Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 160 of 438
Found at i:48730632 original size:22 final size:22
Alignment explanation
Indices: 48730607--48730745 Score: 102
Period size: 22 Copynumber: 6.1 Consensus size: 22
48730597 CCTAAGCTGA
**
48730607 TGAACAGTAAGCTCTAATGAAT
1 TGAACAGTAAGCTCTAATGAGC
*
48730629 TGAAACGGTAAGCTCT-ATCGAGC
1 TG-AACAGTAAGCTCTAAT-GAGC
*
48730652 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTAATGAGC
* *
48730674 TGAACAGTAAGTTC-ATACGAGC
1 TGAACAGTAAGCTCTA-ATGAGC
* * * *
48730696 TGAAACGGTAAGCTCCAATAAGT
1 TG-AACAGTAAGCTCTAATGAGC
* *
48730719 TGAAAACAGTAAGCTCTTACGAGC
1 TG--AACAGTAAGCTCTAATGAGC
48730743 TGA
1 TGA
48730746 TATATCGGTA
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
21 1 0.01
22 40 0.44
23 32 0.35
24 18 0.20
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTAATGAGC
Found at i:48730661 original size:45 final size:46
Alignment explanation
Indices: 48730607--48730745 Score: 153
Period size: 45 Copynumber: 3.1 Consensus size: 46
48730597 CCTAAGCTGA
*
48730607 TGAACAGTAAGCTCTAATGAATTGAAACGGTAAGCTCTAT-CGAGC
1 TGAACAGTAAGCTCTAATGAATTGAAACAGTAAGCTCTATACGAGC
* ** *
48730652 TGAACAGTAAGCTCTATTGAGCTG-AACAGTAAGTTC-ATACGAGC
1 TGAACAGTAAGCTCTAATGAATTGAAACAGTAAGCTCTATACGAGC
* *
48730696 TGAAACGGTAAGCTCCAAT-AAGTTGAAAACAGTAAGCTCT-TACGAGC
1 TG-AACAGTAAGCTCTAATGAA-TTG-AAACAGTAAGCTCTATACGAGC
48730743 TGA
1 TGA
48730746 TATATCGGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.03
44 18 0.23
45 36 0.47
46 1 0.01
47 20 0.26
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (46 bp):
TGAACAGTAAGCTCTAATGAATTGAAACAGTAAGCTCTATACGAGC
Found at i:48732706 original size:26 final size:26
Alignment explanation
Indices: 48732669--48732724 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
48732659 CCTGCAGCTA
* *
48732669 GTGTGAATAGGCCTATTTCACAACTC
1 GTGTGAACAGGCCCATTTCACAACTC
48732695 GTGTGAACAGGCCCATTTCACAACTC
1 GTGTGAACAGGCCCATTTCACAACTC
48732721 GTGT
1 GTGT
48732725 AAGCACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (26 bp):
GTGTGAACAGGCCCATTTCACAACTC
Found at i:48734777 original size:50 final size:50
Alignment explanation
Indices: 48734704--48735100 Score: 472
Period size: 50 Copynumber: 7.9 Consensus size: 50
48734694 AAAACGGTTC
*
48734704 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* * * ** *
48734754 TAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCATACCTGATTGCT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-T
* * * * *
48734805 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* *
48734855 TAGGTCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGAATGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* * * * *
48734905 TAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGTACCCGATAGCT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-T
* * * * * * * *
48734956 TCGATCACGTGCGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGC
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* *
48735006 TAGGTCACATGTGTAGTACTAA-TGCAGGCTACTAAGTTTACCAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* * * *
48735055 TAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
48735101 GAGCTTCGGT
Statistics
Matches: 285, Mismatches: 59, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
49 42 0.15
50 165 0.58
51 78 0.27
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
Found at i:48734835 original size:101 final size:101
Alignment explanation
Indices: 48734704--48735100 Score: 476
Period size: 101 Copynumber: 4.0 Consensus size: 101
48734694 AAAACGGTTC
* *
48734704 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTA
* * * *
48734769 GTATTAAGTGCAGGCTACTATGCATACCTGATTGCT
66 GTACTAAGTGCAGGCTACTACGCGTACCAGATTGCT
* * * * *
48734805 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTA
* * *
48734870 GTACTAAATGCAGGCTACTACGTGTACCAGAATG-T
66 GTACTAAGTGCAGGCTACTACGCGTACCAGATTGCT
* * * * * * * * *
48734905 TAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGTACCCGATAGCTTCGATCACGTGCGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACATGTGT
* * * *
48734970 AATACTAAGTGCAGGCTACTACGTGTATCAGATGGC-
65 AGTACTAAGTGCAGGCTACTACGCGTACCAGATTGCT
* * *
48735006 TAGGTCACATGTGTAGTACTAA-TGCAGGCTACTAAGTTTACCAGATTGTTAGGTCGCATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTA
* *
48735070 TTACTAAGTGCAGGCTACTATGCGTACCAGA
66 GTACTAAGTGCAGGCTACTACGCGTACCAGA
48735101 GAGCTTCGGT
Statistics
Matches: 249, Mismatches: 45, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
99 38 0.15
100 62 0.25
101 149 0.60
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTA
GTACTAAGTGCAGGCTACTACGCGTACCAGATTGCT
Found at i:48734928 original size:12 final size:14
Alignment explanation
Indices: 48734913--48734945 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
48734903 GTTAGGTCAC
48734913 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
48734925 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
48734939 ATGTGTA
1 ATGTGTA
48734946 CCCGATAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 1 0.05
14 11 0.58
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.39
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:48734937 original size:151 final size:151
Alignment explanation
Indices: 48734661--48735108 Score: 637
Period size: 151 Copynumber: 3.0 Consensus size: 151
48734651 TGAGAACACA
** * * * * * *
48734661 TGTGTAGTACTCTGTGCAGGCTACTATGTGTTTAAAACGGTTCTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-T-TAGGTCACATGTGTAGTACTAA
* *
48734726 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATG
64 ATGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
* * *
48734791 CATACCTGATTGCTTCGATCACG
129 CGTACCCGATAGCTTCGATCACG
48734814 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAAT
* * * * *
48734879 GCAGGCTACTACGTGTACCAGAATGTTAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
66 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
48734944 TACCCGATAGCTTCGATCACG
131 TACCCGATAGCTTCGATCACG
* * *
48734965 TGCGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGCTAGGTCACATGTGTAGTACT-AAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAAT
* * *
48735029 GCAGGCTACTAAGTTTACCAGATTGTTAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
* *
48735094 TACCAGAGAGCTTCG
131 TACCCGATAGCTTCG
48735109 GTTACAAGGG
Statistics
Matches: 264, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
150 73 0.28
151 157 0.59
152 1 0.00
153 33 0.12
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAAT
GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAGCTTCGATCACG
Found at i:48736654 original size:40 final size:40
Alignment explanation
Indices: 48736609--48736738 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
48736599 CGGAATATAA
48736609 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48736649 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
48736689 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
48736729 CCGGATATAA
1 CCGGATATAA
48736739 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48736753 original size:40 final size:39
Alignment explanation
Indices: 48736625--48736775 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
48736615 ATAACCATGT
* * *
48736625 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
48736665 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
48736705 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
48736744 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48736776 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:48736759 original size:80 final size:79
Alignment explanation
Indices: 48736609--48736775 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
48736599 CGGAATATAA
*
48736609 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
48736674 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
48736689 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
48736751 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
48736768 CCGGATAT
1 CCGGATAT
48736776 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:48741757 original size:24 final size:24
Alignment explanation
Indices: 48741709--48741835 Score: 120
Period size: 23 Copynumber: 5.4 Consensus size: 24
48741699 GACATGGTCG
*
48741709 GTAAGCTCTCTATGAGCTGATAAACA
1 GTAAGCTCTAT-TGAGCTGA-AAACA
* *
48741735 ATAAGCTCTATTGAGCTGAAAACT
1 GTAAGCTCTATTGAGCTGAAAACA
48741759 GTAAGCTCTATTGAGCT--AAACA
1 GTAAGCTCTATTGAGCTGAAAACA
*
48741781 GTAAGCTCT-TTCGAGCTG-AATCA
1 GTAAGCTCTATT-GAGCTGAAAACA
* * *
48741804 GTAAGCTCCAGTGAGCT-AAAATA
1 GTAAGCTCTATTGAGCTGAAAACA
*
48741827 ATAAGCTCT
1 GTAAGCTCT
48741836 TACGAGCTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 27 0.32
24 21 0.25
25 8 0.09
26 9 0.11
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTGAAAACA
Found at i:48741789 original size:46 final size:45
Alignment explanation
Indices: 48741729--48741843 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 45
48741719 TATGAGCTGA
* * *
48741729 TAAACAATAAGCTCTATT-GAGCTGAAAACTGTAAGCTCTATTGAGC
1 TAAACAATAAGCTCT-TTCGAGCTG-AAACAGTAAGCTCCAGTGAGC
* *
48741775 TAAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAGTGAGC
1 TAAACAATAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAGTGAGC
* *
48741820 TAAAATAATAAGCTCTTACGAGCT
1 T-AAACAATAAGCTCTTTCGAGCT
48741844 ATGGTGAGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 20 0.34
46 39 0.66
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (45 bp):
TAAACAATAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAGTGAGC
Found at i:48748578 original size:40 final size:40
Alignment explanation
Indices: 48748504--48748725 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
48748494 AACCCAAGTA
* *
48748504 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
48748543 CCTTCGGGTCTTAGCCCGAATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
48748583 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
48748623 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
48748663 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
48748703 CCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48748726 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:48754132 original size:22 final size:22
Alignment explanation
Indices: 48754090--48754133 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48754080 AATTATTTAC
* *
48754090 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
48754112 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
48754134 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:48754434 original size:40 final size:40
Alignment explanation
Indices: 48754360--48754581 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
48754350 AACCCAAGTA
* *
48754360 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
48754399 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
48754439 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
48754479 CCTTCAGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
48754519 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
48754559 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48754582 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:48764953 original size:24 final size:25
Alignment explanation
Indices: 48764914--48764961 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
48764904 GCTCTTCATG
48764914 AGCTGATAAACAGTAAGCTCTATTA
1 AGCTGATAAACAGTAAGCTCTATTA
*
48764939 AGCTGA-AAACGGTAAGCTCTATT
1 AGCTGATAAACAGTAAGCTCTATT
48764962 GAGTTGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTGATAAACAGTAAGCTCTATTA
Found at i:48765010 original size:45 final size:47
Alignment explanation
Indices: 48764921--48765027 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 47
48764911 ATGAGCTGAT
* *
48764921 AAACAGTAAGCTCTATTAAGCTGAAAACGGTAAGCTCTATTGAGTTG
1 AAACAGTAAGCTCTTTTAAGCTGAAAACGGTAAGCTCTAGTGAGTTG
* * **
48764968 -AACAGTAAGTTCTTTTGAGCTG-AATTGGTAAGCTCTAGTGAGTTG
1 AAACAGTAAGCTCTTTTAAGCTGAAAACGGTAAGCTCTAGTGAGTTG
48765013 AAACAGTAAGCTCTT
1 AAACAGTAAGCTCTT
48765028 ATGATCTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 20 0.38
46 32 0.62
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (47 bp):
AAACAGTAAGCTCTTTTAAGCTGAAAACGGTAAGCTCTAGTGAGTTG
Found at i:48765021 original size:23 final size:23
Alignment explanation
Indices: 48764912--48765026 Score: 106
Period size: 23 Copynumber: 4.9 Consensus size: 23
48764902 AAGCTCTTCA
48764912 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
* *
48764937 TAAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTG-AAACAGTAAGCTCTAT
* * *
48764961 TGAGTTG-AACAGTAAGTTCTTT
1 TGAGCTGAAACAGTAAGCTCTAT
*** *
48764983 TGAGCTGAATTGGTAAGCTCTAG
1 TGAGCTGAAACAGTAAGCTCTAT
*
48765006 TGAGTTGAAACAGTAAGCTCT
1 TGAGCTGAAACAGTAAGCTCT
48765027 TATGATCTAT
Statistics
Matches: 70, Mismatches: 19, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
22 18 0.26
23 26 0.37
24 20 0.29
25 6 0.09
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:48765473 original size:24 final size:24
Alignment explanation
Indices: 48765429--48765474 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48765419 GGTCAAATAA
* **
48765429 ATTATGCTAATAAATGTTAAATTT
1 ATTATACTAATAAATACTAAATTT
48765453 ATTATACTAATAAATACTAAAT
1 ATTATACTAATAAATACTAAAT
48765475 CTTCTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATTT
Found at i:48767825 original size:54 final size:54
Alignment explanation
Indices: 48767766--48767878 Score: 199
Period size: 54 Copynumber: 2.1 Consensus size: 54
48767756 AACCCCTCCA
*
48767766 AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGGCAAAAGAACG
1 AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACG
* *
48767820 AAGAGGATAAAAAATCACAGGCAAAGATAATTTTACTATAATGACAAAAGAATG
1 AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACG
48767874 AAGAG
1 AAGAG
48767879 TACAAAAGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.54, C:0.10, G:0.18, T:0.19
Consensus pattern (54 bp):
AAGAGGATAAAAAATCACAGACAAAGATAATTTTACTATAATGACAAAAGAACG
Found at i:48773753 original size:7 final size:7
Alignment explanation
Indices: 48773743--48773767 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48773733 TTTTTTGGGC
48773743 GGGGGTG
1 GGGGGTG
48773750 GGGGGTG
1 GGGGGTG
48773757 GGGGGTG
1 GGGGGTG
48773764 GGGG
1 GGGG
48773768 AACGAGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.88, T:0.12
Consensus pattern (7 bp):
GGGGGTG
Found at i:48774104 original size:10 final size:10
Alignment explanation
Indices: 48774064--48774138 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
48774054 TAAAATATTT
*
48774064 AAAAATTATT
1 AAAAATTATA
48774074 AAAAATTAT-
1 AAAAATTATA
**
48774083 AAAAATCGTA
1 AAAAATTATA
*
48774093 AAAAATTCTA
1 AAAAATTATA
**
48774103 AAATTTTATAA
1 AAAAATTAT-A
*
48774114 AAAAATCATAA
1 AAAAATTAT-A
48774125 AAACAATTATA
1 AAA-AATTATA
48774136 AAA
1 AAA
48774139 TATGTAGAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
9 7 0.14
10 23 0.45
11 16 0.31
12 5 0.10
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:48774506 original size:28 final size:29
Alignment explanation
Indices: 48774453--48774517 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
48774443 TTTTTTCTAT
* *
48774453 TTTTTAATAAAATTTAAATATTTTTAT-A
1 TTTTTATTAAAATTTAAATATGTTTATAA
*
48774481 TTTTTATTAAAGTTT-AATAATGTTTATAA
1 TTTTTATTAAAATTTAAAT-ATGTTTATAA
*
48774510 CTTTTATT
1 TTTTTATT
48774518 GATTTCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 20 0.65
29 8 0.26
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTTTATTAAAATTTAAATATGTTTATAA
Found at i:48776445 original size:30 final size:29
Alignment explanation
Indices: 48776402--48776462 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
48776392 CAAGTAGCCG
48776402 AAGCTAGTTAAATCCCACACTTAGTGCCA
1 AAGCTAGTTAAATCCCACACTTAGTGCCA
*
48776431 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCCCACACTTAGTGCCA
48776461 AA
1 AA
48776463 ACTTCCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCCCACACTTAGTGCCA
Found at i:48780147 original size:182 final size:182
Alignment explanation
Indices: 48779835--48780208 Score: 685
Period size: 182 Copynumber: 2.1 Consensus size: 182
48779825 ATTCTTGCAA
* * *
48779835 CTGAGACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACGGAGTTATCAAAATTGGAGTAG
1 CTGAAACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCAAAATTGGAGTAG
48779900 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCAAAAGTTCTTCA
66 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCAAAAGTTCTTCA
48779965 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
131 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
*
48780017 CTGAAACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCGAAATTGGAGTAG
1 CTGAAACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCAAAATTGGAGTAG
**
48780082 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCGGAAGTTCTTCA
66 TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCAAAAGTTCTTCA
48780147 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
131 AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
*
48780199 CTGACACTTT
1 CTGAAACTTT
48780209 CGAATTAATC
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 185 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (182 bp):
CTGAAACTTTAATTCTTTTAACTCGATTGAAGCCATTCTATACAGAGCTATCAAAATTGGAGTAG
TACCAGGTACCAATTCTATGCCAAATTCTACCTCTCTAACTGGAGGTAATCCCAAAAGTTCTTCA
AGAAACACATCAGGGAACTCACAAACAACAGGCATAGATTTAACTTTCTTTT
Found at i:48783481 original size:30 final size:30
Alignment explanation
Indices: 48783445--48783502 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
48783435 GCCGAAGCTA
48783445 TTTAAATCGCACACTTAGTGCCAAAACTAG
1 TTTAAATCGCACACTTAGTGCCAAAACTAG
48783475 TTTAAATCGCACACTTAGTGCCAAAACT
1 TTTAAATCGCACACTTAGTGCCAAAACT
48783503 TCCGTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (30 bp):
TTTAAATCGCACACTTAGTGCCAAAACTAG
Found at i:48785778 original size:55 final size:53
Alignment explanation
Indices: 48785700--48785954 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 53
48785690 ATTAGGGTTT
*
48785700 AAGGATACCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAA-GTTTCTAAGG
* * * *
48785754 CAAGGATACCATGTAAGACCATGCCAAGACAT-GGCATTGATAAGTTACTATAAG
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTCTA-AGG
** * * * *
48785808 AAAAATGTCCCATGTAAGACCATGCCAAGGCAT-GGCATTGGTGAG-TTCGTAAGG
1 AAGGA--TACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTC-TAAGG
* * *
48785862 TAAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA--
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTCTAAGG
* * *
48785912 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAG
48785955 GTACCCATGT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 40 0.24
52 2 0.01
53 37 0.22
54 20 0.12
55 69 0.41
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGGAATTGGTAAGTTTCTAAGG
Found at i:48785906 original size:108 final size:110
Alignment explanation
Indices: 48785707--48785907 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
48785697 TTTAAGGATA
48785707 CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
48785772 CCATGCCAAGACATGGCATTGATAAGTTACTATAAGAAAAATGTC
66 CCATGCCAAGACATGGCAATGATAAGTTACTATAAGAAAAATGTC
* * *
48785817 CCATGTAAGACCATGCCAAGGCAT-GGCATTGGTGA-G-TTCGTAAGGTAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
48785879 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGCCAAGACATGGCAATGATAAGTT
48785908 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 9 0.11
110 24 0.29
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGCCAAGACATGGCAATGATAAGTTACTATAAGAAAAATGTC
Found at i:48786167 original size:16 final size:16
Alignment explanation
Indices: 48786146--48786176 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48786136 ATAAATTTGA
48786146 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
48786162 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
48786177 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:48788119 original size:62 final size:61
Alignment explanation
Indices: 48788005--48788121 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 61
48787995 TGCCTTGGCC
* ** *
48788005 ATGTGGTTTTAAGCGTAAACAGTGAGTTACACGGCCCGGGCACATGCTCGTGTCCCTGGAA
1 ATGTGGTTTTAAGCGCAAACAGTGAGTTACACGGCCCGGGCACACACCCGTGTCCCTGGAA
**
48788066 ATGTGGTTTTATA-CTGCAAACAGTGAGTTACACGGCTTGGGCACACACCCGTGTCC
1 ATGTGGTTTTA-AGC-GCAAACAGTGAGTTACACGGCCCGGGCACACACCCGTGTCC
48788122 TTGACCATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 12 0.25
62 36 0.75
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (61 bp):
ATGTGGTTTTAAGCGCAAACAGTGAGTTACACGGCCCGGGCACACACCCGTGTCCCTGGAA
Found at i:48788132 original size:62 final size:62
Alignment explanation
Indices: 48787997--48788132 Score: 152
Period size: 62 Copynumber: 2.2 Consensus size: 62
48787987 TGCCCCTCTG
* * ** *
48787997 CCTTGGCCATGTGGTTTTAAGCGTAAACAGTGAGTTACACGGCCCGGGCACATGCTCGTGTC
1 CCTTGACCATGTGGTTTTAAGCGCAAACAGTGAGTTACACGGCCCGGGCACACACCCGTGTC
* * **
48788059 CCTGGA-AATGTGGTTTTATA-CTGCAAACAGTGAGTTACACGGCTTGGGCACACACCCGTGT-
1 CCTTGACCATGTGGTTTTA-AGC-GCAAACAGTGAGTTACACGGCCCGGGCACACACCCGTGTC
48788120 CCTTGACCATGTG
1 CCTTGACCATGTG
48788133 AACCCTACAC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
61 17 0.28
62 43 0.72
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.26
Consensus pattern (62 bp):
CCTTGACCATGTGGTTTTAAGCGCAAACAGTGAGTTACACGGCCCGGGCACACACCCGTGTC
Found at i:48788555 original size:9 final size:9
Alignment explanation
Indices: 48788541--48788575 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
48788531 GGGAAAATCA
48788541 AAAAAGAAG
1 AAAAAGAAG
*
48788550 AAAAAGTAG
1 AAAAAGAAG
*
48788559 AAAAGGAAG
1 AAAAAGAAG
48788568 AAAAAGAA
1 AAAAAGAA
48788576 AAAGGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:48788567 original size:18 final size:16
Alignment explanation
Indices: 48788540--48788582 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
48788530 AGGGAAAATC
*
48788540 AAAAAAGAAGAAAAAG
1 AAAAAGGAAGAAAAAG
48788556 TAGAAAAGGAAGAAAAAG
1 -A-AAAAGGAAGAAAAAG
48788574 AAAAAGGAA
1 AAAAAGGAA
48788583 AAAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 14 0.58
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (16 bp):
AAAAAGGAAGAAAAAG
Found at i:48788585 original size:13 final size:13
Alignment explanation
Indices: 48788567--48788591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48788557 AGAAAAGGAA
48788567 GAAAAAGAAAAAG
1 GAAAAAGAAAAAG
48788580 GAAAAAGAAAAA
1 GAAAAAGAAAAA
48788592 AAACGAAAGA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAG
Found at i:48788593 original size:16 final size:16
Alignment explanation
Indices: 48788559--48788605 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
48788549 GAAAAAGTAG
*
48788559 AAAAGGAAGAAA-AAGA
1 AAAAGGAA-AAAGAAAA
48788575 AAAAGGAAAAAGAAAA
1 AAAAGGAAAAAGAAAA
*
48788591 AAAACGAAAGAAGAA
1 AAAAGGAAA-AAGAA
48788606 CTAACGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 3 0.11
16 19 0.70
17 5 0.19
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGGAAAAAGAAAA
Found at i:48790273 original size:43 final size:43
Alignment explanation
Indices: 48790167--48790273 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
48790157 TATGTGTTCT
* *
48790167 CATGTAAGACCACATCTGGGACGTTGGCATCAATAAGTGATTA
1 CATGTAAGACCACGTCTGGGACGTTAGCATCAATAAGTGATTA
* ** * *
48790210 CGTGTAAGACCTTGTCTGGGACAG-TAGCATCGATATGTGATTA
1 CATGTAAGACCACGTCTGGGAC-GTTAGCATCAATAAGTGATTA
*
48790253 CATGTAAGACCACGTTTGGGA
1 CATGTAAGACCACGTCTGGGA
48790274 TGTTGACATT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 51 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTAGCATCAATAAGTGATTA
Found at i:48792099 original size:29 final size:28
Alignment explanation
Indices: 48792065--48792167 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
48792055 TACTCAATCA
*
48792065 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
48792094 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
48792123 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
48792152 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
48792168 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:48797348 original size:8 final size:8
Alignment explanation
Indices: 48797324--48797357 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
48797314 TTGGACATAA
48797324 TAATATTT
1 TAATATTT
*
48797332 GATATATTT
1 TA-ATATTT
48797341 TAATATTT
1 TAATATTT
48797349 TAATATTT
1 TAATATTT
48797357 T
1 T
48797358 TAGAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:48797358 original size:17 final size:18
Alignment explanation
Indices: 48797324--48797372 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
48797314 TTGGACATAA
*
48797324 TAATA-TTTGATATATTT
1 TAATATTTTAATATATTT
48797341 TAATATTTTAATAT-TTT
1 TAATATTTTAATATATTT
48797358 TAGA-ATTTTAA-ATAT
1 TA-ATATTTTAATATAT
48797373 AAAATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.07
17 18 0.64
18 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TAATATTTTAATATATTT
Found at i:48798815 original size:38 final size:38
Alignment explanation
Indices: 48798764--48798840 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
48798754 TCATCCGCCA
48798764 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
1 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
48798802 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
1 ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
48798840 A
1 A
48798841 CACCCTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (38 bp):
ATCATAAGAATCTTCCATAGTTGTATGTAGGAAGGTAT
Found at i:48802202 original size:57 final size:56
Alignment explanation
Indices: 48802079--48802251 Score: 156
Period size: 56 Copynumber: 3.0 Consensus size: 56
48802069 TCTTGTTTCC
* * * *
48802079 AACATATGCTCATAAGAGCATAATCAGGATTACTAGTCTAGGTAAATCCTTTCTGT
1 AACATATGCTCAGAAGAGCATAATCAGGATTACCAGTCCAGGTAAATCCTATCTGT
* *
48802135 AGCATATGCTCAGAAGAGC-TCAATTAGGATTACCAGTCCAGGTTAAATCCTAAT-TGT
1 AACATATGCTCAGAAGAGCAT-AATCAGGATTACCAGTCCAGG-TAAATCCT-ATCTGT
* * * * *
48802192 AACATATGCTC-G-AGAGGGATTATATCAAGATTACCCGTTCAGGCTAAATCCTATTTGT
1 AACATATGCTCAGAAGA-GCA-TA-ATCAGGATTACCAGTCCAGG-TAAATCCTATCTGT
48802250 AA
1 AA
48802252 TGAGGTCAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
55 4 0.04
56 37 0.39
57 24 0.25
58 31 0.32
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (56 bp):
AACATATGCTCAGAAGAGCATAATCAGGATTACCAGTCCAGGTAAATCCTATCTGT
Found at i:48817696 original size:19 final size:19
Alignment explanation
Indices: 48817674--48817718 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
48817664 AATATATATA
48817674 CAACCATTAGCATTATAAT
1 CAACCATTAGCATTATAAT
48817693 CAACCATTAGCATTATAAT
1 CAACCATTAGCATTATAAT
48817712 CAACCAT
1 CAACCAT
48817719 AATTCACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.29
Consensus pattern (19 bp):
CAACCATTAGCATTATAAT
Found at i:48818498 original size:41 final size:43
Alignment explanation
Indices: 48818440--48818616 Score: 171
Period size: 45 Copynumber: 4.1 Consensus size: 43
48818430 ATTCTATCTC
* *
48818440 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-AATCAA
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAA
* * * * * *
48818482 ATA-CGATGCCGATGTCCCAGACATGGTCTTACTCGTAACCAC
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAA
* * *
48818524 ATATCGATGCCAACGTCCCAGA-TGTGGTCTTACATGAAAACACA
1 ATATCGATGCCAATGTCCCAGACAG-GGTCTTACACGAAAACA-A
* * * *
48818568 TATATCGATGCCAATTTCCCAGACATGGTCATACACGAAAACAC
1 -ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAA
48818612 ATATC
1 ATATC
48818617 AGAATCTTAT
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
41 28 0.26
42 10 0.09
43 34 0.32
45 35 0.33
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAAACAA
Found at i:48818568 original size:43 final size:43
Alignment explanation
Indices: 48818403--48818616 Score: 175
Period size: 43 Copynumber: 5.0 Consensus size: 43
48818393 ATATCATACA
* * *** * *
48818403 ATGCCAATGTCGCAGATGTGGTCTTACATTCTATCTCATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAAACACATATCG
* * * *
48818446 ATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGAAAACACATATCG
* * * *
48818487 ATGCCGATGTCCCAGACATGGTCTTAC-TCGTAACCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACAT-GAAAACACATATCG
* *
48818530 ATGCCAACGTCCCAGATGTGGTCTTACATGAAAACACATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAAACAC--ATATCG
* * * *
48818575 ATGCCAATTTCCCAGACATGGTCATACACGAAAACACATATC
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAAACACATATC
48818617 AGAATCTTAT
Statistics
Matches: 137, Mismatches: 26, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
41 26 0.19
42 13 0.09
43 59 0.43
44 2 0.01
45 37 0.27
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAAACACATATCG
Found at i:48819999 original size:25 final size:25
Alignment explanation
Indices: 48819971--48820040 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
48819961 CTCTTTTAAT
*
48819971 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
48819996 AACTTGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
48820021 AACTGGGGCATAGCGCTTTT
1 AACTGGGGCAAAGCCCTTTT
48820041 AGTACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:48820291 original size:27 final size:27
Alignment explanation
Indices: 48820261--48820447 Score: 220
Period size: 27 Copynumber: 7.0 Consensus size: 27
48820251 ACGCCACAAC
* * *
48820261 GGTATCTCGGTACTTCTACCCTATAGA
1 GGTATTTCGGTAATTCTACCCTACAGA
* *
48820288 GGTATTTTGGTATTTCTACCCTACA-A
1 GGTATTTCGGTAATTCTACCCTACAGA
*
48820314 GGGTATTTCGGTAATTCTACCCTACAGG
1 -GGTATTTCGGTAATTCTACCCTACAGA
*
48820342 GGTATTTCAGTAATTCTACCCTACA-A
1 GGTATTTCGGTAATTCTACCCTACAGA
*
48820368 GGGTACTTCGGTAATTCTACCCTACAG-
1 -GGTATTTCGGTAATTCTACCCTACAGA
** *
48820395 GGTTATTTTAGTAATTCTACCCTGCAG-
1 GG-TATTTCGGTAATTCTACCCTACAGA
48820422 GGTATTTCGGTAATTCTACCCTACAG
1 GGTATTTCGGTAATTCTACCCTACAG
48820448 GAGTTTTTGA
Statistics
Matches: 137, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
26 24 0.18
27 113 0.82
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGA
Found at i:48820319 original size:54 final size:53
Alignment explanation
Indices: 48820243--48820448 Score: 256
Period size: 54 Copynumber: 3.8 Consensus size: 53
48820233 GGGCAAAATG
* * * * *
48820243 GTAATTTTACGCC-ACAACGGTATCTCGGTACTTCTACCCTATAGAGGTATTTTG
1 GTAATTCTAC-CCTACAAGGGTATCTCGGTAATTCTACCCTACAG-GGTATTTTA
* * *
48820297 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATCTCGGTAATTCTACCCTACA-GGGTATTTTA
48820351 GTAATTCTACCCTACAAGGGTA-CTTCGGTAATTCTACCCTACAGGGTTATTTTA
1 GTAATTCTACCCTACAAGGGTATC-TCGGTAATTCTACCCTACAGGG-TATTTTA
* *
48820405 GTAATTCTACCCTGC-AGGGTATTTCGGTAATTCTACCCTACAGG
1 GTAATTCTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGG
48820449 AGTTTTTGAT
Statistics
Matches: 134, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
53 32 0.24
54 101 0.75
55 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGTATTTTA
Found at i:48820489 original size:27 final size:27
Alignment explanation
Indices: 48820445--48820549 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 27
48820435 TTCTACCCTA
*
48820445 CAGGAGT-TTTTGAT-ATTTTACAAAT
1 CAGGAGTATTTCGATAATTTTACAAAT
*
48820470 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GAGTATTTCGATAATTTTACAAAT
* * * **
48820497 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGAGTATTTCGATAATTTTACAAAT
* * *
48820524 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGAGTATTTCGATAATTTTACAAA
48820550 CCGGGGTATT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.01
25 5 0.07
26 6 0.09
27 54 0.81
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
CAGGAGTATTTCGATAATTTTACAAAT
Found at i:48820566 original size:26 final size:26
Alignment explanation
Indices: 48820459--48820570 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
48820449 AGTTTTTGAT
* * * *
48820459 ATTTTACAAATCGAGAGTATTTCGATA
1 ATTTTACAAACCG-GGGTATTTTGGTA
* *
48820486 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAA-CCGGGGTATTTTGGTA
*
48820513 ATTTTACAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAACC-GGGGTATTTTGGTA
*
48820540 ATTTTACAAACCGGGGTATTTTTGTA
1 ATTTTACAAACCGGGGTATTTTGGTA
48820566 ATTTT
1 ATTTT
48820571 GTAAACCAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 19 0.26
27 52 0.72
28 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (26 bp):
ATTTTACAAACCGGGGTATTTTGGTA
Found at i:48820577 original size:26 final size:27
Alignment explanation
Indices: 48820475--48820570 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
48820465 CAAATCGAGA
* * * *
48820475 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
48820502 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
48820529 GTATTTTGGTAATTTTACAAACC-GGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
48820555 GTATTTTTGTAATTTT
1 GTATTTTGGTAATTTT
48820571 GTAAACCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 18 0.29
27 44 0.71
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:48820620 original size:27 final size:27
Alignment explanation
Indices: 48820590--48820769 Score: 209
Period size: 27 Copynumber: 6.7 Consensus size: 27
48820580 AGGTGTTTCA
*
48820590 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
48820617 GTAATTCTGTAAATCAAGAGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
48820644 GTAATTCTATAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
48820671 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
48820698 GTAATTTTGTAAAT-AAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
**
48820724 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
48820751 ATAATTCTGTAAATTGAGG
1 GTAATTCTGTAAATCGAGG
48820770 ATACTTTGGT
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 23 0.17
27 110 0.83
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:48820684 original size:81 final size:80
Alignment explanation
Indices: 48820590--48820748 Score: 237
Period size: 81 Copynumber: 2.0 Consensus size: 80
48820580 AGGTGTTTCA
* * * *
48820590 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGAGTAAAATAGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAAT-AAGAGTAAAACAGTAATTCTATA
48820655 AATCGAAGGTAAAATG
65 AATCGAAGGTAAAATG
* * *
48820671 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATAAGGGTAAAACAGTAATTCTGTAA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATAAGAGTAAAACAGTAATTCTATAA
*
48820736 ATCGAGGGTAAAA
66 ATCGAAGGTAAAA
48820749 CAATAATTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 33 0.47
81 37 0.53
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.30
Consensus pattern (80 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATAAGAGTAAAACAGTAATTCTATAA
ATCGAAGGTAAAATG
Found at i:48820757 original size:80 final size:81
Alignment explanation
Indices: 48820599--48820769 Score: 236
Period size: 80 Copynumber: 2.1 Consensus size: 81
48820589 AGTAATTTTG
* *
48820599 TAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGAGTAAAATAGTAATTCTATAAATCGAAGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAACAGTAATTCTATAAATCGAAGG
***
48820664 TAAAATGGTAATTCTA
66 TAAAACAATAATTCTA
* * * *
48820680 TAAATCGAGGGTAAAACGGTAATTTTGTAAAT-AAGGGTAAAACAGTAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAACAGTAATTCTATAAATCGAAGG
*
48820744 TAAAACAATAATTCTG
66 TAAAACAATAATTCTA
*
48820760 TAAATTGAGG
1 TAAATCGAGG
48820770 ATACTTTGGT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 49 0.62
81 30 0.38
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAACAGTAATTCTATAAATCGAAGG
TAAAACAATAATTCTA
Found at i:48820809 original size:107 final size:108
Alignment explanation
Indices: 48820585--48820817 Score: 254
Period size: 107 Copynumber: 2.2 Consensus size: 108
48820575 ACCAAAGGTG
* ** * *
48820585 TTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGAGTAAAATAGTAATT
1 TTTCAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGAGTAAAACAATAATT
* *
48820650 CTATAAATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTA
66 CTATAAATCGAAGGTAAAATGGTAATTCTACAAATCGAGGATA
*** * * *
48820693 AAACGGTAATTTTGTAAAT-AAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAATAATT
1 TTTCAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGAGTAAAACAATAATT
* * *** * *
48820757 CTGTAAATTG-AGGATACTTTGGTAATTTTACAAATTGAGGATA
66 CTATAAATCGAAGG-TAAAATGGTAATTCTACAAATCGAGGATA
*
48820800 TTTCAGTAATTTGGTAAA
1 TTTCAGTAATTTTGTAAA
48820818 CTAAAGTATT
Statistics
Matches: 99, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
106 3 0.03
107 81 0.82
108 15 0.15
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (108 bp):
TTTCAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGAGTAAAACAATAATT
CTATAAATCGAAGGTAAAATGGTAATTCTACAAATCGAGGATA
Found at i:48823153 original size:21 final size:21
Alignment explanation
Indices: 48823129--48823174 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
48823119 GTCACACGCT
48823129 CGTGTGGTCTAGGGACGCGCC
1 CGTGTGGTCTAGGGACGCGCC
*
48823150 CGTGTTGTCTAGGGACGCGCC
1 CGTGTGGTCTAGGGACGCGCC
48823171 CGTG
1 CGTG
48823175 CCGTGTACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.28, G:0.41, T:0.22
Consensus pattern (21 bp):
CGTGTGGTCTAGGGACGCGCC
Found at i:48830201 original size:27 final size:28
Alignment explanation
Indices: 48830142--48830212 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 28
48830132 AAATTTGTAC
48830142 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48830170 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48830197 GGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
48830213 ACTCACTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48830222 original size:27 final size:27
Alignment explanation
Indices: 48830166--48830224 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
48830156 GAGTTTGATC
* ** * *
48830166 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATGGCACTAAGTGTGCGAACTCACT
48830193 ATATGGCACTAAGTGTGCGAACTCACT
1 ATATGGCACTAAGTGTGCGAACTCACT
48830220 ATATG
1 ATATG
48830225 CTTTTGAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
ATATGGCACTAAGTGTGCGAACTCACT
Found at i:48835985 original size:27 final size:26
Alignment explanation
Indices: 48835935--48836035 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
48835925 ATGGAGGAAG
* * *
48835935 TACTG-TATTGGTGACTATGTCACAT
1 TACTGTTACTGGTGGCTATGCCACAT
48835960 TCACTGTTACTGGTGG-TCATGCCACAAT
1 T-ACTGTTACTGGTGGCT-ATGCCAC-AT
* *
48835988 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACA-T
* **
48836015 TACTGTTTCTGGCAGCTATGC
1 TACTGTTACTGGTGGCTATGC
48836036 TGCATTATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
25 1 0.02
26 6 0.10
27 49 0.82
28 4 0.07
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGTGGCTATGCCACAT
Found at i:48838184 original size:27 final size:26
Alignment explanation
Indices: 48838136--48838187 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48838126 GCGAGGATGC
*
48838136 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
48838162 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
48838188 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48838868 original size:27 final size:27
Alignment explanation
Indices: 48838838--48838956 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
48838828 GGGGCAAAAT
* * * *
48838838 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
48838865 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
48838892 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
48838919 AATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
48838946 GGTAATTCTAC
1 GGTAATTCTAC
48838957 AACTTATCCA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:48841984 original size:43 final size:43
Alignment explanation
Indices: 48841925--48842081 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
48841915 AGCTCATACA
*
48841925 ATGCCAAC-ATCCCAGACGAGGTCTTACATGTAATCAAATATCA
1 ATGCC-ACTATCCCAGACGAGGTCTTACATGTAATCAAATATCG
* * * * *
48841968 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCACTATCCCAGACGAGGTCTTACATGTAATCAAATATCG
* *
48842010 ATGCCAATATCCCAGAC-ATGGTCTTACATGTAAATCAAAAATCG
1 ATGCCACTATCCCAGACGA-GGTCTTACATGT-AATCAAATATCG
*
48842054 ATGCCAAC-ATCCCAGACGTGGTCTTACA
1 ATGCC-ACTATCCCAGACGAGGTCTTACA
48842082 CGATAACGCA
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 39 0.41
44 25 0.27
45 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
ATGCCACTATCCCAGACGAGGTCTTACATGTAATCAAATATCG
Found at i:48842081 original size:86 final size:85
Alignment explanation
Indices: 48841920--48842084 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 85
48841910 ACATAAGCTC
* *
48841920 ATACAATGCCAACATCCCAGACGAGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGAC
1 ATACAATGCCAACATCCCAGACGAGGTCTTACATGTAATCAAAAATCAATGCCACTATCCCAGAC
48841985 AAGGTCTTACACGAAATCAT
66 AAGGTCTTACACGAAATCAT
* * *
48842005 ATACGATGCCAATATCCCAGAC-ATGGTCTTACATGTAAATCAAAAATCGATGCCAAC-ATCCCA
1 ATACAATGCCAACATCCCAGACGA-GGTCTTACATGT-AATCAAAAATCAATGCC-ACTATCCCA
**
48842068 GACGTGGTCTTACACGA
63 GACAAGGTCTTACACGA
48842085 TAACGCATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 1 0.01
85 32 0.46
86 35 0.50
87 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACGAGGTCTTACATGTAATCAAAAATCAATGCCACTATCCCAGAC
AAGGTCTTACACGAAATCAT
Found at i:48842781 original size:23 final size:22
Alignment explanation
Indices: 48842751--48842798 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
48842741 ATTTTTCATT
48842751 AATTAACAATT-CAAAACTCACA
1 AATTAACAATTGCAAAACTCA-A
*
48842773 AATTGAACAATTGCATAACTCAA
1 AATT-AACAATTGCAAAACTCAA
48842796 AAT
1 AAT
48842799 CATCATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 8 0.35
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (22 bp):
AATTAACAATTGCAAAACTCAA
Found at i:48848594 original size:43 final size:43
Alignment explanation
Indices: 48848536--48848698 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
48848526 TACAATTCAA
* * *
48848536 ATCGATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAAT
1 ATCGATGCCAATGTCCCAAACGTGGTCTTACACGTAATCAAAT
* * *
48848579 ATCGATGCCACTGTCCCAAACAG-GGTCTTACAGGAAAT--AAT
1 ATCGATGCCAATGTCCCAAAC-GTGGTCTTACACGTAATCAAAT
*
48848620 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAA-
1 AT-CGATGCCAATGTCCCAAACGTGGTCTTACACGT-AATCA-AAT
* *
48848665 ATCGATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATCGATGCCAATGTCCCAAACGTGGTCTTACACG
48848699 ATAACACATA
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 5 0.05
42 28 0.28
43 34 0.34
44 30 0.30
45 2 0.02
46 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAAACGTGGTCTTACACGTAATCAAAT
Found at i:48848692 original size:86 final size:85
Alignment explanation
Indices: 48848538--48848696 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 85
48848528 CAATTCAAAT
* * * *
48848538 CGATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAGG
1 CGATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGG
48848603 GTCTTACAGGAAATAATATA
66 GTCTTACAGGAAATAATATA
*
48848623 CGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAA-ATCGATGCCAAC-GTCCCAGAC
1 CGATGCCAATGTCCCAAACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAAAC
48848686 -GTGGTCTTACA
63 AG-GGTCTTACA
48848697 CGATAACACA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
85 30 0.46
86 31 0.48
87 4 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (85 bp):
CGATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGG
GTCTTACAGGAAATAATATA
Found at i:48853092 original size:34 final size:34
Alignment explanation
Indices: 48853044--48853110 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
48853034 AGACCGTTAC
48853044 GTGACGTATCACTAAAAACAATAAATTCCTTCTA
1 GTGACGTATCACTAAAAACAATAAATTCCTTCTA
*
48853078 GTGATGTATCACTAAAAACAATAAATTCCTTCT
1 GTGACGTATCACTAAAAACAATAAATTCCTTCT
48853111 TGGATTTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (34 bp):
GTGACGTATCACTAAAAACAATAAATTCCTTCTA
Found at i:48853432 original size:22 final size:22
Alignment explanation
Indices: 48853407--48853453 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
48853397 CCCACTTCTA
48853407 GAAGTCAAAATTCACTTTTAAT
1 GAAGTCAAAATTCACTTTTAAT
*
48853429 GAAGTGAAAATTCACTTTTAAT
1 GAAGTCAAAATTCACTTTTAAT
48853451 GAA
1 GAA
48853454 CATCACATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (22 bp):
GAAGTCAAAATTCACTTTTAAT
Found at i:48856330 original size:21 final size:21
Alignment explanation
Indices: 48856304--48856344 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48856294 GCAGATCACA
* *
48856304 CACGCCCGTGTAGAAATCCCT
1 CACGCCAGTATAGAAATCCCT
*
48856325 CACGCCAGTATGGAAATCCC
1 CACGCCAGTATAGAAATCCC
48856345 ACACATCCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (21 bp):
CACGCCAGTATAGAAATCCCT
Found at i:48873354 original size:12 final size:12
Alignment explanation
Indices: 48873339--48873369 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
48873329 GAGACACACG
48873339 CCCGTGTCTCTA
1 CCCGTGTCTCTA
48873351 CCCGTGTCTCTA
1 CCCGTGTCTCTA
48873363 CCCGTGT
1 CCCGTGT
48873370 GGACAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.42, G:0.19, T:0.32
Consensus pattern (12 bp):
CCCGTGTCTCTA
Found at i:48878959 original size:19 final size:20
Alignment explanation
Indices: 48878913--48878959 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
48878903 TATGCACCAC
48878913 TATGCACTTCGTGTGCCAAG
1 TATGCACTTCGTGTGCCAAG
* **
48878933 -ATGAACTTCGTGTTTC-AG
1 TATGCACTTCGTGTGCCAAG
48878951 TATGCACTT
1 TATGCACTT
48878960 TACGTGCCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (20 bp):
TATGCACTTCGTGTGCCAAG
Found at i:48882035 original size:39 final size:39
Alignment explanation
Indices: 48881981--48882124 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
48881971 GAATGTTCGA
*
48881981 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
48882020 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
48882059 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
48882098 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
48882125 CTTTGTGCGG
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:48882072 original size:78 final size:79
Alignment explanation
Indices: 48881982--48882164 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
48881972 AATGTTCGAG
*
48881982 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
48882046 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
48882060 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
48882125 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
48882139 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
48882165 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:48888316 original size:40 final size:39
Alignment explanation
Indices: 48888182--48888332 Score: 130
Period size: 39 Copynumber: 3.8 Consensus size: 39
48888172 TCGAATGATG
* * ** *
48888182 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGAC-TA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTCCAAA
*
48888221 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTCCAAA
* *
48888260 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTAT-TATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-T-TCCA-AA
* * *
48888301 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48888333 CGCTATATCC
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 5 0.05
39 55 0.59
40 30 0.32
41 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCAAA
Found at i:48898005 original size:40 final size:40
Alignment explanation
Indices: 48897950--48898113 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
48897940 TGAATGATAC
* * *
48897950 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
48897990 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
48898030 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
48898070 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
48898110 CCGG
1 CCGG
48898114 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:48899573 original size:40 final size:40
Alignment explanation
Indices: 48899501--48899599 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
48899491 GGACTAAAAT
* * *
48899501 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGCTACCAAATCCGGGCTAAGTC
** *
48899541 CCGAAGGCATTTGTGCGAGCTATTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGCTACCA-AATCCGGGCTAAGTC
* *
48899581 CCGAAGGCTTTTGAGCGAG
1 CCGAAGGCATTTGTGCGAG
48899600 TCGCTATATC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGCTACCAAATCCGGGCTAAGTC
Found at i:48901317 original size:32 final size:32
Alignment explanation
Indices: 48901281--48901342 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
48901271 TCAAAAGGGC
48901281 GAGTTCAATATTTATCAAACCATATAGTAAGT
1 GAGTTCAATATTTATCAAACCATATAGTAAGT
48901313 GAGTTCAATATTTATCAAACCATATAGTAA
1 GAGTTCAATATTTATCAAACCATATAGTAA
48901343 CTCAATCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (32 bp):
GAGTTCAATATTTATCAAACCATATAGTAAGT
Found at i:48905850 original size:29 final size:29
Alignment explanation
Indices: 48905788--48905890 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
48905778 GTGACGAGAT
* * *
48905788 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
48905817 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
48905846 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
48905875 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48905891 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:48913844 original size:29 final size:29
Alignment explanation
Indices: 48913782--48913884 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
48913772 GTGACGAGAT
* * *
48913782 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
48913811 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
48913840 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
48913869 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48913885 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:48922888 original size:28 final size:28
Alignment explanation
Indices: 48922855--48922910 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48922845 ATTTATGTCA
48922855 TGTCTTACCCATTTTTATTTAAAAGCCT
1 TGTCTTACCCATTTTTATTTAAAAGCCT
48922883 TGTCTTACCCATTTTTATTTAAAAGCCT
1 TGTCTTACCCATTTTTATTTAAAAGCCT
48922911 ACTGCCTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (28 bp):
TGTCTTACCCATTTTTATTTAAAAGCCT
Found at i:48928267 original size:94 final size:94
Alignment explanation
Indices: 48928103--48928572 Score: 843
Period size: 94 Copynumber: 5.0 Consensus size: 94
48928093 AATGTGACCG
* * *
48928103 TATATGCTATTTCAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTTG-
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTG-TGC
*
48928167 GAAATTAAATGTCACTTTGTGTGCAGATTT
65 GGAATTAAATGTCACTTTGTGTGCAGATTT
48928197 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
48928262 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
48928291 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
48928356 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
48928385 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGTG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
48928450 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
48928479 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* * *
48928544 GAATTAAATGGCACTATGTGTGGAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
48928573 GAATGTCGAT
Statistics
Matches: 364, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
93 2 0.01
94 362 0.99
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:48928633 original size:24 final size:24
Alignment explanation
Indices: 48928601--48928664 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
48928591 GAAAATTTCA
* *
48928601 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
48928625 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
48928649 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
48928665 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:48935251 original size:19 final size:19
Alignment explanation
Indices: 48935203--48935245 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
48935193 CAGATAGAAA
*
48935203 CAGAT-ACAAATTCAAAAT
1 CAGATAACAGATTCAAAAT
48935221 CAGATAACAGATTCAAATAT
1 CAGATAACAGATTCAAA-AT
48935241 CAGAT
1 CAGAT
48935246 TCAGATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.23
Consensus pattern (19 bp):
CAGATAACAGATTCAAAAT
Found at i:48939660 original size:40 final size:40
Alignment explanation
Indices: 48939601--48939742 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
48939591 AAATTGAATG
* * *
48939601 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
48939641 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
48939681 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
48939721 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48939743 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:48939743 original size:40 final size:39
Alignment explanation
Indices: 48939640--48939768 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
48939630 TGCTGGAAAT
* * *
48939640 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
48939680 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
48939720 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
48939760 TATATCCGG
1 TATATCCGG
48939769 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:48947673 original size:40 final size:40
Alignment explanation
Indices: 48947614--48947755 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
48947604 AAATTGAATG
* * *
48947614 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
48947654 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
48947694 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
48947734 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48947756 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:48947756 original size:40 final size:39
Alignment explanation
Indices: 48947653--48947781 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
48947643 TGCTGGAAAT
* * *
48947653 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
48947693 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
48947733 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
48947773 TATATCCGG
1 TATATCCGG
48947782 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:48952946 original size:46 final size:45
Alignment explanation
Indices: 48952879--48953050 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 45
48952869 AACCCGCCCG
*
48952879 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCG-GCATTCGCATCCA
* * * *
48952925 TAAGTGAACTCGAACTCAACTCAACGAGCTCGG-ATGCCCAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCA--TCCA
*** *
48952971 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCA
*
48953018 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
48953051 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 4 0.04
45 1 0.01
46 64 0.61
47 31 0.30
49 5 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCA
Found at i:48952996 original size:93 final size:93
Alignment explanation
Indices: 48952884--48953057 Score: 296
Period size: 93 Copynumber: 1.9 Consensus size: 93
48952874 GCCCGTAAGT
*
48952884 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGAACTCAACTCA
48952948 ACGAGCTCGGATGCCCAGTTACATCTCTC
65 ACGAGCTCGGATGCCCAGTTACATCTCTC
* *
48952977 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
48953042 CGAGTTCGGATGCCCA
66 CGAGCTCGGATGCCCA
48953058 AATATCCTAG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 74 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCCAGTTACATCTCTC
Found at i:48953070 original size:46 final size:44
Alignment explanation
Indices: 48952881--48953070 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 44
48952871 CCCGCCCGTA
* * **
48952881 AGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC--CCAAATCC-T
* *
48952926 AAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
48952976 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
48953019 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
48953066 AGTGA
1 AGTGA
48953071 CATGTCACTT
Statistics
Matches: 115, Mismatches: 12, Indels: 34
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 4 0.03
46 62 0.54
47 29 0.25
48 6 0.05
49 4 0.03
50 4 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:48955521 original size:45 final size:45
Alignment explanation
Indices: 48955426--48955587 Score: 222
Period size: 45 Copynumber: 3.6 Consensus size: 45
48955416 CCGGTATTTC
* * *
48955426 GCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATA
* * *
48955469 GCCTGCTAGGCTCGAAGGCCTGGATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* *
48955514 GCCTGCTAAGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
48955559 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
48955588 CCGTACAATA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 16 0.15
44 4 0.04
45 86 0.80
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
Found at i:48964095 original size:27 final size:27
Alignment explanation
Indices: 48964061--48964252 Score: 195
Period size: 27 Copynumber: 7.4 Consensus size: 27
48964051 TGGATAAGTT
*
48964061 GTAGAATTACCGAAATA-CCCTCGTAAG
1 GTAGAATTACCGAAATACCCCT-GTAGG
*
48964088 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
***
48964115 GTAGAATTATTAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
48964142 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
48964169 GTAGAATTATGGAAATACCCTTGTA-G
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48964195 G--G---TA--GAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
48964215 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48964242 GTAAAATTACC
1 GTAGAATTACC
48964253 ATTTTGCCCC
Statistics
Matches: 137, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
19 12 0.09
20 2 0.01
21 2 0.01
22 1 0.01
24 1 0.01
25 2 0.01
26 2 0.01
27 111 0.81
28 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:48964204 original size:19 final size:19
Alignment explanation
Indices: 48964180--48964225 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
48964170 TAGAATTATG
* *
48964180 GAAATACCCTTGTAGGGTA
1 GAAATACCCCTATAGGGTA
48964199 GAAATACCCCTATAGGGTA
1 GAAATACCCCTATAGGGTA
*
48964218 GAATTACC
1 GAAATACC
48964226 GAGATACCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (19 bp):
GAAATACCCCTATAGGGTA
Found at i:48964220 original size:46 final size:46
Alignment explanation
Indices: 48964153--48964248 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 46
48964143 TAGAATTACC
* **
48964153 GAAATACCCCTGTAGGGTAGAATTATGGAAATACCCTTGTAGGGTA
1 GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* *
48964199 GAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTA
1 GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
48964245 -AAAT
1 GAAAT
48964249 TACCATTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 4 0.09
46 41 0.91
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (46 bp):
GAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
Found at i:48964947 original size:27 final size:26
Alignment explanation
Indices: 48964903--48964954 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48964893 CTCGCCGCAA
*
48964903 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
48964930 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
48964955 ACAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:48964994 original size:2 final size:2
Alignment explanation
Indices: 48964987--48965016 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48964977 GCTTCGCCAC
48964987 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
48965017 TCTGGTGGCC
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:48971641 original size:27 final size:27
Alignment explanation
Indices: 48971607--48971806 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
48971597 TAGATAAGTT
*
48971607 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48971634 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
48971661 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48971688 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48971715 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
48971742 GTAGAAATACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
48971769 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48971796 GTAAAATTACC
1 GTAGAATTACC
48971807 ATTTTGCCCC
Statistics
Matches: 152, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:48972576 original size:27 final size:26
Alignment explanation
Indices: 48972538--48972597 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48972528 CCATATATAT
* *
48972538 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
48972564 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
48972591 ATATCTG
1 ATATCTG
48972598 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:48974674 original size:40 final size:40
Alignment explanation
Indices: 48974552--48974732 Score: 139
Period size: 40 Copynumber: 4.5 Consensus size: 40
48974542 TATTGATGAA
* * * * * * *
48974552 TGCACTTACGTACCACTGTTTGTACTTCAGTACCCATGAT
1 TGCACATACGTGCCTCTATTTGTACTTCGGTACCCCTCAT
* * * *
48974592 TGCACTTATGTGCCCCT-TTTCGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCTCTATTT-GTACTTCGGTACCCCTCAT
* * * **
48974632 TGCACATGCGTGCCTTTGTTTGTACTTCGGTACCGTTCAT
1 TGCACATACGTGCCTCTATTTGTACTTCGGTACCCCTCAT
* * * *
48974672 TGCATATACGTGCCTCTATTTGTACTTAGGTACCCCTAAA
1 TGCACATACGTGCCTCTATTTGTACTTCGGTACCCCTCAT
* * *
48974712 TGCACTTACATGCCCCTATTT
1 TGCACATACGTGCCTCTATTT
48974733 ATACACTGGT
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 3 0.03
40 107 0.95
41 3 0.03
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TGCACATACGTGCCTCTATTTGTACTTCGGTACCCCTCAT
Found at i:48974716 original size:80 final size:80
Alignment explanation
Indices: 48974568--48974716 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 80
48974558 TACGTACCAC
* * * * *
48974568 TGTTTGTACTTCAGTACCCATGATTGCACTTATGTGCCCCTTTTCGTACTTCGGTACCCCTGATT
1 TGTTTGTACTTCAGTACCCATCATTGCACTTACGTGCCCCTTTTCGTACTTAGGTACCCCTAAAT
48974633 GCACATGCGTGCCTT
66 GCACATGCGTGCCTT
* ** *
48974648 TGTTTGTACTTCGGTACCGTTCATTGCA-TATACGTGCCTCTATTT-GTACTTAGGTACCCCTAA
1 TGTTTGTACTTCAGTACCCATCATTGCACT-TACGTGCCCCT-TTTCGTACTTAGGTACCCCTAA
48974711 ATGCAC
64 ATGCAC
48974717 TTACATGCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
79 1 0.02
80 54 0.93
81 3 0.05
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (80 bp):
TGTTTGTACTTCAGTACCCATCATTGCACTTACGTGCCCCTTTTCGTACTTAGGTACCCCTAAAT
GCACATGCGTGCCTT
Found at i:48979719 original size:20 final size:20
Alignment explanation
Indices: 48979681--48979719 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48979671 ACCTATAAGG
* * *
48979681 GACACACAGTTGTGTCATAT
1 GACACACAGCTGAGACATAT
48979701 GACACACAGCTGAGACATA
1 GACACACAGCTGAGACATA
48979720 CGCCCACATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
GACACACAGCTGAGACATAT
Found at i:48980376 original size:34 final size:36
Alignment explanation
Indices: 48980323--48980389 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
48980313 TAACATAATT
48980323 GATACATAACAACCATACC-ATTTTGGCCATTTAAA
1 GATACATAACAACCATACCAATTTTGGCCATTTAAA
*
48980358 GATACATTAAC-A-CATACCAATTTTGGTCATTT
1 GATACA-TAACAACCATACCAATTTTGGCCATTT
48980390 CTAAGCATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (36 bp):
GATACATAACAACCATACCAATTTTGGCCATTTAAA
Found at i:48981021 original size:31 final size:31
Alignment explanation
Indices: 48980981--48981046 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
48980971 AACCCTTCCT
*
48980981 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
48981012 GCATGAAATCCAACCAAAAACAGTAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
48981043 GCAT
1 GCAT
48981047 AAAAATACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:48981071 original size:32 final size:31
Alignment explanation
Indices: 48980981--48981071 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
48980971 AACCCTTCCT
* * * *
48980981 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATACAACAAAAAACAGTAAATATA
* * *
48981012 GCATGAAATCCAACCAAAAACAGTAAATATA
1 GCATAAAATACAACAAAAAACAGTAAATATA
* *
48981043 GCATAAAAATACAATAAAAAACATTAAAT
1 GCAT-AAAATACAACAAAAAACAGTAAAT
48981072 CTAAATGATA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 33 0.63
32 19 0.37
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.18
Consensus pattern (31 bp):
GCATAAAATACAACAAAAAACAGTAAATATA
Found at i:48981328 original size:21 final size:21
Alignment explanation
Indices: 48981304--48981352 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
48981294 GTCATTGCTG
*
48981304 CTGCCTCTACCTCTCTCGCTA
1 CTGCCTCTACCTCCCTCGCTA
* * * *
48981325 CTGCCGCTGCCTCCCTCTCTG
1 CTGCCTCTACCTCCCTCGCTA
48981346 CTGCCTC
1 CTGCCTC
48981353 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.51, G:0.14, T:0.31
Consensus pattern (21 bp):
CTGCCTCTACCTCCCTCGCTA
Found at i:48981783 original size:13 final size:14
Alignment explanation
Indices: 48981757--48981785 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48981747 ACTAACGACG
48981757 AATTAAACCATTAT
1 AATTAAACCATTAT
48981771 AATTAAA-CATTAT
1 AATTAAACCATTAT
48981784 AA
1 AA
48981786 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:48986862 original size:9 final size:9
Alignment explanation
Indices: 48986848--48986977 Score: 179
Period size: 9 Copynumber: 14.4 Consensus size: 9
48986838 AGTATAATTA
48986848 AGTTATGTG
1 AGTTATGTG
48986857 AGTTATGTG
1 AGTTATGTG
48986866 AGTTATGTG
1 AGTTATGTG
48986875 AGTTATGTG
1 AGTTATGTG
48986884 AGTTATGTG
1 AGTTATGTG
*
48986893 AGTTATGTA
1 AGTTATGTG
*
48986902 AGTTATGTA
1 AGTTATGTG
*
48986911 AGTTATGTA
1 AGTTATGTG
48986920 AGTTATGTG
1 AGTTATGTG
*
48986929 AGTTATGTA
1 AGTTATGTG
* *
48986938 AGTTATATA
1 AGTTATGTG
*
48986947 AGTTATGTT
1 AGTTATGTG
48986956 AGTTATGTG
1 AGTTATGTG
* *
48986965 AGCTATGTA
1 AGTTATGTG
48986974 AGTT
1 AGTT
48986978 CAAGTATATA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 111 1.00
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (9 bp):
AGTTATGTG
Found at i:48986871 original size:18 final size:18
Alignment explanation
Indices: 48986846--48986977 Score: 201
Period size: 18 Copynumber: 7.3 Consensus size: 18
48986836 TAAGTATAAT
48986846 TAAGTTATGTGAGTTATG
1 TAAGTTATGTGAGTTATG
*
48986864 TGAGTTATGTGAGTTATG
1 TAAGTTATGTGAGTTATG
*
48986882 TGAGTTATGTGAGTTATG
1 TAAGTTATGTGAGTTATG
*
48986900 TAAGTTATGTAAGTTATG
1 TAAGTTATGTGAGTTATG
48986918 TAAGTTATGTGAGTTATG
1 TAAGTTATGTGAGTTATG
* *
48986936 TAAGTTATATAAGTTATG
1 TAAGTTATGTGAGTTATG
* *
48986954 TTAGTTATGTGAGCTATG
1 TAAGTTATGTGAGTTATG
48986972 TAAGTT
1 TAAGTT
48986978 CAAGTATATA
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 103 1.00
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (18 bp):
TAAGTTATGTGAGTTATG
Found at i:48987292 original size:29 final size:28
Alignment explanation
Indices: 48987249--48987315 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
48987239 TCACATGGAA
*
48987249 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
48987277 ATAAAAATTATATTAATTAAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
48987306 AAATAAATTA
1 AAA-AAATTA
48987316 ATCTAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:48987300 original size:20 final size:20
Alignment explanation
Indices: 48987277--48987336 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
48987267 AATAATATTT
48987277 ATAAAAATTATATTAATTAA
1 ATAAAAATTATATTAATTAA
* * * *
48987297 ATAATATTTAAATAAATT-A
1 ATAAAAATTATATTAATTAA
**
48987316 ATCTAAATTATATTAATTAA
1 ATAAAAATTATATTAATTAA
48987336 A
1 A
48987337 ATAAGATTGA
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATTATATTAATTAA
Found at i:48987307 original size:15 final size:15
Alignment explanation
Indices: 48987259--48987313 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
48987249 AAAAAATTAT
48987259 TTTAATTAAATAATA
1 TTTAATTAAATAATA
48987274 TTT-A-TAAA-AATTA
1 TTTAATTAAATAA-TA
48987287 TATTAATTAAATAATA
1 T-TTAATTAAATAATA
*
48987303 TTTAAATAAAT
1 TTTAATTAAAT
48987314 TAATCTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 7 0.21
14 3 0.09
15 13 0.38
16 7 0.21
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:48987331 original size:24 final size:24
Alignment explanation
Indices: 48987260--48987329 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 24
48987250 AAAAATTATT
*
48987260 TTAATTAAATAATATTTATAAAAATTATA
1 TTAATTAAATAATA-TT-T--AAA-TAAA
48987289 TTAATTAAATAATATTTAAATAAA
1 TTAATTAAATAATATTTAAATAAA
*
48987313 TTAATCTAAATTATATT
1 TTAAT-TAAATAATATT
48987330 AATTAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 8 0.21
25 13 0.34
27 1 0.03
28 2 0.05
29 14 0.37
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATTAAATAATATTTAAATAAA
Found at i:48987336 original size:24 final size:24
Alignment explanation
Indices: 48987282--48987336 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
48987272 TATTTATAAA
*
48987282 AATTATATTAATTAAATAATATTT
1 AATTAAATTAATTAAATAATATTT
* *
48987306 AAATAAATTAATCTAAATTATA-TT
1 AATTAAATTAAT-TAAATAATATTT
48987330 AATTAAA
1 AATTAAA
48987337 ATAAGATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTAAATTAATTAAATAATATTT
Found at i:48987338 original size:15 final size:14
Alignment explanation
Indices: 48987252--48987336 Score: 70
Period size: 14 Copynumber: 6.2 Consensus size: 14
48987242 CATGGAAAAA
*
48987252 AAATTATTTTAATT
1 AAATTATATTAATT
* * *
48987266 AAATAATATTTATAA
1 AAATTATATTAAT-T
48987281 AAATTATATTAATT
1 AAATTATATTAATT
*
48987295 AAA-TA-A-TATTT
1 AAATTATATTAATT
*
48987306 AAA-TAAATTAATCT
1 AAATTATATTAAT-T
48987320 AAATTATATTAATT
1 AAATTATATTAATT
48987334 AAA
1 AAA
48987337 ATAAGATTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
11 9 0.16
12 2 0.04
13 5 0.09
14 21 0.38
15 19 0.34
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTATATTAATT
Found at i:48987593 original size:24 final size:24
Alignment explanation
Indices: 48987550--48987596 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48987540 TTAACTTAAA
*
48987550 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGAGAATATTTG
* *
48987574 TGATAAAACGTATGAGAATATTT
1 TGATAAAACGGACGAGAATATTT
48987597 CAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (24 bp):
TGATAAAACGGACGAGAATATTTG
Found at i:48988285 original size:67 final size:67
Alignment explanation
Indices: 48988202--48988339 Score: 249
Period size: 67 Copynumber: 2.1 Consensus size: 67
48988192 CATACACCTG
48988202 CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
48988267 GC
66 GC
* * *
48988269 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCCATGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
48988334 GC
66 GC
48988336 CATT
1 CATT
48988340 ATAAATTGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (67 bp):
CATTTTATGATGTAAAGCATGCTAGTTGCGACTCCAATGGATAATCTTAGTTGTCTATGTGGTTT
GC
Found at i:48991808 original size:15 final size:15
Alignment explanation
Indices: 48991788--48991844 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
48991778 CGATGAATTT
48991788 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
48991803 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
48991818 ATTGAATTTATATTG
1 ATTGAATTTATATTG
48991833 ATTGAA-TTATAT
1 ATTGAATTTATAT
48991845 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:48992263 original size:21 final size:21
Alignment explanation
Indices: 48992228--48992323 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
48992218 AAGCACTTTA
*
48992228 TGTGTCGTATTTCAGGCAACTCG
1 TGTGTCGTA--TCAGGCACCTCG
48992251 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
48992272 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
48992293 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
48992314 TGTGTCGTAT
1 TGTGTCGTAT
48992324 ACTGATCAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 57 0.86
23 9 0.14
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:48994664 original size:51 final size:52
Alignment explanation
Indices: 48994569--48994686 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
48994559 AAGAATTAGA
* *
48994569 TAAAATTTGAAATATTGGAAATTATTTAAAATTTGAAATATTGAAAATTATT-
1 TAAAATTTGAAAT-CTGAAAATTATTTAAAATTTGAAATATTGAAAATTATTC
* * *
48994621 TAAAATTTGAAATCTGAAAATTATTTAAAATTTTAATTCTTGAAAATTATTC
1 TAAAATTTGAAATCTGAAAATTATTTAAAATTTGAAATATTGAAAATTATTC
48994673 T-AAATTTGAAATCT
1 TAAAATTTGAAATCT
48994687 TTAAATCTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
51 46 0.77
52 14 0.23
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (52 bp):
TAAAATTTGAAATCTGAAAATTATTTAAAATTTGAAATATTGAAAATTATTC
Found at i:48994687 original size:26 final size:26
Alignment explanation
Indices: 48994569--48994687 Score: 170
Period size: 26 Copynumber: 4.6 Consensus size: 26
48994559 AAGAATTAGA
* *
48994569 TAAAATTTGAAATATTGGAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
*
48994595 TAAAATTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
48994621 TAAAATTTGAAATC-TGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
* *
48994646 TAAAATTTTAATTCTTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
48994672 CT-AAATTTGAAATCTT
1 -TAAAATTTGAAATCTT
48994688 TAAATCTATA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
25 23 0.27
26 61 0.72
27 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTATT
Found at i:48994753 original size:15 final size:15
Alignment explanation
Indices: 48994733--48994761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48994723 ATTAAAAAAC
48994733 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
48994748 AACCCCTAACCCTT
1 AACCCCTAACCCTT
48994762 GTCCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Done.