Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 167 of 193
Found at i:52018370 original size:30 final size:30
Alignment explanation
Indices: 52018334--52018427 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 30
52018324 ATAAAAAACG
52018334 TTTAAGTATAATAATAGCAAAAATAAAATA
1 TTTAAGTATAATAATAGCAAAAATAAAATA
*
52018364 TTTAAGTATAATAATAGCAAAGATAAAATA
1 TTTAAGTATAATAATAGCAAAAATAAAATA
* * * * *
52018394 TTTATGTTTAATTATTG-TAAAATAAAATA
1 TTTAAGTATAATAATAGCAAAAATAAAATA
52018423 TTTAA
1 TTTAA
52018428 AATTATATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 14 0.25
30 42 0.75
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (30 bp):
TTTAAGTATAATAATAGCAAAAATAAAATA
Found at i:52018615 original size:31 final size:31
Alignment explanation
Indices: 52018547--52018617 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
52018537 GTAGTATAAT
* * *
52018547 TATACACATAAAACTTTGATTATGGTTCAAA
1 TATATACATAAAACTTTAATTATGATTCAAA
* *
52018578 TGTATACATAAAACTTTAATTCTGATTC-AA
1 TATATACATAAAACTTTAATTATGATTCAAA
52018608 TCATATACAT
1 T-ATATACAT
52018618 TTAAAGAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (31 bp):
TATATACATAAAACTTTAATTATGATTCAAA
Found at i:52018653 original size:26 final size:25
Alignment explanation
Indices: 52018624--52018694 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
52018614 ACATTTAAAG
52018624 AAATAAATACATTATTTTTTATTATA
1 AAATAAATACATTATTTTTTA-TATA
* *
52018650 AAATATAT-CAATT-TATTTTTATATT
1 AAATAAATAC-ATTAT-TTTTTATATA
*
52018675 AAATAAATATAATTATTTTT
1 AAATAAATA-CATTATTTTT
52018695 GTATGCAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
25 12 0.33
26 23 0.64
27 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATAAATACATTATTTTTTATATA
Found at i:52018690 original size:25 final size:24
Alignment explanation
Indices: 52018624--52018694 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 24
52018614 ACATTTAAAG
*
52018624 AAATAAATA-CATTATTTTTTATT
1 AAATAAATATAATTATTTTTTATT
52018647 ATAA-AATATATCAATTTATTTTTATATT
1 A-AATAA-ATAT-AA-TTATTTTT-TATT
52018675 AAATAAATATAATTATTTTT
1 AAATAAATATAATTATTTTT
52018695 GTATGCAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
23 3 0.08
24 5 0.12
25 8 0.20
26 3 0.08
27 14 0.35
28 7 0.17
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
AAATAAATATAATTATTTTTTATT
Found at i:52018981 original size:20 final size:20
Alignment explanation
Indices: 52018956--52019019 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 20
52018946 ATTTATTGTG
52018956 TTTTAATATTTTATGAGTTT
1 TTTTAATATTTTATGAGTTT
52018976 TTTTAATTAATTATT-T-A--TT
1 TTTTAA-T-ATT-TTATGAGTTT
52018995 TTTTAATATTTTATGAGTTT
1 TTTTAATATTTTATGAGTTT
52019015 GTTTT
1 -TTTT
52019020 TCTTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
16 2 0.06
17 4 0.11
18 2 0.06
19 8 0.22
20 8 0.22
21 6 0.17
22 4 0.11
23 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTAATATTTTATGAGTTT
Found at i:52021925 original size:30 final size:30
Alignment explanation
Indices: 52021891--52021956 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
52021881 AATTAATAAG
* *
52021891 GATAAAATTGTATTTTGATC-TCTTAAAAAT
1 GATAAAATTGTAATTTAATCAT-TTAAAAAT
*
52021921 GATAAAATTTTAATTTAATCATTTAAAAAT
1 GATAAAATTGTAATTTAATCATTTAAAAAT
*
52021951 TATAAA
1 GATAAA
52021957 GATATAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (30 bp):
GATAAAATTGTAATTTAATCATTTAAAAAT
Found at i:52031260 original size:3 final size:3
Alignment explanation
Indices: 52031252--52031287 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
52031242 CGTCTCCCAA
52031252 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52031288 CTTAATACGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:52048643 original size:14 final size:15
Alignment explanation
Indices: 52048626--52048663 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
52048616 ACATTAAGTG
52048626 ATAAATT-ATGCCAA
1 ATAAATTAATGCCAA
52048640 AT-AATTAATGCCAA
1 ATAAATTAATGCCAA
*
52048654 ATAAACTAAT
1 ATAAATTAAT
52048664 AAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 11 0.52
15 6 0.29
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (15 bp):
ATAAATTAATGCCAA
Found at i:52048649 original size:59 final size:59
Alignment explanation
Indices: 52048584--52048703 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
52048574 AAAATTGAAG
52048584 ATTAATGCCAAATAAACTAATAAAATATATAAACATTAAGTGATAAATTATGCCAAATA
1 ATTAATGCCAAATAAACTAATAAAATATATAAACATTAAGTGATAAATTATGCCAAATA
52048643 ATTAATGCCAAATAAACTAATAAAATATATAAACATTAAGTGATAAATTATGCCAAATA
1 ATTAATGCCAAATAAACTAATAAAATATATAAACATTAAGTGATAAATTATGCCAAATA
52048702 AT
1 AT
52048704 AATAATTAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (59 bp):
ATTAATGCCAAATAAACTAATAAAATATATAAACATTAAGTGATAAATTATGCCAAATA
Found at i:52048767 original size:6 final size:6
Alignment explanation
Indices: 52048756--52048789 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
52048746 GTTTGAATCT
52048756 GGAATA GGAATA GGAATA GGAATA GGAATA GGAA
1 GGAATA GGAATA GGAATA GGAATA GGAATA GGAA
52048790 GGGGCATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GGAATA
Found at i:52050593 original size:2 final size:2
Alignment explanation
Indices: 52050586--52050610 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52050576 AGAATTTGTG
52050586 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
52050611 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52050615 original size:2 final size:2
Alignment explanation
Indices: 52050610--52050643 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
52050600 ATATATATAT
52050610 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
52050644 GGTTTCACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:52053993 original size:7 final size:7
Alignment explanation
Indices: 52053983--52054015 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
52053973 CACGCCACAC
52053983 CCACATT
1 CCACATT
52053990 CCACATT
1 CCACATT
52053997 CCACATT
1 CCACATT
52054004 CCACATT
1 CCACATT
52054011 CCACA
1 CCACA
52054016 ACTGTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.24
Consensus pattern (7 bp):
CCACATT
Found at i:52056622 original size:29 final size:28
Alignment explanation
Indices: 52056587--52056801 Score: 134
Period size: 29 Copynumber: 7.4 Consensus size: 28
52056577 TAACTTTCGA
* *
52056587 GGGTAAAAATGTAATTTTGGTGAAACCG
1 GGGTTAAAATGTAATTTTGGTGAAATCG
** * * *
52056615 GGGTTAAAAATGGGATTTT--AGAATGTTCA
1 GGGTT-AAAATGTAATTTTGGTGAA--ATCG
52056644 GGGTTAAAATGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAT-GTAA-TTTTGGTGAAATCG
**
52056674 GGGTTGAAAATGGGATTTTGG-GAAATTCG
1 GGGTT-AAAATGTAATTTTGGTGAAA-TCG
* *
52056703 GGGGTAAAATAGTAATTTTGGTAAAATCG
1 GGGTTAAAAT-GTAATTTTGGTGAAATCG
* *
52056732 AGGTTAAAAATG-AGATTTTGG-GAAGTTCG
1 GGGTT-AAAATGTA-ATTTTGGTGAA-ATCG
* *
52056761 GGGGTAAAATGATAATTTTGGTAAAATCG
1 GGGTTAAAATG-TAATTTTGGTGAAATCG
*
52056790 AGGTTGAAAATG
1 GGGTT-AAAATG
52056802 GTTAAGCAAA
Statistics
Matches: 141, Mismatches: 28, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
27 3 0.02
28 27 0.19
29 73 0.52
30 30 0.21
31 5 0.04
32 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGTTAAAATGTAATTTTGGTGAAATCG
Found at i:52056684 original size:59 final size:58
Alignment explanation
Indices: 52056587--52056802 Score: 256
Period size: 58 Copynumber: 3.7 Consensus size: 58
52056577 TAACTTTCGA
* * * *
52056587 GGGTAAAAAT-GTAATTTTGGTGAAACCGGGGTTAAAAATGGGATTTT-AGAATGTTCAG
1 GGGT-AAAATGGTAATTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGGAA-GTTCAG
* * * * * *
52056645 GGTTAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTGGGAAATTCGG
1 GGGTAAAATGGTAA-TTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTCAG
* * *
52056704 GGGTAAAATAGTAATTTTGGTAAAATCGAGGTTAAAAATGAGATTTTGGGAAGTTCGG
1 GGGTAAAATGGTAATTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTCAG
* *
52056762 GGGTAAAATGATAATTTTGGTAAAATCGAGGTTGAAAATGG
1 GGGTAAAATGGTAATTTTGGTAAAATCGAGGTTAAAAATGG
52056803 TTAAGCAAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
57 5 0.04
58 83 0.60
59 47 0.34
60 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.31
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTCAG
Found at i:52056769 original size:117 final size:116
Alignment explanation
Indices: 52056582--52056802 Score: 302
Period size: 117 Copynumber: 1.9 Consensus size: 116
52056572 ATTTTTAACT
* * *
52056582 TTCGAGGGTAAAAATGTAATTTTGGTGAAACCGGGGTTAAAAATGGGATTTTAGAATGTTCAGGG
1 TTCGAGGGTAAAAATGTAATTTTGGTAAAACCGAGGTTAAAAATGAGATTTTAGAATGTTCAGGG
* * * *
52056647 TTAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTGGGAAA
66 GTAAAATGATAA-TTTTGGTAAAATCGAGGTTGAAAATGGGATTTTGGGAAA
* * * *
52056699 TTCGGGGGT-AAAATAGTAATTTTGGTAAAATCGAGGTTAAAAATGAGATTTTGGGAA-GTTCGG
1 TTCGAGGGTAAAAAT-GTAATTTTGGTAAAACCGAGGTTAAAAATGAGATTTT-AGAATGTTCAG
52056762 GGGTAAAATGATAATTTTGGTAAAATCGAGGTTGAAAATGG
64 GGGTAAAATGATAATTTTGGTAAAATCGAGGTTGAAAATGG
52056803 TTAAGCAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
116 30 0.33
117 58 0.64
118 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (116 bp):
TTCGAGGGTAAAAATGTAATTTTGGTAAAACCGAGGTTAAAAATGAGATTTTAGAATGTTCAGGG
GTAAAATGATAATTTTGGTAAAATCGAGGTTGAAAATGGGATTTTGGGAAA
Found at i:52057002 original size:32 final size:33
Alignment explanation
Indices: 52056956--52057019 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
52056946 TTATTGGGCC
*
52056956 AAATTAAAAATAATTAAAAGTATG-AAAAGGACT
1 AAATTAAAAATAATTAAAA-AATGCAAAAGGACT
52056989 AAATT-AAAATAATTAAAAAATGCAAAAGGAC
1 AAATTAAAAATAATTAAAAAATGCAAAAGGAC
52057020 CAAACGCGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 3 0.10
32 21 0.72
33 5 0.17
ACGTcount: A:0.62, C:0.05, G:0.11, T:0.22
Consensus pattern (33 bp):
AAATTAAAAATAATTAAAAAATGCAAAAGGACT
Found at i:52057132 original size:16 final size:17
Alignment explanation
Indices: 52057111--52057151 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
52057101 TATATAAATG
*
52057111 TTATTTAAGTTTTT-TT
1 TTATTTAACTTTTTATT
52057127 TTATTT-ACTTTTTCATT
1 TTATTTAACTTTTT-ATT
52057144 TTATTTAA
1 TTATTTAA
52057152 AAAAAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
17 8 0.38
18 1 0.05
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTAACTTTTTATT
Found at i:52058561 original size:31 final size:31
Alignment explanation
Indices: 52058495--52058554 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
52058485 GGGATAAAAA
* * *
52058495 AAATTTAAATACCAAATTGAATATTGAAACT
1 AAATTTAAATACCAAATTAAACATTAAAACT
* *
52058526 AAATTTAGATATCAAATTAAACATTAAAA
1 AAATTTAAATACCAAATTAAACATTAAAA
52058555 TCAAATTCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (31 bp):
AAATTTAAATACCAAATTAAACATTAAAACT
Found at i:52064749 original size:30 final size:31
Alignment explanation
Indices: 52064731--52064795 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
52064721 AAGTACGGGG
*
52064731 TTAAAATTGTCCAATTC-AAAAGTATAAGGA
1 TTAAAATTGGCCAATTCAAAAAGTATAAGGA
52064761 TTAAAATTGGCCAATTCAAAAA-TATAAGGA
1 TTAAAATTGGCCAATTCAAAAAGTATAAGGA
*
52064791 CTAAA
1 TTAAA
52064796 TTTGATCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (31 bp):
TTAAAATTGGCCAATTCAAAAAGTATAAGGA
Found at i:52066282 original size:31 final size:34
Alignment explanation
Indices: 52066224--52066296 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
52066214 AAATTTAAAA
*
52066224 ATAAAAAAACTATTAAAATTATGTATTA-ATGAT
1 ATAAAAAAACTATTAAAATTATGTATTATATAAT
*
52066257 ATAAAAAAATTATTAAAA-TAT-TATTATATAAT
1 ATAAAAAAACTATTAAAATTATGTATTATATAAT
52066289 -TAAAAAAA
1 ATAAAAAAA
52066297 ATCATAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 13 0.35
32 7 0.19
33 17 0.46
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (34 bp):
ATAAAAAAACTATTAAAATTATGTATTATATAAT
Found at i:52066824 original size:25 final size:25
Alignment explanation
Indices: 52066769--52066828 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
52066759 TAATTATGAT
* **
52066769 AATTTTTAATTGTAAAAATAAGTGT
1 AATTTTTAATTGTAAAAATAAATAA
*
52066794 AGTTTTTAATTGTAAAAATAAATAA
1 AATTTTTAATTGTAAAAATAAATAA
52066819 AATTTTTAAT
1 AATTTTTAAT
52066829 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
AATTTTTAATTGTAAAAATAAATAA
Found at i:52068676 original size:23 final size:24
Alignment explanation
Indices: 52068628--52068699 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
52068618 AATGAAAAAG
**
52068628 AGAGAA-AAACAGAAAAAGAAGCAAA
1 AGAGAATAAA-AGAAAAA-AATTAAA
* *
52068653 AGAGAATGAAA-AAAAAAGTTAAA
1 AGAGAATAAAAGAAAAAAATTAAA
*
52068676 AGAGCATAAAAGAAAAAAATTAAA
1 AGAGAATAAAAGAAAAAAATTAAA
52068700 TTGCTCAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 13 0.34
24 16 0.42
25 7 0.18
26 2 0.05
ACGTcount: A:0.71, C:0.04, G:0.17, T:0.08
Consensus pattern (24 bp):
AGAGAATAAAAGAAAAAAATTAAA
Found at i:52068691 original size:24 final size:23
Alignment explanation
Indices: 52068650--52068699 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
52068640 AAAAAGAAGC
* *
52068650 AAAAGAGAATGAAAAAAAAAGTT
1 AAAAGAGAATAAAAAAAAAAATT
*
52068673 AAAAGAGCATAAAAGAAAAAAATT
1 AAAAGAGAATAAAA-AAAAAAATT
52068697 AAA
1 AAA
52068700 TTGCTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (23 bp):
AAAAGAGAATAAAAAAAAAAATT
Found at i:52079985 original size:24 final size:24
Alignment explanation
Indices: 52079927--52079985 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
52079917 ATATGAAAAG
* * *
52079927 AAATAATAAAGATTTTATTCTAAT
1 AAATAATAAATATATTATACTAAT
*
52079951 AAAT-GTAAAATATATTATACTAAT
1 AAATAAT-AAATATATTATACTAAT
*
52079975 AAATACTAAAT
1 AAATAATAAAT
52079986 CTTTTAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 1 0.04
24 26 0.93
25 1 0.04
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (24 bp):
AAATAATAAATATATTATACTAAT
Found at i:52086108 original size:14 final size:15
Alignment explanation
Indices: 52086089--52086117 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52086079 TTAATCCTTT
52086089 AAAAATTA-TAAAAA
1 AAAAATTATTAAAAA
52086103 AAAAATTATTAAAAA
1 AAAAATTATTAAAAA
52086118 TTATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATTATTAAAAA
Found at i:52092952 original size:17 final size:16
Alignment explanation
Indices: 52092917--52092946 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52092907 ATTACATATG
52092917 AATTTTATATAAATTT
1 AATTTTATATAAATTT
52092933 AATTTT-TATAAATT
1 AATTTTATATAAATT
52092947 ATTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTATATAAATTT
Found at i:52093644 original size:15 final size:17
Alignment explanation
Indices: 52093623--52093663 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
52093613 TAATCCTTTA
52093623 AAAATTATAAAAATA-T
1 AAAATTATAAAAATACT
*
52093639 -AAATTATTAAAATACT
1 AAAATTATAAAAATACT
52093655 AAAATTATA
1 AAAATTATA
52093664 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATACT
Found at i:52094974 original size:63 final size:63
Alignment explanation
Indices: 52094906--52095041 Score: 236
Period size: 63 Copynumber: 2.2 Consensus size: 63
52094896 ATGTATGTCT
*
52094906 AATAAAATAAAATCTTGAAAATCAACTATGGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
1 AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
* *
52094969 AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAGTGAAGGTGTCTCC
1 AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
*
52095032 GATAAAATAA
1 AATAAAATAA
52095042 TTTTTTTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.29
Consensus pattern (63 bp):
AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
Found at i:52095405 original size:26 final size:22
Alignment explanation
Indices: 52095348--52095402 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
52095338 ATTATCATTA
52095348 AAATTAATTATTATAAATAATG
1 AAATTAATTATTATAAATAATG
* *
52095370 TAATTGAATTATTAATTTAATAATCG
1 AAATT-AATTATT-A-TAAATAAT-G
52095396 AAATTAA
1 AAATTAA
52095403 ATTCTCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.15
23 7 0.27
24 1 0.04
25 9 0.35
26 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATTAATTATTATAAATAATG
Found at i:52102064 original size:31 final size:31
Alignment explanation
Indices: 52102009--52102073 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
52101999 GTTTTGAAAG
* * *
52102009 TTTTGAAAATTTTATTTAAATCTTTCAAACT
1 TTTTAAAAATTTTATTTAAATCTTTAAAAAT
*
52102040 TTTTAAAAATTTTCA-TTAATTCTTTAAAAAT
1 TTTTAAAAATTTT-ATTTAAATCTTTAAAAAT
52102071 TTT
1 TTT
52102074 AAATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTTAAAAATTTTATTTAAATCTTTAAAAAT
Found at i:52105030 original size:15 final size:17
Alignment explanation
Indices: 52105009--52105049 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
52104999 TAATCCTTTA
52105009 AAAATTATAAAAATA-T
1 AAAATTATAAAAATACT
*
52105025 -AAATTATTAAAATACT
1 AAAATTATAAAAATACT
52105041 AAAATTATA
1 AAAATTATA
52105050 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATACT
Found at i:52106361 original size:63 final size:63
Alignment explanation
Indices: 52106293--52106428 Score: 236
Period size: 63 Copynumber: 2.2 Consensus size: 63
52106283 ATGTATGTCT
*
52106293 AATAAAATAAAATCTTGAAAATCAACTATGGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
1 AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
* *
52106356 AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAGTGAAGGTGTCTCC
1 AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
*
52106419 GATAAAATAA
1 AATAAAATAA
52106429 TTTTTTTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.29
Consensus pattern (63 bp):
AATAAAATAAAATCTTGAAAATCAACTATAGTGGAATAATTTGGCATTAATCAAGGTGTCTCC
Found at i:52106792 original size:26 final size:22
Alignment explanation
Indices: 52106735--52106789 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
52106725 ATTATCATTA
52106735 AAATTAATTATTATAAATAATG
1 AAATTAATTATTATAAATAATG
* *
52106757 TAATTGAATTATTAATTTAATAATCG
1 AAATT-AATTATT-A-TAAATAAT-G
52106783 AAATTAA
1 AAATTAA
52106790 ATTCTCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.15
23 7 0.27
24 1 0.04
25 9 0.35
26 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATTAATTATTATAAATAATG
Found at i:52113449 original size:31 final size:31
Alignment explanation
Indices: 52113394--52113458 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
52113384 GTTTTGAAAG
* * *
52113394 TTTTGAAAATTTTATTTAAATCTTTCAAACT
1 TTTTAAAAATTTTATTTAAATCTTTAAAAAT
*
52113425 TTTTAAAAATTTTCA-TTAATTCTTTAAAAAT
1 TTTTAAAAATTTT-ATTTAAATCTTTAAAAAT
52113456 TTT
1 TTT
52113459 AAATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTTAAAAATTTTATTTAAATCTTTAAAAAT
Found at i:52117986 original size:22 final size:22
Alignment explanation
Indices: 52117901--52117987 Score: 138
Period size: 22 Copynumber: 4.0 Consensus size: 22
52117891 CTTACTATTT
* * *
52117901 AGCACTGTGTGTGCTTTTGATC
1 AGCACTATGTGTGCTTCTGTTC
*
52117923 AGCACTATGTGTGCTTCTATTC
1 AGCACTATGTGTGCTTCTGTTC
52117945 AGCACTATGTGTGCTTCTGTTC
1 AGCACTATGTGTGCTTCTGTTC
52117967 AGCACTATGTGTGCTTCTGTT
1 AGCACTATGTGTGCTTCTGTT
52117988 TCCCCAGCAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (22 bp):
AGCACTATGTGTGCTTCTGTTC
Found at i:52119295 original size:19 final size:20
Alignment explanation
Indices: 52119265--52119303 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
52119255 CCATTTTAAG
*
52119265 TTTATAATATTATGTTATTT
1 TTTATAATATTATGTAATTT
52119285 TTTAT-ATATTATGTAATTT
1 TTTATAATATTATGTAATTT
52119304 AAAACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTATAATATTATGTAATTT
Found at i:52123985 original size:17 final size:18
Alignment explanation
Indices: 52123963--52123998 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52123953 TAAATGAGTT
52123963 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
52123980 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
52123998 A
1 A
52123999 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:52124318 original size:18 final size:18
Alignment explanation
Indices: 52124295--52124331 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52124285 TTTGTGATCA
52124295 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
52124313 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
52124331 A
1 A
52124332 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:52129953 original size:18 final size:18
Alignment explanation
Indices: 52129930--52129966 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52129920 ACAATTCATA
52129930 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
52129948 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
52129966 T
1 T
52129967 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:52143373 original size:18 final size:18
Alignment explanation
Indices: 52143350--52143400 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
52143340 AAAAATTTAT
52143350 TAAAAATTAGAAAAAAATA
1 TAAAAATT-GAAAAAAATA
*
52143369 TAAAAATTGTAAAAAATA
1 TAAAAATTGAAAAAAATA
*
52143387 TAAGAATTGTAAAA
1 TAAAAATTG-AAAA
52143401 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
TAAAAATTGAAAAAAATA
Found at i:52143988 original size:89 final size:89
Alignment explanation
Indices: 52143870--52144090 Score: 239
Period size: 89 Copynumber: 2.4 Consensus size: 89
52143860 ATAAGAGCAG
* * * * *
52143870 GGGCTTAATTGCTTTTTTGAAAAAATTTGAGGGTTTTTTTTATGCATTTTGAAAGTTTAAGTACC
1 GGGCTTAATTGTTTTTTTG-AAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAATACC
*
52143935 CAATTGAGTGGGAAAAA-AAACA-A
65 CAATTGAGTGCGAAAAACAAACAGA
** * * **
52143958 GGGCTTAATTGTTTTTCTTGAAGAAGTTTGAAAGTCTTTTTGGTGCATTTTGAAAGTTCAAATGT
1 GGGCTTAATTGTTTTT-TTGAA-AAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAATAC
*
52144023 CCAATTGAGTGCGAAAAACAAAGAGGA
64 CCAATTGAGTGCGAAAAACAAACA-GA
*
52144050 GGGACTTAATTGCTTTTTTTGGAAAAGTTTGAGGGCTTTTT
1 GGG-CTTAATTG-TTTTTTT-GAAAAGTTTGAGGGTTTTTT
52144091 AGACCTTTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
88 17 0.16
89 52 0.48
90 4 0.04
92 4 0.04
93 23 0.21
94 8 0.07
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (89 bp):
GGGCTTAATTGTTTTTTTGAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAATACCC
AATTGAGTGCGAAAAACAAACAGA
Found at i:52155583 original size:24 final size:24
Alignment explanation
Indices: 52155553--52155606 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
52155543 TAAATATTAT
*
52155553 ATAAAAATAAAGTTTTGATTTAATA
1 ATAAAATTAAAGTTTT-ATTTAATA
*
52155578 ATAAAATTAATGTTTTATTTAATA
1 ATAAAATTAAAGTTTTATTTAATA
*
52155602 CTAAA
1 ATAAA
52155607 TAGCATGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (24 bp):
ATAAAATTAAAGTTTTATTTAATA
Found at i:52156220 original size:21 final size:19
Alignment explanation
Indices: 52156196--52156235 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
52156186 GTTAACCGTA
52156196 TTTTATATTTATATATATTTT
1 TTTTATATTT-T-TATATTTT
*
52156217 TTTTGTATTTTTATATTTT
1 TTTTATATTTTTATATTTT
52156236 CGGTCAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTATATTTTTATATTTT
Found at i:52157038 original size:23 final size:24
Alignment explanation
Indices: 52156995--52157041 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
52156985 AACACTTATA
52156995 ATTAATATAATAATATATTATTTT
1 ATTAATATAATAATATATTATTTT
*
52157019 ATTAA-ATAATTATCAT-TTATTTT
1 ATTAATATAATAAT-ATATTATTTT
52157042 TATGAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAATATAATAATATATTATTTT
Found at i:52160467 original size:23 final size:23
Alignment explanation
Indices: 52160418--52160468 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
52160408 CGGGGTTTTC
* *
52160418 TTTTTCTTTTTTTTCTTTAATTG
1 TTTTTCTTTTTTTTCTTAAAATG
*
52160441 TTTTTCTTTTTGTTTGTTAAAAT-
1 TTTTTCTTTTT-TTTCTTAAAATG
52160464 TTTTT
1 TTTTT
52160469 AGGTGTGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (23 bp):
TTTTTCTTTTTTTTCTTAAAATG
Found at i:52161805 original size:20 final size:20
Alignment explanation
Indices: 52161780--52161817 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52161770 TTAGAAGATG
52161780 CTTTTATCTTTAC-TTATATT
1 CTTTTAT-TTTACATTATATT
52161800 CTTTTATTTTACATTATA
1 CTTTTATTTTACATTATA
52161818 CCATGTGGGA
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:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (20 bp):
CTTTTATTTTACATTATATT
Found at i:52184676 original size:30 final size:31
Alignment explanation
Indices: 52184629--52184705 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
52184619 AACCGGAATT
** * **
52184629 TTAAATAAAAAAGTTT-AACAGTTTAATGAC
1 TTAAATAAAAACTTTTAAACAGTTCAACAAC
*
52184659 TTAAATAAAAACTTTTAAATAGTTCAACAAC
1 TTAAATAAAAACTTTTAAACAGTTCAACAAC
*
52184690 TTAAATTAAAACTTTT
1 TTAAATAAAAACTTTT
52184706 GAATAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.36
Consensus pattern (31 bp):
TTAAATAAAAACTTTTAAACAGTTCAACAAC
Found at i:52187599 original size:31 final size:31
Alignment explanation
Indices: 52187558--52187625 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
52187548 CCTTATCAAC
* *
52187558 CAGTAACTTAAATAAAAACTTTCAAATATTT
1 CAGTGACTTAAATAAAAACTTTCAAATACTT
*
52187589 CAGTGACTTAAATAAAAACTTTCGAATACTT
1 CAGTGACTTAAATAAAAACTTTCAAATACTT
52187620 CAGTGA
1 CAGTGA
52187626 TTATTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTTCAAATACTT
Found at i:52188070 original size:31 final size:30
Alignment explanation
Indices: 52188030--52188120 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 30
52188020 GTTATAAAAT
52188030 AATCATTAAATTATTCTAAAGTTTTTATTTA
1 AATCATTAAATTATTCTAAA-TTTTTATTTA
* *
52188061 AATTATTAAATAATTC-AAATTTTTTTATTTA
1 AATCATTAAATTATTCTAAA--TTTTTATTTA
52188092 AATCATTAAATTA-T-TAAATTTTT-TTTA
1 AATCATTAAATTATTCTAAATTTTTATTTA
52188119 AA
1 AA
52188121 AAATCCATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.11
28 5 0.09
30 7 0.13
31 35 0.66
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (30 bp):
AATCATTAAATTATTCTAAATTTTTATTTA
Found at i:52188125 original size:30 final size:30
Alignment explanation
Indices: 52188024--52188125 Score: 77
Period size: 31 Copynumber: 3.3 Consensus size: 30
52188014 TAAAAAGTTA
52188024 TAAAATAATCATTAAATTATTCTAAAGTTTTTATT
1 TAAAA-AATCATTAAATTA-T-TAAA-TTTTT-TT
* *
52188059 T---AAATTATTAAATAATTCAAA-TTTTTT
1 TAAAAAATCATTAAATTATT-AAATTTTTTT
**
52188086 TATTTAAATCATTAAATTATTAAATTTTTTT
1 TA-AAAAATCATTAAATTATTAAATTTTTTT
52188117 TAAAAAATC
1 TAAAAAATC
52188126 CATCTAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
27 3 0.05
28 4 0.07
29 1 0.02
30 12 0.22
31 33 0.60
32 1 0.02
35 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (30 bp):
TAAAAAATCATTAAATTATTAAATTTTTTT
Found at i:52194210 original size:2 final size:2
Alignment explanation
Indices: 52194205--52194234 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52194195 TATATATATA
52194205 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
52194235 AAACCGTTAG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:52194503 original size:27 final size:27
Alignment explanation
Indices: 52194473--52194526 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52194463 TTAATGTTAG
* * * *
52194473 ATCAGTAATTTTATTTTGAATTTCAAA
1 ATCAATAATTTCATCTTGAATTCCAAA
52194500 ATCAATAATTTCATCTTGAATTCCAAA
1 ATCAATAATTTCATCTTGAATTCCAAA
52194527 TTTTTCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (27 bp):
ATCAATAATTTCATCTTGAATTCCAAA
Found at i:52196791 original size:17 final size:17
Alignment explanation
Indices: 52196771--52196804 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
52196761 AAAAAAATCT
52196771 ATTTAAATGA-TATTTAA
1 ATTTAAAT-ATTATTTAA
52196788 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
52196805 TCATGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:52199792 original size:6 final size:6
Alignment explanation
Indices: 52199781--52199821 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
52199771 TAGAATTAAA
*
52199781 TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT TATGT
1 TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGT
52199822 ATGCAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:52202056 original size:25 final size:27
Alignment explanation
Indices: 52202009--52202058 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
52201999 CCTTCTGTTT
52202009 CTTTTCCTTCTTCAAAAAATTTGCTTC
1 CTTTTCCTTCTTCAAAAAATTTGCTTC
52202036 CTTTT-CTTCTT-AAAAAATTTGCT
1 CTTTTCCTTCTTCAAAAAATTTGCT
52202059 GTTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.52
26 6 0.26
27 5 0.22
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (27 bp):
CTTTTCCTTCTTCAAAAAATTTGCTTC
Found at i:52207256 original size:25 final size:24
Alignment explanation
Indices: 52207199--52207257 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
52207189 TAAAGTAAGT
* *
52207199 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATGA
52207222 TATATTATAATTTTTACTAAT-TGA
1 TATATTATAATTTTT-CTAATATGA
*
52207246 TATTTTAATAAT
1 TATATT-ATAAT
52207258 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATGA
Found at i:52207327 original size:58 final size:57
Alignment explanation
Indices: 52207222--52207386 Score: 172
Period size: 58 Copynumber: 2.8 Consensus size: 57
52207212 TCTAATATTA
* * *
52207222 TATATTATAATTTT-TACTAATTGATATTTTAATAATAATTATATTAAAAACGTTATTAAAT
1 TATA-TATAATTTTAT-TTAATT-ATATTTT-ATAATAATTATATTAAAAA-ATAATTAAAT
*
52207283 TATATATAATTTTATTTAATTATATTTTATAATAATTATGTTAAAAAATAATTAAAT
1 TATATATAATTTTATTTAATTATATTTTATAATAATTATATTAAAAAATAATTAAAT
* * * * *
52207340 TATTTATTATTTTTATTAAATTATATTTAATAATGATCT-TATTAAAA
1 TATATA-TAATTTTATTTAATTATATTTTATAATAAT-TATATTAAAA
52207387 TTTCATAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
57 13 0.14
58 51 0.56
59 8 0.09
60 14 0.15
61 5 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (57 bp):
TATATATAATTTTATTTAATTATATTTTATAATAATTATATTAAAAAATAATTAAAT
Found at i:52207527 original size:44 final size:46
Alignment explanation
Indices: 52207472--52207565 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
52207462 ATTACAGCAT
52207472 CATTCCATTCAACCAAAC-AC-AAGAATACT-ATTACAGCTC-TATTC
1 CATTCCATTCAACCAAACAACTAA-AATACTGATTACAG-TCATATTC
* *
52207516 CATTTCATTCAACCAAACAACTAAATTACTGATTACAGTCATATTC
1 CATTCCATTCAACCAAACAACTAAAATACTGATTACAGTCATATTC
52207562 CATT
1 CATT
52207566 ACATCTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
44 17 0.39
45 9 0.20
46 18 0.41
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAACTAAAATACTGATTACAGTCATATTC
Found at i:52207576 original size:16 final size:16
Alignment explanation
Indices: 52207557--52207616 Score: 84
Period size: 16 Copynumber: 3.8 Consensus size: 16
52207547 ATTACAGTCA
*
52207557 TATTCCATTACATCTC
1 TATTCCATTACAACTC
*
52207573 TATTTCATTACAACTC
1 TATTCCATTACAACTC
* *
52207589 TATTCAATTACAACTT
1 TATTCCATTACAACTC
52207605 TATTCCATTACA
1 TATTCCATTACA
52207617 GCGAACCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTCCATTACAACTC
Found at i:52213506 original size:9 final size:8
Alignment explanation
Indices: 52213488--52213531 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
52213478 ATAATTCTAA
52213488 AAAAATTT
1 AAAAATTT
52213496 AAAAATCTT
1 AAAAAT-TT
52213505 AAAAATTT
1 AAAAATTT
*
52213513 TAAAATATT
1 AAAAAT-TT
52213522 -AAAATTT
1 AAAAATTT
52213529 AAA
1 AAA
52213532 GTTAATTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 2 0.06
8 20 0.62
9 10 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAAATTT
Found at i:52213510 original size:17 final size:17
Alignment explanation
Indices: 52213488--52213531 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
52213478 ATAATTCTAA
*
52213488 AAAAATTTAAAAATCTT
1 AAAAATTTAAAAATATT
*
52213505 AAAAATTTTAAAATATT
1 AAAAATTTAAAAATATT
52213522 -AAAATTTAAA
1 AAAAATTTAAA
52213532 GTTAATTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATTTAAAAATATT
Found at i:52216782 original size:164 final size:164
Alignment explanation
Indices: 52216469--52216825 Score: 502
Period size: 164 Copynumber: 2.2 Consensus size: 164
52216459 TCATCAAAGA
* * *
52216469 GTAATCACTAGTCACGA-ATTTAAAGGTGCTCCATACTTGGAGCAAAGATCCAACACTCAACCTA
1 GTAATCACTAGTCACGAGTTTTAAAGCTACTCCATACTTGGAGCAAAGATCCAACACTCAACCTA
* * * * *
52216533 ATTAAGGAAGGAGAGATCCTCATCATTTCATCTAACTCTCGTGATTTCCTTATATATATTATATG
66 ATTAAGGAAGAAAAAATCCTCATCATTTCATCTAACTCTCGTGATATCCTTATATATATTACATG
* * * *
52216598 TTATGTGATAAATTATATTTCCAATGCTATGGAC
131 CTATATAATAAATGATATTTCCAATGCTATGGAC
* * *
52216632 GTAGTCACTAGTCACGAGTTTTAAAGCTACTCCGTACTTGGAGCAAAGATCCAACACTCGACCTA
1 GTAATCACTAGTCACGAGTTTTAAAGCTACTCCATACTTGGAGCAAAGATCCAACACTCAACCTA
* * * *
52216697 ATTAAGGAAGAAAAAATCCTTATTATTTCATCTAACTCTTGTGATATCCTTGTATATATTACATG
66 ATTAAGGAAGAAAAAATCCTCATCATTTCATCTAACTCTCGTGATATCCTTATATATATTACATG
*
52216762 CTATATAATAAATGATATTTCCAATGCTATGGAT
131 CTATATAATAAATGATATTTCCAATGCTATGGAC
* *
52216796 GTAATC-TTAGGCACGAGTTTTAAAGCTACT
1 GTAATCACTAGTCACGAGTTTTAAAGCTACT
52216826 GTATACTTTA
Statistics
Matches: 170, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
163 38 0.22
164 132 0.78
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (164 bp):
GTAATCACTAGTCACGAGTTTTAAAGCTACTCCATACTTGGAGCAAAGATCCAACACTCAACCTA
ATTAAGGAAGAAAAAATCCTCATCATTTCATCTAACTCTCGTGATATCCTTATATATATTACATG
CTATATAATAAATGATATTTCCAATGCTATGGAC
Found at i:52236988 original size:21 final size:21
Alignment explanation
Indices: 52236937--52236988 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
52236927 AAAAAAAATC
52236937 TGCTATTTTTTTACTATTTTCT
1 TGCTA-TTTTTTACTATTTTCT
* *
52236959 TGCTGTTTTTTACTATTTTGT
1 TGCTATTTTTTACTATTTTCT
*
52236980 TGTTATTTT
1 TGCTATTTT
52236989 CTTGTTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.69
Consensus pattern (21 bp):
TGCTATTTTTTACTATTTTCT
Found at i:52238396 original size:31 final size:31
Alignment explanation
Indices: 52238360--52238420 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
52238350 ATCCAATGAT
* *
52238360 TTAAATAAAAACTTTT-GAGTAGTTCAGTGAC
1 TTAAATAAAAA-TTTTCGAATAATTCAGTGAC
52238391 TTAAATAAAAATTTTCGAATAATTCAGTGA
1 TTAAATAAAAATTTTCGAATAATTCAGTGA
52238421 TTATTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (31 bp):
TTAAATAAAAATTTTCGAATAATTCAGTGAC
Found at i:52239865 original size:11 final size:11
Alignment explanation
Indices: 52239849--52239874 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52239839 TAAATCCATC
52239849 AAAAGAAAAAG
1 AAAAGAAAAAG
52239860 AAAAGAAAAAG
1 AAAAGAAAAAG
52239871 AAAA
1 AAAA
52239875 TCACTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:52244313 original size:17 final size:17
Alignment explanation
Indices: 52244291--52244323 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52244281 CCCAAGGTAA
*
52244291 TTTCTTTTTTTTTCTTT
1 TTTCTTTTGTTTTCTTT
52244308 TTTCTTTTGTTTTCTT
1 TTTCTTTTGTTTTCTT
52244324 AATTCATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTCTTTTGTTTTCTTT
Found at i:52245654 original size:213 final size:211
Alignment explanation
Indices: 52245306--52246378 Score: 1689
Period size: 213 Copynumber: 5.0 Consensus size: 211
52245296 CTACCTACAT
52245306 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTG
1 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTG
52245371 ATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCT
66 ATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCT
*
52245436 TCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATGC
131 TCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATAC
* * *
52245501 ATACCTACATATATAT
196 ATACATACATACATAC
* * *
52245517 ATATATACACATGTTGGTGGTGAATATGTTAGGAGAAAAGTCATGGCTAAATAGACCTGCAGTTG
1 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTG
* *
52245582 ATAGCATGTGCCTTTGATGTGTCTTACAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTT
66 ATAGCATATGCCTTTGAT-T-TCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTT
* *
52245647 CTTCTCCCATATGGTACTCTCATTGTTACTTGTTAGGTGTTCTTGTTAAT-GATAAATATGGTGT
129 CTTCTCCCATATGGTACTCTC------A-TTGTTAGGTGTTCTTGTTGATGGA-AAATATGGTCT
* * *
52245711 GTATACACACATACATGCATACCTAC
186 GTATACATACATACATACATACATAC
*
52245737 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTATATAGGCCTGCAGTTG
1 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTG
* *
52245802 ATAGCATATGCCTTTGATTTCTTATAAGCATTGTTTCAAATGGTGACCAACCTACACATGTTTCT
66 ATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCT
* *
52245867 TCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGGTGGAAAATATAGTCTGTATACATAC
131 TCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATAC
* *
52245932 ATACATGCATACCTAC
196 ATACATACATACATAC
52245948 ATATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGT
1 --ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGT
* *
52246013 TGATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTCACCAACCTATAAATGTTT
64 TGATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTT
52246078 CTTCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACAT
129 CTTCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTAT--A-
* *
52246143 GCATACATACATGCATACCTAC
191 -CATACATACATACATACATAC
* *
52246165 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTCCGGTTG
1 ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTG
*
52246230 ATAGCATATGCCGTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCT
66 ATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCT
* * * * * *
52246295 TCTCCCATATGGTGCTTTCATTGTTAGGTGTTCTTGTTAATGGTAAATATGGTGTCTATACATAC
131 TCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATAC
52246360 ATACATACATACATAC
196 ATACATACATACATAC
52246376 ATA
1 ATA
52246379 CATACATGCA
Statistics
Matches: 798, Mismatches: 47, Indels: 34
0.91 0.05 0.04
Matches are distributed among these distances:
211 154 0.19
212 4 0.01
213 247 0.31
215 179 0.22
217 21 0.03
218 62 0.08
219 4 0.01
220 127 0.16
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (211 bp):
ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTG
ATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCT
TCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATAC
ATACATACATACATAC
Found at i:52246102 original size:431 final size:423
Alignment explanation
Indices: 52245103--52246378 Score: 1939
Period size: 431 Copynumber: 3.0 Consensus size: 423
52245093 TATATCGATG
* * * *
52245103 AATATGTTAAGACAAAAGTCATTGCTAAATAGGCCTGCAGTTGATAGTA-ATGCCTTTGATTTCT
1 AATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGATAGCATATGCCTTTGATTTCT
* *
52245167 TATAGGCATTGTTTTAAATTGCGTACCAACCTATACATGTTTCTTCTCCCATAAGGTACTCTCAT
66 TATAGGCATTGTTTCAAA-TG-GTACCAACCTATACATGTTTCTTCTCCCATATGGTACTCTCAT
*
52245232 TGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATACATAAATACATGCATGCATACC
129 TGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATAC--AC----A-ACATACATGC--A--
52245297 TACCTACATATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGC
183 TACCTAC--ATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGC
52245362 CTGCAGTTGATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATA
246 CTGCAGTTGATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATA
52245427 CATGTTTCTTCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTG
311 CATGTTTCTTCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTG
* * * *
52245492 TATACATGCATACCTACATA-TATATATATATACACATGTTGGTGGTG
376 TATACATACATACATACATACTACATATATATACACATGTTGGTGGTA
* *
52245539 AATATGTTAGGAGAAAAGTCATGGCTAAATAGACCTGCAGTTGATAGCATGTGCCTTTGATGTGT
1 AATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGATAGCATATGCCTTTGAT-T-T
*
52245604 CTTACAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCTTCTCCCATATGGTACTCTCA
64 CTTATAGGCATTGTTTCAAATGGT-ACCAACCTATACATGTTTCTTCTCCCATATGGTACTCTC-
* *
52245669 TTGTTACTTGTTAGGTGTTCTTGTTAAT-GATAAATATGGTGTGTATACAC-ACATACATGCATA
127 -----A-TTGTTAGGTGTTCTTGTTGATGGA-AAATATGGTCTGTATACACAACATACATGCATA
*
52245732 CCTACATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTATATAGGCCTGC
185 CCTACATATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGC
* *
52245797 AGTTGATAGCATATGCCTTTGATTTCTTATAAGCATTGTTTCAAATGGTGACCAACCTACACATG
250 AGTTGATAGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATG
* *
52245862 TTTCTTCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGGTGGAAAATATAGTCTGTATA
315 TTTCTTCTCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATA
* *
52245927 CATACATACATGCATACCTACATATATATATACATGTTGGTGGTA
380 CATACATACATACATA-CTACATATATATACACATGTTGGTGGTA
52245972 AATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGATAGCATATGCCTTTGATTTCT
1 AATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGATAGCATATGCCTTTGATTTCT
*
52246037 TATAGGCATTGTTTCAAATGGTCACCAACCTATAAATGTTTCTTCTCCCATATGGTACTCTCATT
66 TATAGGCATTGTTTCAAATGGT-ACCAACCTATACATGTTTCTTCTCCCATATGGTACTCTCATT
52246102 GTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATGCATACATACATGCATACCTACAT
130 GTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACA--CA-ACATACATGCATACCTACAT
* *
52246167 ATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTCCGGTTGAT
192 ATATATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGAT
*
52246232 AGCATATGCCGTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCTTC
257 AGCATATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCTTC
* * * * * *
52246297 TCCCATATGGTGCTTTCATTGTTAGGTGTTCTTGTTAATGGTAAATATGGTGTCTATACATACAT
322 TCCCATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATACAT
52246362 ACATACATACATACATA
387 ACATACATAC-TACATA
52246379 CATACATGCA
Statistics
Matches: 775, Mismatches: 45, Indels: 48
0.89 0.05 0.06
Matches are distributed among these distances:
424 37 0.05
425 3 0.00
426 1 0.00
427 1 0.00
428 215 0.28
431 260 0.34
432 1 0.00
433 90 0.12
435 1 0.00
436 44 0.06
437 21 0.03
438 41 0.05
439 19 0.02
443 2 0.00
444 3 0.00
445 36 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (423 bp):
AATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGATAGCATATGCCTTTGATTTCT
TATAGGCATTGTTTCAAATGGTACCAACCTATACATGTTTCTTCTCCCATATGGTACTCTCATTG
TTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACACAACATACATGCATACCTACATATAT
ATACATGTTGGTGGTAAATATGTTAGGAGAAAAGTCATGGCTAAATAGGCCTGCAGTTGATAGCA
TATGCCTTTGATTTCTTATAGGCATTGTTTCAAATGGTGACCAACCTATACATGTTTCTTCTCCC
ATATGGTACTCTCATTGTTAGGTGTTCTTGTTGATGGAAAATATGGTCTGTATACATACATACAT
ACATACTACATATATATACACATGTTGGTGGTA
Found at i:52246154 original size:12 final size:12
Alignment explanation
Indices: 52246137--52246166 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52246127 TATGGTCTGT
52246137 ATACATGCATAC
1 ATACATGCATAC
52246149 ATACATGCATAC
1 ATACATGCATAC
*
52246161 CTACAT
1 ATACAT
52246167 ATATATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (12 bp):
ATACATGCATAC
Found at i:52246361 original size:4 final size:4
Alignment explanation
Indices: 52246352--52246398 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
52246342 TATGGTGTCT
*
52246352 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
52246399 ATGCATGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:52247693 original size:5 final size:5
Alignment explanation
Indices: 52247683--52247717 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
52247673 GAGAAGATTC
52247683 GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG
1 GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG
52247718 AGTTGGGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GAGAG
Found at i:52249806 original size:29 final size:28
Alignment explanation
Indices: 52249774--52249850 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 28
52249764 CTTGGACTCG
52249774 AATTTTAAAATTAAAAA-ATAGAAGGATTA
1 AATTTTAAAATTAAAAATATA-AA-GATTA
*
52249803 AATTCTTAAAAATAAAAATATAAAGATTA
1 AATT-TTAAAATTAAAAATATAAAGATTA
* *
52249832 AATTTCAAATTTAAAAATA
1 AATTTTAAAATTAAAAATA
52249851 ATACAATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.29
29 13 0.31
30 14 0.33
31 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (28 bp):
AATTTTAAAATTAAAAATATAAAGATTA
Found at i:52255407 original size:31 final size:31
Alignment explanation
Indices: 52255372--52255432 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
52255362 TACAAAATAG
*
52255372 TCATTGA-ACAATTTGAAAGTTTTTATTTAAA
1 TCATTGATAC-ATTCGAAAGTTTTTATTTAAA
*
52255403 TCATTGATTCATTCGAAAGTTTTTATTTAA
1 TCATTGATACATTCGAAAGTTTTTATTTAA
52255433 GTCACTAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (31 bp):
TCATTGATACATTCGAAAGTTTTTATTTAAA
Found at i:52265019 original size:11 final size:11
Alignment explanation
Indices: 52265005--52265061 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
52264995 ATATCCGAAC
52265005 AATAACAACAA
1 AATAACAACAA
*
52265016 AATAATAACAA
1 AATAACAACAA
* *
52265027 TATAATAACAA
1 AATAACAACAA
* **
52265038 AATGACAGTAA
1 AATAACAACAA
*
52265049 AACAACAACAA
1 AATAACAACAA
52265060 AA
1 AA
52265062 CAATTTATTC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.68, C:0.14, G:0.04, T:0.14
Consensus pattern (11 bp):
AATAACAACAA
Found at i:52265027 original size:31 final size:30
Alignment explanation
Indices: 52264972--52265029 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
52264962 TAGCAAAATT
*
52264972 AACAATAAAACAAAAGTTATACAATATCCG
1 AACAATAAAACAAAAGTAATACAATATCCG
52265002 AACAATAACAACAAAA-TAATAACAATAT
1 AACAATAA-AACAAAAGTAAT-ACAATAT
52265030 AATAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.62, C:0.16, G:0.03, T:0.19
Consensus pattern (30 bp):
AACAATAAAACAAAAGTAATACAATATCCG
Found at i:52265802 original size:60 final size:59
Alignment explanation
Indices: 52265735--52266143 Score: 246
Period size: 60 Copynumber: 7.0 Consensus size: 59
52265725 GGCCATGCAC
* ** *
52265735 CCCTTTTTTGTCAAAAAAAAATTTCAAAATTTTTAAGTGTTGACCATCAAATGGCCGACA
1 CCCTTTTTTGTCAGAAAAAAATTTC-AAATTTTTTGGTGTTGGCCATCAAATGGCCGACA
* * * * *
52265795 CCCTTTTTTCT-TG-AAAAAATTGC--ATTTTTTGGTGTTGGCTATCAAATGGGCGACA
1 CCCTTTTTTGTCAGAAAAAAATTTCAAATTTTTTGGTGTTGGCCATCAAATGGCCGACA
** * * *
52265850 CCCCCTCTTCTCGAGAAAAAAATTTCAATTTTTTTGGTGTTGGCCATCAAATGGCCGACA
1 CCCTTTTTTGTC-AGAAAAAAATTTCAAATTTTTTGGTGTTGGCCATCAAATGGCCGACA
* * *
52265910 CCCCTTTTTCTTGT--GAAAAAAATTTAAATATTTTTTGTTGTTCGCCATCAAATGGCCGACA
1 -CCC-TTTT-TTGTCAGAAAAAAATTTCAA-ATTTTTTGGTGTTGGCCATCAAATGGCCGACA
** * * * * * * *
52265971 CCCCCTTTTCTCGAGAAAAAAATTAC-AATTTTTTGCATTTTTGG--GT---GTTG--GACA
1 CCCTTTTTTGTC-AGAAAAAAATTTCAAATTTTTTG--GTGTTGGCCATCAAATGGCCGACA
* * * *
52266025 ---TTTTTCTCG-GATAAAAAAATTTTAAATTTTTTTGGTGTCGGCCATCAAATGGCCGACA
1 CCCTTTTT-T-GTCAGAAAAAAATTTCAAA-TTTTTTGGTGTTGGCCATCAAATGGCCGACA
* * *
52266083 CTCC-ATTTTCTCGAGAAAAAAATTT-AAATTTTTTTGGTGTTGGCCATCAAATGACCGACA
1 C-CCTTTTTTGTC-AGAAAAAAATTTCAAA-TTTTTTGGTGTTGGCCATCAAATGGCCGACA
52266143 C
1 C
52266144 TCTCTTTTAC
Statistics
Matches: 264, Mismatches: 54, Indels: 62
0.69 0.14 0.16
Matches are distributed among these distances:
51 17 0.06
52 3 0.01
53 8 0.03
54 4 0.02
55 35 0.13
56 4 0.02
57 1 0.00
58 25 0.09
59 11 0.04
60 91 0.34
61 61 0.23
62 1 0.00
63 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (59 bp):
CCCTTTTTTGTCAGAAAAAAATTTCAAATTTTTTGGTGTTGGCCATCAAATGGCCGACA
Found at i:52265974 original size:61 final size:61
Alignment explanation
Indices: 52265818--52266143 Score: 315
Period size: 60 Copynumber: 5.5 Consensus size: 61
52265808 AAAAAATTGC
* * * *
52265818 ATTTTTTGGTGTTGGCTATCAAATGGGCGACACCCCCTCTTCTCGAGAAAAAAATTTCAAT
1 ATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTTAAAT
* * *
52265879 -TTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCTTTTTCTTGTGAAAAAAATTTAAAT
1 ATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTTAAAT
* * *
52265939 ATTTTTTGTTGTTCGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAA-TTACA-
1 ATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTTAAAT
* * * * * * *
52265998 ATTTTTTGCATTTTTGG--GT---GTTG--GACA----TTTTTCTCGGATAAAAAAATTTTAAAT
1 ATTTTTTG--GTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTC-GAGAAAAAAA-TTTAAAT
* * *
52266052 -TTTTTTGGTGTCGGCCATCAAATGGCCGACACTCCATTTTCTCGAGAAAAAAATTTAAAT
1 ATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTTAAAT
*
52266112 -TTTTTTGGTGTTGGCCATCAAATGACCGACAC
1 ATTTTTTGGTGTTGGCCATCAAATGGCCGACAC
52266144 TCTCTTTTAC
Statistics
Matches: 216, Mismatches: 31, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
50 7 0.03
51 13 0.06
53 12 0.06
54 4 0.02
56 4 0.02
58 4 0.02
59 9 0.04
60 94 0.44
61 62 0.29
62 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (61 bp):
ATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTTAAAT
Found at i:52267864 original size:30 final size:30
Alignment explanation
Indices: 52267818--52268174 Score: 484
Period size: 30 Copynumber: 11.9 Consensus size: 30
52267808 TTTAGGAAAT
* * *
52267818 TTTTGGGGTAAAAATGTAATTTTTGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
52267848 TTTAAGGGTCAAAATGTAATTTTGAAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
52267878 TTTTAGGGTCAAAATGTAATTTTAGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
52267908 TTTTAGGGTCAAAATATAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* * *
52267938 TTTTGGGGTTAAAATATAATTTTTGG-AAAG
1 TTTTAGGGTCAAAATGTAA-TTTTGGAAAAG
*
52267968 TTTTAGGGTCAAAATGTAATTCTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
52267998 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
52268028 TTTTAGGGTCAAAATGCAATTTTTGG-AAAG
1 TTTTAGGGTCAAAATGTAA-TTTTGGAAAAG
* *
52268058 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* * * *
52268088 TTTTGGGGTTAAAATATAATTTTGGAAGAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
52268118 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
52268148 TTTTAGGGTTAAAATGCAATTTCTGGA
1 TTTTAGGGTCAAAATGTAATTT-TGGA
52268175 TTGTTTGGGG
Statistics
Matches: 291, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.04
30 264 0.91
31 16 0.05
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (30 bp):
TTTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:52269813 original size:18 final size:15
Alignment explanation
Indices: 52269778--52269808 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52269768 ATGGTGGATG
52269778 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
52269793 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
52269808 G
1 G
52269809 CAGAGGCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:52269885 original size:14 final size:14
Alignment explanation
Indices: 52269866--52269935 Score: 112
Period size: 14 Copynumber: 5.3 Consensus size: 14
52269856 TTGGGCCTAT
52269866 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
52269880 TTGGGCC-TT-TAA
1 TTGGGCCATTGTAA
52269892 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
52269906 TTGGGCC-TT-TAA
1 TTGGGCCATTGTAA
52269918 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
52269932 TTGG
1 TTGG
52269936 ACTCTGGACT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
12 20 0.38
13 8 0.15
14 24 0.46
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.39
Consensus pattern (14 bp):
TTGGGCCATTGTAA
Found at i:52269900 original size:26 final size:26
Alignment explanation
Indices: 52269866--52269935 Score: 140
Period size: 26 Copynumber: 2.7 Consensus size: 26
52269856 TTGGGCCTAT
52269866 TTGGGCCATTGTAATTGGGCCTTTAA
1 TTGGGCCATTGTAATTGGGCCTTTAA
52269892 TTGGGCCATTGTAATTGGGCCTTTAA
1 TTGGGCCATTGTAATTGGGCCTTTAA
52269918 TTGGGCCATTGTAATTGG
1 TTGGGCCATTGTAATTGG
52269936 ACTCTGGACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.39
Consensus pattern (26 bp):
TTGGGCCATTGTAATTGGGCCTTTAA
Found at i:52270007 original size:17 final size:17
Alignment explanation
Indices: 52269985--52270017 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52269975 TCCAAATTTA
52269985 ACAAATTTAAATTTAAC
1 ACAAATTTAAATTTAAC
52270002 ACAAATTTAAATTTAA
1 ACAAATTTAAATTTAA
52270018 AAATTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAATTTAAATTTAAC
Found at i:52270048 original size:18 final size:18
Alignment explanation
Indices: 52270027--52270072 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
52270017 AAAATTGATT
52270027 TAAATTTAAATTT-TAAGA
1 TAAATTTAAATTTGTAA-A
*
52270045 TAAATTCAAATTTGTAAA
1 TAAATTTAAATTTGTAAA
*
52270063 TGAATTTAAA
1 TAAATTTAAA
52270073 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATTTGTAAA
Found at i:52270055 original size:24 final size:24
Alignment explanation
Indices: 52270003--52270057 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
52269993 AAATTTAACA
**
52270003 CAAATTTAAATTTAAAAATTGATT
1 CAAATTTAAATTTAAAAATAAATT
* * *
52270027 TAAATTTAAATTTTAAGATAAATT
1 CAAATTTAAATTTAAAAATAAATT
52270051 CAAATTT
1 CAAATTT
52270058 GTAAATGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATT
Found at i:52270070 original size:42 final size:41
Alignment explanation
Indices: 52269987--52270082 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
52269977 CAAATTTAAC
*
52269987 AAATTTAAATTTAACACAAATTTAAATTTAAAAATTGATTT
1 AAATTTAAATTTAACACAAATTCAAATTTAAAAATTGATTT
* * **
52270028 AAATTTAAATTTTAAGATAAATTCAAATTTGTAAA-TGAATTT
1 AAATTTAAA-TTTAACACAAATTCAAATTTAAAAATTG-ATTT
*
52270070 AAAATT-AATTTAA
1 AAATTTAAATTTAA
52270083 ACCAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 5 0.11
41 13 0.28
42 29 0.62
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (41 bp):
AAATTTAAATTTAACACAAATTCAAATTTAAAAATTGATTT
Found at i:52270728 original size:76 final size:76
Alignment explanation
Indices: 52270602--52271998 Score: 234
Period size: 68 Copynumber: 19.9 Consensus size: 76
52270592 TTGGTGCTTT
* **
52270602 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTAATATCCCGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
52270667 GATAGGAAACG
66 GATAGGAAACG
* * * * * *
52270678 ATCTTGCTCTTGCTTCAATTTCAGAAATAACGGCTTGATATCCAACTTTACTTCATTTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
**
52270743 GATAGGAATTG
66 GATAGGAAACG
* * ** * ** * * *
52270754 ATCTTAGTGCTTCATCTT-ACTCTTACTTCAATTTCAGA--T-AGA-CAAAGGCTTGTTATCCAC
1 ATCTTACT-CTT-A-CTTCAAT-TT-C-AGAAATAAAGACTTAATATCCAA--C-T-TTA--C-T
* **** * *
52270814 TCTATTTCAATTTCA-A-GAGGATG
53 TCAATTTCAAGAGGATAGGA-AACG
* * * ** * * *
52270837 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCTACTCTACTTCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52270901 GGAT--G--ACG
65 GGATAGGAAACG
* * * ** * *
52270909 -TC--GCTCTTACTTCAATTTCGGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52270970 GGAT--G--AC-
65 GGATAGGAAACG
* * * * * * *
52270977 A--TTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCGAGAG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
52271039 GAT--G--ACG
66 GATAGGAAACG
* * * ** * * *
52271046 ---TTGCTCTTACTTCACTTTCAGAGATAAAGA-TGTGTTATCC-ACTCTACTTCAATTTCGAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271106 GGAT--G--ACG
65 GGATAGGAAACG
* * ** * * *
52271114 ---TTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCTACTCTACTTCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271175 GGAT--G--ACG
65 GGATAGGAAACG
* * ** * *
52271183 -TC--ACTCTTACTTCAATTTCGGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271244 GGAT--G--AC-
65 GGATAGGAAACG
* * * * * * *
52271251 A--TTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCGAGAG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
52271313 GAT--G--ACG
66 GATAGGAAACG
* * ** * *
52271320 ---TTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCC-ACTCTACTTCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271380 GGAT--G--ACG
65 GGATAGGAAACG
* * * ** * *
52271388 -TC--GCTCTTACTTCAATTTCGGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271449 GGAT--G--AC-
65 GGATAGGAAACG
* * * * * * *
52271456 A--TTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCGAGAG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
52271518 GAT--G--ACG
66 GATAGGAAACG
* * * ** * * *
52271525 ---TTGCTCTTACTTCACTTTCAGAGATAAAGA-TGTGTTATCC-ACTCTACTTCAATTTCGAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271585 GGAT--G--ACG
65 GGATAGGAAACG
* * ** * * *
52271593 ---TTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCTACTCTACTTCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271654 GGAT--G--ACG
65 GGATAGGAAACG
* * ** * * *
52271662 -TC--ACTCTTACTTCAATTTCGGAGATAAAGA-TGTGTTATCC-ACTCTACTTCAATTTCGAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271722 GGAT--G--ACG
65 GGATAGGAAACG
* * * * * *
52271730 ---TTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
52271791 GAT--G--ACG
66 GATAGGAAACG
* * ** * *
52271798 ---TTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCC-ACTCTACTTCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271858 GGAT--G--ACG
65 GGATAGGAAACG
* * * ** * * *
52271866 -TC--GCTCTTACTTCAATTTCGGAGATAAAGA-TGTGTTATCC-ACTCTACTTCAATTTCGAGG
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271926 GGAT--G--ACG
65 GGATAGGAAACG
* * ** * * *
52271934 ---TTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCTACTCTACTTCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAAATAAAGACT-TAATATCCAACTTTACTTCAATTTCAAGA
52271995 GGAT
65 GGAT
52271999 GATGTCGCCC
Statistics
Matches: 1139, Mismatches: 126, Indels: 119
0.82 0.09 0.09
Matches are distributed among these distances:
68 623 0.55
69 359 0.32
71 1 0.00
72 2 0.00
75 11 0.01
76 72 0.06
77 6 0.01
78 11 0.01
79 9 0.01
80 9 0.01
81 11 0.01
82 7 0.01
83 9 0.01
84 9 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (76 bp):
ATCTTACTCTTACTTCAATTTCAGAAATAAAGACTTAATATCCAACTTTACTTCAATTTCAAGAG
GATAGGAAACG
Found at i:52270897 original size:159 final size:159
Alignment explanation
Indices: 52270595--52270904 Score: 356
Period size: 159 Copynumber: 1.9 Consensus size: 159
52270585 CGTTGAGTTG
* * * *
52270595 GTGCTTTATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTAATATCCCGCTTTACTTCAATT
1 GTGCTTCATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTAATATCCCACTCTACTTCAATT
* * *
52270660 TCAAGAGGATAGGAAACGATCTTGCTCTTGCTTCAATTTCAGAAATAACGGCTTGATATCCAACT
66 TCAAGAGGAT-----A-GATCTTGCTCTTACTTCAATTTCAGAAATAACAGATTGATATCCAACT
* *
52270725 TTACTTCATTTTCAAGAGGATAGGAATTGATCTTA
125 CTACTTCAATTTCAAGAGGATAGGAATTGATCTTA
* ** *
52270760 GTGCTTCATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGTTAT-CCACTCTATTTCAA
1 GTGCTTCATCTTACTCTTACTTCAATTTCAG--AGACAAAGACTTAATATCCCACTCTACTTCAA
* * * *
52270824 TTTCAAGAGGAT-GATGTTGCTCTTACTTCAATTTCAGAGATAA-AGATGTGTTATCCTACTCTA
64 TTTCAAGAGGATAGATCTTGCTCTTACTTCAATTTCAGAAATAACAGAT-TGATATCCAACTCTA
*
52270887 CTTCAATTTCAAGCGGAT
128 CTTCAATTTCAAGAGGAT
52270905 GACGTCGCTC
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
158 2 0.02
159 56 0.45
165 30 0.24
166 23 0.19
167 13 0.10
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (159 bp):
GTGCTTCATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTAATATCCCACTCTACTTCAATT
TCAAGAGGATAGATCTTGCTCTTACTTCAATTTCAGAAATAACAGATTGATATCCAACTCTACTT
CAATTTCAAGAGGATAGGAATTGATCTTA
Found at i:52271051 original size:68 final size:68
Alignment explanation
Indices: 52270773--52272070 Score: 1995
Period size: 68 Copynumber: 18.9 Consensus size: 68
52270763 CTTCATCTTA
* * * *
52270773 CTCTTACTTCAATTTCAGATAGACAAAGGCT-TGTTATCCACTCTATTTCAATTTCAAGAGGATG
1 CTCTTACTTCAATTTCAG--AGATAAA-GATGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
*
52270837 ATGTTG
63 ACGTTG
*
52270843 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
*
52270908 GTCG
65 GTTG
*
52270912 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
*
52270977 ATTG
65 GTTG
* * * * *
52270981 CTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGAGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271046 TTG
66 TTG
* *
52271049 CTCTTACTTCACTTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271114 TTG
66 TTG
*
52271117 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
**
52271182 GTCA
65 GTTG
*
52271186 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
*
52271251 ATTG
65 GTTG
* * * * *
52271255 CTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGAGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271320 TTG
66 TTG
*
52271323 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
*
52271388 TCG
66 TTG
*
52271391 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
*
52271456 ATTG
65 GTTG
* * * * *
52271460 CTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGAGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271525 TTG
66 TTG
* *
52271528 CTCTTACTTCACTTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271593 TTG
66 TTG
*
52271596 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
**
52271661 GTCA
65 GTTG
* *
52271665 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271730 TTG
66 TTG
* * * *
52271733 CTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCAAGAGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271798 TTG
66 TTG
*
52271801 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
*
52271866 TCG
66 TTG
* *
52271869 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
52271934 TTG
66 TTG
* *
52271937 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGATGAT
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
*
52272002 GTCG
65 GTTG
* *
52272006 CCCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
52272071 ATTGGGACCT
Statistics
Matches: 1124, Mismatches: 98, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
67 2 0.00
68 646 0.57
69 458 0.41
70 18 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (68 bp):
CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
TTG
Found at i:52271120 original size:274 final size:274
Alignment explanation
Indices: 52270773--52272074 Score: 2090
Period size: 274 Copynumber: 4.8 Consensus size: 274
52270763 CTTCATCTTA
* * * *
52270773 CTCTTACTTCAATTTCAGATAGACAAAGGCT-TGTTATCCACTCTATTTCAATTTCAAGAGGATG
1 CTCTTACTTCAATTTCAG--AGATAAA-GATGTGTTATCCACTCTACTTCAATTTCAAGCGGATG
*
52270837 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCG
63 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCG
52270902 GATGACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCA
128 GATGACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCA
*
52270967 AGGGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATT
193 AGGGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATT
52271032 TCGAGAGGATGACGTTG
258 TCGAGAGGATGACGTTG
* * *
52271049 CTCTTACTTCACTTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
52271114 TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGAT
66 TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGAT
*
52271179 GACGTCACTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGG
131 GACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGG
*
52271244 GGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCG
196 GGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCG
52271309 AGAGGATGACGTTG
261 AGAGGATGACGTTG
52271323 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
* * * *
52271388 TCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
66 TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGAT
* * * * * * * *
52271453 GACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCGAGA
131 GACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGG
* * * *
52271517 GGATGACGTTGCTCTTACTTCACTTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCG
196 GGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCG
*
52271582 AGGGGATGACGTTG
261 AGAGGATGACGTTG
52271596 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATGAC
** * * *
52271661 GTCACTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCGAGGGGA
65 GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGA
* * * * *
52271725 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCAAG
130 TGACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAG
* * * *
52271789 AGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTC
195 GGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTC
* * *
52271854 AAGCGGATGACGTCG
260 GAGAGGATGACGTTG
* * *
52271869 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
52271934 TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGAT
66 TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGAT
* *
52271999 GATGTCGCCCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGG
131 GACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGG
52272064 GGATGACATTG
196 GGATGACATTG
52272075 GGACCTGCAG
Statistics
Matches: 967, Mismatches: 55, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
272 63 0.07
273 385 0.40
274 502 0.52
276 17 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (274 bp):
CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCGGATGACG
TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGAT
GACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGG
GGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCG
AGAGGATGACGTTG
Found at i:52271162 original size:205 final size:205
Alignment explanation
Indices: 52270773--52272070 Score: 2046
Period size: 205 Copynumber: 6.3 Consensus size: 205
52270763 CTTCATCTTA
* * * *
52270773 CTCTTACTTCAATTTCAGATAGACAAAGGCT-TGTTATCC-ACTCTATTTCAATTTCAAGAGGAT
1 CTCTTACTTCAATTTCAG--AGATAAA-GATGTGTTATCCAACTCTACTTCAATTTCAAGGGGAT
* * *
52270836 GATGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGC
63 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCGAGG
* *
52270901 GGATGACGTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTC
127 GGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTC
* * *
52270966 AAGGGGATGACATTG
191 AAGCGGATGACGTCG
* * * * *
52270981 CTCTTACTTCAATTTCAGAGATGAAGACGTATTATCC-ACTCTACTTCAATTTCGAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
*
52271045 GTTGCTCTTACTTCACTTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
66 GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
52271110 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGC
131 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGC
*
52271175 GGATGACGTCA
195 GGATGACGTCG
*
52271186 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
* * * * *
52271251 ATTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGAGGAT
66 GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
52271316 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCG
131 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCG
52271381 GATGACGTCG
196 GATGACGTCG
*
52271391 CTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
* * * * *
52271456 ATTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGAGGAT
66 GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
* * *
52271521 GACGTTGCTCTTACTTCACTTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGG
131 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCG
*
52271586 GATGACGTTG
196 GATGACGTCG
* *
52271596 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
** *
52271661 GTCACTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
66 GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
* * * *
52271726 GACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCAAGAG
131 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCG
*
52271791 GATGACGTTG
196 GATGACGTCG
*
52271801 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
* *
52271865 GTCGCTCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
66 GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
52271930 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCTACTCTACTTCAATTTCAAGC
131 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCC-ACTCTACTTCAATTTCAAGC
*
52271995 GGATGATGTCG
195 GGATGACGTCG
* *
52272006 CCCTTACTTCAATTTCGGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
52272071 ATTGGGACCT
Statistics
Matches: 1024, Mismatches: 62, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
204 132 0.13
205 644 0.63
206 230 0.22
208 18 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (205 bp):
CTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTCAATTTCAAGGGGATGAC
GTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCGAGGGGAT
GACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCACTCTACTTCAATTTCAAGCG
GATGACGTCG
Found at i:52281869 original size:30 final size:30
Alignment explanation
Indices: 52281835--52281930 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 30
52281825 ACCCGGGGGC
*
52281835 AAAATGGTAATTTTGGTGAAATCGGGGTTT
1 AAAATGGTAATTTTAGTGAAATCGGGGTTT
** *** *
52281865 AAAATGG-AATTTTAAAGGTTTCGGGG-GT
1 AAAATGGTAATTTTAGTGAAATCGGGGTTT
*
52281893 AAAATGGTAATTTTCAGTGAAATCGGGGTTA
1 AAAATGGTAATTTT-AGTGAAATCGGGGTTT
52281924 AAAATGG
1 AAAATGG
52281931 GATTTAGGAA
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
28 8 0.16
29 19 0.39
30 15 0.31
31 7 0.14
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTAGTGAAATCGGGGTTT
Found at i:52281989 original size:30 final size:30
Alignment explanation
Indices: 52281943--52282299 Score: 466
Period size: 30 Copynumber: 11.9 Consensus size: 30
52281933 TTTAGGAAAT
* * *
52281943 TTTTGGGGTAAAAATGTAATTTTTGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
52281973 TTTAAGGGTCAAAATGTAATTTTGAAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
52282003 TTTTAGGGTTAAAATGTAATTTTAGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
52282033 TTTTAGGGTCAAAATATAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* * *
52282063 TTTTGGGGTTAAAATATAATTTTTGG-AAAG
1 TTTTAGGGTCAAAATGTAA-TTTTGGAAAAG
*
52282093 TTTTAGGGTCAAAATGTAATTCTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
52282123 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
52282153 TTTTGGGGTCAAAATGCAATTTTTGG-AAAG
1 TTTTAGGGTCAAAATGTAA-TTTTGGAAAAG
* *
52282183 TTTTGGGGTTAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* * * *
52282213 TTTTGGGGTTAAAATATAATTTTGGAAGAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
52282243 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
52282273 TTTTAGGGTTAAAATGCAATTTCTGGA
1 TTTTAGGGTCAAAATGTAATTT-TGGA
52282300 TTGTTTGGGG
Statistics
Matches: 291, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.04
30 264 0.91
31 16 0.05
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.38
Consensus pattern (30 bp):
TTTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:52283997 original size:14 final size:14
Alignment explanation
Indices: 52283978--52284048 Score: 96
Period size: 14 Copynumber: 5.3 Consensus size: 14
52283968 TTGGGCCTAT
52283978 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
*
52283992 TTGGG-C-TTTTAA
1 TTGGGCCATTGTAA
52284004 TTTGGGCCATTGTAA
1 -TTGGGCCATTGTAA
52284019 TTGGGCC-TT-TAA
1 TTGGGCCATTGTAA
52284031 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
52284045 TTGG
1 TTGG
52284049 ACTCTGGACT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
12 15 0.30
13 10 0.20
14 20 0.40
15 5 0.10
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (14 bp):
TTGGGCCATTGTAA
Found at i:52284041 original size:26 final size:27
Alignment explanation
Indices: 52283976--52284048 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
52283966 CATTGGGCCT
*
52283976 ATTTGGGCCATTGTAATTGGGCTTTTA
1 ATTTGGGCCATTGTAATTGGGCCTTTA
52284003 ATTTGGGCCATTGTAATTGGGCCTTTA
1 ATTTGGGCCATTGTAATTGGGCCTTTA
52284030 A-TTGGGCCATTGTAATTGG
1 ATTTGGGCCATTGTAATTGG
52284049 ACTCTGGACT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 18 0.40
27 27 0.60
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.41
Consensus pattern (27 bp):
ATTTGGGCCATTGTAATTGGGCCTTTA
Found at i:52284121 original size:17 final size:17
Alignment explanation
Indices: 52284099--52284131 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52284089 TCCAAATTTA
52284099 ACAAATTTAAATTTAAC
1 ACAAATTTAAATTTAAC
52284116 ACAAATTTAAATTTAA
1 ACAAATTTAAATTTAA
52284132 AAATTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
ACAAATTTAAATTTAAC
Found at i:52284162 original size:18 final size:18
Alignment explanation
Indices: 52284141--52284186 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
52284131 AAAATTGATT
52284141 TAAATTTAAATTT-TAAGA
1 TAAATTTAAATTTGTAA-A
*
52284159 TAAATTCAAATTTGTAAA
1 TAAATTTAAATTTGTAAA
*
52284177 TGAATTTAAA
1 TAAATTTAAA
52284187 ATTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATTTGTAAA
Found at i:52284169 original size:24 final size:24
Alignment explanation
Indices: 52284117--52284171 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
52284107 AAATTTAACA
**
52284117 CAAATTTAAATTTAAAAATTGATT
1 CAAATTTAAATTTAAAAATAAATT
* * *
52284141 TAAATTTAAATTTTAAGATAAATT
1 CAAATTTAAATTTAAAAATAAATT
52284165 CAAATTT
1 CAAATTT
52284172 GTAAATGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATT
Found at i:52284184 original size:42 final size:41
Alignment explanation
Indices: 52284101--52284196 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
52284091 CAAATTTAAC
*
52284101 AAATTTAAATTTAACACAAATTTAAATTTAAAAATTGATTT
1 AAATTTAAATTTAACACAAATTCAAATTTAAAAATTGATTT
* * **
52284142 AAATTTAAATTTTAAGATAAATTCAAATTTGTAAA-TGAATTT
1 AAATTTAAA-TTTAACACAAATTCAAATTTAAAAATTG-ATTT
*
52284184 AAAATT-AATTTAA
1 AAATTTAAATTTAA
52284197 ACCAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 5 0.11
41 13 0.28
42 29 0.62
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (41 bp):
AAATTTAAATTTAACACAAATTCAAATTTAAAAATTGATTT
Found at i:52285257 original size:27 final size:28
Alignment explanation
Indices: 52285227--52285291 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
52285217 AATAAAATTC
* *
52285227 TTAAATTAAA-TAAAAATTTTAAAAGTA
1 TTAAATCAAATTAAAAATTTTAAAAGGA
* *
52285254 TTAAATCAAATTTAAAATTTTTAAAGGA
1 TTAAATCAAATTAAAAATTTTAAAAGGA
52285282 TTAAATCAAA
1 TTAAATCAAA
52285292 ATTTTATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (28 bp):
TTAAATCAAATTAAAAATTTTAAAAGGA
Found at i:52285266 original size:21 final size:21
Alignment explanation
Indices: 52285231--52285270 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
52285221 AAATTCTTAA
52285231 ATTAAATAAAAATTTTAAAAGT
1 ATTAAATAAAAA-TTTAAAAGT
*
52285253 ATTAAAT-CAAATTTAAAA
1 ATTAAATAAAAATTTAAAA
52285271 TTTTTAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 3 0.18
22 7 0.41
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTAAATAAAAATTTAAAAGT
Found at i:52289572 original size:59 final size:57
Alignment explanation
Indices: 52289418--52289573 Score: 141
Period size: 59 Copynumber: 2.7 Consensus size: 57
52289408 ATACCCGGGG
* * * * * *
52289418 GGCAAAATGGTAATTTTTGTGAAATTGGGGCTAAAAATGGAATTTGGAAAGTTTGGC
1 GGCAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAAATTTGGAAAGTTCGGA
** ** * ** *
52289475 GAATAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCGGA
1 G-GCAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATGAAA-TTTGGAAAGTTCGGA
*
52289535 GGCAAAACGGTAAGTTTTGGTGAAATCGGGGTTAAAAAT
1 GGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAAT
52289574 AGGATTTAGG
Statistics
Matches: 72, Mismatches: 23, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
57 1 0.01
58 10 0.14
59 47 0.65
60 14 0.19
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.28
Consensus pattern (57 bp):
GGCAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGAAATTTGGAAAGTTCGGA
Found at i:52289651 original size:30 final size:30
Alignment explanation
Indices: 52289585--52289743 Score: 216
Period size: 30 Copynumber: 5.4 Consensus size: 30
52289575 GGATTTAGGG
* *
52289585 AAGTTTAGGGGT-AAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* *
52289614 AAGTTTTGGGGTCAAAATATAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
52289644 AATTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
52289674 AGGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
52289704 AAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
52289734 AA-TTTAGGGG
1 AAGTTTTGGGG
52289744 CTTACAAAGT
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
29 26 0.22
30 91 0.78
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:52291593 original size:17 final size:16
Alignment explanation
Indices: 52291573--52291651 Score: 90
Period size: 17 Copynumber: 4.9 Consensus size: 16
52291563 AATTTTTATT
52291573 TAAATTTAAATTCAAA
1 TAAATTTAAATTCAAA
*
52291589 GTAAATTTAAA-T-AAT
1 -TAAATTTAAATTCAAA
*
52291604 TAAATTTAAATTTAAAA
1 TAAATTTAAA-TTCAAA
*
52291621 TAAATTTAAATTTAAA
1 TAAATTTAAATTCAAA
*
52291637 TAAATTTAAAATCAA
1 TAAATTTAAATTCAA
52291652 TTTAACTCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
14 10 0.19
15 2 0.04
16 20 0.37
17 22 0.41
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (16 bp):
TAAATTTAAATTCAAA
Found at i:52291599 original size:6 final size:6
Alignment explanation
Indices: 52291547--52291646 Score: 82
Period size: 6 Copynumber: 16.8 Consensus size: 6
52291537 TTTTTTAATG
* * ** * *
52291547 TTAAAT TTAATGT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
52291595 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
52291642 TTAAA
1 TTAAA
52291647 ATCAATTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
4 4 0.05
5 7 0.09
6 54 0.72
7 4 0.05
8 6 0.08
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:52291607 original size:31 final size:32
Alignment explanation
Indices: 52291572--52291651 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 32
52291562 TAATTTTTAT
*
52291572 TTAAATTTAAATTCAAAGTAAATTTAAA-TAA
1 TTAAATTTAAATTCAAAATAAATTTAAATTAA
*
52291603 TTAAATTTAAATTTAAAATAAATTTAAATTTAA
1 TTAAATTTAAATTCAAAATAAATTTAAA-TTAA
* *
52291636 ATAAATTTAAAATCAA
1 TTAAATTTAAATTCAA
52291652 TTTAACTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (32 bp):
TTAAATTTAAATTCAAAATAAATTTAAATTAA
Found at i:52291663 original size:27 final size:27
Alignment explanation
Indices: 52291610--52291664 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
52291600 TAATTAAATT
*
52291610 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
52291637 TAAATTTAAAATCAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
52291664 T
1 T
52291665 TAAACGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:52292048 original size:38 final size:37
Alignment explanation
Indices: 52292004--52292269 Score: 168
Period size: 38 Copynumber: 7.4 Consensus size: 37
52291994 TGATCTTGCT
* *
52292004 CTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
** * * *
52292041 CTCTACTTCAATTTCA-AGAGGATGAC--G-T-TGC-T
1 CT-TACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
* *
52292073 CTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGT
1 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA-A
* * *
52292111 TTTACTTCAATTTCAAGAGGATAGGAA-ACGATGTTA--C-T
1 CTTACTTCAATTTC-AGA-GATA--AAGAC-TTGTTATCCAA
*
52292149 CTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
* ** * * *
52292186 CTCTACTTCAATTTGA-AGAGGATGAC--G-T-TGC-T
1 CT-TACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
52292218 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
1 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
52292255 CTTTACTTCAATTTC
1 C-TTACTTCAATTTC
52292270 TAAAGGATAG
Statistics
Matches: 176, Mismatches: 28, Indels: 49
0.70 0.11 0.19
Matches are distributed among these distances:
31 25 0.14
32 18 0.10
33 4 0.02
34 11 0.06
35 6 0.03
36 8 0.05
37 22 0.12
38 66 0.38
39 3 0.02
40 5 0.03
41 2 0.01
42 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (37 bp):
CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
Found at i:52292196 original size:76 final size:76
Alignment explanation
Indices: 52292067--52292336 Score: 351
Period size: 76 Copynumber: 3.6 Consensus size: 76
52292057 AGAGGATGAC
* ** *
52292067 GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGA
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
52292132 TAGGAAACGAT
66 TAGGAAACGAT
* * *
52292143 GTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTGAAGAGGA
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
52292208 T--G--AC---
66 TAGGAAACGAT
*
52292212 GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAA-AGG
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTC-AAGAGG
*
52292276 ATAGGAAATGAT
65 ATAGGAAACGAT
* * *
52292288 CTTGCTCTTACTTCAATTTCAGAGATAAA-AGCGTGTTAACCAACTCTAC
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGA-CTTGTTATCCAACTCTAC
52292337 AGGAAACGAT
Statistics
Matches: 169, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
69 59 0.35
70 2 0.01
71 1 0.01
72 2 0.01
73 1 0.01
74 1 0.01
75 1 0.01
76 102 0.60
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (76 bp):
GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
TAGGAAACGAT
Found at i:52292221 original size:145 final size:145
Alignment explanation
Indices: 52291942--52292698 Score: 1002
Period size: 145 Copynumber: 5.4 Consensus size: 145
52291932 GCTCTTCATG
* * * * *
52291942 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAA-AGGATAGGAAATGATCTTGCTCT
1 GAGATAAAGAC-GTGTTATCCAACTCTACTTCAATTTC-AAGAGGATAGGAAACGATGTTGCTCT
* *
52292006 TACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
64 TACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
52292071 CTCTTACTTCAATTTCA
129 CTCTTACTTCAATTTCA
* * ** * *
52292088 GAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
* *
52292153 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTGAAGAGGATGACGTTGCT
66 CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
52292218 CTTACTTCAATTTCA
131 CTTACTTCAATTTCA
* * * *
52292233 GAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAA-AGGATAGGAAATGATCTTGCTCTT
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC-AAGAGGATAGGAAACGATGTTGCTCTT
* * ** * *
52292297 ACTTCAATTTCAGAGAT-AAAAGCGTGTTAACCAACTCTA---C-A--GGAA-ACGAT---GTTA
65 ACTTCAATTTCAGAGATGAAGA-CGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
52292351 CTCTTACTTCAATTTCA
129 CTCTTACTTCAATTTCA
* * *
52292368 GAGATGAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCTTA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
*
52292433 CTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
66 CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
52292498 CTTACTTCAATTTCA
131 CTTACTTCAATTTCA
* *
52292513 GAGATAAAGACGTGTTA-CCCACTCTACTTCAATTTCAAGGGGAT--G--AC---GTTGCTCTTA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
*
52292570 CTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCT
66 CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
52292634 CTTACTTCAATTTCA
131 CTTACTTCAATTTCA
* * *
52292649 GAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATTGGAAA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
52292699 TGATCTTGTT
Statistics
Matches: 546, Mismatches: 45, Indels: 46
0.86 0.07 0.07
Matches are distributed among these distances:
134 2 0.00
135 106 0.19
136 89 0.16
137 41 0.08
138 6 0.01
139 4 0.01
140 3 0.01
141 3 0.01
142 6 0.01
144 30 0.05
145 243 0.45
146 13 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (145 bp):
GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTTA
CTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCT
CTTACTTCAATTTCA
Found at i:52292370 original size:59 final size:59
Alignment explanation
Indices: 52292278--52292395 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
52292268 TCTAAAGGAT
* *
52292278 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTAC
1 AGGAAACGATCTTACTCTTACTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTAC
* * * *
52292337 AGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGGCGTGTTATCCAACTCTAC
1 AGGAAACGATCTTACTCTTACTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTAC
52292396 TTCAATTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (59 bp):
AGGAAACGATCTTACTCTTACTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTAC
Found at i:52292392 original size:204 final size:208
Alignment explanation
Indices: 52291999--52292706 Score: 785
Period size: 204 Copynumber: 3.4 Consensus size: 208
52291989 GGAAATGATC
* * *
52291999 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTC-AA-G--A
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAAGGATA
** *
52292060 GG--ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAAT
66 GGAAATGATC-TTGCTCTTACTTCAATTTCAGAGATAAAGAC--G---T---GTTACAC-TCAAC
* * *
52292122 TTCAAGAGGATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAAC
121 TTC-ATA-CA-AGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAAC
*
52292187 TCTACTTCAATTTGAAGAGGATGACG
183 TCTACTTCAATTTCAAGAGGATGACG
* *
52292213 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAAAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTC-AAAGGAT
52292278 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAA-AGCGTGTTA-AC-CAAC-TC-TAC-
65 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGA-CGTGTTACACTCAACTTCATACA
*
52292337 AGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGGCGTGTTATCCAACTCTACTTCAAT
129 AGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAAT
52292402 TTCAAGAGGATAGGAAACGATG
194 TTCAAGAGGAT--G--AC---G
*
52292424 TTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTC-AA-G--A
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAAGGATA
*
52292485 GG--ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTACCCACTCTACTTCAATT
66 GGAAATGATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTA--CACTCAACTTC-A-T
* ** * * *
52292547 TCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTC
126 ACAAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTC
*
52292611 AATTTCAAGGGGATGACG
191 AATTTCAAGAGGATGACG
* *
52292629 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAA-AGGAT
*
52292693 TGGAAATGATCTTG
65 AGGAAATGATCTTG
52292707 TTTGGTCTGA
Statistics
Matches: 433, Mismatches: 26, Indels: 73
0.81 0.05 0.14
Matches are distributed among these distances:
203 1 0.00
204 128 0.30
205 41 0.09
206 4 0.01
207 4 0.01
208 8 0.02
209 8 0.02
210 4 0.01
211 62 0.14
212 28 0.06
213 48 0.11
214 54 0.12
216 3 0.01
217 1 0.00
219 4 0.01
220 1 0.00
221 33 0.08
222 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (208 bp):
TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAAGGATA
GGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTACACTCAACTTCATACAAG
GAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTT
CAAGAGGATGACG
Found at i:52292460 original size:135 final size:136
Alignment explanation
Indices: 52292212--52292698 Score: 494
Period size: 135 Copynumber: 3.5 Consensus size: 136
52292202 AGAGGATGAC
* *
52292212 GTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAA-AGG
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC-AAGAGG
* * *
52292276 ATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGAT-AAAAGCGTGTTAACCAACTCTAC-AG
65 ATAGGAAACGATGTTGCTCTTACTTCAATTTCAGAGATGAAGA-CGTGTTAACCAACTCTACAAG
52292339 GAAACGAT
129 GAAACGAT
* * *
52292347 GTTACTCTTACTTCAATTTCAGAGATGAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGA
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGA
* * *
52292412 TAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAA
66 TAGGAAACGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTAACCAACTCTA---CAA
** *
52292477 TTTCAAGAGGAT
128 --GGAA-ACGAT
* *
52292489 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTA-CCCACTCTACTTCAATTTCAAGG
1 ---GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGA
*
52292553 GGAT--G--AC---GTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTC
63 GGATAGGAAACGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTA---AC-CAAC-TC
* ** * *
52292611 AATTTCAAGGGGATGAC
123 ---TACAAGGAAACGAT
* *
52292628 GTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGA
1 GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGA
*
52292692 TTGGAAA
66 TAGGAAA
52292699 TGATCTTGTT
Statistics
Matches: 295, Mismatches: 32, Indels: 45
0.79 0.09 0.12
Matches are distributed among these distances:
134 2 0.01
135 106 0.36
136 63 0.21
137 38 0.13
138 2 0.01
139 4 0.01
140 4 0.01
141 5 0.02
142 10 0.03
144 25 0.08
145 36 0.12
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (136 bp):
GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGA
TAGGAAACGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTAACCAACTCTACAAGGA
AACGAT
Found at i:52292463 original size:76 final size:68
Alignment explanation
Indices: 52292427--52292692 Score: 469
Period size: 68 Copynumber: 3.9 Consensus size: 68
52292417 AACGATGTTA
*
52292427 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATGAC
52292492 GTTG
65 GTTG
* * *
52292496 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTACCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
52292561 TTG
66 TTG
*
52292564 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
52292629 TTG
66 TTG
*
52292632 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
1 CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGAT
52292693 TGGAAATGAT
Statistics
Matches: 190, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
68 156 0.82
69 34 0.18
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (68 bp):
CTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACG
TTG
Found at i:52292469 original size:280 final size:281
Alignment explanation
Indices: 52291942--52292698 Score: 1007
Period size: 280 Copynumber: 2.7 Consensus size: 281
52291932 GCTCTTCATG
*
52291942 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATCTTGCTCTT
1 GAGATAAAGAC-TTGTTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATCTTGCTCTT
* * ** *
52292007 ACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGC
65 ACTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTA---CAA--GGAA-ACGAT---GTTGC
* * * ** *
52292072 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAGGA
121 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
52292137 AACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTGA
186 AACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCA
52292202 AGAGGATGACGTTGCTCTTACTTCAATTTCA
251 AGAGGATGACGTTGCTCTTACTTCAATTTCA
52292233 GAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATCTTGCTCTTA
1 GAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATCTTGCTCTTA
*
52292298 CTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTAC-AGGAAACGATGTTACTCTTACTTCA
66 CTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTACAAGGAAACGATGTTGCTCTTACTTCA
*
52292362 ATTTCAGAGATGAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTA
131 ATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTA
52292427 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
196 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
52292492 GTTGCTCTTACTTCAATTTCA
261 GTTGCTCTTACTTCAATTTCA
* * *
52292513 GAGATAAAGACGTGTTA-CCCACTCTACTTCAATTTC--AAGG---GG--ATGA-CGTTGCTCTT
1 GAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATC-TTGCTCTT
* * * ** * *
52292569 ACTTCAATTTCAGAGAT-GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGC
65 ACTTCAATTTCAGAGATAAAAG-CGTGTTA---AC-CAAC-TC---TACAAGGAAACGATGTTGC
* *
52292633 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATTGGA
121 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGA
52292697 AA
186 AA
52292699 TGATCTTGTT
Statistics
Matches: 426, Mismatches: 29, Indels: 33
0.87 0.06 0.07
Matches are distributed among these distances:
271 4 0.01
272 36 0.08
274 2 0.00
275 2 0.00
276 3 0.01
277 6 0.01
279 17 0.04
280 203 0.48
281 45 0.11
283 4 0.01
284 2 0.00
286 1 0.00
287 1 0.00
290 89 0.21
291 11 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (281 bp):
GAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCTAAAGGATAGGAAATGATCTTGCTCTTA
CTTCAATTTCAGAGATAAAAGCGTGTTAACCAACTCTACAAGGAAACGATGTTGCTCTTACTTCA
ATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTA
CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATGAC
GTTGCTCTTACTTCAATTTCA
Found at i:52292507 original size:31 final size:31
Alignment explanation
Indices: 52292469--52292655 Score: 153
Period size: 31 Copynumber: 5.7 Consensus size: 31
52292459 TATCCAACTC
52292469 TACTTCAATTTCAAGAGGATGACGTTGCTCT
1 TACTTCAATTTCAAGAGGATGACGTTGCTCT
** * * *
52292500 TACTTCAATTTCAGAGATAAAGACGTGTTACCCACT
1 TACTTCAATTTCA-AGAGGATGAC--GTT--GCTCT
*
52292536 CTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
* * * *
52292568 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
*
52292604 CTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
52292636 TACTTCAATTTC-AGA-GATGA
1 TACTTCAATTTCAAGAGGATGA
52292656 AGACGTGTTA
Statistics
Matches: 122, Mismatches: 22, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
29 5 0.04
30 2 0.02
31 38 0.31
32 21 0.17
33 1 0.01
34 8 0.07
35 1 0.01
36 20 0.16
37 26 0.21
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGAGGATGACGTTGCTCT
Found at i:52304367 original size:30 final size:30
Alignment explanation
Indices: 52304316--52304590 Score: 391
Period size: 30 Copynumber: 9.2 Consensus size: 30
52304306 TTTAGGGAAG
* *
52304316 TTTAGGGGTAAAATGGTAATTTTGGAAAGGT
1 TTTAGGGTTAAAAT-GTAATTTTGGAAAAGT
52304347 TTT-GAGGTTAAAATGTAATTTTGGAAAAGT
1 TTTAG-GGTTAAAATGTAATTTTGGAAAAGT
52304377 TTTAGGGTTAAAATGTAATTTTGGAAAAGT
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGT
*
52304407 TTTAGGGTT-AAATGTAATTTT-TAGAAAGT
1 TTTAGGGTTAAAATGTAATTTTGGA-AAAGT
*
52304436 TTTAGGGTCAAAATGTAATTTTGGAAAAGT
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGT
*
52304466 TTTAGGGTTAAAATGTAATTTT-TAGAAAGT
1 TTTAGGGTTAAAATGTAATTTTGGA-AAAGT
*
52304496 TTTAGGGTTAAAATATAATTTTGGAAAAGT
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGT
*
52304526 TTTAGGGTTAAAATGTAATTTTAGAAAAGT
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGT
* *
52304556 TTTGGGGTTAAAATGTAATTTTAGAAAA--
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGT
52304584 TTTAGGG
1 TTTAGGG
52304591 GCTTACAAAG
Statistics
Matches: 224, Mismatches: 13, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
28 7 0.03
29 26 0.12
30 177 0.79
31 14 0.06
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.40
Consensus pattern (30 bp):
TTTAGGGTTAAAATGTAATTTTGGAAAAGT
Found at i:52304458 original size:119 final size:119
Alignment explanation
Indices: 52304316--52304590 Score: 400
Period size: 119 Copynumber: 2.3 Consensus size: 119
52304306 TTTAGGGAAG
*
52304316 TTTAGGGGTAAAATGGTAATTTTGGAAAGGTTTT-GAGGTTAAAATGTAATTTTG-GAAAAGTTT
1 TTTA-GGGTAAAAT-GTAATTTTGGAAAAGTTTTAG-GGTTAAAATGTAATTTTGAG-AAAGTTT
*
52304379 TAGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTT-AAATGTAATTTTTAG-AAAGT
62 TAGGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAA-TTTTAGAAAAGT
*
52304436 TTTAGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTTAGAAAGTTTTAG
1 TTTAGGGT-AAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTGAGAAAGTTTTAG
52304501 GGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTAGAAAAGT
65 GGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTAGAAAAGT
* *
52304556 TTTGGGGTTAAAATGTAATTTTAGAAAA--TTTAGGG
1 TTTAGGG-TAAAATGTAATTTTGGAAAAGTTTTAGGG
52304591 GCTTACAAAG
Statistics
Matches: 144, Mismatches: 5, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
118 7 0.05
119 88 0.61
120 48 0.33
121 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.40
Consensus pattern (119 bp):
TTTAGGGTAAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTGAGAAAGTTTTAGG
GTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTAGAAAAGT
Found at i:52304604 original size:30 final size:30
Alignment explanation
Indices: 52304291--52304604 Score: 303
Period size: 30 Copynumber: 10.5 Consensus size: 30
52304281 TGGTGAAATC
** **
52304291 GGGGTTAAAATGGGA-TTTAGGGAAGTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
* * *
52304320 GGGG-TAAAATGGTAATTTTGGAAAGGTTTT
1 GGGGTTAAAAT-GTAATTTTAGAAAAGTTTA
* *
52304350 GAGGTTAAAATGTAATTTTGGAAAAGTTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAG-TTTA
*
52304381 -GGGTTAAAATGTAATTTTGGAAAAGTTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAG-TTTA
52304411 -GGGTT-AAATGTAATTTTTAG-AAAGTTTTA
1 GGGGTTAAAATGTAA-TTTTAGAAAAG-TTTA
* *
52304440 -GGGTCAAAATGTAATTTTGGAAAAGTTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAG-TTTA
52304470 -GGGTTAAAATGTAATTTTTAG-AAAGTTTTA
1 GGGGTTAAAATGTAA-TTTTAGAAAAG-TTTA
* *
52304500 -GGGTTAAAATATAATTTTGGAAAAGTTTTA
1 GGGGTTAAAATGTAATTTTAGAAAAG-TTTA
*
52304530 -GGGTTAAAATGTAATTTTAGAAAAGTTTT
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
52304559 GGGGTTAAAATGTAATTTTAGAAAA-TTTA
1 GGGGTTAAAATGTAATTTTAGAAAAGTTTA
52304588 GGGGCTTACAAA-GTAAT
1 GGGG-TTA-AAATGTAAT
52304605 AAAACCAAAA
Statistics
Matches: 251, Mismatches: 22, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
28 6 0.02
29 47 0.19
30 181 0.72
31 17 0.07
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTAGAAAAGTTTA
Found at i:52306443 original size:6 final size:6
Alignment explanation
Indices: 52306391--52306474 Score: 64
Period size: 6 Copynumber: 13.8 Consensus size: 6
52306381 TTTTTTAATG
* * ** * *
52306391 TTAAAT TTAATGT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
52306439 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAA
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
52306475 ATCAATTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
5 7 0.11
6 44 0.72
7 4 0.07
8 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTAAAT
Done.