Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 12 of 16
Found at i:1883557 original size:13 final size:13
Alignment explanation
Indices: 1883539--1883564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1883529 CATTTTTCTG
1883539 TGTATCGATACAT
1 TGTATCGATACAT
1883552 TGTATCGATACAT
1 TGTATCGATACAT
1883565 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1883561 original size:33 final size:33
Alignment explanation
Indices: 1883519--1883585 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1883509 GCCAAGGAAA
***
1883519 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1883552 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1883585 T
1 T
1883586 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1886148 original size:51 final size:51
Alignment explanation
Indices: 1886086--1886256 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1886076 TTATTTCTGA
* * *
1886086 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1886137 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1886190 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1886242 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1886257 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1886275 original size:28 final size:28
Alignment explanation
Indices: 1886239--1886320 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1886229 ATTTTTCACA
*
1886239 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1886267 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1886295 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1886321 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1891542 original size:20 final size:20
Alignment explanation
Indices: 1891517--1891554 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1891507 TATACATATA
1891517 AATAAAACAAAAA-AAATGAT
1 AATAAAA-AAAAACAAATGAT
1891537 AATAAAAAAAAACAAATG
1 AATAAAAAAAAACAAATG
1891555 CAAACATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (20 bp):
AATAAAAAAAAACAAATGAT
Found at i:1891909 original size:16 final size:16
Alignment explanation
Indices: 1891888--1891942 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
1891878 ATTTCATATT
1891888 TTTTTCTTTTTTTTTC
1 TTTTTCTTTTTTTTTC
*
1891904 TTTTTCTTTCTTTCTTC
1 TTTTTCTTT-TTTTTTC
* *
1891921 TTTATCTTCTTTCTTTC
1 TTTTTCTT-TTTTTTTC
1891938 TTTTT
1 TTTTT
1891943 TACCTAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.28
17 22 0.69
18 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:1891915 original size:20 final size:21
Alignment explanation
Indices: 1891886--1891943 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
1891876 CCATTTCATA
1891886 TTTT-TTTCTTTTTTTT-TCT
1 TTTTCTTTCTTTTTTTTATCT
1891905 TTTTCTTTCTTTCTTCTTTATCT
1 TTTTCTTTCTTT-TT-TTTATCT
1891928 TCTTTCTTTCTTTTTT
1 T-TTTCTTTCTTTTTT
1891944 ACCTAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.12
20 7 0.21
21 2 0.06
22 4 0.12
23 6 0.18
24 11 0.32
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTTATCT
Found at i:1891944 original size:20 final size:20
Alignment explanation
Indices: 1891907--1891944 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1891897 TTTTTTCTTT
1891907 TTCTTTCTTTCTTCTTTATC
1 TTCTTTCTTTCTTCTTTATC
*
1891927 TTCTTTCTTTCTTTTTTA
1 TTCTTTCTTTCTTCTTTA
1891945 CCTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTCTTTCTTCTTTATC
Found at i:1891957 original size:24 final size:24
Alignment explanation
Indices: 1891904--1891957 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
1891894 TTTTTTTTTC
* *
1891904 TTTTTCTTTCTTTCTTCTTTATCT
1 TTTTTCTTTCTTTCTTCTCTAACT
* *
1891928 TCTTTCTTTCTTTTTTAC-CTAACT
1 TTTTTCTTTCTTTCTT-CTCTAACT
1891952 TTTTTC
1 TTTTTC
1891958 AACCCATAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTCTTTCTTTCTTCTCTAACT
Found at i:1893230 original size:32 final size:32
Alignment explanation
Indices: 1893167--1893768 Score: 1044
Period size: 32 Copynumber: 18.8 Consensus size: 32
1893157 AAAATGGTGA
* * * **
1893167 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1893199 TTTTAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1893231 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1893263 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1893295 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893327 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893359 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893391 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893423 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893455 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893487 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1893519 TTTGAAATGGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893551 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1893583 TTTGAAATGGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893615 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1893647 TTTGAAATGGGCTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1893679 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1893711 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1893743 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1893769 GATTTAAAAG
Statistics
Matches: 543, Mismatches: 27, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 13 0.02
32 530 0.98
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1893786 original size:27 final size:26
Alignment explanation
Indices: 1893751--1894130 Score: 526
Period size: 27 Copynumber: 14.0 Consensus size: 26
1893741 GCTTTGAAAT
*
1893751 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
**
1893778 GGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
1893805 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
1893832 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
*
1893859 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1893886 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
*
1893913 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1893940 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
1893967 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
1893994 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1894021 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1894048 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACG-AGTTGTGGACTTAAAA
*
1894075 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCAC-GAGTTGTGGACTTAAAA
*
1894102 GGATGCCACGAGGTTGTGGACTTTAAAA
1 GGGTGCCACGA-GTTGTGGAC-TTAAAA
1894130 G
1 G
1894131 AAAATGCCAC
Statistics
Matches: 321, Mismatches: 22, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
26 6 0.02
27 304 0.95
28 11 0.03
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (26 bp):
GGGTGCCACGAGTTGTGGACTTAAAA
Found at i:1893819 original size:54 final size:54
Alignment explanation
Indices: 1893751--1894130 Score: 661
Period size: 54 Copynumber: 7.0 Consensus size: 54
1893741 GCTTTGAAAT
* *
1893751 GGGTGCCACAGAGTTGTGGATTTAAAAGGACGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
* * *
1893805 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1893859 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1893913 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
* * * *
1893967 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1894021 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
*
1894075 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAGGTTGTGGACTTTAAAA
1 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGAC-TTAAAA
1894130 G
1 G
1894131 AAAATGCCAC
Statistics
Matches: 308, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
54 301 0.98
55 7 0.02
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (54 bp):
GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
Found at i:1901601 original size:20 final size:21
Alignment explanation
Indices: 1901576--1901614 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1901566 TATACATATA
*
1901576 AATAAAACAAAAA-AAATGAT
1 AATAAAAAAAAAACAAATGAT
1901596 AATAAAAAAAAAACAAATG
1 AATAAAAAAAAAACAAATG
1901615 CAAACATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (21 bp):
AATAAAAAAAAAACAAATGAT
Found at i:1901969 original size:16 final size:16
Alignment explanation
Indices: 1901948--1902002 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
1901938 ATTTCATATT
1901948 TTTTTCTTTTTTTTTC
1 TTTTTCTTTTTTTTTC
*
1901964 TTTTTCTTTCTTTCTTC
1 TTTTTCTTT-TTTTTTC
* *
1901981 TTTATCTTCTTTCTTTC
1 TTTTTCTT-TTTTTTTC
1901998 TTTTT
1 TTTTT
1902003 TACCTAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.28
17 22 0.69
18 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:1901975 original size:20 final size:21
Alignment explanation
Indices: 1901946--1902003 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
1901936 CCATTTCATA
1901946 TTTT-TTTCTTTTTTTT-TCT
1 TTTTCTTTCTTTTTTTTATCT
1901965 TTTTCTTTCTTTCTTCTTTATCT
1 TTTTCTTTCTTT-TT-TTTATCT
1901988 TCTTTCTTTCTTTTTT
1 T-TTTCTTTCTTTTTT
1902004 ACCTAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.12
20 7 0.21
21 2 0.06
22 4 0.12
23 6 0.18
24 11 0.32
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTTATCT
Found at i:1902004 original size:20 final size:20
Alignment explanation
Indices: 1901967--1902004 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1901957 TTTTTTCTTT
1901967 TTCTTTCTTTCTTCTTTATC
1 TTCTTTCTTTCTTCTTTATC
*
1901987 TTCTTTCTTTCTTTTTTA
1 TTCTTTCTTTCTTCTTTA
1902005 CCTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTCTTTCTTCTTTATC
Found at i:1903690 original size:19 final size:20
Alignment explanation
Indices: 1903666--1903716 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1903656 CTATGCTTTG
**
1903666 TATCGATACATGTTC-ATTA
1 TATCGATACATGGACAATTA
*
1903685 TATCGATACATGGACAATTG
1 TATCGATACATGGACAATTA
1903705 TATCGATACATG
1 TATCGATACATG
1903717 AAACTAGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATGGACAATTA
Found at i:1903710 original size:20 final size:19
Alignment explanation
Indices: 1903663--1903716 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
1903653 ACACTATGCT
**
1903663 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
*
1903682 TTATATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
1903702 TTGTATCGATACATG
1 TTGTATCGATACATG
1903717 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:1904669 original size:38 final size:37
Alignment explanation
Indices: 1904606--1904684 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
1904596 ATTTAACTCA
*
1904606 ATTTAAAAATAATTTTGTGAGTAAATTAATTTTTATTT
1 ATTTAAAAATAATTTTGTGAGTAAATTAA-TTATATTT
* *
1904644 ATTTAAAAATGATGTTT-TGTA-TAAATTTATTATATTT
1 ATTTAAAAATAAT-TTTGTG-AGTAAATTAATTATATTT
1904681 ATTT
1 ATTT
1904685 TTTAAATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 11 0.31
38 21 0.58
39 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (37 bp):
ATTTAAAAATAATTTTGTGAGTAAATTAATTATATTT
Found at i:1905739 original size:18 final size:17
Alignment explanation
Indices: 1905678--1905736 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
1905668 TTATCTATTA
*
1905678 AAATTTTTAATTTTTTT
1 AAATATTTAATTTTTTT
*
1905695 CAAATATGT-ATTTTTATT
1 -AAATATTTAATTTTT-TT
*
1905713 -ATTATTTAATTTTTTT
1 AAATATTTAATTTTTTT
1905729 AAATATTT
1 AAATATTT
1905737 TAAATAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 7 0.21
17 18 0.55
18 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
AAATATTTAATTTTTTT
Found at i:1913156 original size:2 final size:2
Alignment explanation
Indices: 1913149--1913197 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1913139 TAGATTTAGC
1913149 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
1913191 TA TA TA T
1 TA TA TA T
1913198 TAAAAACTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1914582 original size:17 final size:16
Alignment explanation
Indices: 1914562--1914615 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
1914552 TTTAATCACT
1914562 AAATTGTTTTATTATTA
1 AAATT-TTTTATTATTA
*
1914579 AAATTATTTTATCATTA
1 AAATT-TTTTATTATTA
* *
1914596 ATATTTATTAATTATTA
1 AAATTT-TTTATTATTA
1914613 AAA
1 AAA
1914616 ATTAAAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
AAATTTTTTATTATTA
Found at i:1916195 original size:13 final size:13
Alignment explanation
Indices: 1916177--1916228 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 13
1916167 AAATATTTCA
1916177 TTTTTATTATAAT
1 TTTTTATTATAAT
1916190 TTTTTATTTCATTAATT
1 TTTTTA-TT-A-TAA-T
1916207 TTTTTAATTATAAT
1 TTTTT-ATTATAAT
1916221 TTTTTATT
1 TTTTTATT
1916229 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.26
14 8 0.24
15 4 0.12
16 4 0.12
17 8 0.24
18 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTATTATAAT
Found at i:1916207 original size:16 final size:14
Alignment explanation
Indices: 1916177--1916229 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
1916167 AAATATTTCA
1916177 TTTTTA-TTATAAT
1 TTTTTATTTATAAT
1916190 TTTTTATTTCATTAATT
1 TTTTTATTT-A-TAA-T
*
1916207 TTTTTAATTATAAT
1 TTTTTATTTATAAT
1916221 TTTTTATTT
1 TTTTTATTT
1916230 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 6 0.18
14 11 0.32
15 4 0.12
16 4 0.12
17 9 0.26
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTATTTATAAT
Found at i:1916592 original size:49 final size:49
Alignment explanation
Indices: 1916520--1916617 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
1916510 TTGAACGCCC
1916520 TTAGTGATTCAAGATCACTATTACATAAAATCAGGTTCAATGAATACTT
1 TTAGTGATTCAAGATCACTATTACATAAAATCAGGTTCAATGAATACTT
1916569 TTAGTGATTCAAGATCACTATTACATAAAATCAGGTTCAATGAATACTT
1 TTAGTGATTCAAGATCACTATTACATAAAATCAGGTTCAATGAATACTT
1916618 ACCAAACGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (49 bp):
TTAGTGATTCAAGATCACTATTACATAAAATCAGGTTCAATGAATACTT
Found at i:1919169 original size:2 final size:2
Alignment explanation
Indices: 1919162--1919191 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1919152 GCAAGATAGA
1919162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1919192 GCTTGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1919572 original size:2 final size:2
Alignment explanation
Indices: 1919565--1919592 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1919555 CATCAATCTA
1919565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1919593 TTCCAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1923452 original size:95 final size:95
Alignment explanation
Indices: 1923289--1923483 Score: 336
Period size: 95 Copynumber: 2.1 Consensus size: 95
1923279 TTGAAAAACC
* *
1923289 TATTTCTTTGCTCTTCTTCCCAAACATAACAATATGATTCTTTCTTCCACGTTTGCACAGCTAAG
1 TATTTCTTTGCCCTTCTTCCCAAACATAACAATATGATTCTTTCTTCCAAGTTTGCACAGCTAAG
**
1923354 ATGACACCACATTCTTCTTTCTTTCCTTTA
66 ATGACACCACATTCTTCTTTCTTTCCAGTA
*
1923384 TATTTCTTTGCCCTTCTTCCCAAACATAACAATATGATTCTTTCTTCCAAGTTTGCACCGCTAAG
1 TATTTCTTTGCCCTTCTTCCCAAACATAACAATATGATTCTTTCTTCCAAGTTTGCACAGCTAAG
*
1923449 ATGACACTACATTCTTCTTTCTTTCCAGTA
66 ATGACACCACATTCTTCTTTCTTTCCAGTA
1923479 TATTT
1 TATTT
1923484 TACCCTCTCT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.42
Consensus pattern (95 bp):
TATTTCTTTGCCCTTCTTCCCAAACATAACAATATGATTCTTTCTTCCAAGTTTGCACAGCTAAG
ATGACACCACATTCTTCTTTCTTTCCAGTA
Found at i:1926760 original size:6 final size:6
Alignment explanation
Indices: 1926732--1926773 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
1926722 CTTCTTTATG
* *
1926732 TTTCTT TTTCATT TTT-TT CTTCTT TTTCTT TTTCTT ATTCTT
1 TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
1926774 CTTTATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 4 0.13
6 22 0.71
7 5 0.16
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:1926763 original size:15 final size:15
Alignment explanation
Indices: 1926732--1926777 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1926722 CTTCTTTATG
1926732 TTTCTTTTTCATT-TT
1 TTTCTTTTTC-TTCTT
1926747 TTTCTTCTTT-TTCTT
1 TTTCTT-TTTCTTCTT
*
1926762 TTTCTTATTCTTCTT
1 TTTCTTTTTCTTCTT
1926777 T
1 T
1926778 ATACATCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 20 0.74
16 3 0.11
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTCTTCTT
Found at i:1926772 original size:18 final size:18
Alignment explanation
Indices: 1926733--1926773 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1926723 TTCTTTATGT
*
1926733 TTCTTTTTCATTTTTTTC
1 TTCTTTTTCATTTTTTTA
1926751 TTCTTTTTC-TTTTTCTTA
1 TTCTTTTTCATTTTT-TTA
1926769 TTCTT
1 TTCTT
1926774 CTTTATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTCTTTTTCATTTTTTTA
Found at i:1926775 original size:24 final size:24
Alignment explanation
Indices: 1926702--1926776 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
1926692 TTCTATTTAA
* *
1926702 TTCTTTTACCTTTTTC-TAGTCTTC
1 TTCTTTT-TCTTTTTCTTATTCTTC
*
1926726 TT-TATGTTTCTTTTTCATT-TTTTTC
1 TTCT-T-TTTCTTTTTC-TTATTCTTC
1926751 TTCTTTTTCTTTTTCTTATTCTTC
1 TTCTTTTTCTTTTTCTTATTCTTC
1926775 TT
1 TT
1926777 TATACATCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.07
24 27 0.66
25 9 0.22
26 2 0.05
ACGTcount: A:0.07, C:0.19, G:0.03, T:0.72
Consensus pattern (24 bp):
TTCTTTTTCTTTTTCTTATTCTTC
Found at i:1931342 original size:20 final size:20
Alignment explanation
Indices: 1931317--1931373 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1931307 GTAAAAAGAT
1931317 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
1931337 AGAATGTATCGAGACATTGA
1 AGAATGTATCGATACATTGA
*
1931357 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1931374 CTAGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1931385 original size:71 final size:71
Alignment explanation
Indices: 1931288--1931425 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
1931278 TACATTACTC
* * *
1931288 AATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTGAAGAATGTATCGAGACA
1 AATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGACACATTGAAGAATGTATCGAGACA
1931353 TTGAAA
66 TTGAAA
*
1931359 AATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGACACATTGAAGAATGTATCGATACA
1 AATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGACACATTGAAGAATGTATCGAGACA
1931424 TT
66 TT
1931426 CATACATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.27
Consensus pattern (71 bp):
AATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGACACATTGAAGAATGTATCGAGACA
TTGAAA
Found at i:1931413 original size:20 final size:20
Alignment explanation
Indices: 1931388--1931425 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1931378 GTAAAAAGAC
1931388 AGAATGTATCGACACATTGA
1 AGAATGTATCGACACATTGA
*
1931408 AGAATGTATCGATACATT
1 AGAATGTATCGACACATT
1931426 CATACATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGACACATTGA
Found at i:1941798 original size:52 final size:52
Alignment explanation
Indices: 1941720--1941848 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1941710 CGAAATATGA
*
1941720 AAATTTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1941772 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1941824 AAATTTGCCTCCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1941849 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1941859 original size:52 final size:51
Alignment explanation
Indices: 1941720--1941868 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 51
1941710 CGAAATATGA
* *
1941720 AAATTTGCCTGCATGTATCGATACATTTCAT-GGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
* *
1941772 AAATTTGCCTGTATGTATCGATACATTTCAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
* *
1941824 AAATTTGCCTCCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AACATCAGTGTATCGATACA
1941869 ATGTATTGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.97
53 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAACATCAGTGTATCGATACATCTGGGC
Found at i:1941968 original size:32 final size:32
Alignment explanation
Indices: 1941926--1941996 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1941916 AGCTTCGTAG
1941926 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* * *
1941958 TGATACATTGTATCGATATAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1941990 CGATACA
1 CGATACA
1941997 AATCGTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1942186 original size:10 final size:10
Alignment explanation
Indices: 1942156--1942193 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1942146 CGGGCTTAAC
1942156 AAAAAGTTAT
1 AAAAAGTTAT
*
1942166 AAAAA--TCT
1 AAAAAGTTAT
1942174 AAAAAGTTAT
1 AAAAAGTTAT
1942184 AAAAAGTTAT
1 AAAAAGTTAT
1942194 GAATTTGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.29
10 17 0.71
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (10 bp):
AAAAAGTTAT
Found at i:1942799 original size:29 final size:29
Alignment explanation
Indices: 1942747--1942851 Score: 117
Period size: 29 Copynumber: 3.6 Consensus size: 29
1942737 AAGAAGATGC
1942747 CACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CACCAAC-T-TGTGGGCTTTTGAAAGGGTTG
*
1942778 CACCAACTTGTGTGCTTTTG-AA-GGTTG
1 CACCAACTTGTGGGCTTTTGAAAGGGTTG
** *
1942805 CCACTGACTTGTGGGC-TTTGAAAGGGGTG
1 -CACCAACTTGTGGGCTTTTGAAAGGGTTG
1942834 CTACCAACTTGTGGGCTT
1 C-ACCAACTTGTGGGCTT
1942852 AAAAGGGTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 9 0.15
28 17 0.27
29 27 0.44
30 2 0.03
31 7 0.11
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.32
Consensus pattern (29 bp):
CACCAACTTGTGGGCTTTTGAAAGGGTTG
Found at i:1942874 original size:56 final size:57
Alignment explanation
Indices: 1942757--1942863 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 57
1942747 CACCAACTTG
* * ** *
1942757 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCACCAACTTGTGGGCTTTAAAAGGGTGCCACTGACT
1942814 TGTGGGC-TTTGAAAGGGGTGCTACCAACTTGTGGGC-TTAAAAGGGTGCCA
1 TGTGGGCTTTTGAAAGGGGTGC-ACCAACTTGTGGGCTTTAAAAGGGTGCCA
1942864 TAGAGTTGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
56 24 0.55
57 20 0.45
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.31
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAGGGGTGCACCAACTTGTGGGCTTTAAAAGGGTGCCACTGACT
Found at i:1942960 original size:36 final size:36
Alignment explanation
Indices: 1942852--1943019 Score: 211
Period size: 34 Copynumber: 4.8 Consensus size: 36
1942842 TTGTGGGCTT
* * *
1942852 AAAAGGGTGCCATAGAGTTGTGGAC-TT-AAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
* *
1942886 AAAAGAGTGCCACGGAGTTGTGAGC-TT-AAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
1942920 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
* * *
1942956 AAAAGAGCGCCGCAGAGTTGTGGGCTTTAAAAAGAA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
* *
1942992 AAAAG-GTGCCACGGAGTTGTGGACTTTA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTA
1943020 GAAGGTTGCC
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
34 52 0.44
35 21 0.18
36 45 0.38
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.20
Consensus pattern (36 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
Found at i:1942976 original size:70 final size:71
Alignment explanation
Indices: 1942852--1943019 Score: 218
Period size: 71 Copynumber: 2.4 Consensus size: 71
1942842 TTGTGGGCTT
* * * *
1942852 AAAAGGGTGCCATAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGAGC-TTA
1 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGCGCCACAGAGTTGTGAGCTTTA
*
1942914 AAAGGA
66 AAAAGA
* * *
1942920 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAAAGAGCGCCGCAGAGTTGTGGGCTTTA
1 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGCGCCACAGAGTTGTGAGCTTTA
1942985 AAAAGA
66 AAAAGA
*
1942991 AAAA-AGGTGCCACGGAGTTGTGGACTTTA
1 AAAAGA-GTGCCACAGAGTTGTGGACTTTA
1943020 GAAGGTTGCC
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
68 22 0.26
69 2 0.02
70 29 0.34
71 33 0.38
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.20
Consensus pattern (71 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGCGCCACAGAGTTGTGAGCTTTA
AAAAGA
Found at i:1943070 original size:30 final size:29
Alignment explanation
Indices: 1943036--1943247 Score: 220
Period size: 30 Copynumber: 7.4 Consensus size: 29
1943026 TGCCGCTGGC
1943036 TTGTGGGCTTTGGAAAATAGTGCCACTGAT
1 TTGTGGGCTTTGGAAAAT-GTGCCACTGAT
**
1943066 TTGTGGGCTTT-GAAGGT-TGCCACTGAT
1 TTGTGGGCTTTGGAAAATGTGCCACTGAT
* * * *
1943093 TTGTGGGCTTTGAAAAAGGGTGCGATTGAT
1 TTGTGGGCTTTGGAAAA-TGTGCCACTGAT
* **
1943123 TTGTGGGCGTT-GAAGGT-TGCCACTGAT
1 TTGTGGGCTTTGGAAAATGTGCCACTGAT
* *
1943150 TTGTGGGCTTCGGAAAAGGGTGCCACTGAT
1 TTGTGGGCTTTGGAAAA-TGTGCCACTGAT
**
1943180 TTGTGGGCTTT-GAAGGT-TGCCACTGAT
1 TTGTGGGCTTTGGAAAATGTGCCACTGAT
*
1943207 TTGTGGGCTTTGGAAAATGGTGCCACTGAC
1 TTGTGGGCTTTGGAAAAT-GTGCCACTGAT
1943237 TTGTGGGCTTT
1 TTGTGGGCTTT
1943248 TAAAAAGGGT
Statistics
Matches: 146, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
27 59 0.40
28 9 0.06
29 9 0.06
30 69 0.47
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (29 bp):
TTGTGGGCTTTGGAAAATGTGCCACTGAT
Found at i:1943097 original size:57 final size:57
Alignment explanation
Indices: 1942991--1943247 Score: 361
Period size: 57 Copynumber: 4.5 Consensus size: 57
1942981 TTTAAAAAGA
* * * * * **
1942991 AAAAAGGTGCCACGGAGTTGTGGACTTTAGAAGGTTGCCGCTGGCTTGTGGGCTTTGG
1 AAAAGGGTGCCACTGATTTGTGGGCTTT-GAAGGTTGCCACTGATTTGTGGGCTTTGG
** *
1943049 AAAATAGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTTGA
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTTGG
* * * *
1943106 AAAAGGGTGCGATTGATTTGTGGGCGTTGAAGGTTGCCACTGATTTGTGGGCTTCGG
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTTGG
1943163 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTTGG
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTTGG
* *
1943220 AAAATGGTGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACTGATTTGTGGGCTTT
1943248 TAAAAAGGGT
Statistics
Matches: 177, Mismatches: 22, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
57 154 0.87
58 23 0.13
ACGTcount: A:0.19, C:0.14, G:0.35, T:0.32
Consensus pattern (57 bp):
AAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTTGG
Found at i:1944711 original size:26 final size:28
Alignment explanation
Indices: 1944681--1944743 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 28
1944671 ATTCGGACCC
1944681 TTTTTGTTGT-TGTTTTTTTTCTT-TTT
1 TTTTTGTTGTGTGTTTTTTTTCTTGTTT
*
1944707 TTTTTGTT-TGTGTTTTTTTTTTTGTTT
1 TTTTTGTTGTGTGTTTTTTTTCTTGTTT
*
1944734 TTTTTCTTGT
1 TTTTTGTTGT
1944744 AGAGGATGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.03
26 20 0.62
27 10 0.31
28 1 0.03
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (28 bp):
TTTTTGTTGTGTGTTTTTTTTCTTGTTT
Found at i:1944743 original size:12 final size:12
Alignment explanation
Indices: 1944690--1944743 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
1944680 CTTTTTGTTG
1944690 TTGTTTTTTTTC
1 TTGTTTTTTTTC
* *
1944702 TTTTTTTTTTGTT
1 TTGTTTTTTT-TC
*
1944715 TGTGTTTTTTTTT
1 T-TGTTTTTTTTC
1944728 TTGTTTTTTTTC
1 TTGTTTTTTTTC
1944740 TTGT
1 TTGT
1944744 AGAGGATGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 23 0.64
13 5 0.14
14 8 0.22
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (12 bp):
TTGTTTTTTTTC
Found at i:1958669 original size:52 final size:52
Alignment explanation
Indices: 1958591--1958719 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1958581 CGAAATATGA
* *
1958591 AAATTTGCCTGCATGTATCGATACATTTCATGGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1958643 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1958695 AAATTTGCCTCCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1958720 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1958730 original size:52 final size:51
Alignment explanation
Indices: 1958591--1958740 Score: 169
Period size: 52 Copynumber: 2.9 Consensus size: 51
1958581 CGAAATATGA
* * *
1958591 AAATTTGCCTGCATGTATCGATACATTTCAT-GGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
* * *
1958643 AAATTTGCCTGTATGTATTGATACATTTCAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ACATCAGTGTATCGATACATCTGGGC
* *
1958695 AAATTTGCCTCCATGTATCGATACAAAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATAC-AACATCAGTGTATCGATACAT
1958741 TTGAGTAATG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.97
53 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAACATCAGTGTATCGATACATCTGGGC
Found at i:1959534 original size:20 final size:20
Alignment explanation
Indices: 1959509--1959585 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1959499 GTAAAAAGAT
1959509 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
1959529 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
1959549 TA-CATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
*
1959569 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1959586 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1959567 original size:40 final size:39
Alignment explanation
Indices: 1959511--1959728 Score: 146
Period size: 40 Copynumber: 5.9 Consensus size: 39
1959501 AAAAAGATAG
* *
1959511 AATGTATCGATACATTGAAGAATGTATCGATACATTCAT
1 AATGTATCAATACATTGAAAAATGTATCGATACATTCAT
1959550 ACATGTATCAATACATTGAAAAATGTATCGATACA-TC-T
1 A-ATGTATCAATACATTGAAAAATGTATCGATACATTCAT
* * * *
1959588 -A-G-GT-AA-A-A-GGACAAAGTGTATCTATACATTCAT
1 AATGTATCAATACATTGA-AAAATGTATCGATACATTCAT
* *
1959621 ACATGTATCGATACATTGAAAAATATATCGATA-A---AT
1 A-ATGTATCAATACATTGAAAAATGTATCGATACATTCAT
* * ** *
1959657 -TTGGAT-AA-A-AAAGATAGAATGTATCGATACATTCAT
1 AATGTATCAATACATTGA-AAAATGTATCGATACATTCAT
*
1959693 ATATGTATCGATACATTGAAAAATGTATCGATACAT
1 A-ATGTATCAATACATTGAAAAATGTATCGATACAT
1959729 CTAGGTAAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 43
0.66 0.12 0.22
Matches are distributed among these distances:
30 2 0.02
31 18 0.14
32 16 0.12
33 5 0.04
34 5 0.04
35 2 0.02
36 6 0.05
37 1 0.01
38 6 0.05
39 6 0.05
40 60 0.45
41 5 0.04
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (39 bp):
AATGTATCAATACATTGAAAAATGTATCGATACATTCAT
Found at i:1959700 original size:20 final size:20
Alignment explanation
Indices: 1959674--1959728 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1959664 AAAAAGATAG
*
1959674 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1959694 TATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1959714 AATGTATCGATACAT
1 AATGTATCGATACAT
1959729 CTAGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1959738 original size:72 final size:72
Alignment explanation
Indices: 1959529--1959739 Score: 311
Period size: 72 Copynumber: 2.9 Consensus size: 72
1959519 GATACATTGA
*
1959529 AGAATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGTATCGATACATCTAGGT-A
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAA
*
1959593 AAAGGAC
66 AAAAGAC
* * * *
1959600 A-AAGTGTATCTATACATTCATACATGTATCGATACATTGAAAAATATATCGATAAAT-TTGGAT
1 AGAA-TGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTAGG-T
*
1959663 AAAAAAGAT
64 AAAAAAGAC
*
1959672 AGAATGTATCGATACATTCATATATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAA
1959737 AAA
66 AAA
1959740 TGTGACTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
70 5 0.04
71 51 0.41
72 62 0.50
73 5 0.04
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (72 bp):
AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAA
AAAAGAC
Found at i:1960888 original size:163 final size:164
Alignment explanation
Indices: 1960557--1961071 Score: 493
Period size: 163 Copynumber: 3.1 Consensus size: 164
1960547 AAATTATGAG
** * *
1960557 GTTTTCTTCTCCAT-AA-TTTTTTAGGAAGATTTTCATGGGTTTAAAATTTTTAAAATTCATCAA
1 GTTTTCTAATCCATAAATTTTTTTAGGGAGATTTTCATTGGTTTAAAATTTTTAAAATTCATCAA
* * * * *
1960620 ATATTATTATTTAATTCATATTAAATCAATTTT-TAAAAATTCAATCATTTTCA-CAGGTTTTTG
66 ATAATATTATTTAATTCACATTAAATCAGTTTTAT-AAAATTCATTTATTTTCATCA-GTTTTTG
** * *
1960683 ATTTTTTTTGAAATTCTCCTA--TTAGC-GAAAATAGA
129 ATTTTTTTTGAAA-TC-CCTATTTTCTCAAAAAATCGA
* * * **
1960718 TTTTTCTATTCTATAAATTTTTTTAGGGAGATTTTTC-TTGGTTTTTAATTTTTAAAATTCATCA
1 GTTTTCTAATCCATAAATTTTTTTAGGGAGA-TTTTCATTGGTTTAAAATTTTTAAAATTCATCA
* * *
1960782 AATAATATTATTTAATTCACATTAAATCAGTTTTATAATATTTATTTATTTTCATGAGTTTTTGA
65 AATAATATTATTTAATTCACATTAAATCAGTTTTATAAAATTCATTTATTTTCATCAGTTTTTGA
1960847 -TTTTTTTGAAATCCCTATTTTCTCAAAAAATCGA
130 TTTTTTTTGAAATCCCTATTTTCTCAAAAAATCGA
*** *
1960881 GTTTTCTAATCCATAAATATTTCCAAGGG-GATTTTCTTTGGTTTAAAATTTTTAAAATGT-ATC
1 GTTTTCTAATCCATAAAT-TTTTTTAGGGAGATTTTCATTGGTTTAAAATTTTTAAAAT-TCATC
* * * **
1960944 TAATAATGTGATGAAATTTC-CATTAAATCAGTTTTGA-AAAATTCATTTCATTTTCATTCA-TT
64 AAATAATATTATTTAA-TTCACATTAAATCAGTTTT-ATAAAATTCATTT-ATTTTCA-TCAGTT
* *
1961006 TTTGATTTTTTCCTTGAAATGCCC-ATTTTCCTAAAAAAATCAA
125 TTTGATTTTTT--TTGAAAT-CCCTATTTT-CTCAAAAAATCGA
*
1961049 GTTTTCTACTCCATAAATTTTTT
1 GTTTTCTAATCCATAAATTTTTT
1961072 CGAAAAAATT
Statistics
Matches: 293, Mismatches: 41, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
160 4 0.01
161 12 0.04
162 21 0.07
163 170 0.58
164 33 0.11
165 7 0.02
167 15 0.05
168 31 0.11
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (164 bp):
GTTTTCTAATCCATAAATTTTTTTAGGGAGATTTTCATTGGTTTAAAATTTTTAAAATTCATCAA
ATAATATTATTTAATTCACATTAAATCAGTTTTATAAAATTCATTTATTTTCATCAGTTTTTGAT
TTTTTTTGAAATCCCTATTTTCTCAAAAAATCGA
Found at i:1961184 original size:168 final size:163
Alignment explanation
Indices: 1960801--1961186 Score: 388
Period size: 168 Copynumber: 2.3 Consensus size: 163
1960791 ATTTAATTCA
* * *
1960801 CATTAAATCAGTTTT-ATAATATTTATTTATTTTCATGAGTTTTTGA-TTTTTTTGAAATCCCTA
1 CATTAAATAAGTTTTGA-AAAATTAATTTATTTTCATGAG-TTTTGATTTTTTTTGAAATCCCTA
* * *** * *
1960864 TTTTCTCAAAAAATCGAGTTTTCTAATCCATAAATATTTCCAAGGGGATTTTCTTTGGTTTAAAA
64 TTTTCTAAAAAAATCAAGTTTTCTAATCCATAAATATTTCCAAGAAAATTTTCTTCGATTTAAAA
* *
1960929 TTTTTAAAATGTATCTAATAATGTGATGAAATTTC
129 TTTTTAAAATGTATATAATAATGTCATGAAATTTC
* * * *
1960964 CATTAAATCAGTTTTGAAAAATTCATTTCATTTTCATTCATTTTTGATTTTTTCCTTGAAATGCC
1 CATTAAATAAGTTTTGAAAAATTAATTT-ATTTTCA-TGAGTTTTGATTTTTT--TTGAAAT-CC
* * *
1961029 C-ATTTTCCTAAAAAAATCAAGTTTTCTACTCCATAAATTTTTTCGAA-AAAATTTTCTTCGATT
61 CTATTTT-CTAAAAAAATCAAGTTTTCTAATCCATAAA-TATTTCCAAGAAAATTTTCTTCGATT
* * **
1961092 TAAAATTTTTAAAATTTATATAATATTGTCATTTAA-TTC
124 TAAAATTTTTAAAATGTATATAATAATGTCATGAAATTTC
* *
1961131 CAATTAAATAATTTTTTGAATAATCTAATTTATTTT-ATGAGTTTTGAATTTTTTTT
1 C-ATTAAATAA-GTTTTGAAAAAT-TAATTTATTTTCATGAGTTTTG-ATTTTTTTT
1961187 CTATTTATTA
Statistics
Matches: 184, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
163 24 0.13
164 14 0.08
165 7 0.04
166 2 0.01
167 23 0.12
168 87 0.47
169 22 0.12
170 5 0.03
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.49
Consensus pattern (163 bp):
CATTAAATAAGTTTTGAAAAATTAATTTATTTTCATGAGTTTTGATTTTTTTTGAAATCCCTATT
TTCTAAAAAAATCAAGTTTTCTAATCCATAAATATTTCCAAGAAAATTTTCTTCGATTTAAAATT
TTTAAAATGTATATAATAATGTCATGAAATTTC
Found at i:1961581 original size:16 final size:16
Alignment explanation
Indices: 1961545--1961583 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1961535 TAGAAGAGAT
1961545 AAAAAGAAAAAAAAGA
1 AAAAAGAAAAAAAAGA
*
1961561 CAAAAGAAAAGAAAA-A
1 AAAAAGAAAA-AAAAGA
1961577 AAAAAGA
1 AAAAAGA
1961584 GCTTTTAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAGA
Found at i:1961707 original size:11 final size:11
Alignment explanation
Indices: 1961669--1961724 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
1961659 GCAAGTAAGC
*
1961669 AAAAAAGAGAG
1 AAAAAAGAAAG
*
1961680 GAAAAA-AAAG
1 AAAAAAGAAAG
1961690 AAAAAAGAAAG
1 AAAAAAGAAAG
**
1961701 AAAAAAGTGAG
1 AAAAAAGAAAG
*
1961712 AAAATAGAAAG
1 AAAAAAGAAAG
1961723 AA
1 AA
1961725 TAAGCTAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 8 0.22
11 28 0.78
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1962801 original size:20 final size:19
Alignment explanation
Indices: 1962778--1962850 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1962768 CACACCCAGA
*
1962778 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1962798 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* **
1962817 TGTATCGATACTTGGACAAT
1 TGTATCGATACATGTTC-AT
1962837 TGTATCGATACATG
1 TGTATCGATACATG
1962851 AGATTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.35
20 29 0.63
21 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1962939 original size:33 final size:33
Alignment explanation
Indices: 1962879--1962943 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1962869 CTACCATTGT
* *
1962879 TTGTATCGATACATGGTACAATGTATCGATACG
1 TTGTATCGATACATGATACAATATATCGATACG
*
1962912 TTGTATCGATACATGATGA-ATTATATCGATAC
1 TTGTATCGATACATGAT-ACAATATATCGATAC
1962944 ATTGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATATATCGATACG
Found at i:1968067 original size:51 final size:51
Alignment explanation
Indices: 1968000--1968115 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
1967990 AAATAACGGG
* * * * * *
1968000 GTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAACTAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGA
*
1968051 GTTAGG-GTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGG
1 GTT-GGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGA
1968102 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1968116 TCGGAAACAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.04
51 52 0.93
52 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGA
Found at i:1968133 original size:130 final size:133
Alignment explanation
Indices: 1967858--1968194 Score: 364
Period size: 130 Copynumber: 2.6 Consensus size: 133
1967848 TTTTAGAGAT
* * * *
1967858 AACAACGGGGCTAGAGTATCCCCGATTATG-GAAAAATGGTGTTTTAAAAAGTAAAATCAGGGTT
1 AACAACGGGGTTGGAGTATCCCCGATTATGAG-AAATTGGTGTTTTAAAAACTAAAATCAGGGTT
* * * *
1967922 AGAGTATCTCTGATTATAAAAAAATTGATGCTTTAGAAATAAAGGCCGGGGTTGGAGTATCCCCA
65 AGAGTATCCCCGATTATAAAAAAATTGATACTTTAGAAATAAAGACCGGGGTTGGAGTATCCCCA
1967987 TGAA
130 TGAA
* * **
1967991 AATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTT-GGAACTAAAATC-GGAGTT
1 AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAAAAACTAAAATCAGG-GTT
* * * *
1968054 AGGGTATCCCCGATTAT-GAAAAATTGGTATTTTAGAAATAAA-ACCGGGGTTGGAGTATCCCC-
65 AGAGTATCCCCGATTATAAAAAAATTGATACTTTAGAAATAAAGACCGGGGTTGGAGTATCCCCA
*
1968116 TCGGA
130 T-GAA
* * ** * * * * *
1968121 AACAACGGGGTTGGAGTATCCCTGTTTATGAGAAATTAATATTTTAGAAA-TAAAACCGGGGTTG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAAAAACTAAAATCAGGGTTA
1968185 GAGTATCCCC
66 GAGTATCCCC
1968195 TCGAAAATAA
Statistics
Matches: 171, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
129 1 0.01
130 77 0.45
131 28 0.16
132 26 0.15
133 38 0.22
134 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (133 bp):
AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAAAAACTAAAATCAGGGTTA
GAGTATCCCCGATTATAAAAAAATTGATACTTTAGAAATAAAGACCGGGGTTGGAGTATCCCCAT
GAA
Found at i:1968140 original size:79 final size:79
Alignment explanation
Indices: 1968057--1968710 Score: 979
Period size: 79 Copynumber: 8.3 Consensus size: 79
1968047 CGGAGTTAGG
*
1968057 GTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
*
1968122 ACAACGGGGTTGGA
66 ATAACGGGGTTGGA
* * * * *
1968136 GTATCCCTGTTTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
1968201 ATAACGGGGTTGGA
66 ATAACGGGGTTGGA
* * * *
1968215 GTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
*
1968280 ATAACGGGGTTGGG
66 ATAACGGGGTTGGA
* * * **
1968294 GTACCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCCTCATAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
1968359 ATAACGGGGTTGGA
66 ATAACGGGGTTGGA
* * * *
1968373 GTATCCCCGATTATGAGAAATTAAAATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
1968438 ATAACGGGGTTGGA
66 ATAACGGGGTTGGA
* * * * *
1968452 GTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTTGAGTATCCCCGCGGAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
*
1968517 ACAACGGGGTTGGA
66 ATAACGGGGTTGGA
* * * *
1968531 GTATCCCTGATTATG-AAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTATCCCTTCGGAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
1968595 ATAACGGGGTTGGA
66 ATAACGGGGTTGGA
* * *
1968609 GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT-CCCTCGGAA
1 GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
1968673 ATAACGGGGTTGGA
66 ATAACGGGGTTGGA
*
1968687 GTATCCCCGATTGTGAAAAATTGA
1 GTATCCCCGATTATGAAAAATTGA
1968711 GAAACTTAAC
Statistics
Matches: 523, Mismatches: 51, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
78 113 0.22
79 410 0.78
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAA
ATAACGGGGTTGGA
Found at i:1969940 original size:35 final size:35
Alignment explanation
Indices: 1969911--1970152 Score: 434
Period size: 35 Copynumber: 6.9 Consensus size: 35
1969901 TTTTATTTTT
1969911 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1969945 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
1969980 ATGCCCATCATTTCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
1970015 ATGCCAATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1970050 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
1970085 ATGCCCATCATTCCATGCCTTCATTTTTTATTTTCC
1 ATGCCCATCATTCCATGCCTTCA-TTTTTATATTCC
1970121 ATGCCCATCATTCCATGCCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
1970153 ATTTTTTTTA
Statistics
Matches: 200, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
34 31 0.16
35 135 0.68
36 34 0.17
ACGTcount: A:0.19, C:0.30, G:0.06, T:0.45
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:1970850 original size:45 final size:45
Alignment explanation
Indices: 1970795--1970908 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
1970785 AAGAAAAATA
*
1970795 AAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
1 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
**
1970840 AAGTGTGTCCTGCTCTTTGAAAACAAAAGAGAAAAGAAGGGAAAG
1 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
*
1970885 AAGTGTGTCCTGCTCTTTAAGGAC
1 AAGTGTGTCCTGCTCTTTGAGGAC
1970909 TGAAAAGTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (45 bp):
AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
Found at i:1970986 original size:61 final size:61
Alignment explanation
Indices: 1970891--1971054 Score: 208
Period size: 61 Copynumber: 2.7 Consensus size: 61
1970881 AAAGAAGTGT
* **
1970891 GTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTG--AAAAGAAAAGGC
1 GTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGCAAAAAG-AAA-GC
* * *
1970952 GTCCTGCTTTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGC
1 GTCCTGCTCTTTAAGGACTGAAAAG-TGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGC
* *
1971013 ATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTG
1 GTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTAGTGTG
1971055 AGCTTTAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
60 3 0.03
61 74 0.84
62 6 0.07
63 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGC
Found at i:1971180 original size:94 final size:93
Alignment explanation
Indices: 1971009--1971450 Score: 327
Period size: 94 Copynumber: 4.9 Consensus size: 93
1970999 TGCAAAAAGA
* * * * *
1971009 AAGCATCCTGCTCTTTAAGGACT-GAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCT
1 AAGCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
1971073 GCTCTTTGAGGACTAAAGGGTGAAAGGAG
65 GCTCTTTGAGGACTAAAGGGTGAAAGGAG
1971102 AGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
1 A-AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
* ** **
1971167 GCTCTTTGTGGACTGAAA-GGTGCCACCA-
65 GCTCTTTGAGGACT-AAAGGGTGAAAGGAG
*** * ** * ** * ** * * * **
1971195 ACTTGT-GTGAGCTTT--GGA--AGG-CGT-CCTGC-TCTT-TGAAGAC--TGAAAGGTG-CCAC
1 AAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
* * * *
1971248 CAACTTGTGTGGGCTTTAAA-AG-G--A-GA-
66 C-TCTT-TGAGGAC--TAAAGGGTGAAAGGAG
* * *
1971274 AGGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT
1 AAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
1971337 GCTCTTTGAGGACTAAAGGGTGAAAGGAG
65 GCTCTTTGAGGACTAAAGGGTGAAAGGAG
1971366 AGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
1 A-AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCT
1971431 GCTCTTTGAGGACTGAAAGG
65 GCTCTTTGAGGACT-AAAGG
1971451 TGCCACCAAC
Statistics
Matches: 265, Mismatches: 54, Indels: 58
0.70 0.14 0.15
Matches are distributed among these distances:
79 4 0.02
80 10 0.04
81 10 0.04
82 11 0.04
83 8 0.03
84 6 0.02
85 6 0.02
86 9 0.03
87 8 0.03
88 6 0.02
89 14 0.05
90 4 0.02
91 8 0.03
92 3 0.01
93 23 0.09
94 123 0.46
95 12 0.05
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (93 bp):
AAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
CTCTTTGAGGACTAAAGGGTGAAAGGAG
Found at i:1971191 original size:55 final size:55
Alignment explanation
Indices: 1971107--1971355 Score: 333
Period size: 55 Copynumber: 4.5 Consensus size: 55
1971097 AGGAGAGAGC
*
1971107 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * ** *
1971162 GTCCTGCTCTTTGTGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTGGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
1971217 GTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G-G-A
* *
1971275 GGCGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 ---GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1971332 GTCCTGCTCTTTGAGGACT-AAAGG
1 GTCCTGCTCTTTGAGGACTGAAAGG
1971356 GTGAAAGGAG
Statistics
Matches: 171, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
54 26 0.15
55 92 0.54
56 1 0.01
57 1 0.01
58 1 0.01
59 1 0.01
60 30 0.18
61 19 0.11
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:1971216 original size:149 final size:153
Alignment explanation
Indices: 1970950--1971241 Score: 423
Period size: 149 Copynumber: 1.9 Consensus size: 153
1970940 AAAAGAAAAG
*
1970950 GCGTCCTGCTTTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTT--AAAAAGAAAG-AT
1971015 CCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTTT
63 CCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTTT
*
1971080 GAGGACT-AAAGGGTGAAAGGAGAGA
128 GAAGACTGAAAGGGTGAAAGGAGAGA
* * *
1971105 GCGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTT-AAAAG-GAG-TCC
1 GCGTCCTGCTCTTTGAGGACT-GGAAGATGCCACCAACTAGTGTGGGATTTAAAAAGAAAGATCC
** * **
1971166 TGCTCTTTGTGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTGGAAGGCGTCCTGCTCTTTGA
65 TGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTTTGA
1971231 AGACTGAAAGG
130 AGACTGAAAGG
1971242 TGCCACCAAC
Statistics
Matches: 125, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
149 67 0.54
150 5 0.04
151 2 0.02
152 5 0.04
155 41 0.33
156 5 0.04
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (153 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTAAAAAGAAAGATCCT
GCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTTTGAA
GACTGAAAGGGTGAAAGGAGAGA
Found at i:1971368 original size:264 final size:264
Alignment explanation
Indices: 1970891--1972386 Score: 1159
Period size: 264 Copynumber: 5.7 Consensus size: 264
1970881 AAAGAAGTGT
* * * *
1970891 GTCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
* * * * * * *
1970956 TGCTTTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAA--AGAAAGCATCCTG
60 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAGAAGGCGTCCTG
* * *
1971019 CTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCGTCCTGCTCTTTGAGG
123 CTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
1971084 ACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTG
187 ACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTG
1971149 GGCTTTAAAAGGA
252 GGCTTTAAAAGGA
* * *
1971162 GTCCTGCTCTTTGTGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTGGAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
*
1971227 TTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGA
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGA
*
1971292 GGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
131 GGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1971357 TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
196 TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
1971422 AGGA
261 AGGA
* *
1971426 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCGTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * * *
1971491 TTGAAGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGA
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGA
* * *
1971556 GGACTAAAGG-GCGA--AA---G-GAGGG-------A-GCGTCCTGCTCTTTGAGGACTAGGAAG
131 GGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA--AAG
* ** * * * *
1971606 CGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA--AAG-GGC-GCAA-
194 GGTGA--AA-----G-GAG-----AGA-GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAAC
* **
1971666 --G-GAGGG-------A-TC
245 TTGTGTGGGCTTTAAAAGGA
* * * * * * *
1971675 GTCCTACTCTTTGAGGATTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTC
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* *
1971739 TTTGAGGACT-AAAGG-GCGA--AA--------GG-------AGG-G-A-GCGTCTTGCTCTTTG
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTG
* *
1971782 AGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTCTGAGGACTGAA
130 AGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-AA
*
1971846 A-GGTGAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTT
192 AGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTT
* *
1971910 TAGAAGGC
257 TAAAAGGA
* *
1971918 GTCCTGCTCTTTGAGGACT-AAAGG-GCGA--AA---G-G-AGG----G--A-GCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * * * * *
1971967 TTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCGTCGTACTTTTTG
66 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTG
1972031 AGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAA-
130 AGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-AAAG
* * * * *
1972095 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAATGCCACC
194 GGTG--A--AA-----G-GAG-----AGA-GCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACC
* *
1972159 AACTTGTGTGGGCTTAAAAAAGAAAAGGT
242 AACTTGTGTGGGCTT------TAAAAGGA
1972188 GTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAAAC-TGTGTGGGCTTT-AAGAGGCGTCCTGC
1 GTCCTGCTCTTTGAGGACTGA-AAGGTGCCACC-AACTTGTGTGGGCTTTGAA-AGGCGTCCTGC
*
1972250 TCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----GAG-AGGCGTCCTGCTCT
63 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCT
* *
1972308 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGATTTGAAAGGAAAAAGGCATCCTGCTCTTTG
127 TTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-------AAAAGGCGTCCTGCTCTTTG
1972373 AGGACTAAAGGGTG
184 AGGACTAAAGGGTG
1972387 CCACCAACTT
Statistics
Matches: 995, Mismatches: 103, Indels: 237
0.75 0.08 0.18
Matches are distributed among these distances:
227 61 0.06
228 5 0.01
229 14 0.01
230 5 0.01
231 7 0.01
233 2 0.00
234 5 0.01
235 9 0.01
236 1 0.00
237 2 0.00
239 6 0.01
241 7 0.01
242 5 0.01
243 37 0.04
244 1 0.00
245 2 0.00
246 2 0.00
247 7 0.01
248 60 0.06
249 102 0.10
250 6 0.01
251 5 0.01
252 2 0.00
253 2 0.00
257 9 0.01
258 5 0.01
259 2 0.00
261 5 0.01
262 2 0.00
263 12 0.01
264 303 0.30
265 93 0.09
266 1 0.00
270 25 0.03
271 46 0.05
272 3 0.00
275 2 0.00
277 1 0.00
278 1 0.00
279 2 0.00
280 20 0.02
281 29 0.03
285 1 0.00
286 47 0.05
287 3 0.00
288 28 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (264 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGA
GGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
TGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
AGGA
Found at i:1971535 original size:55 final size:56
Alignment explanation
Indices: 1971371--1971560 Score: 269
Period size: 55 Copynumber: 3.3 Consensus size: 56
1971361 AGGAGAGAGC
*
1971371 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG-A
1 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
1971426 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
1971482 -TCGTGCTCTTTGAAGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAA
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC--A
1971539 GGCGTCCTGCTCTTTGAGGACT
1 ---GTCCTGCTCTTTGAGGACT
1971561 AAAGGGCGAA
Statistics
Matches: 120, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
54 3 0.03
55 99 0.82
56 1 0.01
57 1 0.01
61 16 0.13
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (56 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:1971660 original size:94 final size:94
Alignment explanation
Indices: 1971485--1972008 Score: 836
Period size: 94 Copynumber: 5.5 Consensus size: 94
1971475 AAAGGCATCG
*
1971485 TGCTCTTTGAAGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGC
1 TGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT--AA----AAGGCGTCCTGC
1971549 TCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCGTCC
59 TCTTTGAGGACTAAAGGGCGAAAGGAGGGAGCGTCC
*
1971585 TGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
* *
1971650 GGACTAAAGGGCGCAAGGAGGGATCGTCC
66 GGACTAAAGGGCGAAAGGAGGGAGCGTCC
* * * * *
1971679 TACTCTTTGAGGATTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGA
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
*
1971744 GGACTAAAGGGCGAAAGGAGGGAGCGTCT
66 GGACTAAAGGGCGAAAGGAGGGAGCGTCC
* *
1971773 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTCTGA
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
*
1971838 GGACTGAAA-GGTGAAAGGAGGGAGCGTCC
66 GGACT-AAAGGGCGAAAGGAGGGAGCGTCC
*
1971867 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAGAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
1971932 GGACTAAAGGGCGAAAGGAGGGAGCGTCC
66 GGACTAAAGGGCGAAAGGAGGGAGCGTCC
1971961 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1972009 AGAGAAAGCG
Statistics
Matches: 396, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
93 3 0.01
94 347 0.88
95 3 0.01
98 2 0.01
100 37 0.09
101 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (94 bp):
TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
GGACTAAAGGGCGAAAGGAGGGAGCGTCC
Found at i:1972123 original size:55 final size:55
Alignment explanation
Indices: 1971955--1972413 Score: 516
Period size: 55 Copynumber: 8.0 Consensus size: 55
1971945 AAAGGAGGGA
*
1971955 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG
* * * *
1972013 AAAGCGTCGTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 ---GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1972070 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
1972125 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT------TAAAAG
* * *
1972186 GTGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAAAC-TGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACC-AACTTGTGTGGGCTTTAAAAG
* *
1972241 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
1972296 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGATTTGAAAGGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-------AAAAG
* *
1972358 GCATCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAG
1972413 G
1 G
1972414 AAAAGGTGTC
Statistics
Matches: 351, Mismatches: 25, Indels: 50
0.82 0.06 0.12
Matches are distributed among these distances:
54 26 0.07
55 175 0.50
56 2 0.01
57 3 0.01
58 3 0.01
60 26 0.07
61 66 0.19
62 50 0.14
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:1972151 original size:28 final size:27
Alignment explanation
Indices: 1972065--1972150 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
1972055 TGTGGGCTTT
1972065 AAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAAGGCGTCCTGCTCTTTGAGGACTG
** ** * * * *
1972092 AAAAGTGCCACCAACT-TGTGTGGGCTTT
1 AAAAG-GCGTCCTGCTCTTTGAGGAC-TG
1972120 AAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAAGGCGTCCTGCTCTTTGAGGACTG
1972147 AAAA
1 AAAA
1972151 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 16, Indels: 6
0.65 0.26 0.10
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (27 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:1972177 original size:27 final size:27
Alignment explanation
Indices: 1972042--1972178 Score: 67
Period size: 27 Copynumber: 5.0 Consensus size: 27
1972032 GGACTGAAGG
*
1972042 TGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTAAAAA
* ** ** * * * * *
1972069 GGCGTCCTGCTCTTTGAGGACTGAAAAG
1 TGCCACCAACT-TGTGTGGGCTTAAAAA
*
1972097 TGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTAAAAA
* ** ** * * * *
1972124 GGCGTCCTGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACT-TGTGTGGGCTTAAAAA
1972152 TGCCACCAACTTGTGTGGGCTTAAAAA
1 TGCCACCAACTTGTGTGGGCTTAAAAA
1972179 AGAAAAGGTG
Statistics
Matches: 67, Mismatches: 41, Indels: 4
0.60 0.37 0.04
Matches are distributed among these distances:
27 34 0.51
28 33 0.49
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (27 bp):
TGCCACCAACTTGTGTGGGCTTAAAAA
Found at i:1972216 original size:116 final size:111
Alignment explanation
Indices: 1971955--1972413 Score: 511
Period size: 116 Copynumber: 4.0 Consensus size: 111
1971945 AAAGGAGGGA
*
1971955 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAA-AG---GCG
* * * ** *
1972019 TCGTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
60 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTGAAAAG
*
1972070 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGC
1972134 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAAAAAGAAAAG
66 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTT------GAAAAG
* *
1972186 GTGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAAAC-TGTGTGGGCTTT-AAGAGGCGTCCT
1 GCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACC-AACTTGTGTGGGCTTTAAAAAGGCGTCCT
* *
1972248 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AGAG
64 GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGC-TTGAAAAG
* *
1972296 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGATTTGAAAGGAAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAAGGCG
** *
1972361 TCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAG
60 TCCTGCTCTTTGAGGACTGAAA-AATGCCACCAACTTGTGTGGGCTTGAAAAG
1972413 G
1 G
1972414 AAAAGGTGTC
Statistics
Matches: 301, Mismatches: 21, Indels: 42
0.83 0.06 0.12
Matches are distributed among these distances:
109 22 0.07
110 69 0.23
111 2 0.01
112 2 0.01
113 3 0.01
114 3 0.01
115 46 0.15
116 101 0.34
117 53 0.18
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (111 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGC
TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTGAAAAG
Found at i:1972275 original size:171 final size:171
Alignment explanation
Indices: 1971955--1972413 Score: 687
Period size: 171 Copynumber: 2.7 Consensus size: 171
1971945 AAAGGAGGGA
*
1971955 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAA-GC
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGGC
* * *
1972018 GTCGTACTTTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
64 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1972082 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
129 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
1972125 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAAAAAAGAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
*
1972190 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAAAC-TGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
66 CCTGCTCTTTGAGGACTAGAAGGTGCCACC-AACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
* *
1972254 TGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAGAG
130 TGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * *
1972296 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGATTTGAAAGGAAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAAGGCG
1972361 TCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
65 TCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1972414 AAAAGGTGTC
Statistics
Matches: 262, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
169 3 0.01
170 69 0.26
171 131 0.50
172 59 0.23
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (171 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:1973477 original size:58 final size:58
Alignment explanation
Indices: 1973382--1973510 Score: 240
Period size: 58 Copynumber: 2.2 Consensus size: 58
1973372 ATTTGGGATG
* *
1973382 AGGGATTTTTTTTTTATTTTACCAGGATTGAGTGAGTCTTGAAGCTTGTGTCTCACCA
1 AGGGGTTTTTTTTATATTTTACCAGGATTGAGTGAGTCTTGAAGCTTGTGTCTCACCA
1973440 AGGGGTTTTTTTTATATTTTACCAGGATTGAGTGAGTCTTGAAGCTTGTGTCTCACCA
1 AGGGGTTTTTTTTATATTTTACCAGGATTGAGTGAGTCTTGAAGCTTGTGTCTCACCA
1973498 AGGGGTTTTTTTT
1 AGGGGTTTTTTTT
1973511 TTTTGTAGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 69 1.00
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.44
Consensus pattern (58 bp):
AGGGGTTTTTTTTATATTTTACCAGGATTGAGTGAGTCTTGAAGCTTGTGTCTCACCA
Found at i:1978858 original size:51 final size:51
Alignment explanation
Indices: 1978790--1978905 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
1978780 AAATAACGGG
* * * * *
1978790 GTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAACTAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGA
* *
1978841 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGA
1978892 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1978906 TCGGAAACAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGA
Found at i:1978921 original size:130 final size:133
Alignment explanation
Indices: 1978647--1978984 Score: 423
Period size: 130 Copynumber: 2.6 Consensus size: 133
1978637 TTTTGGAGAT
* * * ** * * *
1978647 AACAACGGGGCTAGAGTATCCCCGATTATGAAAAAACGGTGTTCTAAAAAGTAAAATCGGGGTTA
1 AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAGAAA-TAAAATCGGGGTTG
**
1978712 GAGTATCCCCGATTATAGAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGTATCCCCG
65 GAGTATCCCCGATTATAGAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGTATCCCCG
1978777 TGAA
130 TGAA
* * * * *
1978781 AATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAACTAAAATCGGAGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAGAAATAAAATCGGGGTTGG
* * *
1978846 AGTATCCTCGATTAT-G-AAAAATTGGTGTTTTAGAAATAA-AACCGGGGTTGGAGTATCCCC-T
66 AGTATCCCCGATTATAGAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGTATCCCCGT
*
1978907 CGGA
131 -GAA
** * *
1978911 AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAGAAATAAAATCGGGGTTGG
1978976 AGTATCCCC
66 AGTATCCCC
1978985 TCGAAAATAA
Statistics
Matches: 174, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
129 1 0.01
130 85 0.49
131 21 0.12
132 1 0.01
133 27 0.16
134 39 0.22
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (133 bp):
AACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTAGAAATAAAATCGGGGTTGG
AGTATCCCCGATTATAGAAAAAATTGATGCTTTAGAAATAAGAACCGGGGTTGGAGTATCCCCGT
GAA
Found at i:1978924 original size:79 final size:79
Alignment explanation
Indices: 1978841--1979091 Score: 421
Period size: 79 Copynumber: 3.2 Consensus size: 79
1978831 TAAAATCGGA
* *
1978841 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
1978906 TCGGAAACAACGGG
66 TCGGAAATAACGGG
* * *
1978920 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
1978985 TCGAAAATAATGGG
66 TCGGAAATAACGGG
*
1978999 GTTGGGGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1979064 TCGGAAATAACGGG
66 TCGGAAATAACGGG
1979078 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1979092 TCAGAAATAA
Statistics
Matches: 157, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 157 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGGAAATAACGGG
Found at i:1979080 original size:28 final size:28
Alignment explanation
Indices: 1979046--1979119 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
1979036 GAAATAAAAC
*
1979046 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA
1979074 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA
1979102 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1979120 GATTATGAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:1979081 original size:107 final size:107
Alignment explanation
Indices: 1978967--1979197 Score: 358
Period size: 107 Copynumber: 2.2 Consensus size: 107
1978957 GAAATAAAAC
* * * *
1978967 CGGGGTTGGAGTATCCCCTC-GAAAATAATGGGGTTGGGGTATCCCCGATTATGAAAAATTGATG
1 CGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATA
* *
1979031 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT-CGGAAATAA
65 TTTTAGAAATAAAACCGAGGTTGGAGTAT-CCCTACGGAAACAA
*
1979074 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATAT
*
1979139 TTTAGAAATAAAATCGAGGTTGGAGTATCCCTACGGAAACAA
66 TTTAGAAATAAAACCGAGGTTGGAGTATCCCTACGGAAACAA
1979181 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1979198 TGATTATGAA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
106 4 0.04
107 109 0.96
108 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATAT
TTTAGAAATAAAACCGAGGTTGGAGTATCCCTACGGAAACAA
Found at i:1979106 original size:186 final size:185
Alignment explanation
Indices: 1978888--1979276 Score: 663
Period size: 186 Copynumber: 2.1 Consensus size: 185
1978878 GAAATAAAAC
*
1978888 CGGGGTTGGAGTATCCCCTCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCAGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
* * * *
1978953 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCT-CGAAAATAATGGGGTTGGGGTATCCCCGATT
66 TTTAGAAATAAAACCGAGGTTGGAGTAT-CCCTACGAAAACAACGGGGTTGGAGTATCCCCGATT
*
1979017 ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
130 ATGAAAAATTGAAGTTTTAGAAAT-AAACCGGGGTTGGAGTATCCCCTCGGAAATAA
*
1979074 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCAGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
* * *
1979139 TTTAGAAATAAAATCGAGGTTGGAGTATCCCTACGGAAACAACGGGGTTGGAGTATCCCTGATTA
66 TTTAGAAATAAAACCGAGGTTGGAGTATCCCTACGAAAACAACGGGGTTGGAGTATCCCCGATTA
1979204 TGAAAAATTGAAGTTTTAGAAATAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
131 TGAAAAATTGAAGTTTTAGAAATAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
1979259 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1979277 GATTATGAAA
Statistics
Matches: 192, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
185 54 0.28
186 138 0.72
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (185 bp):
CGGGGTTGGAGTATCCCCTCAGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
TTTAGAAATAAAACCGAGGTTGGAGTATCCCTACGAAAACAACGGGGTTGGAGTATCCCCGATTA
TGAAAAATTGAAGTTTTAGAAATAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:1979332 original size:264 final size:265
Alignment explanation
Indices: 1978841--1979355 Score: 865
Period size: 264 Copynumber: 1.9 Consensus size: 265
1978831 TAAAATCGGA
* ** * *
1978841 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
*
1978906 TCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGG
66 TCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGG
* *
1978971 GTTGGAGTATCCCCTCGAAAATAATGGGGTTGGGGTATCCCCGATTATGAAAAATTGATGTTTTA
131 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA
1979036 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTCAGAAATA
196 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTCAGAAATA
1979101 ACGGG
261 ACGGG
* *
1979106 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTAT-CCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* *
1979170 TACGGAAACAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGAA-GTTTTAGAAAT-AAACCG
66 T-CGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AATATTTTAGAAATAAAACCG
*
1979233 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
129 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTT
*
1979298 TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
194 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
1979356 GATTGTGAAA
Statistics
Matches: 234, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
264 129 0.55
265 103 0.44
266 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (265 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGG
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA
GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCTCAGAAATA
ACGGG
Found at i:1979365 original size:157 final size:155
Alignment explanation
Indices: 1979067--1979371 Score: 504
Period size: 157 Copynumber: 2.0 Consensus size: 155
1979057 TATCCCCTCG
*
1979067 GAAATAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAA
1 GAAATAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
1979132 TTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCTACGGAAACAACGGGGTTGGAGTATCC
66 TTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCTACGGAAACAACGGGGTTGGAGTATCC
*
1979197 CTGATTATGAAAAATTGAAGTTTTA
131 CCGATTATGAAAAATTGAAGTTTTA
*
1979222 GAAATAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAA
1 GAAAT-AA-CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAA
* * * *
1979287 AATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT-CGGAAATAACGGGGTTGGAGTA
64 AATTAATATTTTAGAAATAAAATCGAGGTTGGAGTAT-CCCTACGGAAACAACGGGGTTGGAGTA
*
1979351 TCCCCGATTGTGAAAAATTGA
128 TCCCCGATTATGAAAAATTGA
1979372 GAAACTTAAC
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
155 5 0.04
156 2 0.01
157 128 0.92
158 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (155 bp):
GAAATAACGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
TTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCTACGGAAACAACGGGGTTGGAGTATCC
CCGATTATGAAAAATTGAAGTTTTA
Found at i:1979370 original size:79 final size:79
Alignment explanation
Indices: 1979074--1979371 Score: 483
Period size: 79 Copynumber: 3.8 Consensus size: 79
1979064 TCGGAAATAA
* * * *
1979074 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1979139 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* * * *
1979153 CGAGGTTGGAGTAT-CCCTACGGAAACAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGAAG
1 CGGGGTTGGAGTATCCCCT-CGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
1979217 TTTTAGAAAT-AAAC
65 TTTTAGAAATAAAAT
1979231 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
1979296 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
*
1979310 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1979372 GAAACTTAAC
Statistics
Matches: 201, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
78 72 0.36
79 129 0.64
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
TTTAGAAATAAAAT
Found at i:1980643 original size:35 final size:35
Alignment explanation
Indices: 1980569--1980776 Score: 366
Period size: 35 Copynumber: 5.9 Consensus size: 35
1980559 ATTCATTTTT
1980569 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1980603 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1980638 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
1980673 ATGCCTATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1980708 ATGCCCATCATTCCATGCCTTCATTTTTTATTATTCC
1 ATGCCCATCATTCCATGCCTTCA-TTTTTA-TATTCC
*
1980745 ATGCCCATTATTCCATGCCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
1980777 ATTTTTTTTG
Statistics
Matches: 168, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
34 32 0.19
35 97 0.58
36 11 0.07
37 28 0.17
ACGTcount: A:0.19, C:0.30, G:0.06, T:0.45
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:1980687 original size:14 final size:14
Alignment explanation
Indices: 1980668--1980732 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
1980658 TCATTTTTAT
1980668 ATTCCATGCCTATC
1 ATTCCATGCCTATC
1980682 ATTCCATGCCT-TC
1 ATTCCATGCCTATC
*
1980695 ATT---T--TTAT-
1 ATTCCATGCCTATC
*
1980703 ATTCCATGCCCATC
1 ATTCCATGCCTATC
1980717 ATTCCATGCCT-TC
1 ATTCCATGCCTATC
1980730 ATT
1 ATT
1980733 TTTTATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
8 4 0.10
9 1 0.03
10 1 0.03
11 1 0.03
13 12 0.30
14 21 0.52
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (14 bp):
ATTCCATGCCTATC
Found at i:1980756 original size:14 final size:14
Alignment explanation
Indices: 1980737--1980763 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1980727 TTCATTTTTT
1980737 ATTATTCCATGCCC
1 ATTATTCCATGCCC
1980751 ATTATTCCATGCC
1 ATTATTCCATGCC
1980764 TTCATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
ATTATTCCATGCCC
Found at i:1982988 original size:18 final size:20
Alignment explanation
Indices: 1982965--1983006 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1982955 TTTGATGTTT
1982965 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
1982983 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
1983003 ATTA
1 ATTA
1983007 GGGTCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:1985093 original size:21 final size:20
Alignment explanation
Indices: 1985046--1985115 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 20
1985036 TTTTAAAAAG
* *
1985046 GGGGAGAAATGCTTTGATTAA
1 GGGGAGAAAT-ATTTTATTAA
*
1985067 GAGGGAGAAATTTTTTATTAAA
1 G-GGGAGAAATATTTTATT-AA
1985089 GGGGA-AAATATTTTA--AA
1 GGGGAGAAATATTTTATTAA
1985106 GAGGGAGAAA
1 G-GGGAGAAA
1985116 AACAAAAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 4 0.10
19 3 0.07
20 9 0.21
21 11 0.26
22 12 0.29
ACGTcount: A:0.41, C:0.01, G:0.30, T:0.27
Consensus pattern (20 bp):
GGGGAGAAATATTTTATTAA
Found at i:1985115 original size:20 final size:21
Alignment explanation
Indices: 1985064--1985116 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
1985054 ATGCTTTGAT
*
1985064 TAAGAGGGAG-AAATTTTTTA
1 TAAGAGGGAGAAAATATTTTA
1985084 TTAA-AGGG-GAAAATATTTTA
1 -TAAGAGGGAGAAAATATTTTA
1985104 -AAGAGGGAGAAAA
1 TAAGAGGGAGAAAA
1985117 ACAAAAACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.07
19 5 0.18
20 18 0.64
21 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
TAAGAGGGAGAAAATATTTTA
Found at i:1985679 original size:13 final size:13
Alignment explanation
Indices: 1985661--1985687 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1985651 ACATTATGCT
1985661 TTGTATCGATACA
1 TTGTATCGATACA
1985674 TTGTATCGATACA
1 TTGTATCGATACA
1985687 T
1 T
1985688 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1985797 original size:33 final size:33
Alignment explanation
Indices: 1985737--1985801 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1985727 CTATCACTGT
* *
1985737 TTGTATCGATACATGGTACAATGTATCGATACG
1 TTGTATCGATACATGATACAATATATCGATACG
*
1985770 TTGTATCGATACATGATGA-ATTATATCGATAC
1 TTGTATCGATACATGAT-ACAATATATCGATAC
1985802 ATTGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATATATCGATACG
Found at i:1987430 original size:153 final size:153
Alignment explanation
Indices: 1987025--1987613 Score: 500
Period size: 153 Copynumber: 3.8 Consensus size: 153
1987015 ATGTTGAAGG
* * * * *
1987025 TATCCCCT-AGGTGCATTTTTGTAATTTTCTAGAATCGAGTTCTAGGTTATCACCAGGTTCACTT
1 TATCCCCTAAGG-GCATTTTGGTAATTTTTTAGAATCGAGTCCTAGGTTATCACTAGGTCCACTT
** *
1987089 TTATGCCAAAGGTGGATATTTAGGATAGGTTCATTAATCTAAATCCTTTTTAGGTCTTTTAGGGG
65 TTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCATCTAAATCCTTTTTAGGTCTTCTAGGGG
* *** **
1987154 TATTAGGTACTTTTACGTCGAAGG
130 TATGAGGTACTCCAACGTCGAAAA
* * * * *
1987178 TATCCCCTATGGGCATTTTGGT-ATTTTTCTAAAATCGAGTCTTAGCTTATCACT-GGATCCGCT
1 TATCCCCTAAGGGCATTTTGGTAATTTTT-TAGAATCGAGTCCTAGGTTATCACTAGG-TCCACT
1987241 TTTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCATCTAAATCCTTTTTAGGT-TCTCTAGG
64 TTTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCATCTAAATCCTTTTTAGGTCT-TCTAGG
*
1987305 GGTA-GAGGGTACTCCAATGTCGAAAA
128 GGTATGA-GGTACTCCAACGTCGAAAA
* *
1987331 TATCCCCTAAGGGCATTTTGGTAATTTTTTAGAA-CTGAGTCCTAGGTTGTCACTAAGTCCACTT
1 TATCCCCTAAGGGCATTTTGGTAATTTTTTAGAATC-GAGTCCTAGGTTATCACTAGGTCCACTT
* * * * * * * *
1987395 TTATGCTAAAGGTGCG-TATTTAGGATATGTTCATCCTTTTTATAAT--TCTTTAAGTCTTTTAA
65 TTATGCCAAAGGTG-GATATTTAGGATAGGTTCATCC-ATCTA-AATCCTTTTTAGGTCTTCTAG
* * * * *
1987457 TGTTATCGAGATACTTTC-ATGTCGAAAA
127 GGGTAT-GAGGTAC-TCCAACGTCGAAAA
* * ** * * * **
1987485 TA-ACCTTAAGGGCATTTTCATAATTTTTTAGAATCAACTCCTAAGTTATCACT-GAGTCCGTTT
1 TATCCCCTAAGGGCATTTTGGTAATTTTTTAGAATCGAGTCCTAGGTTATCACTAG-GTCCACTT
** * * * * * *
1987548 TTATGCTGAAGATGGGTATTTAGGATAAGTTCACCTCATCTATAATCCTTTTTAAGTCTTTTAGG
65 TTATGCCAAAGGTGGATATTTAGGATAGGTTCATC-CATCTA-AATCCTTTTTAGGTCTTCTAGG
1987613 G
128 G
1987614 ATATCGATTG
Statistics
Matches: 356, Mismatches: 59, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
152 11 0.03
153 291 0.82
154 32 0.09
155 22 0.06
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (153 bp):
TATCCCCTAAGGGCATTTTGGTAATTTTTTAGAATCGAGTCCTAGGTTATCACTAGGTCCACTTT
TATGCCAAAGGTGGATATTTAGGATAGGTTCATCCATCTAAATCCTTTTTAGGTCTTCTAGGGGT
ATGAGGTACTCCAACGTCGAAAA
Found at i:1991485 original size:24 final size:24
Alignment explanation
Indices: 1991453--1991512 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1991443 TTAACACTCC
* *
1991453 AAACTTGCTTTTAGCACTATCTCT
1 AAACTTGCTTTTAACACTACCTCT
*
1991477 AAACTTGCTTTTAACATTACCTCT
1 AAACTTGCTTTTAACACTACCTCT
*
1991501 AAACATGCTTTT
1 AAACTTGCTTTT
1991513 TGTTTACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (24 bp):
AAACTTGCTTTTAACACTACCTCT
Found at i:1994552 original size:122 final size:122
Alignment explanation
Indices: 1994335--1994579 Score: 490
Period size: 122 Copynumber: 2.0 Consensus size: 122
1994325 ACCTCTTCAT
1994335 CTTCATTATTAGACAAATCGGTCCTTTAAAAGCTCTTCTTTATCAATATTTTTTGGCTTATCCTC
1 CTTCATTATTAGACAAATCGGTCCTTTAAAAGCTCTTCTTTATCAATATTTTTTGGCTTATCCTC
1994400 TTCCTTACTATTATTATCGCCTTTATCTTTATCTTTACCTTTACTTATATCTTGAAA
66 TTCCTTACTATTATTATCGCCTTTATCTTTATCTTTACCTTTACTTATATCTTGAAA
1994457 CTTCATTATTAGACAAATCGGTCCTTTAAAAGCTCTTCTTTATCAATATTTTTTGGCTTATCCTC
1 CTTCATTATTAGACAAATCGGTCCTTTAAAAGCTCTTCTTTATCAATATTTTTTGGCTTATCCTC
1994522 TTCCTTACTATTATTATCGCCTTTATCTTTATCTTTACCTTTACTTATATCTTGAAA
66 TTCCTTACTATTATTATCGCCTTTATCTTTATCTTTACCTTTACTTATATCTTGAAA
1994579 C
1 C
1994580 GCCTCTTTAC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.48
Consensus pattern (122 bp):
CTTCATTATTAGACAAATCGGTCCTTTAAAAGCTCTTCTTTATCAATATTTTTTGGCTTATCCTC
TTCCTTACTATTATTATCGCCTTTATCTTTATCTTTACCTTTACTTATATCTTGAAA
Found at i:2003516 original size:25 final size:25
Alignment explanation
Indices: 2003477--2003589 Score: 154
Period size: 25 Copynumber: 4.5 Consensus size: 25
2003467 TGAGACAACA
* *
2003477 AAGCAAGCAACGGCAGCAGCTGAAG
1 AAGCAAGCAATGGCAGCTGCTGAAG
*
2003502 AAGTAAGCAATGGCAGCTGCTGAAG
1 AAGCAAGCAATGGCAGCTGCTGAAG
*
2003527 AAGCAAGCAATGGCAGTTGCTGAAG
1 AAGCAAGCAATGGCAGCTGCTGAAG
* ** *
2003552 AAGCAAGCAATGACATTTGATGAAG
1 AAGCAAGCAATGGCAGCTGCTGAAG
2003577 AAGCAAGCAATGG
1 AAGCAAGCAATGG
2003590 AAAACAACGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.13
Consensus pattern (25 bp):
AAGCAAGCAATGGCAGCTGCTGAAG
Found at i:2004050 original size:25 final size:25
Alignment explanation
Indices: 2003992--2004042 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2003982 AAACAGTAAC
2003992 ACAACAGCAGCTGATGGAAGAAGAA
1 ACAACAGCAGCTGATGGAAGAAGAA
2004017 ACAACAGCAGCTGATGGAAGAAGAA
1 ACAACAGCAGCTGATGGAAGAAGAA
2004042 A
1 A
2004043 TAATAGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.27, T:0.08
Consensus pattern (25 bp):
ACAACAGCAGCTGATGGAAGAAGAA
Found at i:2005901 original size:156 final size:157
Alignment explanation
Indices: 2005585--2007502 Score: 1838
Period size: 156 Copynumber: 12.3 Consensus size: 157
2005575 GGGTATTGGG
* * * * * *
2005585 TACTTTTACGTCGAAGGTATCATCTAGGGGTATTTTGGTAATTTCTTTTAGAACCAACTCTTAAG
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAA-TT-TTTTAGAACCAACTCCTAGG
* ** * * * * * *
2005650 T-AGTCATC-GAGTTTGCTTTTATGCTGAAAGTGTGCATTTAAGATATGTTCAT--CTTTT-TCA
64 TCA-TCACCGGA-TCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGA
** * * *
2005710 AACCTTTTTAAGTCCTTTAAGGTTACCGGGG
127 GTCCTTTTTAAGTCCTTTAAGGGTACCAGGA
* * *
2005741 TACTTTTACGTCGAAGGTATACCTATAGGGGCATTTTGGTAATTTTTTAGAACCAACTCCTAGGT
1 TACTTTCACGTCGAAGGTAT-CCTCTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGT
**
2005806 CATCACTAGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCAT-CCTTTTAT-AGTC
65 CATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * * *
2005869 CTATTTAAGTCTTTTAGGGGTACCAGCA
130 CTTTTTAAGTCCTTTAAGGGTACCAGGA
* * * *
2005897 TACTTTCACATCGAAGGTATCCTCTAGCGGCATTTTGGTAATTTTTTTAGAACCAACTCTTAGGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAA-TTTTTTAGAACCAACTCCTAGGT
* * * * * **
2005962 CATCACCGGGTTCGCTTTTATGCCGAAGATGGGCATTTAGGATAGGTTAAT--CTTTT-TCAAAC
65 CATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * * **
2006024 ATTTTCAAGTCTTTTAAGGTTGT-TGAGG-
130 CTTTTTAAGTCCTTTAAGG--GTACCAGGA
* * * *
2006052 TACTTTTACGTCGAAGGTATACCTATAGGGGCATTTTGGTAA-TTTTTAGAACCAACTCCTAGAT
1 TACTTTCACGTCGAAGGTAT-CCTCTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGT
* *
2006116 CATCACC-AAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCCTTTATGAG-
65 CATCACCGGA-TCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT
*
2006179 CCTTTTTAAGTCCATTAAGGGTACC-GAGA
129 CCTTTTTAAGTCCTTTAAGGGTACCAG-GA
* *
2006208 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAAGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAA-TTTTTTAGAACCAACTCCTAGGT
* * * *
2006273 CGTCACCGGGTCTGCTTTTATGCCGAACGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT-
65 CATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * * * *
2006337 CTTTTCAAGTTCTTTAAGGTTGCCAGGG
130 CTTTTTAAGTCCTTTAAGGGTACCAGGA
* * ** * * * * *
2006365 TACTTTTATGTTAAAGGTATACC-CATAAGGGTATTTTGGTAA-TTTTAAGAACCAACTCCTAAG
1 TACTTTCACGTCGAAGGTAT-CCTC-TAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGG
* ** * * * * * * **
2006428 TCGTTGCCGGGTCCACTTTTATGCCAAAGGTAGGCATTTAGGATAGGTTTATCCCTTTTA-AAAC
64 TCATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT
* * *
2006492 CCTTTTTAAGTCCTTTAAGGGTGCTAGAA
129 CCTTTTTAAGTCCTTTAAGGGTACCAGGA
* * * *
2006521 TACTTTCACGTCGAAAGTAT-CTCCTAGGGGTATTTTCATAA-TTTTTAAAACCAACTCCTAGGT
1 TACTTTCACGTCGAAGGTATCCT-CTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGT
* ** * * *
2006584 CGTCACC-GAGTTTGCTTTTATGTCGAAGGTGGCCATTTAGAATAGGTTCATCCCTTTTAT-AGT
65 CATCACCGGA-TCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT
* *
2006647 CCTTTTTAAGTCCTTTAGGGGTACTAGGA
129 CCTTTTTAAGTCCTTTAAGGGTACCAGGA
* * *
2006676 TACTTTCACGTCGAAGGTATCCTCTAAGGGCATTTTTGT-ATTTTTAAGAACCAACTCCTAGGTC
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTC
* * * * *
2006740 GTCACTGGGTCCGCTTTTATGCCGAAGGTGGACATTGAGGATAGGTTCATCCCTTTTAT-AGTCC
66 ATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCC
* *
2006804 TTTTTAAATCCTTT-AGGTGTACTAGGA
131 TTTTTAAGTCCTTTAAGG-GTACCAGGA
* * * * ** * *
2006831 CACTTTCATGTCGAAAGTATCCTTTAAAGGTATTTTCGTAATTTTTTAGAACCAATTCCTAGGTC
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTC
* * * * *
2006896 GTCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGAATAGGTTCATTCCTTTTATGAG-CC
66 ATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCC
* * *
2006960 TTTTTAAGTCCTTTAGGGGTATCGGGA
131 TTTTTAAGTCCTTTAAGGGTACCAGGA
* ** * *
2006987 TACTTTCACATCGAAGGTATCCTCTAATGGCATTTTCATAATTTTTCTAGAACCAATTCCTAGGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAATTTTT-TAGAACCAACTCCTAGGT
* * * * *
2007052 TATCACC-AAGTCCGCTTTTATGCCGAAGGTAGACATTTAGGATAGATTCATCCCTTTTATGAG-
65 CATCACCGGA-TCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT
*
2007115 -CTTTTTAAGTCCTTTAAGGGTACCAAGA
129 CCTTTTTAAGTCCTTTAAGGGTACCAGGA
* * * * * * *
2007143 TACTTTCACATCGAAGGTATCCTCTAGTGACATTTTCGTAATTTATCTAAAACTAGCTCCTAGGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAATTT-TTTAGAACCAACTCCTAGGT
* * * * *
2007208 CATCACCAGATCCGCTTTTATGCCGAAAGTGAGCATTTAGGATAGATTCATCCCTCTTATGAGT-
65 CATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* *
2007272 CTTTTTAAGTCCTTT-AGGATTATC-GAGA
130 CTTTTTAAGTCCTTTAAGG-GTACCAG-GA
* * * * * * * *
2007300 TACTTTTACGTTGAAGTTATACCCCTAAGGGTATTTTGGTAATTTTTTAGAACCAACTCTTAGGT
1 TACTTTCACGTCGAAGGTAT-CCTCTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGT
* ** * * *
2007365 TATCGTCGGGTTCACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT-
65 CATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * *
2007429 CTTTTTAAGTCCTTCAAGGCTACCGGGA
130 CTTTTTAAGTCCTTTAAGGGTACCAGGA
** * *
2007457 TACTGTT-ATATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTT
1 TACT-TTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAATTTTT
2007503 CTTGAACTTA
Statistics
Matches: 1470, Mismatches: 245, Indels: 94
0.81 0.14 0.05
Matches are distributed among these distances:
154 74 0.05
155 400 0.27
156 606 0.41
157 348 0.24
158 42 0.03
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (157 bp):
TACTTTCACGTCGAAGGTATCCTCTAGGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTC
ATCACCGGATCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCC
TTTTTAAGTCCTTTAAGGGTACCAGGA
Found at i:2006501 original size:313 final size:313
Alignment explanation
Indices: 2005585--2007502 Score: 1979
Period size: 311 Copynumber: 6.1 Consensus size: 313
2005575 GGGTATTGGG
* * * * *
2005585 TACTTTTACGTCGAAGGTATCATCTAGGGGTATTTTGGTAATTTCTTTTAGAACCAACTCTTAAG
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTT-TTTTAGAACCAACTCCTAGG
* * * * * * * * * *
2005650 TAGTCATCGAGTTTGCTTTTATGCTGAAAGTGTGCATTTAAGATATGTTCAT--CTTTT-TCAAA
65 TCGTCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTAT-GAG
* * *
2005712 CCTTTTTAAGTCCTTTAAGGTTACCGGGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATTT
129 TCTTTTTAAGTCCTTTAAGGTTACC-GGGTACTTTTACGTCGAAGGTATACCCATAAGGGCATTT
* *
2005777 TGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTAGATCCGCTTTTATGCCGAAGGTGGGCAT
193 TGGTAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCAT
* * *
2005842 TTAGGATAGGTTCAT-CCTTTTAT-AGTCCTATTTAAGTCTTTTAGGGGTACC-AGCA
258 TTAGGATAGGTTCATCCCTTTTATAAG-CCTTTTTAAGTCCTTTAAGGGTACCGAG-A
* * * * *
2005897 TACTTTCACATCGAAGGTATCCTCTAGCGGCATTTTGGTAATTTTTTTAGAACCAACTCTTAGGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAGGT
* * * *
2005962 CATCACCGGGT-TCGCTTTTATGCCG-AAGATGGGCATTTAGGATAGGTTAAT--CTTTT-TCAA
66 CGTCACCGGGTCT-GCTTTTATGCCGAAAG-TGGGCATTTAGGATAGGTTCATCCCTTTTATGAG
* * * *** * *
2006022 ACATTTTCAAGTCTTTTAAGGTTGTTGAGGTACTTTTACGTCGAAGGTATACCTATAGGGGCATT
129 TC-TTTTTAAGTCCTTTAAGGTTACCG-GGTACTTTTACGTCGAAGGTATACCCATAAGGGCATT
* *
2006087 TTGGTAA-TTTTTAGAACCAACTCCTAGATCATCACCAAGTCCGCTTTTATGCCGAAGGTGGGCA
192 TTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCA
* * *
2006151 TTTAGGATAGGTTCATCCCCTTTATGAGCCTTTTTAAGTCCATTAAGGGTACCGAGA
257 TTTAGGATAGGTTCATCCCTTTTATAAGCCTTTTTAAGTCCTTTAAGGGTACCGAGA
*
2006208 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAAGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAGGT
*
2006273 CGTCACCGGGTCTGCTTTTATGCCGAACGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
66 CGTCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * * * ** *
2006338 TTTTCAAGTTCTTTAAGGTTGCCAGGGTACTTTTATGTTAAAGGTATACCCATAAGGGTATTTTG
131 TTTTTAAGTCCTTTAAGGTTACC-GGGTACTTTTACGTCGAAGGTATACCCATAAGGGCATTTTG
* * * ** * * * *
2006403 GTAA-TTTTAAGAACCAACTCCTAAGTCGTTGCCGGGTCCACTTTTATGCCAAAGGTAGGCATTT
195 GTAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTT
* * * * *
2006467 AGGATAGGTTTATCCCTTTTAAAACCCTTTTTAAGTCCTTTAAGGGT-GCTAGAA
260 AGGATAGGTTCATCCCTTTTATAAGCCTTTTTAAGTCCTTTAAGGGTACCGAG-A
* * *
2006521 TACTTTCACGTCGAAAGTAT-CTCCTAGGGGTATTTTCATAA--TTTTTAAAACCAACTCCTAGG
1 TACTTTCACGTCGAAGGTATCCT-CTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAGG
* * * * * *
2006583 TCGTCACCGAGTTTGCTTTTATGTCGAAGGTGGCCATTTAGAATAGGTTCATCCCTTTTAT-AGT
65 TCGTCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGT
* * * * *
2006647 CCTTTTTAAGTCCTTTAGGGGTACTAGGATACTTTCACGTCGAAGGTAT-CCTC-TAAGGGCATT
130 -CTTTTTAAGTCCTTTAAGGTTAC-CGGGTACTTTTACGTCGAAGGTATACC-CATAAGGGCATT
* * * ** *
2006710 TTTGT-ATTTTTAAGAACCAACTCCTAGGTCGTCACTGGGTCCGCTTTTATGCCGAAGGTGGACA
192 TTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCA
* * *
2006774 TTGAGGATAGGTTCATCCCTTTTAT-AGTCCTTTTTAAATCCTTT-AGGTGTA-CTAGGA
257 TTTAGGATAGGTTCATCCCTTTTATAAG-CCTTTTTAAGTCCTTTAAGG-GTACCGA-GA
* * * * ** *
2006831 CACTTTCATGTCGAAAGTATCCTTTAAAGGTATTTTCGTAA-TTTTTTAGAACCAATTCCTAGGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAGGT
* * * * * *
2006895 CGTCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGAATAGGTTCATTCCTTTTATGAGCC
66 CGTCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * * * * *
2006960 TTTTTAAGTCCTTTAGGGGTATCGGGATACTTTCACATCGAAGGTAT-CCTC-TAATGGCATTTT
131 TTTTTAAGTCCTTTAAGGTTACCGGG-TACTTTTACGTCGAAGGTATACC-CATAAGGGCATTTT
** * * * * *
2007023 CATAATTTTTCTAGAACCAATTCCTAGGTTATCACCAAGTCCGCTTTTATGCCGAAGGTAGACAT
194 GGTAATTTTT-TAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCAT
* * *
2007088 TTAGGATAGATTCATCCCTTTTATGAG-CTTTTTAAGTCCTTTAAGGGTACCAAGA
258 TTAGGATAGGTTCATCCCTTTTATAAGCCTTTTTAAGTCCTTTAAGGGTACCGAGA
* * ** * * * * *
2007143 TACTTTCACATCGAAGGTATCCTCTAGTGACATTTTCGTAATTTATCTAAAACTAGCTCCTAGGT
1 TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAGGT
* * * * * * *
2007208 CATCACCAGATCCGCTTTTATGCCGAAAGTGAGCATTTAGGATAGATTCATCCCTCTTATGAGTC
66 CGTCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
* * * * * *
2007273 TTTTTAAGTCCTTT-AGGATTATCGAGATACTTTTACGTTGAAGTTATACCCCTAAGGGTATTTT
131 TTTTTAAGTCCTTTAAGG-TTACCG-GGTACTTTTACGTCGAAGGTATACCCATAAGGGCATTTT
* * ** * * *
2007337 GGTAATTTTTTAGAACCAACTCTTAGGTTATCGTCGGGTTCACTTTTATGCCGAAGGTGGGCATT
194 GGTAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATT
* * * * *
2007402 TAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTCAAGGCTACCGGGA
259 TAGGATAGGTTCATCCCTTTTATAAGCCTTTTTAAGTCCTTTAAGGGTACCGAGA
** * * *
2007457 TACTGTT-ATATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTT
1 TACT-TTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTT
2007503 CTTGAACTTA
Statistics
Matches: 1366, Mismatches: 201, Indels: 76
0.83 0.12 0.05
Matches are distributed among these distances:
309 5 0.00
310 221 0.16
311 499 0.37
312 112 0.08
313 439 0.32
314 88 0.06
315 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (313 bp):
TACTTTCACGTCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTTAGAACCAACTCCTAGGT
CGTCACCGGGTCTGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTC
TTTTTAAGTCCTTTAAGGTTACCGGGTACTTTTACGTCGAAGGTATACCCATAAGGGCATTTTGG
TAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
GGATAGGTTCATCCCTTTTATAAGCCTTTTTAAGTCCTTTAAGGGTACCGAGA
Found at i:2010860 original size:20 final size:20
Alignment explanation
Indices: 2010835--2010885 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2010825 CCCCTAAAAA
*
2010835 GTATCGATACACATTTAAAT
1 GTATCGATACACATTGAAAT
* * *
2010855 GTATCGATACAGATTGCATT
1 GTATCGATACACATTGAAAT
2010875 GTATCGATACA
1 GTATCGATACA
2010886 TTGTATCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACACATTGAAAT
Found at i:2010889 original size:13 final size:13
Alignment explanation
Indices: 2010871--2010899 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2010861 ATACAGATTG
2010871 CATTGTATCGATA
1 CATTGTATCGATA
2010884 CATTGTATCGATA
1 CATTGTATCGATA
2010897 CAT
1 CAT
2010900 GACCATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2011009 original size:13 final size:13
Alignment explanation
Indices: 2010991--2011015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2010981 ACACATAGTA
2010991 TGTATCGATACAT
1 TGTATCGATACAT
2011004 TGTATCGATACA
1 TGTATCGATACA
2011016 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2011012 original size:32 final size:33
Alignment explanation
Indices: 2010971--2011038 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2010961 GTAGCCAAAT
**
2010971 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
2011003 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
2011036 TTG
1 TTG
2011039 GCTTGCAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:2017207 original size:13 final size:13
Alignment explanation
Indices: 2017188--2017226 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2017178 ACAGCATTCT
2017188 CTGTATCGATACA
1 CTGTATCGATACA
*
2017201 TTGTATCGATACA
1 CTGTATCGATACA
2017214 CTGTATCGATACA
1 CTGTATCGATACA
2017227 AGGGGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:2018993 original size:23 final size:19
Alignment explanation
Indices: 2018951--2018988 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2018941 AATAAATTTT
2018951 TATGATTAAGGGGGAGAAA
1 TATGATTAAGGGGGAGAAA
2018970 TATGATTAAGGGGGAGAAA
1 TATGATTAAGGGGGAGAAA
2018989 GAAATGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (19 bp):
TATGATTAAGGGGGAGAAA
Found at i:2019039 original size:22 final size:21
Alignment explanation
Indices: 2019018--2019057 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2019008 AGTGTTAAAT
*
2019018 TATTTTACTAAGGGGGAGAAA
1 TATTTGACTAAGGGGGAGAAA
* *
2019039 TGTTTGATTAAGGGGGAGA
1 TATTTGACTAAGGGGGAGA
2019058 GAAAAGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.35, T:0.30
Consensus pattern (21 bp):
TATTTGACTAAGGGGGAGAAA
Found at i:2019597 original size:20 final size:20
Alignment explanation
Indices: 2019566--2019622 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2019556 GTCAAAACCC
*
2019566 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2019586 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
2019606 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
2019623 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2019626 original size:13 final size:13
Alignment explanation
Indices: 2019608--2019636 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2019598 ATACAGATTG
2019608 CATTGTATCGATA
1 CATTGTATCGATA
2019621 CATTGTATCGATA
1 CATTGTATCGATA
2019634 CAT
1 CAT
2019637 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2019649 original size:20 final size:21
Alignment explanation
Indices: 2019624--2019676 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2019614 ATCGATACAT
**
2019624 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
2019644 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
2019665 TGTATCGATACA
1 TGTATCGATACA
2019677 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:2019746 original size:13 final size:13
Alignment explanation
Indices: 2019728--2019752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2019718 ACACACAGTA
2019728 TGTATCGATACAT
1 TGTATCGATACAT
2019741 TGTATCGATACA
1 TGTATCGATACA
2019753 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2019749 original size:32 final size:33
Alignment explanation
Indices: 2019708--2019775 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2019698 GTAGCCAAAT
**
2019708 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
2019740 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
2019773 TTG
1 TTG
2019776 GCTTGCAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:2023480 original size:156 final size:155
Alignment explanation
Indices: 2023118--2024050 Score: 814
Period size: 156 Copynumber: 6.0 Consensus size: 155
2023108 TTTAGGGTTT
* * * * *
2023118 AACCAACTCGTAGGTCATCGCCGGGTCCACTTTTATGCCAAAGGTAGGCATTTAGGATAGGTTTA
1 AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA
** * * * *
2023183 TCCCTTTTA-AAACCTTTTTTAAGTCCTTTAAGGGTACTAGGATACTTTCACATCGAAGGTATCC
66 TCCCTTTTATAGTCC-TTTTTAAGTCCTTTAGGGGTACTGGGATACTTTTACGTCGAAGGTATCC
* * * * * *
2023247 CCTAAAAGAATTTTCATAA-TTTTAA
130 TCTAGAGGCATTTTCGTAATTTTTAG
* ** * * *
2023272 AACAAACTCCTAGGTCATCACCGAATCCACTTTTATGCCGGAA-GTGGGCATTTAGGATAGGCTC
1 AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCC-AAAGGTGGGCATTTAGGATAGGTTC
* * * * **
2023336 ATCCCTCTTATAGTCCTTTTTTAAGTCTTTTAGGGGTACTGGGATACTTTTACGCCAAAAATATC
65 ATCCCTTTTATAGTCC-TTTTTAAGTCCTTTAGGGGTACTGGGATACTTTTACGTCGAAGGTATC
*
2023401 CTCTAGAGGCATTTGCGTAATTTTTAG
129 CTCTAGAGGCATTTTCGTAATTTTTAG
* * *
2023428 AACCAACTCCTAGGTCGTCATCGGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCA
1 AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA
* * * * * *
2023493 TCCTTTTTATAGTCCTTTTTAAATCCTTTAGGGGT-GTCGAGATA-TTTTCACGTCAAAGGTATA
66 TCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTACT-GGGATACTTTT-ACGTCGAAGGTATC
* * * *
2023556 TTCTAGGGGCATTTTCATAATTTTTTAA
129 CTCTAGAGGCATTTTCGTAA-TTTTTAG
* * * * *
2023584 AACTAACTCCTAGGTCGTCACCTGGTCCGCTTTTATGTCGAAA-GTGGGCATTTAAGATAGGTTC
1 AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATG-CCAAAGGTGGGCATTTAGGATAGGTTC
* *** *
2023648 ATCCCTTTTAT-GAACCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTTCACGTCGAAGGTATC
65 ATCCCTTTTATAG-TCCTTTTTAAGTCCTTTAGGGGTACTGGGATACTTTTACGTCGAAGGTATC
* *
2023712 TTCTAGAGGCATTTTTTGTAATTTTTTTAG
129 CTCTAGAGGCA-TTTTCGTAA--TTTTTAG
* * * * * * * *
2023742 AAGCAATTCCTAGGTCATCATCGAGTCCGCTTTTATGCCGAAGGTGGGTATTTAAGATAGATTCA
1 AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA
* * * * * *
2023807 TCCCTTTTATGAGT-CTTTTTAAGTCCTTTAAGGTTGCAGGGATACTTTTAGGTCGAAGGTATAC
66 TCCCTTTTAT-AGTCCTTTTTAAGTCCTTTAGGGGTACTGGGATACTTTTACGTCGAAGGTATCC
* * * *
2023871 TCTTAGGGGTATTTTGGTCATTTTCTAG
130 TC-TAGAGGCATTTTCGTAATTTT-TAG
* * ** * * **
2023899 AACTAACTCCTAGGTCGTCATTGGGTTCGCTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCA
1 AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA
* * * * * *
2023964 T-CCTTTGTATGAGT-CTTTTTAAGTTCTTTAGGCTGT-C-GGGATATTTTTACATTGAAAGTAT
66 TCCCTTT-TAT-AGTCCTTTTTAAGTCCTTTAGG-GGTACTGGGATACTTTTACGTCGAAGGTAT
2024025 CC-CATA-AGGGCATTTTCGTAATTTTT
128 CCTC-TAGA-GGCATTTTCGTAATTTTT
2024051 CTTAAACTTA
Statistics
Matches: 637, Mismatches: 121, Indels: 42
0.80 0.15 0.05
Matches are distributed among these distances:
154 67 0.11
155 128 0.20
156 218 0.34
157 100 0.16
158 117 0.18
159 6 0.01
160 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (155 bp):
AACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA
TCCCTTTTATAGTCCTTTTTAAGTCCTTTAGGGGTACTGGGATACTTTTACGTCGAAGGTATCCT
CTAGAGGCATTTTCGTAATTTTTAG
Found at i:2023868 original size:314 final size:312
Alignment explanation
Indices: 2023118--2023995 Score: 864
Period size: 314 Copynumber: 2.8 Consensus size: 312
2023108 TTTAGGGTTT
* ** * * * * * *
2023118 AACCAACTCGTAGGTCATCGCCGGGTCCACTTTTATGCCAAAGGTAGGCATTTAGGATAGGTTTA
1 AACCAACTCCTAGGTCATCATCGAGTCCGCTTTTATGCCAAAGGTGGGCATTTAAGATAGATTCA
** * * * * * *
2023183 TCCCTTTTA-AAACCTTTTTTAAGTCCTTTAAGGGT-ACTAGGATACTTTCACATCGAAGGTAT-
66 TCCCTTTTATAGTCC-TTTTTAAATCCTTTAAGGGTGTCGA-GATATTTTCACGTCAAAGGTATA
* * *** * * * * *
2023245 CCCCTAAAAGAATTTTCATAA--TTTTAAAACAAACTCCTAGGTCATCACC-GAATCCACTTTTA
129 CTCTTAGGGGCATTTTCATAATTTTTTAAAACTAACTCCTAGGTCGTCACCTG-GTCCGCTTTTA
* * * * *
2023307 TGCCGGAAGTGGGCATTTAGGATAGGCTCATCCCTCTTAT-AGTCCTTTTTTAAGTCTTTTAGGG
193 TGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGA-ACC-TTTTTAAGTCCTTTAGGG
*** *
2023371 GTACTGGGATACTTTTACGCCAAAAATATCCTCTAGAGGCATTTGCGTAATTTTTAG
256 GTACCAAGATACTTTCACGCCAAAAATATCCTCTAGAGGCATTTGCGTAATTTTTAG
* * * * *
2023428 AACCAACTCCTAGGTCGTCATCGGGTCCGCTTTTATGCTAAAGGTGGGCATTTAGGATAGGTTCA
1 AACCAACTCCTAGGTCATCATCGAGTCCGCTTTTATGCCAAAGGTGGGCATTTAAGATAGATTCA
* * *
2023493 TCCTTTTTATAGTCCTTTTTAAATCCTTTAGGGGTGTCGAGATATTTTCACGTCAAAGGTATATT
66 TCCCTTTTATAGTCCTTTTTAAATCCTTTAAGGGTGTCGAGATATTTTCACGTCAAAGGTATACT
*
2023558 C-TAGGGGCATTTTCATAATTTTTTAAAACTAACTCCTAGGTCGTCACCTGGTCCGCTTTTATGT
131 CTTAGGGGCATTTTCATAATTTTTTAAAACTAACTCCTAGGTCGTCACCTGGTCCGCTTTTATGC
*
2023622 CGAAAGTGGGCATTTAAGATAGGTTCATCCCTTTTATGAACCTTTTTAAGTCCTTTAGGGGTACC
196 CGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAACCTTTTTAAGTCCTTTAGGGGTACC
* * ** * **
2023687 AAGATACTTTCACGTCGAAGGTATCTTCTAGAGGCATTTTTTGTAATTTTTTTAG
261 AAGATACTTTCACGCCAAAAATATCCTCTAGAGGCA-TTTGCGTAA--TTTTTAG
* * * *
2023742 AAGCAATTCCTAGGTCATCATCGAGTCCGCTTTTATGCCGAAGGTGGGTATTTAAGATAGATTCA
1 AACCAACTCCTAGGTCATCATCGAGTCCGCTTTTATGCCAAAGGTGGGCATTTAAGATAGATTCA
* * * * *
2023807 TCCCTTTTATGAGT-CTTTTTAAGTCCTTTAAGGTTG-CAGGGATACTTTT-AGGTCGAAGGTAT
66 TCCCTTTTAT-AGTCCTTTTTAAATCCTTTAAGGGTGTC-GAGATA-TTTTCACGTCAAAGGTAT
* ** * * * * *
2023869 ACTCTTAGGGGTATTTTGGTCATTTTCTAGAACTAACTCCTAGGTCGTCA-TTGGGTTCGCTTTT
128 ACTCTTAGGGGCATTTTCATAATTTTTTAAAACTAACTCCTAGGTCGTCACCT-GGTCCGCTTTT
* ** ** *
2023933 ATGCCGAAGGTGGATATTTAGGATAGGTTCAT-CCTTTGTATGAGTCTTTTTAAGTTCTTTAGG
192 ATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTT-TATGAACCTTTTTAAGTCCTTTAGG
2023996 CTGTCGGGAT
Statistics
Matches: 473, Mismatches: 79, Indels: 27
0.82 0.14 0.05
Matches are distributed among these distances:
310 115 0.24
311 55 0.12
312 79 0.17
313 3 0.01
314 116 0.25
315 105 0.22
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (312 bp):
AACCAACTCCTAGGTCATCATCGAGTCCGCTTTTATGCCAAAGGTGGGCATTTAAGATAGATTCA
TCCCTTTTATAGTCCTTTTTAAATCCTTTAAGGGTGTCGAGATATTTTCACGTCAAAGGTATACT
CTTAGGGGCATTTTCATAATTTTTTAAAACTAACTCCTAGGTCGTCACCTGGTCCGCTTTTATGC
CGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAACCTTTTTAAGTCCTTTAGGGGTACC
AAGATACTTTCACGCCAAAAATATCCTCTAGAGGCATTTGCGTAATTTTTAG
Found at i:2027357 original size:20 final size:20
Alignment explanation
Indices: 2027332--2027383 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2027322 ATACTTCAAA
2027332 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
2027352 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
2027372 GTATCGATACAT
1 GTATCGATACAT
2027384 TATGGTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:2027479 original size:13 final size:13
Alignment explanation
Indices: 2027461--2027487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2027451 ACATTATGCT
2027461 TTGTATCGATACA
1 TTGTATCGATACA
2027474 TTGTATCGATACA
1 TTGTATCGATACA
2027487 T
1 T
2027488 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2027517 original size:20 final size:19
Alignment explanation
Indices: 2027471--2027527 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2027461 TTGTATCGAT
*
2027471 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2027490 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2027509 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2027528 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2027590 original size:13 final size:13
Alignment explanation
Indices: 2027572--2027624 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
2027562 CGATACAAGG
2027572 TACATTGTATTGA
1 TACATTGTATTGA
*
2027585 TACATTGTATCGA
1 TACATTGTATTGA
2027598 TACA-TG-A-TG-
1 TACATTGTATTGA
2027607 -A-ATTGTATTGA
1 TACATTGTATTGA
2027618 TACATTG
1 TACATTG
2027625 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 1 0.03
10 3 0.09
11 1 0.03
12 3 0.09
13 20 0.62
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (13 bp):
TACATTGTATTGA
Found at i:2027598 original size:33 final size:33
Alignment explanation
Indices: 2027556--2027624 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2027546 TTACCACTGT
*
2027556 TTGTATCGATACAAGGT-ACATTGTATTGATACA
1 TTGTATCGATACAAGATGA-ATTGTATTGATACA
*
2027589 TTGTATCGATACATGATGAATTGTATTGATACA
1 TTGTATCGATACAAGATGAATTGTATTGATACA
2027622 TTG
1 TTG
2027625 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACAAGATGAATTGTATTGATACA
Done.