Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 189 of 226
Found at i:56962535 original size:15 final size:15
Alignment explanation
Indices: 56962515--56962557 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
56962505 TATATATATA
56962515 TATTCCATTCCATAC
1 TATTCCATTCCATAC
56962530 TATTCCATGT-CATAC
1 TATTCCAT-TCCATAC
*
56962545 CATTCCATTCCAT
1 TATTCCATTCCAT
56962558 TTTATCAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.40
Consensus pattern (15 bp):
TATTCCATTCCATAC
Found at i:56963640 original size:51 final size:50
Alignment explanation
Indices: 56963456--56963905 Score: 388
Period size: 51 Copynumber: 8.9 Consensus size: 50
56963446 ACTATTATCA
* * * *
56963456 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATC-AATTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
56963505 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
56963555 TTACGGTTCACGTAGTAGCCTTCACATAGAACTACATACGTGACTAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * *
56963607 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
** * * *
56963657 TATCAATTCACGTAGTAGCCTTCACAAAGTACTACACGCGTGACCAAAGTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
** * * * * *
56963708 TCTCGGTACATATTGTAGCCTTCACTTAGTACTACGCATGTGACCATTA-TT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * * *
56963759 TACCGATTCACGTAGTAGCCTTTACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * ***
56963811 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCTTTCG-T
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAAGTT
* * * *
56963861 TCCAGTACACGTAGTAGCCTACACATAGTACTACACACGAGACCA
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
56963906 TCACTTTCAC
Statistics
Matches: 317, Mismatches: 74, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.01
50 125 0.39
51 181 0.57
52 9 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:56963691 original size:102 final size:101
Alignment explanation
Indices: 56963458--56963905 Score: 510
Period size: 102 Copynumber: 4.4 Consensus size: 101
56963448 TATTATCATT
* * * * * *
56963458 CGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATC-AA-TTTTTACGGTTCACGTAGT
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * * ***
56963521 AGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
56963558 CGGTTCACGTAGTAGCCTTCACATAGAACTACATACGTGACTAAAGCTTTTCGGTACACATAGTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
56963623 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
56963659 TCAATTCACGTAGTAGCCTTCACAAAGTACTACACGCGTGACCAAAG-TTTCTCGGTACATATTG
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGGTACACATAG
* *
56963723 TAGCCTTCACTTAGTACTACGCATGTGACCATTATTTA
64 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
56963761 CCGATTCACGTAGTAGCCTTTACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
56963826 AGCCTTCACTTAGTACTACACATGTGACCTTTC-GTT-
65 AGCCTTCACTTAGTACTACACATGTGACC-ATCATTTA
* * * *
56963862 CCAGTACACGTAGTAGCCTACACATAGTACTACACACGAGACCA
1 CGA-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
56963906 TCACTTTCAC
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
100 39 0.13
101 82 0.27
102 175 0.59
103 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:56968176 original size:13 final size:13
Alignment explanation
Indices: 56968158--56968185 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56968148 TTATGGTTAT
56968158 TATTATAAAAAAA
1 TATTATAAAAAAA
56968171 TATTATAAAAAAA
1 TATTATAAAAAAA
56968184 TA
1 TA
56968186 ATAAAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TATTATAAAAAAA
Found at i:56968585 original size:14 final size:14
Alignment explanation
Indices: 56968566--56968593 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56968556 AATTATATTT
56968566 ATATTTTGAATTAA
1 ATATTTTGAATTAA
56968580 ATATTTTGAATTAA
1 ATATTTTGAATTAA
56968594 GTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATTTTGAATTAA
Found at i:56970215 original size:27 final size:25
Alignment explanation
Indices: 56970163--56970215 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
56970153 TAATGTATTC
* *
56970163 AAATAATGAATTAATAATATTTTAA
1 AAATAATGAATGAATAATATTATAA
*
56970188 AAATAGATGAATGGAATTATATTATAA
1 AAATA-ATGAAT-GAATAATATTATAA
56970215 A
1 A
56970216 TTAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (25 bp):
AAATAATGAATGAATAATATTATAA
Found at i:56985934 original size:35 final size:35
Alignment explanation
Indices: 56985895--56985964 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
56985885 CAGCTAATGA
*
56985895 AATGCTTGGT-TACTTGCATGTTACAGCTGTGTTGC
1 AATGCTTGGTAT-CTTGCATGCTACAGCTGTGTTGC
* *
56985930 AATGCTTGGTATCTTGCATGCTGCTGCTGTGTTGC
1 AATGCTTGGTATCTTGCATGCTACAGCTGTGTTGC
56985965 CACCATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (35 bp):
AATGCTTGGTATCTTGCATGCTACAGCTGTGTTGC
Found at i:56987112 original size:21 final size:21
Alignment explanation
Indices: 56987086--56987141 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
56987076 AACAGCGGTG
*
56987086 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
56987107 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
56987128 GCGATGAGATTAGA
1 GCGGTGAGATTAGA
56987142 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:56989362 original size:15 final size:15
Alignment explanation
Indices: 56989342--56989384 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
56989332 TATATATATA
56989342 TATTCCATTCCATAC
1 TATTCCATTCCATAC
56989357 TATTCCATGT-CATAC
1 TATTCCAT-TCCATAC
*
56989372 CATTCCATTCCAT
1 TATTCCATTCCAT
56989385 TTTATCAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.40
Consensus pattern (15 bp):
TATTCCATTCCATAC
Found at i:56990466 original size:51 final size:50
Alignment explanation
Indices: 56990282--56990731 Score: 388
Period size: 51 Copynumber: 8.9 Consensus size: 50
56990272 ACTATTATCA
* * * *
56990282 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATC-AATTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
56990331 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
56990381 TTACGGTTCACGTAGTAGCCTTCACATAGAACTACATACGTGACTAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * *
56990433 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
** * * *
56990483 TATCAATTCACGTAGTAGCCTTCACAAAGTACTACACGCGTGACCAAAGTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
** * * * * *
56990534 TCTCGGTACATATTGTAGCCTTCACTTAGTACTACGCATGTGACCATTA-TT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * * *
56990585 TACCGATTCACGTAGTAGCCTTTACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * ***
56990637 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCTTTCG-T
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAAGTT
* * * *
56990687 TCCAGTACACGTAGTAGCCTACACATAGTACTACACACGAGACCA
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
56990732 TCACTTTCAC
Statistics
Matches: 317, Mismatches: 74, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.01
50 125 0.39
51 181 0.57
52 9 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:56990517 original size:102 final size:101
Alignment explanation
Indices: 56990284--56990731 Score: 510
Period size: 102 Copynumber: 4.4 Consensus size: 101
56990274 TATTATCATT
* * * * * *
56990284 CGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATC-AA-TTTTTACGGTTCACGTAGT
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * * ***
56990347 AGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
56990384 CGGTTCACGTAGTAGCCTTCACATAGAACTACATACGTGACTAAAGCTTTTCGGTACACATAGTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
56990449 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
56990485 TCAATTCACGTAGTAGCCTTCACAAAGTACTACACGCGTGACCAAAG-TTTCTCGGTACATATTG
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGGTACACATAG
* *
56990549 TAGCCTTCACTTAGTACTACGCATGTGACCATTATTTA
64 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
56990587 CCGATTCACGTAGTAGCCTTTACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
56990652 AGCCTTCACTTAGTACTACACATGTGACCTTTC-GTT-
65 AGCCTTCACTTAGTACTACACATGTGACC-ATCATTTA
* * * *
56990688 CCAGTACACGTAGTAGCCTACACATAGTACTACACACGAGACCA
1 CGA-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
56990732 TCACTTTCAC
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
100 39 0.13
101 82 0.27
102 175 0.59
103 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:56995009 original size:13 final size:12
Alignment explanation
Indices: 56994985--56995017 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56994975 TTATGGTTAT
56994985 TATTATAAAAAA
1 TATTATAAAAAA
56994997 TATTATAAAAAA
1 TATTATAAAAAA
*
56995009 -ATAATAAAA
1 TATTATAAAA
56995018 CATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TATTATAAAAAA
Found at i:56995411 original size:14 final size:14
Alignment explanation
Indices: 56995392--56995419 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56995382 AATTATATTT
56995392 ATATTTTGAATTAA
1 ATATTTTGAATTAA
56995406 ATATTTTGAATTAA
1 ATATTTTGAATTAA
56995420 GTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATTTTGAATTAA
Found at i:56997040 original size:27 final size:25
Alignment explanation
Indices: 56996988--56997040 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
56996978 TAATGTATTC
* *
56996988 AAATAATGAATTAATAATATTTTAA
1 AAATAATGAATGAATAATATTATAA
*
56997013 AAATAGATGAATGGAATTATATTATAA
1 AAATA-ATGAAT-GAATAATATTATAA
56997040 A
1 A
56997041 TTAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (25 bp):
AAATAATGAATGAATAATATTATAA
Found at i:57005752 original size:20 final size:20
Alignment explanation
Indices: 57005727--57005776 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
57005717 TGGCTTAAAA
57005727 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
57005747 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
57005764 GTGGTAGTGGATT
1 TTGGTAGTGGATT
57005777 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:57010391 original size:20 final size:20
Alignment explanation
Indices: 57010366--57010415 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
57010356 TGGCTTAAAA
57010366 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
57010386 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
57010403 GTGGTAGTGGATT
1 TTGGTAGTGGATT
57010416 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:57015004 original size:35 final size:35
Alignment explanation
Indices: 57014965--57015034 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
57014955 CAGCTAATGA
*
57014965 AATGCTTGGT-TACTTGCATGTTACAGCTGTGTTGC
1 AATGCTTGGTAT-CTTGCATGCTACAGCTGTGTTGC
* *
57015000 AATGCTTGGTATCTTGCATGCTGCTGCTGTGTTGC
1 AATGCTTGGTATCTTGCATGCTACAGCTGTGTTGC
57015035 CACCATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (35 bp):
AATGCTTGGTATCTTGCATGCTACAGCTGTGTTGC
Found at i:57016181 original size:21 final size:21
Alignment explanation
Indices: 57016155--57016210 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
57016145 AACAGCGGTG
*
57016155 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
57016176 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
57016197 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
57016211 AACAATTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:57018428 original size:15 final size:15
Alignment explanation
Indices: 57018408--57018450 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
57018398 TATATATATA
57018408 TATTCCATTCCATAC
1 TATTCCATTCCATAC
57018423 TATTCCATGT-CATAC
1 TATTCCAT-TCCATAC
*
57018438 CATTCCATTCCAT
1 TATTCCATTCCAT
57018451 TTTATCAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.40
Consensus pattern (15 bp):
TATTCCATTCCATAC
Found at i:57019533 original size:51 final size:50
Alignment explanation
Indices: 57019349--57019798 Score: 388
Period size: 51 Copynumber: 8.9 Consensus size: 50
57019339 ACTATTATCA
* * * *
57019349 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATC-AATTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
57019398 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
57019448 TTACGGTTCACGTAGTAGCCTTCACATAGAACTACATACGTGACTAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * *
57019500 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
** * * *
57019550 TATCAATTCACGTAGTAGCCTTCACAAAGTACTACACGCGTGACCAAAGTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
** * * * * *
57019601 TCTCGGTACATATTGTAGCCTTCACTTAGTACTACGCATGTGACCATTA-TT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* * * * *
57019652 TACCGATTCACGTAGTAGCCTTTACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * ***
57019704 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCTTTCG-T
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAAGTT
* * * *
57019754 TCCAGTACACGTAGTAGCCTACACATAGTACTACACACGAGACCA
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
57019799 TCACTTTCAC
Statistics
Matches: 317, Mismatches: 74, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.01
50 125 0.39
51 181 0.57
52 9 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:57019584 original size:102 final size:101
Alignment explanation
Indices: 57019351--57019798 Score: 510
Period size: 102 Copynumber: 4.4 Consensus size: 101
57019341 TATTATCATT
* * * * * *
57019351 CGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATC-AA-TTTTTACGGTTCACGTAGT
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * * ***
57019414 AGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
57019451 CGGTTCACGTAGTAGCCTTCACATAGAACTACATACGTGACTAAAGCTTTTCGGTACACATAGTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
57019516 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
57019552 TCAATTCACGTAGTAGCCTTCACAAAGTACTACACGCGTGACCAAAG-TTTCTCGGTACATATTG
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGGTACACATAG
* *
57019616 TAGCCTTCACTTAGTACTACGCATGTGACCATTATTTA
64 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
57019654 CCGATTCACGTAGTAGCCTTTACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
57019719 AGCCTTCACTTAGTACTACACATGTGACCTTTC-GTT-
65 AGCCTTCACTTAGTACTACACATGTGACC-ATCATTTA
* * * *
57019755 CCAGTACACGTAGTAGCCTACACATAGTACTACACACGAGACCA
1 CGA-TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
57019799 TCACTTTCAC
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
100 39 0.13
101 82 0.27
102 175 0.59
103 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:57024069 original size:13 final size:13
Alignment explanation
Indices: 57024051--57024078 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57024041 TTATGGTTAT
57024051 TATTATAAAAAAA
1 TATTATAAAAAAA
57024064 TATTATAAAAAAA
1 TATTATAAAAAAA
57024077 TA
1 TA
57024079 ATAAAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TATTATAAAAAAA
Found at i:57026101 original size:27 final size:25
Alignment explanation
Indices: 57026049--57026101 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
57026039 TAATGTATTC
* *
57026049 AAATAATGAATTAATAATATTTTAA
1 AAATAATGAATGAATAATATTATAA
*
57026074 AAATAGATGAATGGAATTATATTATAA
1 AAATA-ATGAAT-GAATAATATTATAA
57026101 A
1 A
57026102 TTAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (25 bp):
AAATAATGAATGAATAATATTATAA
Found at i:57030765 original size:13 final size:13
Alignment explanation
Indices: 57030749--57030814 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
57030739 TTTAAACTAA
57030749 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
57030762 ACTTCTCAAAAAC
1 ACTTTTCAAAAGC
*
57030775 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
57030788 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
57030801 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
57030814 A
1 A
57030815 ATAAATAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
12 4 0.09
13 38 0.83
14 4 0.09
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:57031715 original size:19 final size:19
Alignment explanation
Indices: 57031672--57031718 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
57031662 GAAATGTAAG
* *
57031672 CAATTAATTAACTTTGCAT
1 CAATTAATTAACTATACAT
*
57031691 CAATTAATTAACTATATAT
1 CAATTAATTAACTATACAT
*
57031710 CTATTAATT
1 CAATTAATT
57031719 TATTGTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (19 bp):
CAATTAATTAACTATACAT
Found at i:57049127 original size:15 final size:16
Alignment explanation
Indices: 57049093--57049129 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
57049083 AAACTCTTTA
57049093 AAAATT-ATAAATATT
1 AAAATTAATAAATATT
*
57049108 TAAATTAATAAATA-T
1 AAAATTAATAAATATT
57049123 AAAATTA
1 AAAATTA
57049130 CACTTTGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTAATAAATATT
Found at i:57052828 original size:14 final size:15
Alignment explanation
Indices: 57052803--57052831 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57052793 AATATACAGT
57052803 CAAAAGAAAAAAATA
1 CAAAAGAAAAAAATA
57052818 CAAAA-AAAAAAATA
1 CAAAAGAAAAAAATA
57052832 AGGGCGATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (15 bp):
CAAAAGAAAAAAATA
Found at i:57065219 original size:27 final size:25
Alignment explanation
Indices: 57065189--57065241 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
57065179 TAATATTTAA
* *
57065189 TTTATAATATAATTCCATTCATCTATT
1 TTTAAAATATAATT-AATTCAT-TATT
*
57065216 TTTAAAATATTATTAATTCATTATT
1 TTTAAAATATAATTAATTCATTATT
57065241 T
1 T
57065242 GAATACATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAAAATATAATTAATTCATTATT
Found at i:57066832 original size:14 final size:14
Alignment explanation
Indices: 57066813--57066840 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57066803 ATTTTAAAAC
57066813 TTAATTCAAAATAT
1 TTAATTCAAAATAT
57066827 TTAATTCAAAATAT
1 TTAATTCAAAATAT
57066841 AAATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTCAAAATAT
Found at i:57066902 original size:18 final size:19
Alignment explanation
Indices: 57066871--57066927 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 19
57066861 TTTTTTAATC
57066871 ATAAATAGTA-TTAACAAAA
1 ATAAATA-TATTTAACAAAA
*
57066890 AT-AATATATTTAACTAAATT
1 ATAAATATATTTAAC-AAA-A
57066910 ATAAATATATTTAA-AAAA
1 ATAAATATATTTAACAAAA
57066928 CACGTGGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.06
18 9 0.28
19 8 0.25
20 2 0.06
21 11 0.34
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAATATATTTAACAAAA
Found at i:57067239 original size:13 final size:13
Alignment explanation
Indices: 57067221--57067248 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57067211 TATGTTTTAT
57067221 TATTTTTTTATAA
1 TATTTTTTTATAA
57067234 TATTTTTTTATAA
1 TATTTTTTTATAA
57067247 TA
1 TA
57067249 ATAACCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTTTTATAA
Found at i:57071685 original size:102 final size:102
Alignment explanation
Indices: 57071501--57071948 Score: 512
Period size: 102 Copynumber: 4.4 Consensus size: 102
57071491 GTGAAAGTGA
* * * ** *
57071501 TGGTCTCGTGTGTAGTACTATGTGTAGGCTACTACGTGTA-CTGG-AACGAAAGGTCACATGTGT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATC-GGTAAATAATGGTCACATGTGT
57071564 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
65 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
* * *
57071602 TGGTCACGTGTGTAGTACTGTGTAAAGGCTACTACGTGAATCGGTAAATAATGGTCACATGCGTA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGGTAAATAATGGTCACATGTGTA
* *
57071667 GTACTAAGTGAAGGCTACAATATGTACCGAGAAACTT
66 GTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
* * * * *
57071704 TGGTCACGCGTGTAGTACTTTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGGTAAATAATGGTCACATGTGTA
* *
57071769 GTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTT
66 GTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
* * ** * * * *
57071806 TAGTCACGTATGTAGTTTTATGTGAAGGCTACTACGTGAA-CCGTAAA-ACTTGATCACGTGTGT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGGTAAATA-ATGGTCACATGTGT
* * * * **
57071869 AGTACTATGTGAAGGCTACTACGTGAACCGTA-AA-AAT
65 AGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTT
* * *
57071906 TGATCACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG
57071949 AATGATAATA
Statistics
Matches: 296, Mismatches: 46, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
100 36 0.12
101 82 0.28
102 178 0.60
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGGTAAATAATGGTCACATGTGTA
GTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
Found at i:57071878 original size:50 final size:50
Alignment explanation
Indices: 57071501--57071943 Score: 367
Period size: 51 Copynumber: 8.8 Consensus size: 50
57071491 GTGAAAGTGA
* * * * *
57071501 TGGTCTCGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAACGAA--
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAA--AACT
* * * * * * *
57071551 AGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-T
* * * *
57071602 TGGTCACGTGTGTAGTACTGTGTAAAGGCTACTACGTGAATCGGTAAATA-A
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCGTAAA-ACT
* * * * ** *
57071653 TGGTCACATGCGTAGTACTAAGTGAAGGCTACAATATGTACCG-AGAAACTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-T
* * ** ***
57071704 TGGTCACGCGTGTAGTACTTTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACT
* * * *
57071755 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-T
* * **
57071806 TAGTCACGTATGTAGTTTTATGTGAAGGCTACTACGTGAACCGTAAAACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT
* *
57071856 TGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAAT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT
* *
57071906 TGATCACGTATGTAGTACTATGTGAAGGCTACTACGTG
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
57071944 TATCGAATGA
Statistics
Matches: 307, Mismatches: 71, Indels: 30
0.75 0.17 0.07
Matches are distributed among these distances:
48 1 0.00
49 6 0.02
50 122 0.40
51 166 0.54
52 10 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT
Found at i:57072853 original size:15 final size:15
Alignment explanation
Indices: 57072828--57072870 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
57072818 GCTTGATAAA
*
57072828 ATGGAATGGAATGGT
1 ATGGAATGGAATAGT
57072843 AT-GACATGGAATAGT
1 ATGGA-ATGGAATAGT
57072858 ATGGAATGGAATA
1 ATGGAATGGAATA
57072871 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.26
Consensus pattern (15 bp):
ATGGAATGGAATAGT
Found at i:57075096 original size:21 final size:21
Alignment explanation
Indices: 57075070--57075122 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
57075060 CATTGTTTCT
*
57075070 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
57075091 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
57075112 AATCTCACCGC
1 AATCTCACCGC
57075123 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:57076298 original size:35 final size:35
Alignment explanation
Indices: 57076244--57076313 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
57076234 TTAAATGGTG
*
57076244 GCAACACAGCAGCAGCATGCAAG-ATACCAAGCATT
1 GCAACACAGCAGCAACATGCAAGTA-ACCAAGCATT
* *
57076279 GCAACACAGCTGTAACATGCAAGTAACCAAGCATT
1 GCAACACAGCAGCAACATGCAAGTAACCAAGCATT
57076314 TCATTAGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (35 bp):
GCAACACAGCAGCAACATGCAAGTAACCAAGCATT
Found at i:57088372 original size:14 final size:15
Alignment explanation
Indices: 57088347--57088375 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57088337 AAAAATACAT
57088347 CAAAAGAAAAAAATA
1 CAAAAGAAAAAAATA
57088362 CAAAA-AAAAAAATA
1 CAAAAGAAAAAAATA
57088376 TAGGGCGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (15 bp):
CAAAAGAAAAAAATA
Found at i:57090178 original size:27 final size:25
Alignment explanation
Indices: 57090148--57090200 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
57090138 TAATATTTAA
* *
57090148 TTTATAATATAATTCCATTCATCTATT
1 TTTAAAATATAATT-AATTCAT-TATT
*
57090175 TTTAAAATATTATTAATTCATTATT
1 TTTAAAATATAATTAATTCATTATT
57090200 T
1 T
57090201 GAATACATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAAAATATAATTAATTCATTATT
Found at i:57091791 original size:14 final size:14
Alignment explanation
Indices: 57091772--57091799 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57091762 ATTTTAAAAC
57091772 TTAATTCAAAATAT
1 TTAATTCAAAATAT
57091786 TTAATTCAAAATAT
1 TTAATTCAAAATAT
57091800 AAATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTCAAAATAT
Found at i:57091861 original size:18 final size:19
Alignment explanation
Indices: 57091830--57091886 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 19
57091820 TTTTTTAATC
57091830 ATAAATAGTA-TTAACAAAA
1 ATAAATA-TATTTAACAAAA
*
57091849 AT-AATATATTTAACTAAATT
1 ATAAATATATTTAAC-AAA-A
57091869 ATAAATATATTTAA-AAAA
1 ATAAATATATTTAACAAAA
57091887 CACGTGGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.06
18 9 0.28
19 8 0.25
20 2 0.06
21 11 0.34
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAATATATTTAACAAAA
Found at i:57092200 original size:12 final size:12
Alignment explanation
Indices: 57092174--57092206 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57092164 ATTTTTTATG
*
57092174 TTTTATTAT-TT
1 TTTTATAATATT
57092185 TTTTATAATATT
1 TTTTATAATATT
57092197 TTTTATAATA
1 TTTTATAATA
57092207 ATAACCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATAATATT
Found at i:57094094 original size:36 final size:39
Alignment explanation
Indices: 57094053--57094130 Score: 135
Period size: 36 Copynumber: 2.1 Consensus size: 39
57094043 ATTAAATAAA
57094053 TTTAACTAAAATTCAAGTTAAA-AA-AT-AAATATATAT
1 TTTAACTAAAATTCAAGTTAAACAACATAAAATATATAT
57094089 TTTAACTAAAATTCAAGTTAAACAACATAAAATATATAT
1 TTTAACTAAAATTCAAGTTAAACAACATAAAATATATAT
57094128 TTT
1 TTT
57094131 TACTTTATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 22 0.56
37 2 0.05
38 2 0.05
39 13 0.33
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (39 bp):
TTTAACTAAAATTCAAGTTAAACAACATAAAATATATAT
Found at i:57105728 original size:24 final size:24
Alignment explanation
Indices: 57105701--57105763 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
57105691 CAGCTCGAAA
*
57105701 GAGCATCTCGTTATTAGCTCTCAT
1 GAGCATCTCGTTATTAGCTCTCAC
* *
57105725 GAGCATCTCGGTATTTGGCTCTCAC
1 GAGCATCTCGTTA-TTAGCTCTCAC
* *
57105750 GAGCTTCCCGTTAT
1 GAGCATCTCGTTAT
57105764 ATGCTTCTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
GAGCATCTCGTTATTAGCTCTCAC
Found at i:57105983 original size:24 final size:25
Alignment explanation
Indices: 57105929--57106034 Score: 80
Period size: 25 Copynumber: 4.3 Consensus size: 25
57105919 TAGCTCTCCG
*
57105929 GAGCTTCCCGA-TATTGGGTCACT-T
1 GAGCTTCCCGATTA-TGGCTCACTAT
*
57105953 GAACTTCCCGATTATGGCTC-CTAT
1 GAGCTTCCCGATTATGGCTCACTAT
* * *
57105977 GAGCTTCCCGTTATATAGCTCA-AAT
1 GAGCTTCCCGAT-TATGGCTCACTAT
*
57106002 GAGCTTCCTG-TTACATGGCTCAC-AT
1 GAGCTTCCCGATT--ATGGCTCACTAT
57106027 GAGCTTCC
1 GAGCTTCC
57106035 AGTTATATGG
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.04
24 27 0.40
25 37 0.55
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATTATGGCTCACTAT
Found at i:57106044 original size:25 final size:25
Alignment explanation
Indices: 57105965--57106046 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
57105955 ACTTCCCGAT
*
57105965 TATGGCTC-CTATGAGCTTCCCGTTA
1 TATGGCTCAC-ATGAGCTTCCAGTTA
* * *
57105990 TATAGCTCAAATGAGCTTCCTGTTA
1 TATGGCTCACATGAGCTTCCAGTTA
*
57106015 CATGGCTCACATGAGCTTCCAGTTA
1 TATGGCTCACATGAGCTTCCAGTTA
57106040 TATGGCT
1 TATGGCT
57106047 TGAGAGAGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
TATGGCTCACATGAGCTTCCAGTTA
Found at i:57107279 original size:16 final size:16
Alignment explanation
Indices: 57107258--57107293 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
57107248 TTTGGTTCGC
57107258 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57107274 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
57107290 TGTA
1 TGTA
57107294 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:57107700 original size:104 final size:105
Alignment explanation
Indices: 57107515--57107874 Score: 520
Period size: 104 Copynumber: 3.4 Consensus size: 105
57107505 ATCATATTTA
*
57107515 AACATAATT-TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTATATTAAT
1 AACATAATTATTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTATTAAT
57107579 TTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TTACTCAAATCATAATATATGATACTGTAAAATATAAATT
57107619 AACATAATTATT-ATT-AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTTATTAA
1 AACATAATTATTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTC-TTTATTAA
57107682 TTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 TTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
57107723 AACATAATTATTATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAT
1 AACAT-A--ATTA-T---TA-A--T--T-AAAATATATAATTTAATAAAATTCTTAATAATTAAT
57107788 ATTCTTTATTAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATT
53 ATTCTTTATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
57107840 AACATAATTATT-ATT-AAATATAT--TTTAATTAAAAT
1 AACATAATTATTAATTAAAATATATAATTTAA-TAAAAT
57107875 ATATAATTTA
Statistics
Matches: 237, Mismatches: 1, Indels: 39
0.86 0.00 0.14
Matches are distributed among these distances:
100 5 0.02
101 6 0.03
102 8 0.03
103 39 0.16
104 66 0.28
105 3 0.01
106 1 0.00
107 4 0.02
108 2 0.01
110 1 0.00
111 1 0.00
113 2 0.01
114 4 0.02
115 1 0.00
116 1 0.00
117 17 0.07
118 37 0.16
119 39 0.16
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (105 bp):
AACATAATTATTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTATTAAT
TTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:57107760 original size:17 final size:17
Alignment explanation
Indices: 57107740--57107773 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
57107730 TTATTATTAA
57107740 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57107757 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57107774 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57107878 original size:18 final size:17
Alignment explanation
Indices: 57107857--57107891 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57107847 TTATTATTAA
*
57107857 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57107875 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57107892 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57108006 original size:17 final size:17
Alignment explanation
Indices: 57107975--57108008 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
57107965 ATTATATTAA
57107975 ATATATTTAATTAAAAT
1 ATATATTTAATTAAAAT
57107992 ATATAATTTAA-TAAAAT
1 ATAT-ATTTAATTAAAAT
57108009 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTAATTAAAAT
Found at i:57108047 original size:235 final size:237
Alignment explanation
Indices: 57107634--57108061 Score: 756
Period size: 235 Copynumber: 1.8 Consensus size: 237
57107624 AATTATTATT
**** *
57107634 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTTATTAATTTACTCAAATCATAAT
1 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCACAAAGTAATTTACTCAAATCATAAT
57107699 ATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTAATTAAAATATATAAT
66 ATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTAATTAAAATATATAAT
57107764 TTAATAAAATTCTTAATAATTAATATTCTTTATTAATTTACTCAAATCATAATATATGATACTGT
131 TTAATAAAATTCTTAATAATTAATATTCTTTATTAATTTACTCAAATCATAATATATGATACTGT
57107829 AAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
196 AAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
57107871 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCAACAAAGTAATTTACTCAAATCAT-A
1 AAATATATAATTTAATAAAATTCTTAATAATTAATATTC-ACAAAGTAATTTACTCAAATCATAA
57107935 TATATGATACTGT-AAATATAAATTAACATAATTA-TATTAAATATATTTAATTAAAATATATAA
65 TATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTAATTAAAATATATAA
*
57107998 TTTAATAAAATTCTTAATAATTCATATTC-TTATATAATTTACTCAAATCATAATATATGATACT
130 TTTAATAAAATTCTTAATAATTAATATTCTTTAT-TAATTTACTCAAATCATAATATATGATACT
57108062 ATAATTAATA
Statistics
Matches: 183, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
234 4 0.02
235 87 0.48
236 21 0.11
237 53 0.29
238 18 0.10
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (237 bp):
AAATATATAATTTAATAAAATTCTTAATAATTAATATTCACAAAGTAATTTACTCAAATCATAAT
ATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTAATTAAAATATATAAT
TTAATAAAATTCTTAATAATTAATATTCTTTATTAATTTACTCAAATCATAATATATGATACTGT
AAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
Found at i:57108072 original size:119 final size:118
Alignment explanation
Indices: 57107634--57108061 Score: 747
Period size: 118 Copynumber: 3.6 Consensus size: 118
57107624 AATTATTATT
*
57107634 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTTATTAATTTACTCAAATCATAAT
1 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAAT
57107699 ATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTAATTA
66 ATATGATACTGT-AAATATAAATTAACATAATTATTATTAAATATATTTAATTA
57107753 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT-TATTAATTTACTCAAATCATAAT
1 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAAT
57107817 ATATGATACTGTAAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
66 ATATGATACTGTAAATATAAATTAACATAATTATTATTAAATATA-TTTAATTA
** * *
57107871 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCAACAAAGTAATTTACTCAAATCAT-A
1 AAATATATAATTTAATAAAATTCTTAATAATTAATATTC-TTATATTAATTTACTCAAATCATAA
57107935 TATATGATACTGTAAATATAAATTAACATAATTA-TATTAAATATATTTAATTA
65 TATATGATACTGTAAATATAAATTAACATAATTATTATTAAATATATTTAATTA
*
57107988 AAATATATAATTTAATAAAATTCTTAATAATTCATATTCTTATA-TAATTTACTCAAATCATAAT
1 AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAAT
57108052 ATATGATACT
66 ATATGATACT
57108062 ATAATTAATA
Statistics
Matches: 297, Mismatches: 8, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
115 17 0.06
116 14 0.05
117 79 0.27
118 93 0.31
119 76 0.26
120 18 0.06
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (118 bp):
AAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAAT
ATATGATACTGTAAATATAAATTAACATAATTATTATTAAATATATTTAATTA
Found at i:57111265 original size:51 final size:51
Alignment explanation
Indices: 57111189--57111291 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
57111179 CTAAAATTAC
*
57111189 TTGTTGGTTTAATTTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
57111240 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
57111291 T
1 T
57111292 CTTTTAATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.47
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:57125158 original size:30 final size:30
Alignment explanation
Indices: 57125108--57125231 Score: 178
Period size: 30 Copynumber: 4.1 Consensus size: 30
57125098 TCCATATTTA
* *
57125108 TGGAAAATCAAATG-TATGGGTATCAAATAA
1 TGGAAAGTCAAA-GATATGGGTATCAAATAT
* *
57125138 TAGAAAGTTAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
57125168 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57125198 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
57125229 TGG
1 TGG
57125232 CATAATAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
29 1 0.01
30 76 0.89
31 8 0.09
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:57125193 original size:15 final size:15
Alignment explanation
Indices: 57125147--57125221 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
57125137 ATAGAAAGTT
57125147 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
57125162 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
57125177 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
57125192 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
57125207 AAAGATATGGGTATC
1 AAAGATATGGGTATC
57125222 GAGATATTGG
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.27
Consensus pattern (15 bp):
AAAGATATGGGTATC
Found at i:57129824 original size:15 final size:15
Alignment explanation
Indices: 57129804--57129911 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
57129794 TTTATGGAAA
57129804 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
57129819 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
57129833 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
57129849 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
57129863 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
57129879 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
57129893 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
57129909 ATC
1 ATC
57129912 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:57129841 original size:30 final size:30
Alignment explanation
Indices: 57129798--57129921 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
57129788 TCCATATTTA
* *
57129798 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57129828 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
57129858 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57129888 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
57129919 TGG
1 TGG
57129922 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:57146932 original size:36 final size:36
Alignment explanation
Indices: 57146877--57146948 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
57146867 CATAAAAGGT
* *
57146877 AACGAAAAATGGTCCTTCCGAGTGGCTTTCTTCAGC
1 AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
57146913 AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
1 AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
57146949 TTTCTGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (36 bp):
AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
Found at i:57153894 original size:39 final size:39
Alignment explanation
Indices: 57153842--57154012 Score: 211
Period size: 39 Copynumber: 4.3 Consensus size: 39
57153832 GGACTAAGAT
57153842 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
57153881 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
57153921 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
57153961 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
57154000 CCGAAGGCATTTG
1 CCGAAGGCATTTG
57154013 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 65 0.56
40 51 0.44
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:57153925 original size:79 final size:79
Alignment explanation
Indices: 57153789--57154012 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 79
57153779 TTGAATGCTG
* * * * * * *
57153789 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
57153852 TTGTGCGAGATA-CAAA
63 TTGTGCGAGATATCAAA
* * *
57153868 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* * *
57153932 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * *
57153948 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
57154013 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 90 0.73
80 31 0.25
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:57154030 original size:79 final size:80
Alignment explanation
Indices: 57153869--57154045 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
57153859 AGATACAAAT
* * *
57153869 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
57153933 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
57153948 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
57154012 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
57154027 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57154046 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:57161795 original size:39 final size:39
Alignment explanation
Indices: 57161743--57161913 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
57161733 GGACTAAGAT
57161743 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
57161782 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * * *
57161822 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
57161862 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
57161901 CCGAAGGCATTTG
1 CCGAAGGCATTTG
57161914 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
39 66 0.57
40 50 0.43
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:57161826 original size:79 final size:79
Alignment explanation
Indices: 57161690--57161913 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 79
57161680 TTGAATGCTG
* * * * * * *
57161690 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
57161753 TTGTGCGAGATA-CAAA
63 TTGTGCGAGATATCAAA
* * *
57161769 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* * *
57161833 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * *
57161849 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
57161914 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 89 0.73
80 31 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:57161931 original size:79 final size:80
Alignment explanation
Indices: 57161770--57161946 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
57161760 AGATACAAAT
* * *
57161770 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
57161834 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
57161849 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
57161913 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
57161928 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57161947 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 15 0.19
79 58 0.72
80 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:57165335 original size:101 final size:100
Alignment explanation
Indices: 57165160--57165342 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 100
57165150 GATCCCGTAT
** * * *
57165160 AAGACCATAACTGGGTTATGACACTCTGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTATA
1 AAGACCATAACCAGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATA
57165225 TATAAGACCATAGCTGGGTTATGCCATTCTGATGAG
66 TATAAGACCATAG-TGGGTTATGCCATTCTGATGAG
** *
57165261 AAGACCATAACCAGGTTATGGTACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATG
1 AAGACCATAACCAGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATA
*
57165326 TGTAAGACCATAGTGGG
66 TATAAGACCATAGTGGG
57165343 ACTATTGGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 4 0.05
101 69 0.95
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (100 bp):
AAGACCATAACCAGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATA
TATAAGACCATAGTGGGTTATGCCATTCTGATGAG
Found at i:57165391 original size:43 final size:42
Alignment explanation
Indices: 57165325--57165466 Score: 185
Period size: 43 Copynumber: 3.3 Consensus size: 42
57165315 CAGAGTTTAT
*
57165325 GTGTAAGACCATAGTGGGACTATTGGCATCGATTTGAGATTTC
1 GTGTAAGACCATAGTGGG-CTATTGGCATCGATATGAGATTTC
* *
57165368 GTGTAAGACCATAGCTGGGCTATTGACATCGATATGAGATTTT
1 GTGTAAGACCATAG-TGGGCTATTGGCATCGATATGAGATTTC
* **
57165411 GTGTAAGACCATAGATGGGCTAGTGGCATCGATACAAGATTTCC
1 GTGTAAGACCATAG-TGGGCTATTGGCATCGATATGAGATTT-C
*
57165455 ATGTAAGACCAT
1 GTGTAAGACCAT
57165467 GAATGGGACA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 72 0.83
44 15 0.17
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGTGGGCTATTGGCATCGATATGAGATTTC
Found at i:57167941 original size:20 final size:20
Alignment explanation
Indices: 57167918--57167960 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57167908 AACTATTTAA
** *
57167918 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
57167938 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
57167958 ATA
1 ATA
57167961 TTCTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:57175615 original size:43 final size:43
Alignment explanation
Indices: 57175568--57175691 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
57175558 GTAATCTTGC
* *
57175568 ATCGATGCCAATAGCCCAGCCATGGTGTTACACGAAATCACAT
1 ATCGATGCCAATAGCCCAGACATGGTCTTACACGAAATCACAT
* *
57175611 ATCGATGCCAAT-GTCCCAGACATGGTCTTACACGAAGTCTCAT
1 ATCGATGCCAATAG-CCCAGACATGGTCTTACACGAAATCACAT
* * * *
57175654 ATCGATG-CAATATCCCAGATATGGCCTTACACGTAATC
1 ATCGATGCCAATAGCCCAGACATGGTCTTACACGAAATC
57175692 TCGGTAACCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.37
43 44 0.63
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATAGCCCAGACATGGTCTTACACGAAATCACAT
Found at i:57181882 original size:43 final size:43
Alignment explanation
Indices: 57181834--57181981 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 43
57181824 TATCCCAGGT
* * * *
57181834 ATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCTAGCC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCCAGAC
* * *
57181877 ATGGTCCTACACGAAATCACATATCGATGCCAAT-GTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATAG-CCCAGAC
* * * * * *
57181920 ATGGCCTTACATG-AAGTATCATATCAATGCC-ATATCCCAGAT
1 ATGGTCTTACACGTAA-TCTCATATCGATGCCAATAGCCCAGAC
57181962 ATGGTCTTACACGTAATCTC
1 ATGGTCTTACACGTAATCTC
57181982 GGTAACCCTA
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
42 25 0.30
43 58 0.70
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCCAGAC
Found at i:57187116 original size:22 final size:23
Alignment explanation
Indices: 57187086--57187128 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
57187076 AGTTTTCTAA
*
57187086 ATAATATTTTAATTTTAATTATC
1 ATAATATTTTAATGTTAATTATC
*
57187109 ATAA-ATTTTTATGTTAATTA
1 ATAATATTTTAATGTTAATTA
57187129 ATTAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATAATATTTTAATGTTAATTATC
Found at i:57190144 original size:11 final size:11
Alignment explanation
Indices: 57190128--57190158 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
57190118 ATACCCATAC
57190128 CCCATACCTTG
1 CCCATACCTTG
*
57190139 CCCATACCTTT
1 CCCATACCTTG
57190150 CCCATACCT
1 CCCATACCT
57190159 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:57190731 original size:18 final size:18
Alignment explanation
Indices: 57190704--57190760 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
57190694 TACGACCGTT
57190704 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
57190722 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
57190740 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
57190758 TAC
1 TAC
57190761 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:57194820 original size:11 final size:11
Alignment explanation
Indices: 57194804--57194834 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
57194794 ATACCCATAC
57194804 CCCATACCTTG
1 CCCATACCTTG
*
57194815 CCCATACCTTT
1 CCCATACCTTG
57194826 CCCATACCT
1 CCCATACCT
57194835 ACCATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:57200013 original size:29 final size:29
Alignment explanation
Indices: 57199981--57200038 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
57199971 CAAAGGAGAA
57199981 AGAAAAATTCTAAAAAGGTGGTCTTTTTT
1 AGAAAAATTCTAAAAAGGTGGTCTTTTTT
*
57200010 AGAAAAATTCTAAAAAGGTGGTTTTTTTT
1 AGAAAAATTCTAAAAAGGTGGTCTTTTTT
57200039 TCTTACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (29 bp):
AGAAAAATTCTAAAAAGGTGGTCTTTTTT
Found at i:57217323 original size:14 final size:13
Alignment explanation
Indices: 57217257--57217323 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
57217247 TTTATTAATA
57217257 ATTTAT-TATATT
1 ATTTATATATATT
*
57217269 ATTCATCATATATT
1 ATTTAT-ATATATT
*
57217283 ACTATTTTATA-ATT
1 A-T-TTATATATATT
57217297 ATTTATAT-T-TT
1 ATTTATATATATT
57217308 ATTTACTATATATT
1 ATTTA-TATATATT
57217322 AT
1 AT
57217324 GAATATGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 7 0.16
12 13 0.30
13 2 0.05
14 15 0.35
15 4 0.09
16 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:57218664 original size:46 final size:46
Alignment explanation
Indices: 57218611--57218786 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
57218601 TTGTTGAGCA
*
57218611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
57218657 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
57218704 TCCGGACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
57218750 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57218787 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:57218767 original size:93 final size:93
Alignment explanation
Indices: 57218608--57218779 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
57218598 GGATTGTTGA
* * *
57218608 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
57218673 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
57218701 GCATCCGGACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
57218766 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57218780 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:57234366 original size:20 final size:20
Alignment explanation
Indices: 57234306--57234368 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
57234296 TCCTGGAGCT
57234306 ATTAAGCACATTAAACATGA
1 ATTAAGCACATTAAACATGA
** *
57234326 ATT-AGTTCA-TAATA-TTGA
1 ATTAAGCACATTAA-ACATGA
57234344 ATTAAGCACATTAAACATGA
1 ATTAAGCACATTAAACATGA
57234364 ATTAA
1 ATTAA
57234369 TAACTGGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.27
19 10 0.30
20 14 0.42
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (20 bp):
ATTAAGCACATTAAACATGA
Found at i:57239520 original size:3 final size:3
Alignment explanation
Indices: 57239514--57239541 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
57239504 ATATATATAT
57239514 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
57239542 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57244362 original size:14 final size:14
Alignment explanation
Indices: 57244343--57244372 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57244333 AGTGAGAGAG
*
57244343 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
57244357 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
57244371 GA
1 GA
57244373 ATAAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:57244916 original size:20 final size:22
Alignment explanation
Indices: 57244891--57244938 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
57244881 CGAATCAGTC
57244891 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
57244911 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
57244933 AAAAAT
1 AAAAAT
57244939 TAACATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:57244975 original size:19 final size:19
Alignment explanation
Indices: 57244953--57244994 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
57244943 ATGTTAAAGT
* *
57244953 TTTTAATACAATTTAATTA
1 TTTTAATAAAAATTAATTA
57244972 TTTT-ATAAAAATTAATTA
1 TTTTAATAAAAATTAATTA
57244990 TTTTA
1 TTTTA
57244995 TGACAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATAAAAATTAATTA
Found at i:57250177 original size:30 final size:30
Alignment explanation
Indices: 57250136--57250460 Score: 416
Period size: 30 Copynumber: 10.8 Consensus size: 30
57250126 ATGTATACAT
*
57250136 ATACAAATCAATTCGGTAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
57250166 ATACGAATCAATTCGGCAATGTATATCCAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
57250196 ATACAAATCAATTCAGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
57250226 ATACAAATCAATTAGGTAATGTATATCTAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * * *
57250256 TTACAAATCAATTCAGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
*
57250286 ATACAAATAAATTCGGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* **
57250316 ATACGAATCAATTCAACAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
57250346 ATACGAATCAATTCGGTAATGTATATTCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
57250376 ATACAAATCAATTCGGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
57250406 ATACAAATCAATTTGACAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
**
57250436 ATATGAATCAATTCGGCAATGTATA
1 ATACAAATCAATTCGGCAATGTATA
57250461 AAACATATAC
Statistics
Matches: 254, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 254 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (30 bp):
ATACAAATCAATTCGGCAATGTATATCCAA
Found at i:57250244 original size:90 final size:90
Alignment explanation
Indices: 57250126--57250460 Score: 460
Period size: 90 Copynumber: 3.7 Consensus size: 90
57250116 ATCAATATAT
* **
57250126 ATGTATA-C-ATATACAAATCAATTCGGTAATGTATATCCAAATACGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
*
57250189 TATCCATATACAAATCAATTCAGCA
66 TATCCATATACAAATCAATTCGGCA
** * * * *
57250214 ATGTATATCTATATACAAATCAATTAGGTAATGTATATCTAATTACAAATCAATTCAGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
* *
57250279 TATCTATATACAAATAAATTCGGCA
66 TATCCATATACAAATCAATTCGGCA
* * * *
57250304 ATGTATATCCAAATACGAATCAATTCA-ACAATGTATATCCAAATACGAATCAATTCGGTAATGT
1 ATGTATATCTATATACAAATCAATT-AGACAATGTATATCCAAATACGAATCAATTCGGCAATGT
* *
57250368 ATATTCAAATACAAATCAATTCGGCA
65 ATATCCATATACAAATCAATTCGGCA
* *
57250394 ATGTATATCTATATACAAATCAATTTGACAATGTATATCCAAATATGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
57250459 TA
66 TA
57250461 AAACATATAC
Statistics
Matches: 215, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
88 7 0.03
89 1 0.00
90 206 0.96
91 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (90 bp):
ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
TATCCATATACAAATCAATTCGGCA
Found at i:57253126 original size:27 final size:29
Alignment explanation
Indices: 57253077--57253135 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 29
57253067 ATAGCAGTGA
57253077 ATGAATGATCAAACTATGGTGGAGCAAATGG
1 ATGAATGATCAAACTA--GTGGAGCAAATGG
57253108 ATGAATGATC-AACTA-TGGAGCAAATGG
1 ATGAATGATCAAACTAGTGGAGCAAATGG
57253135 A
1 A
57253136 GTTTCAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 13 0.46
30 5 0.18
31 10 0.36
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (29 bp):
ATGAATGATCAAACTAGTGGAGCAAATGG
Found at i:57278210 original size:44 final size:42
Alignment explanation
Indices: 57278145--57278465 Score: 192
Period size: 44 Copynumber: 7.5 Consensus size: 42
57278135 AGAATTGCAG
* *
57278145 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAGTA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAA-ACAG-A
* * *
57278189 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT--AA-AGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAGA
* * * * *
57278228 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAG-
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAGA
* * * **
57278269 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAAATTTCAG-
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTGAAA---CAGA
* * **
57278314 A-CTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA-AACAGA
* **
57278356 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACT
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAA-ACAGA
* * * * * *
57278399 ATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAA-ACAGA
* *
57278443 ATCTTATCTCTCTGAGGTTACAG
1 ATCTTATCTCCCTGAAGTTACAG
57278466 CAGAGTAGAT
Statistics
Matches: 216, Mismatches: 44, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
39 29 0.13
40 4 0.02
41 29 0.13
42 7 0.03
43 62 0.29
44 79 0.37
45 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAGA
Found at i:57278407 original size:43 final size:43
Alignment explanation
Indices: 57278317--57278432 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
57278307 ATTTCAGACT
* * * * * * *
57278317 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGAATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACAATCC
*
57278360 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACAATCC
*
57278403 TATCTCCCTGA-AGTTACAGCGGAGCGGATT
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATT
57278433 AAAATAAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (43 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACAATCC
Found at i:57279911 original size:3 final size:3
Alignment explanation
Indices: 57279903--57279940 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
57279893 CTTAATAAAT
* *
57279903 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57279941 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:57283446 original size:20 final size:22
Alignment explanation
Indices: 57283404--57283447 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
57283394 AGTTATGATT
57283404 AATTAAATAAAACTAATGTAAAAA
1 AATTAAATAAAACTAA--TAAAAA
57283428 AATTAAATAAAACTAA-AAAA
1 AATTAAATAAAACTAATAAAA
57283448 GATTATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
24 16 0.80
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (22 bp):
AATTAAATAAAACTAATAAAAA
Found at i:57285744 original size:3 final size:3
Alignment explanation
Indices: 57285738--57285779 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
57285728 CTACTACTAG
57285738 TAT TAT 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 TAT TAT
57285780 CTTAACCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:57293830 original size:52 final size:52
Alignment explanation
Indices: 57293764--57294055 Score: 201
Period size: 52 Copynumber: 5.5 Consensus size: 52
57293754 TTGATAAAGG
** **
57293764 GGGTGTTAACCATTAGTGTTCCAGTACCCCAAATTTTTTTAATCTGGAAAAA
1 GGGTGTTGGCCATTAGTGTTCCAACACCCCAAATTTTTTTAATCTGGAAAAA
* * * * **
57293816 GGGTGTTGGTCATTAATGTCCCAACACCCAAAATTTTTTTAATCTTAAAAAA
1 GGGTGTTGGCCATTAGTGTTCCAACACCCCAAATTTTTTTAATCTGGAAAAA
**** * * **
57293868 GGGTGCCAACCATCAGTGTTCCAACACCCCAAAACTTTTTTTAGTCTATAAAAA
1 GGGTGTTGGCCATTAGTGTTCCAACACCCC-AAA-TTTTTTTAATCTGGAAAAA
* * * * * *
57293922 TGGTGTTGGCCATTAGTGTTCTAATACCTCAATTTTTTTTAATTTGGAAAAA
1 GGGTGTTGGCCATTAGTGTTCCAACACCCCAAATTTTTTTAATCTGGAAAAA
*** * * * * ** *
57293974 GGGTGCCAGCCATCAATGTTCTAGCACCCCAAAATTTCTTAAAAT-TCGAAAAAA
1 GGGTGTTGGCCATTAGTGTTCCAACACCCC-AAATTT-TTTTAATCT-GGAAAAA
*
57294028 AGGTGTTGGCCATTAGTG-TCTCAACACC
1 GGGTGTTGGCCATTAGTGTTC-CAACACC
57294056 TAAATTTATT
Statistics
Matches: 177, Mismatches: 57, Indels: 10
0.73 0.23 0.04
Matches are distributed among these distances:
52 99 0.56
53 13 0.07
54 65 0.37
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (52 bp):
GGGTGTTGGCCATTAGTGTTCCAACACCCCAAATTTTTTTAATCTGGAAAAA
Found at i:57293962 original size:106 final size:103
Alignment explanation
Indices: 57293771--57294101 Score: 317
Period size: 106 Copynumber: 3.1 Consensus size: 103
57293761 AGGGGGTGTT
* * * * * *
57293771 AACCATTAGTGTTCCAGTACCCC-AAATTTTTTTAATCTGGAAAAAGGGTGTTGGTCATTAATGT
1 AACCATCAGTGTTCCAGCACCCCAAAATTTTTTTAATCT-AAAAAAAGGTGTTGGCCATTAGTGT
* * *
57293835 CCCAACACC-CAAAATTTTTTTAATCTTAAAAAAGGGTGCC
65 TCTAACACCTC-AATTTTTTTTAAT-TTAAAAAAGGGTGCC
* * *
57293875 AACCATCAGTGTTCCAACACCCCAAAACTTTTTTTAGTCTATAAAAATGGTGTTGGCCATTAGTG
1 AACCATCAGTGTTCCAGCACCCCAAAA-TTTTTTTAATCTA-AAAAAAGGTGTTGGCCATTAGTG
* *
57293940 TTCTAATACCTCAATTTTTTTTAATTTGGAAAAAGGGTGCC
64 TTCTAACACCTCAATTTTTTTTAATTT-AAAAAAGGGTGCC
* * * ** *
57293981 AGCCATCAATGTTCTAGCACCCCAAAATTTCTTAAAATTCGAAAAAAAGGTGTTGGCCATTAGTG
1 AACCATCAGTGTTCCAGCACCCCAAAATTT-TTTTAA-TCTAAAAAAAGGTGTTGGCCATTAGTG
* *
57294046 -TCTCAACACCTAAATTTATTTTTTATTTTAGAAAAAGGGATGCC
64 TTCT-AACACCTCAA-TT-TTTTTTAATTTA-AAAAAGGG-TGCC
*
57294090 AACCATTAGTGT
1 AACCATCAGTGT
57294102 CATGACAACC
Statistics
Matches: 186, Mismatches: 29, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
104 20 0.11
105 11 0.06
106 118 0.63
107 6 0.03
108 18 0.10
109 13 0.07
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (103 bp):
AACCATCAGTGTTCCAGCACCCCAAAATTTTTTTAATCTAAAAAAAGGTGTTGGCCATTAGTGTT
CTAACACCTCAATTTTTTTTAATTTAAAAAAGGGTGCC
Found at i:57296417 original size:18 final size:18
Alignment explanation
Indices: 57296384--57296418 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57296374 GAATTTTGTG
*
57296384 TTTATTTTTTGAAGGTTC
1 TTTATTTTTTCAAGGTTC
*
57296402 TTTATTTTTTCTAGGTT
1 TTTATTTTTTCAAGGTT
57296419 TAGTTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTATTTTTTCAAGGTTC
Found at i:57305090 original size:24 final size:24
Alignment explanation
Indices: 57305063--57305114 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57305053 TTAGTAAGTC
*
57305063 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
57305087 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
57305111 AAAT
1 AAAT
57305115 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:57307053 original size:24 final size:24
Alignment explanation
Indices: 57307026--57307077 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57307016 TTAGTAAGTC
*
57307026 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
57307050 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
57307074 AAAT
1 AAAT
57307078 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:57311744 original size:17 final size:17
Alignment explanation
Indices: 57311724--57311756 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57311714 AAATTTATAA
*
57311724 ATAAAATATTCAAAAAT
1 ATAAAACATTCAAAAAT
57311741 ATAAAACATTCAAAAA
1 ATAAAACATTCAAAAA
57311757 AAATTAATCA
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:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAACATTCAAAAAT
Found at i:57317927 original size:29 final size:28
Alignment explanation
Indices: 57317895--57317954 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
57317885 TTTTATTTCA
*
57317895 TTTTATAATAAAT-TTTATATTTTTTCAAT
1 TTTTATAA-AAATATATATATTTTTT-AAT
* *
57317924 TTTTTTAAAACTATATATATTTTTTAAT
1 TTTTATAAAAATATATATATTTTTTAAT
57317952 TTT
1 TTT
57317955 GACTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTATAAAAATATATATATTTTTTAAT
Found at i:57326183 original size:10 final size:9
Alignment explanation
Indices: 57326168--57326201 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
57326158 TATTTTAATG
57326168 TTTTTAGTAT
1 TTTTTA-TAT
57326178 TTTTTATAT
1 TTTTTATAT
57326187 TTTTTATAT
1 TTTTTATAT
57326196 TTTTTA
1 TTTTTA
57326202 AAATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTTTATAT
Found at i:57327275 original size:30 final size:30
Alignment explanation
Indices: 57327236--57327293 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57327226 CACGGGCAGG
* *
57327236 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCGTGTGCCCAGCCCGTGTGGCT
*
57327266 CACACGGGCGTGTGCCCAGGCCGTGTGG
1 CACACGGGCGTGTGCCCAGCCCGTGTGG
57327294 AAATGCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.10, C:0.31, G:0.41, T:0.17
Consensus pattern (30 bp):
CACACGGGCGTGTGCCCAGCCCGTGTGGCT
Found at i:57330051 original size:15 final size:15
Alignment explanation
Indices: 57330031--57330086 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
57330021 CTTGATAAAC
57330031 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTGT
* *
57330046 TGAAAAAATAGGTGT
1 TGAAAAATTAAGTGT
*
57330061 T-AAAAATTGAAGTAT
1 TGAAAAATT-AAGTGT
*
57330076 TGAAAATTTAA
1 TGAAAAATTAA
57330087 ATACTGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.18
15 21 0.64
16 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:57334036 original size:14 final size:14
Alignment explanation
Indices: 57334004--57334030 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57333994 TACAAGCATT
57334004 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
57334018 AAAAAACAAAAAA
1 AAAAAACAAAAAA
57334031 TCAAAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAAA
Found at i:57335660 original size:18 final size:18
Alignment explanation
Indices: 57335639--57335688 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
57335629 GACAAAAATG
*
57335639 ATAAAAATAAAAATTATA
1 ATAAAAATAAAAATTAGA
* *
57335657 ATAAATATAAATA-TAGA
1 ATAAAAATAAAAATTAGA
57335674 A-AAAAATATAAAATT
1 ATAAAAATA-AAAATT
57335689 TTGTAAAGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
16 6 0.24
17 7 0.28
18 12 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAATAAAAATTAGA
Found at i:57345282 original size:29 final size:29
Alignment explanation
Indices: 57345241--57345296 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
57345231 TGTTTACCTT
*
57345241 ATGTTACACTTTAGTCACTTATGTTTTAA
1 ATGTTACACTTTAGTCACTAATGTTTTAA
**
57345270 ATGTTACGTTTTAGTCACTAATGTTTT
1 ATGTTACACTTTAGTCACTAATGTTTT
57345297 TATTTTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (29 bp):
ATGTTACACTTTAGTCACTAATGTTTTAA
Found at i:57359179 original size:15 final size:15
Alignment explanation
Indices: 57359161--57359193 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
57359151 AAAAAAGCTG
57359161 AAAGCAAAATAAAAT
1 AAAGCAAAATAAAAT
*
57359176 AAAGTAAAATAAAAT
1 AAAGCAAAATAAAAT
57359191 AAA
1 AAA
57359194 AGCTAACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGCAAAATAAAAT
Found at i:57362897 original size:11 final size:11
Alignment explanation
Indices: 57362883--57362923 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
57362873 TGTTTTCTCC
57362883 CTATTTTGCTA
1 CTATTTTGCTA
*
57362894 CTATTTTACTA
1 CTATTTTGCTA
* *
57362905 TTATGTTGCTA
1 CTATTTTGCTA
57362916 CTATTTTG
1 CTATTTTG
57362924 TTGTTGTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:57363738 original size:96 final size:91
Alignment explanation
Indices: 57363628--57363811 Score: 244
Period size: 92 Copynumber: 2.0 Consensus size: 91
57363618 CCAAGTATAT
** *
57363628 TTTTTTGCCTCCCAATGCAATTTTTTTTACTTTAGG-ACACTGATGGTTGGCATCAGTGTATTTT
1 TTTTTTGCCTCCCAATGC-A-TTTTTTTACTTT-GGAACACTGATGGCCGGCACCAGTGTA---T
*
57363692 TTTTAAAAAAAAATTGGGTGCCAGCCATTACA
60 CTTTAAAAAAAAATTGGGTGCCAGCCATTACA
57363724 TTTTTTGCCTCCCAATGCATTTTTTTACTTTGGATACACTGATGGCCGGCACCAGTGTATCTTTA
1 TTTTTTGCCTCCCAATGCATTTTTTTACTTTGGA-ACACTGATGGCCGGCACCAGTGTATCTTTA
* *
57363789 AAAAAAATTTGGGTGCTAGCCAT
65 AAAAAAAATTGGGTGCCAGCCAT
57363812 GTAATGACCC
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
92 26 0.32
93 2 0.03
94 12 0.15
95 22 0.28
96 18 0.22
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.39
Consensus pattern (91 bp):
TTTTTTGCCTCCCAATGCATTTTTTTACTTTGGAACACTGATGGCCGGCACCAGTGTATCTTTAA
AAAAAAATTGGGTGCCAGCCATTACA
Found at i:57364250 original size:110 final size:110
Alignment explanation
Indices: 57364058--57364273 Score: 299
Period size: 110 Copynumber: 2.0 Consensus size: 110
57364048 TGCCGGCCAT
* * ***
57364058 ACTGGTGACGGCCATCAATGTTCCAAAATAAATAAAAATGCATTGGGAGTTGAAAATTATACTTG
1 ACTGGTGACGACCATCAATGTTCCAAAATAAAAAAAAATGCATTGGGAGCCAAAAATTATACTTG
* *
57364123 GTGCCAGCCATTACATGGCCAGTACCCAATT-TTTTTTAAAATAC
66 GTGCCAGCCATTACATGGCCAGAACCAAATTCTTTTTTAAAATAC
* * * *
57364167 ACTGGTGTCGACCATTAGTGTTCCAAAATAAAAAAAAATTGCATTGGGAGCCAAAAATTGTACTT
1 ACTGGTGACGACCATCAATGTTCCAAAATAAAAAAAAA-TGCATTGGGAGCCAAAAATTATACTT
* *
57364232 GGTGTCGGCCATTACATGGCCAGAACCAAATTCTTTTTTAAA
65 GGTGCCAGCCATTACATGGCCAGAACCAAATTCTTTTTTAAA
57364274 TACTGGTATT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 33 0.36
110 50 0.54
111 9 0.10
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (110 bp):
ACTGGTGACGACCATCAATGTTCCAAAATAAAAAAAAATGCATTGGGAGCCAAAAATTATACTTG
GTGCCAGCCATTACATGGCCAGAACCAAATTCTTTTTTAAAATAC
Found at i:57369431 original size:128 final size:128
Alignment explanation
Indices: 57369234--57369478 Score: 346
Period size: 128 Copynumber: 1.9 Consensus size: 128
57369224 AGAGTCTAGT
* * * * * *
57369234 GAAATGTATCTGCCGAAGAAATGATTAAAGATTCTATCTCAAGTTATTCTACTATTTAAGAAAAG
1 GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
* **
57369299 GATATGATAAGTAAAGAGTAAGCCTGGTGAGGTTAACTGCTAAAGGTATAGTGTGCCTCTGGC
66 GATATGATAAGTAAAGAGTAAGCCTGATGAGGTTAACCACTAAAGGTATAGTGTGCCTCTGGC
* * * *
57369362 GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTGCCTCAGGTTATTCTACTGTTTCAGAAAAA
1 GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
* * *
57369427 GATATGATAAGTAAATAGTAAGTCTGATGAGGTTAACCACTAAAGGTTTAGT
66 GATATGATAAGTAAAGAGTAAGCCTGATGAGGTTAACCACTAAAGGTATAGT
57369479 ACACCCAATT
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
128 101 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (128 bp):
GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
GATATGATAAGTAAAGAGTAAGCCTGATGAGGTTAACCACTAAAGGTATAGTGTGCCTCTGGC
Found at i:57371028 original size:21 final size:21
Alignment explanation
Indices: 57370988--57371028 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
57370978 AAGGGAAAGT
*
57370988 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAATTTTGA
57371009 GGGAA-AAGTAAAAATGTTTG
1 GGGAAGAAGTAAAAAT-TTTG
57371029 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (21 bp):
GGGAAGAAGTAAAAATTTTGA
Found at i:57371080 original size:9 final size:9
Alignment explanation
Indices: 57371066--57371102 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
57371056 TATAGTTTGA
57371066 TATTCGAAT
1 TATTCGAAT
57371075 TATTCGAAT
1 TATTCGAAT
*
57371084 TATTCGAGT
1 TATTCGAAT
57371093 TATTCGAAT
1 TATTCGAAT
57371102 T
1 T
57371103 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57371173 original size:14 final size:14
Alignment explanation
Indices: 57371154--57371183 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57371144 AATTCGAGTT
57371154 GATTCGATTAACTC
1 GATTCGATTAACTC
*
57371168 GATTCGTTTAACTC
1 GATTCGATTAACTC
57371182 GA
1 GA
57371184 AATTTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (14 bp):
GATTCGATTAACTC
Found at i:57376954 original size:22 final size:22
Alignment explanation
Indices: 57376910--57376954 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57376900 GTAAAAGCTT
* * *
57376910 AACAGAAACTCATAAGGGTTAA
1 AACAGAAACTCAAAAGAGCTAA
*
57376932 AACAGAAGCTCAAAAGAGCTAA
1 AACAGAAACTCAAAAGAGCTAA
57376954 A
1 A
57376955 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.13
Consensus pattern (22 bp):
AACAGAAACTCAAAAGAGCTAA
Found at i:57376992 original size:42 final size:42
Alignment explanation
Indices: 57376847--57376998 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
57376837 GCGAAGGCTG
* * * * *
57376847 AACAGAATCTCATGAGAGCTAAACAAAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGTTA
** * * *
57376889 AATGGAAGCTCGTAAAAGCTTAAC-AGAAACTCATAAGGGTTAA
1 AACAGAAGCTCATAAGAGCTAAACGA-AAACTCATAAGGGTT-A
* * *
57376932 AACAGAAGCTCAAAAGAGCTAAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGTTA
* *
57376974 AACAGAAGCTCGTGAGAGCTAAACG
1 AACAGAAGCTCATAAGAGCTAAACG
57376999 GAAAGTAAAC
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.01
42 54 0.62
43 31 0.36
44 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGTTA
Found at i:57378508 original size:30 final size:30
Alignment explanation
Indices: 57378472--57378529 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
57378462 TAGCAGTATA
*
57378472 GTGTGGGCCTTAGCCCATTACAGTAACAAT
1 GTGTGGGCCTTAGCCCAATACAGTAACAAT
*
57378502 GTGTGGGCCTTAGCCCAATATAGTAACA
1 GTGTGGGCCTTAGCCCAATACAGTAACA
57378530 GTGCAATGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAAT
Found at i:57378681 original size:26 final size:26
Alignment explanation
Indices: 57378642--57378713 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
57378632 AATATCGCAG
* * *
57378642 CAAAGCTGCTAGTAATAGTGATGCAA
1 CAAAGCTGCCAGTAACAGTAATGCAA
* *
57378668 CAATGCTGCCAGTAACAGTAATGCAG
1 CAAAGCTGCCAGTAACAGTAATGCAA
*
57378694 CAAAGCTGTCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
57378714 TGTGTGGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAATGCAA
Found at i:57378921 original size:27 final size:27
Alignment explanation
Indices: 57378886--57379139 Score: 318
Period size: 27 Copynumber: 9.4 Consensus size: 27
57378876 AGGGGTATAA
*
57378886 CAGTTATTTTACCCTTT-AGGGGTATTT
1 CAGTCATTTTACCCTTTGA-GGGTATTT
* * *
57378913 CAATCATTTTATCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
* * *
57378940 CGGTTATTTTTCCC-TTGAAGGGTATTT
1 CAGTCATTTTACCCTTTG-AGGGTATTT
*
57378967 TAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
*
57378994 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
*
57379021 -AGGTCATTTTACCTTTTGAGGGTATTT
1 CA-GTCATTTTACCCTTTGAGGGTATTT
* * *
57379048 CAGTTATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
57379075 C-GATCATTTTACCCTTTGAGGGTATTT
1 CAG-TCATTTTACCCTTTGAGGGTATTT
*
57379102 CAGTCATTTTACCCTTTGAGGGTATCT
1 CAGTCATTTTACCCTTTGAGGGTATTT
57379129 CAGTCATTTTA
1 CAGTCATTTTA
57379140 GGCCCATTAC
Statistics
Matches: 194, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.02
27 184 0.95
28 6 0.03
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTGAGGGTATTT
Found at i:57382874 original size:23 final size:23
Alignment explanation
Indices: 57382805--57382874 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
57382795 ATATTCTGTG
*
57382805 TAGCCTTTGTGG-AGAATTCTGTA
1 TAGCCTTTGTGGCA-AATTTTGTA
* *
57382828 TAGCCTTTATGGCGAAA-TTAGTA
1 TAGCCTTTGTGGC-AAATTTTGTA
*
57382851 TGGCCTTTGTGGCAAATTTTGTA
1 TAGCCTTTGTGGCAAATTTTGTA
57382874 T
1 T
57382875 TGTCTCATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.08
23 32 0.84
24 2 0.05
25 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (23 bp):
TAGCCTTTGTGGCAAATTTTGTA
Found at i:57390558 original size:26 final size:25
Alignment explanation
Indices: 57390535--57390588 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
57390525 TTGCGATCAT
57390535 TTTTGAACCAA-TATTCTTTCGATCC
1 TTTTGAA-CAATTATTCTTTCGATCC
* *
57390560 TTTTGAATAATTATTCTTTC-ATTC
1 TTTTGAACAATTATTCTTTCGATCC
57390584 TTTTG
1 TTTTG
57390589 GATTTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (25 bp):
TTTTGAACAATTATTCTTTCGATCC
Found at i:57391846 original size:40 final size:41
Alignment explanation
Indices: 57391785--57391983 Score: 136
Period size: 40 Copynumber: 4.7 Consensus size: 41
57391775 AAAATATCCA
*
57391785 AATCTTATCTCTCT-AAGGTTGC-G-GAGAGCGGATCGCATCT
1 AATCTTATCTCTCTGAA-GTTGCAGTG-GAGCGGATAGCATCT
* * * * * *
57391825 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAAACC
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATAG---CATCT
* ** *
57391869 AATCTTATCTCTCTGAAGTTGCAGTGGAGGGGATTAAAATATCCA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGA-T--AGCAT-CT
* * *
57391914 AATCTTATCTCTCTGAGGTTGCAG-AGAGCGGATCGCATCT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATAGCATCT
* * *
57391954 AGTCTTATCTCCCTGAAGTTGCAATGGAGC
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGC
57391984 AGACAGAAGA
Statistics
Matches: 121, Mismatches: 27, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
40 38 0.31
41 17 0.14
42 1 0.01
43 1 0.01
44 38 0.31
45 25 0.21
47 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (41 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATAGCATCT
Found at i:57391877 original size:44 final size:43
Alignment explanation
Indices: 57391827--57392024 Score: 145
Period size: 44 Copynumber: 4.6 Consensus size: 43
57391817 TCGCATCTAG
57391827 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAG-AAAAACCAA
* ** *
57391871 TCTTATCTCTCTGAAGTTGCAGTGGAGGGGATTA-AAATATCCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAA-AACC-AA
* * * * * * * * *
57391916 TCTTATCTCTCTGAGGTTGCAG-AGAGCGGATCG--CATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAA
* * * *
57391956 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAA
* * *
57391998 TCCTATCTCCTTGAAGTTACAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
57392025 TGGATATAAA
Statistics
Matches: 122, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
40 20 0.16
41 10 0.08
42 25 0.20
43 5 0.04
44 37 0.30
45 25 0.20
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAA
Done.