Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 60 of 163
Found at i:15220012 original size:81 final size:80
Alignment explanation
Indices: 15219885--15220074 Score: 238
Period size: 81 Copynumber: 2.3 Consensus size: 80
15219875 CGCCATGAAA
* * * *
15219885 CCTACTAGGCTCAAGGCCCGTTAAAATAAATTGACACGAAGCCTGCTAGGCACAAAACCCAATAA
1 CCTACTAGGCACAAAGCCCGAT-AAATAAATCGACACGAAGCCTGCTAGGCACAAAACCCAATAA
15219950 AATACACTAGAACA-AAG
65 AATACA-TAG-ACATAAG
* * * * * * *
15219967 CCTACTAGGAACAAAGCCCGATAAATACATCGACACTAAGCCTGCTAGGCTCAAAGCTCGATAAA
1 CCTACTAGGCACAAAGCCCGATAAATAAATCGACACGAAGCCTGCTAGGCACAAAACCCAATAAA
15220032 ATACATAGACATTAAG
66 ATACATAGACA-TAAG
15220048 CCTACTAGGCACAAAGCCCGATAAATA
1 CCTACTAGGCACAAAGCCCGATAAATA
15220075 TACCATCATA
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
79 3 0.03
80 3 0.03
81 70 0.74
82 18 0.19
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.17
Consensus pattern (80 bp):
CCTACTAGGCACAAAGCCCGATAAATAAATCGACACGAAGCCTGCTAGGCACAAAACCCAATAAA
ATACATAGACATAAG
Found at i:15240461 original size:32 final size:32
Alignment explanation
Indices: 15240392--15240728 Score: 307
Period size: 32 Copynumber: 10.3 Consensus size: 32
15240382 TATATCGTAC
* * * * *
15240392 GAGCTATTAATCTATGAATAGTATACT-GTAA
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
*
15240423 GAGCTATCAATCTATGAACAGTATGCTCATAA
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
* *
15240455 GAGCTATTAATTATTAATTTGTGAACAGTATGCTCATAA
1 GAGC-------TATCAATCTGTGAACAGTATGCTCATAA
* * *
15240494 GAGCTATTAATCTATGAATAGTATGCTCATAA
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
*
15240526 GAGCTATCAATCTGTGAACATTATGCTCATAA
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
* * * *
15240558 GAGCTATTAATTTGTGAATAATATGCTCATAA
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
* * *
15240590 GTGCTATCAATCTGTGAACATTAAGCTCATAA
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
* * * *
15240622 GAGCTATTATTCTGTGAATAGTATGCTCATAG
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
** * ** *
15240654 GAGCTATCAATCTGTGAACAACAAGCTCGCAG
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
* * * *
15240686 GAGCTATCAATCTGTGAACAATAAGCTCGTAG
1 GAGCTATCAATCTGTGAACAGTATGCTCATAA
15240718 GAGCTATCAAT
1 GAGCTATCAAT
15240729 AAAATTCACC
Statistics
Matches: 257, Mismatches: 41, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
31 24 0.09
32 204 0.79
39 29 0.11
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
GAGCTATCAATCTGTGAACAGTATGCTCATAA
Found at i:15240622 original size:96 final size:96
Alignment explanation
Indices: 15240420--15240728 Score: 339
Period size: 96 Copynumber: 3.1 Consensus size: 96
15240410 TAGTATACTG
* *
15240420 TAAGAGCTATCAATCTATGAACAGTATGCTCATAAGAGCTATTAATTATTAATTTGTGAACAGTA
1 TAAGAGCTATCAATCTGTGAACAGTATGCTCATAAGAGC-------TATTAATTTGTGAACAATA
* * * * *
15240485 TGCTCATAAGAGCTATTAATCTATGAATAGTATGCTCA
59 TGCTCATAAGAGCTATCAATCTGTGAACAATAAGCTCA
* *
15240523 TAAGAGCTATCAATCTGTGAACATTATGCTCATAAGAGCTATTAATTTGTGAATAATATGCTCAT
1 TAAGAGCTATCAATCTGTGAACAGTATGCTCATAAGAGCTATTAATTTGTGAACAATATGCTCAT
* *
15240588 AAGTGCTATCAATCTGTGAACATTAAGCTCA
66 AAGAGCTATCAATCTGTGAACAATAAGCTCA
* * * * * * * * **
15240619 TAAGAGCTATTATTCTGTGAATAGTATGCTCATAGGAGCTATCAATCTGTGAACAACAAGCTCGC
1 TAAGAGCTATCAATCTGTGAACAGTATGCTCATAAGAGCTATTAATTTGTGAACAATATGCTCAT
* *
15240684 AGGAGCTATCAATCTGTGAACAATAAGCTCG
66 AAGAGCTATCAATCTGTGAACAATAAGCTCA
*
15240715 TAGGAGCTATCAAT
1 TAAGAGCTATCAAT
15240729 AAAATTCACC
Statistics
Matches: 177, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
96 140 0.79
103 37 0.21
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (96 bp):
TAAGAGCTATCAATCTGTGAACAGTATGCTCATAAGAGCTATTAATTTGTGAACAATATGCTCAT
AAGAGCTATCAATCTGTGAACAATAAGCTCA
Found at i:15243206 original size:16 final size:16
Alignment explanation
Indices: 15243154--15243200 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15243144 TAGACATATA
*
15243154 ATAAATAAATA-AATAG
1 ATAAATAAATATAA-AT
*
15243170 AAAAATAAATATAAAT
1 ATAAATAAATATAAAT
15243186 ATAAATAAATATAAA
1 ATAAATAAATATAAA
15243201 AGTAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 25 0.93
17 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAATAAATATAAAT
Found at i:15246637 original size:11 final size:11
Alignment explanation
Indices: 15246621--15246653 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
15246611 CTCTAAAAGA
15246621 TAAATATAAAT
1 TAAATATAAAT
*
15246632 TAAATACAAAT
1 TAAATATAAAT
15246643 TAAATATAAAT
1 TAAATATAAAT
15246654 AATATCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:15259909 original size:24 final size:24
Alignment explanation
Indices: 15259876--15259950 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
15259866 ATATTGGTTA
15259876 AACTCTATCTGGGCTCGAATGAGCT
1 AACT-TATCTGGGCTCGAATGAGCT
*
15259901 AACTTATCTGAGCTCGTAA-GAGCT
1 AACTTATCTGGGCTCG-AATGAGCT
* * *
15259925 AACCTATCTAGGCTCGTATGAGCT
1 AACTTATCTGGGCTCGAATGAGCT
15259949 AA
1 AA
15259951 TTTTGTCTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.02
24 36 0.84
25 6 0.14
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
AACTTATCTGGGCTCGAATGAGCT
Found at i:15259965 original size:25 final size:26
Alignment explanation
Indices: 15259931--15259980 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
15259921 AGCTAACCTA
15259931 TCTAGGCTCGTATGAGCT-AATTTTG
1 TCTAGGCTCGTATGAGCTAAATTTTG
*
15259956 TCTAGGCTCGTATGAGTTAAATTTT
1 TCTAGGCTCGTATGAGCTAAATTTT
15259981 TGGAAGACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (26 bp):
TCTAGGCTCGTATGAGCTAAATTTTG
Found at i:15262953 original size:21 final size:21
Alignment explanation
Indices: 15262905--15262956 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
15262895 GTTACACGGT
* *
15262905 CGTGTGGCTCCTCCACACGTC
1 CGTGTGTCCCCTCCACACGTC
*
15262926 CGTGTGTCCCCTCCACACTTC
1 CGTGTGTCCCCTCCACACGTC
15262947 CGTGTGTCCC
1 CGTGTGTCCC
15262957 ACACGCCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.44, G:0.21, T:0.27
Consensus pattern (21 bp):
CGTGTGTCCCCTCCACACGTC
Found at i:15263811 original size:32 final size:32
Alignment explanation
Indices: 15263788--15264093 Score: 198
Period size: 32 Copynumber: 9.6 Consensus size: 32
15263778 ATATTTGTAT
*
15263788 GAGCTATTAATCTATGAATAGTATACTCGTAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* * * *
15263820 GAGTTATCAATCTGTGAATAGTATGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* ** * * * * *
15263852 TATTTTTTAATCTATGAACAGTATGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* * * * * * * *
15263884 GAGCTATTAATTTGTGCACAATATGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* * * *
15263916 GAGCTATTAATCTGTGAATAGTATGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* *
15263948 GAGCTATCAATCTATGAATAGTATGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* * * ** * ** *
15263980 GAGTTATTAATCTGTGACCAATACGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* * * *
15264012 GAGCTATCAATCTGTGAACAGTATGCTCATAA
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
* * * * *
15264044 GAGCTATTAATCTGTGAACAGTATGCTCGTAG
1 GAGCTATCAATCTATGAATAGTATACTCGTAA
*
15264076 GAGCTATCAATCTGTGAA
1 GAGCTATCAATCTATGAA
15264094 GAATTTTTTG
Statistics
Matches: 233, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 233 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (32 bp):
GAGCTATCAATCTATGAATAGTATACTCGTAA
Found at i:15263885 original size:64 final size:64
Alignment explanation
Indices: 15263788--15264093 Score: 396
Period size: 64 Copynumber: 4.8 Consensus size: 64
15263778 ATATTTGTAT
* * * * * *
15263788 GAGCTATTAATCTATGAATAGTATACTCGTAAGAGTTATCAATCTGTGAATAGTATGCTCATAA
1 GAGCTATTAATCTGTGAACAGTATGCTCATAAGAGCTATCAATCTGTGAACAGTATGCTCATAA
* ** * * * * * *
15263852 TATTTTTTAATCTATGAACAGTATGCTCATAAGAGCTATTAATTTGTGCACAATATGCTCATAA
1 GAGCTATTAATCTGTGAACAGTATGCTCATAAGAGCTATCAATCTGTGAACAGTATGCTCATAA
* * *
15263916 GAGCTATTAATCTGTGAATAGTATGCTCATAAGAGCTATCAATCTATGAATAGTATGCTCATAA
1 GAGCTATTAATCTGTGAACAGTATGCTCATAAGAGCTATCAATCTGTGAACAGTATGCTCATAA
* * * *
15263980 GAGTTATTAATCTGTGACCAATACGCTCATAAGAGCTATCAATCTGTGAACAGTATGCTCATAA
1 GAGCTATTAATCTGTGAACAGTATGCTCATAAGAGCTATCAATCTGTGAACAGTATGCTCATAA
* *
15264044 GAGCTATTAATCTGTGAACAGTATGCTCGTAGGAGCTATCAATCTGTGAA
1 GAGCTATTAATCTGTGAACAGTATGCTCATAAGAGCTATCAATCTGTGAA
15264094 GAATTTTTTG
Statistics
Matches: 204, Mismatches: 38, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 204 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (64 bp):
GAGCTATTAATCTGTGAACAGTATGCTCATAAGAGCTATCAATCTGTGAACAGTATGCTCATAA
Found at i:15263928 original size:96 final size:96
Alignment explanation
Indices: 15263817--15264092 Score: 392
Period size: 96 Copynumber: 2.9 Consensus size: 96
15263807 AGTATACTCG
* * ** *
15263817 TAAGAGTTATCAATCTGTGAATAGTATGCTCATAATATTTTTTAATCTATGAACAGTATGCTCAT
1 TAAGAGCTATCAATCTGTGAATAGTATGCTCATAAGAGCTATTAATCTATGAACAGTATGCTCAT
* *
15263882 AAGAGCTATTAATTTGTG-CACAATATGCTCA
66 AAGAGCTATTAATCTGTGAC-CAATACGCTCA
* * *
15263913 TAAGAGCTATTAATCTGTGAATAGTATGCTCATAAGAGCTATCAATCTATGAATAGTATGCTCAT
1 TAAGAGCTATCAATCTGTGAATAGTATGCTCATAAGAGCTATTAATCTATGAACAGTATGCTCAT
*
15263978 AAGAGTTATTAATCTGTGACCAATACGCTCA
66 AAGAGCTATTAATCTGTGACCAATACGCTCA
* * *
15264009 TAAGAGCTATCAATCTGTGAACAGTATGCTCATAAGAGCTATTAATCTGTGAACAGTATGCTCGT
1 TAAGAGCTATCAATCTGTGAATAGTATGCTCATAAGAGCTATTAATCTATGAACAGTATGCTCAT
* *
15264074 AGGAGCTATCAATCTGTGA
66 AAGAGCTATTAATCTGTGA
15264093 AGAATTTTTT
Statistics
Matches: 159, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 158 0.99
97 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (96 bp):
TAAGAGCTATCAATCTGTGAATAGTATGCTCATAAGAGCTATTAATCTATGAACAGTATGCTCAT
AAGAGCTATTAATCTGTGACCAATACGCTCA
Found at i:15290268 original size:29 final size:29
Alignment explanation
Indices: 15290222--15290277 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
15290212 AAACTATGAC
* *
15290222 TAAAGAAGAATCTTCACTGTTTGCTTTAA
1 TAAAGAAAAATCTCCACTGTTTGCTTTAA
15290251 TAAAGAAAAATCTCCACTGTTTGCTTT
1 TAAAGAAAAATCTCCACTGTTTGCTTT
15290278 TAAATATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (29 bp):
TAAAGAAAAATCTCCACTGTTTGCTTTAA
Found at i:15291048 original size:15 final size:16
Alignment explanation
Indices: 15291028--15291057 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15291018 GTTTTGGAAC
15291028 ATTTAAGTT-GATTTT
1 ATTTAAGTTGGATTTT
15291043 ATTTAAGTTGGATTT
1 ATTTAAGTTGGATTT
15291058 ATTGAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (16 bp):
ATTTAAGTTGGATTTT
Found at i:15302006 original size:11 final size:11
Alignment explanation
Indices: 15301990--15302020 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
15301980 TGACAAGACA
15301990 CACACACTTTG
1 CACACACTTTG
15302001 CACACACTTTG
1 CACACACTTTG
15302012 CACACACTT
1 CACACACTT
15302021 GTGCTCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.39, G:0.06, T:0.26
Consensus pattern (11 bp):
CACACACTTTG
Found at i:15302779 original size:31 final size:31
Alignment explanation
Indices: 15302744--15302803 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
15302734 TATATATATT
*
15302744 AAATTTTTTTATAAATATTTTG-AATTTTTTA
1 AAATTGTTTTA-AAATATTTTGTAATTTTTTA
* *
15302775 AAATTGTTTTAAATTGTTTTGTAATTTTT
1 AAATTGTTTTAAAATATTTTGTAATTTTT
15302804 GTTATGAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.62
Consensus pattern (31 bp):
AAATTGTTTTAAAATATTTTGTAATTTTTTA
Found at i:15302784 original size:20 final size:20
Alignment explanation
Indices: 15302715--15302794 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
15302705 ATTAGGTCCC
* **
15302715 AAATTTTTTAAATTTTAAAT
1 AAATATTTTAAATTTTTTAT
* *
15302735 ATATATATTAAATTTTTTTAT
1 AAATATTTTAAA-TTTTTTAT
*
15302756 AAATATTTTGAATTTTTTA-
1 AAATATTTTAAATTTTTTAT
*
15302775 AAATTGTTTTAAATTGTTTT
1 AAA-TATTTTAAATT-TTTT
15302795 GTAATTTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.06
20 25 0.53
21 19 0.40
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
AAATATTTTAAATTTTTTAT
Found at i:15303508 original size:19 final size:20
Alignment explanation
Indices: 15303467--15303537 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
15303457 AAAAATATAA
*
15303467 ATTTTGAATTTTTTATAAA-T
1 ATTTTGAA-TTTTTAAAAATT
15303487 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
15303506 ATTTTGAAGTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
15303526 ATTTTGTAATTT
1 ATTTTG-AATTT
15303538 ACGTTGAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.18
19 9 0.20
20 24 0.53
21 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:15304051 original size:28 final size:29
Alignment explanation
Indices: 15304019--15304093 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
15304009 ATTTTTTTTT
**
15304019 AATTTGATATTTAAACTTTTTTT-GACCC
1 AATTTGATACCTAAACTTTTTTTGGACCC
*
15304047 AATTTGGTACCTAAACTTTTTTTGGACCC
1 AATTTGATACCTAAACTTTTTTTGGACCC
* *
15304076 AATTTGGTACCTGAACTT
1 AATTTGATACCTAAACTT
15304094 GTCATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 20 0.48
29 22 0.52
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (29 bp):
AATTTGATACCTAAACTTTTTTTGGACCC
Found at i:15304077 original size:29 final size:28
Alignment explanation
Indices: 15304030--15304147 Score: 110
Period size: 28 Copynumber: 4.1 Consensus size: 28
15304020 ATTTGATATT
15304030 TAAACTTTTTTTGACCCAATTTGGTACC
1 TAAACTTTTTTTGACCCAATTTGGTACC
15304058 TAAACTTTTTTTGGACCCAATTTGGTACC
1 TAAACTTTTTTT-GACCCAATTTGGTACC
* ** * *
15304087 TGAACTTGTCATTTTTTCCTAATTTGGCACC
1 TAAACTT-T--TTTTGACCCAATTTGGTACC
* * ***
15304118 TAAGCTTTTTTTTATTTAATTTGGTACC
1 TAAACTTTTTTTGACCCAATTTGGTACC
15304146 TA
1 TA
15304148 TATTTATTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
28 30 0.40
29 22 0.29
30 2 0.03
31 17 0.23
32 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.47
Consensus pattern (28 bp):
TAAACTTTTTTTGACCCAATTTGGTACC
Found at i:15304777 original size:55 final size:56
Alignment explanation
Indices: 15304700--15304809 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 56
15304690 AAAAAACTGA
**
15304700 TGTTGACCATTGCATGACTGACAC-CTCCTTTTTTTCTGACAAAAAA-AAATTTTGG
1 TGTTGACCATTGCATGACTGACACTC-CCTTTTAATCTGACAAAAAACAAATTTTGG
* ** *
15304755 TGTTGGCCATTGCATGGTTGACACTCCCTTTTAATCTGATAAAAAATCAAATTTT
1 TGTTGACCATTGCATGACTGACACTCCCTTTTAATCTGACAAAAAA-CAAATTTT
15304810 TTGGTATTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 38 0.83
56 1 0.02
57 7 0.15
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (56 bp):
TGTTGACCATTGCATGACTGACACTCCCTTTTAATCTGACAAAAAACAAATTTTGG
Found at i:15304856 original size:59 final size:59
Alignment explanation
Indices: 15304793--15305047 Score: 266
Period size: 59 Copynumber: 4.3 Consensus size: 59
15304783 TTTTAATCTG
* * * *
15304793 ATAAAAAATCAAATTTTTTGGTATTGGGCATG-CAATTG-TCGACACCCCT-TTTTTGTCAA
1 ATAAAAAATCAAATTTTTTGGTATTGGTCATGTC-A-TGACCGACACCCCTATTTATCT-AA
* * * * * *
15304852 ATAAAAATTTAATTTTTTTGGTGTTGGTCATGCCATGACCGACACCCCTATTTATCTGA
1 ATAAAAAATCAAATTTTTTGGTATTGGTCATGTCATGACCGACACCCCTATTTATCTAA
* * * * *
15304911 ATATAAAATCAAATTTTTTTGTATTGGTCATGTCATGACTGACACCTCTATTTATCTGA
1 ATAAAAAATCAAATTTTTTGGTATTGGTCATGTCATGACCGACACCCCTATTTATCTAA
* * * * *
15304970 ATAAAAAATCAAATTTTTGGGTGTTGGTCATGTCATGACCAACACCCCTTTTTGTC-AA
1 ATAAAAAATCAAATTTTTTGGTATTGGTCATGTCATGACCGACACCCCTATTTATCTAA
15305028 ATAAAAAATTCAAATTTTTT
1 ATAAAAAA-TCAAATTTTTT
15305048 TTTATGTTGA
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
58 11 0.07
59 146 0.90
60 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (59 bp):
ATAAAAAATCAAATTTTTTGGTATTGGTCATGTCATGACCGACACCCCTATTTATCTAA
Found at i:15304919 original size:118 final size:117
Alignment explanation
Indices: 15304774--15305047 Score: 297
Period size: 118 Copynumber: 2.3 Consensus size: 117
15304764 TTGCATGGTT
*
15304774 GACACTCCCTTTTAATCTG-ATAAAAAATCAAATTTTTTGGTATTGGGCATG-CAATTGTC-GAC
1 GACAC-CCCTTTT-ATCTGAATAAAAAATCAAATTTTTTGGTATTGGGCATGTC-A-TGACTGAC
* * * * * *
15304836 ACCCCT-TTTTTGTCAAATAAAAATTTAATTTTTTTGGTGTTGGTCATGCCATGACC
62 ACCCCTATTTATCT-AAATAAAAAATCAAATTTTTGGGTGTTGGTCATGCCATGACC
* * *
15304892 GACACCCCTATTTATCTGAATATAAAATCAAATTTTTTTGTATTGGTCATGTCATGACTGACACC
1 GACACCCCT-TTTATCTGAATAAAAAATCAAATTTTTTGGTATTGGGCATGTCATGACTGACACC
* * *
15304957 TCTATTTATCTGAATAAAAAATCAAATTTTTGGGTGTTGGTCATGTCATGACC
65 CCTATTTATCTAAATAAAAAATCAAATTTTTGGGTGTTGGTCATGCCATGACC
* * *
15305010 AACACCCCTTTT-TGTCAAATAAAAAATTCAAATTTTTT
1 GACACCCCTTTTATCT-GAATAAAAAA-TCAAATTTTTT
15305048 TTTATGTTGA
Statistics
Matches: 132, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
116 2 0.02
117 23 0.17
118 101 0.77
119 6 0.05
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (117 bp):
GACACCCCTTTTATCTGAATAAAAAATCAAATTTTTTGGTATTGGGCATGTCATGACTGACACCC
CTATTTATCTAAATAAAAAATCAAATTTTTGGGTGTTGGTCATGCCATGACC
Found at i:15305186 original size:59 final size:58
Alignment explanation
Indices: 15305108--15305252 Score: 159
Period size: 59 Copynumber: 2.5 Consensus size: 58
15305098 ATCACATTTC
* * * *
15305108 TGTGTTGGTCATGCAATGGCCGACACCTCATTTTCGTCA-GATAAAAATTTAATTTTTTT
1 TGTGTTGGCCATACAATGGCCGACACCTCATTTTCAT-ATGATAAAAA-TCAATTTTTTT
* * * *
15305167 TGTGTTGGCCATTAC-ATGGCCAACACACTCTTTTTTATATGGTAAAAATCAATTTTTTT
1 TGTGTTGGCCA-TACAATGGCCGACAC-CTCATTTTCATATGATAAAAATCAATTTTTTT
*
15305226 TGTGTTGGCCATGCAATGGCCGACACC
1 TGTGTTGGCCATACAATGGCCGACACC
15305253 AACTTTCCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
58 3 0.04
59 52 0.72
60 17 0.24
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (58 bp):
TGTGTTGGCCATACAATGGCCGACACCTCATTTTCATATGATAAAAATCAATTTTTTT
Found at i:15306010 original size:13 final size:13
Alignment explanation
Indices: 15305980--15306016 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
15305970 ATTATCGACA
15305980 AATTAAAAAT-AT
1 AATTAAAAATAAT
15305992 -ATTAAAAATAAT
1 AATTAAAAATAAT
*
15306004 AATTAAAATTAAT
1 AATTAAAAATAAT
15306017 TTTAAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:15307753 original size:12 final size:12
Alignment explanation
Indices: 15307736--15307785 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 12
15307726 AATATTTGTG
15307736 TAAAAATTAATT
1 TAAAAATTAATT
15307748 TAAAAATTAATT
1 TAAAAATTAATT
15307760 TAAGTTGAAATTAATT
1 TAA----AAATTAATT
*
15307776 TGAAAATTAA
1 TAAAAATTAA
15307786 GGTACATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 22 0.67
16 11 0.33
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (12 bp):
TAAAAATTAATT
Found at i:15307957 original size:37 final size:35
Alignment explanation
Indices: 15307905--15307981 Score: 129
Period size: 34 Copynumber: 2.2 Consensus size: 35
15307895 AACATTATTT
15307905 AAATAAAAAAGATTATTATTATATTTCAATTTATATC
1 AAATAAAAAA-A-TATTATTATATTTCAATTTATATC
15307942 AAAT-AAAAAATATTATTATATTTCAATTTATATC
1 AAATAAAAAAATATTATTATATTTCAATTTATATC
15307976 AAATAA
1 AAATAA
15307982 TGTGTTGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
34 28 0.72
35 2 0.05
36 5 0.13
37 4 0.10
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (35 bp):
AAATAAAAAAATATTATTATATTTCAATTTATATC
Found at i:15308222 original size:86 final size:86
Alignment explanation
Indices: 15307942--15308666 Score: 1194
Period size: 86 Copynumber: 8.5 Consensus size: 86
15307932 AATTTATATC
*
15307942 AAATAAAAAATATTATTA-TAT-TT-CAATTTATATCAAATAATGTGTTGATTTGACAATACATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
15308004 ATTTATCAAATTTTAATATTT
66 ATTTATCAAATTTTAATATTT
*
15308025 AAATAAAAAAAATTATTATTATTATATTACAATTTTTATCAAATAATTTGTTGATTTGACAATAC
1 AAAT--AAAAAA-TATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
15308090 ATTATTTATCAAATTTTAATATTT
63 ATTATTTATCAAATTTTAATATTT
15308114 AAATAAAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
*
15308178 ATTTACCAAATTTTAATATTT
66 ATTTATCAAATTTTAATATTT
* *
15308199 AAATAAAAAATATTATTGTTATATTAAAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
*
15308264 ATTTATCAAATTATAATATTT
66 ATTTATCAAATTTTAATATTT
* *
15308285 ATATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTTATTTG-CAATACATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
*
15308349 ATTTACCAAATTTTAATATTT
66 ATTTATCAAATTTTAATATTT
* *
15308370 AAGTAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
15308435 ATTTATCAAATTTTAATATTT
66 ATTTATCAAATTTTAATATTT
* *
15308456 AAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGATAATACATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
15308521 ATTTATCAAATTTTAATATTT
66 ATTTATCAAATTTTAATATTT
* * * *
15308542 AAATAAAAAAGATTATTATTATATTACAATTTTTATCCAATAATATGTTGATTTGACAATATATT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
*
15308607 ATTTACCAAATTTTAATATTT
66 ATTTATCAAATTTTAATATTT
* *
15308628 AAAT-TAAAA-ATTACTATTATATTACAATTTTTATCAAAT
1 AAATAAAAAATATTATTATTATATTACAATTTTTATCAAAT
15308667 TTTAAATTTA
Statistics
Matches: 605, Mismatches: 29, Indels: 15
0.93 0.04 0.02
Matches are distributed among these distances:
83 4 0.01
84 28 0.05
85 172 0.28
86 328 0.54
87 9 0.01
88 2 0.00
89 62 0.10
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (86 bp):
AAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
ATTTATCAAATTTTAATATTT
Found at i:15308250 original size:171 final size:171
Alignment explanation
Indices: 15307942--15308666 Score: 1197
Period size: 171 Copynumber: 4.2 Consensus size: 171
15307932 AATTTATATC
* *
15307942 AAAT-AAAAAA-TATTATTATATTTCAATTTATATCAAATAATGTGTTGATTTGACAATACATTA
1 AAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTA
* *
15308005 TTTATCAAATTTTAATATTTAAATAAAAAAAATTATTATTATTATATTACAATTTTTATCAAATA
66 TTTACCAAATTTTAATATTTAAAT--AAAAAA-GATTATTATTATATTACAATTTTTATCAAATA
*
15308070 ATTTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
128 ATGTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
15308114 AAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTA
1 AAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTA
* * *
15308179 TTTACCAAATTTTAATATTTAAATAAAAAATATTATTGTTATATTAAAATTTTTATCAAATAATG
66 TTTACCAAATTTTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATG
*
15308244 TGTTGATTTGACAATACATTATTTATCAAATTATAATATTT
131 TGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
* *
15308285 ATATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTTTATTTG-CAATACATT
1 AAATAAAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
*
15308349 ATTTACCAAATTTTAATATTTAAGTAAAAAAGATTATTATTATATTACAATTTTTATCAAATAAT
65 ATTTACCAAATTTTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAAT
15308414 GTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
130 GTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
*
15308456 AAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGATAATACATT
1 AAATAAAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
* *
15308521 ATTTATCAAATTTTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCCAATAAT
65 ATTTACCAAATTTTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAAT
* * *
15308586 ATGTTGATTTGACAATATATTATTTACCAAATTTTAATATTT
130 GTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
* *
15308628 AAAT-TAAAAATTACTATTATATTACAATTTTTATCAAAT
1 AAATAAAAAAATTATTATTATATTACAATTTTTATCAAAT
15308667 TTTAAATTTA
Statistics
Matches: 523, Mismatches: 26, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
170 29 0.06
171 248 0.47
172 166 0.32
173 6 0.01
174 74 0.14
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (171 bp):
AAATAAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTA
TTTACCAAATTTTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATG
TGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
Found at i:15308409 original size:257 final size:256
Alignment explanation
Indices: 15307942--15308666 Score: 1197
Period size: 257 Copynumber: 2.8 Consensus size: 256
15307932 AATTTATATC
* *
15307942 AAATAAAAAATATTA--TTATATTTCAATTTATATCAAATAATGTGTTGATTTGACAATACATTA
1 AAATAAAAAATATTATTTTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTA
*
15308005 TTTATCAAATTTTAATATTTAAATAAAAAAAATTATTATTATTATATTACAATTTTTATCAAATA
66 TTTATCAAATTTTAATATTT--ATATAAAAAA-TATTATTATTATATTACAATTTTTATCAAATA
* *
15308070 ATTTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTTAAATAAAAAAATTATTATTAT
128 ATATGTTGATTTGACAATACATTATTTACCAAATTTTAATATTTAAATAAAAAAATTATTATTAT
15308135 ATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTTTAATATTT
193 ATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTTTAATATTT
*
15308199 AAATAAAAAATATTATTGTTATATTAAAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
1 AAATAAAAAATATTATT-TTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
*
15308264 ATTTATCAAATTATAATATTTATATAAAAAATATTATTATTATATTACAATTTTTATCAAATAAT
65 ATTTATCAAATTTTAATATTTATATAAAAAATATTATTATTATATTACAATTTTTATCAAATAAT
* * *
15308329 GTGTTTATTTG-CAATACATTATTTACCAAATTTTAATATTTAAGTAAAAAAGATTATTATTATA
130 ATGTTGATTTGACAATACATTATTTACCAAATTTTAATATTTAAATAAAAAA-ATTATTATTATA
*
15308393 TTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTATCAAATTTTAATATTT
194 TTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTTTAATATTT
* *
15308456 AAATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGATAATACATT
1 AAATAAAAAATATTATT-TTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATT
* * *
15308521 ATTTATCAAATTTTAATATTTAAATAAAAAAGATTATTATTATATTACAATTTTTATCCAATAAT
65 ATTTATCAAATTTTAATATTTATATAAAAAATATTATTATTATATTACAATTTTTATCAAATAAT
* * *
15308586 ATGTTGATTTGACAATATATTATTTACCAAATTTTAATATTTAAAT-TAAAAATTACTATTATAT
130 ATGTTGATTTGACAATACATTATTTACCAAATTTTAATATTTAAATAAAAAAATTATTATTATAT
15308650 TACAATTTTTATCAAAT
195 TACAATTTTTATCAAAT
15308667 TTTAAATTTA
Statistics
Matches: 439, Mismatches: 24, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
256 67 0.15
257 267 0.61
258 41 0.09
260 64 0.15
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (256 bp):
AAATAAAAAATATTATTTTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTA
TTTATCAAATTTTAATATTTATATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATA
TGTTGATTTGACAATACATTATTTACCAAATTTTAATATTTAAATAAAAAAATTATTATTATATT
ACAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTACCAAATTTTAATATTT
Found at i:15308807 original size:22 final size:23
Alignment explanation
Indices: 15308754--15308809 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
15308744 AGCATTGGAC
15308754 CACCCAAATTCCAACTCACCTAA
1 CACCCAAATTCCAACTCACCTAA
* *
15308777 -ACCGAAATTCCAGCTCACC-AA
1 CACCCAAATTCCAACTCACCTAA
*
15308798 CACCCCAATTCC
1 CACCCAAATTCC
15308810 GCCATTGACC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.36, C:0.45, G:0.04, T:0.16
Consensus pattern (23 bp):
CACCCAAATTCCAACTCACCTAA
Found at i:15309718 original size:18 final size:17
Alignment explanation
Indices: 15309695--15309731 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
15309685 TTAAAATTTA
*
15309695 TTAATTATTATTTTTATT
1 TTAATTATT-TTTTAATT
15309713 TTAATTATTTTTTAATT
1 TTAATTATTTTTTAATT
15309730 TT
1 TT
15309732 CAGATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTAATTATTTTTTAATT
Found at i:15309871 original size:20 final size:18
Alignment explanation
Indices: 15309848--15309890 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
15309838 TTTATAATAC
*
15309848 TTTTTTCCATTTTCGAAAT
1 TTTTTTACATTTTC-AAAT
*
15309867 GTTTTTTATATTTTCAAAT
1 -TTTTTTACATTTTCAAAT
15309886 TTTTT
1 TTTTT
15309891 AAAAGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 4 0.19
20 12 0.57
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTTTACATTTTCAAAT
Found at i:15310585 original size:24 final size:25
Alignment explanation
Indices: 15310558--15310612 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
15310548 CCAAATGACA
* *
15310558 AGCCCGAGT-ACAAGCCCACGGACG
1 AGCCCGACTGACAACCCCACGGACG
* *
15310582 AGCCC-ACTGACGACCCCGCGGACG
1 AGCCCGACTGACAACCCCACGGACG
15310606 AGCCCGA
1 AGCCCGA
15310613 TTACCAACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 22 0.88
25 1 0.04
ACGTcount: A:0.25, C:0.42, G:0.29, T:0.04
Consensus pattern (25 bp):
AGCCCGACTGACAACCCCACGGACG
Found at i:15310611 original size:12 final size:12
Alignment explanation
Indices: 15310570--15310610 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
15310560 CCCGAGTACA
15310570 AGCCCACGGACG
1 AGCCCACGGACG
*
15310582 AGCCCACTGACG
1 AGCCCACGGACG
* *
15310594 ACCCCGCGGACG
1 AGCCCACGGACG
15310606 AGCCC
1 AGCCC
15310611 GATTACCAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.22, C:0.46, G:0.29, T:0.02
Consensus pattern (12 bp):
AGCCCACGGACG
Found at i:15311186 original size:17 final size:17
Alignment explanation
Indices: 15311159--15311215 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
15311149 TTTAAATTTA
15311159 ATTTCTAATTTTCTGTAT
1 ATTT-TAATTTTCTGTAT
*
15311177 ATTTTAA-TTT-T-AAT
1 ATTTTAATTTTCTGTAT
*
15311191 -TTTTAATTTCCTGTAT
1 ATTTTAATTTTCTGTAT
*
15311207 ATTCTAATT
1 ATTTTAATT
15311216 ATTATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
13 6 0.19
14 4 0.13
15 2 0.06
16 5 0.16
17 10 0.32
18 4 0.13
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (17 bp):
ATTTTAATTTTCTGTAT
Found at i:15311215 original size:30 final size:30
Alignment explanation
Indices: 15311118--15311225 Score: 117
Period size: 30 Copynumber: 3.6 Consensus size: 30
15311108 TCCGTTTAAT
* * * * *
15311118 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAATTTTAATTTTTAATTTCCTGTATA
* * *
15311148 TTTTAAATTTAATTTCTAATTTTCTGTATA
1 TTTTAATTTTAATTTTTAATTTCCTGTATA
15311178 TTTTAATTTTAATTTTTAATTTCCTGTATA
1 TTTTAATTTTAATTTTTAATTTCCTGTATA
* *
15311208 TTCTAATTATTATTTTTT
1 TTTTAATT-TTAATTTTT
15311226 GAAAATTTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 59 0.88
31 8 0.12
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.64
Consensus pattern (30 bp):
TTTTAATTTTAATTTTTAATTTCCTGTATA
Found at i:15312225 original size:108 final size:110
Alignment explanation
Indices: 15312035--15312362 Score: 318
Period size: 108 Copynumber: 3.0 Consensus size: 110
15312025 CGACCATTGT
* * *
15312035 ATGGCTAACACTAAAAAATTTAATTTTTTTATCAGATGAATAGGGGGTGTCGACCATTGCATGCC
1 ATGGCCAACACTAAAAAAATTAATTTTTTTATCAGATAAATAGGGGGTGTCGACCATTGCATGCC
*
15312100 CAACATCAAAAAAATTTGAAA-TTTTTTATCTAACAAAAAGAGTA
66 CAACACCAAAAAAATTTGAAATTTTTTTATCTAACAAAAAGAGTA
* *
15312144 ATGGCCAACACTAAAAAAATT-ATTTTTTTATCAGATAAATAGTGGGTGTC-AGCCATTGCATGG
1 ATGGCCAACACTAAAAAAATTAATTTTTTTATCAGATAAATAGGGGGTGTCGA-CCATTGCATGC
* ** *
15312207 CCAATACCAAAAAAATTTGAAATTTTTTTATCTGAA-AAAGGGGTGTCACCCA
65 CCAACACCAAAAAAATTTGAAATTTTTTTATCT-AACAAA-AAGAGT-----A
* * * *
15312259 TTGCATGGGCAACA-TCAAAAAATTTAA-TTTTTTATCAG-TAAATA-GGGGTGTCGATCATGGC
1 ----ATGGCCAACACT-AAAAAAATTAATTTTTTTATCAGATAAATAGGGGGTGTCGACCATTGC
* *
15312320 ATGACCAACACCAAAAAAA-TT-AAA-TTTTTTATCTGACAAAAAG
61 ATGCCCAACACCAAAAAAATTTGAAATTTTTTTATCTAACAAAAAG
15312363 GAGTGTCGGC
Statistics
Matches: 182, Mismatches: 20, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
107 1 0.01
108 57 0.31
109 32 0.18
110 5 0.03
113 2 0.01
114 13 0.07
115 4 0.02
116 2 0.01
117 29 0.16
118 8 0.04
119 28 0.15
120 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (110 bp):
ATGGCCAACACTAAAAAAATTAATTTTTTTATCAGATAAATAGGGGGTGTCGACCATTGCATGCC
CAACACCAAAAAAATTTGAAATTTTTTTATCTAACAAAAAGAGTA
Found at i:15312421 original size:59 final size:57
Alignment explanation
Indices: 15312144--15312429 Score: 263
Period size: 59 Copynumber: 4.8 Consensus size: 57
15312134 AAAAAGAGTA
* * *
15312144 ATGGCCAACACTAAAAAAATTATTTTTTTATCAGATAAATAGTGGGTGTCAGCCATTGC
1 ATGGCCAACACCAAAAAATTTAATTTTTTATCAGATAAA-AG-GGGTGTCAGCCATTGC
* * *
15312203 ATGGCCAATACCAAAAAAATTTGAAATTTTTTTATCTGA-AAAAGGGGTGTCACCCATTGC
1 ATGGCCAACACC-AAAAAATTT--AA-TTTTTTATCAGATAAAAGGGGTGTCAGCCATTGC
* * * *
15312263 ATGGGCAACATCAAAAAATTTAATTTTTTATCAG-TAAATAGGGGTGTC-GATCATGGC
1 ATGGCCAACACCAAAAAATTTAATTTTTTATCAGATAAA-AGGGGTGTCAG-CCATTGC
* * * * * *
15312320 ATGACCAACACCAAAAAAATTAAATTTTTTATCTGACAAAAAGGAGTGTCGGCCATTGC
1 ATGGCCAACACC-AAAAAATTTAATTTTTTATCAGA-TAAAAGGGGTGTCAGCCATTGC
* * *
15312379 ATGGCCAACACCCAAAAATTTGATTTATTTATCAAATTAAAAGGGGGTGTC
1 ATGGCCAACACCAAAAAATTTAATTT-TTTATCAGA-TAAAA-GGGGTGTC
15312430 GATCATACAA
Statistics
Matches: 183, Mismatches: 31, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
56 13 0.07
57 25 0.14
58 31 0.17
59 54 0.30
60 43 0.23
61 2 0.01
62 4 0.02
63 11 0.06
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (57 bp):
ATGGCCAACACCAAAAAATTTAATTTTTTATCAGATAAAAGGGGTGTCAGCCATTGC
Found at i:15316065 original size:60 final size:59
Alignment explanation
Indices: 15315963--15316182 Score: 255
Period size: 60 Copynumber: 3.7 Consensus size: 59
15315953 TTGGTATTTG
* *
15315963 AACTTGATATTTTTTCTTAATTTAGTACCTAAAT-TTTTTTTGACCCAATTTGGTACCTA
1 AACTTGACATTTTTTCCTAATTTAGTACCT-AATCTTTTTTTGACCCAATTTGGTACCTA
* *
15316022 AACTTGACATTTTTTTCCTAATTTGGTACTTAATCTTTTTTTGACCCAATTTGGTACCTA
1 AACTTGACA-TTTTTTCCTAATTTAGTACCTAATCTTTTTTTGACCCAATTTGGTACCTA
* * * * ** * *
15316082 AATTTGTCATTTTTTCCGAATTT-GATACCTAAACTTTTTTTGGACCCAATTTAATACGTG
1 AACTTGACATTTTTTCCTAATTTAG-TACCTAATCTTTTTTT-GACCCAATTTGGTACCTA
* * *
15316142 AACTTGGCATTATTTCCTAATTTAGTACCTAAGCTTTTTTT
1 AACTTGACATTTTTTCCTAATTTAGTACCTAATCTTTTTTT
15316183 AAATTCAATT
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 38 0.28
60 98 0.71
61 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (59 bp):
AACTTGACATTTTTTCCTAATTTAGTACCTAATCTTTTTTTGACCCAATTTGGTACCTA
Found at i:15316203 original size:120 final size:119
Alignment explanation
Indices: 15315971--15316206 Score: 278
Period size: 119 Copynumber: 2.0 Consensus size: 119
15315961 TGAACTTGAT
** * ** *
15315971 ATTTTTTCTTAATTTAGTACCTAAATTTTTTTTGACCCAATTTGGTACCTAAACTTGACATTTTT
1 ATTTTTTCCGAATTTAGTACCTAAATTTTTTTGGACCCAATTTAATACCTAAACTTGACATTTAT
* * * * **
15316036 TTCCTAATTTGGTACTTAATCTTTTTTTGACCCAATTTGGTACCTAAATTTGTC
66 TTCCTAATTTAGTACCTAAGCTTTTTTTAACCCAATTTGACACCTAAATTTGTC
* * *
15316090 ATTTTTTCCGAATTT-GATACCTAAACTTTTTTTGGACCCAATTTAATACGTGAACTTGGCA-TT
1 ATTTTTTCCGAATTTAG-TACCTAAA-TTTTTTTGGACCCAATTTAATACCTAAACTTGACATTT
**
15316153 ATTTCCTAATTTAGTACCTAAGCTTTTTTTAAATTCAATTTGACACCTAAATTT
64 ATTTCCTAATTTAGTACCTAAGCTTTTTTT-AACCCAATTTGACACCTAAATTT
15316207 ATTAAATATT
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
118 1 0.01
119 49 0.51
120 47 0.48
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (119 bp):
ATTTTTTCCGAATTTAGTACCTAAATTTTTTTGGACCCAATTTAATACCTAAACTTGACATTTAT
TTCCTAATTTAGTACCTAAGCTTTTTTTAACCCAATTTGACACCTAAATTTGTC
Found at i:15316466 original size:31 final size:31
Alignment explanation
Indices: 15316431--15316538 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
15316421 AAAAAATGTA
* *
15316431 AAGTTTAAGCACCAAATTAGGAAAAAGTGCC
1 AAGTTTAAGTACCAAATTAGGAAAAAGTGAC
* * * *
15316462 AAGTTTGAGTATCAAATT-GGACAAAA--AAA
1 AAGTTTAAGTACCAAATTAGGA-AAAAGTGAC
* * *
15316491 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGGAAAAAGTGAC
*
15316522 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
15316539 ATTATATTAA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
29 19 0.33
30 5 0.09
31 34 0.59
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGGAAAAAGTGAC
Found at i:15318208 original size:25 final size:25
Alignment explanation
Indices: 15318180--15318267 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
15318170 CTGGCTTATG
* *
15318180 AGAGCGATATTCTGTTTGGCTCGTA
1 AGAGCAATATTCTGTCTGGCTCGTA
** *
15318205 AGAGTGATATTCTGTCTGGCTCGCA
1 AGAGCAATATTCTGTCTGGCTCGTA
* *
15318230 AGAACAATATTCTGTCTGACTCGTA
1 AGAGCAATATTCTGTCTGGCTCGTA
*
15318255 TGAGCAATATTCT
1 AGAGCAATATTCT
15318268 ATTTGGGCTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (25 bp):
AGAGCAATATTCTGTCTGGCTCGTA
Found at i:15320042 original size:27 final size:27
Alignment explanation
Indices: 15320012--15320063 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
15320002 ACTCGACCTG
* *
15320012 TTGATAGTTGATCGTTGATCATTGACT
1 TTGACAGTTAATCGTTGATCATTGACT
*
15320039 TTGACAGTTAATCGTTGATCGTTGA
1 TTGACAGTTAATCGTTGATCATTGA
15320064 TTGTTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (27 bp):
TTGACAGTTAATCGTTGATCATTGACT
Found at i:15323615 original size:26 final size:27
Alignment explanation
Indices: 15323567--15323621 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
15323557 TCAAATCTTG
*
15323567 AACTCAAAATTTGAACCCAAAATC-CA
1 AACTCAAAACTTGAACCCAAAATCGCA
* * *
15323593 AACTCAAAACTTGTACTCTAAATCGCA
1 AACTCAAAACTTGAACCCAAAATCGCA
15323620 AA
1 AA
15323622 TCTCGAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.22
Consensus pattern (27 bp):
AACTCAAAACTTGAACCCAAAATCGCA
Found at i:15329563 original size:23 final size:24
Alignment explanation
Indices: 15329507--15329570 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
15329497 TCATTAACAT
* *
15329507 TGTTTGTGAATATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* *
15329531 TGTTCATGAACATGTTCATTTA-A
1 TGTTCGTGAACATGTTCAATTATA
15329554 TGTTCGTGAACATGTTC
1 TGTTCGTGAACATGTTC
15329571 GATCAAGGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 17 0.49
24 18 0.51
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:15332838 original size:28 final size:27
Alignment explanation
Indices: 15332806--15332895 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
15332796 CCTAAACCTA
* *
15332806 AAACCATAAACCTTAAATTTAAAATCTC
1 AAACC-TAAACCTTAAATATAAAATCCC
**
15332834 AAACCCTAAACCCAAAATATAAAATCCC
1 AAA-CCTAAACCTTAAATATAAAATCCC
* * *
15332862 AAATCCTAAACCTTAAACAT-AGACCCC
1 AAA-CCTAAACCTTAAATATAAAATCCC
15332889 AAACCTA
1 AAACCTA
15332896 TAACATCATA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
26 4 0.08
27 8 0.16
28 37 0.73
29 2 0.04
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (27 bp):
AAACCTAAACCTTAAATATAAAATCCC
Found at i:15338277 original size:2 final size:2
Alignment explanation
Indices: 15338270--15338317 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
15338260 ATAAAAACAT
15338270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15338312 TA TA TA
1 TA TA TA
15338318 AAATCGACTA
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):
TA
Found at i:15354151 original size:26 final size:25
Alignment explanation
Indices: 15354089--15354152 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
15354079 ATAGAGTATC
*
15354089 AATA-AAATTAAA-AATCATAAAAT
1 AATACAAATTAAATAATAATAAAAT
* * *
15354112 AACACATAAATAAATAATAATAAATT
1 AATACA-AATTAAATAATAATAAAAT
15354138 AAATACAAATTAAAT
1 -AATACAAATTAAAT
15354153 GTTAGTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.10
24 1 0.03
25 6 0.19
26 16 0.52
27 5 0.16
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (25 bp):
AATACAAATTAAATAATAATAAAAT
Found at i:15354369 original size:11 final size:11
Alignment explanation
Indices: 15354353--15354383 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15354343 CAAACATGAG
15354353 TAACAAATAAA
1 TAACAAATAAA
15354364 TAACAAATAAA
1 TAACAAATAAA
15354375 -AACAAATAA
1 TAACAAATAA
15354384 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (11 bp):
TAACAAATAAA
Found at i:15355574 original size:3 final size:3
Alignment explanation
Indices: 15355566--15355593 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15355556 TTAAAAAATA
15355566 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15355594 GGAGTTCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15358490 original size:81 final size:81
Alignment explanation
Indices: 15358238--15358515 Score: 237
Period size: 81 Copynumber: 3.4 Consensus size: 81
15358228 TCCCGCTGTT
* * * * *
15358238 TTAATATATTTTATTCTAT-TTTGATTTTATTTCCAAA-ACGAGAATAAATTGAATAAACCTGTT
1 TTAATAGATTTTATTCTATATTTGATTTTGTTTCCAAATAC-A-AATAAGTTGAATAAATCTATT
*
15358301 TCGGGATTTATTCCAGCCG
64 TC-GGATTTATTCCTGCCG
* * * * * * *
15358320 TTGAACAAATTTTATTCTATATTTCGATTTTGATTCCAAATTATAATTAAG-TAAATAAAATTTG
1 TT-AATAGATTTTATTCTATATTT-GATTTTGTTTCCAAA-TACAAATAAGTTGAAT-AAATCT-
*
15358384 ACTT-GGATTTATT-CTCGCCG
61 ATTTCGGATTTATTCCT-GCCG
*
15358404 TTTAATAGATTTTATTCCA-ATTTGATTTTGTTTCCAAATA-AAATAAGTTGAATAAATCTATTT
1 -TTAATAGATTTTATTCTATATTTGATTTTGTTTCCAAATACAAATAAGTTGAATAAATCTATTT
*
15358467 CAGGATTAATTCCTGCCG
65 C-GGATTTATTCCTGCCG
*
15358485 ATTAATAGATTATATTCTATATTTGAATTTT
1 -TTAATAGATTTTATTCTATATTTG-ATTTT
15358516 ATAATAATTA
Statistics
Matches: 156, Mismatches: 25, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
79 3 0.02
80 11 0.07
81 34 0.22
82 23 0.15
83 25 0.16
84 33 0.21
85 23 0.15
86 3 0.02
87 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (81 bp):
TTAATAGATTTTATTCTATATTTGATTTTGTTTCCAAATACAAATAAGTTGAATAAATCTATTTC
GGATTTATTCCTGCCG
Found at i:15364253 original size:30 final size:29
Alignment explanation
Indices: 15364217--15364488 Score: 222
Period size: 29 Copynumber: 9.3 Consensus size: 29
15364207 AATCATATTT
* * *
15364217 TAAACTTCTTAAAAATTACATTTTGATCTC
1 TAAACTTCTCAAAAATCACATTTT-ATCCC
*
15364247 TAAACTTCTCAAAAAAT-ACATTTTAACCC
1 TAAACTTCTC-AAAAATCACATTTTATCCC
15364276 TCAAACTTC-CAAAAATCACATCTTTA-CCC
1 T-AAACTTCTCAAAAATCACAT-TTTATCCC
*
15364305 TCGAACTTCTCAAAAATCACATTTTTATCCC
1 T-AAACTTCTCAAAAATCACA-TTTTATCCC
* * * *
15364336 TACACTTC-AAAAAAACACATTTTACCCC
1 TAAACTTCTCAAAAATCACATTTTATCCC
* * *
15364364 TGAACTT-TTAAAAATCACTTTTTTATCCC
1 TAAACTTCTCAAAAATCAC-ATTTTATCCC
15364393 TAAACTTC-CAAAAATCACATTTT-TACCC
1 TAAACTTCTCAAAAATCACATTTTAT-CCC
* * *
15364421 TTGACCTT-TCACAAAATCACATTTTACCCC
1 -TAAACTTCTCA-AAAATCACATTTTATCCC
*
15364451 TAAACTT-TCTAAAAATCACATTTTACCCC
1 TAAACTTCTC-AAAAATCACATTTTATCCC
*
15364480 CAAA-TTCTC
1 TAAACTTCTC
15364489 TATTTTTGAC
Statistics
Matches: 201, Mismatches: 24, Indels: 35
0.77 0.09 0.13
Matches are distributed among these distances:
27 1 0.00
28 36 0.18
29 89 0.44
30 64 0.32
31 11 0.05
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
TAAACTTCTCAAAAATCACATTTTATCCC
Found at i:15364313 original size:59 final size:57
Alignment explanation
Indices: 15364249--15364478 Score: 252
Period size: 58 Copynumber: 3.9 Consensus size: 57
15364239 TTGATCTCTA
*
15364249 AACTTCTCAAAAAAT-ACATTTTAACCCTCAAACTTCCAAAAATCACATCTTTACCCTCG
1 AACTT-TCAAAAAATCACATTTTATCCCT-AAACTTCCAAAAATCACAT-TTTACCCTCG
* * *
15364308 AACTTCTC-AAAAATCACATTTTTATCCCTACACTTCAAAAAAACACATTTTACCC-CTG
1 AACTT-TCAAAAAATCACA-TTTTATCCCTAAACTTCCAAAAATCACATTTTACCCTC-G
* * *
15364366 AACTTT-TAAAAATCACTTTTTTATCCCTAAACTTCCAAAAATCACATTTTTACCCTTG
1 AACTTTCAAAAAATCAC-ATTTTATCCCTAAACTTCCAAAAATCACA-TTTTACCCTCG
* * * *
15364424 ACCTTTCACAAAATCACATTTTACCCCTAAACTTTCTAAAAATCACATTTTACCC
1 AACTTTCAAAAAATCACATTTTATCCCTAAAC-TTCCAAAAATCACATTTTACCC
15364479 CCAAATTCTC
Statistics
Matches: 147, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
57 36 0.24
58 54 0.37
59 48 0.33
60 9 0.06
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (57 bp):
AACTTTCAAAAAATCACATTTTATCCCTAAACTTCCAAAAATCACATTTTACCCTCG
Found at i:15364404 original size:116 final size:117
Alignment explanation
Indices: 15364267--15364479 Score: 315
Period size: 116 Copynumber: 1.8 Consensus size: 117
15364257 AAAAAATACA
15364267 TTTTAACCCTCAAACTTCCAAAAATCACATCTTTACCCTCGAACTTCTCA-AAAATCACATTTTT
1 TTTTAACCCTCAAACTTCCAAAAATCACATCTTTACCCTCGAACTT-TCACAAAATCACA-TTTT
* *
15364331 ATCCCTACAC-TTCAAAAAAACACATTTTACCCCTGAACTTTTAAAAATCACTT
64 ACCCCTAAACTTTCAAAAAAACACATTTTACCCCTGAACTTTTAAAAATCACTT
* * * *
15364384 TTTTATCCCT-AAACTTCCAAAAATCACATTTTTACCCTTGACCTTTCACAAAATCACATTTTAC
1 TTTTAACCCTCAAACTTCCAAAAATCACATCTTTACCCTCGAACTTTCACAAAATCACATTTTAC
* *
15364448 CCCTAAACTTTCTAAAAATCACATTTTACCCC
66 CCCTAAACTTTCAAAAAAACACATTTTACCCC
15364480 CAAATTCTCT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 15 0.17
116 62 0.72
117 9 0.10
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.34
Consensus pattern (117 bp):
TTTTAACCCTCAAACTTCCAAAAATCACATCTTTACCCTCGAACTTTCACAAAATCACATTTTAC
CCCTAAACTTTCAAAAAAACACATTTTACCCCTGAACTTTTAAAAATCACTT
Found at i:15364442 original size:87 final size:87
Alignment explanation
Indices: 15364218--15364488 Score: 286
Period size: 87 Copynumber: 3.1 Consensus size: 87
15364208 ATCATATTTT
* * * * * *
15364218 AAACTTCTTAAAAATTACATTTTGATCTCTAAACTTCTCAAAAAAT-ACATTTTAACCCTCAAAC
1 AAACTTCTCAAAAATCACATTTTTATCCCTACAC-T-TCAAAAAATCACATTTTACCCCT-AAAC
** *
15364282 TTCCAAAAATCACATCTTTACCCTC
63 TTTTAAAAATCACATTTTTACCCTC
* * *
15364307 GAACTTCTCAAAAATCACATTTTTATCCCTACACTTCAAAAAAACACATTTTACCCCTGAACTTT
1 AAACTTCTCAAAAATCACATTTTTATCCCTACACTTCAAAAAATCACATTTTACCCCTAAACTTT
*
15364372 TAAAAATCACTTTTTTATCCCT-
66 TAAAAATCACATTTTTA-CCCTC
*
15364394 AAACTTC-CAAAAATCACATTTTTA-CCCTTGAC-CTTTCACAAAATCACATTTTACCCCTAAAC
1 AAACTTCTCAAAAATCACATTTTTATCCC-T-ACAC-TTCAAAAAATCACATTTTACCCCTAAAC
*
15364456 TTTCTAAAAATCACA-TTTTACCCCC
63 TTT-TAAAAATCACATTTTTACCCTC
15364481 AAA-TTCTC
1 AAACTTCTC
15364489 TATTTTTGAC
Statistics
Matches: 155, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
85 3 0.02
86 25 0.16
87 72 0.46
88 27 0.17
89 28 0.18
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (87 bp):
AAACTTCTCAAAAATCACATTTTTATCCCTACACTTCAAAAAATCACATTTTACCCCTAAACTTT
TAAAAATCACATTTTTACCCTC
Found at i:15365767 original size:18 final size:20
Alignment explanation
Indices: 15365736--15365781 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15365726 TGTATCGATG
15365736 TTTTTGCTGACTC-TTTCTT
1 TTTTTGCTGACTCTTTTCTT
*
15365755 TTTTTG-TGTCTCTTTTCTT
1 TTTTTGCTGACTCTTTTCTT
15365774 TTGTTTGC
1 TT-TTTGC
15365782 ATTTGCATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.22
19 14 0.61
20 4 0.17
ACGTcount: A:0.02, C:0.17, G:0.13, T:0.67
Consensus pattern (20 bp):
TTTTTGCTGACTCTTTTCTT
Found at i:15367677 original size:50 final size:50
Alignment explanation
Indices: 15367609--15368155 Score: 337
Period size: 50 Copynumber: 11.0 Consensus size: 50
15367599 TTTGACAGGG
* * * *
15367609 AAGGATTGAGGCTGCAACGACGAATCTGGTACCTTAAAAGATGTGATGAGA
1 AAGG-TTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATGTGATGGGA
* *
15367660 AAGGTTGAGGCCACAACGGCGAACCCGGTACC-TAAGAAGATGTGATGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAA-AAGATGTGATGGGA
** * * * *
15367710 AAGGTTGAGATCGCAACGACAAACCCAGTACCAT-AAAGA-GATGAAGGG-
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATG-TGATGGGA
* * * * *
15367758 AAGGATTGAGGCTGCAATGGCGAATCCGGTACCTTAAAAGATGTGATAGGA
1 AAGG-TTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATGTGATGGGA
* * *
15367809 AAGGTTAAGGCCGCAAC-AGCGAACCCGATACC-TAAGA-ATGTGATGGGA
1 AAGGTTGAGGCCGCAACGA-CGAACCCGGTACCTTAAAAGATGTGATGGGA
* ** * * * *
15367857 AAGATTGAGGCTACAACGACGAACTCGATACCTTAGAAGATGCGATGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATGTGATGGGA
** ** * * * *
15367907 AAGGTTGAGGCCGCAACGGTGAACCCGAAACC--ACGAAGATATAAAGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTA-AAAGATGTGATGGGA
* * *** *** * * ** *
15367956 AAGATTGAGGCCGCGACGGTAAATTTGGTACCAT-GAAGATACGAAGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATGTGATGGGA
* * * * *
15368005 AAGGTTGAGGTCGCAACGGCGAACCTGATACC-TAAGAAGATGCGATGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAA-AAGATGTGATGGGA
** ** * ** * *
15368055 AAGGTTGAGGCCGCAACGGTGAATTCGGTACC--ACAGAGACATAAAGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTA-AAAGATGTGATGGGA
* * * *
15368104 AAGGTTGAGGCCGTAACGACGAACCCGGTACCTTAGAAGATGCGACGGGA
1 AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATGTGATGGGA
15368154 AA
1 AA
15368156 AGATTGAAGC
Statistics
Matches: 381, Mismatches: 96, Indels: 39
0.74 0.19 0.08
Matches are distributed among these distances:
48 42 0.11
49 150 0.39
50 178 0.47
51 11 0.03
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (50 bp):
AAGGTTGAGGCCGCAACGACGAACCCGGTACCTTAAAAGATGTGATGGGA
Found at i:15367908 original size:98 final size:100
Alignment explanation
Indices: 15367609--15368170 Score: 419
Period size: 99 Copynumber: 5.7 Consensus size: 100
15367599 TTTGACAGGG
* * * * * * *
15367609 AAGGATTGAGGCTGCAACGACGAATCTGGTACCTTAA-AAGATGTGATGAGAAAGGTTGAGGCCA
1 AAGG-TTGAGGCCGCAACGGCGAACCCGATACC-TAAGAAGATGTGATGGGAAAGATTGAGGCCA
* * *
15367673 CAACGGCGAACCCGGTACCTAAGAAGATGTGATGGGA
64 CAACGGCGAACTCGGTACCTTAGAAGATGCGATGGGA
** * * * * *
15367710 AAGGTTGAGATCGCAACGACAAACCC-AGTACC-ATA-AAGA-GATGAAGGGAAGGATTGAGGCT
1 AAGGTTGAGGCCGCAACGGCGAACCCGA-TACCTA-AGAAGATG-TGATGGGAAAGATTGAGGCC
* * * * *
15367771 GCAATGGCGAA-TCCGGTACCTTAAAAGATGTGATAGGA
63 ACAACGGCGAACT-CGGTACCTTAGAAGATGCGATGGGA
* * *
15367809 AAGGTTAAGGCCGCAACAGCGAACCCGATACCTAAG-A-ATGTGATGGGAAAGATTGAGGCTACA
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGATTGAGGCCACA
* *
15367872 ACGACGAACTCGATACCTTAGAAGATGCGATGGGA
66 ACGGCGAACTCGGTACCTTAGAAGATGCGATGGGA
* * * * * * * *
15367907 AAGGTTGAGGCCGCAACGGTGAACCCGAAACC-ACGAAGATATAAAGGGAAAGATTGAGGCCGCG
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGATTGAGGCCACA
** * * * * *
15367971 ACGGTAAATTTGGTACCAT-GAAGATACGAAGGGA
66 ACGGCGAACTCGGTACCTTAGAAGATGCGATGGGA
* * * * *
15368005 AAGGTTGAGGTCGCAACGGCGAACCTGATACCTAAGAAGATGCGATGGGAAAGGTTGAGGCCGCA
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGATTGAGGCCACA
* * ** * * *
15368070 ACGGTGAATTCGGTACCACAGAGACAT--AAAGGGA
66 ACGGCGAACTCGGTACCTTAGA-AGATGCGATGGGA
* * * * * * *
15368104 AAGGTTGAGGCCGTAACGACGAACCCGGTACCTTAGAAGATGCGACGGGAAAAGATTGAAGCCAC
1 AAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGG-AAAGATTGAGGCCAC
15368169 AA
65 AA
15368171 TGACGAATCT
Statistics
Matches: 367, Mismatches: 79, Indels: 31
0.77 0.17 0.06
Matches are distributed among these distances:
97 2 0.01
98 120 0.33
99 200 0.54
100 38 0.10
101 7 0.02
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (100 bp):
AAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGATTGAGGCCACA
ACGGCGAACTCGGTACCTTAGAAGATGCGATGGGA
Found at i:15367964 original size:49 final size:49
Alignment explanation
Indices: 15367903--15368135 Score: 198
Period size: 49 Copynumber: 4.7 Consensus size: 49
15367893 AAGATGCGAT
* *
15367903 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGAAACCACGAAGATATAAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCACGAAGATACAAA
* * * *** * * *
15367952 GGGAAAGATTGAGGCCGCGACGGTAAATTTGGTACCATGAAGATACGAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCACGAAGATACAAA
* * * * * * *
15368001 GGGAAAGGTTGAGGTCGCAACGGCGAACCTGATACCTAAGAAGATGCGAT
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACC-ACGAAGATACAAA
** * * *
15368051 GGGAAAGGTTGAGGCCGCAACGGTGAATTCGGTACCAC-AGAGACATAAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCACGA-AGATACAAA
* ** *
15368100 GGGAAAGGTTGAGGCCGTAACGACGAACCCGGTACC
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACC
15368136 TTAGAAGATG
Statistics
Matches: 143, Mismatches: 39, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
48 1 0.01
49 102 0.71
50 40 0.28
ACGTcount: A:0.34, C:0.19, G:0.33, T:0.14
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCACGAAGATACAAA
Found at i:15368134 original size:148 final size:147
Alignment explanation
Indices: 15367806--15368177 Score: 385
Period size: 148 Copynumber: 2.5 Consensus size: 147
15367796 AGATGTGATA
* * * *
15367806 GGAAAGGTTAAGGCCGCAAC-AGCGAACCCGATACCT-AAGAATGTGATGGGAAAGATTGAGGCT
1 GGAAAGGTTGAGGCCGCAACGA-CGAACCCGGTACCTGAAG-ATGCGAAGGGAAAGATTGAGGCT
*
15367869 ACAACGACGAACTCGATACCTTAGAAGATGCGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
64 ACAACGACGAACTCGATACCTAAGAAGATGCGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
*
15367934 AAACCACGAAGATATAAAG
129 AAACCACGAAGACATAAAG
* * *** *** * *
15367953 GGAAAGATTGAGGCCGCGACGGTAAATTTGGTACCATGAAGATACGAAGGGAAAGGTTGAGG-TC
1 GGAAAGGTTGAGGCCGCAACGACGAACCCGGTACC-TGAAGATGCGAAGGGAAAGATTGAGGCT-
* * **
15368017 GCAACGGCGAAC-CTGATACCTAAGAAGATGCGATGGGAAAGGTTGAGGCCGCAACGGTGAATTC
64 ACAACGACGAACTC-GATACCTAAGAAGATGCGATGGGAAAGGTTGAGGCCGCAACGGTGAACCC
**
15368081 GGTACCAC-AGAGACATAAAG
128 GAAACCACGA-AGACATAAAG
* * *
15368101 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCTTAGAAGATGCGACGGGAAAAGATTGAAGC
1 GGAAAGGTTGAGGCCGCAACGACGAACCCGGTACC-T-GAAGATGCGAAGGG-AAAGATTGAGGC
* *
15368166 CACAATGACGAA
63 TACAACGACGAA
15368178 TCTTATACCT
Statistics
Matches: 176, Mismatches: 40, Indels: 15
0.76 0.17 0.06
Matches are distributed among these distances:
147 27 0.15
148 117 0.66
149 15 0.09
150 17 0.10
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (147 bp):
GGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCTGAAGATGCGAAGGGAAAGATTGAGGCTAC
AACGACGAACTCGATACCTAAGAAGATGCGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGAA
ACCACGAAGACATAAAG
Found at i:15369202 original size:3 final size:3
Alignment explanation
Indices: 15369194--15369240 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15369184 TTGAAACGTA
15369194 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15369241 AGGGAAGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15370431 original size:87 final size:86
Alignment explanation
Indices: 15370340--15370565 Score: 251
Period size: 87 Copynumber: 2.6 Consensus size: 86
15370330 TCGAACTTCT
* * * *
15370340 AAAAATCACATTTTACCCCCGAACTTCTC-AAAAATTACAATTTACTCTCGAACTTCTCAAAAAT
1 AAAAATCACATTTTACCCCCGAACTT-TCAAAAAATCACATTTTACCCTCAAACTT-TCAAAAAT
* * **
15370404 TACATTTTTGGCCCCAATTTTCC-
64 CACATTTTT-ACCCCAAACTTCCA
* *
15370427 AAAAATCACATTTTGA-CCCCTAAATTTCAAAAAATCACATTTTACCCTCAAACTTTCAAAAATC
1 AAAAATCACATTTT-ACCCCCGAACTTTCAAAAAATCACATTTTACCCTCAAACTTTCAAAAATC
15370491 ACATTTTTACCCCAAACTTCCA
65 ACATTTTTACCCCAAACTTCCA
* ** * *
15370513 AAAAATTACATTTTTACCCTTGAACTTTCTAAAAATCACATTTTACCCCCAAA
1 AAAAATCACA-TTTTACCCCCGAACTTTCAAAAAATCACATTTTACCCTCAAA
15370566 TTCTCCAAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
85 10 0.09
86 28 0.24
87 78 0.67
88 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (86 bp):
AAAAATCACATTTTACCCCCGAACTTTCAAAAAATCACATTTTACCCTCAAACTTTCAAAAATCA
CATTTTTACCCCAAACTTCCA
Found at i:15370517 original size:58 final size:57
Alignment explanation
Indices: 15370340--15370575 Score: 214
Period size: 58 Copynumber: 4.1 Consensus size: 57
15370330 TCGAACTTCT
* * * * *
15370340 AAAAATCACA-TTTTACCCCCGAACTTCTCAAAAATTACAATTTACTCTCGAACTTCTC-
1 AAAAATCACATTTTTACCCTCGAACTT-TCAAAAATCACATTTTAC-CCCAAACTTC-CA
* * * *
15370398 AAAAATTACATTTTTGGCCC-C-AATTTTCCAAAAATCACATTTTGACCCCTAAA-TTTCA
1 AAAAATCACATTTTT-ACCCTCGAACTTT-CAAAAATCACATTTT-ACCCC-AAACTTCCA
*
15370456 AAAAATCACA-TTTTACCCTCAAACTTTCAAAAATCACATTTTTACCCCAAACTTCCA
1 AAAAATCACATTTTTACCCTCGAACTTTCAAAAATCACA-TTTTACCCCAAACTTCCA
* * *
15370513 AAAAATTACATTTTTACCCTTGAACTTTCTAAAAATCACATTTTACCCCCAAATTCTCCA
1 AAAAATCACATTTTTACCCTCGAACTTTC-AAAAATCACATTTTA-CCCCAAACT-TCCA
15370573 AAA
1 AAA
15370576 CTCCGTTTTT
Statistics
Matches: 148, Mismatches: 16, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
56 6 0.04
57 36 0.24
58 69 0.47
59 27 0.18
60 10 0.07
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (57 bp):
AAAAATCACATTTTTACCCTCGAACTTTCAAAAATCACATTTTACCCCAAACTTCCA
Found at i:15370560 original size:29 final size:29
Alignment explanation
Indices: 15370253--15370565 Score: 191
Period size: 29 Copynumber: 10.7 Consensus size: 29
15370243 AACTTTTGAT
* * *
15370253 AAATCATATTTTGACCCTTAAACTTT-TCCA
1 AAATCACATTTT-ACCCTCAAACTTTCT-AA
**
15370283 AAATTGCATTTTAACCC-CTAAACTTCTCT-A
1 AAATCACATTTT-ACCCTC-AAACTT-TCTAA
* * *
15370313 AAATTACATTTTAACTCTCGAAC-TTCTAA
1 AAATCACATTTT-ACCCTCAAACTTTCTAA
* *
15370342 AAATCACATTTTACCCCCGAAC-TTCTCAA
1 AAATCACATTTTACCCTCAAACTTTCT-AA
* * * *
15370371 AAATTACAATTTACTCTCGAAC-TTCTCAA
1 AAATCACATTTTACCCTCAAACTTTCT-AA
* * * *
15370400 AAATTACATTTTTGGCCC-C-AATTTTCCAA
1 AAATCACA-TTTT-ACCCTCAAACTTTCTAA
*
15370429 AAATCACATTTTGACCC-CTAAA-TTTCAAA
1 AAATCACATTTT-ACCCTC-AAACTTTCTAA
15370458 AAATCACATTTTACCCTCAAACTTTC-AA
1 AAATCACATTTTACCCTCAAACTTTCTAA
* *
15370486 AAATCACATTTTTACCC-CAAACTTCCAAA
1 AAATCACA-TTTTACCCTCAAACTTTCTAA
* **
15370515 AAATTACATTTTTACCCTTGAACTTTCTAA
1 AAATCACA-TTTTACCCTCAAACTTTCTAA
*
15370545 AAATCACATTTTACCCCCAAA
1 AAATCACATTTTACCCTCAAA
15370566 TTCTCCAAAA
Statistics
Matches: 234, Mismatches: 33, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
28 49 0.21
29 118 0.50
30 62 0.26
31 4 0.02
32 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATCACATTTTACCCTCAAACTTTCTAA
Found at i:15371740 original size:13 final size:14
Alignment explanation
Indices: 15371724--15371769 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
15371714 AACCAATTAA
15371724 TAAAATATAT-AAT
1 TAAAATATATAAAT
*
15371737 TAAATTATATCAAAT
1 TAAAATATAT-AAAT
15371752 TAAAATAT-TAAGAT
1 TAAAATATATAA-AT
15371766 TAAA
1 TAAA
15371770 TCTTGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 11 0.39
14 7 0.25
15 10 0.36
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATATATAAAT
Found at i:15373206 original size:9 final size:9
Alignment explanation
Indices: 15373190--15373219 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15373180 TATTTTTACT
15373190 AATTTAAAA
1 AATTTAAAA
*
15373199 ATTTTAAAA
1 AATTTAAAA
15373208 AATTTAAAA
1 AATTTAAAA
15373217 AAT
1 AAT
15373220 CAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTTAAAA
Found at i:15386487 original size:30 final size:29
Alignment explanation
Indices: 15386412--15386499 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 29
15386402 GTAATTATGC
* *
15386412 ACATAAAATTTGAATTGTGGTGCAATTGTAT
1 ACATAAACTTTG-ATT-TGGTGCAATTTTAT
*
15386443 ACATAAACTTTGATTTTGTGCAATTTTAT
1 ACATAAACTTTGATTTGGTGCAATTTTAT
* * *
15386472 GCATGAAATTTTGATTTGGTTCAATTTT
1 ACAT-AAACTTTGATTTGGTGCAATTTT
15386500 TTAAAATTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 15 0.31
30 23 0.47
31 11 0.22
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (29 bp):
ACATAAACTTTGATTTGGTGCAATTTTAT
Found at i:15392131 original size:19 final size:20
Alignment explanation
Indices: 15392109--15392154 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
15392099 TAAAAGTAAG
*
15392109 AATATATTT-AAAAACCTAT
1 AATATATTTGAAAAACATAT
*
15392128 AATAT-TTTGAAATACATAT
1 AATATATTTGAAAAACATAT
15392147 ATATATAT
1 A-ATATAT
15392155 ATATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 4 0.18
21 1 0.05
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (20 bp):
AATATATTTGAAAAACATAT
Found at i:15400269 original size:19 final size:20
Alignment explanation
Indices: 15400247--15400292 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
15400237 TAAAAGTAAG
*
15400247 AATATATTT-AAAAACCTAT
1 AATATATTTGAAAAACATAT
*
15400266 AATAT-TTTGAAATACATAT
1 AATATATTTGAAAAACATAT
15400285 ATATATAT
1 A-ATATAT
15400293 ATATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 4 0.18
21 1 0.05
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (20 bp):
AATATATTTGAAAAACATAT
Found at i:15410931 original size:45 final size:46
Alignment explanation
Indices: 15410801--15411136 Score: 368
Period size: 45 Copynumber: 7.5 Consensus size: 46
15410791 CCTTTCTAGA
* * *
15410801 TTAGGGGTAAAAGATTGGA---TGGCTTTAATCTGCCCTTTTTGAC
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
* *
15410844 TTAGGGGTAAAAGATTGGATGGT--CTTCAATCTTCCTCTCTTGA-
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
* *
15410887 TCAGGGGTAAACGATTGGATGGTGGCTTCAATCTGCCCCTCTTGA-
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
* * * *
15410932 TTAGGGGTAAAAGATTGGATGATGGTTTCAATTTGCCCCTCTTAAC
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
* * * * * *
15410978 TTAGGGGCAAAAGATTGAATGGT--TTTTAATATGCTCCTCTTGAC
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
*
15411022 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGGCCCTCTTGA-
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
* * * * * *
15411067 TTAAGGGTAAAAAATTAGATGATGGCTTCAGTCTGCCCCTTTTGAC
1 TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
* *
15411113 TTAGGCGTAAAAGATTAGATGGTG
1 TTAGGGGTAAAAGATTGGATGGTG
15411137 ATGTAACTTC
Statistics
Matches: 244, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
43 40 0.16
44 53 0.22
45 95 0.39
46 56 0.23
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (46 bp):
TTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTGAC
Found at i:15411034 original size:44 final size:43
Alignment explanation
Indices: 15410614--15411135 Score: 331
Period size: 42 Copynumber: 12.0 Consensus size: 43
15410604 GTGTGTGTGA
* * * *
15410614 CTTCAATCTACCC-CTCTGAATT-GGGTGTAAAAGACTGGAT-GA
1 CTTCAATCTGCCCTCT-TGACTTAGGG-GTAAAAGATTGGATGGT
** * * * *
15410656 CTTTTATCTGCCC-CTCTGAATTAAGGGTAAAAGACTAGATGG-
1 CTTCAATCTGCCCTCT-TGACTTAGGGGTAAAAGATTGGATGGT
* * * *
15410698 CTTTAATCTGCCTCTCTAGA-TTAGAGGTAAAAGACTGGATGG-
1 CTTCAATCTGCC-CTCTTGACTTAGGGGTAAAAGATTGGATGGT
* * ** * * * *
15410740 CTTCAATCTGCCTCTCTGGA-TTAAGGGTTTAGGGTT-TATAG-
1 CTTCAATCTGCC-CTCTTGACTTAGGGGTAAAAGATTGGATGGT
* * *
15410781 CTTTAATCTGCCTTTCTAGA-TTAGGGGTAAAAGATTGGATGG-
1 CTTCAATCTGCC-CTCTTGACTTAGGGGTAAAAGATTGGATGGT
* *
15410823 CTTTAATCTGCCCTTTTTGACTTAGGGGTAAAAGATTGGATGGT
1 CTTCAATCTGCCC-TCTTGACTTAGGGGTAAAAGATTGGATGGT
* * *
15410867 CTTCAATCTTCCTCTCTTGA-TCAGGGGTAAACGATTGGATGGT
1 CTTCAATCTGCC-CTCTTGACTTAGGGGTAAAAGATTGGATGGT
15410910 GGCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTGGATGATGGT
1 --CTTCAATCTG-CCCTCTTGACTTAGGGGTAAAAGATT-G--GATGGT
* * * *
15410958 -TTCAATTTGCCCCTCTTAACTTAGGGGCAAAAGATTGAATGGT
1 CTTCAATCTG-CCCTCTTGACTTAGGGGTAAAAGATTGGATGGT
* * *
15411001 TTTTAATATGCTCCTCTTGACTTAGGGGTAAAAGATTGGATGGT
1 CTTCAATCTGC-CCTCTTGACTTAGGGGTAAAAGATTGGATGGT
* *
15411045 GGCTTCAATCTGGCCCTCTTGA-TTAAGGGTAAAAAATTAGATGATGG-
1 --CTTCAATCT-GCCCTCTTGACTTAGGGGTAAAAGATT-G--GATGGT
* * * *
15411092 CTTCAGTCTGCCCCTTTTGACTTAGGCGTAAAAGATTAGATGGT
1 CTTCAATCTG-CCCTCTTGACTTAGGGGTAAAAGATTGGATGGT
15411136 GATGTAACTT
Statistics
Matches: 391, Mismatches: 62, Indels: 52
0.77 0.12 0.10
Matches are distributed among these distances:
41 31 0.08
42 108 0.28
43 60 0.15
44 54 0.14
45 79 0.20
46 46 0.12
47 2 0.01
48 11 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
CTTCAATCTGCCCTCTTGACTTAGGGGTAAAAGATTGGATGGT
Found at i:15411065 original size:135 final size:134
Alignment explanation
Indices: 15410780--15411128 Score: 436
Period size: 135 Copynumber: 2.6 Consensus size: 134
15410770 AGGGTTTATA
* ** * * *
15410780 GCTTTAATCTGCCTTTCTAGATTAGGGGTAAAAGATTGGATG--GCTTT-AATCTGCCCTTTTTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGATGGTTTCAATCTGCCCCTTTTG
* * * *
15410842 ACTTAGGGGTAAAAGATTGGATGGTCTTCAATCTTCCTCTCTTGATCAGGGGTAAACGATTGGAT
66 ACTTAGGGGTAAAAGATTGAATGGTCTTCAATATGCCTCTCTTGATCAGGGGTAAAAGATTGGAT
15410907 GGTG
131 GGTG
* * *
15410911 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGATGGTTTCAATTTGCCCCTCTTA
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGATGGTTTCAATCTGCCCCTTTTG
* * * *
15410976 ACTTAGGGGCAAAAGATTGAATGGTTTTTAATATG-CTCCTCTTGACTTAGGGGTAAAAGATTGG
66 ACTTAGGGGTAAAAGATTGAATGGTCTTCAATATGCCT-CTCTTGA-TCAGGGGTAAAAGATTGG
15411040 ATGGTG
129 ATGGTG
* * * * * *
15411046 GCTTCAATCTGGCCCTCTTGATTAAGGGTAAAAAATTAGATGATGGCTTCAGTCTGCCCCTTTTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGATGGTTTCAATCTGCCCCTTTTG
*
15411111 ACTTAGGCGTAAAAGATT
66 ACTTAGGGGTAAAAGATT
15411129 AGATGGTGAT
Statistics
Matches: 185, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
131 38 0.21
133 6 0.03
134 47 0.25
135 94 0.51
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (134 bp):
GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGATGGTTTCAATCTGCCCCTTTTG
ACTTAGGGGTAAAAGATTGAATGGTCTTCAATATGCCTCTCTTGATCAGGGGTAAAAGATTGGAT
GGTG
Found at i:15411493 original size:95 final size:95
Alignment explanation
Indices: 15411244--15411669 Score: 254
Period size: 95 Copynumber: 4.5 Consensus size: 95
15411234 TGCTTCACTT
* * ** * * *
15411244 CACTCCACTGTAACCTCAAGAACGTTGAGCTCTGCTTCATTATTTTCATCTGAC-CCACAGCAAC
1 CACTCCACTGTAACCTCAAGGACGTTGAGTTCTGCTTCATTATTTTCATCCCACTCCACTGTACC
* ** * *
15411308 T---TAGGGGTATAGGATTCTAGGACTTCACTC
66 TCACCAGAAG-ATGGGATT-TAAGACTT-ACTC
* * ** * * * * * *
15411338 CACTCCACTGTAACCT-TAGAGACATTGAGACCAG-TT-ACCTGTTTTGA-CCCACTTCTCTGTA
1 CACTCCACTGTAACCTCAAG-GACGTTGAGTTCTGCTTCA-TTATTTTCATCCCACTCCACTGTA
15411399 CCTCACCAGAAAGATGGGATTTAAAGACTTACTC
64 CCTCACCAG-AAGATGGGATTT-AAGACTTACTC
* * * * ** *
15411433 CACTCCACTATAACCTCAGGGATGTTGAGTTCT-ATTCATTATTTTCATCTGAC-CCACTGTAAC
1 CACTCCACTGTAACCTCAAGGACGTTGAGTTCTGCTTCATTATTTTCATCCCACTCCACTGTACC
* * * *
15411496 T---CAGAGGTATAGGATTTTAGTGCTTCACTC
66 TCACCAGAAG-ATGGGATTTAAG-ACTT-ACTC
* * * *
15411526 CACTCCACTGTAACCTCAAGGACGTTGAGATT-TGCTTC-TTGTTTT-AACCCACTTCTCTGTAC
1 CACTCCACTGTAACCTCAAGGACGTTGAG-TTCTGCTTCATTATTTTCATCCCACTCCACTGTAC
* * *
15411588 CTCACTAGGAAGATGGGATTTGAAGTCTCACTC
65 CTCACCA-GAAGATGGGATTT-AAGACTTACTC
*
15411621 CACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCAT
1 CACTCCACTGTAACCTCAAGGACGTTGAGTTCTGCTTCATTATTTTCAT
15411670 TCGACCTGTT
Statistics
Matches: 245, Mismatches: 61, Indels: 49
0.69 0.17 0.14
Matches are distributed among these distances:
91 4 0.02
92 22 0.09
93 61 0.25
94 31 0.13
95 83 0.34
96 37 0.15
97 7 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (95 bp):
CACTCCACTGTAACCTCAAGGACGTTGAGTTCTGCTTCATTATTTTCATCCCACTCCACTGTACC
TCACCAGAAGATGGGATTTAAGACTTACTC
Found at i:15411540 original size:93 final size:94
Alignment explanation
Indices: 15411233--15411742 Score: 269
Period size: 93 Copynumber: 5.4 Consensus size: 94
15411223 ATAGGATCCG
* * * *
15411233 GTGCTTCACTTCACTCCACTGTAACCTCAAGAACGTTGAGCTCTGCTTCATTATTTTCATCTGAC
1 GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGTTCTGATTCATTATTTTCATCTGAC
* * * * * *
15411298 CCACAGCAACTTAGGGGTATAGGATTCTA
66 CCACTGTAACTCAGAGGCATAGGATTTTA
* * ** * * * * *
15411327 G-GACTTCACTCCACTCCACTGTAACCT-TAGAGACATTGAGACCAG-TT-ACCTGTTTTGA-CC
1 GTG-CTTCACTCCACTCCACTGTAACCTCAAG-GACGTTGAGTTCTGATTCA-TTATTTTCATCT
* * * * * * *
15411387 CACTTCTCTGTACCTCACCAGAAAG-ATGGGATTTAAA
63 GAC-CCACTGTAACT---CAG-AGGCATAGGATTT-TA
* * * *
15411424 G-ACTT-ACTCCACTCCACTATAACCTCAGGGATGTTGAGTTCT-ATTCATTATTTTCATCTGAC
1 GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGTTCTGATTCATTATTTTCATCTGAC
*
15411486 CCACTGTAACTCAGAGGTATAGGATTTTA
66 CCACTGTAACTCAGAGGCATAGGATTTTA
* * * **
15411515 GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGATT-TGCTTC-TTGTTTT-AACCCA
1 GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAG-TTCTGATTCATTATTTTCATCTGA
* * * * * * *
15411577 CTTCTCTGTACCTCACTAGGAAGATGGGATTTGAA
65 C-CCACTGTAACTCA-GAGG--CATAGGATTT-TA
* *
15411612 GT-C-TCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCAT-TCGA
1 GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGTTCTGATTCATTATTTTCATCT-GA
*** * * * *
15411674 CCTGTTGCAACTCAG-GGCATAAGATTCTG
65 CCCACTGTAACTCAGAGGCATAGGATTTTA
* * *
15411703 GTGCTTCACTCTACTCCACTGTAACCTCAGGGATGTTGAG
1 GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAG
15411743 ATCTACTACC
Statistics
Matches: 307, Mismatches: 80, Indels: 59
0.69 0.18 0.13
Matches are distributed among these distances:
91 6 0.02
92 29 0.09
93 96 0.31
94 44 0.14
95 84 0.27
96 39 0.13
97 9 0.03
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (94 bp):
GTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGTTCTGATTCATTATTTTCATCTGAC
CCACTGTAACTCAGAGGCATAGGATTTTA
Found at i:15411743 original size:188 final size:188
Alignment explanation
Indices: 15411238--15411745 Score: 637
Period size: 188 Copynumber: 2.7 Consensus size: 188
15411228 ATCCGGTGCT
* * *
15411238 TCACTTCACTCCACTGTAACCTCAAGAACGTTGAGCTCTGCTTCATTATTTTCATCTGACCCACA
1 TCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCATCTGACCCACT
* * * * *
15411303 GCAACTTAGGGGTATAGGATTCTAGG-ACTTCACTCCACTCCACTGTAACCTTAGAGACATTGAG
66 GCAACTCA-GGGTATAGGATTCT-GGTGCTTCACTCCACTCCACTGTAACCTCAGGGACGTTGAG
* *
15411367 ACCAGTTACCTGTTTTGACCCACTTCTCTGTACCTCACCAGAAAGATGGGATTTAAAGAC
129 ATCAGTTACCTGTTTTAACCCACTTCTCTGTACCTCACCAGAAAGATGGGATTTAAAGAC
* * * * * *
15411427 TTACTCCACTCCACTATAACCTCAGGGATGTTGAGTTCT-ATTCATTATTTTCATCTGACCCACT
1 TCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCATCTGACCCACT
* * * *
15411491 GTAACTCAGAGGTATAGGATTTTAGTGCTTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGA
66 GCAACTCAG-GGTATAGGATTCTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACGTTGAGA
** * * * * *
15411556 TTTGCTT-CTTGTTTTAACCCACTTCTCTGTACCTCACTAGGAAGATGGGATTTGAAGTC
130 TCAG-TTACCTGTTTTAACCCACTTCTCTGTACCTCACCAGAAAGATGGGATTTAAAGAC
***
15411615 TCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCAT-TCGACCTGT
1 TCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCATCT-GACCCAC
* * * *
15411679 TGCAACTCAGGGCATAAGATTCTGGTGCTTCACTCTACTCCACTGTAACCTCAGGGATGTTGAGA
65 TGCAACTCAGGGTATAGGATTCTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACGTTGAGA
15411744 TC
130 TC
15411746 TACTACCCAT
Statistics
Matches: 269, Mismatches: 45, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
187 2 0.01
188 206 0.77
189 61 0.23
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (188 bp):
TCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCATTATTTTCATCTGACCCACT
GCAACTCAGGGTATAGGATTCTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACGTTGAGAT
CAGTTACCTGTTTTAACCCACTTCTCTGTACCTCACCAGAAAGATGGGATTTAAAGAC
Found at i:15412930 original size:10 final size:10
Alignment explanation
Indices: 15412890--15412956 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
15412880 CCTCTCCTTT
15412890 TCTTTTTCTTC
1 TCTTTTT-TTC
* *
15412901 TTTTTTTCTTT
1 TCTTTTT-TTC
*
15412912 TCCTTTTTTC
1 TCTTTTTTTC
15412922 TCTTTTTTTC
1 TCTTTTTTTC
15412932 T-TTTTTTT-
1 TCTTTTTTTC
15412940 TC--TTTTTC
1 TCTTTTTTTC
15412948 TCTTTTTTT
1 TCTTTTTTT
15412957 ATTTTTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 5 0.11
8 3 0.07
9 7 0.15
10 17 0.37
11 14 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTTTC
Found at i:15412936 original size:8 final size:8
Alignment explanation
Indices: 15412887--15412970 Score: 77
Period size: 8 Copynumber: 10.5 Consensus size: 8
15412877 CGACCTCTCC
15412887 TTTTCTTT
1 TTTTCTTT
15412895 TTCTTCTTT
1 TT-TTCTTT
15412904 TTTTC--T
1 TTTTCTTT
*
15412910 TTTCCTTT
1 TTTTCTTT
15412918 TTTCTCTTT
1 TTT-TCTTT
15412927 TTTTCTTT
1 TTTTCTTT
15412935 TTTT-TTCT
1 TTTTCTT-T
15412943 TTTTCTCTT
1 TTTTCT-TT
*
15412952 TTTT-TAT
1 TTTTCTTT
*
15412959 TTTTATTT
1 TTTTCTTT
15412967 TTTT
1 TTTT
15412971 GGGGTGAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
6 5 0.08
7 7 0.11
8 30 0.47
9 21 0.33
10 1 0.02
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:15412938 original size:26 final size:26
Alignment explanation
Indices: 15412890--15412962 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
15412880 CCTCTCCTTT
*
15412890 TCTTTTTCTTCTTTTTTTC--TTTTCC
1 TCTTTTTC-TCTTTTTTTCTTTTTTTC
*
15412915 T-TTTTTCTCTTTTTTTCTTTTTTTT
1 TCTTTTTCTCTTTTTTTCTTTTTTTC
*
15412940 TCTTTTTCTCTTTTTTTATTTTT
1 TCTTTTTCTCTTTTTTTCTTTTT
15412963 ATTTTTTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.24
24 6 0.14
25 6 0.14
26 20 0.48
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (26 bp):
TCTTTTTCTCTTTTTTTCTTTTTTTC
Found at i:15412953 original size:23 final size:23
Alignment explanation
Indices: 15412900--15412968 Score: 52
Period size: 22 Copynumber: 2.9 Consensus size: 23
15412890 TCTTTTTCTT
*
15412900 CTTTTTTTCTTTTCCTTTTT-TC
1 CTTTTTTTCTTTTTCTTTTTCTC
15412922 TCTTTTTTTCTTTTTTTTTCTTTTTCT-
1 -CTTTTTTTC----TTTTTCTTTTTCTC
* *
15412949 CTTTTTTTATTTTTATTTTT
1 CTTTTTTTCTTTTTCTTTTT
15412969 TTGGGGTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
22 10 0.26
23 9 0.24
26 8 0.21
27 10 0.26
28 1 0.03
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (23 bp):
CTTTTTTTCTTTTTCTTTTTCTC
Found at i:15412962 original size:34 final size:33
Alignment explanation
Indices: 15412892--15412970 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
15412882 TCTCCTTTTC
*
15412892 TTTTTCTTCTTTTTTTCTTTTCCTTTTTTCTCTT
1 TTTTTCTT-TTTTTTTCTTTTCCTTTTTTCTATT
15412926 TTTTTCTTTTTTTTTCTTTTTCTCTTTTTT-TATT
1 TTTTTCTTTTTTTTTC-TTTTC-CTTTTTTCTATT
*
15412960 TTTAT-TTTTTT
1 TTTTTCTTTTTT
15412971 GGGGTGAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
33 14 0.34
34 20 0.49
35 7 0.17
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (33 bp):
TTTTTCTTTTTTTTTCTTTTCCTTTTTTCTATT
Found at i:15425121 original size:29 final size:28
Alignment explanation
Indices: 15425058--15425120 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
15425048 AAAATTATAT
15425058 TTAAAAACAGTAAATTATTTTTAAAATA
1 TTAAAAACAGTAAATTATTTTTAAAATA
* * *
15425086 TTAAAAATAGTAGATTGTTTTTAAAATA
1 TTAAAAACAGTAAATTATTTTTAAAATA
15425114 TTAAAAA
1 TTAAAAA
15425121 AAATTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (28 bp):
TTAAAAACAGTAAATTATTTTTAAAATA
Found at i:15428710 original size:17 final size:18
Alignment explanation
Indices: 15428690--15428728 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
15428680 ACAATTATTA
15428690 TAATATTTTTAT-TTTTT
1 TAATATTTTTATATTTTT
15428707 TAATATTTTTATAATTTTT
1 TAATATTTTTAT-ATTTTT
15428726 TAA
1 TAA
15428729 ACGATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATATTTTTATATTTTT
Found at i:15429108 original size:27 final size:26
Alignment explanation
Indices: 15429077--15429141 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
15429067 GAACACATTA
15429077 AAAAATAAATAAAAATT-TTAAATAAAT
1 AAAAATAAATAAAAATTATTAAAT--AT
*
15429104 AAAAATATAT-AAAATTATTAAATAT
1 AAAAATAAATAAAAATTATTAAATAT
15429129 AAAAATAATATAA
1 AAAAATAA-ATAA
15429142 TATAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 9 0.27
26 8 0.24
27 16 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAAATAAATAAAAATTATTAAATAT
Found at i:15429128 original size:15 final size:16
Alignment explanation
Indices: 15429110--15429147 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15429100 AAATAAAAAT
* *
15429110 ATATAAAATTATTA-A
1 ATATAAAAATAATATA
15429125 ATATAAAAATAATATA
1 ATATAAAAATAATATA
15429141 ATATAAA
1 ATATAAA
15429148 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAAAATAATATA
Found at i:15429143 original size:16 final size:15
Alignment explanation
Indices: 15429100--15429147 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
15429090 AATTTTAAAT
15429100 AAATAA-AAATATATA
1 AAATAATAAATATA-A
*
15429115 AAATTATTAAATATAA
1 AAA-TAATAAATATAA
15429131 AAATAATATAATATAA
1 AAATAATA-AATATAA
15429147 A
1 A
15429148 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 7 0.25
16 14 0.50
17 7 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAATAAATATAA
Found at i:15429151 original size:29 final size:26
Alignment explanation
Indices: 15429076--15429151 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
15429066 AGAACACATT
*
15429076 AAAAAATA-AATAAAAATTTTAAATAA
1 AAAAAATATAAT-AAAATATTAAATAA
15429102 ATAAAAATAT-ATAAAATTATTAAATATA
1 A-AAAAATATAATAAAA-TATTAAATA-A
15429130 AAAATAATATAATATAAATATT
1 AAAA-AATATAATA-AAATATT
15429152 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 5 0.12
27 20 0.48
28 7 0.17
29 7 0.17
30 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAAATATAATAAAATATTAAATAA
Found at i:15429465 original size:29 final size:29
Alignment explanation
Indices: 15429431--15429490 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
15429421 AAAATTATAT
*
15429431 TTAAAAATAGTAT-ATTAT-TTTTAAAATA
1 TTAAAAATA-TATAATTATATTTAAAAATA
*
15429459 TTAAAAATATTTAATTATATTTAAAAATA
1 TTAAAAATATATAATTATATTTAAAAATA
15429488 TTA
1 TTA
15429491 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 14 0.50
29 12 0.43
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TTAAAAATATATAATTATATTTAAAAATA
Found at i:15436147 original size:18 final size:18
Alignment explanation
Indices: 15436124--15436161 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15436114 TGTCCGACCC
15436124 TCGAAACTGTCGACGCAA
1 TCGAAACTGTCGACGCAA
* *
15436142 TCGAAAGTGTCGGCGCAA
1 TCGAAACTGTCGACGCAA
15436160 TC
1 TC
15436162 TGATGTATCT
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:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (18 bp):
TCGAAACTGTCGACGCAA
Found at i:15437637 original size:14 final size:14
Alignment explanation
Indices: 15437614--15437649 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15437604 GGTAGATGAG
*
15437614 GGGAGCGGTGGAAT
1 GGGAGGGGTGGAAT
*
15437628 GGGAGGGGTGGGAT
1 GGGAGGGGTGGAAT
15437642 GGGAGGGG
1 GGGAGGGG
15437650 AGTAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.03, G:0.69, T:0.11
Consensus pattern (14 bp):
GGGAGGGGTGGAAT
Found at i:15437853 original size:30 final size:30
Alignment explanation
Indices: 15437808--15437867 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
15437798 TAGGAAGTGG
*
15437808 GGTGAGAAGGGGTAAAAGTTTTGGGGAAAA
1 GGTGAGAAGGAGTAAAAGTTTTGGGGAAAA
*
15437838 GGTGGGAAGGAGTAAAAGTTTTGGGGAAAA
1 GGTGAGAAGGAGTAAAAGTTTTGGGGAAAA
15437868 AAGTACAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (30 bp):
GGTGAGAAGGAGTAAAAGTTTTGGGGAAAA
Found at i:15440706 original size:6 final size:6
Alignment explanation
Indices: 15440695--15440739 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
15440685 TGATCAAAAT
* * *
15440695 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAC TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
15440740 TATGAATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.47, C:0.02, G:0.31, T:0.20
Consensus pattern (6 bp):
TGAAAG
Found at i:15446205 original size:6 final size:6
Alignment explanation
Indices: 15446194--15446232 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15446184 TGATCAAAAT
* * *
15446194 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAC TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
15446233 TATGAATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.46, C:0.03, G:0.31, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:15455620 original size:62 final size:62
Alignment explanation
Indices: 15455544--15455669 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
15455534 AAGCTGTTCG
*
15455544 AATTCTGGAGAGGATTGCCCAAAATGACTACTAATATCCAATCTCTCGTTTTGCACAAGTGA
1 AATTCTGGAGAGGATTGCCCAAAATGACTACTAATATCCAATCTCTCGTTCTGCACAAGTGA
15455606 AATTCTGGAGAGGATTGCCCAAAATGACTACTAATATCCAATCTCTCGTTCTGCACAAGTGA
1 AATTCTGGAGAGGATTGCCCAAAATGACTACTAATATCCAATCTCTCGTTCTGCACAAGTGA
15455668 AA
1 AA
15455670 ACTAACCCTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (62 bp):
AATTCTGGAGAGGATTGCCCAAAATGACTACTAATATCCAATCTCTCGTTCTGCACAAGTGA
Found at i:15470027 original size:19 final size:19
Alignment explanation
Indices: 15470003--15470039 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
15469993 GTTTAAAGTT
15470003 TGGAAAGA-ATTGAAAATGG
1 TGGAAAGAGATT-AAAATGG
15470022 TGGAAAGAGATTAAAATG
1 TGGAAAGAGATTAAAATG
15470040 AAAGAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.22
Consensus pattern (19 bp):
TGGAAAGAGATTAAAATGG
Found at i:15473729 original size:13 final size:13
Alignment explanation
Indices: 15473711--15473736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15473701 CCAGTTACTA
15473711 TTGAAGGGAGTAG
1 TTGAAGGGAGTAG
15473724 TTGAAGGGAGTAG
1 TTGAAGGGAGTAG
15473737 CGGTGATCGC
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:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (13 bp):
TTGAAGGGAGTAG
Found at i:15478290 original size:15 final size:16
Alignment explanation
Indices: 15478270--15478299 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15478260 TTGTTTAAAC
15478270 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
15478285 TTTAAAATTTATTAT
1 TTTAAAATTTATTAT
15478300 GAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:15485082 original size:49 final size:49
Alignment explanation
Indices: 15485026--15485125 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 49
15485016 GAAACTCGGT
* *
15485026 AAGTAATAAAATGACCTTGTTCCCAAACCCATAGGG-GGAGGCTTATAGA
1 AAGTAATAAAAAGACCTTGCTCCCAAACCCAT-GGGAGGAGGCTTATAGA
**
15485075 AAGTAATAAAAAGACCTTGCTCCCAAATGCATGGGAGGAGGCTTATAGA
1 AAGTAATAAAAAGACCTTGCTCCCAAACCCATGGGAGGAGGCTTATAGA
15485124 AA
1 AA
15485126 AAAATCATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 3 0.07
49 43 0.93
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (49 bp):
AAGTAATAAAAAGACCTTGCTCCCAAACCCATGGGAGGAGGCTTATAGA
Found at i:15485205 original size:47 final size:44
Alignment explanation
Indices: 15485132--15485300 Score: 167
Period size: 45 Copynumber: 3.7 Consensus size: 44
15485122 GAAAAAAATC
* * * *
15485132 ATAATGACCCTACTCCCAGACACATGGGGGAAGGCTTAAAAAAGGTG
1 ATAATGGCCCTGCTCCC--ACACATGGGGG-AGGCTTACAAAAGGTA
* * *
15485179 ATGAAGTGGCCTTGCTCCCACACATGGAGGGAGGCGTACGAAAGGTA
1 AT-AA-TGGCCCTGCTCCCACACATGG-GGGAGGCTTACAAAAGGTA
*
15485226 ATAATGGCCCTGCTCTCACACATGGGAGGAGGCTTACAAAAGGTA
1 ATAATGGCCCTGCTCCCACACATGGG-GGAGGCTTACAAAAGGTA
* * * *
15485271 ATAATGGCTCTGCTACTACACATGCGGGAG
1 ATAATGGCCCTGCTCCCACACATGGGGGAG
15485301 TAAGGCTGAA
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
44 5 0.05
45 56 0.55
46 2 0.02
47 24 0.24
48 5 0.05
49 10 0.10
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (44 bp):
ATAATGGCCCTGCTCCCACACATGGGGGAGGCTTACAAAAGGTA
Found at i:15485765 original size:44 final size:43
Alignment explanation
Indices: 15485655--15485785 Score: 138
Period size: 44 Copynumber: 2.9 Consensus size: 43
15485645 TATGGGGGAA
* *
15485655 GCTTATGAAAGGTAATAATGGCCCTGCTCCCTAGCACATTGAAGAAT
1 GCTTATGAAAGGTAATAATGGCCCTACTCCC-A-CACA-T-AAGAAG
* *
15485702 GCTTA-CAGAAGGTAATAATGGCCTTACTCCCACACATAAGAGAG
1 GCTTATGA-AAGGTAATAATGGCCCTACTCCCACACATAAGA-AG
* * *
15485746 GCTTATGAAAGGTAATAATGACCCTATTCCTACACATAAG
1 GCTTATGAAAGGTAATAATGGCCCTACTCCCACACATAAG
15485786 GGGAAGCTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.06
44 35 0.49
45 5 0.07
46 2 0.03
47 26 0.36
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTTATGAAAGGTAATAATGGCCCTACTCCCACACATAAGAAG
Found at i:15497197 original size:17 final size:17
Alignment explanation
Indices: 15497177--15497210 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15497167 TATGGCCTAG
15497177 CCATTCATCTAGCATCA
1 CCATTCATCTAGCATCA
15497194 CCATTCATCTAGCATCA
1 CCATTCATCTAGCATCA
15497211 TTCATGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.29
Consensus pattern (17 bp):
CCATTCATCTAGCATCA
Found at i:15497214 original size:14 final size:15
Alignment explanation
Indices: 15497177--15497215 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
15497167 TATGGCCTAG
15497177 CCATTCATCTAGCAT
1 CCATTCATCTAGCAT
15497192 CACCATTCATCTAGCAT
1 --CCATTCATCTAGCAT
15497209 -CATTCAT
1 CCATTCAT
15497216 GAATCATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
17 15 0.68
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.33
Consensus pattern (15 bp):
CCATTCATCTAGCAT
Found at i:15501245 original size:24 final size:24
Alignment explanation
Indices: 15501226--15501289 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
15501216 TTTATAAAAG
15501226 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
15501250 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
15501274 ATTTAGCATTGATTAG
1 ATTTAGCATTTATTAG
15501290 AATTAGGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:15501281 original size:14 final size:14
Alignment explanation
Indices: 15501238--15501282 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
15501228 TTAGCATTTA
*
15501238 TTAGTATAATATAT
1 TTAGCATAATATAT
15501252 TTAGCAT--T-TA-
1 TTAGCATAATATAT
15501262 TTAGCATAATATAT
1 TTAGCATAATATAT
15501276 TTAGCAT
1 TTAGCAT
15501283 TGATTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 2 0.08
13 2 0.08
14 13 0.50
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (14 bp):
TTAGCATAATATAT
Found at i:15501922 original size:42 final size:43
Alignment explanation
Indices: 15501854--15502033 Score: 190
Period size: 43 Copynumber: 4.2 Consensus size: 43
15501844 TTATGCGAAA
** * * * *
15501854 AAGCGCCGCTAAAGAG-CATGGCCTTTAGCAG-TGCTTTCCCAT
1 AAGCGCCGCTAAAG-GCCATGTTCTTTAGCGGACGCTTTTCCAC
* * *
15501896 AAGCGCCGCTAAAGGCCATGTTCTTTAACGG-CTCTTTTACAAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGACGCTTTT-CCAC
* *
15501939 AAGCGCCGCTAAAAGCCATGTTCTTTAGCGG-CGCTTTTACAGC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGACGCTTTTCCA-C
*
15501982 AAGTGCCGCTAAAGGCCATGTTCTTTAGC-GACGCTTTTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGACGCTTTTCCAC
15502024 AAGCGCCGCT
1 AAGCGCCGCT
15502034 TTTCCACAAG
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 41 0.35
43 74 0.64
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGACGCTTTTCCAC
Found at i:15501951 original size:43 final size:43
Alignment explanation
Indices: 15501896--15502033 Score: 206
Period size: 43 Copynumber: 3.2 Consensus size: 43
15501886 GCTTTCCCAT
* *
15501896 AAGCGCCGCTAAAGGCCATGTTCTTTAACGGCTCTTTTACAAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
* *
15501939 AAGCGCCGCTAAAAGCCATGTTCTTTAGCGGCGCTTTTACAGC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
* * *
15501982 AAGTGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTT-CCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
15502024 AAGCGCCGCT
1 AAGCGCCGCT
15502034 TTTCCACAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 11 0.13
43 74 0.87
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
Found at i:15501975 original size:85 final size:85
Alignment explanation
Indices: 15501854--15502033 Score: 220
Period size: 85 Copynumber: 2.1 Consensus size: 85
15501844 TTATGCGAAA
* * *
15501854 AAGCGCCGCTAAAGAGCATGGCCTTTAGCAGTGCTTTCCCA-TAAGCGCCGCTAAAGGCCATGTT
1 AAGCGCCGCTAAAGAGCATGGCCTTTAGCAGCGCTTTCACAGCAAGCGCCGCTAAAGGCCATGTT
* *
15501918 CTTTAACGGCTCTTTTACAAC
66 CTTTAACGACGCTTTT-CAAC
** * * *
15501939 AAGCGCCGCTAAA-AGCCATGTTCTTTAGCGGCGCTTTTACAGCAAGTGCCGCTAAAGGCCATGT
1 AAGCGCCGCTAAAGAG-CATGGCCTTTAGCAGCGCTTTCACAGCAAGCGCCGCTAAAGGCCATGT
* *
15502003 TCTTTAGCGACGCTTTTCCAC
65 TCTTTAACGACGCTTTTCAAC
15502024 AAGCGCCGCT
1 AAGCGCCGCT
15502034 TTTCCACAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 2 0.02
85 45 0.56
86 34 0.42
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAGCATGGCCTTTAGCAGCGCTTTCACAGCAAGCGCCGCTAAAGGCCATGTT
CTTTAACGACGCTTTTCAAC
Found at i:15502033 original size:17 final size:17
Alignment explanation
Indices: 15502008--15502050 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
15501998 CATGTTCTTT
*
15502008 AGCGACGCTTTTCCACA
1 AGCGCCGCTTTTCCACA
15502025 AGCGCCGCTTTTCCACA
1 AGCGCCGCTTTTCCACA
15502042 AGCGCCGCT
1 AGCGCCGCT
15502051 AAAGGCTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.21
Consensus pattern (17 bp):
AGCGCCGCTTTTCCACA
Found at i:15502063 original size:59 final size:61
Alignment explanation
Indices: 15501965--15502093 Score: 199
Period size: 59 Copynumber: 2.1 Consensus size: 61
15501955 CATGTTCTTT
* *
15501965 AGCGGCGCTTTTACAGCAAGTGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTT-TCCACA
1 AGCGCCGCTTTTACAGCAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTCTCCACA
* * *
15502025 AGCGCCGCTTTTCCA-CAAGCGCCGCTAAAGGCTATGTTCTTTAGCGGCGCTTTCTCCACA
1 AGCGCCGCTTTTACAGCAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTCTCCACA
15502085 AGCGCCGCT
1 AGCGCCGCT
15502094 AATATAACAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 35 0.56
60 28 0.44
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (61 bp):
AGCGCCGCTTTTACAGCAAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTCTCCACA
Found at i:15502184 original size:15 final size:15
Alignment explanation
Indices: 15502164--15502192 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15502154 CCTGTAAATT
15502164 CAAATCCAACCAATG
1 CAAATCCAACCAATG
15502179 CAAATCCAACCAAT
1 CAAATCCAACCAAT
15502193 AACTTCAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.03, T:0.14
Consensus pattern (15 bp):
CAAATCCAACCAATG
Found at i:15502520 original size:66 final size:66
Alignment explanation
Indices: 15502409--15502562 Score: 236
Period size: 66 Copynumber: 2.3 Consensus size: 66
15502399 GCTTGCCTCG
* * * * *
15502409 CTGCTGCCTCCACTTTAAGTTGTAGGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTC
1 CTGCAGCCTCCTCTTTAAGTTGTAGATAGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
15502474 A
66 A
* *
15502475 CTGCAGCCTCCTCTTTAAGTTTTAGATAGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTC
1 CTGCAGCCTCCTCTTTAAGTTGTAGATAGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
*
15502540 G
66 A
15502541 CTGCAGCCTCCTCTTTAAGTTG
1 CTGCAGCCTCCTCTTTAAGTTG
15502563 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.43
Consensus pattern (66 bp):
CTGCAGCCTCCTCTTTAAGTTGTAGATAGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTC
A
Found at i:15504023 original size:112 final size:116
Alignment explanation
Indices: 15503890--15504179 Score: 358
Period size: 112 Copynumber: 2.5 Consensus size: 116
15503880 TAATATTAGA
* * *
15503890 ATTT-GATTG-TTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTTTTAAT
1 ATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATTTTTAAT
*
15503953 TAAATATTTCGGTTGTTTTTAATAA-A-TA-A-ATAATTAAATATTTAAAT
66 TAAATATTTCGGTTATTTTTAATAATATTATATATAATTAAATATTTAAAT
* * *
15504000 ATTTGGATTGTTTTTAATTATTAAATTTTTAATTAAATATAATTAACTAATAAAATATTTTTAAT
1 ATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATTTTTAAT
* * * **
15504065 TAAATATTTGGGTTATTTTTAATAATTATTTATTTATTTATTTATTTATTTAAAT
66 TAAATATTTCGGTTATTTTTAATAA-TA-TTA--TATATAATTAAATATTTAAAT
* * * *
15504120 ATTTGAATTGTTTTTAATCATTAAATATTTAATTATATATAACTAAATAATAAAATATTT
1 ATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATTT
15504180 GAATTTTTTT
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
110 4 0.03
111 5 0.03
112 71 0.47
114 1 0.01
116 2 0.01
119 1 0.01
120 68 0.45
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (116 bp):
ATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATTTTTAAT
TAAATATTTCGGTTATTTTTAATAATATTATATATAATTAAATATTTAAAT
Found at i:15504099 original size:4 final size:4
Alignment explanation
Indices: 15504090--15504116 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15504080 TTTTTAATAA
15504090 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
15504117 AATATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:15504149 original size:50 final size:50
Alignment explanation
Indices: 15504059--15504213 Score: 134
Period size: 50 Copynumber: 3.0 Consensus size: 50
15504049 ATAAAATATT
** ** *
15504059 TTTAATTAAATATTTGGGTTATTTTTAATAATTATTTATTTATTTATTTA
1 TTTAATTAAATATTTGAATTATTTTTAATAATTAAATATTTAATTATTTA
* * *
15504109 TTTATTTAAATATTTGAATTGTTTTTAATCATTAAATATTTAATTATATATAA
1 TTTAATTAAATATTTGAATTATTTTTAATAATTAAATATTTAATTAT-T-T-A
* * *
15504162 CTAAATAATAAAATATTTGAATT-TTTTTAATAATTAAAT-TATTAAATATTTA
1 -T--TTAATTAAATATTTGAATTATTTTTAATAATTAAATAT-TTAATTATTTA
15504214 AATATTTAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
50 39 0.46
51 1 0.01
52 2 0.02
53 2 0.02
54 3 0.04
55 22 0.26
56 16 0.19
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (50 bp):
TTTAATTAAATATTTGAATTATTTTTAATAATTAAATATTTAATTATTTA
Found at i:15508639 original size:41 final size:40
Alignment explanation
Indices: 15508594--15508815 Score: 318
Period size: 41 Copynumber: 5.4 Consensus size: 40
15508584 GCTTATAGGA
*
15508594 AAGCGCCGCTATTGCTCCGACCTTTAGCAGCGCTTTCCTAT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTTCC-AT
*
15508635 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCCCGAT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTTCC-AT
* * *
15508676 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCACTTGCACAT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTTC-CAT
* **
15508717 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTGCCCAT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCG-CTTTCCAT
*
15508758 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTTCCAT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGC-TTTCCAT
15508799 AAGCGCCGCTATTGCTC
1 AAGCGCCGCTATTGCTC
15508816 TACCTTTTGC
Statistics
Matches: 166, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 161 0.97
42 4 0.02
ACGTcount: A:0.15, C:0.36, G:0.24, T:0.26
Consensus pattern (40 bp):
AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTTCCAT
Found at i:15508668 original size:24 final size:23
Alignment explanation
Indices: 15508636--15508793 Score: 64
Period size: 24 Copynumber: 7.5 Consensus size: 23
15508626 CTTTCCTATA
15508636 AGCGCCGCTATTGCTCCGACCTTT
1 AGCGCCGCT-TTGCTCCGACCTTT
* *
15508660 AGCGGCGC-TT-C-CCGA---TA
1 AGCGCCGCTTTGCTCCGACCTTT
15508677 AGCGCCGCTGTTGCTCCGACCTTT
1 AGCGCCGCT-TTGCTCCGACCTTT
* * * *
15508701 AGCGGCAC-TTG---C-A-CATA
1 AGCGCCGCTTTGCTCCGACCTTT
15508718 AGCGCCGCTGTTGCTCCGACCTTT
1 AGCGCCGCT-TTGCTCCGACCTTT
* * *
15508742 AGCGGCGC-CTGC-CC-A---TA
1 AGCGCCGCTTTGCTCCGACCTTT
15508759 AGCGCCGCTGTTGCTCCGACCTTT
1 AGCGCCGCT-TTGCTCCGACCTTT
*
15508783 AGCGGCGCTTT
1 AGCGCCGCTTT
15508794 TCCATAAGCG
Statistics
Matches: 94, Mismatches: 19, Indels: 43
0.60 0.12 0.28
Matches are distributed among these distances:
17 24 0.26
18 1 0.01
19 9 0.10
20 8 0.09
21 8 0.09
22 9 0.10
23 3 0.03
24 32 0.34
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.25
Consensus pattern (23 bp):
AGCGCCGCTTTGCTCCGACCTTT
Found at i:15508849 original size:123 final size:123
Alignment explanation
Indices: 15508594--15508815 Score: 356
Period size: 123 Copynumber: 1.8 Consensus size: 123
15508584 GCTTATAGGA
* * *
15508594 AAGCGCCGCTATTGCTCCGACCTTTAGCAGCGCTTTCCTATAAGCGCCGCTATTGCTCCGACCTT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCAGCGCCTGCCCATAAGCGCCGCTATTGCTCCGACCTT
*
15508659 TAGCGGCGCTTCCCGATAAGCGCCGCTGTTGCTCCGACCTTTAGCGGCACTTGCACAT
66 TAGCGGCGCTTCCCGATAAGCGCCGCTATTGCTCCGACCTTTAGCGGCACTTGCACAT
* * *
15508717 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTGCCCATAAGCGCCGCTGTTGCTCCGACCTT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCAGCGCCTGCCCATAAGCGCCGCTATTGCTCCGACCTT
*
15508782 TAGCGGCGCTTTTCC-ATAAGCGCCGCTATTGCTC
66 TAGCGGCGC-TTCCCGATAAGCGCCGCTATTGCTC
15508816 TACCTTTTGC
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 86 0.96
124 4 0.04
ACGTcount: A:0.15, C:0.36, G:0.24, T:0.26
Consensus pattern (123 bp):
AAGCGCCGCTATTGCTCCGACCTTTAGCAGCGCCTGCCCATAAGCGCCGCTATTGCTCCGACCTT
TAGCGGCGCTTCCCGATAAGCGCCGCTATTGCTCCGACCTTTAGCGGCACTTGCACAT
Found at i:15511112 original size:7 final size:7
Alignment explanation
Indices: 15511111--15511151 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
15511101 CTTCCCCTTT
15511111 CCCTTCC
1 CCCTTCC
15511118 CCCTTCC
1 CCCTTCC
15511125 CCCTTCC
1 CCCTTCC
15511132 CCCTTCC
1 CCCTTCC
15511139 CCCTTCC
1 CCCTTCC
15511146 CCCTTC
1 CCCTTC
15511152 ATTGCCACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (7 bp):
CCCTTCC
Found at i:15519720 original size:53 final size:53
Alignment explanation
Indices: 15519663--15519767 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
15519653 TATTATTGAG
*
15519663 AAGAAATTATATAAAGAGTAAAAAATGGG-TAAAATGGTAAATTTATTATGAAT
1 AAGAAATTATATAAAGAGTAAAAAA-GGGCCAAAATGGTAAATTTATTATGAAT
* *
15519716 AAGAAATTGTATAAAGAGTAAAAAAGGGCCAAAATGGTAAATTTGTTATGAA
1 AAGAAATTATATAAAGAGTAAAAAAGGGCCAAAATGGTAAATTTATTATGAA
15519768 ATGGTAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 3 0.06
53 45 0.94
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.28
Consensus pattern (53 bp):
AAGAAATTATATAAAGAGTAAAAAAGGGCCAAAATGGTAAATTTATTATGAAT
Found at i:15527233 original size:18 final size:19
Alignment explanation
Indices: 15527212--15527252 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
15527202 GATTATGATT
15527212 AAATATCTTA-TTA-TTAAG
1 AAATATC-TAGTTATTTAAG
15527230 AAATATCTAGTTATTTAAG
1 AAATATCTAGTTATTTAAG
15527249 AAAT
1 AAAT
15527253 TAAAATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.10
18 10 0.48
19 9 0.43
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
AAATATCTAGTTATTTAAG
Found at i:15528441 original size:40 final size:40
Alignment explanation
Indices: 15528247--15528428 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
15528237 GTTGGTTAGA
* * * * * *
15528247 ATTCAAGCTTCGGATTAGCAGGCTATAAACCAGTGATATA-
1 ATTCAAGCTTCGGCTTAGCAGGATATGAGCCGGTGTTA-AG
* * *
15528287 ATTCAAGCTTCGGCTTAGCAAGCTATGAGCCGGTGATATA-
1 ATTCAAGCTTCGGCTTAGCAGGATATGAGCCGGTGTTA-AG
*
15528327 ATTCAAGCTTCGGCTTAGCAGGATATGAGTCGGTGTTAAG
1 ATTCAAGCTTCGGCTTAGCAGGATATGAGCCGGTGTTAAG
* * **
15528367 ATCCAAACTTCTACTTAGCAGGATATGAGCCGGTGTTAAG
1 ATTCAAGCTTCGGCTTAGCAGGATATGAGCCGGTGTTAAG
*
15528407 ATTCAAGCTACGGCTTAGCAGG
1 ATTCAAGCTTCGGCTTAGCAGG
15528429 CCCTGAGCCG
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 121 0.99
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
ATTCAAGCTTCGGCTTAGCAGGATATGAGCCGGTGTTAAG
Done.