *
20143593 TACAGTGGAAGAAATTAAAGCTACAAGTTAC
66 TGCAGTGGAAGAGATTAAAGCTACAAGTTAC
* * ** * *
20143624 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCA-CAAATCTTACCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
* * *
20143688 TGCAGTAG-AGCAGATTGAAG--A-TAG-T--
66 TGCAGTGGAAG-AGATTAAAGCTACAAGTTAC
* * * * * * * *
20143713 GAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTTAAAATAGTGAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
* * *
20143778 TACAGTGGAACAGATTAAAGCTACGAGTTAC
66 TGCAGTGGAAGAGATTAAAGCTACAAGTTAC
* * * * * * * *
20143809 AAATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATACCTAATCTTATTTCCCTAAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
* * *
20143874 TGTAGTGGAACAGATTAAAGCTACAAGCTAC
66 TGCAGTGGAAGAGATTAAAGCTACAAGTTAC
* * * * * * * *
20143905 TAATCTTATCTCCCTGAAGCTGCAGTGGAGCATATTGAAGATAGCAAACCTTATCTCCTTGGATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
* ** *
20143970 TGGAGT-G--GAGA--AAA--TTGAAGATAGC
66 TGCAGTGGAAGAGATTAAAGCTACAAGTTA-C
* * * *
20143995 AAATCTTATTTCCCTGAAATTGCAGTGGAGCAGATT-AAGCTA-CGAATCTTATCTCTCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
*
20144058 TGTAGTGG-AGTAGATT---G----AAGTTAC
66 TGCAGTGGAAG-AGATTAAAGCTACAAGTTAC
* * * * *
20144082 AAATCTTATCTCCCTAAAGTTGTAGTGGAGAAGATTGAAGATAGCGAATCTTATGTCCCTGAAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
*
20144147 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
66 TGCAGTGGAAGAGATTAAAGCTACAAGTTAC
* * * ** * * * *
20144178 AAATCTTATTTCCCAGAAATTGCAGTGGAATAGATTAAAGCTGAAGTTACAAATCTTATCTTCCT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--AG---CGAATCTTATCTCCCT
* * * *
20144243 GAAGTTGTAGTGG-AGCAAATTGAAG--A-TAG--A-
61 GAAGTTGCAGTGGAAG-AGATTAAAGCTACAAGTTAC
* * * * * * * *
20144273 AAATCTTATTTCTCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---CGAATCTTATCTCCC
* * * * * *
20144338 TAAAATTGTAGTGGAACAGAATAAGGCTACAAGTTAC
60 TGAAGTTGCAGTGGAAGAGATTAAAGCTACAAGTTAC
*
20144375 AAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
20144415 CGACAATTCT
Statistics
Matches: 689, Mismatches: 148, Indels: 87
0.75 0.16 0.09
Matches are distributed among these distances:
87 32 0.05
88 30 0.04
89 116 0.17
90 90 0.13
91 10 0.01
92 4 0.01
93 7 0.01
94 3 0.00
95 69 0.10
96 251 0.36
97 1 0.00
98 5 0.01
99 3 0.00
100 1 0.00
101 32 0.05
102 35 0.05
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (96 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATCTCCCTGAAGT
TGCAGTGGAAGAGATTAAAGCTACAAGTTAC
Found at i:20143932 original size:51 final size:51
Alignment explanation
Indices: 20143759--20144420 Score: 385
Period size: 51 Copynumber: 13.9 Consensus size: 51
20143749 TAAAATAGTG
* * *
20143759 AATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACGAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * * *
20143810 AATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATAC------CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * *
20143855 AATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * *
20143906 AATCTTATCTCCCTGAAGCTGCAGTGGAGCATATTGAAG--A-TAG---CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * * ** *
20143951 AACCTTATCTCCTTGGATTTGGAGTGG---AGA--AAA--TTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA-CA
* * *
20143996 AATCTTATTTCCCTGAAATTGCAGTGGAGCAGATT-AAGCTAC--G-----
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * **
20144039 AATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATT---G----AAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * *
20144083 AATCTTATCTCCCTAAAGTTGTAGTGGAGA-AGATTGAAG--A-TAG---CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGA-ACAGATTAAAGCTACAAGTTACA
* *
20144128 AATCTTATGTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * *
20144179 AATCTTATTTCCCAGAAATTGCAGTGGAATAGATTAAAGCT-GAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * * *
20144229 AATCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTGAAG--A-TAG--A-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * *
20144274 AATCTTATTTCTCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * * * *
20144325 AATCTTATTTCCCTAAAATTGTAGTGGAACAGAATAAGGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
* * * *
20144376 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCGACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA
20144421 TTCTTATACC
Statistics
Matches: 469, Mismatches: 97, Indels: 90
0.71 0.15 0.14
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 3 0.01
42 2 0.00
43 30 0.06
44 32 0.07
45 146 0.31
46 1 0.00
47 3 0.01
48 13 0.03
49 4 0.01
50 39 0.08
51 193 0.41
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (51 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
Found at i:20144462 original size:146 final size:144
Alignment explanation
Indices: 20143526--20144444 Score: 594
Period size: 146 Copynumber: 6.5 Consensus size: 144
20143516 ATTGAAAATA
* * * * * * *
20143526 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTTAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAGA-C-AATCTTATATCCCTGAA
* * * * * * * * **
20143591 GTTACAGTGGAAGAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGTA
64 ATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAACA
* *
20143656 GATTGAAGC-C-----
129 GAATAAAGCTCAAGTT
* * * ** * *
20143666 ACAAATCTTACCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGTGAATCTTATCTCCTTGAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--AGACAATCTTATATCCCTGAA
* * ** * * * * *
20143731 GTTACAGTGGAGTAGATTTAAA---A-TAG-T--GAATCTTATTTCCCTGAAGTTACAGTGGAAC
64 ATTGCAGTGGAACAGA-TTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAAC
* *
20143789 AGATTAAAGCTACGAGTT
128 AGAATAAAGCT-CAAGTT
* * * * * * *
20143807 ACAAATCTTCTCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATACCTAATCTTATTTCCCT-AA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAGA-C-AATCTTATATCCCTGAA
* * * * * ** *
20143871 AGTTGTAGTGGAACAGATTAAAGCTACAAGCTACTAATCTTATCTCCCTGAAGCTGCAGTGGAGC
64 A-TTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAAC
* * * *
20143936 ATATTGAAGAT--AG--
128 AGAATAAAGCTCAAGTT
* * * * * * * * *
20143949 -CAAACCTTATCTCCTTGGATTTGGAGTGGAGAAAATTGAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAGA-C-AATCTTATATCCCTGAA
* * * * * *
20144013 ATTGCAGTGGAGCAGATT-AAGCTAC--G-----AATCTTATCTCTCTGAAGTTGTAGTGG---A
64 ATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAACA
* * *
20144067 G--TAGA-TTGAAGTT
129 GAATAAAGCTCAAGTT
* * * *
20144080 ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGAAGATTGAAGATAGCGAATCTTATGTCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAGA-C-AATCTTATATCCCTGAA
*
20144145 ATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAATA
64 ATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAACA
* *
20144210 GATTAAAGCTGAAGTT
129 GAATAAAGCTCAAGTT
* * * * *
20144226 ACAAATCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTGAAGATAGAAAATCTTATTTCTCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--AGACAATCTTATATCCCTGAA
*
20144291 ATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCTA-AAATTGTAGTGGAAC
64 ATTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCC-AGAAATTGCAGTGGAAC
*
20144355 AGAATAAGGCTACAAGTT
128 AGAATAAAGCT-CAAGTT
* * * *
20144373 ACAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCGACAATTCTTATACCCCT-AAA
1 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAGACAA-TCTTATATCCCTGAAA
20144437 GTTGCAGT
65 -TTGCAGT
20144445 AGGTTAGAAT
Statistics
Matches: 629, Mismatches: 104, Indels: 86
0.77 0.13 0.11
Matches are distributed among these distances:
127 1 0.00
128 2 0.00
129 2 0.00
130 1 0.00
132 72 0.11
133 31 0.05
134 36 0.06
135 1 0.00
136 2 0.00
137 2 0.00
138 2 0.00
139 1 0.00
140 100 0.16
141 129 0.21
142 4 0.01
143 3 0.00
144 4 0.01
145 11 0.02
146 145 0.23
147 78 0.12
148 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (144 bp):
ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAGACAATCTTATATCCCTGAAAT
TGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCCCAGAAATTGCAGTGGAACAGA
ATAAAGCTCAAGTT
Found at i:20145057 original size:22 final size:22
Alignment explanation
Indices: 20145029--20145090 Score: 85
Period size: 21 Copynumber: 2.9 Consensus size: 22
20145019 AAAAGAAAGG
20145029 TGATTTTTTTTTATATTTTCAT
1 TGATTTTTTTTTATATTTTCAT
20145051 TGA-TTTTTTTTATATTTTCAT
1 TGATTTTTTTTTATATTTTCAT
*
20145072 T-CTTTATTTTTT-TATTTTC
1 TGATTT-TTTTTTATATTTTC
20145091 GAAAACATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 28 0.76
22 9 0.24
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (22 bp):
TGATTTTTTTTTATATTTTCAT
Found at i:20145950 original size:15 final size:15
Alignment explanation
Indices: 20145915--20145947 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
20145905 TGTTAATTCT
20145915 TTTATTTTTTATTTA
1 TTTATTTTTTATTTA
20145930 TTTATTTTCTTATTTA
1 TTTATTTT-TTATTTA
20145946 TT
1 TT
20145948 ATTCCTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTTATTTA
Found at i:20145956 original size:23 final size:24
Alignment explanation
Indices: 20145916--20145961 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
20145906 GTTAATTCTT
* *
20145916 TTATTTTTTATTTATTTA-TTTTC
1 TTATTTATTATTCATTTACTTTTC
*
20145939 TTATTTATTATTCCTTTACTTTT
1 TTATTTATTATTCATTTACTTTT
20145962 TGTTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (24 bp):
TTATTTATTATTCATTTACTTTTC
Found at i:20146032 original size:21 final size:22
Alignment explanation
Indices: 20146008--20146062 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
20145998 CGAACATCTA
*
20146008 TTATTTATTTTATT-TTAGTAT
1 TTATTTATTTTATTAGTAGTAT
*
20146029 TTATTACTATTTTATTAGTATTAT
1 TTATT--TATTTTATTAGTAGTAT
*
20146053 CTATTTATTT
1 TTATTTATTT
20146063 ATTCATTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 5 0.18
23 9 0.32
24 9 0.32
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTTATTTTATTAGTAGTAT
Found at i:20146104 original size:60 final size:58
Alignment explanation
Indices: 20146040--20146152 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 58
20146030 TATTACTATT
20146040 TTATTAGTATT-ATCTATTTATTTATTCATTCTTTTACTTTTTAAATACTTAAATTTAATA
1 TTATTAGT-TTCATCTATTTATTTATT-ATTCTTTTA-TTTTTAAATACTTAAATTTAATA
* * *
20146100 TTATTTGTTTCATCTATTTATTTATTATTCTTTTATTTTTTAATATTTAAATT
1 TTATTAGTTTCATCTATTTATTTATTATTCTTTTATTTTTAAATACTTAAATT
20146153 GGATACTACT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 16 0.33
59 11 0.22
60 22 0.45
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (58 bp):
TTATTAGTTTCATCTATTTATTTATTATTCTTTTATTTTTAAATACTTAAATTTAATA
Found at i:20146872 original size:27 final size:27
Alignment explanation
Indices: 20146830--20146882 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
20146820 AACTAGGTAC
*
20146830 CTATTTTGGGCGTTACGAGGGTGCTAT
1 CTATTTTGGGCATTACGAGGGTGCTAT
20146857 CTATTTTGGGCATTACGAGGGTGCTA
1 CTATTTTGGGCATTACGAGGGTGCTA
20146883 ACCCTTCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.36
Consensus pattern (27 bp):
CTATTTTGGGCATTACGAGGGTGCTAT
Found at i:20147209 original size:20 final size:19
Alignment explanation
Indices: 20147164--20147214 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
20147154 TATTTTATTA
* **
20147164 ATTTAATATTAAAGTGATT
1 ATTTAATATTAAAGTAAAC
20147183 ATCTTAATATTAAAGATAAAC
1 AT-TTAATATTAAAG-TAAAC
20147204 ATTTAAT-TTAA
1 ATTTAATATTAA
20147215 TTTAATAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 6 0.22
20 17 0.63
21 4 0.15
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (19 bp):
ATTTAATATTAAAGTAAAC
Found at i:20149000 original size:26 final size:26
Alignment explanation
Indices: 20148971--20149078 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
20148961 TGATACAAAT
*
20148971 TGATAATGGGTTAGGTAACTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20148997 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20149023 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20149049 TGATAATGGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
20149075 TGAT
1 TGAT
20149079 GAGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20150723 original size:27 final size:26
Alignment explanation
Indices: 20150674--20150832 Score: 160
Period size: 27 Copynumber: 5.9 Consensus size: 26
20150664 AGGAAGCGTC
* * *
20150674 CTGGTGGCTATGCCATAATTATCTAAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
20150701 CTGGTGGCTCTACCACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
20150727 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTGAT
* *
20150755 CTGGTGGCTCTGCCACATAAATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
20150782 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
20150809 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
20150833 GCAGTCTCGC
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 9 0.08
27 100 0.89
28 3 0.03
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:20150757 original size:54 final size:54
Alignment explanation
Indices: 20150671--20150814 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
20150661 TGGAGGAAGC
* * *
20150671 GTCCTGGTGGCTATGCCATAATTATCTAATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATAAATCT
*
20150725 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATAAATCT
* *
20150779 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
20150815 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATAAATCT
Found at i:20156999 original size:26 final size:26
Alignment explanation
Indices: 20156963--20157044 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
20156953 TGATACAAAT
*
20156963 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTCAGGTAAATGTTCCA
20156989 TGATAATGGGTCAGGTAAATGTTCCA
1 TGATAATGGGTCAGGTAAATGTTCCA
20157015 TGATAATGGGTCAGGTAAATGTTCCA
1 TGATAATGGGTCAGGTAAATGTTCCA
20157041 TGAT
1 TGAT
20157045 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (26 bp):
TGATAATGGGTCAGGTAAATGTTCCA
Found at i:20158680 original size:27 final size:26
Alignment explanation
Indices: 20158640--20158780 Score: 126
Period size: 27 Copynumber: 5.2 Consensus size: 26
20158630 AGGAAGCGTC
*
20158640 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCT-AT
* *
20158667 TTGGTGGCTCTGCCAC-ATATATCTGT
1 CTGGTGGCTCTGCCACAAT-TATCTAT
*
20158693 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCT-AT
* *
20158721 CTGGTGGCTCTGCCAC-ATAAATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCT-AT
*
20158748 CTAGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATC--TAT
20158775 CTGGTG
1 CTGGTG
20158781 ACTTCGTCAC
Statistics
Matches: 93, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
26 8 0.09
27 80 0.86
28 5 0.05
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATTATCTAT
Found at i:20158726 original size:54 final size:54
Alignment explanation
Indices: 20158637--20158780 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
20158627 TGGAGGAAGC
* * *
20158637 GTCCTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCT
20158691 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCT
* * *
20158745 GTTCTAGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
20158781 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCT
Found at i:20159765 original size:39 final size:39
Alignment explanation
Indices: 20159711--20159790 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
20159701 GGGTGTTACA
* *
20159711 TTTCCAGCATGTAGCCTGCGGACCTCAGGTCCGGATATG
1 TTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATG
20159750 TTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATG
20159789 TT
1 TT
20159791 CCAAATATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (39 bp):
TTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATG
Found at i:20166268 original size:5 final size:5
Alignment explanation
Indices: 20166258--20166297 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
20166248 TAGTTAATAA
20166258 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
20166298 GGAAGATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:20168112 original size:18 final size:18
Alignment explanation
Indices: 20168089--20168124 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20168079 TGAGAATTTC
*
20168089 TGATACCGTGACTGAATG
1 TGATACCGTGACTAAATG
*
20168107 TGATACTGTGACTAAATG
1 TGATACCGTGACTAAATG
20168125 CGTTACTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (18 bp):
TGATACCGTGACTAAATG
Found at i:20169731 original size:18 final size:18
Alignment explanation
Indices: 20169708--20169745 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
20169698 AAAAATCACT
20169708 TAACAA-AATACTTATAAA
1 TAACAATAATACTTA-AAA
20169726 TAACAATTAATACTTAAAA
1 TAACAA-TAATACTTAAAA
20169745 T
1 T
20169746 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
TAACAATAATACTTAAAA
Found at i:20172374 original size:50 final size:49
Alignment explanation
Indices: 20172275--20172375 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 49
20172265 TAGTTTTATT
* * * *
20172275 AAAATTATATATATATCCAATAATTTTTTTTATTAATATTAAAGAATTA
1 AAAATAATATATATATCCAAAAATTTTTATTATAAATATTAAAGAATTA
*
20172324 AAAATAATA-ATATAT-CAAAAATATTTTATTATAAATATAATAAATAATTA
1 AAAATAATATATATATCCAAAAAT-TTTTATTATAAATAT--TAAAGAATTA
20172374 AA
1 AA
20172376 TTTTATTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 8 0.18
50 11 0.25
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (49 bp):
AAAATAATATATATATCCAAAAATTTTTATTATAAATATTAAAGAATTA
Found at i:20173546 original size:37 final size:37
Alignment explanation
Indices: 20173487--20173569 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
20173477 AGACATCTTG
* * *
20173487 TTTCGATACTAAACTGAAATAATAAGTCTAGATTTCA
1 TTTCGATATTAAACTAAAATAATAAGTCTAGATTCCA
*
20173524 TTTCAATATTAAACTAAAATAATAAGTCTAGATTCCA
1 TTTCGATATTAAACTAAAATAATAAGTCTAGATTCCA
20173561 TTTCGATAT
1 TTTCGATAT
20173570 AAATTTCAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.37
Consensus pattern (37 bp):
TTTCGATATTAAACTAAAATAATAAGTCTAGATTCCA
Found at i:20173764 original size:24 final size:24
Alignment explanation
Indices: 20173737--20173796 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
20173727 ATCTTCCAAT
* **
20173737 ATATACATATATTAAATTTATTTA
1 ATATACATATATAAAATAAATTTA
* *
20173761 ATATATAAATATAAAATAAATTTA
1 ATATACATATATAAAATAAATTTA
20173785 AT-TAGCATATAT
1 ATATA-CATATAT
20173797 GTATACATAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATACATATATAAAATAAATTTA
Found at i:20183774 original size:13 final size:13
Alignment explanation
Indices: 20183756--20183794 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
20183746 AGATATTATT
20183756 TTATTTAGTTTTA
1 TTATTTAGTTTTA
20183769 TTATTTA-TTTTA
1 TTATTTAGTTTTA
*
20183781 TTAATTTAGCTTTA
1 TT-ATTTAGTTTTA
20183795 GCATATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 12 0.52
14 4 0.17
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:20191320 original size:21 final size:21
Alignment explanation
Indices: 20191296--20191336 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20191286 ACCTTTTCTA
20191296 AAGTTAAAA-GTCAAAACCATT
1 AAGTTAAAAGGT-AAAACCATT
20191317 AAGTTAAAAGGTAAAACCAT
1 AAGTTAAAAGGTAAAACCAT
20191337 GTTGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACCATT
Found at i:20195198 original size:27 final size:27
Alignment explanation
Indices: 20195149--20195235 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
20195139 GTGACGAAGT
*
20195149 CACCAGATACAAATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
20195176 C-CCTAGAACAGATATATGTGGCAGAGC
1 CACC-AGAACAGATATATGTGGCAGAGC
* *
20195203 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
20195230 CACCAG
1 CACCAG
20195236 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.19
27 41 0.77
28 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:20196859 original size:26 final size:26
Alignment explanation
Indices: 20196828--20196935 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
20196818 TGAAATGCCC
*
20196828 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
20196854 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
20196880 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
20196906 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20196932 ATCA
1 ATCA
20196936 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20201695 original size:46 final size:45
Alignment explanation
Indices: 20201594--20201719 Score: 134
Period size: 46 Copynumber: 2.7 Consensus size: 45
20201584 GATGGTATGT
20201594 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGAGA
1 GAGCTAGTGTAAGACATGTCTG-GACATGCATCGG-C-CATTATGAGA
* *
20201642 -A-CCAGTGTAAGACATGTCTAGGACATGCATCTG-CATTGA-GACGA
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCCATT-ATGA-GA
*
20201686 GAGCTAGTGTAAGACATGTATGGGACATGCATCG
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCG
20201720 TCCTCGGGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.09
44 3 0.04
45 1 0.01
46 55 0.82
47 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGGCCATTATGAGA
Found at i:20205256 original size:20 final size:20
Alignment explanation
Indices: 20205231--20205279 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
20205221 TAGGGATCAA
20205231 TTTGAAACAAAATAGAAAAC
1 TTTGAAACAAAATAGAAAAC
* * *
20205251 TTTGAAA-AAACTTGAAAAT
1 TTTGAAACAAAATAGAAAAC
20205270 TTTAGAAACA
1 TTT-GAAACA
20205280 GGGGTCACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.50
20 11 0.46
21 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (20 bp):
TTTGAAACAAAATAGAAAAC
Found at i:20206879 original size:24 final size:24
Alignment explanation
Indices: 20206846--20206892 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20206836 ATTGATATAA
* **
20206846 TGGTATCCTTTTTGACCTTTTCAT
1 TGGTAACCTTTTCAACCTTTTCAT
20206870 TGGTAACCTTTTCAACCTTTTCA
1 TGGTAACCTTTTCAACCTTTTCA
20206893 CTGTTTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (24 bp):
TGGTAACCTTTTCAACCTTTTCAT
Found at i:20213017 original size:21 final size:21
Alignment explanation
Indices: 20212987--20213027 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20212977 GAAATGTTAA
*
20212987 TATGATTTGTATTACTACGCT
1 TATGAGTTGTATTACTACGCT
*
20213008 TATGAGTTGTATTCCTACGC
1 TATGAGTTGTATTACTACGC
20213028 CATTAGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (21 bp):
TATGAGTTGTATTACTACGCT
Found at i:20217446 original size:24 final size:24
Alignment explanation
Indices: 20217419--20217483 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 24
20217409 CGAAACAACA
*
20217419 TCCCGTTATTAGCTCTCATGAGCT
1 TCCCGTTATTAGCTCTCACGAGCT
* **
20217443 TCCCGTTATATAGTTCTTGCGAGCT
1 TCCCGTTAT-TAGCTCTCACGAGCT
* *
20217468 TCCCATTAATAGCTCT
1 TCCCGTTATTAGCTCT
20217484 TCGGAGCATC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTCACGAGCT
Found at i:20217490 original size:24 final size:25
Alignment explanation
Indices: 20217438--20217484 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20217428 TAGCTCTCAT
* *
20217438 GAGCTTCCCGTTATATAGTTCTTGC
1 GAGCTTCCCATTATATAGCTCTTGC
20217463 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
20217485 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGC
Found at i:20218924 original size:43 final size:43
Alignment explanation
Indices: 20218877--20219029 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 43
20218867 ATATAGGATT
* * *
20218877 TCGATATGTGATTTCGTGTAAGACTATGTCTGGGAAATTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* * * *
20218920 TCGATTTGAGATTTGCGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATGTGATTT-CATGTAAGACCATGTCTGGGACATTGGCA
* * * * *
20218964 TTG-TATTTGATTTCATGTAAAACCCTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* *
20219006 TCGATATTTGATTACATGTAAGAC
1 TCGATATGTGATTTCATGTAAGAC
20219030 TACATCTAGG
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 26 0.29
43 37 0.41
44 28 0.31
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
Found at i:20219042 original size:43 final size:42
Alignment explanation
Indices: 20218949--20219042 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
20218939 TAAGACCATG
* * * * *
20218949 TCTAGGACATTGGCATTGTATTTGATTTCATGTAAAACCCTG
1 TCTAGGACAGTGGCATCGTATTTGATTACATGTAAAACACTA
* *
20218991 TCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACTAC-A
1 TCTAGGACAGTGGCATCG-TATTTGATTACATGTAAAAC-ACTA
20219034 TCTAGGACA
1 TCTAGGACA
20219043 TTCGTATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
42 15 0.36
43 26 0.62
44 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (42 bp):
TCTAGGACAGTGGCATCGTATTTGATTACATGTAAAACACTA
Found at i:20226598 original size:42 final size:42
Alignment explanation
Indices: 20226488--20226652 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 42
20226478 TTCCGATATG
* *
20226488 TGATTTCGTGTAAGA-CCAGATCTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCCTG-TCTGGGACATTGGCATCGTATT
* * * *
20226529 TGAGATTTATGTGTAAGGCCATGTCTGGGACATTAGCATCGTATT
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATT
*
20226574 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATT
* * * *
20226617 TGATTACATGTAAGACCAC-GTTTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCAT
20226653 TGTACGTGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 43 0.43
44 24 0.24
45 6 0.06
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGTATT
Found at i:20228433 original size:58 final size:58
Alignment explanation
Indices: 20228360--20228535 Score: 352
Period size: 58 Copynumber: 3.0 Consensus size: 58
20228350 TACTTGAATG
20228360 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
1 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
20228418 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
1 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
20228476 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
1 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
20228534 TG
1 TG
20228536 ACTAACATGA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 118 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (58 bp):
TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
Found at i:20235739 original size:24 final size:24
Alignment explanation
Indices: 20235712--20235787 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
20235702 CTCTCCGGAG
*
20235712 CTTCTATATATTGGCTCACTTGAA
1 CTTCTAGATATTGGCTCACTTGAA
* *
20235736 CTTCTCGATATTGGCTCGCTTGAA
1 CTTCTAGATATTGGCTCACTTGAA
** * * *
20235760 CTTCCCGATACTGGCTCACATGAG
1 CTTCTAGATATTGGCTCACTTGAA
20235784 CTTC
1 CTTC
20235788 CCATTATATG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.36
Consensus pattern (24 bp):
CTTCTAGATATTGGCTCACTTGAA
Found at i:20235788 original size:24 final size:24
Alignment explanation
Indices: 20235723--20235789 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
20235713 TTCTATATAT
* *
20235723 TGGCTCACTTGAACTTCTCGATAT
1 TGGCTCACTTGAACTTCCCGATAC
*
20235747 TGGCTCGCTTGAACTTCCCGATAC
1 TGGCTCACTTGAACTTCCCGATAC
* *
20235771 TGGCTCACATGAGCTTCCC
1 TGGCTCACTTGAACTTCCC
20235790 ATTATATGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.31
Consensus pattern (24 bp):
TGGCTCACTTGAACTTCCCGATAC
Found at i:20235801 original size:25 final size:24
Alignment explanation
Indices: 20235771--20235836 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 24
20235761 TTCCCGATAC
20235771 TGGCTCACATGAGCTTCCCATTATA
1 TGGCTCACATGAGCTTCCCATT-TA
* *
20235796 TGGCTCGAAAGAGAGCTTCCCATTTA
1 TGGCTC-ACA-TGAGCTTCCCATTTA
20235822 TGTGCTC-CTATGAGC
1 TG-GCTCAC-ATGAGC
20235837 ACTCCTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
25 10 0.30
26 7 0.21
27 16 0.48
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCATTTA
Found at i:20241676 original size:16 final size:16
Alignment explanation
Indices: 20241655--20241685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20241645 AAGTGAAAAA
*
20241655 TCCTATTAATTGTTTT
1 TCCTATTAACTGTTTT
20241671 TCCTATTAACTGTTT
1 TCCTATTAACTGTTT
20241686 CAGGCTAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (16 bp):
TCCTATTAACTGTTTT
Found at i:20255810 original size:39 final size:39
Alignment explanation
Indices: 20255752--20255848 Score: 149
Period size: 39 Copynumber: 2.5 Consensus size: 39
20255742 TGAACTGAAA
* * * * *
20255752 CCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAT
1 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
20255791 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
20255830 CCCGAAGGCTAACTAAAGC
1 CCCGAAGGCTAACTAAAGC
20255849 TCATCAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (39 bp):
CCCGAAGGCTAACTAAAGCACACAAGTGCTAAACGGAAG
Found at i:20258070 original size:15 final size:15
Alignment explanation
Indices: 20258032--20258073 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
20258022 GAAGCCCAGA
20258032 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
20258047 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
*
20258062 ATAGGGAAATCC
1 ATAAGGAAATCC
20258074 TATTTACAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:20261387 original size:19 final size:19
Alignment explanation
Indices: 20261319--20261420 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 19
20261309 ACATCGTGAT
* *
20261319 CTGAAGCTCGAAGT-CTAA
1 CTGAAGCCCAAAGTGCTAA
* *
20261337 CTGAAGCACACAAGTTCTAA
1 CTGAAGCCCA-AAGTGCTAA
*
20261357 ATGGAAGCCCAAAG-GCTAA
1 CT-GAAGCCCAAAGTGCTAA
20261376 CTGAAGCACC-AAGTGCTAAA
1 CTGAAGC-CCAAAGTGCT-AA
* *
20261396 CGGAAGCCCGAAG-GCTAA
1 CTGAAGCCCAAAGTGCTAA
*
20261414 CTAAAGC
1 CTGAAGC
20261421 TCATCAGAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
18 23 0.34
19 19 0.28
20 19 0.28
21 7 0.10
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (19 bp):
CTGAAGCCCAAAGTGCTAA
Found at i:20261401 original size:38 final size:39
Alignment explanation
Indices: 20261333--20261420 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 39
20261323 AGCTCGAAGT
* *
20261333 CTAACTGAAGCACACAAGTTCTAAATGGAAGCCCAAAGG
1 CTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGG
*
20261372 CTAACTGAAGCAC-CAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGG
*
20261410 CTAACTAAAGC
1 CTAACTGAAGC
20261421 TCATCAGAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 32 0.71
39 13 0.29
ACGTcount: A:0.40, C:0.25, G:0.22, T:0.14
Consensus pattern (39 bp):
CTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGG
Found at i:20266544 original size:4 final size:4
Alignment explanation
Indices: 20266535--20266568 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
20266525 AGGAGTTGCA
20266535 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
20266569 TTATGTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:20273249 original size:25 final size:25
Alignment explanation
Indices: 20273220--20273272 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
20273210 AGCCAAACCG
*
20273220 AGCCTTTGTGGCGAGTAATCTGTAA
1 AGCCTTTGTGGCAAGTAATCTGTAA
*
20273245 AGCCTTTGTGGCAAGTTATCTGTAA
1 AGCCTTTGTGGCAAGTAATCTGTAA
20273270 AGC
1 AGC
20273273 TGTAACAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (25 bp):
AGCCTTTGTGGCAAGTAATCTGTAA
Found at i:20282630 original size:19 final size:19
Alignment explanation
Indices: 20282606--20282647 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
20282596 GTCAAAAGTT
20282606 TAGAGGTAAATTTGTAATC
1 TAGAGGTAAATTTGTAATC
*
20282625 TAGAGGTAAATTTGTAATT
1 TAGAGGTAAATTTGTAATC
20282644 TAGA
1 TAGA
20282648 CAAAATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (19 bp):
TAGAGGTAAATTTGTAATC
Found at i:20283135 original size:22 final size:22
Alignment explanation
Indices: 20283107--20283163 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
20283097 TGCTCGTATA
*
20283107 AGCTTACTATTTAGCACAATAG
1 AGCTTACTATTCAGCACAATAG
* ***
20283129 AGCTTACTGTTCAGCTTGATAG
1 AGCTTACTATTCAGCACAATAG
20283151 AGCTTACTATTCA
1 AGCTTACTATTCA
20283164 TCAGCTCAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (22 bp):
AGCTTACTATTCAGCACAATAG
Found at i:20288631 original size:21 final size:21
Alignment explanation
Indices: 20288605--20288648 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20288595 AGTGGATCAA
20288605 CTCTTACAAGCTTCTATTTAG
1 CTCTTACAAGCTTCTATTTAG
* *
20288626 CTCTTACGAGCTTCTGTTTAG
1 CTCTTACAAGCTTCTATTTAG
20288647 CT
1 CT
20288649 TTTGAGCTTC
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:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (21 bp):
CTCTTACAAGCTTCTATTTAG
Found at i:20291015 original size:16 final size:16
Alignment explanation
Indices: 20290994--20291027 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20290984 AACCGCCATA
20290994 GCCAATATAAGAATCT
1 GCCAATATAAGAATCT
* *
20291010 GCCAATATTAGTATCT
1 GCCAATATAAGAATCT
20291026 GC
1 GC
20291028 ATGTATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (16 bp):
GCCAATATAAGAATCT
Found at i:20299978 original size:45 final size:45
Alignment explanation
Indices: 20299914--20300003 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
20299904 CATCAATAAG
20299914 AGGTATGTTGATTTTTACCTTTCGAAAGTTGTCGAGAATCTTCTT
1 AGGTATGTTGATTTTTACCTTTCGAAAGTTGTCGAGAATCTTCTT
*
20299959 AGGTATGTTGATTTTTACCTTTCGAAAGTTGTCGAGTATCTTCTT
1 AGGTATGTTGATTTTTACCTTTCGAAAGTTGTCGAGAATCTTCTT
20300004 CTCTTTTCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (45 bp):
AGGTATGTTGATTTTTACCTTTCGAAAGTTGTCGAGAATCTTCTT
Found at i:20301880 original size:12 final size:12
Alignment explanation
Indices: 20301863--20301893 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20301853 ATAATTAATT
20301863 AATTAAATTAGA
1 AATTAAATTAGA
*
20301875 AATTAAATTGGA
1 AATTAAATTAGA
20301887 AATTAAA
1 AATTAAA
20301894 CTCAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (12 bp):
AATTAAATTAGA
Found at i:20311347 original size:13 final size:13
Alignment explanation
Indices: 20311331--20311380 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
20311321 TTTATATCAA
*
20311331 ACTTTTTAAAAAC
1 ACTTTTTAAAAAT
*
20311344 ACTTTTAAAAAAT
1 ACTTTTTAAAAAT
* * *
20311357 ATTTTTTTACAAT
1 ACTTTTTAAAAAT
20311370 ACTTTTTAAAA
1 ACTTTTTAAAA
20311381 GCATTAACAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (13 bp):
ACTTTTTAAAAAT
Found at i:20312601 original size:24 final size:26
Alignment explanation
Indices: 20312555--20312607 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
20312545 TTTATTTTGG
*
20312555 TTAGTGAAAGTCAATTGAGTTTT-TT
1 TTAGTGAAAGACAATTGAGTTTTGTT
*
20312580 TTAGTG-AAGACAATTGATTTTTGTT
1 TTAGTGAAAGACAATTGAGTTTTGTT
20312605 TTA
1 TTA
20312608 CCCTAACGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (26 bp):
TTAGTGAAAGACAATTGAGTTTTGTT
Found at i:20313950 original size:16 final size:16
Alignment explanation
Indices: 20313929--20313960 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20313919 GTTCTGTTGA
20313929 GACCCATCTCTTCCAT
1 GACCCATCTCTTCCAT
20313945 GACCCATCTCTTCCAT
1 GACCCATCTCTTCCAT
20313961 TGATGTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.44, G:0.06, T:0.31
Consensus pattern (16 bp):
GACCCATCTCTTCCAT
Found at i:20328880 original size:36 final size:35
Alignment explanation
Indices: 20328801--20328871 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
20328791 TGATTTAGCA
* *
20328801 AACAATAAGTATTAAAAGAAACGAAAATTTTTAACT
1 AACAATAAGTATTAAAAGAAACGAAAA-TATTAAAT
*
20328837 AACAATAAGTGTTAAAAGAAACGAAAA-ATTAAAT
1 AACAATAAGTATTAAAAGAAACGAAAATATTAAAT
20328871 A
1 A
20328872 GAAGAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 6 0.19
36 26 0.81
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (35 bp):
AACAATAAGTATTAAAAGAAACGAAAATATTAAAT
Done.