Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 111 of 230
Found at i:32140938 original size:27 final size:28
Alignment explanation
Indices: 32140853--32140951 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
32140843 GCACTAAGTG
* *
32140853 TAGCACTAAGTGGGCGAGCTTGATTATG
1 TAGCACTAAGTGTGCGAGCTTGATTATA
*
32140881 TAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGAGCTTGATTATA
32140909 TAGCACTAAGTGTGCGAG-TTGATTATA
1 TAGCACTAAGTGTGCGAGCTTGATTATA
*
32140936 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
32140952 GACTTAATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
TAGCACTAAGTGTGCGAGCTTGATTATA
Found at i:32140962 original size:27 final size:27
Alignment explanation
Indices: 32140853--32140964 Score: 118
Period size: 28 Copynumber: 4.1 Consensus size: 27
32140843 GCACTAAGTG
* * *
32140853 TAGCACTAAGTGGGCGAGCTTGATTATG
1 TAGCACTAAGTGTGCGA-CTTGAATATA
* *
32140881 TAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGA-CTTGAATATA
* *
32140909 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGACTTGAATATA
*
32140936 TAGCACTGAGTGTGCGGACTT-AATATA
1 TAGCACTAAGTGTGC-GACTTGAATATA
32140963 TA
1 TA
32140965 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGACTTGAATATA
Found at i:32146175 original size:56 final size:55
Alignment explanation
Indices: 32146059--32146176 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
32146049 TGCATGCTTT
* * * *
32146059 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
32146113 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
32146169 CATTAAAT
1 CATTAAAT
32146177 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:32146817 original size:20 final size:20
Alignment explanation
Indices: 32146792--32146846 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
32146782 ACAAGTTAAA
* *
32146792 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
32146812 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
32146832 TTCAGCTCGAATGAG
1 TTGAGCTCGAATGAG
32146847 TTGAACCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:32149316 original size:20 final size:19
Alignment explanation
Indices: 32149293--32149357 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
32149283 AAGCTCAAAC
32149293 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
32149313 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
32149333 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
32149353 GAGCT
1 GAGCT
32149358 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:32150645 original size:17 final size:18
Alignment explanation
Indices: 32150623--32150656 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32150613 ACAACACTCC
*
32150623 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
32150640 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
32150657 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:32151727 original size:15 final size:14
Alignment explanation
Indices: 32151709--32151759 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
32151699 TTTAACTTGA
*
32151709 TTTTTTTGGTCACT
1 TTTTTTTTGTCACT
32151723 TTTTTTTTGCTCGA-T
1 TTTTTTTTG-TC-ACT
32151738 TTTTTTTT-TCACT
1 TTTTTTTTGTCACT
32151751 TTTTTTTTG
1 TTTTTTTTG
32151760 AATTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 1 0.03
13 11 0.34
14 8 0.25
15 11 0.34
16 1 0.03
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.73
Consensus pattern (14 bp):
TTTTTTTTGTCACT
Found at i:32151753 original size:12 final size:12
Alignment explanation
Indices: 32151686--32151770 Score: 53
Period size: 12 Copynumber: 6.3 Consensus size: 12
32151676 CTCGTAAGAC
32151686 TTTTCACTTTTT
1 TTTTCACTTTTT
*
32151698 TTTTAACTTGATTTT
1 TTTTCAC-T--TTTT
32151713 TTTGGTCACTTTTTT
1 TTT--TCAC-TTTTT
*
32151728 TTTGCTCGATTTTTT
1 TTT--TC-ACTTTTT
32151743 TTTTCACTTTTT
1 TTTTCACTTTTT
* *
32151755 TTTTGAATTTTT
1 TTTTCACTTTTT
32151767 TTTT
1 TTTT
32151771 TCAATCAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
12 26 0.43
13 3 0.05
15 25 0.42
16 1 0.02
17 5 0.08
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTCACTTTTT
Found at i:32151753 original size:13 final size:13
Alignment explanation
Indices: 32151686--32151773 Score: 65
Period size: 15 Copynumber: 6.5 Consensus size: 13
32151676 CTCGTAAGAC
32151686 TTTTCAC-TTTTT
1 TTTTCACTTTTTT
*
32151698 TTTTAACTTGATTTT
1 TTTTCACTT--TTTT
32151713 TTTGGTCACTTTTTT
1 TTT--TCACTTTTTT
32151728 TTTGCTCGA-TTTTTT
1 TTT--TC-ACTTTTTT
32151743 TTTTCAC-TTTTT
1 TTTTCACTTTTTT
* *
32151755 TTTTGAATTTTTT
1 TTTTCACTTTTTT
32151768 TTTTCA
1 TTTTCA
32151774 ATCAATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
12 17 0.27
13 13 0.21
15 26 0.42
16 1 0.02
17 5 0.08
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTCACTTTTTT
Found at i:32151753 original size:25 final size:25
Alignment explanation
Indices: 32151725--32151773 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
32151715 TGGTCACTTT
32151725 TTTTTTGCTCG-ATTTTTTTTTTCAC
1 TTTTTT-CTCGAATTTTTTTTTTCAC
* *
32151750 TTTTTTTTTGAATTTTTTTTTTCA
1 TTTTTTCTCGAATTTTTTTTTTCA
32151774 ATCAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (25 bp):
TTTTTTCTCGAATTTTTTTTTTCAC
Found at i:32151758 original size:28 final size:28
Alignment explanation
Indices: 32151686--32151759 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
32151676 CTCGTAAGAC
* *
32151686 TTTTCACTTTTTTTTTAACTTGATTTTTT
1 TTTTCACTTTTTTTTT-GCTCGATTTTTT
**
32151715 TGGTCACTTTTTTTTTGCTCGATTTTTT
1 TTTTCACTTTTTTTTTGCTCGATTTTTT
32151743 TTTTCACTTTTTTTTTG
1 TTTTCACTTTTTTTTTG
32151760 AATTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.09, C:0.12, G:0.08, T:0.70
Consensus pattern (28 bp):
TTTTCACTTTTTTTTTGCTCGATTTTTT
Found at i:32151768 original size:28 final size:28
Alignment explanation
Indices: 32151686--32151771 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
32151676 CTCGTAAGAC
32151686 TTTTCACTTTTTTTTT-AACTTGATTTTTT
1 TTTTCACTTTTTTTTTGAA-TT-ATTTTTT
** * *
32151715 TGGTCACTTTTTTTTTG-CTCGATTTTTT
1 TTTTCACTTTTTTTTTGAAT-TATTTTTT
32151743 TTTTCACTTTTTTTTTGAATT-TTTTTT
1 TTTTCACTTTTTTTTTGAATTATTTTTT
32151770 TT
1 TT
32151772 CAATCAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
27 8 0.17
28 23 0.50
29 15 0.33
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.72
Consensus pattern (28 bp):
TTTTCACTTTTTTTTTGAATTATTTTTT
Found at i:32151782 original size:25 final size:25
Alignment explanation
Indices: 32151736--32151783 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
32151726 TTTTTGCTCG
* ***
32151736 ATTTTTTTTTTCACTTTTTTTTTGA
1 ATTTTTTTTTTCAATCAATTTTTGA
32151761 ATTTTTTTTTTCAATCAATTTTT
1 ATTTTTTTTTTCAATCAATTTTT
32151784 TTTTTCGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (25 bp):
ATTTTTTTTTTCAATCAATTTTTGA
Found at i:32151795 original size:15 final size:15
Alignment explanation
Indices: 32151750--32151797 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 15
32151740 TTTTTTTCAC
32151750 TTTTTTTTT-G-AAT
1 TTTTTTTTTCGAAAT
*
32151763 TTTTTTTTTCAATCAAT
1 TTTTTTTTTCGA--AAT
32151780 TTTTTTTTTCGAAAT
1 TTTTTTTTTCGAAAT
32151795 TTT
1 TTT
32151798 CTTGATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 9 0.31
15 6 0.21
17 14 0.48
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (15 bp):
TTTTTTTTTCGAAAT
Found at i:32151797 original size:57 final size:56
Alignment explanation
Indices: 32151686--32151791 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 56
32151676 CTCGTAAGAC
** *
32151686 TTTTCACTTTTTTTTTAACTTGATTTTTTTGGTCACTTTTTTTTTGCTCGATTTTTT
1 TTTTCACTTTTTTTTTAACTTGATTTTTTTAATCAATTTTTTTTT-CTCGATTTTTT
*
32151743 TTTTCACTTTTTTTTTGAA-TT-TTTTTTTTCAATCAATTTTTTTTT-TCGA
1 TTTTCACTTTTTTTTT-AACTTGATTTTTTT-AATCAATTTTTTTTTCTCGA
32151792 AATTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
55 4 0.09
56 7 0.16
57 30 0.70
58 2 0.05
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (56 bp):
TTTTCACTTTTTTTTTAACTTGATTTTTTTAATCAATTTTTTTTTCTCGATTTTTT
Found at i:32153330 original size:20 final size:19
Alignment explanation
Indices: 32153307--32153371 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
32153297 AAGCTCAAAC
32153307 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
32153327 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
32153347 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
32153367 GAGCT
1 GAGCT
32153372 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:32155413 original size:11 final size:10
Alignment explanation
Indices: 32155388--32155438 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
32155378 ACCAATAAAA
32155388 TAAA-TGAGC
1 TAAATTGAGC
*
32155397 TGAATTGTAGC
1 TAAATTG-AGC
32155408 TAAATTGAGC
1 TAAATTGAGC
32155418 TGAAA-TGAGC
1 T-AAATTGAGC
*
32155428 TCAATTGAGC
1 TAAATTGAGC
32155438 T
1 T
32155439 GGTCGGAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 5 0.14
10 18 0.51
11 12 0.34
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32155428 original size:20 final size:21
Alignment explanation
Indices: 32155388--32155439 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
32155378 ACCAATAAAA
*
32155388 TAAA-TGAGCTGAATTGTAGC
1 TAAATTGAGCTGAAATGTAGC
32155408 TAAATTGAGCTGAAATG-AGC
1 TAAATTGAGCTGAAATGTAGC
*
32155428 TCAATTGAGCTG
1 TAAATTGAGCTG
32155440 GTCGGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (21 bp):
TAAATTGAGCTGAAATGTAGC
Found at i:32158198 original size:20 final size:20
Alignment explanation
Indices: 32158152--32158198 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32158142 AGCTCGTTTC
*
32158152 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
32158172 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
32158192 CAGCTCA
1 CAGCTCA
32158199 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:32159765 original size:22 final size:21
Alignment explanation
Indices: 32159732--32159776 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
32159722 AGAAGTGAGC
*
32159732 AAAAAAAGAAAAAAAAGTAAA
1 AAAAAAACAAAAAAAAGTAAA
*
32159753 AAAAAGAACAAAAAAAAGTGAA
1 AAAAA-AACAAAAAAAAGTAAA
32159775 AA
1 AA
32159777 GTCTTGCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAAAAACAAAAAAAAGTAAA
Found at i:32159776 original size:10 final size:9
Alignment explanation
Indices: 32159732--32159767 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
32159722 AGAAGTGAGC
32159732 AAAAAAAGA
1 AAAAAAAGA
32159741 AAAAAAAGTA
1 AAAAAAAG-A
32159751 AAAAAAAGA
1 AAAAAAAGA
32159760 ACAAAAAA
1 A-AAAAAA
32159768 AAGTGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:32162613 original size:20 final size:19
Alignment explanation
Indices: 32162568--32162613 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
32162558 AGCTCGTTTC
*
32162568 CAGCTCACCGAGCTCAAGT
1 CAGCTCACCAAGCTCAAGT
* *
32162587 CAACTCACTCAAGCTCAATT
1 CAGCTCAC-CAAGCTCAAGT
32162607 CAGCTCA
1 CAGCTCA
32162614 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.20
Consensus pattern (19 bp):
CAGCTCACCAAGCTCAAGT
Found at i:32166276 original size:22 final size:22
Alignment explanation
Indices: 32166248--32166291 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32166238 TTTTGAACCA
32166248 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
32166270 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
32166292 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:32171935 original size:11 final size:10
Alignment explanation
Indices: 32171910--32171968 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
32171900 ACCAATAAAA
32171910 TAAA-TGAGC
1 TAAATTGAGC
*
32171919 TGAATTGTAGC
1 TAAATTG-AGC
32171930 TAAATTGAGC
1 TAAATTGAGC
**
32171940 TCGATTGAGC
1 TAAATTGAGC
32171950 TGAAA-TGAGC
1 T-AAATTGAGC
*
32171960 TCAATTGAG
1 TAAATTGAG
32171969 TTGGTCAGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 5 0.13
10 24 0.62
11 10 0.26
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32171950 original size:20 final size:19
Alignment explanation
Indices: 32171910--32171968 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
32171900 ACCAATAAAA
32171910 TAAATGAGCT-GAATTGTAGC
1 TAAATGAGCTCG-ATTG-AGC
32171930 TAAATTGAGCTCGATTGAGC
1 TAAA-TGAGCTCGATTGAGC
*
32171950 TGAAATGAGCTCAATTGAG
1 T-AAATGAGCTCGATTGAG
32171969 TTGGTCAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 21 0.60
21 13 0.37
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (19 bp):
TAAATGAGCTCGATTGAGC
Found at i:32173651 original size:11 final size:12
Alignment explanation
Indices: 32173621--32173652 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32173611 TTTCACTCTT
32173621 CTCTTTTTCAAA
1 CTCTTTTTCAAA
32173633 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
32173645 TTCTTTTT
1 CTCTTTTT
32173653 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:32173664 original size:27 final size:27
Alignment explanation
Indices: 32173634--32173695 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
32173624 TTTTTCAAAC
*
32173634 TCTTTTTCAAATTCTT-TTTTC-GCTTTT
1 TCTTTTTC-AATT-TTCTTTTCTGCATTT
*
32173661 TCTTTTTCAATTTTCTTTTCTTCATTT
1 TCTTTTTCAATTTTCTTTTCTGCATTT
32173688 TCTTTTTC
1 TCTTTTTC
32173696 TCTCACTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 9 0.29
27 20 0.65
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (27 bp):
TCTTTTTCAATTTTCTTTTCTGCATTT
Found at i:32173674 original size:13 final size:12
Alignment explanation
Indices: 32173658--32173777 Score: 54
Period size: 12 Copynumber: 10.0 Consensus size: 12
32173648 TTTTTTCGCT
32173658 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
32173671 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
32173685 TTTTCTTTTTC-
1 TTTTCTTTTTCA
** *
32173696 TCTCACTTTTTTGA
1 T-TTTC-TTTTTCA
32173710 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
32173720 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
* *
32173733 TTTTCTTCTTCG
1 TTTTCTTTTTCA
*
32173745 TTTTCTTTTT-G
1 TTTTCTTTTTCA
32173756 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
32173766 ATTTCTTTTTCA
1 TTTTCTTTTTCA
32173778 ATCTCTTTCT
Statistics
Matches: 81, Mismatches: 15, Indels: 23
0.68 0.13 0.19
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 15 0.19
12 30 0.37
13 17 0.21
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:32173687 original size:14 final size:14
Alignment explanation
Indices: 32173636--32173694 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
32173626 TTTCAAACTC
*
32173636 TTTTTCAA-ATTCT
1 TTTTTCAATTTTCT
**
32173649 TTTTTCGCTTTT-T
1 TTTTTCAATTTTCT
32173662 CTTTTTCAATTTTCT
1 -TTTTTCAATTTTCT
32173677 TTTCTTC-ATTTTCT
1 TTT-TTCAATTTTCT
32173691 TTTT
1 TTTT
32173695 CTCTCACTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTTCAATTTTCT
Found at i:32173722 original size:18 final size:18
Alignment explanation
Indices: 32173701--32173759 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
32173691 TTTTCTCTCA
*
32173701 CTTTTTTGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
32173719 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
32173737 CTTCTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
32173755 GTTTT
1 CTTTT
32173760 CTTTCAATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.73
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:32173776 original size:6 final size:6
Alignment explanation
Indices: 32173656--32173763 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
32173646 TCTTTTTTCG
* * * **
32173656 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** * *
32173707 -TGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
32173755 -GTTTT CTTT
1 CTTTTT CTTT
32173764 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 10
0.67 0.23 0.09
Matches are distributed among these distances:
5 5 0.07
6 54 0.75
7 10 0.14
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:32174795 original size:10 final size:10
Alignment explanation
Indices: 32174782--32174818 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
32174772 CTTTTCACTT
32174782 TTTTTTGTTC
1 TTTTTTGTTC
32174792 TTTTTT-TTAC
1 TTTTTTGTT-C
32174802 TTTTTTGTTC
1 TTTTTTGTTC
32174812 TTTTTTG
1 TTTTTTG
32174819 CTCACTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.81
Consensus pattern (10 bp):
TTTTTTGTTC
Found at i:32174795 original size:11 final size:11
Alignment explanation
Indices: 32174781--32174817 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
32174771 ACTTTTCACT
32174781 TTTTTTTGTTC
1 TTTTTTTGTTC
*
32174792 TTTTTTT-TAC
1 TTTTTTTGTTC
32174802 -TTTTTTGTTC
1 TTTTTTTGTTC
32174812 TTTTTT
1 TTTTTT
32174818 GCTCACTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.27
10 4 0.18
11 12 0.55
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (11 bp):
TTTTTTTGTTC
Found at i:32176245 original size:10 final size:10
Alignment explanation
Indices: 32176211--32176258 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
32176201 ATAAAATAAA
32176211 TGAGCTGAAT
1 TGAGCTGAAT
32176221 TGTAGCT-AGAT
1 TG-AGCTGA-AT
*
32176232 TGAGCTGAAA
1 TGAGCTGAAT
*
32176242 TGAGCTCAAT
1 TGAGCTGAAT
32176252 TGAGCTG
1 TGAGCTG
32176259 GTCGGAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:32176253 original size:20 final size:21
Alignment explanation
Indices: 32176211--32176258 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
32176201 ATAAAATAAA
*
32176211 TGAGCTGAATTGTAGCTAGAT
1 TGAGCTGAAATGTAGCTAGAT
32176232 TGAGCTGAAATG-AGCTCA-AT
1 TGAGCTGAAATGTAGCT-AGAT
32176252 TGAGCTG
1 TGAGCTG
32176259 GTCGGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
TGAGCTGAAATGTAGCTAGAT
Found at i:32186845 original size:29 final size:30
Alignment explanation
Indices: 32186788--32186845 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
32186778 TCAGCTGAAC
* * *
32186788 AAACATTAATATAATTTAGACACACTAATT
1 AAACATAAATATAAATTAGACAAACTAATT
*
32186818 AAACATAAAT-TAAATTAGACAAATTAAT
1 AAACATAAATATAAATTAGACAAACTAAT
32186846 AAAGTCTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.31
Consensus pattern (30 bp):
AAACATAAATATAAATTAGACAAACTAATT
Found at i:32243341 original size:27 final size:27
Alignment explanation
Indices: 32243302--32243856 Score: 536
Period size: 27 Copynumber: 20.6 Consensus size: 27
32243292 ATTCGTGGGC
32243302 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32243329 AAATGACCAAAATACCC-CAGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
** *
32243356 AAATGATTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32243383 AAATG-CGCGAAATATCCTCGAAAGGTA
1 AAATGAC-CGAAATACCCTCGAAGGGTA
* * *
32243410 AAATGACCAAAATACCCCCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* ** *
32243437 AAATAATTGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32243464 AAATGACCAAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
32243491 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32243518 AAATGATCGAAATATCCC-CGAAGGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
* * * **
32243545 AAATGACTGCAATACCCCCGAAGGAAA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32243572 AAATGACCGAAATA-CCTCTAAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * * *
32243599 AAATGACCAAAATACCTTCAAAAGGAA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32243626 AAATGACTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
32243653 AATTGACTGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
32243680 AAATGACCAAAATACGCTCGAAGGAT-
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32243706 AAATGACCAAAATACCCTCGACA-GGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
* **
32243733 AAATGACTGAAATACCCTCGAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32243760 AAATGACTGAAATA-CCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32243786 AAATGATCGAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32243813 AATTGACCGAAATA-CCTCTGATGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
32243840 AATTGACCAAAATACCC
1 AAATGACCGAAATACCC
32243857 CCAAAAGTTG
Statistics
Matches: 435, Mismatches: 75, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
26 56 0.13
27 368 0.85
28 11 0.03
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:32251311 original size:26 final size:27
Alignment explanation
Indices: 32251187--32251399 Score: 288
Period size: 27 Copynumber: 8.0 Consensus size: 27
32251177 GCAAATGATA
*
32251187 GAAATACCCTCGTAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
32251214 GAAATACCCTCGAAGGTTAAAATGAGC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
32251241 AAAATACCC-CTGAAGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
* *
32251268 GAAGTACCCTCGAAGGGTAAAATAACC
1 GAAATACCCTCGAAGGGTAAAATGACC
**
32251295 GAAATA-CCTCGAAGGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGACC
*
32251321 GAAATACCCTCGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACC
* **
32251348 AAAATA-CCTCGAAGGGTAAAATGATA
1 GAAATACCCTCGAAGGGTAAAATGACC
32251374 GAAATACCCTCGAAGGGTAAAATGAC
1 GAAATACCCTCGAAGGGTAAAATGAC
32251400 TAAATGGTGA
Statistics
Matches: 163, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 47 0.29
27 115 0.71
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:32251341 original size:80 final size:81
Alignment explanation
Indices: 32251188--32251398 Score: 293
Period size: 80 Copynumber: 2.6 Consensus size: 81
32251178 CAAATGATAG
* *
32251188 AAATACCCTCGTAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGAGCAAAATACCCCTG
1 AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAGCAAAATACCCCTG
*
32251253 AAGGGTAAAATGACCG
66 AAGGGTAAAATGACCA
* * ***
32251269 AAGTACCCTCGAAGGGTAAAATAACCGAAATA-CCTCGAAGGGTAAAATGATTGAAATA-CCCTC
1 AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAGCAAAATACCCCT-
*
32251332 GAAGGGTAAAATGACTA
65 GAAGGGTAAAATGACCA
**
32251349 AAATA-CCTCGAAGGGTAAAATGATAGAAATACCCTCGAAGGGTAAAATGA
1 AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGA
32251399 CTAAATGGTG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 27 0.23
80 59 0.51
81 29 0.25
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (81 bp):
AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAGCAAAATACCCCTG
AAGGGTAAAATGACCA
Found at i:32251400 original size:53 final size:53
Alignment explanation
Indices: 32251179--32251403 Score: 301
Period size: 53 Copynumber: 4.2 Consensus size: 53
32251169 ATTCGTGGGC
* *
32251179 AAATGA-TAGAAATACCCTCGTAGGGTAAAATGACCGAAATACCCTCGAAGGTTA
1 AAATGACTA-AAATA-CCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* *
32251233 AAATGAGC-AAAATACCCCTGAAGGGTAAAATGACCGAAGTACCCTCGAAGGGTA
1 AAATGA-CTAAAATACCTC-GAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* ** **
32251287 AAATAACCGAAATACCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTA
1 AAATGACTAAAATACCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
**
32251340 AAATGACTAAAATACCTCGAAGGGTAAAATGATAGAAATACCCTCGAAGGGTA
1 AAATGACTAAAATACCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
32251393 AAATGACTAAA
1 AAATGACTAAA
32251404 TGGTGATATG
Statistics
Matches: 153, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
53 96 0.63
54 56 0.37
55 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (53 bp):
AAATGACTAAAATACCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
Found at i:32287324 original size:50 final size:50
Alignment explanation
Indices: 32287166--32287430 Score: 302
Period size: 50 Copynumber: 5.3 Consensus size: 50
32287156 GATAATAACA
* * * * *
32287166 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CTATTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC-CTCTCATAT-CGG
* * * * ** *
32287215 TGCCAATGCAATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
32287265 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
32287315 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
32287365 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
32287415 TGCCAACGCCATGTCC
1 TGCCAATGCCATGTCC
32287431 TCTCATATCA
Statistics
Matches: 183, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
49 36 0.20
50 147 0.80
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:32287435 original size:27 final size:27
Alignment explanation
Indices: 32287402--32287457 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
32287392 TTACATGGGA
32287402 CCTCTCATATCAGTGCCAACGCCATGT
1 CCTCTCATATCAGTGCCAACGCCATGT
*
32287429 CCTCTCATATCAGTGCCAATGCCATGT
1 CCTCTCATATCAGTGCCAACGCCATGT
32287456 CC
1 CC
32287458 CAGACATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.27
Consensus pattern (27 bp):
CCTCTCATATCAGTGCCAACGCCATGT
Found at i:32287479 original size:77 final size:77
Alignment explanation
Indices: 32287352--32287508 Score: 287
Period size: 77 Copynumber: 2.0 Consensus size: 77
32287342 TTACATGGGA
*
32287352 CCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
1 CCTCTCATATCAGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
32287417 CCAACGCCATGT
66 CCAACGCCATGT
* *
32287429 CCTCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
1 CCTCTCATATCAGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
32287494 CCAACGCCATGT
66 CCAACGCCATGT
32287506 CCT
1 CCT
32287509 AGACATGGTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.25
Consensus pattern (77 bp):
CCTCTCATATCAGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
CCAACGCCATGT
Found at i:32287504 original size:50 final size:50
Alignment explanation
Indices: 32287429--32287724 Score: 373
Period size: 50 Copynumber: 5.9 Consensus size: 50
32287419 AACGCCATGT
*
32287429 CCTCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCTCTCATCTCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
32287479 CCTCTCATCTCAGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGA
1 CCTCTCATCTCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
32287529 CCTCTCATCTCTGTGCCAATGCCATGTACCAGACATGGTCTTACATGGGA
1 CCTCTCATCTCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
32287579 TCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCTCTCATCTCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* * *
32287629 CCTCTCATAATTTCAATATGCCAATGCCATGTCTCAGACATGGTCTTACACT-GG-
1 CCTCTC---ATCTC-A-GTGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGA
* * * * * *
32287683 -CTCACATATCAATGTCGATGCCATGTCCCAAACATGGTCTTA
1 CCTCTCATCTCAGTGCCAATGCCATGTCCCAGACATGGTCTTA
32287725 TACGAGATCG
Statistics
Matches: 219, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
48 27 0.12
49 1 0.00
50 149 0.68
53 8 0.04
55 33 0.15
56 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (50 bp):
CCTCTCATCTCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
Found at i:32287528 original size:127 final size:127
Alignment explanation
Indices: 32287302--32287555 Score: 427
Period size: 127 Copynumber: 2.0 Consensus size: 127
32287292 TTACGGGGGA
* * * *
32287302 CCTCTCATCTCGGTGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
1 CCTCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
32287367 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGT
66 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGT
*
32287429 CCTCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
1 CCTCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
* * * *
32287494 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGT
66 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGT
32287556 ACCAGACATG
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 118 1.00
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (127 bp):
CCTCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTG
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGT
Found at i:32287555 original size:177 final size:177
Alignment explanation
Indices: 32287254--32287607 Score: 546
Period size: 177 Copynumber: 2.0 Consensus size: 177
32287244 ACGTGGGAGT
** * * * * *
32287254 TCTCATATTGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTC
1 TCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCC
* *
32287319 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAG
66 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAG
32287384 ACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTCC
131 ACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTCC
*
32287431 TCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCC
1 TCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCC
* * * *
32287496 AACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGTACCAG
66 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAG
* * * *
32287561 ACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAATGCCATGTCC
131 ACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTCC
32287608 CAGACATGGT
Statistics
Matches: 159, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 159 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (177 bp):
TCTCATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCC
AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAG
ACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTCC
Found at i:32287610 original size:227 final size:227
Alignment explanation
Indices: 32287215--32287637 Score: 675
Period size: 227 Copynumber: 1.9 Consensus size: 227
32287205 TTTCCTGTAC
* * ** ** * *
32287215 TGCCAATGCAATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATTGGTGCCCATGCCATGTC
1 TGCCAATGCAATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
* * *
32287280 CTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTCAATGCCATGTCCCAGACATGGTCTTA
66 CTAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTACCAGACATGGTCTTA
32287345 CATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
131 CATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
32287410 ATCAGTGCCAACGCCATGTCCTCTCATATCAG
196 ATCAGTGCCAACGCCATGTCCTCTCATATCAG
* * *
32287442 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTC
1 TGCCAATGCAATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
* *
32287507 CTAGACATGGTCTTACATGGGACCTCTCATCTCTGTGCCAATGCCATGTACCAGACATGGTCTTA
66 CTAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTACCAGACATGGTCTTA
* * *
32287572 CATGGGATCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
131 CATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
32287637 A
196 A
32287638 ATTTCAATAT
Statistics
Matches: 177, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
227 177 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (227 bp):
TGCCAATGCAATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
CTAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTACCAGACATGGTCTTA
CATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
ATCAGTGCCAACGCCATGTCCTCTCATATCAG
Found at i:32290417 original size:28 final size:27
Alignment explanation
Indices: 32290340--32290417 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
32290330 TATAATATGT
* *
32290340 ATAAATTAAAAGGTTAAAATAAATTTGA
1 ATAAATTAAAATGTTAAAAT-AAGTTGA
**
32290368 ATAAATTAACAATGTTGGAATAAGTTGA
1 ATAAATTAA-AATGTTAAAATAAGTTGA
32290396 GATAAATTAAAATGTTAAAATA
1 -ATAAATTAAAATGTTAAAATA
32290418 TTGGAAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 25 0.60
29 17 0.40
ACGTcount: A:0.54, C:0.01, G:0.13, T:0.32
Consensus pattern (27 bp):
ATAAATTAAAATGTTAAAATAAGTTGA
Found at i:32290720 original size:24 final size:24
Alignment explanation
Indices: 32290684--32290729 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
32290674 TGGAAATTTA
* *
32290684 AATAATGATACATAATAAATTTTG
1 AATAATAAAACATAATAAATTTTG
**
32290708 AATAATAAAACATTGTAAATTT
1 AATAATAAAACATAATAAATTT
32290730 ATATAATATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
AATAATAAAACATAATAAATTTTG
Found at i:32291448 original size:20 final size:19
Alignment explanation
Indices: 32291414--32291481 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 19
32291404 TTTTTCGTAT
32291414 AGAAAATAGAAAGAAACAA
1 AGAAAATAGAAAGAAACAA
*
32291433 AGAAAATAGTAAAGAAACAC
1 AGAAAATAG-AAAGAAACAA
*
32291453 AGAGAAAGAGAAAG-AA-AA
1 AGA-AAATAGAAAGAAACAA
*
32291471 AGAAAAGAGAA
1 AGAAAATAGAA
32291482 CCACCTTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.18
18 4 0.09
19 11 0.25
20 16 0.36
21 5 0.11
ACGTcount: A:0.71, C:0.04, G:0.21, T:0.04
Consensus pattern (19 bp):
AGAAAATAGAAAGAAACAA
Found at i:32291893 original size:26 final size:27
Alignment explanation
Indices: 32291864--32291914 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
32291854 CCACATTAGC
* *
32291864 TGGGCTTGGTTAATTGGGT-TTTGGTT
1 TGGGCTAGGTTAAGTGGGTATTTGGTT
32291890 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAGGTTAAGTGGGTATTTGG
32291915 GATCTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.43
Consensus pattern (27 bp):
TGGGCTAGGTTAAGTGGGTATTTGGTT
Found at i:32292034 original size:16 final size:15
Alignment explanation
Indices: 32291995--32292041 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
32291985 CTTTTAATAA
32291995 TTTTGTTT-TTATTT
1 TTTTGTTTATTATTT
*
32292009 TTATTTTTTATATATTT
1 TT-TTGTTTAT-TATTT
32292026 TTTTGTTTATTTATTT
1 TTTTGTTTA-TTATTT
32292042 GATTTGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 5 0.19
16 12 0.44
17 8 0.30
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTGTTTATTATTT
Found at i:32292663 original size:176 final size:175
Alignment explanation
Indices: 32292368--32292828 Score: 769
Period size: 176 Copynumber: 2.6 Consensus size: 175
32292358 TCTATTCCAT
* *
32292368 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTAGTGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
*
32292433 TTACTTGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCATT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCATT
32292498 CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
131 CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
* * *
32292543 TGTAACTTCAGAAAGATAAGATCCTTTTATCTTAATCCGTTCCACTGTAATATCAGGGAAATAGG
1 TGTAACTTCAGAGAGATAAGATCC-TTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGG
* * * *
32292608 ATTACTGGCTTCAGTCTGCTCCGCTGTAATATCAGGGAGATAAGATCTGTAATTCTTCGGTCTAT
65 ATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCAT
* *
32292673 TCCATTGTAATCTCAGGGAGATAAGACCTGATGTGATCTACTCTGC
130 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
* *
32292719 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAAGGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
* *
32292784 TTACTGGCTTCAATCCGCTCCGCTGCAATCTCAGGGAGATAAGAT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
32292829 TCACCATTTT
Statistics
Matches: 264, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 101 0.38
176 163 0.62
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTATAATTCTTCGGTCCATT
CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGC
Found at i:32293682 original size:26 final size:27
Alignment explanation
Indices: 32293653--32293703 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
32293643 CCACATTAGC
*
32293653 TGGGATAGGTTAATTGGGT-TTTGGTT
1 TGGGATAGGTTAAGTGGGTATTTGGTT
*
32293679 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGATAGGTTAAGTGGGTATTTGG
32293704 GATCTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGATAGGTTAAGTGGGTATTTGGTT
Found at i:32294520 original size:12 final size:11
Alignment explanation
Indices: 32294491--32294534 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
32294481 AATCATTTAA
*
32294491 TAATAAAATAA
1 TAATAAAATAT
*
32294502 TACTAAAAATAT
1 TAAT-AAAATAT
32294514 TAATAAAATAT
1 TAATAAAATAT
*
32294525 TAATTAAATA
1 TAATAAAATA
32294535 ACATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:32296313 original size:27 final size:27
Alignment explanation
Indices: 32296274--32296628 Score: 497
Period size: 27 Copynumber: 13.3 Consensus size: 27
32296264 ATTCGTGGGC
* *
32296274 AAATGATCGAAATACCCTCGAACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32296301 AAATGACCAAAATACTCC-CGAAGGGTA
1 AAATGACCGAAATAC-CCTCGAAGGGTA
*
32296328 AAATGA-TGTAAATACCCTCGAAGGGTA
1 AAATGACCG-AAATACCCTCGAAGGGTA
* *
32296355 AAATGAACGAAATACCCTCGAAGCGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
32296382 AAATGACCAAAATA-CCTCCCAATGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
* *
32296409 AAATAACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32296436 AAATGACCAAAATACCCTC-AAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
32296462 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32296489 AAATGACCGAAGTACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32296516 AAATGATCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32296542 AAATGACCGAAATACACTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
32296569 AAATGACCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32296595 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
32296622 AAATGAC
1 AAATGAC
32296629 TAAATGGTGA
Statistics
Matches: 290, Mismatches: 29, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
26 79 0.27
27 205 0.71
28 6 0.02
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:32296485 original size:53 final size:54
Alignment explanation
Indices: 32296274--32296628 Score: 497
Period size: 53 Copynumber: 6.6 Consensus size: 54
32296264 ATTCGTGGGC
* * *
32296274 AAATGATCGAAATACCCTCGAACGGTAAAATGACCAAAATACTCC-CGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATAC-CCTCGAAGGGTA
* * *
32296328 AAATGA-TGTAAATACCCTCGAAGGGTAAAATGAACGAAATACCCTCGAAGCGTA
1 AAATGACCG-AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* * * * *
32296382 AAATGACCAAAATA-CCTCCCAATGGTAAAATAACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
*
32296436 AAATGACCAAAATACCCTC-AAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* *
32296489 AAATGACCGAAGTACCCTCGAAGGGTAAAATGATCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
*
32296542 AAATGACCGAAATACACTCGAAGGGTAAAATGACCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
*
32296595 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGAC
32296629 TAAATGGTGA
Statistics
Matches: 271, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
53 148 0.55
54 120 0.44
55 3 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (54 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
Found at i:32296508 original size:80 final size:81
Alignment explanation
Indices: 32296274--32296628 Score: 515
Period size: 80 Copynumber: 4.4 Consensus size: 81
32296264 ATTCGTGGGC
* *
32296274 AAATGATCGAAATACCCTCGAACGGTAAAATGACCAAAATACTCC-CGAAGGGTAAAATGA-TGT
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATAC-CCTCGAAGGGTAAAATGACCG-
32296337 AAATACCCTCGAAGGGTA
64 AAATACCCTCGAAGGGTA
* * * * * *
32296355 AAATGAACGAAATACCCTCGAAGCGTAAAATGACCAAAATA-CCTCCCAATGGTAAAATAACTGA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCT-CGAAGGGTAAAATGACCGA
32296419 AATACCCTCGAAGGGTA
65 AATACCCTCGAAGGGTA
* * *
32296436 AAATGACCAAAATACCCTC-AAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAA
*
32296500 GTACCCTCGAAGGGTA
66 ATACCCTCGAAGGGTA
* *
32296516 AAATGATCGAAATA-CCTCGAAGGGTAAAATGACCGAAATACACTCGAAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAA
32296580 ATA-CCTCGAAGGGTA
66 ATACCCTCGAAGGGTA
32296595 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC
32296629 TAAATGGTGA
Statistics
Matches: 249, Mismatches: 19, Indels: 13
0.89 0.07 0.05
Matches are distributed among these distances:
79 32 0.13
80 127 0.51
81 88 0.35
82 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (81 bp):
AAATGATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAA
ATACCCTCGAAGGGTA
Found at i:32310574 original size:25 final size:25
Alignment explanation
Indices: 32310533--32310586 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
32310523 CTCGTGAGAA
* *
32310533 CATATCGATCTATAGCTCAAATGCG
1 CATATCGATCTACAGCTCAAATGAG
*
32310558 CATATCGAT-TCACAGCTCATATGAG
1 CATATCGATCT-ACAGCTCAAATGAG
32310583 CATA
1 CATA
32310587 CTTGTACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (25 bp):
CATATCGATCTACAGCTCAAATGAG
Found at i:32312809 original size:14 final size:14
Alignment explanation
Indices: 32312763--32312810 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
32312753 TTCACTTTAG
32312763 TATCGAAAATGATT
1 TATCGAAAATGATT
* *
32312777 TATTGTATTAATAGATT
1 TATCG-A-AAAT-GATT
32312794 TATCGAAAATGATT
1 TATCGAAAATGATT
32312808 TAT
1 TAT
32312811 TGTATCGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.41
15 4 0.15
16 4 0.15
17 8 0.30
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (14 bp):
TATCGAAAATGATT
Found at i:32332144 original size:8 final size:8
Alignment explanation
Indices: 32332125--32332175 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
32332115 TGTCGAATCT
32332125 TCTCTT-C
1 TCTCTTCC
32332132 TCTCTTCC
1 TCTCTTCC
32332140 TCTCTTCC
1 TCTCTTCC
32332148 TCTC-TCC
1 TCTCTTCC
*
32332155 TCT-TTAC
1 TCTCTTCC
32332162 TGCTTCTTCC
1 T-C-TCTTCC
32332172 TCTC
1 TCTC
32332176 CCCTACCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 15 0.41
8 16 0.43
9 2 0.05
10 4 0.11
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (8 bp):
TCTCTTCC
Found at i:32332145 original size:15 final size:15
Alignment explanation
Indices: 32332125--32332175 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
32332115 TGTCGAATCT
32332125 TCTCTTCTCTCTTCC
1 TCTCTTCTCTCTTCC
32332140 TCTCTTC-CTCTCTCC
1 TCTCTTCTCTCT-TCC
32332155 TCT-TTACTGCTTCTTCC
1 TCTCTT-CT-C-TCTTCC
32332172 TCTC
1 TCTC
32332176 CCCTACCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 6 0.20
15 14 0.47
17 7 0.23
18 3 0.10
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (15 bp):
TCTCTTCTCTCTTCC
Found at i:32332939 original size:27 final size:27
Alignment explanation
Indices: 32332901--32333430 Score: 537
Period size: 27 Copynumber: 19.6 Consensus size: 27
32332891 ATTCATGGGC
*
32332901 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32332928 AAATGACCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32332955 AAATGACCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
32332982 AAATTACCAAAATACCC-CTGAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
32333009 AAATAACCGAAATACCCTCGTACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
32333036 AAATGACCAAAATACCCCCGATTGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32333063 AAATAACCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
32333090 AAATAATCTAAACACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32333117 AAATGATCGAAATACCC-CTGAAGGGTT
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * *
32333144 AAATGACAGAAATACCCCCAAAGTGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32333171 AAATGATCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
32333198 AAATGACCAAAATATCCCT-AAAAGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
** * *
32333225 AAATGATTGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
32333252 AAATGACCGATATACTCTTAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32333279 AAATGACCAAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32333306 AAAGGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* **
32333333 AAATGACCGAAATACCCTCAAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
32333360 AAATGATCGAAATACCCTCGATA-GATA
1 AAATGACCGAAATACCCTCGA-AGGGTA
* * *
32333387 AAATGATCGAAATACCCTCTATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
32333414 AATTGACCGAAATACCC
1 AAATGACCGAAATACCC
32333431 CCTAAAGGTG
Statistics
Matches: 416, Mismatches: 79, Indels: 16
0.81 0.15 0.03
Matches are distributed among these distances:
26 5 0.01
27 404 0.97
28 7 0.02
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:32333643 original size:27 final size:27
Alignment explanation
Indices: 32333598--32333669 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
32333588 GTAGGGGAAG
**
32333598 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGCAGCTTTGCCACA
**
32333624 TATACTGTTACTGGCAGCTTTGCTGCA
1 TATACTGTTACTGGCAGCTTTGCCACA
*
32333651 T-TACTATT-CTGGCAGCTTT
1 TATACTGTTACTGGCAGCTTT
32333670 CCTGCGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 11 0.28
26 13 0.32
27 16 0.40
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (27 bp):
TATACTGTTACTGGCAGCTTTGCCACA
Found at i:32333835 original size:28 final size:28
Alignment explanation
Indices: 32333795--32333867 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
32333785 TTTACTATAT
* *** *
32333795 TGGGCAAAGGCCCACATTGTCACTGTAC
1 TGGGCTAAGGCCCACACCCTCACTGTAA
*
32333823 TGGGCTAAGGCCCACACCCTTACTGTAA
1 TGGGCTAAGGCCCACACCCTCACTGTAA
*
32333851 TGGGCTTAGGCCCACAC
1 TGGGCTAAGGCCCACAC
32333868 TGTACCGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.21
Consensus pattern (28 bp):
TGGGCTAAGGCCCACACCCTCACTGTAA
Found at i:32341239 original size:27 final size:27
Alignment explanation
Indices: 32340820--32341228 Score: 477
Period size: 27 Copynumber: 15.3 Consensus size: 27
32340810 GATTCGTGGG
* *
32340820 AAAATGATCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
32340847 AGAATGACCAAAATACCCCCGATGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
32340874 AAAATGACTGAAATA-CCTCCGAAGGGT
1 AAAATGACCGAAATACCCT-CGAAGGGT
* *
32340901 AAAATAACCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
32340928 AAGATGACCAAAATACCC-CTGAAGGGT
1 AAAATGACCGAAATACCCTC-GAAGGGT
* * **
32340955 AAAATGATCAAAATACCCTTAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
32340982 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
32341009 AAAATGACAGAAATA-CCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
32341035 AAAATGATCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
32341062 AAAATGAGTGAAATA-CCTCGAAAGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
32341088 AGAATGGCCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
32341115 AAAATGAGTGAAATA-CCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
32341141 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
32341168 AAAATGACTGAAATACCCTCGATGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
32341195 AAATTGACCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
32341222 GAAATGA
1 AAAATGA
32341229 TTGTTATACC
Statistics
Matches: 322, Mismatches: 53, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
26 69 0.21
27 250 0.78
28 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:32341427 original size:26 final size:25
Alignment explanation
Indices: 32341387--32341458 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
32341377 GCCACATATG
*
32341387 CTGTTGCTGGTAGCTTTGCTGCG-TT
1 CTGTT-CTGGCAGCTTTGCTGCGCTT
32341412 ACTGTTACTGGCAGCTTTGCTGCGCTT
1 -CTGTT-CTGGCAGCTTTGCTGCGCTT
* *
32341439 TTATTCTGGCAGCTTTGCTG
1 CTGTTCTGGCAGCTTTGCTG
32341459 TGATATTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 15 0.37
26 24 0.59
27 2 0.05
ACGTcount: A:0.08, C:0.22, G:0.28, T:0.42
Consensus pattern (25 bp):
CTGTTCTGGCAGCTTTGCTGCGCTT
Found at i:32341613 original size:28 final size:27
Alignment explanation
Indices: 32341572--32341659 Score: 122
Period size: 28 Copynumber: 3.2 Consensus size: 27
32341562 TTATTCTATT
32341572 TACTGTATTGGGCTAAGGCCCACATTG
1 TACTGTATTGGGCTAAGGCCCACATTG
*
32341599 TCACTGTATTGGGCTAAGGCCCACACTG
1 T-ACTGTATTGGGCTAAGGCCCACATTG
* * *
32341627 TTACTGTAATGGGCTAAGACCCACTTTG
1 -TACTGTATTGGGCTAAGGCCCACATTG
32341655 TACTG
1 TACTG
32341660 ATACTGTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 6 0.11
28 47 0.87
29 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (27 bp):
TACTGTATTGGGCTAAGGCCCACATTG
Found at i:32351566 original size:28 final size:27
Alignment explanation
Indices: 32351501--32351588 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 27
32351491 TGCACTGTAG
* **
32351501 TATTACTGTATTGGGCTAAGGCAAAACAC
1 TATTATTGTATT-GGCTAAGGC-CCACAC
32351530 TATTATTGTATTGGACTAAGGCCCACAC
1 TATTATTGTATTGG-CTAAGGCCCACAC
32351558 TATTATTGTATTTGGCTAAGGCCCACAC
1 TATTATTGTA-TTGGCTAAGGCCCACAC
32351586 TAT
1 TAT
32351589 ACTGTTACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 32 0.59
29 22 0.41
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (27 bp):
TATTATTGTATTGGCTAAGGCCCACAC
Found at i:32354984 original size:24 final size:24
Alignment explanation
Indices: 32354957--32355038 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
32354947 CCATGCACGG
*
32354957 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAAACA
* *
32354981 AATCAGTCATACAAATCATACACA
1 AATCAGTCATACAAATCACAAACA
**
32355005 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
32355029 AATCAGTCAT
1 AATCAGTCAT
32355039 TTAGATCTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:32355033 original size:11 final size:11
Alignment explanation
Indices: 32354964--32355033 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
32354954 CGGAATCAGT
32354964 CATACAAATCA
1 CATACAAATCA
*
32354975 CAGACAAATCA
1 CATACAAATCA
32354986 GTCATACAAATCA
1 --CATACAAATCA
* *
32354999 TACACAAATCA
1 CATACAAATCA
**
32355010 GTCATTTAAATCA
1 --CATACAAATCA
*
32355023 CAAACAAATCA
1 CATACAAATCA
32355034 GTCATTTAGA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (11 bp):
CATACAAATCA
Found at i:32355039 original size:24 final size:24
Alignment explanation
Indices: 32354957--32355090 Score: 117
Period size: 24 Copynumber: 5.6 Consensus size: 24
32354947 CCATGCACGG
** *
32354957 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAAACA
** * *
32354981 AATCAGTCATACAAATCATACACA
1 AATCAGTCATTTAAATCACAAACA
32355005 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
* *
32355029 AATCAGTCATTTAGATCTCGAAA-A
1 AATCAGTCATTTAAATCAC-AAACA
* * * **
32355053 AATCATTCATTTACATCATAGGCA
1 AATCAGTCATTTAAATCACAAACA
*
32355077 AATCAATCATTTAA
1 AATCAGTCATTTAA
32355091 CCCCGATGGG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 1 0.01
24 88 0.96
25 3 0.03
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAAACA
Found at i:32355128 original size:27 final size:27
Alignment explanation
Indices: 32355108--32355282 Score: 199
Period size: 27 Copynumber: 6.5 Consensus size: 27
32355098 GGGCAAAATA
32355108 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
* * *
32355135 GTCATTTTACCCTACAAGGGCGTTACG
1 GTCATTTTACCCTATAGGGGCATTACG
*
32355162 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
32355189 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGCATTACG
* * * * *
32355216 GTTATTTTACCC-ATTGAGGGTATTTCA
1 GTCATTTTACCCTATAG-GGGCATTACG
* * * **
32355243 GTCATTTTACCCTTTCGGGGTATTTGG
1 GTCATTTTACCCTATAGGGGCATTACG
*
32355270 GTAATTTTACCCT
1 GTCATTTTACCCT
32355283 TCGAAGGTAT
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 122 0.96
28 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGCATTACG
Found at i:32355247 original size:81 final size:80
Alignment explanation
Indices: 32355108--32355321 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 80
32355098 GGGCAAAATA
* ** ** * *
32355108 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAAGGGCGTTACGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTAATTTTACCCT-TGAGGGTATTTCAGTCATTTTACC
32355173 CTATAGGGGTATTACG
65 CTATAGGGGTATTACG
*
32355189 GTCATTTTACCCTATAGGGGCATTACGGTTATTTTACCCATTGAGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTAATTTTACCC-TTGAGGGTATTTCAGTCATTTTACC
* * **
32355254 CTTTCGGGGTATTTGG
65 CTATAGGGGTATTACG
* * * * *
32355270 GTAATTTTACCCT-TCGAAGGTATTTCGGTAATTTTACCCTTTGAGGGTATTT
1 GTCATTTTACCCTATAG-GGGCATTACGGTAATTTTACCC-TTGAGGGTATTT
32355322 TGATAATTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 110 0.97
82 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (80 bp):
GTCATTTTACCCTATAGGGGCATTACGGTAATTTTACCCTTGAGGGTATTTCAGTCATTTTACCC
TATAGGGGTATTACG
Found at i:32355353 original size:26 final size:27
Alignment explanation
Indices: 32355111--32355359 Score: 177
Period size: 27 Copynumber: 9.3 Consensus size: 27
32355101 CAAAATAGTC
* * * *
32355111 ATTTTACCCTATAG-GGGCATTACGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * ** * *
32355138 ATTTTACCCTACAAGGGCGTTACGGTC
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
32355165 ATTTTACCCTATAG-GGGTATTACGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * * *
32355192 ATTTTACCCTATAG-GGGCATTACGGTT
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* *
32355219 ATTTTACCCATT-GAGGGTATTTCAGTC
1 ATTTTACCC-TTCGAGGGTATTTCGGTA
*
32355246 ATTTTACCCTTTCG-GGGTATTTGGGTA
1 ATTTTACCC-TTCGAGGGTATTTCGGTA
*
32355273 ATTTTACCCTTCGAAGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
32355300 ATTTTACCCTTTGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
**
32355327 ATTTTACCC-TCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
32355353 ATTTTAC
1 ATTTTAC
32355360 AACCTTTTCG
Statistics
Matches: 188, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.14
27 160 0.85
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:32366093 original size:17 final size:18
Alignment explanation
Indices: 32366063--32366096 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
32366053 AACAACTCAT
32366063 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
32366081 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
32366097 ACTCAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:32367576 original size:5 final size:5
Alignment explanation
Indices: 32367563--32367615 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
32367553 AGTTTCCCCA
* * * * *
32367563 TTTAC TTTAT TTTAT TTT-T ATTAT TTTAT TCTAT TTTAT TTTCT CTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
32367612 TTTA
1 TTTA
32367616 ATAATTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
4 3 0.08
5 35 0.92
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:32367622 original size:24 final size:24
Alignment explanation
Indices: 32367571--32367623 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
32367561 CATTTACTTT
* *
32367571 ATTTTATTTTTATTATTTTATTCT
1 ATTTTATTTTTATTATTTTAATCA
*
32367595 ATTTTATTTTCTCTTATTTTAAT-A
1 ATTTTATTTT-TATTATTTTAATCA
32367619 ATTTT
1 ATTTT
32367624 TAGTTCTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTTATTTTTATTATTTTAATCA
Found at i:32368972 original size:23 final size:21
Alignment explanation
Indices: 32368917--32368973 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
32368907 AGGATCATTG
*
32368917 ATTTTATTTGTTTTGTTTTTA
1 ATTTTATTTCTTTTGTTTTTA
*
32368938 ATTTTAATTTTCTTTTGTTTGTTT
1 ATTTT-A-TTTCTTTTGTTT-TTA
32368962 ATGTTTATTTCT
1 AT-TTTATTTCT
32368974 ATTTTTAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 16 0.53
24 5 0.17
25 3 0.10
ACGTcount: A:0.14, C:0.04, G:0.09, T:0.74
Consensus pattern (21 bp):
ATTTTATTTCTTTTGTTTTTA
Found at i:32372913 original size:24 final size:24
Alignment explanation
Indices: 32372881--32372934 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32372871 ATATGTAGGT
* * *
32372881 ATAATAATAATATATAATAGAA-TA
1 ATAAAAATAATA-ATAACAAAATTA
32372905 ATAAAAATAATAATAACAAAATTA
1 ATAAAAATAATAATAACAAAATTA
32372929 ATAAAA
1 ATAAAA
32372935 TAGACTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAATAACAAAATTA
Found at i:32372919 original size:15 final size:15
Alignment explanation
Indices: 32372881--32372936 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
32372871 ATATGTAGGT
*
32372881 ATAATAATAATATATA
1 ATAATAATAATA-AAA
*
32372897 AT-AGAATAATAAAA
1 ATAATAATAATAAAA
*
32372911 ATAATAATAACAAAA
1 ATAATAATAATAAAA
*
32372926 TTAATAA-AATA
1 ATAATAATAATA
32372937 GACTAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 7 0.21
15 24 0.73
16 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAAAA
Found at i:32373180 original size:19 final size:21
Alignment explanation
Indices: 32373142--32373180 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
32373132 CCTTTTTTAA
*
32373142 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
32373163 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
32373181 AAGAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:32373402 original size:24 final size:22
Alignment explanation
Indices: 32373355--32373423 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
32373345 TACAAATTAA
* *
32373355 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTGC-ATATCAT
32373377 ATCTTCTAAGATTG--TA-CAT
1 ATCTTCTAAGATTGCATATCAT
32373396 ATCATATCTAAGATTGCATATCAT
1 ATC-T-TCTAAGATTGCATATCAT
32373420 ATCT
1 ATCT
32373424 AAGATTGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 10 0.26
22 5 0.13
23 10 0.26
24 6 0.15
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
ATCTTCTAAGATTGCATATCAT
Found at i:32373407 original size:21 final size:21
Alignment explanation
Indices: 32373374--32373432 Score: 90
Period size: 19 Copynumber: 3.0 Consensus size: 21
32373364 ATTACAAAAT
32373374 CATATC-T-TCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
32373393 CATATCATATCTAAGATTG--
1 CATATCATATCTAAGATTGTA
32373412 CATATCATATCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
32373433 TATCCTCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 25 0.69
20 1 0.03
21 10 0.28
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
CATATCATATCTAAGATTGTA
Found at i:32377826 original size:101 final size:102
Alignment explanation
Indices: 32377710--32377892 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 102
32377700 AAAGTGATGG
* *
32377710 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
*
32377774 CTATGTGCAGGATACTATGCGTACCAGATAGCTTCGA
66 CTATGTGAAGGATACTATGCGTACCAGATAGCTTCGA
* * * * * *
32377811 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCATATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
*
32377876 CTATGTGAAGGCTACTA
66 CTATGTGAAGGATACTA
32377893 CGTGTATCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 38 0.54
102 33 0.46
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
CTATGTGAAGGATACTATGCGTACCAGATAGCTTCGA
Found at i:32377900 original size:51 final size:51
Alignment explanation
Indices: 32377706--32377898 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
32377696 AGTGAAAGTG
* *
32377706 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
* * * * * * *
32377756 AAGGTCGCATGTGTAGTACTATGTGCAGGATACTATGCGTACCAGATAGCTT-
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATA--TTA
* * * * *
32377808 -CGATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCATATATTA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
*
32377858 ATGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA
32377899 TCGAATGATA
Statistics
Matches: 116, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 75 0.65
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
Found at i:32380855 original size:6 final size:6
Alignment explanation
Indices: 32380846--32380968 Score: 56
Period size: 6 Copynumber: 20.2 Consensus size: 6
32380836 TCGAATAACC
* * * ** *
32380846 ATAAAA ATAAAA ATATAG TTCAAAA GATAATAA ATGGAA A-AAAA GTAA-A
1 ATAAAA ATAAAA ATAAAA AT-AAAA -ATAA-AA ATAAAA ATAAAA ATAAAA
* * *
32380895 ATAAAA ATAAAA CA-ACTAAA A-AAAT ATAAAA ATAAAC ATAAAA TTAAAA
1 ATAAAA ATAAAA -ATA--AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* * *
32380944 TTAAAA TTAAAA TTAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
32380969 CAAATAAAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
5 9 0.10
6 66 0.73
7 9 0.10
8 6 0.07
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:32380906 original size:18 final size:17
Alignment explanation
Indices: 32380885--32380977 Score: 73
Period size: 18 Copynumber: 5.2 Consensus size: 17
32380875 ATAAATGGAA
32380885 AAAAAGTAAAATAAAAAT
1 AAAAA-TAAAATAAAAAT
*
32380903 AAAACAACTAAAA-AAATAT
1 -AAA-AA-TAAAATAAAAAT
*
32380922 AAAAATAAACATAAAATT
1 AAAAATAAA-ATAAAAAT
* *
32380940 AAAATTAAAATTAAAATT
1 AAAAATAAAA-TAAAAAT
*
32380958 AAAAATAAAA-ACAAAT
1 AAAAATAAAATAAAAAT
32380974 AAAA
1 AAAA
32380978 TCAATGATCG
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
16 12 0.19
17 4 0.06
18 31 0.50
19 8 0.13
20 7 0.11
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:32380935 original size:12 final size:11
Alignment explanation
Indices: 32380885--32380978 Score: 73
Period size: 12 Copynumber: 8.0 Consensus size: 11
32380875 ATAAATGGAA
32380885 AAAAAGTAAAAT
1 AAAAA-TAAAAT
*
32380897 AAAAATAAAAC
1 AAAAATAAAAT
*
32380908 AACTAAAAAAATAT
1 AA--AAATAAA-AT
32380922 AAAAATAAACAT
1 AAAAATAAA-AT
*
32380934 AAAATTAAAATT
1 AAAAATAAAA-T
*
32380946 AAAATTAAAATT
1 AAAAATAAAA-T
32380958 AAAAATAAAA-
1 AAAAATAAAAT
*
32380968 ACAAATAAAAT
1 AAAAATAAAAT
32380979 CAATGATCGT
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.13
11 8 0.12
12 43 0.62
13 6 0.09
14 3 0.04
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.20
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:32381751 original size:37 final size:37
Alignment explanation
Indices: 32381704--32381777 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
32381694 GACTCAAAGT
32381704 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
1 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
32381741 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
1 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
32381778 CCAAGGTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.65, C:0.11, G:0.08, T:0.16
Consensus pattern (37 bp):
AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
Found at i:32381879 original size:4 final size:4
Alignment explanation
Indices: 32381864--32381933 Score: 56
Period size: 4 Copynumber: 17.0 Consensus size: 4
32381854 TAAGAAGAGG
* *
32381864 AATA AGATA AATA AATG AATA AATA AATA GAAGA AA-A TAATA AATTA
1 AATA A-ATA AATA AATA AATA AATA AATA -AATA AATA -AATA AA-TA
32381911 AATA AAT- AA-A AATA AATTA AATA
1 AATA AATA AATA AATA AA-TA AATA
32381934 GGGAAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 5 0.09
4 34 0.62
5 16 0.29
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:32381886 original size:8 final size:8
Alignment explanation
Indices: 32381864--32381933 Score: 56
Period size: 9 Copynumber: 8.5 Consensus size: 8
32381854 TAAGAAGAGG
32381864 AATAAGATA
1 AATAA-ATA
*
32381873 AATAAATG
1 AATAAATA
32381881 AATAAATA
1 AATAAATA
*
32381889 AATAGAAGA
1 AATA-AATA
32381898 AA-ATAATA
1 AATA-AATA
32381906 AATTAAATA
1 AA-TAAATA
32381915 AAT-AA-A
1 AATAAATA
32381921 AATAAATTA
1 AATAAA-TA
32381930 AATA
1 AATA
32381934 GGGAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.08
7 4 0.08
8 20 0.40
9 21 0.42
10 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (8 bp):
AATAAATA
Found at i:32381901 original size:26 final size:27
Alignment explanation
Indices: 32381867--32381927 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
32381857 GAAGAGGAAT
*
32381867 AAGATAAATAAATGAA-TAAATAAATAG
1 AAGATAAAT-AATAAATTAAATAAATAG
32381894 AAGA-AAATAATAAATTAAATAAATA-
1 AAGATAAATAATAAATTAAATAAATAG
*
32381919 AAAATAAAT
1 AAGATAAAT
32381928 TAAATAGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 8 0.27
26 18 0.60
27 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (27 bp):
AAGATAAATAATAAATTAAATAAATAG
Found at i:32381912 original size:22 final size:21
Alignment explanation
Indices: 32381876--32381943 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
32381866 TAAGATAAAT
32381876 AAATGAATAAA-TAAATAGAAGA
1 AAAT-AATAAATTAAATAGAA-A
*
32381898 AAATAATAAATTAAATA-AAT
1 AAATAATAAATTAAATAGAAA
32381918 AAA-AATAAATTAAATAGGGAAA
1 AAATAATAAATTAAATA--GAAA
32381940 AAAT
1 AAAT
32381944 CAACGGAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 8 0.21
22 15 0.38
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (21 bp):
AAATAATAAATTAAATAGAAA
Found at i:32381941 original size:19 final size:19
Alignment explanation
Indices: 32381881--32381933 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
32381871 TAAATAAATG
32381881 AATAAA-TAAATAGAAGAAAA
1 AATAAATTAAATA-AAG-AAA
*
32381901 TAATAAATTAAATAAATAAA
1 -AATAAATTAAATAAAGAAA
32381921 AATAAATTAAATA
1 AATAAATTAAATA
32381934 GGGAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 8 0.27
22 6 0.20
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAAATTAAATAAAGAAA
Found at i:32386875 original size:10 final size:10
Alignment explanation
Indices: 32386860--32386909 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
32386850 TAAAGGATAT
*
32386860 ATTAATTTTA
1 ATTAATTTTG
32386870 ATTAATTTT-
1 ATTAATTTTG
32386879 ATGCTCAATTTTG
1 AT--T-AATTTTG
32386892 ATTAATTTTG
1 ATTAATTTTG
32386902 ATT-ATTTT
1 ATTAATTTT
32386910 CGATAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.19
10 19 0.53
11 2 0.06
12 6 0.17
13 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (10 bp):
ATTAATTTTG
Found at i:32389128 original size:25 final size:22
Alignment explanation
Indices: 32389110--32389158 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
32389100 AGAATGATGG
32389110 TTGAGGGATGATTGAAGAATGA
1 TTGAGGGATGATTGAAGAATGA
*
32389132 TTGTGGGATGATTGAAGAATGA
1 TTGAGGGATGATTGAAGAATGA
*
32389154 ATGAG
1 TTGAG
32389159 AGGGTCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.29
Consensus pattern (22 bp):
TTGAGGGATGATTGAAGAATGA
Found at i:32390608 original size:40 final size:40
Alignment explanation
Indices: 32390571--32390755 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
32390561 GCTACTCGTT
*
32390571 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
32390611 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
32390651 CAAATGCCTTCGGG-CTTAGCCCGAAATTATTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
32390690 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
32390731 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32390756 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:32390688 original size:79 final size:80
Alignment explanation
Indices: 32390571--32390753 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 80
32390561 GCTACTCGTT
* *
32390571 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGATTATA-TAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
32390635 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
32390651 CAAATGCCTTCGGG-CTTAGCCCGAAATTAT-TATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCG--ATTATATAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
32390714 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
32390731 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
32390754 GACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 31 0.35
81 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATATAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:32398652 original size:79 final size:81
Alignment explanation
Indices: 32398484--32398668 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
32398474 GCTACTCGTT
* *
32398484 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCAG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCAG
* *
32398548 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* **
32398564 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTGGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTT-AACC
* *
32398626 -GGATATGGTCACTTAGCA
64 AGGATATAGTAAC-TAGCA
32398644 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32398669 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCAG
GATATAGTAACTAGCA
Found at i:32398668 original size:40 final size:40
Alignment explanation
Indices: 32398465--32398668 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
32398455 CGGAATTTAA
** *
32398465 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32398505 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32398545 CAGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
32398584 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTGGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
32398624 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32398664 CCGGA
1 CCGGA
32398669 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32400635 original size:40 final size:40
Alignment explanation
Indices: 32400453--32400675 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
32400443 TCCTCGTTCA
* * * * *
32400453 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32400492 AATGCCTTTGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32400532 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32400572 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
32400612 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32400652 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32400676 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32400684 original size:41 final size:41
Alignment explanation
Indices: 32400607--32400684 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32400597 TTAGTATCTC
* * *
32400607 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32400648 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32400685 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32408587 original size:40 final size:40
Alignment explanation
Indices: 32408405--32408627 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
32408395 TCCTCGTTCA
* * * * * *
32408405 AATGCCTTCAGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
32408444 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
32408484 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
32408524 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
32408564 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
32408604 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32408628 CAACATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:32408636 original size:41 final size:41
Alignment explanation
Indices: 32408559--32408636 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32408549 TTAGTATCTC
* * *
32408559 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
32408600 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGA-AACATTCA
32408637 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:32427877 original size:27 final size:27
Alignment explanation
Indices: 32427847--32427899 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
32427837 ACATCGAGAG
* *
32427847 TATTTCGGTTATTTTACCCTTCGGGGA
1 TATTTCGGTCATTTTACCCTACGGGGA
*
32427874 TATTTTGGTCATTTTACCCTACGGGG
1 TATTTCGGTCATTTTACCCTACGGGG
32427900 GTCTCAGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (27 bp):
TATTTCGGTCATTTTACCCTACGGGGA
Found at i:32430999 original size:21 final size:21
Alignment explanation
Indices: 32430975--32431041 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
32430965 GTGAAAAAAT
*
32430975 GCTCATAAGATCTGAACAGAA
1 GCTCATAAGAGCTGAACAGAA
* *
32430996 GCTCGA-AAGAGCTGAATATAA
1 GCTC-ATAAGAGCTGAACAGAA
*
32431017 GCTCATAAGAGCTGAACAGAT
1 GCTCATAAGAGCTGAACAGAA
32431038 GCTC
1 GCTC
32431042 GAAAAAGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (21 bp):
GCTCATAAGAGCTGAACAGAA
Found at i:32431050 original size:21 final size:21
Alignment explanation
Indices: 32430981--32431050 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
32430971 AAATGCTCAT
*
32430981 AAGATCTGAACAGAAGCTCGA
1 AAGAGCTGAACAGAAGCTCGA
* *
32431002 AAGAGCTGAATATAAGCTC-A
1 AAGAGCTGAACAGAAGCTCGA
*
32431022 TAAGAGCTGAACAGATGCTCGA
1 -AAGAGCTGAACAGAAGCTCGA
*
32431044 AAAAGCT
1 AAGAGCT
32431051 TATCAAATGC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
AAGAGCTGAACAGAAGCTCGA
Found at i:32431063 original size:42 final size:42
Alignment explanation
Indices: 32430966--32431069 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
32430956 GAGTAAATCG
* * *
32430966 TGAAAAAATGCTCATAAGATCTGAACAGAAGCTCGAAAGAGC
1 TGAATAAATGCTCATAAGAGCTGAACAGAAGCTCGAAAAAGC
*
32431008 TGAATATAA-GCTCATAAGAGCTGAACAGATGCTCGAAAAAGC
1 TGAATA-AATGCTCATAAGAGCTGAACAGAAGCTCGAAAAAGC
*
32431050 T-TATCAAATGCTCATAAGAG
1 TGAAT-AAATGCTCATAAGAG
32431070 TTTAACAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 4 0.07
42 48 0.89
43 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (42 bp):
TGAATAAATGCTCATAAGAGCTGAACAGAAGCTCGAAAAAGC
Found at i:32431078 original size:21 final size:21
Alignment explanation
Indices: 32430971--32431078 Score: 71
Period size: 21 Copynumber: 5.1 Consensus size: 21
32430961 AATCGTGAAA
* *
32430971 AAATGCTCATAAGATCTGAAC
1 AAATGCTCATAAGAGCTTAAC
* *
32430992 AGAA-GCTCGA-AAGAGCTGAAT
1 A-AATGCTC-ATAAGAGCTTAAC
*
32431013 ATAA-GCTCATAAGAGCTGAAC
1 A-AATGCTCATAAGAGCTTAAC
* * *
32431034 AGATGCTCGA-AAAAGCTTATC
1 AAATGCTC-ATAAGAGCTTAAC
*
32431055 AAATGCTCATAAGAGTTTAAC
1 AAATGCTCATAAGAGCTTAAC
32431076 AAA
1 AAA
32431079 AGCTTAAAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
20 3 0.04
21 62 0.90
22 4 0.06
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (21 bp):
AAATGCTCATAAGAGCTTAAC
Found at i:32439496 original size:39 final size:40
Alignment explanation
Indices: 32439453--32439542 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 40
32439443 TCCTCGTTCA
* * **
32439453 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
*
32439492 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
32439532 AATGCCTTCGG
1 AATGCCTTCGG
32439543 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.76
40 11 0.24
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
Found at i:32447360 original size:39 final size:40
Alignment explanation
Indices: 32447317--32447406 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 40
32447307 TCCTCGTTCA
* * **
32447317 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
*
32447356 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
32447396 AATGCCTTCGG
1 AATGCCTTCGG
32447407 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.76
40 11 0.24
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACACG
Found at i:32455182 original size:27 final size:27
Alignment explanation
Indices: 32455151--32455237 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
32455141 TTTCATCTCC
32455151 TAATTTTACCCTTCAGGGGTATTACAGA
1 TAATTTTACCCTTCAGGGGTATTAC-GA
*
32455179 -AATTTTACCCTTC-GAGGGTATTTCGA
1 TAATTTTACCCTTCAG-GGGTATTACGA
* *
32455205 TAATTTTACCCTTCAGGGGTATTTCAA
1 TAATTTTACCCTTCAGGGGTATTACGA
32455232 TAATTT
1 TAATTT
32455238 AACAACCTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.06
27 50 0.93
28 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (27 bp):
TAATTTTACCCTTCAGGGGTATTACGA
Found at i:32456767 original size:25 final size:25
Alignment explanation
Indices: 32456730--32456783 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
32456720 TAAACCTCTG
*
32456730 ACCTTCTTACCACACATGTGACACC
1 ACCTCCTTACCACACATGTGACACC
* * * *
32456755 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACATGTGACACC
32456780 ACCT
1 ACCT
32456784 TGCCACTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.44, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACATGTGACACC
Found at i:32460825 original size:12 final size:13
Alignment explanation
Indices: 32460800--32460829 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
32460790 CGGGCTATAA
32460800 TTATTGCATTTAT
1 TTATTGCATTTAT
32460813 TTATTGC-TTTAT
1 TTATTGCATTTAT
32460825 TTATT
1 TTATT
32460830 CATGTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (13 bp):
TTATTGCATTTAT
Found at i:32465179 original size:50 final size:50
Alignment explanation
Indices: 32465099--32465276 Score: 200
Period size: 49 Copynumber: 3.6 Consensus size: 50
32465089 AGTTGCTAGA
* *
32465099 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATG-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGAATAGG
* * * ** * *
32465149 TCACATGTGTAGTACTACGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GAATAGG
* * *
32465200 TCACGTGTGTAGTAC--TGTGCAGGCTACTACGTGTATCGGATGAAAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAATA-GG
32465249 TCACATGTGTAGTACTATGTGCAGGCTA
1 TCACATGTGTAGTACTATGTGCAGGCTA
32465277 ATAAGTGAAC
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.38
50 36 0.35
51 27 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAATAGG
Found at i:32465240 original size:49 final size:49
Alignment explanation
Indices: 32465095--32465276 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 49
32465085 GTGAAGTTGC
*
32465095 TAGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGA
1 TAGATCACGTGTGTAGTAC--TGTGCAGGCTACTACGTGTACCGGATATGA
* * * * *
32465145 TAGGTCACATGTGTAGTACTACGTGCAGGCTACTATGCGTACCGGATA-GCT
1 TAGATCACGTGTGTAGTACT--GTGCAGGCTACTACGTGTACCGGATATG-A
* * **
32465196 TCGATCACGTGTGTAGTACTGTGCAGGCTACTACGTGTATCGGATGAAAA
1 TAGATCACGTGTGTAGTACTGTGCAGGCTACTACGTGTACCGGAT-ATGA
* *
32465246 T-GGTCACATGTGTAGTACTATGTGCAGGCTA
1 TAGATCACGTGTGTAGTAC--TGTGCAGGCTA
32465277 ATAAGTGAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
48 1 0.01
49 37 0.34
50 41 0.38
51 29 0.27
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TAGATCACGTGTGTAGTACTGTGCAGGCTACTACGTGTACCGGATATGA
Found at i:32465289 original size:100 final size:100
Alignment explanation
Indices: 32465097--32465289 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 100
32465087 GAAGTTGCTA
*
32465097 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGT
1 GATCACGTGTGTAGTAC-ATGTGCAGGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGT
* * *
32465162 ACTACGTGCAGGCTACTATGCGTACCGGATAGCTTC
65 ACTACGTGCAGGCTAATAAGCGAACCGGATAGCTTC
* *
32465198 GATCACGTGTGTAGTAC-TGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAG
1 GATCACGTGTGTAGTACATGTGCAGGCTACTACGTGTACCAGAATG-AAA-GGTCACATGTGTAG
* *
32465261 TACTATGTGCAGGCTAATAAGTGAACCGG
64 TACTACGTGCAGGCTAATAAGCGAACCGG
32465290 GTATCATTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
98 4 0.05
99 23 0.28
100 38 0.46
101 17 0.21
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (100 bp):
GATCACGTGTGTAGTACATGTGCAGGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTA
CTACGTGCAGGCTAATAAGCGAACCGGATAGCTTC
Found at i:32468624 original size:18 final size:18
Alignment explanation
Indices: 32468597--32468631 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32468587 CAGCAGAAAT
32468597 ATGATCGTCACACTAAGC
1 ATGATCGTCACACTAAGC
* *
32468615 ATGATTGTCACTCTAAG
1 ATGATCGTCACACTAAG
32468632 TCGCTTGGTA
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:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (18 bp):
ATGATCGTCACACTAAGC
Found at i:32469009 original size:32 final size:35
Alignment explanation
Indices: 32468949--32469015 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 35
32468939 TTATTTTTTT
*
32468949 AATATTATATTTTTAATTGCAATAATTAAA-ATAA
1 AATAATATATTTTTAATTGCAATAATTAAATATAA
* *
32468983 AATAATAT-TTTTTATTTG-AATTATTAAATATAA
1 AATAATATATTTTTAATTGCAATAATTAAATATAA
32469016 TTAAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 13 0.45
34 7 0.24
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (35 bp):
AATAATATATTTTTAATTGCAATAATTAAATATAA
Done.