Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 41 of 93
Found at i:15732377 original size:29 final size:30
Alignment explanation
Indices: 15732343--15732404 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15732333 AGTTACATAC
* *
15732343 CATGTTG-AAAAGGAAAAGTTATTATACGT
1 CATGTTGAAAAAAGAAAAGTTATTACACGT
15732372 CATGTTGAAAAAAGAAAAGTTATTACACGT
1 CATGTTGAAAAAAGAAAAGTTATTACACGT
15732402 CAT
1 CAT
15732405 TTTTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.29
Consensus pattern (30 bp):
CATGTTGAAAAAAGAAAAGTTATTACACGT
Found at i:15732500 original size:121 final size:121
Alignment explanation
Indices: 15732375--15732711 Score: 326
Period size: 121 Copynumber: 2.8 Consensus size: 121
15732365 TATACGTCAT
* * * *
15732375 GTTGAAAAAAGAAAAGTTATTACACGTCATTTTTAAAGTGTTTAATTCTAAGAGTTTATGTTCTA
1 GTTGAAAAAA-AAAAGTTATTACACGTCATGTTTAAAGTGTTTAACTCAAAGAGTTTATATTCTA
* *
15732440 GTGAAATACAAAAATAGAGACAAAGTTACAC-TCCATG-T-GACAAAAAAGTTATTACA-
65 GTGAAATACAAAAATAGAGAC-AAGTTACACAT-CATGTTAGA-AAAAAAATAATTACAC
* * * * *
15732496 GTTGAAAAAAAAAAGTTATTACACGCCGTGGTTAAAATGTTTAACTCCAAA-AGTTTATATCCTA
1 GTTGAAAAAAAAAAGTTATTACACGTCATGTTTAAAGTGTTTAACT-CAAAGAGTTTATATTCTA
* * * * * *
15732560 GCGAAATATAGATATAGAGACCAAGTTACACATTATGTTAGAAAAAAAATAATTATAC
65 GTGAAATACAAAAATAGAGA-CAAGTTACACATCATGTTAGAAAAAAAATAATTACAC
* * ** * * *
15732618 G-TCATATTAAAAAGTTATTACACATCATGTTTAAGGTGTTTAACTCAAAGAGTTTATATTTTAG
1 GTTGAAAAAAAAAAGTTATTACACGTCATGTTTAAAGTGTTTAACTCAAAGAGTTTATATTCTAG
* *
15732682 TAAAAATACAAAGATAGAGATCAAGTTACA
66 T-GAAATACAAAAATAGAGA-CAAGTTACA
15732712 TGCCATATTC
Statistics
Matches: 173, Mismatches: 35, Indels: 15
0.78 0.16 0.07
Matches are distributed among these distances:
120 73 0.42
121 74 0.43
122 26 0.15
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (121 bp):
GTTGAAAAAAAAAAGTTATTACACGTCATGTTTAAAGTGTTTAACTCAAAGAGTTTATATTCTAG
TGAAATACAAAAATAGAGACAAGTTACACATCATGTTAGAAAAAAAATAATTACAC
Found at i:15734437 original size:22 final size:22
Alignment explanation
Indices: 15734401--15734461 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
15734391 ACTTAATCAA
*
15734401 TATGTGATTAATTTTTAGGCAT
1 TATGTGATTAGTTTTTAGGCAT
* *
15734423 TATGTGATT-GGTTTTAAGCAT
1 TATGTGATTAGTTTTTAGGCAT
* *
15734444 TACGTGAGTAGTTTTTAG
1 TATGTGATTAGTTTTTAG
15734462 ACATCGCATG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.48
Consensus pattern (22 bp):
TATGTGATTAGTTTTTAGGCAT
Found at i:15734625 original size:26 final size:26
Alignment explanation
Indices: 15734513--15734702 Score: 132
Period size: 26 Copynumber: 7.7 Consensus size: 26
15734503 ATGCCTTACT
* *
15734513 AACTAGTCACACAATACCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAGA
* ** *
15734539 AACTAGTTACGCAATGTTTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAGA
*
15734565 AACTAATCACGCAATGCC----CA-A
1 AACTAGTCACGCAATGCCTTATCAGA
** * *
15734586 AGTTAGTCAAGCAATGCCTTATTAGA
1 AACTAGTCACGCAATGCCTTATCAGA
*
15734612 AACTAGTCACGCAATACC----C--A
1 AACTAGTCACGCAATGCCTTATCAGA
*
15734632 AAGTCAGTCACGCAATGCCTTATCAGA
1 AACT-AGTCACGCAATGCCTTATCAGA
* * * *
15734659 AACTAGTCATGCGATACCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAGA
*
15734685 AATTAGTCACGCAATGCC
1 AACTAGTCACGCAATGCC
15734703 CAAAGTTAGT
Statistics
Matches: 121, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
20 4 0.03
21 28 0.23
22 2 0.02
25 2 0.02
26 81 0.67
27 4 0.03
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAGA
Found at i:15734664 original size:47 final size:47
Alignment explanation
Indices: 15734547--15734676 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
15734537 GAAACTAGTT
** * * * *
15734547 ACGCAATGTTTTATCAAAAACTAATCACGCAATGCCCAAAGTTAGTC
1 ACGCAATGCCTTATCAGAAACTAGTCACGCAATACCCAAAGTCAGTC
* *
15734594 AAGCAATGCCTTATTAGAAACTAGTCACGCAATACCCAAAGTCAGTC
1 ACGCAATGCCTTATCAGAAACTAGTCACGCAATACCCAAAGTCAGTC
* *
15734641 ACGCAATGCCTTATCAGAAACTAGTCATGCGATACC
1 ACGCAATGCCTTATCAGAAACTAGTCACGCAATACC
15734677 TTATCAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (47 bp):
ACGCAATGCCTTATCAGAAACTAGTCACGCAATACCCAAAGTCAGTC
Found at i:15734711 original size:21 final size:21
Alignment explanation
Indices: 15734687--15734743 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
15734677 TTATCAAAAA
15734687 TTAGTCACGCAATGCCCAAAG
1 TTAGTCACGCAATGCCCAAAG
* * **
15734708 TTAGTAACACAATATCCAAAG
1 TTAGTCACGCAATGCCCAAAG
*
15734729 TCAGTCACGCAATGC
1 TTAGTCACGCAATGC
15734744 TTAAAAACTA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (21 bp):
TTAGTCACGCAATGCCCAAAG
Found at i:15734937 original size:19 final size:21
Alignment explanation
Indices: 15734898--15734938 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
15734888 TTCATATATC
*
15734898 AAAAATCACTCTAAAATGCTT
1 AAAAATCACTCTAAAACGCTT
15734919 AAAAAT-ACTC-AAAACGCTT
1 AAAAATCACTCTAAAACGCTT
15734938 A
1 A
15734939 CATGTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAAATCACTCTAAAACGCTT
Found at i:15742399 original size:101 final size:99
Alignment explanation
Indices: 15742218--15742416 Score: 301
Period size: 101 Copynumber: 2.0 Consensus size: 99
15742208 TTTAATCACA
* * *
15742218 ATCACAATGTCAAATGAGATGTAAATAACACTATATAAAACTTTATATATGAAAGATTTGTAATT
1 ATCACAATGTCAAATAAAATGTAAATAACACTATATAAAACTTCATATATGAAAGATTTGTAATT
*
15742283 CAGTTTAAAAAAG-AAACAAGGATTTGGATACTTG
66 CAGTTCAAAAAAGAAAAC-AGGATTTGGATACTTG
* *
15742317 ATCACAATGTCAAATAAAATGTAAATAATACTGTATAAAACATTACATATATGAAAGATTTGTAA
1 ATCACAATGTCAAATAAAATGTAAATAACACTATATAAAAC-TT-CATATATGAAAGATTTGTAA
*
15742382 TTCAGTTCAATAAAGAAAACAGGATTTGGATACTT
64 TTCAGTTCAAAAAAGAAAACAGGATTTGGATACTT
15742417 AATTAATATG
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 37 0.41
100 2 0.02
101 47 0.52
102 4 0.04
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (99 bp):
ATCACAATGTCAAATAAAATGTAAATAACACTATATAAAACTTCATATATGAAAGATTTGTAATT
CAGTTCAAAAAAGAAAACAGGATTTGGATACTTG
Found at i:15745855 original size:2 final size:2
Alignment explanation
Indices: 15745848--15745895 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
15745838 NNNNNNNNNN
15745848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15745890 AT AT AT
1 AT AT AT
15745896 CCATCACCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15745996 original size:43 final size:43
Alignment explanation
Indices: 15745935--15746083 Score: 223
Period size: 42 Copynumber: 3.5 Consensus size: 43
15745925 CAGCTCATGT
* *
15745935 GCACTCCCTTCTCACACATAGCTGGGTCAGCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
* *
15745978 GCACTCCCTACTCGCACATAGCCGGGTCAGCATCAGCTTATGC
1 GCACTCCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
15746021 GCACTCCC-ACTCGCACATAG-TCGGGTCAGCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAGCT-GGGTCAGCATCGGCTTATGC
*
15746063 GCACT-CCTACTCGAACATAGC
1 GCACTCCCTACTCGCACATAGC
15746084 CAAGTCAATA
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
41 2 0.02
42 47 0.49
43 47 0.49
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.22
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAGCTGGGTCAGCATCGGCTTATGC
Found at i:15746046 original size:42 final size:42
Alignment explanation
Indices: 15745922--15746083 Score: 220
Period size: 43 Copynumber: 3.8 Consensus size: 42
15745912 CCCCCATTAT
* * * *
15745922 CATCAGCTCATGTGCACTCCCTTCTCACACATAGCTGGGTCAG
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAGC-GGGTCAG
*
15745965 CATCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGGTCAG
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAG-CGGGTCAG
15746008 CATCAGCTTATGCGCACTCCC-ACTCGCACATAGTCGGGTCAG
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAG-CGGGTCAG
* *
15746050 CATCGGCTTATGCGCACT-CCTACTCGAACATAGC
1 CATCAGCTTATGCGCACTCCCTACTCGCACATAGC
15746084 CAAGTCAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.03
42 48 0.44
43 56 0.52
44 1 0.01
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (42 bp):
CATCAGCTTATGCGCACTCCCTACTCGCACATAGCGGGTCAG
Found at i:15746066 original size:85 final size:85
Alignment explanation
Indices: 15745922--15746084 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 85
15745912 CCCCCATTAT
* *
15745922 CATCAGCTCATGTGCACTCCCTTCTCACACATAGCTGGGTCAGCATCGGCTTATGCGCACTCCCT
1 CATCAGCTCATGCGCACTCCCTACTCACACATAGCTGGGTCAGCATCGGCTTATGCGCACT-CCT
*
15745987 ACTCGCACATAGCCGGGTCAG
65 ACTCGAACATAGCCGGGTCAG
* *
15746008 CATCAGCTTATGCGCACTCCC-ACTCGCACATAG-TCGGGTCAGCATCGGCTTATGCGCACTCCT
1 CATCAGCTCATGCGCACTCCCTACTCACACATAGCT-GGGTCAGCATCGGCTTATGCGCACTCCT
15746071 ACTCGAACATAGCC
65 ACTCGAACATAGCC
15746085 AAGTCAATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
84 17 0.24
85 35 0.49
86 19 0.27
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (85 bp):
CATCAGCTCATGCGCACTCCCTACTCACACATAGCTGGGTCAGCATCGGCTTATGCGCACTCCTA
CTCGAACATAGCCGGGTCAG
Found at i:15748672 original size:2 final size:2
Alignment explanation
Indices: 15748659--15748695 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
15748649 TTTTCTGTCT
*
15748659 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15748696 TCTTCTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:15748911 original size:2 final size:2
Alignment explanation
Indices: 15748865--15748900 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
15748855 NNNNNTGTCT
15748865 TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15748901 ATTTTCTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:15750437 original size:21 final size:21
Alignment explanation
Indices: 15750413--15750480 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
15750403 TTGACTTTGA
* * *
15750413 ATGATGGCATCAATCCTTGTC
1 ATGAAGGCATCAGTCTTTGTC
*
15750434 ATGAAGGCATCTGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
15750455 ATGAAGGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
15750476 ATGAA
1 ATGAA
15750481 TTGCATAACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:15759036 original size:50 final size:46
Alignment explanation
Indices: 15758982--15759096 Score: 149
Period size: 46 Copynumber: 2.4 Consensus size: 46
15758972 TATATATATT
* * *
15758982 TTTACCTAATCTAAATTTTTTGTAACTAAATTTCTTTTCTATTTTTCTTA
1 TTTACCTAACCT--ATTTTTTATAACTAAATAT-TTTTC-ATTTTTCTTA
*
15759032 TTTACCTAACCTATTTTTTATGACTAAATATTTTTCATTTTTCTTA
1 TTTACCTAACCTATTTTTTATAACTAAATATTTTTCATTTTTCTTA
*
15759078 CTTACCTAACCTATTTTTT
1 TTTACCTAACCTATTTTTT
15759097 TATTACTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
46 28 0.47
47 5 0.08
48 16 0.27
50 11 0.18
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.57
Consensus pattern (46 bp):
TTTACCTAACCTATTTTTTATAACTAAATATTTTTCATTTTTCTTA
Found at i:15759099 original size:47 final size:48
Alignment explanation
Indices: 15758996--15759096 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 48
15758986 CCTAATCTAA
* * *
15758996 ATTTTTTGTAACTAAATTTCTTTTCTATTTTTCTTATTTACCTAACCT
1 ATTTTTTATAACTAAATATCTTTTCTATTTTTCTTACTTACCTAACCT
*
15759044 ATTTTTTATGACTAAATAT-TTTTC-ATTTTTCTTACTTACCTAACCT
1 ATTTTTTATAACTAAATATCTTTTCTATTTTTCTTACTTACCTAACCT
15759090 ATTTTTT
1 ATTTTTT
15759097 TATTACTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 28 0.57
47 5 0.10
48 16 0.33
ACGTcount: A:0.24, C:0.16, G:0.02, T:0.58
Consensus pattern (48 bp):
ATTTTTTATAACTAAATATCTTTTCTATTTTTCTTACTTACCTAACCT
Found at i:15759107 original size:14 final size:14
Alignment explanation
Indices: 15759088--15759114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15759078 CTTACCTAAC
15759088 CTATTTTTTTATTA
1 CTATTTTTTTATTA
15759102 CTATTTTTTTATT
1 CTATTTTTTTATT
15759115 GTTTCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
CTATTTTTTTATTA
Found at i:15760892 original size:49 final size:50
Alignment explanation
Indices: 15760809--15760926 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 50
15760799 TTTGAAAGTA
* * * * *
15760809 ATTTGAAAAACAAACACCTCCTCATCTAAGGCTTATCAACTTTATAAACA-
1 ATTT-AAAAATAAACAACTCCTCATCTAAGGCTTAACAACTATAAAAACAC
* * * *
15760859 ATTTAGAAATTAACAACTCCTTATCTGAGGCTTAACAACTATAAAAACAC
1 ATTTAAAAATAAACAACTCCTCATCTAAGGCTTAACAACTATAAAAACAC
*
15760909 TTTTAAAAATAAACAACT
1 ATTTAAAAATAAACAACT
15760927 TATAGCTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 36 0.65
50 19 0.35
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (50 bp):
ATTTAAAAATAAACAACTCCTCATCTAAGGCTTAACAACTATAAAAACAC
Found at i:15763798 original size:35 final size:34
Alignment explanation
Indices: 15763757--15763904 Score: 121
Period size: 32 Copynumber: 4.4 Consensus size: 34
15763747 ATTGATCCCG
15763757 TGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTTG-AGGTTGTGGTTGAGCCTT
* * * * *
15763792 TGAAAAAACACT-TTG-GATTTTGGTTGA-CCTCG
1 TGAAAAACCATTGTTGAGGTTGTGGTTGAGCCT-T
15763824 TGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTTG--AGGTTGTGGTTGAGCCTT
* * *
15763859 TGAAAAACCACT-TTG-GGTTTTGGTTGA-TCTT
1 TGAAAAACCATTGTTGAGGTTGTGGTTGAGCCTT
*
15763890 GGTAAAAACCATTGT
1 TG-AAAAACCATTGT
15763905 GAAAGGTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
31 7 0.08
32 42 0.47
33 1 0.01
34 3 0.03
35 33 0.37
36 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (34 bp):
TGAAAAACCATTGTTGAGGTTGTGGTTGAGCCTT
Found at i:15763818 original size:32 final size:32
Alignment explanation
Indices: 15763737--15763885 Score: 122
Period size: 35 Copynumber: 4.5 Consensus size: 32
15763727 AAGTTAATTG
* * ** *
15763737 TTGGGTTTTGATTGATCCCGTGAAAAACCATT
1 TTGGGTTTTGGTTGAGCCTTTGAAAAACCACT
* *
15763769 GTTGTAGGTTGTGGTTGAGCCTTTGAAAAAACACT
1 -TTG--GGTTTTGGTTGAGCCTTTGAAAAACCACT
* *
15763804 TTGGATTTTGGTTGA-CCTCGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCT-TTGAAAAACCACT
*
15763835 TGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 T-TG---GGTTTTGGTTGAGCCTTTGAAAAACCACT
15763871 TTGGGTTTTGGTTGA
1 TTGGGTTTTGGTTGA
15763886 TCTTGGTAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
31 5 0.05
32 32 0.35
33 3 0.03
34 3 0.03
35 44 0.48
36 5 0.05
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCTTTGAAAAACCACT
Found at i:15763924 original size:67 final size:67
Alignment explanation
Indices: 15763737--15763912 Score: 257
Period size: 67 Copynumber: 2.6 Consensus size: 67
15763727 AAGTTAATTG
* * *
15763737 TTGGGTTTTGATTGATCCCGTGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAAAC
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAAAC
15763801 ACT
65 ACT
* * *
15763804 TTGGATTTTGGTTGACCTCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAAACA
15763869 CT
66 CT
*
15763871 TTGGGTTTTGGTTGATCTTG-GTAAAAACCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATCTCGTG-AAAAACCATTGTGAAAGGTT
15763913 TTGGCTAAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 3 0.03
67 95 0.97
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAAACA
CT
Found at i:15772797 original size:32 final size:32
Alignment explanation
Indices: 15772756--15772850 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 32
15772746 TAGGTTACCT
15772756 TTGAAAAATCACTTTGGGTTTTGGTTGAGCCC
1 TTGAAAAATCACTTTGGGTTTTGGTTGAGCCC
* *
15772788 TTGAAAAATCA-TTGTGAAAGGTTGTGGTTGAGCCT
1 TTGAAAAATCACTT-TG---GGTTTTGGTTGAGCCC
* *
15772823 TTGAAAAA-CTACTTTAGATTTTGGTTGA
1 TTGAAAAATC-ACTTTGGGTTTTGGTTGA
15772851 TCTCGGTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
31 2 0.04
32 23 0.44
34 1 0.02
35 24 0.46
36 2 0.04
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (32 bp):
TTGAAAAATCACTTTGGGTTTTGGTTGAGCCC
Found at i:15777351 original size:18 final size:19
Alignment explanation
Indices: 15777309--15777351 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15777299 GCCTTTTAAA
15777309 CACCCTTTTTGATATACTT
1 CACCCTTTTTGATATACTT
*
15777328 CTCCCTTTTT-ATAGTAC-T
1 CACCCTTTTTGATA-TACTT
15777346 CACCCT
1 CACCCT
15777352 AACTTTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.44
Consensus pattern (19 bp):
CACCCTTTTTGATATACTT
Found at i:15780369 original size:45 final size:48
Alignment explanation
Indices: 15780283--15780371 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
15780273 TATACTTTTA
*
15780283 ACCTAATCTACTTTTTCGTAACTAAATTTGTTTCTATTTTTCTTATTT
1 ACCTAACCTACTTTTTCGTAACTAAATTTGTTTCTATTTTTCTTATTT
*
15780331 ACCTAACCTA-TTTTT-GTGACTAAATATT-TTTC-ATTTTTCTT
1 ACCTAACCTACTTTTTCGTAACTAAAT-TTGTTTCTATTTTTCTT
15780372 CCCTAACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
45 9 0.24
46 13 0.34
47 7 0.18
48 9 0.24
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.55
Consensus pattern (48 bp):
ACCTAACCTACTTTTTCGTAACTAAATTTGTTTCTATTTTTCTTATTT
Found at i:15780381 original size:46 final size:48
Alignment explanation
Indices: 15780281--15780381 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 48
15780271 TATATACTTT
* *
15780281 TAACCTAATCTACTTTTTCGTAACTAAATTTGTTTCTATTTTTCTTAT
1 TAACCTAACCTACTTTTTCGTAACTAAATTTGTTTCTATTTTTCTTAC
* * *
15780329 TTACCTAACCTA-TTTTT-GTGACTAAATATT-TTTC-ATTTTTCTTCCC
1 TAACCTAACCTACTTTTTCGTAACTAAAT-TTGTTTCTATTTTTCTT-AC
15780375 TAACCTA
1 TAACCTA
15780382 TTTTTTTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
45 9 0.20
46 19 0.42
47 7 0.16
48 10 0.22
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (48 bp):
TAACCTAACCTACTTTTTCGTAACTAAATTTGTTTCTATTTTTCTTAC
Found at i:15785705 original size:28 final size:30
Alignment explanation
Indices: 15785647--15785706 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
15785637 TTTTTTAAAT
* *
15785647 TTACACTTTTGCCCCCATAAAAGTTAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
*
15785677 TTACATTTTTG-CCCCA-AAAACTGAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
15785705 TT
1 TT
15785707 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 5 0.19
30 10 0.37
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCCATAAAACTGAAAAA
Found at i:15796234 original size:20 final size:20
Alignment explanation
Indices: 15796205--15796257 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
15796195 TGATCTGGTA
*
15796205 TATATATACATATACATATG
1 TATATGTACATATACATATG
15796225 TATATGTACATATACATATG
1 TATATGTACATATACATATG
*
15796245 TATATGTATATAT
1 TATATGTACATAT
15796258 CACACTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (20 bp):
TATATGTACATATACATATG
Found at i:15796257 original size:14 final size:14
Alignment explanation
Indices: 15796206--15796257 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
15796196 GATCTGGTAT
* *
15796206 ATATATACATATAC
1 ATATATATATGTAC
*
15796220 ATATGTATATGTAC
1 ATATATATATGTAC
* *
15796234 ATATACATATGTAT
1 ATATATATATGTAC
*
15796248 ATGTATATAT
1 ATATATATAT
15796258 CACACTGACA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (14 bp):
ATATATATATGTAC
Found at i:15801911 original size:27 final size:27
Alignment explanation
Indices: 15801873--15801944 Score: 144
Period size: 27 Copynumber: 2.7 Consensus size: 27
15801863 TAGAGTTAAT
15801873 TAAACTTGTAATGTTGTTGCCTTGTTG
1 TAAACTTGTAATGTTGTTGCCTTGTTG
15801900 TAAACTTGTAATGTTGTTGCCTTGTTG
1 TAAACTTGTAATGTTGTTGCCTTGTTG
15801927 TAAACTTGTAATGTTGTT
1 TAAACTTGTAATGTTGTT
15801945 TAAGTTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.49
Consensus pattern (27 bp):
TAAACTTGTAATGTTGTTGCCTTGTTG
Found at i:15803147 original size:73 final size:73
Alignment explanation
Indices: 15803059--15803238 Score: 177
Period size: 73 Copynumber: 2.5 Consensus size: 73
15803049 CTAACTGCAC
* * * * * **
15803059 TCTTAGTCAACTAAGTCGTTTCTGTTTTC-AGATCCCAATTTCTGGCAAT-GAGCACTTAGTCGA
1 TCTTAGTCGATTAAGTCGTTTCTGTCTTCAAG-TCCAAATTTCTAGCAATAG-GCACTTAGTAAA
*
15803122 CTAACTTCCT
64 CTAACTTACT
* * * *
15803132 TCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTCTAGCAGTAGGCTCTTAGTAAACT
1 TCTTAGTCGATTAAGTCGTTTCTGTCTTCAAGTCCAAATTTCTAGCAATAGGCACTTAGTAAACT
15803197 AACTTACT
66 AACTTACT
* * *
15803205 TCTTGGTCGATTAAGTTGGTTT-TGTCTTGAAGTC
1 TCTTAGTCGATTAAG-TCGTTTCTGTCTTCAAGTC
15803239 TAGATTTATG
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
73 82 0.91
74 8 0.09
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (73 bp):
TCTTAGTCGATTAAGTCGTTTCTGTCTTCAAGTCCAAATTTCTAGCAATAGGCACTTAGTAAACT
AACTTACT
Found at i:15803271 original size:73 final size:73
Alignment explanation
Indices: 15803113--15803272 Score: 207
Period size: 73 Copynumber: 2.2 Consensus size: 73
15803103 GCAATGAGCA
* *
15803113 CTTAGTCGACTAACTTCCTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTCTAGC
1 CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTATAGC
15803178 AGTAGGCT
66 AGTAGGCT
** * * * *
15803186 CTTAGTAAACTAACTTACTTCTTGGTCGATTAAGTTGGTTT-TGTCTTGAAGTCTAGATTTATGG
1 CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTT-GTTTCTGTCTTGAAGTCCAAATTTATAG
*
15803250 TAGT-GGACT
65 CAGTAGG-CT
15803259 CTTAGTCGACTAAC
1 CTTAGTCGACTAAC
15803273 CCATTTCTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
72 2 0.03
73 68 0.92
74 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (73 bp):
CTTAGTCGACTAACTTACTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTATAGC
AGTAGGCT
Found at i:15803281 original size:73 final size:72
Alignment explanation
Indices: 15803113--15803302 Score: 181
Period size: 73 Copynumber: 2.6 Consensus size: 72
15803103 GCAATGAGCA
* *
15803113 CTTAGTCGACTAACTTCC-TTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTCTAG
1 CTTAGTCGACTAAC--CCATTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTATAG
15803177 CAGTAGGCT
64 CAGTAGGCT
** ** * * *
15803186 CTTAGTAAACTAACTTACTTCTTGGTCGATTAAGTTGGTTT-TGTCTTGAAGTCTAGATTTATGG
1 CTTAGTCGACTAACCCA-TTCTTGGTCGATTAAGTT-GTTTCTGTCTTGAAGTCCAAATTTATAG
*
15803250 TAGT-GGACT
64 CAGTAGG-CT
* *
15803259 CTTAGTCGACTAACCCATTTCTTGATCGACTAAGTCT-TTTCTGT
1 CTTAGTCGACTAACCCA-TTCTTGGTCGATTAAGT-TGTTTCTGT
15803303 TTCTTAATAC
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
72 5 0.05
73 84 0.89
74 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (72 bp):
CTTAGTCGACTAACCCATTCTTGGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAAATTTATAGCA
GTAGGCT
Found at i:15823392 original size:73 final size:73
Alignment explanation
Indices: 15823244--15823403 Score: 214
Period size: 73 Copynumber: 2.2 Consensus size: 73
15823234 GCAGTGAGCA
* * * *
15823244 CTTAGTCAACTAACTTCCTTCTTAGTCGATTACGTTATTTCTATCTTGAAGTCTAGATTTCTGAC
1 CTTAGTCAACTAACTTACTTCTTAGTCAATTAAGTTAGTTCTATCTTGAAGTCTAGATTTCTGAC
15823309 AGTAGGCT
66 AGTAGGCT
* * * **
15823317 CTTAGTCTACTAACTTACTTCTTGGTCAATTAAGTTAGTTCTGTCTTGAAGTCTAGATTTCTGGT
1 CTTAGTCAACTAACTTACTTCTTAGTCAATTAAGTTAGTTCTATCTTGAAGTCTAGATTTCTGAC
15823382 AGT-GGACT
66 AGTAGG-CT
*
15823390 CTTAGTCGACTAAC
1 CTTAGTCAACTAAC
15823404 CCATTTCTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
72 2 0.03
73 74 0.97
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (73 bp):
CTTAGTCAACTAACTTACTTCTTAGTCAATTAAGTTAGTTCTATCTTGAAGTCTAGATTTCTGAC
AGTAGGCT
Found at i:15823432 original size:73 final size:73
Alignment explanation
Indices: 15823277--15823433 Score: 183
Period size: 73 Copynumber: 2.2 Consensus size: 73
15823267 AGTCGATTAC
* * **
15823277 GTTATTTCTATCTTGAAGTCTAGATTTCTGACAGTAGGCTCTTAGTCTACTAACTTACTTCTTGG
1 GTTATTTCTGTCTTGAAGTCTAGATTTCTGACAGTAGGCTCTTAGTCGACTAACCCACTTCTTGG
*
15823342 TCAATTAA
66 TCAACTAA
* ** *
15823350 GTTAGTTCTGTCTTGAAGTCTAGATTTCTGGTAGT-GGACTCTTAGTCGACTAACCCATTTCTTG
1 GTTATTTCTGTCTTGAAGTCTAGATTTCTGACAGTAGG-CTCTTAGTCGACTAACCCACTTCTTG
**
15823414 GTTGACTAA
65 GTCAACTAA
15823423 GTCT-TTTCTGT
1 GT-TATTTCTGT
15823434 TTCTCAATAC
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
72 2 0.03
73 67 0.96
74 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (73 bp):
GTTATTTCTGTCTTGAAGTCTAGATTTCTGACAGTAGGCTCTTAGTCGACTAACCCACTTCTTGG
TCAACTAA
Found at i:15826283 original size:45 final size:45
Alignment explanation
Indices: 15826225--15826313 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
15826215 ATTTCGTCTA
*
15826225 TAATCTGTCGTTATT-ACGTATGAACT-TCATCAATAATTCCATCAT
1 TAATCCGTCGTTATTGA-GTATGAACTCT-ATCAATAATTCCATCAT
* **
15826270 TAATCCGTTGTTATTGAGTATGAACTCTATCGGTAATTCCATCA
1 TAATCCGTCGTTATTGAGTATGAACTCTATCAATAATTCCATCA
15826314 GTAACTGATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (45 bp):
TAATCCGTCGTTATTGAGTATGAACTCTATCAATAATTCCATCAT
Found at i:15829131 original size:24 final size:24
Alignment explanation
Indices: 15829093--15829138 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
15829083 TTAAATCCAC
15829093 AACAACCAAAACCTCAAATATTCA
1 AACAACCAAAACCTCAAATATTCA
15829117 AACAA-CAAAATCCTCAAATATT
1 AACAACCAAAA-CCTCAAATATT
15829139 AAATCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (24 bp):
AACAACCAAAACCTCAAATATTCA
Found at i:15835784 original size:13 final size:13
Alignment explanation
Indices: 15835766--15835790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15835756 GGTGAATTTC
15835766 TTTTTATAAGTTT
1 TTTTTATAAGTTT
15835779 TTTTTATAAGTT
1 TTTTTATAAGTT
15835791 ATAATTTTTG
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:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTTATAAGTTT
Found at i:15835810 original size:18 final size:20
Alignment explanation
Indices: 15835769--15835810 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
15835759 GAATTTCTTT
* *
15835769 TTATAAGTTTTTTTTATAAG
1 TTATAAGTTTTTGTTATAAA
15835789 TTATAA-TTTTTGTTA-AAA
1 TTATAAGTTTTTGTTATAAA
15835807 TTAT
1 TTAT
15835811 CATAGAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTATAAGTTTTTGTTATAAA
Found at i:15844903 original size:33 final size:33
Alignment explanation
Indices: 15844843--15844928 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
15844833 AAAAAAATTA
* * *
15844843 AAATAAAATATATAATATAGAAAATTATATTAAG
1 AAATAAAA-ATAAAATATATAAAATTATAATAAG
** *
15844877 AAATGCAAATAAAATATATAAGATTATAATAAG
1 AAATAAAAATAAAATATATAAAATTATAATAAG
15844910 AAATAAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
15844929 GACATTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 38 0.86
34 6 0.14
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (33 bp):
AAATAAAAATAAAATATATAAAATTATAATAAG
Found at i:15844958 original size:14 final size:15
Alignment explanation
Indices: 15844920--15844969 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
15844910 AAATAAAAAT
* *
15844920 AAAATATATGACATTA
1 AAAATATATTATA-TA
15844936 AAAATATATT-TA-A
1 AAAATATATTATATA
15844949 AAAATGATATTATATA
1 AAAAT-ATATTATATA
15844965 AAAAT
1 AAAAT
15844970 TAACAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.21
14 5 0.17
15 3 0.10
16 15 0.52
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (15 bp):
AAAATATATTATATA
Found at i:15845175 original size:15 final size:15
Alignment explanation
Indices: 15845143--15845200 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
15845133 GTTATCTTCT
*
15845143 TTGTAATCACATTGC
1 TTGTAATCACATTAC
* *
15845158 TTGCAATGACATTAC
1 TTGTAATCACATTAC
*
15845173 TTGTAATCAAATTAC
1 TTGTAATCACATTAC
15845188 TTGTAATCACATT
1 TTGTAATCACATT
15845201 GCATTGTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (15 bp):
TTGTAATCACATTAC
Found at i:15845177 original size:30 final size:31
Alignment explanation
Indices: 15845143--15845209 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
15845133 GTTATCTTCT
* * *
15845143 TTGTAATCACATTGCTTGCAATGACATTAC-
1 TTGTAATCAAATTACTTGCAATCACATTACA
* *
15845173 TTGTAATCAAATTACTTGTAATCACATTGCA
1 TTGTAATCAAATTACTTGCAATCACATTACA
15845204 TTGTAA
1 TTGTAA
15845210 AGTACCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (31 bp):
TTGTAATCAAATTACTTGCAATCACATTACA
Found at i:15848977 original size:13 final size:13
Alignment explanation
Indices: 15848959--15848984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15848949 TTTCAGAAAA
15848959 TTTATAAAATCAT
1 TTTATAAAATCAT
15848972 TTTATAAAATCAT
1 TTTATAAAATCAT
15848985 AATTTCTCCT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15856707 original size:143 final size:142
Alignment explanation
Indices: 15856544--15856828 Score: 534
Period size: 143 Copynumber: 2.0 Consensus size: 142
15856534 GTTCATGGGG
*
15856544 AAAATGGATTCTTTTCTTGTTGTTTTGTTTCTAAACATGTTTAACTAACTCTAAACACCAACATA
1 AAAATGAATTCTTTTCTTGTTGTTTTGTTTCTAAACATGTTTAACTAACTCTAAACACCAACATA
*
15856609 ACTCAAAATCAAACAATTCCAACATCTTTCTCTCTCCATACCCATTTTGACCAGCCATGATTTCA
66 ACTCAAAATCAAACAATTCCAACATCTTTCTCTCTCCATACCCATTTTGACCAGCCATAATTTCA
15856674 TCATGAAAACAT
131 TCATGAAAACAT
15856686 NAAAATGAATTCTTTTCTTGTTGTTTTGTTTCTAAACATGTTTAACTAACTCTAAACACCAACAT
1 -AAAATGAATTCTTTTCTTGTTGTTTTGTTTCTAAACATGTTTAACTAACTCTAAACACCAACAT
*
15856751 AACTCAAAATCAAACAATTCCAACATCTTTCTCTCTCCATACCTATTTTGACCAGCCATAATTTC
65 AACTCAAAATCAAACAATTCCAACATCTTTCTCTCTCCATACCCATTTTGACCAGCCATAATTTC
15856816 ATCATGAAAACAT
130 ATCATGAAAACAT
15856829 GTAATTTAAC
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 139 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (142 bp):
AAAATGAATTCTTTTCTTGTTGTTTTGTTTCTAAACATGTTTAACTAACTCTAAACACCAACATA
ACTCAAAATCAAACAATTCCAACATCTTTCTCTCTCCATACCCATTTTGACCAGCCATAATTTCA
TCATGAAAACAT
Found at i:15862959 original size:3 final size:3
Alignment explanation
Indices: 15862953--15862981 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15862943 TATTAAAATA
15862953 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15862982 GAATGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15863429 original size:22 final size:20
Alignment explanation
Indices: 15863401--15863442 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
15863391 GATTAAAATC
15863401 ATCAAATTGAAATAGTTCAAAG
1 ATCAAATTGAAAT--TTCAAAG
*
15863423 ATCAAATTTAAATTTCAAAG
1 ATCAAATTGAAATTTCAAAG
15863443 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
ATCAAATTGAAATTTCAAAG
Found at i:15869954 original size:35 final size:35
Alignment explanation
Indices: 15869914--15870060 Score: 212
Period size: 35 Copynumber: 4.3 Consensus size: 35
15869904 ATTAATCCCA
**
15869914 TGAAAAACCATTGTTG-TTGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTT
* * *
15869949 TGAAAAACCATTTTG---GGTTTTGGTTGAGCCTG
1 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
15869981 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
15870016 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
15870051 TGAAAAACCA
1 TGAAAAACCA
15870061 CTTTGGGTTT
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
32 29 0.28
34 2 0.02
35 72 0.70
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (35 bp):
TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
Found at i:15869969 original size:67 final size:67
Alignment explanation
Indices: 15869894--15870027 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 67
15869884 AAGTTAGGTG
* **
15869894 TTGGGTTTTGATTAATCCCATGAAAAACCATTGTTG-TTGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGATTAAGCCCATGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
15869958 ATT
65 ATT
* * **
15869961 TTGGGTTTTGGTTGAGCCTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGATTAAGCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
15870026 TT
66 TT
15870028 GTGAAAGGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 2 0.03
67 57 0.97
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (67 bp):
TTGGGTTTTGATTAAGCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
TT
Found at i:15870075 original size:67 final size:67
Alignment explanation
Indices: 15869914--15870104 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 67
15869904 ATTAATCCCA
* * *
15869914 TGAAAAACCATTGTTGTTGGTTGTGGTTGAGCCTTTGAAAAACCATTTTG---GGTTTTGGTTGA
1 TGAAAAACCA-T-TTG-AGGTTGTGGTTGAGCCTTTGAAAAACCATTGTGAAAGGTTGTGGTTGA
15869976 GCCTG
63 GCCTG
15869981 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCATTGTGAAAGGTTGTGGTTGA
1 TGAAAAACCATT-TG--AGGTTGTGGTTGAGCCTTTGAAAAACCATTGTGAAAGGTTGTGGTTGA
*
15870046 GCCTT
63 GCCTG
* * ** *
15870051 TGAAAAACCACTTTG-GGTTTTGGTTGATCC-CGGTAAAAATCATTGTGAAAGGTT
1 TGAAAAACCA-TTTGAGGTTGTGGTTGAGCCTTTG-AAAAACCATTGTGAAAGGTT
15870105 TTGGCTAAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
65 1 0.01
66 4 0.04
67 73 0.68
70 27 0.25
71 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (67 bp):
TGAAAAACCATTTGAGGTTGTGGTTGAGCCTTTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCC
TG
Found at i:15870095 original size:102 final size:102
Alignment explanation
Indices: 15869914--15870104 Score: 296
Period size: 102 Copynumber: 1.9 Consensus size: 102
15869904 ATTAATCCCA
** * *
15869914 TGAAAAACCATTGTTGTTGGTTGTGGTTGAGCCTTTGAAAAACCATTTTGGGTTTTGGTTGAGCC
1 TGAAAAACCATTGTTGAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGACCC
*
15869979 TGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
66 GGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
15870016 TGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGATC
1 TGAAAAACCATTGTTG-AAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGA-C
*
15870080 CCGGT-AAAAATCATTGTGAAAGGTT
64 CCGGTGAAAAACCATTGTGAAAGGTT
15870105 TTGGCTAAGC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
101 2 0.02
102 75 0.93
103 4 0.05
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (102 bp):
TGAAAAACCATTGTTGAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGACCC
GGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
Found at i:15870129 original size:102 final size:102
Alignment explanation
Indices: 15869914--15870131 Score: 289
Period size: 102 Copynumber: 2.1 Consensus size: 102
15869904 ATTAATCCCA
** * *
15869914 TGAAAAACCATTGTTG-TTGGTTGTGGTTGAGCCTTTGAAAAACCATTTTGGGTTTTGGTTGAGC
1 TGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGACC
* * * *
15869978 CTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
65 CGGTGAAAAACCATTGTGAAAGGTTGTGGCTAAGCCTG
15870016 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGATCC
1 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGA-CC
* *
15870081 CGGT-AAAAATCATTGTGAAAGGTTTTGGCTAAGCCTAG
65 CGGTGAAAAACCATTGTGAAAGGTTGTGGCTAAGCCT-G
*
15870119 T-AAAAGCCATTGT
1 TGAAAAACCATTGT
15870132 AAACACATGG
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 2 0.02
102 95 0.93
103 5 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (102 bp):
TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGACCC
GGTGAAAAACCATTGTGAAAGGTTGTGGCTAAGCCTG
Found at i:15874667 original size:21 final size:21
Alignment explanation
Indices: 15874643--15874684 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15874633 AAAAGACAGT
*
15874643 AGGCACTTAGTCGACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
15874664 AGGCACTTAGTCAACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
15874685 CATTCTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGCACTTAGTCAACTAAGAG
Found at i:15878605 original size:35 final size:35
Alignment explanation
Indices: 15878565--15878731 Score: 143
Period size: 35 Copynumber: 4.9 Consensus size: 35
15878555 AATTAGGTGT
* *
15878565 TAGGTTTTAGTTGATCCCGTGAAAAACCATTGTTG
1 TAGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTG
* ** *
15878600 TAGGTTGTGGTTGAGCCTTTGAAAAACCACT-TTG
1 TAGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTG
* *
15878634 T--GTTTTGGTTGAGCCCCTGAAAAACTATTG-TG
1 TAGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTG
* * **
15878666 AAAGGTTGTGGTTGAGCCTTTGAAAAACCATT-TTG
1 -TAGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTG
*
15878701 --GGTTTTGGTTGATCCCG-GTAAAAACCATTGT
1 TAGGTTTTGGTTGAGCCCGTG-AAAAACCATTGT
15878732 GAAAGGTTTT
Statistics
Matches: 105, Mismatches: 20, Indels: 16
0.74 0.14 0.11
Matches are distributed among these distances:
31 1 0.01
32 48 0.46
33 1 0.01
34 4 0.04
35 51 0.49
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (35 bp):
TAGGTTTTGGTTGAGCCCGTGAAAAACCATTGTTG
Found at i:15878764 original size:67 final size:67
Alignment explanation
Indices: 15878567--15878739 Score: 251
Period size: 67 Copynumber: 2.6 Consensus size: 67
15878557 TTAGGTGTTA
* * *
15878567 GGTTTTAGTTGATCCCGTGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 GGTTTTGGTTGATCCCGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCATT
15878631 TTG
65 TTG
* * * *
15878634 TGTTTTGGTTGAGCCCCTGAAAAACTATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
15878699 TG
66 TG
15878701 GGTTTTGGTTGATCCCG-GTAAAAACCATTGTGAAAGGTT
1 GGTTTTGGTTGATCCCGTG-AAAAACCATTGTGAAAGGTT
15878740 TTGGCTAAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 3 0.03
67 90 0.97
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
TG
Found at i:15880046 original size:12 final size:12
Alignment explanation
Indices: 15880031--15880055 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15880021 GTAGCAAGCA
15880031 TGGCAGCAAGTT
1 TGGCAGCAAGTT
15880043 TGGCAGCAAGTT
1 TGGCAGCAAGTT
15880055 T
1 T
15880056 CTAGCTATAG
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TGGCAGCAAGTT
Found at i:15880469 original size:23 final size:23
Alignment explanation
Indices: 15880437--15880480 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
15880427 AGGACCTCAT
* *
15880437 TTGCACTAAAAATCCATTTGGTG
1 TTGCAATAAAAATCAATTTGGTG
15880460 TTGCAATAAAAATCAATTTGG
1 TTGCAATAAAAATCAATTTGG
15880481 AAGAAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (23 bp):
TTGCAATAAAAATCAATTTGGTG
Found at i:15880727 original size:37 final size:37
Alignment explanation
Indices: 15880622--15880731 Score: 112
Period size: 37 Copynumber: 3.0 Consensus size: 37
15880612 CCTCAGCTCT
* *** * * *
15880622 TGTGCACTCCCTACACGCACAAGGCAATACCACCATA
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
* **
15880659 TATGCACTCCCTACTCGCACATTTCAATATCATCATG
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
* *
15880696 TGTGCACTCCCTACTTGCACACCTCATTATCATCAT
1 TGTGCACTCCCTACTCGCACACCTCAATATCATCAT
15880732 ACAACATTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.27, C:0.35, G:0.10, T:0.27
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACCTCAATATCATCATG
Found at i:15885375 original size:30 final size:30
Alignment explanation
Indices: 15885339--15885395 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
15885329 TAAATAACAG
15885339 ACCTCATGGTACCTTACTAAGTGATACGAA
1 ACCTCATGGTACCTTACTAAGTGATACGAA
15885369 ACCTCATGGTACCTTACTAAGTGATAC
1 ACCTCATGGTACCTTACTAAGTGATAC
15885396 TACACCCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (30 bp):
ACCTCATGGTACCTTACTAAGTGATACGAA
Found at i:15892751 original size:17 final size:17
Alignment explanation
Indices: 15892722--15892754 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15892712 TTCTTAATAA
15892722 AATAAAACTTCTTATTG
1 AATAAAACTTCTTATTG
15892739 AATAATAAC-TCTTATT
1 AATAA-AACTTCTTATT
15892755 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAAACTTCTTATTG
Found at i:15892963 original size:28 final size:29
Alignment explanation
Indices: 15892897--15893117 Score: 232
Period size: 29 Copynumber: 7.6 Consensus size: 29
15892887 TTAGGACAAC
* *
15892897 TCTTGTCTTTAATTAAGACAAAACATGTTA
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
*
15892927 TCTTGTCTAAATTGAGAC-AAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* * * * *
15892955 TTTTATCTAGATTAAGACAAAACAGGTTA
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* *
15892984 TCTTGTCGAAATTGAGAC-AAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* * * * *
15893012 TTTTATCTAGATTAAGACTAAACATATTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
*
15893041 TCTTGTCTTAAATTAAGAC-ATACATGTTTT
1 TCTTGTC-TAAATTAAGACAAAACATG-TTT
*
15893071 TCTTGTCTAAATTAAAACAAAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
*
15893100 CCTTGTCTAAATTAAGAC
1 TCTTGTCTAAATTAAGAC
15893118 TAAATTAAAA
Statistics
Matches: 155, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
28 44 0.28
29 78 0.50
30 33 0.21
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAAAACATGTTT
Found at i:15892976 original size:57 final size:56
Alignment explanation
Indices: 15892907--15893249 Score: 321
Period size: 57 Copynumber: 5.8 Consensus size: 56
15892897 TCTTGTCTTT
*
15892907 AATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACATGTTTTTTTATCTA
1 AATTAAGACAAAACATGTT-TCTTGTCTAAATTAAGACAAACATGTTTTTTTATCTA
* * * *
15892964 GATTAAGACAAAACAGGTTATCTTGTCGAAATTGAGACAAACATGTTTTTTTATCTA
1 AATTAAGACAAAACATGTT-TCTTGTCTAAATTAAGACAAACATGTTTTTTTATCTA
* * * * *
15893021 GATTAAGACTAAACATATTTTCTTGTCTTAAATTAAGACATACATGTTTTTCTTGTCTA
1 AATTAAGACAAAACAT-GTTTCTTGTC-TAAATTAAGACAAACATGTTTTT-TTATCTA
*
15893080 AATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGACTAAATTAAAACAAAACATGTTTTCTTT
1 AATTAAGACAAAACATGTTT-CTTGTCTAAATTAAG-----------AC-AAACATGTTTT-TTT
15893145 -TCTA
52 ATCTA
** * * *
15893149 AATTAAGACAAAGGTAT-TTTCTTGTCTAAATTAAGACATAACATGTTTTCTTGTTTA
1 AATTAAGACAAA-ACATGTTTCTTGTCTAAATTAAGACA-AACATGTTTTTTTATCTA
*
15893206 AATTAAGACAAAATATGTTTTCTTGTCTAAATTAAGACAAACAT
1 AATTAAGACAAAACATG-TTTCTTGTCTAAATTAAGACAAACAT
15893250 ATAAAAGCTA
Statistics
Matches: 243, Mismatches: 21, Indels: 44
0.79 0.07 0.14
Matches are distributed among these distances:
56 6 0.02
57 107 0.44
58 55 0.23
59 25 0.10
68 15 0.06
69 20 0.08
70 14 0.06
71 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (56 bp):
AATTAAGACAAAACATGTTTCTTGTCTAAATTAAGACAAACATGTTTTTTTATCTA
Found at i:15893132 original size:40 final size:40
Alignment explanation
Indices: 15893077--15893157 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
15893067 TTTTTCTTGT
15893077 CTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGA
1 CTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGA
* *
15893117 CTAAATTAAAACAAAACATGTTTTCTTTTCTAAATTAAGA
1 CTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGA
15893157 C
1 C
15893158 AAAGGTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (40 bp):
CTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGA
Found at i:15893159 original size:29 final size:29
Alignment explanation
Indices: 15893117--15893246 Score: 181
Period size: 29 Copynumber: 4.5 Consensus size: 29
15893107 TAAATTAAGA
* *
15893117 CTAAATTAAAACAAAACATGTTTTCTTTT
1 CTAAATTAAGACAAAACATGTTTTCTTGT
** *
15893146 CTAAATTAAGAC-AAAGGTATTTTCTTGT
1 CTAAATTAAGACAAAACATGTTTTCTTGT
*
15893174 CTAAATTAAGACATAACATGTTTTCTTGT
1 CTAAATTAAGACAAAACATGTTTTCTTGT
* *
15893203 TTAAATTAAGACAAAATATGTTTTCTTGT
1 CTAAATTAAGACAAAACATGTTTTCTTGT
15893232 CTAAATTAAGACAAA
1 CTAAATTAAGACAAA
15893247 CATATAAAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 24 0.28
29 63 0.72
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (29 bp):
CTAAATTAAGACAAAACATGTTTTCTTGT
Found at i:15893192 original size:97 final size:99
Alignment explanation
Indices: 15893022--15893219 Score: 276
Period size: 97 Copynumber: 2.0 Consensus size: 99
15893012 TTTTATCTAG
* * *
15893022 ATTAAGACTAAACATATTTTCTTGTCTTAAATTAAGACATACATGTTTTTCTTGTCTAAATTAAA
1 ATTAAAACAAAACATATTTTCTTGTCTTAAATTAAGACATACAGGTTTTTCTTGTCTAAATTAAA
*
15893087 ACAAAACATGTTTCCTTGTCTAAATTAAGACTAA
66 ACAAAACATGTTTCCTTGTCTAAATTAAGACAAA
* *
15893121 ATTAAAACAAAACATGTTTTCTTTTC-TAAATTAAGACA-A-AGGTATTTTCTTGTCTAAATTAA
1 ATTAAAACAAAACATATTTTCTTGTCTTAAATTAAGACATACAGGT-TTTTCTTGTCTAAATTAA
* * * *
15893183 GACATAACATGTTTTCTTGTTTAAATTAAGACAAA
65 AACAAAACATGTTTCCTTGTCTAAATTAAGACAAA
15893218 AT
1 AT
15893220 ATGTTTTCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
96 3 0.03
97 51 0.58
98 12 0.14
99 22 0.25
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (99 bp):
ATTAAAACAAAACATATTTTCTTGTCTTAAATTAAGACATACAGGTTTTTCTTGTCTAAATTAAA
ACAAAACATGTTTCCTTGTCTAAATTAAGACAAA
Found at i:15893218 original size:126 final size:128
Alignment explanation
Indices: 15893002--15893243 Score: 375
Period size: 126 Copynumber: 1.9 Consensus size: 128
15892992 AAATTGAGAC
*
15893002 AAACATGTTTTTTTATCTAGATTAAGACTAAACATATTTTCTTGTCTTAAATTAAGACATACATG
1 AAACATGTTTTTTTATCTAAATTAAGACTAAACATATTTTCTTGTCTTAAATTAAGACATACATG
15893067 TTTTTCTTGTCTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGACTAAATTAAAACA
66 TTTTTCTTGTCTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGACTAAATTAAAACA
**
15893130 AAACATGTTTTCTTT-TCTAAATTAAGAC-AAAGGTATTTTCTTGTC-TAAATTAAGACATAACA
1 AAACATGTTTT-TTTATCTAAATTAAGACTAAACATATTTTCTTGTCTTAAATTAAGACAT-ACA
* * * *
15893192 TG-TTTTCTTGTTTAAATTAAGACAAAATATGTTTTCTTGTCTAAATTAAGAC
64 TGTTTTTCTTGTCTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGAC
15893244 AAACATATAA
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
126 59 0.56
127 20 0.19
128 23 0.22
129 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (128 bp):
AAACATGTTTTTTTATCTAAATTAAGACTAAACATATTTTCTTGTCTTAAATTAAGACATACATG
TTTTTCTTGTCTAAATTAAAACAAAACATGTTTCCTTGTCTAAATTAAGACTAAATTAAAACA
Found at i:15899359 original size:14 final size:12
Alignment explanation
Indices: 15899317--15899360 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
15899307 TCAGCCTCTC
15899317 AAAAAAATTAAA
1 AAAAAAATTAAA
*
15899329 ATAAAAATTGAAA
1 AAAAAAATT-AAA
*
15899342 AAAATTAATTAAA
1 AAAA-AAATTAAA
15899355 AAAAAA
1 AAAAAA
15899361 GAGTGAGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 9 0.35
13 13 0.50
14 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:15900002 original size:13 final size:13
Alignment explanation
Indices: 15899981--15900013 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15899971 AGATTTCAAG
15899981 TTTCA-ATTTTTC
1 TTTCATATTTTTC
*
15899993 TTTTATATTTTTC
1 TTTCATATTTTTC
15900006 TTTCATAT
1 TTTCATAT
15900014 ATATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTCATATTTTTC
Found at i:15901447 original size:15 final size:15
Alignment explanation
Indices: 15901427--15901457 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15901417 CTAGAGGTGC
*
15901427 CAATGAGGCAAAGGA
1 CAATGAAGCAAAGGA
15901442 CAATGAAGCAAAGGA
1 CAATGAAGCAAAGGA
15901457 C
1 C
15901458 GATGTGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.29, T:0.06
Consensus pattern (15 bp):
CAATGAAGCAAAGGA
Found at i:15902414 original size:64 final size:65
Alignment explanation
Indices: 15902338--15902478 Score: 239
Period size: 65 Copynumber: 2.2 Consensus size: 65
15902328 TTGCAAAAAA
*
15902338 AAAAAAAAGAATAAAGTATTGAACAAAA-AAAAGTTTAAATGTGGAAGAAAGGGTGTATGTGGAG
1 AAAAAATAGAATAAAGTATTGAACAAAAGAAAAGTTTAAATGTGGAAGAAAGGGTGTATGTGGAG
*
15902402 AAAAAATAGAATAAAGTATTGAACAAAAGAAAAGTTTAAATGTGGAAGAAAGGGTGTATGTTGAG
1 AAAAAATAGAATAAAGTATTGAACAAAAGAAAAGTTTAAATGTGGAAGAAAGGGTGTATGTGGAG
15902467 AAGGAAAATAGA
1 AA--AAAATAGA
15902479 GCTCTATGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
64 27 0.38
65 37 0.51
67 8 0.11
ACGTcount: A:0.53, C:0.01, G:0.25, T:0.21
Consensus pattern (65 bp):
AAAAAATAGAATAAAGTATTGAACAAAAGAAAAGTTTAAATGTGGAAGAAAGGGTGTATGTGGAG
Found at i:15903227 original size:18 final size:18
Alignment explanation
Indices: 15903204--15903242 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
15903194 GGTGTTTATT
15903204 GAAGAAAAACTTTTAATG
1 GAAGAAAAACTTTTAATG
*
15903222 GAAGAAAGACTTTTAATG
1 GAAGAAAAACTTTTAATG
15903240 GAA
1 GAA
15903243 TTTAATGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (18 bp):
GAAGAAAAACTTTTAATG
Found at i:15920654 original size:35 final size:34
Alignment explanation
Indices: 15920511--15920695 Score: 145
Period size: 35 Copynumber: 5.3 Consensus size: 34
15920501 CCATTATGAA
** ** *
15920511 GGTAAGAATACCACTTGATCGTAGCTGAACGTGG
1 GGTAAGAATACCACTTGATTATAGCCCATCGTGG
* * ** *
15920545 GGTAAGTATACCACTTGATTATAACTTATCCTGG
1 GGTAAGAATACCACTTGATTATAGCCCATCGTGG
* ** * **
15920579 GGTTAAGAATATCGTTTGATTATAACCCATTTTAGG
1 GG-TAAGAATACCACTTGATTATAGCCCATCGT-GG
15920615 GGTAAGAATACCACTTGATTATAGCCCATCGTGG
1 GGTAAGAATACCACTTGATTATAGCCCATCGTGG
* * * **
15920649 AGGTAAGAATACCATTTGATAATAGTCCATTATGTG
1 -GGTAAGAATACCACTTGATTATAGCCCATCGTG-G
15920685 GGTAAGAATAC
1 GGTAAGAATAC
15920696 TACATAAACA
Statistics
Matches: 121, Mismatches: 26, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
34 31 0.26
35 85 0.70
36 5 0.04
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (34 bp):
GGTAAGAATACCACTTGATTATAGCCCATCGTGG
Found at i:15920656 original size:70 final size:69
Alignment explanation
Indices: 15920542--15920695 Score: 175
Period size: 70 Copynumber: 2.2 Consensus size: 69
15920532 TAGCTGAACG
* ** * * *
15920542 TGGGGTAAGTATACCACTTGATTATAACTTATCCTGGGGTTAAGAATATCGTTTGATTATAACCC
1 TGGGGTAAGAATACCACTTGATTATAACCCATCCTGGGGTTAAGAATACCATTTGATAATAACCC
*
15920607 ATTT
66 ATTA
* * **
15920611 TAGGGGTAAGAATACCACTTGATTATAGCCCATCGTGGAGG-TAAGAATACCATTTGATAATAGT
1 T-GGGGTAAGAATACCACTTGATTATAACCCATCCTGG-GGTTAAGAATACCATTTGATAATAAC
15920675 CCATTA
64 CCATTA
15920681 TGTGGGTAAGAATAC
1 TG-GGGTAAGAATAC
15920696 TACATAAACA
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
69 2 0.03
70 67 0.94
71 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (69 bp):
TGGGGTAAGAATACCACTTGATTATAACCCATCCTGGGGTTAAGAATACCATTTGATAATAACCC
ATTA
Found at i:15925803 original size:73 final size:73
Alignment explanation
Indices: 15925640--15925796 Score: 233
Period size: 73 Copynumber: 2.2 Consensus size: 73
15925630 ATGGCTGATT
* ** * *
15925640 AGAGACAGAGACAACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGCTTATTGCCAAAAA
1 AGAGACAGAGACAACTTAATCGACTAAGAAGCATTATTAGTCAACTAAAAGCTTACTGCCAAAAA
15925705 TTGGGTTC
66 TTGGGTTC
* ** *
15925713 AGAGACAAAGACAACTTAATCGACTAAGAAGCATTATTAGTCAACTAAAAGCTTACTGTTAGAAA
1 AGAGACAGAGACAACTTAATCGACTAAGAAGCATTATTAGTCAACTAAAAGCTTACTGCCAAAAA
15925778 TTGGGTTC
66 TTGGGTTC
15925786 AGAGACAGAGA
1 AGAGACAGAGA
15925797 TGACTTATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (73 bp):
AGAGACAGAGACAACTTAATCGACTAAGAAGCATTATTAGTCAACTAAAAGCTTACTGCCAAAAA
TTGGGTTC
Found at i:15926656 original size:2 final size:2
Alignment explanation
Indices: 15926644--15926675 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15926634 AACATATACC
*
15926644 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15926676 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15934916 original size:54 final size:54
Alignment explanation
Indices: 15934834--15934938 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
15934824 TCATCATGTG
* *
15934834 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
1 CATCTCACCCAACTCATGTGCATCCCACCACATCATGCACATAGCCGGACATCC
15934888 CATCTCACCCAACTCATGTGCATCCCACCACATCATGCACATAGCCGGACA
1 CATCTCACCCAACTCATGTGCATCCCACCACATCATGCACATAGCCGGACA
15934939 GTATCACCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.27, C:0.42, G:0.13, T:0.18
Consensus pattern (54 bp):
CATCTCACCCAACTCATGTGCATCCCACCACATCATGCACATAGCCGGACATCC
Found at i:15935051 original size:2 final size:2
Alignment explanation
Indices: 15935044--15935068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15935034 TATGACATAG
15935044 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15935069 CAACATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15944615 original size:54 final size:54
Alignment explanation
Indices: 15944533--15944635 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
15944523 TCATCATGTG
*
15944533 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCATATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* * *
15944587 CATCTCATCGAGCTCATGTGTATCCCACCACATCGTGCACATAGCCGGA
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGA
15944636 TAGTATCACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.24, C:0.38, G:0.17, T:0.21
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
Found at i:15956034 original size:35 final size:35
Alignment explanation
Indices: 15955982--15956153 Score: 150
Period size: 35 Copynumber: 4.9 Consensus size: 35
15955972 GTTATAAATA
* *
15955982 TTGAACATAGCCCATCATGGGGGTAAGAATACCAC
1 TTGATCATAGCCAATCATGGGGGTAAGAATACCAC
*** **
15956017 TTGATCATAGCCAATCATATAGGTAAGAATATTAC
1 TTGATCATAGCCAATCATGGGGGTAAGAATACCAC
* * * *
15956052 TTAATTATA-ACATATCATGGGGTTAAGAATACCAC
1 TTGATCATAGCCA-ATCATGGGGGTAAGAATACCAC
* * *
15956087 TTGATTATAGCCCATCATGGGGGTAAGAATACCTC
1 TTGATCATAGCCAATCATGGGGGTAAGAATACCAC
* * * *
15956122 ATAAACA-ACGCCTATCATGGGGGTAAGAATAC
1 TTGATCATA-GCCAATCATGGGGGTAAGAATAC
15956154 TCGGTATCCA
Statistics
Matches: 108, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
34 3 0.03
35 104 0.96
36 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (35 bp):
TTGATCATAGCCAATCATGGGGGTAAGAATACCAC
Found at i:15956138 original size:70 final size:69
Alignment explanation
Indices: 15955995--15956153 Score: 178
Period size: 70 Copynumber: 2.3 Consensus size: 69
15955985 AACATAGCCC
* * * *
15955995 ATCATGGGGGTAAGAATACCACTTGATCATAGCCAATCATATAGGTAAGAATATTACTTAATTAT
1 ATCATGGGGGTAAGAATACCACTTGATCATAGCCAATCATAGAGGTAAGAATACTACATAA-TAC
15956060 AACAT
65 AACAT
* * * * *
15956065 ATCATGGGGTTAAGAATACCACTTGATTATAGCCCATCATGGGGGTAAGAATACCT-CATAA-AC
1 ATCATGGGGGTAAGAATACCACTTGATCATAGCCAATCATAGAGGTAAGAATA-CTACATAATAC
*
15956128 AACGCCT
65 AA--CAT
15956135 ATCATGGGGGTAAGAATAC
1 ATCATGGGGGTAAGAATAC
15956154 TCGGTATCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
68 3 0.04
70 71 0.95
71 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (69 bp):
ATCATGGGGGTAAGAATACCACTTGATCATAGCCAATCATAGAGGTAAGAATACTACATAATACA
ACAT
Found at i:15957877 original size:37 final size:37
Alignment explanation
Indices: 15957761--15957898 Score: 129
Period size: 37 Copynumber: 3.8 Consensus size: 37
15957751 TTGTTGTTGG
* *****
15957761 TGTTTTTGTATTTTTACAATGTGGTTGTTTTTGTTAA
1 TGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAA
* * **
15957798 TGTTAG-TGTATTTTTACAATGGGTGTTTTAAAAATTGG
1 TGTT-GTTGTATTTTTACAATGTG-GTTGTAAAAATTAA
*
15957836 TGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAT
1 TGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAA
*
15957873 TGTTGTTGTATGTTTAC-A-GTGGTTGT
1 TGTTGTTGTATTTTTACAATGTGGTTGT
15957899 TGTATTTTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
35 8 0.10
36 1 0.01
37 48 0.58
38 26 0.31
ACGTcount: A:0.21, C:0.03, G:0.22, T:0.54
Consensus pattern (37 bp):
TGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAA
Found at i:15957883 original size:75 final size:75
Alignment explanation
Indices: 15957757--15957899 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 75
15957747 ATTGTTGTTG
* ***** *
15957757 TTGGTGTTTTTGTATTTTTACAATGTGGTTGTTTTTGTTAATGTTAGTGTATTTTTACAATGGGT
1 TTGGTGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAATGTTAGTGTATGTTTACAATGGGT
15957822 GTTTTAAAAA
66 GTTTTAAAAA
* * *
15957832 TTGGTGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTATTGTT-GTTGTATGTTTACAGTGGT
1 TTGGTGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAATGTTAG-TGTATGTTTACAATGGG
15957896 TGTT
65 TGTT
15957900 GTATTTTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 1 0.02
75 56 0.98
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (75 bp):
TTGGTGTTGTTGTATTTTTACAATGTGGTTGTAAAAATTAATGTTAGTGTATGTTTACAATGGGT
GTTTTAAAAA
Found at i:15959391 original size:35 final size:33
Alignment explanation
Indices: 15959352--15959480 Score: 104
Period size: 32 Copynumber: 3.9 Consensus size: 33
15959342 TTGATCCCTG
15959352 TGAAAAACCATTGTTGTAGGTTGTGGTTGAGACTT
1 TGAAAAACCATTGTTG-AGGTTGTGGTTGAG-CTT
* * * **
15959387 TGAAAACCCACT-TTG-GGTTTTGGTTGAGCCCG
1 TGAAAAACCATTGTTGAGGTTGTGGTTGAG-CTT
* *
15959419 TGAAAAGCCATTGTTAAAGGTTGTGGTTGAGCTTT
1 TGAAAAACCATTGTT-GAGGTTGTGGTTGAGC-TT
* *
15959454 TGAAAAACCACT-TTG-GGTTTTGGTTGA
1 TGAAAAACCATTGTTGAGGTTGTGGTTGA
15959481 TCCCGGTAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
32 34 0.46
33 2 0.03
34 6 0.08
35 32 0.43
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (33 bp):
TGAAAAACCATTGTTGAGGTTGTGGTTGAGCTT
Found at i:15959430 original size:67 final size:67
Alignment explanation
Indices: 15959334--15959499 Score: 246
Period size: 67 Copynumber: 2.5 Consensus size: 67
15959324 TTAGTTGTTA
** *
15959334 GGTTTTGGTTGATCCCTGTGAAAAACCATTGTTGTAGGTTGTGGTTGAGAC-TTTGAAAACCCAC
1 GGTTTTGGTTGATCCC-GTGAAAAACCATTGTTAAAGGTTGTGGTTGAG-CTTTTGAAAAACCAC
15959398 TTTG
64 TTTG
* *
15959402 GGTTTTGGTTGAGCCCGTGAAAAGCCATTGTTAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
15959467 TG
66 TG
15959469 GGTTTTGGTTGATCCCG-GTAAAAACCATTGT
1 GGTTTTGGTTGATCCCGTG-AAAAACCATTGT
15959500 GAAAAGTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
66 2 0.02
67 72 0.81
68 15 0.17
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTTTGAAAAACCACTT
TG
Found at i:15962996 original size:42 final size:41
Alignment explanation
Indices: 15962950--15963108 Score: 210
Period size: 42 Copynumber: 3.8 Consensus size: 41
15962940 CAGCACGACT
* * *
15962950 TATGCGCACTCCTACTTGCACATAGTCGGGTCATCATCGGCG
1 TATGCACACTCCTACTTGCACATA-ACGGGTCATCATCGGCA
*
15962992 TATGCACACTCCTACTTGCACATAACTGGGTCATCATCGGCT
1 TATGCACACTCCTACTTGCACATAAC-GGGTCATCATCGGCA
* * *
15963034 TATGCGCACTCCCACTTGCACATACACGGGTCATCATCAGCA
1 TATGCACACTCCTACTTGCACATA-ACGGGTCATCATCGGCA
*
15963076 TATGCACACTTCTACTTGCACATAACCGGGTCA
1 TATGCACACTCCTACTTGCACATAA-CGGGTCA
15963109 ATATCATTAC
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.02
42 100 0.96
43 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (41 bp):
TATGCACACTCCTACTTGCACATAACGGGTCATCATCGGCA
Found at i:15963037 original size:84 final size:84
Alignment explanation
Indices: 15962948--15963108 Score: 259
Period size: 84 Copynumber: 1.9 Consensus size: 84
15962938 GTCAGCACGA
* ** * *
15962948 CTTATGCGCACTCCTACTTGCACATAGTCGGGTCATCATCGGCGTATGCACACTCCTACTTGCAC
1 CTTATGCGCACTCCCACTTGCACATACACGGGTCATCATCAGCATATGCACACTCCTACTTGCAC
*
15963013 ATAACTGGGTCATCATCGG
66 ATAACCGGGTCATCATCGG
*
15963032 CTTATGCGCACTCCCACTTGCACATACACGGGTCATCATCAGCATATGCACACTTCTACTTGCAC
1 CTTATGCGCACTCCCACTTGCACATACACGGGTCATCATCAGCATATGCACACTCCTACTTGCAC
15963097 ATAACCGGGTCA
66 ATAACCGGGTCA
15963109 ATATCATTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (84 bp):
CTTATGCGCACTCCCACTTGCACATACACGGGTCATCATCAGCATATGCACACTCCTACTTGCAC
ATAACCGGGTCATCATCGG
Found at i:15963151 original size:2 final size:2
Alignment explanation
Indices: 15963144--15963175 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15963134 AATGCATAAC
*
15963144 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15963176 CANNNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15970128 original size:2 final size:2
Alignment explanation
Indices: 15970118--15970156 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
15970108 TATAACACAC
* * *
15970118 AT AT CT AT AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15970157 CCCATCATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15970261 original size:42 final size:42
Alignment explanation
Indices: 15970215--15970373 Score: 185
Period size: 42 Copynumber: 3.8 Consensus size: 42
15970205 CAGCACGGCT
* *
15970215 TATGCGCACTCCTACTCGCACATAGCCGGGTCATCATAGGCG
1 TATGCACACTCCTACTCGCACATAGCCGGGTCATCATAGGCA
* * * *
15970257 TATGCACACTCCTACTCTCACATAACTGGGTCATCATCA-GCT
1 TATGCACACTCCTACTCGCACATAGCCGGGTCATCAT-AGGCA
* * * * *
15970299 TATACGCACTCCCATTCGCACATAGCCGGGTCATCATCGGCA
1 TATGCACACTCCTACTCGCACATAGCCGGGTCATCATAGGCA
* *
15970341 TATGCACACTTCTACTCGCACATAGTCGGGTCA
1 TATGCACACTCCTACTCGCACATAGCCGGGTCA
15970374 ATATCATTAC
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 94 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (42 bp):
TATGCACACTCCTACTCGCACATAGCCGGGTCATCATAGGCA
Found at i:15970373 original size:84 final size:84
Alignment explanation
Indices: 15970173--15970364 Score: 244
Period size: 84 Copynumber: 2.3 Consensus size: 84
15970163 ATCATCAGCT
* * * ** * * * *
15970173 CATATGCACTC-CCCACTAGCACATGGCTGGGTCAGCA-CGGCTTATGCGCACTCCTACTCGCAC
1 CATATGCACACTCCTACTCGCACATAACTGGGTCATCATCAGCTTATACGCACTCCCACTCGCAC
15970236 ATAGCCGGGTCATCATAGG
66 ATAGCCGGGTCATCATAGG
* * *
15970255 CGTATGCACACTCCTACTCTCACATAACTGGGTCATCATCAGCTTATACGCACTCCCATTCGCAC
1 CATATGCACACTCCTACTCGCACATAACTGGGTCATCATCAGCTTATACGCACTCCCACTCGCAC
*
15970320 ATAGCCGGGTCATCATCGG
66 ATAGCCGGGTCATCATAGG
*
15970339 CATATGCACACTTCTACTCGCACATA
1 CATATGCACACTCCTACTCGCACATA
15970365 GTCGGGTCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
82 9 0.10
83 20 0.22
84 63 0.68
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.23
Consensus pattern (84 bp):
CATATGCACACTCCTACTCGCACATAACTGGGTCATCATCAGCTTATACGCACTCCCACTCGCAC
ATAGCCGGGTCATCATAGG
Found at i:15970419 original size:2 final size:2
Alignment explanation
Indices: 15970412--15970478 Score: 109
Period size: 2 Copynumber: 34.0 Consensus size: 2
15970402 GCACAACATT
* *
15970412 TA TA TA TA TG TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15970454 TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15970479 CAACATAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15974614 original size:20 final size:20
Alignment explanation
Indices: 15974589--15974627 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15974579 TAATGAATGT
* *
15974589 TTGATGATGATTGATAATAC
1 TTGATGATAATTGAGAATAC
15974609 TTGATGATAATTGAGAATA
1 TTGATGATAATTGAGAATA
15974628 GTGCTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGATGATAATTGAGAATAC
Found at i:15977154 original size:37 final size:37
Alignment explanation
Indices: 15977113--15977185 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
15977103 TCATCAGCAT
15977113 CCAAATCCTAACCATCAGCAATTATCACAGCAGAATG
1 CCAAATCCTAACCATCAGCAATTATCACAGCAGAATG
15977150 CCAAATCCTAACCATCAGCAATTATCACAGCAGAAT
1 CCAAATCCTAACCATCAGCAATTATCACAGCAGAAT
15977186 ATCATAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.30, G:0.10, T:0.19
Consensus pattern (37 bp):
CCAAATCCTAACCATCAGCAATTATCACAGCAGAATG
Found at i:15978968 original size:21 final size:22
Alignment explanation
Indices: 15978944--15978999 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
15978934 TATTATTTAT
15978944 TTATATTATTAACAATATA-TA
1 TTATATTATTAACAATATAGTA
* *
15978965 TTATATGTAATTTATAATATAGTA
1 TTATAT-T-ATTAACAATATAGTA
*
15978989 TAATATTATTA
1 TTATATTATTA
15979000 CGTAATAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 11 0.39
24 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
TTATATTATTAACAATATAGTA
Found at i:15983387 original size:16 final size:16
Alignment explanation
Indices: 15983366--15983396 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15983356 TCTCTTAAAG
15983366 TCAATTAATTACTCAT
1 TCAATTAATTACTCAT
15983382 TCAATTAATTACTCA
1 TCAATTAATTACTCA
15983397 AACAGCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
TCAATTAATTACTCAT
Found at i:15984596 original size:30 final size:30
Alignment explanation
Indices: 15984531--15984597 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
15984521 TTAATTAAGT
* *
15984531 TTTTATATTTTTATTTTAAACCAAACAACC
1 TTTTATATTTTTATTTGAAACCAAACAAAC
* * * *
15984561 CTTTATATTTTTATTTGAGATCAAATAAAC
1 TTTTATATTTTTATTTGAAACCAAACAAAC
15984591 TTTTATA
1 TTTTATA
15984598 ACTAATAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.49
Consensus pattern (30 bp):
TTTTATATTTTTATTTGAAACCAAACAAAC
Found at i:15985873 original size:12 final size:12
Alignment explanation
Indices: 15985856--15985880 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15985846 TTTAAGGCTA
15985856 TCAATTTATGCT
1 TCAATTTATGCT
15985868 TCAATTTATGCT
1 TCAATTTATGCT
15985880 T
1 T
15985881 AAAATTGACA
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:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TCAATTTATGCT
Found at i:15991254 original size:13 final size:13
Alignment explanation
Indices: 15991236--15991260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15991226 ATTTTCAAAA
15991236 ATTTTATAAAATT
1 ATTTTATAAAATT
15991249 ATTTTATAAAAT
1 ATTTTATAAAAT
15991261 CCCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:15991729 original size:28 final size:29
Alignment explanation
Indices: 15991668--15991731 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
15991658 GTAAATTTTT
** * *
15991668 AAAAATTACACTTTTACCACCGTAAAGTG
1 AAAAATTACACTTTTACCACCAAAAACTA
*
15991697 AAAAATTACATTTTTACC-CCAAAAACTA
1 AAAAATTACACTTTTACCACCAAAAACTA
15991725 AAAAATT
1 AAAAATT
15991732 GCCCATAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCACCAAAAACTA
Found at i:16004000 original size:29 final size:29
Alignment explanation
Indices: 16003923--16004200 Score: 323
Period size: 29 Copynumber: 9.7 Consensus size: 29
16003913 TGGCAGTTTT
* *
16003923 AACATATTTTGTCCTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* * * *
16003952 AATAT-ATTTGTCTTAGTTTAGATAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* *
16003980 AACAAGTTTTGCCTTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* *
16004009 AACATGTTTTGCCTTACTTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
*
16004038 AACATG-TTTGTCTTAATTTAGACAAAAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
16004066 AACATGTTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
*
16004095 AATATG-TTTGTCTTAATTTAAGACAAGTAA
1 AACATGTTTTGTCTTAATTT-AGACAAG-AA
* *
16004125 AATATGTTTTGTCTTAATCTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* * * *
16004154 AATAT-ATTTGT-TTCAATTTAGATAAGAT
1 AACATGTTTTGTCTT-AATTTAGACAAGAA
*
16004182 AACATGTTTTATCTTAATT
1 AACATGTTTTGTCTTAATT
16004201 AAAGATAAGA
Statistics
Matches: 215, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.01
28 80 0.37
29 104 0.48
30 17 0.08
31 12 0.06
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
AACATGTTTTGTCTTAATTTAGACAAGAA
Found at i:16004053 original size:57 final size:57
Alignment explanation
Indices: 16003930--16004200 Score: 330
Period size: 57 Copynumber: 4.7 Consensus size: 57
16003920 TTTAACATAT
* * * * * *
16003930 TTTGTCCTAATTTAGACAAGAAAATAT-ATTTGTCTTAGTTTAGATAAGAAAACAAG
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATG
* * *
16003986 TTTTGCCTTAATTTAGACAAGAAAACATGTTTTGCCTTACTTTAGACAAGAAAACATG
1 -TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATG
* *
16004044 TTTGTCTTAATTTAGACAAAAAAACATGTTTTGTCTTAATTTAGACAAGAAAATATG
1 TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATG
* * * *
16004101 TTTGTCTTAATTTAAGACAAGTAAAATATGTTTTGTCTTAATCTAGACAAGAAAATATA
1 TTTGTCTTAATTT-AGACAAG-AAAACATGTTTTGTCTTAATTTAGACAAGAAAACATG
* * *
16004160 TTTGT-TTCAATTTAGATAAGATAACATGTTTTATCTTAATT
1 TTTGTCTT-AATTTAGACAAGAAAACATGTTTTGTCTTAATT
16004201 AAAGATAAGA
Statistics
Matches: 188, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
57 106 0.56
58 38 0.20
59 44 0.23
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (57 bp):
TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATG
Found at i:16004068 original size:86 final size:86
Alignment explanation
Indices: 16003923--16004155 Score: 308
Period size: 86 Copynumber: 2.7 Consensus size: 86
16003913 TGGCAGTTTT
* * * *
16003923 AACATATTTTGTCC-TAATTTAGACAAGAAAATATATTTGTCTTAGTTTAGATAAGAAAACAAGT
1 AACATGTTTTG-CCTTAATTTAGACAAGAAAATATGTTTGTCTTAATTTAGACAAGAAAACAAGT
16003987 TTTGCCTTAATTTAGACAAGAA
65 TTTGCCTTAATTTAGACAAGAA
* * * *
16004009 AACATGTTTTGCCTTACTTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAAAAAACATGTT
1 AACATGTTTTGCCTTAATTTAGACAAGAAAATATGTTTGTCTTAATTTAGACAAGAAAACAAGTT
*
16004074 TTGTCTTAATTTAGACAAGAA
66 TTGCCTTAATTTAGACAAGAA
* * *
16004095 AATATG-TTTGTCTTAATTTAAGACAAGTAAAATATGTTTTGTCTTAATCTAGACAAGAAAA
1 AACATGTTTTGCCTTAATTT-AGACAAG-AAAATATG-TTTGTCTTAATTTAGACAAGAAAA
16004156 TATATTTGTT
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
85 13 0.10
86 86 0.67
87 7 0.05
88 22 0.17
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (86 bp):
AACATGTTTTGCCTTAATTTAGACAAGAAAATATGTTTGTCTTAATTTAGACAAGAAAACAAGTT
TTGCCTTAATTTAGACAAGAA
Found at i:16006206 original size:2 final size:2
Alignment explanation
Indices: 16006199--16006267 Score: 93
Period size: 2 Copynumber: 34.0 Consensus size: 2
16006189 GGCTTATTGT
* * **
16006199 TA TA TA TA TT TA TA TG TA TA TA TA TA TA NNN TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
16006242 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
16006268 AATAAATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16012259 original size:29 final size:29
Alignment explanation
Indices: 16012206--16012417 Score: 227
Period size: 29 Copynumber: 7.3 Consensus size: 29
16012196 ACAGCTTTTT
*
16012206 AACATGTTTTGT-ATAATTTAGACAAAAA
1 AACATGTTTTGTCTTAATTTAGACAAAAA
16012234 AACATGTTTTGTCTTAATTTAGACAAGAAA
1 AACATGTTTTGTCTTAATTTAGACAA-AAA
* * *
16012264 AACATG-TTTGTTTTAATTCAGACAACAA
1 AACATGTTTTGTCTTAATTTAGACAAAAA
*
16012292 AACATGTTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAAAA
*
16012321 AATAT-TTTTGTCTTAATTTGAGACAAGAAA
1 AACATGTTTTGTCTTAATTT-AGACAA-AAA
* * * * *
16012351 AATATGTTTTGTCATAATCTAGATAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAAAA
* * *
16012380 AAC-T-TATTTGTCTCAATTTAGACAAGAT
1 AACATGT-TTTGTCTTAATTTAGACAAAAA
16012408 AACATGTTTT
1 AACATGTTTT
16012418 ATGTTAACTA
Statistics
Matches: 156, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
27 1 0.01
28 55 0.35
29 66 0.42
30 22 0.14
31 12 0.08
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (29 bp):
AACATGTTTTGTCTTAATTTAGACAAAAA
Found at i:16012358 original size:87 final size:88
Alignment explanation
Indices: 16012206--16012417 Score: 265
Period size: 87 Copynumber: 2.4 Consensus size: 88
16012196 ACAGCTTTTT
* *
16012206 AACATGTTTTGT-ATAATTTAGACAAAAAAACATGTTTTGTCTTAATTTAGACAAGAAAAACATG
1 AACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAAACATG
**
16012270 -TTTGTTTTAAT-TCAGACAACAA
66 TTTTGTCATAATCT-AGACAACAA
* *
16012292 AACATGTTTTGTCTTAATTTAGACAAGAAAATAT-TTTTGTCTTAATTTGAGACAAGAAAAATAT
1 AACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTT-AGACAAGAAAAACAT
* *
16012356 GTTTTGTCATAATCTAGATAAGAA
65 GTTTTGTCATAATCTAGACAACAA
* *
16012380 AAC-T-TATTTGTCTCAATTTAGACAAGATAACATGTTTT
1 AACATGT-TTTGTCTTAATTTAGACAAGAAAACATGTTTT
16012418 ATGTTAACTA
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
86 27 0.25
87 58 0.53
88 23 0.21
89 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (88 bp):
AACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAAACATG
TTTTGTCATAATCTAGACAACAA
Found at i:16013150 original size:18 final size:19
Alignment explanation
Indices: 16013127--16013166 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16013117 CAAGTGAAGA
16013127 ATTTTA-GAATAAAATAAT
1 ATTTTATGAATAAAATAAT
* *
16013145 ATTTTATTAATAAAATATT
1 ATTTTATGAATAAAATAAT
16013164 ATT
1 ATT
16013167 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:16013180 original size:14 final size:14
Alignment explanation
Indices: 16013139--16013180 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
16013129 TTTAGAATAA
16013139 AATAATATTTTATT
1 AATAATATTTTATT
* *
16013153 AATAAAATATTATT
1 AATAATATTTTATT
16013167 -ATAATATTTATATT
1 AATAATATTT-TATT
16013181 TTATTAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATAATATTTTATT
Found at i:16013979 original size:28 final size:25
Alignment explanation
Indices: 16013947--16014020 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 25
16013937 CCATAACCAA
*
16013947 GAAGGAAAGAGAAGGAAGAAGAAAGGAG
1 GAAGGAAAG-GAAAG-A-AAGAAAGGAG
*
16013975 GAAGGAAAGGAAAGAAAGAAAGGAA
1 GAAGGAAAGGAAAGAAAGAAAGGAG
*
16014000 GAA--AAA-GAGAGAAAGAAAGGA
1 GAAGGAAAGGAAAGAAAGAAAGGA
16014021 AAAGGCTCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
22 14 0.33
23 3 0.07
25 12 0.28
26 1 0.02
27 4 0.09
28 9 0.21
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (25 bp):
GAAGGAAAGGAAAGAAAGAAAGGAG
Found at i:16014023 original size:18 final size:18
Alignment explanation
Indices: 16013945--16014024 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 18
16013935 TACCATAACC
*
16013945 AAGAAGGAAAGAGAAGGAA
1 AAGAAAGAAAGA-AAGGAA
16013964 GAAGAAAGGAGGAAGGAAAGG-A
1 -AAGAAA-GA--AA-GAAAGGAA
* *
16013986 AAGAAAGAAAGGAAGAAA
1 AAGAAAGAAAGAAAGGAA
*
16014004 AAGAGAGAAAGAAAGGAA
1 AAGAAAGAAAGAAAGGAA
16014022 AAG
1 AAG
16014025 GCTCGGGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.08
18 21 0.43
20 7 0.14
21 8 0.16
22 1 0.02
23 6 0.12
24 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAAGAAAGGAA
Found at i:16015393 original size:19 final size:20
Alignment explanation
Indices: 16015366--16015411 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16015356 AGGAGACAAG
*
16015366 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
16015385 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
16015404 ATAATATT
1 ATAATATT
16015412 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:16022211 original size:59 final size:60
Alignment explanation
Indices: 16022132--16022244 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 60
16022122 ATTAGAAAGC
* * * *
16022132 GAATTTGCTATTATATAGTATGCATTATATTTTGTCCCTTGATTTATTAAATTGGAATAT
1 GAATTTGCTATCATATAGTATGCATCATATTTTATCCCTTAATTTATTAAATTGGAATAT
* *
16022192 GAATTT-CTATCATGTAGTATGTATCATATTTTATCCCTTAATTTATTAAATTG
1 GAATTTGCTATCATATAGTATGCATCATATTTTATCCCTTAATTTATTAAATTG
16022245 AATTGAGCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 41 0.87
60 6 0.13
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.49
Consensus pattern (60 bp):
GAATTTGCTATCATATAGTATGCATCATATTTTATCCCTTAATTTATTAAATTGGAATAT
Found at i:16022732 original size:27 final size:28
Alignment explanation
Indices: 16022681--16022740 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
16022671 CTAATAATAA
* *
16022681 GAATACTTTTAACCCACCAGGAGTGGAT
1 GAATACTTTTAACCCACAAGAAGTGGAT
16022709 GAATACTTTTAA-CCACAAGAAGTGGAT
1 GAATACTTTTAACCCACAAGAAGTGGAT
*
16022736 AAATA
1 GAATA
16022741 GTAAAGAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (28 bp):
GAATACTTTTAACCCACAAGAAGTGGAT
Found at i:16024070 original size:21 final size:20
Alignment explanation
Indices: 16024036--16024087 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
16024026 ATTACCAAGG
* * *
16024036 GTATCGATAGATTCCTTGCAT
1 GTATCAATAGATT-CTAGAAT
*
16024057 GTATCAATATATTCTAGAAT
1 GTATCAATAGATTCTAGAAT
16024077 GTATCAATAGA
1 GTATCAATAGA
16024088 ATTGTTGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
GTATCAATAGATTCTAGAAT
Found at i:16024704 original size:25 final size:25
Alignment explanation
Indices: 16024676--16024738 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
16024666 CGATGCACTA
16024676 GAAATGTAGCACTCTGATGATATAT
1 GAAATGTAGCACTCTGATGATATAT
* *
16024701 GAAATGTGGCAATCTGATGATATAT
1 GAAATGTAGCACTCTGATGATATAT
*
16024726 GAAATGTTGCACT
1 GAAATGTAGCACT
16024739 TACATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (25 bp):
GAAATGTAGCACTCTGATGATATAT
Found at i:16030608 original size:39 final size:40
Alignment explanation
Indices: 16030565--16030657 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
16030555 CGCTGAATCA
* * *
16030565 CGCTGCAGCAAAATTTCAACCCA-AAAACAGAATGTTTCT
1 CGCTGCAGCAAAATTGCAACCCAGAAAACAAAAAGTTTCT
* *
16030604 CGCTGCATCACAATTGCAACCCAGAAAACAAAAAGTTTCT
1 CGCTGCAGCAAAATTGCAACCCAGAAAACAAAAAGTTTCT
16030644 CGCTGCAGCGAAAA
1 CGCTGCAGC-AAAA
16030658 GCTACAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 20 0.44
40 22 0.49
41 3 0.07
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (40 bp):
CGCTGCAGCAAAATTGCAACCCAGAAAACAAAAAGTTTCT
Found at i:16041471 original size:31 final size:31
Alignment explanation
Indices: 16041436--16041496 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
16041426 ATCAACATTG
*
16041436 GGCTGGCAATGTATATCCCCATTGCACCTTA
1 GGCTGGCAACGTATATCCCCATTGCACCTTA
16041467 GGCTGGCAACGTATATCCCCATTGCACCTT
1 GGCTGGCAACGTATATCCCCATTGCACCTT
16041497 GGGCATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (31 bp):
GGCTGGCAACGTATATCCCCATTGCACCTTA
Found at i:16041792 original size:68 final size:68
Alignment explanation
Indices: 16041630--16041812 Score: 207
Period size: 68 Copynumber: 2.7 Consensus size: 68
16041620 ATGCTTACTT
* * * * *
16041630 ATCTCATA-AGGTTTATGGAATTTACATCATATACATAATCTCATGGC---AATTATGCTAGTTC
1 ATCTCATATA-GTATATGGAATATACATCATATACATATTCTCATGGCATTAATCATGCTACTTC
16041691 AATC
65 AATC
*
16041695 ATCTCATATAGTATATGGAATATACATCATTTACATATTCTCATGGCATTAATCATGCATACTT-
1 ATCTCATATAGTATATGGAATATACATCATATACATATTCTCATGGCATTAATCATGC-TACTTC
*
16041759 AATT
65 AATC
* * *
16041763 ATCTCA-AGTAGTGTATGGAATATATATCATATACAAATTCTCATGGCATT
1 ATCTCATA-TAGTATATGGAATATACATCATATACATATTCTCATGGCATT
16041813 CATTATACCA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
65 41 0.41
66 1 0.01
67 1 0.01
68 54 0.53
69 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (68 bp):
ATCTCATATAGTATATGGAATATACATCATATACATATTCTCATGGCATTAATCATGCTACTTCA
ATC
Found at i:16042771 original size:21 final size:21
Alignment explanation
Indices: 16042745--16042800 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
16042735 TCTAGGGAAA
16042745 ATGTATCGATACATTATGAAC
1 ATGTATCGATACATTATGAAC
16042766 ATGTATCGATACATTATGAAC
1 ATGTATCGATACATTATGAAC
16042787 ATGTATCGATACAT
1 ATGTATCGATACAT
16042801 GCTCATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGTATCGATACATTATGAAC
Found at i:16043607 original size:20 final size:20
Alignment explanation
Indices: 16043582--16043631 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
16043572 ATCTTCATGC
*
16043582 ATCGATAAATTTGGATAA-GT
1 ATCGATAAATTTGGA-AATCT
* *
16043602 ATCGATAGATTTTGAAATCT
1 ATCGATAAATTTGGAAATCT
16043622 ATCGATAAAT
1 ATCGATAAAT
16043632 GTTCTAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (20 bp):
ATCGATAAATTTGGAAATCT
Found at i:16045952 original size:67 final size:65
Alignment explanation
Indices: 16045789--16045975 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 65
16045779 GGCTTTTCGC
* * * * *
16045789 AGGCTCAGCCACAACCTTTAGCAATGGGTTTTCATGGGATCAACCAAAACTCAAAGTGATTTTTC
1 AGGCTCAACCACAACCTTTAACAAT-GGTTTTCACGGGATAAACCAAAACCCAAAGTGATTTTTC
16045854 A
65 A
* * * * * *
16045855 AGGCTTAACCACAACCTTTTACATTAGTTTTGCACGGGCTAAACTAAAACCCAAAGTGATTTTTC
1 AGGCTCAACCACAACCTTTAACAATGGTTTT-CACGGGATAAACCAAAACCCAAAGTGATTTTT-
16045920 CA
64 CA
** * * *
16045922 AGGCTCAACCACAACCTACAACAATGGTTTTTACCGAGATCAACCAAAACCCAA
1 AGGCTCAACCACAACCTTTAACAATGGTTTTCA-CGGGATAAACCAAAACCCAA
16045976 CAACCAACTT
Statistics
Matches: 96, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
65 5 0.05
66 48 0.50
67 43 0.45
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (65 bp):
AGGCTCAACCACAACCTTTAACAATGGTTTTCACGGGATAAACCAAAACCCAAAGTGATTTTTCA
Done.