Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 197 of 770
Found at i:58937475 original size:13 final size:14
Alignment explanation
Indices: 58937457--58937487 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
58937447 AGACCATTTT
58937457 ATTTTTTTTTTCA-
1 ATTTTTTTTTTCAG
58937470 ATTTTTTTTTTCAG
1 ATTTTTTTTTTCAG
58937484 ATTT
1 ATTT
58937488 AAAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTTTTTTTTTCAG
Found at i:58938687 original size:15 final size:16
Alignment explanation
Indices: 58938667--58938699 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
58938657 TCATATTTAA
58938667 TTAA-TTTTTTATAAT
1 TTAATTTTTTTATAAT
58938682 TTAATTTTTTTATAAT
1 TTAATTTTTTTATAAT
58938698 TT
1 TT
58938700 TAATACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAATTTTTTTATAAT
Found at i:58938697 original size:26 final size:27
Alignment explanation
Indices: 58938668--58938728 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
58938658 CATATTTAAT
*
58938668 TAATTTTTTATAATTTAATTT-TTTTA
1 TAATTTTTAATAATTTAATTTATTTTA
* *
58938694 TAA-TTTTAATACTTTTATTTATTTTA
1 TAATTTTTAATAATTTAATTTATTTTA
58938720 -AATTTTTAA
1 TAATTTTTAA
58938729 AAGTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TAATTTTTAATAATTTAATTTATTTTA
Found at i:58938701 original size:17 final size:17
Alignment explanation
Indices: 58938667--58938726 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
58938657 TCATATTTAA
58938667 TTAA-TTTTTTATAA-T
1 TTAATTTTTTTATAATT
58938682 TTAATTTTTTTATAATT
1 TTAATTTTTTTATAATT
** *
58938699 TTAATACTTTTATTTATT
1 TTAATTTTTTTA-TAATT
58938717 TTAAATTTTT
1 TT-AATTTTT
58938727 AAAAGTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 4 0.11
16 10 0.28
17 11 0.31
18 6 0.17
19 5 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTAATTTTTTTATAATT
Found at i:58944309 original size:139 final size:139
Alignment explanation
Indices: 58944133--58944407 Score: 478
Period size: 139 Copynumber: 2.0 Consensus size: 139
58944123 ACACTTCCTC
* *
58944133 CGAATAACAACCCCCAACCCAATGCAATACAACATACAATGGATGATATGTTATTATGCAATTTT
1 CGAATAACAACCCCCAACCCAATACAATACAACATACAATGGATGATATGATATTATGCAATTTT
*
58944198 AGTACATTTATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACA
66 AGTACATATATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACA
58944263 TTTAGGCTT
131 TTTAGGCTT
* *
58944272 CGAATAACAACCCCCAACCCAATACAATGCAACATACAATGGATGATATGATATTGTGCAATTTT
1 CGAATAACAACCCCCAACCCAATACAATACAACATACAATGGATGATATGATATTATGCAATTTT
* * *
58944337 AGTACATATATTCAGTTCAGATATTAACATGTTCAGTACAGATATTATTCAGTCAATTTCATACA
66 AGTACATATATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACA
58944402 TTTAGG
131 TTTAGG
58944408 GGTTTAAATA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 128 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (139 bp):
CGAATAACAACCCCCAACCCAATACAATACAACATACAATGGATGATATGATATTATGCAATTTT
AGTACATATATTCAGTTCAGATATTAACATGCTCAGTACAGATATCATTCAGTCAATTTCACACA
TTTAGGCTT
Found at i:58946019 original size:24 final size:24
Alignment explanation
Indices: 58945987--58946039 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
58945977 CTTAACCACC
*
58945987 AAACCAGCAAGCCCATTCTAATAT
1 AAACTAGCAAGCCCATTCTAATAT
58946011 AAACTAGCAAGCCCATTCTAATAT
1 AAACTAGCAAGCCCATTCTAATAT
58946035 AAACT
1 AAACT
58946040 TACTAACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.26, G:0.08, T:0.23
Consensus pattern (24 bp):
AAACTAGCAAGCCCATTCTAATAT
Found at i:58955254 original size:6 final size:6
Alignment explanation
Indices: 58955243--58955280 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
58955233 CCAACCACCG
*
58955243 CCAAAA CCAAAA CCAAAA TCAAAA CCAAAA CCAAAA CC
1 CCAAAA CCAAAA CCAAAA CCAAAA CCAAAA CCAAAA CC
58955281 TTCAGTCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.63, C:0.34, G:0.00, T:0.03
Consensus pattern (6 bp):
CCAAAA
Found at i:58959542 original size:17 final size:17
Alignment explanation
Indices: 58959520--58959554 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58959510 AATTTCACAC
58959520 ATTTCATATTTAAATAG
1 ATTTCATATTTAAATAG
58959537 ATTTCATATTTAAATAG
1 ATTTCATATTTAAATAG
58959554 A
1 A
58959555 CTAAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTTCATATTTAAATAG
Found at i:58961428 original size:37 final size:37
Alignment explanation
Indices: 58961387--58961462 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
58961377 CATTTAAGCT
58961387 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
1 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
58961424 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
1 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
58961461 TA
1 TA
58961463 TCCATAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (37 bp):
TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
Found at i:58961813 original size:25 final size:25
Alignment explanation
Indices: 58961784--58961869 Score: 154
Period size: 25 Copynumber: 3.4 Consensus size: 25
58961774 ACGAGCTATA
* *
58961784 AACGGTAAGCTTTTTTGAGCTGAAT
1 AACGGTAAGCTTTTCTAAGCTGAAT
58961809 AACGGTAAGCTTTTCTAAGCTGAAT
1 AACGGTAAGCTTTTCTAAGCTGAAT
58961834 AACGGTAAGCTTTTCTAAGCTGAAT
1 AACGGTAAGCTTTTCTAAGCTGAAT
58961859 AACGGTAAGCT
1 AACGGTAAGCT
58961870 CCTCTGACTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (25 bp):
AACGGTAAGCTTTTCTAAGCTGAAT
Found at i:58961887 original size:50 final size:50
Alignment explanation
Indices: 58961784--58961894 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
58961774 ACGAGCTATA
* * **
58961784 AACGGTAAGCTTTTTTGAGCTGAATAACGGTAAGCTTTTCTAAGCTGAAT
1 AACGGTAAGCTTTTCTAAGCTGAATAACGGTAAGCTCCTCTAAGCTGAAT
* *
58961834 AACGGTAAGCTTTTCTAAGCTGAATAACGGTAAGCTCCTCTGA-CTTGAGT
1 AACGGTAAGCTTTTCTAAGCTGAATAACGGTAAGCTCCTCTAAGC-TGAAT
58961884 AACGGTAAGCT
1 AACGGTAAGCT
58961895 CATACGACCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.02
50 53 0.98
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (50 bp):
AACGGTAAGCTTTTCTAAGCTGAATAACGGTAAGCTCCTCTAAGCTGAAT
Found at i:58961909 original size:25 final size:25
Alignment explanation
Indices: 58961858--58961909 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
58961848 CTAAGCTGAA
* * *
58961858 TAACGGTAAGCTCCTCTGACTTGAG
1 TAACGGTAAGCTCATCTGACCTAAG
58961883 TAACGGTAAGCTCATAC-GACCTAAG
1 TAACGGTAAGCTCAT-CTGACCTAAG
58961908 TA
1 TA
58961910 TCAATAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (25 bp):
TAACGGTAAGCTCATCTGACCTAAG
Found at i:58962076 original size:22 final size:23
Alignment explanation
Indices: 58962050--58962093 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
58962040 CAATTCACAA
*
58962050 ATAAATATTCAATTTAA-AACAT
1 ATAAATATACAATTTAATAACAT
*
58962072 ATAAATGTACAATTTAATAACA
1 ATAAATATACAATTTAATAACA
58962094 CGAATTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATATACAATTTAATAACAT
Found at i:58963164 original size:16 final size:16
Alignment explanation
Indices: 58963143--58963175 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58963133 ACGGGCTGTT
58963143 ACACAATATTTGGGGA
1 ACACAATATTTGGGGA
58963159 ACACAATATTTGGGGA
1 ACACAATATTTGGGGA
58963175 A
1 A
58963176 TAAGCATCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (16 bp):
ACACAATATTTGGGGA
Found at i:58964859 original size:2 final size:2
Alignment explanation
Indices: 58964852--58964879 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58964842 TGCAAAAATT
58964852 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58964880 AGCAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58969393 original size:28 final size:28
Alignment explanation
Indices: 58969358--58969413 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
58969348 CTTATGTTTG
58969358 TGGGATTGGTTTCTTTATTCCCAATATC
1 TGGGATTGGTTTCTTTATTCCCAATATC
*
58969386 TGGGATTGGTTTCTTTATTTCCAATATC
1 TGGGATTGGTTTCTTTATTCCCAATATC
58969414 AACGGAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (28 bp):
TGGGATTGGTTTCTTTATTCCCAATATC
Found at i:58972724 original size:28 final size:28
Alignment explanation
Indices: 58972692--58972748 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
58972682 TAACCTTAAA
58972692 TCCAAA-CCATAAACTTGTAACCCCAAAC
1 TCCAAATCCAT-AACTTGTAACCCCAAAC
* *
58972720 TCCAAATTCATAACTTGTAACCCTAAAC
1 TCCAAATCCATAACTTGTAACCCCAAAC
58972748 T
1 T
58972749 ATCAAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.25
Consensus pattern (28 bp):
TCCAAATCCATAACTTGTAACCCCAAAC
Found at i:58974549 original size:17 final size:16
Alignment explanation
Indices: 58974511--58974553 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
58974501 ATATTAATAT
58974511 ATTTTATATTTGTTTAA
1 ATTTTA-ATTTGTTTAA
58974528 A-TTTAATTTGTTTTAA
1 ATTTTAATTTG-TTTAA
58974544 ATTTTAATTT
1 ATTTTAATTT
58974554 AAAATTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTGTTTAA
Found at i:58974629 original size:21 final size:21
Alignment explanation
Indices: 58974604--58974648 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58974594 CTCAAGTCCA
*
58974604 TTTTAAGTCTGTCTATATTAT
1 TTTTAAATCTGTCTATATTAT
* * *
58974625 TTTTAAATTTTTTTATATTAT
1 TTTTAAATCTGTCTATATTAT
58974646 TTT
1 TTT
58974649 AATTTAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTAAATCTGTCTATATTAT
Found at i:58974689 original size:18 final size:18
Alignment explanation
Indices: 58974647--58974689 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
58974637 TTATATTATT
*
58974647 TTAATTTAATATTTTTTA
1 TTAATTAAATATTTTTTA
*
58974665 TTTATTAAAT-TTTTTTA
1 TTAATTAAATATTTTTTA
58974682 TATAATTA
1 T-TAATTA
58974690 TTTTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATTAAATATTTTTTA
Found at i:58974695 original size:40 final size:41
Alignment explanation
Indices: 58974621--58974700 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
58974611 TCTGTCTATA
*
58974621 TTATTTTTAAATTTTTTTATATTATTTTAATTTAATATTTT
1 TTATTTTTAAATTTTTTTATATTATATTAATTTAATATTTT
*
58974662 TTATTTATTAAATTTTTTTATA-TA-ATTATTTTAATATTT
1 TTATTT-TTAAATTTTTTTATATTATATTAATTTAATATTT
58974701 ACATTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 13 0.36
41 8 0.22
42 15 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (41 bp):
TTATTTTTAAATTTTTTTATATTATATTAATTTAATATTTT
Found at i:58974766 original size:16 final size:17
Alignment explanation
Indices: 58974747--58974788 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
58974737 ATTATATCAT
58974747 ATATAAAAATAATAT-A
1 ATATAAAAATAATATAA
*
58974763 ATAT-AAAATATTATAA
1 ATATAAAAATAATATAA
*
58974779 ACATAAAAAT
1 ATATAAAAAT
58974789 GAAATCCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATATAAAAATAATATAA
Found at i:58975974 original size:20 final size:19
Alignment explanation
Indices: 58975942--58975979 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
58975932 ACCCTTAAAT
58975942 CCTAAACATGAACCTTGAAC
1 CCTAAACATGAA-CTTGAAC
58975962 CCTAAACCA-GAACTTGAA
1 CCTAAA-CATGAACTTGAA
58975980 TCCAAATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 9 0.53
21 2 0.12
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (19 bp):
CCTAAACATGAACTTGAAC
Found at i:58980567 original size:21 final size:17
Alignment explanation
Indices: 58980527--58980587 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 17
58980517 TCTTATATGG
*
58980527 TATTATTTTT-A-ACAT
1 TATTATTTTTAATATAT
58980542 TATTATTTTTACTATTATATT
1 TATTATTTTTA--A-TATA-T
58980563 TATTATTTTTAATATAT
1 TATTATTTTTAATATAT
58980580 TATTATTT
1 TATTATTT
58980588 ACTACTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 10 0.26
17 9 0.23
18 5 0.13
19 1 0.03
20 2 0.05
21 12 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTTTTAATATAT
Found at i:58980568 original size:36 final size:36
Alignment explanation
Indices: 58980527--58980599 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 36
58980517 TCTTATATGG
58980527 TATTATTTTTAACATTATTATT-TTTACTA-TTATATT
1 TATTATTTTTAACA-TATTATTATTTACTACTT-TATT
*
58980563 TATTATTTTTAATATATTATTATTTACTACTTTATT
1 TATTATTTTTAACATATTATTATTTACTACTTTATT
58980599 T
1 T
58980600 TCCTTACCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.21
36 25 0.74
37 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (36 bp):
TATTATTTTTAACATATTATTATTTACTACTTTATT
Found at i:58980656 original size:3 final size:3
Alignment explanation
Indices: 58980642--58980689 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
58980632 TGTATTTTTC
* ** *
58980642 TAT TAT TGT TAT TAT TAT TAT CCT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58980690 CATAGTACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:58980662 original size:15 final size:15
Alignment explanation
Indices: 58980650--58980689 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
58980640 TCTATTATTG
*
58980650 TTATTATTATTATCC
1 TTATTATTATTATCA
58980665 TTATTATTATTATCA
1 TTATTATTATTATCA
58980680 TTATTATTAT
1 TTATTATTAT
58980690 CATAGTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:58980867 original size:14 final size:14
Alignment explanation
Indices: 58980848--58980874 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58980838 TGTAACATTA
58980848 TTTTTTTTCTTTTC
1 TTTTTTTTCTTTTC
58980862 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
58980875 TAATATGTAT
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:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:58981078 original size:21 final size:20
Alignment explanation
Indices: 58981037--58981083 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
58981027 TTTTTTATTT
*
58981037 TATTATATGTATATCTTTAA
1 TATTATATGCATATCTTTAA
58981057 TATTATATTGCATAT-TTCTAA
1 TATTATA-TGCATATCTT-TAA
58981078 TATTAT
1 TATTAT
58981084 TATTACTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTATATGCATATCTTTAA
Found at i:58993323 original size:70 final size:69
Alignment explanation
Indices: 58993204--58993335 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 69
58993194 GTTTTCCAAG
* *
58993204 AAAATCAGCTCATATTGCGAGAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATG
1 AAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATG
58993269 TTTC
66 TTTC
* * *
58993273 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
58993336 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
69 20 0.35
70 37 0.65
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATG
TTTC
Found at i:58993535 original size:159 final size:160
Alignment explanation
Indices: 58993110--58993654 Score: 965
Period size: 159 Copynumber: 3.4 Consensus size: 160
58993100 ATTTTGTTTT
*
58993110 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
58993175 TTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAG-AGTGAGTTGAGCCT
66 TTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCT
58993239 CAAGACACGTTGAGGTAATTTCAATTTATG
131 CAAGACACGTTGAGGTAATTTCAATTTATG
58993269 TTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
58993333 TTTCTGCTTTTTAAATTCATGTTTTCCAAGAAAATCAGCTCATATTTCGAGAAGTGAGTTGAGCC
66 TTTCTGCTTTTT-AATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCC
58993398 TCAAGACACGTTGAGGTAATTTCAATTTATG
130 TCAAGACACGTTGAGGTAATTTCAATTTATG
58993429 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGA-GTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
58993493 TTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
66 TTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCT
*
58993558 CAAGACATGTTGAGGTAATTTCAATTTATG
131 CAAGACACGTTGAGGTAATTTCAATTTATG
* * *
58993588 TTTCAAAAAAATCAA-TCATATCGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAATTTC
1 TTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
58993651 AATT
64 AATT
58993655 CCTATTAAAT
Statistics
Matches: 372, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
158 71 0.19
159 136 0.37
160 107 0.29
161 58 0.16
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (160 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCT
CAAGACACGTTGAGGTAATTTCAATTTATG
Found at i:58993621 original size:72 final size:70
Alignment explanation
Indices: 58993522--58993771 Score: 186
Period size: 72 Copynumber: 3.5 Consensus size: 70
58993512 GTTTTCCAAG
* * * * *
58993522 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTCAATTTAT
1 AAAATCA-ATCATATTGCGAGAAGTGAGTTGAGCCTC-AGACACGCTGAGGTAATTTCAATTCAT
*
58993587 GTTTCAAA-
64 -ATT-AAAT
* * * * *
58993595 AAAATCAATCATATCGCGAGAAGTGAGTTGAACCTCGGGCACGCTGAGGTAATTTCAATTCCTAT
1 AAAATCAATCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTCATAT
58993660 TAAATCT
66 TAAA--T
* * * *
58993667 ATAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGC-GGCACGCTAAGGTATTTTCAAATTC
1 AAAATCAA-TCATATTGCGAGAAGTGAGTTGAGCC-T-CAGACACGCTGAGGTAATTTC-AATTC
*
58993731 -TATT--TT
62 ATATTAAAT
* *
58993737 CAAAAGTCAATTCATATTGCAAGAGGTGAGTTGAG
1 -AAAA-TCAA-TCATATTGCGAGAAGTGAGTTGAG
58993772 TCTTTTGATT
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
69 3 0.02
70 3 0.02
71 24 0.16
72 58 0.39
73 31 0.21
74 22 0.15
75 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (70 bp):
AAAATCAATCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTCATAT
TAAAT
Found at i:58993692 original size:73 final size:73
Alignment explanation
Indices: 58993597--58993734 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 73
58993587 GTTTCAAAAA
*
58993597 AATCAATCATATCGCGAGAAGTGAGTTGAACCTCG-GGCACGCTGAGGTAATTTC-AATTCCTAT
1 AATCAATCATATCGCGAGAAGTGAGTTGAACCTCGCGGCACGCTAAGGTAATTTCAAATT-CTAT
58993660 TAAATCTAT
65 TAAATCTAT
* * * *
58993669 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCTAT
1 AATCAA-TCATATCGCGAGAAGTGAGTTGAACCTCGCGGCACGCTAAGGTAATTTCAAATTCTAT
58993734 T
65 T
58993735 TTCAAAAGTC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 6 0.10
73 26 0.45
74 22 0.38
75 4 0.07
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (73 bp):
AATCAATCATATCGCGAGAAGTGAGTTGAACCTCGCGGCACGCTAAGGTAATTTCAAATTCTATT
AAATCTAT
Found at i:58993809 original size:72 final size:74
Alignment explanation
Indices: 58993733--58993929 Score: 303
Period size: 72 Copynumber: 2.7 Consensus size: 74
58993723 TCAAATTCTA
* *
58993733 TTTTCAAAAGTCAATTCATATTGCAAGAGGTGAGTTGAGTCTTTTGATTTCTATTTTCAATTTCT
1 TTTTCAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGTCTTTTAATTTCTATTTTCAATTTCT
58993798 -TTTTTT-T
66 GTTTTTTAT
58993805 TTTTCAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGTCTTTTTAATTTCTATTTTCAATTTC
1 TTTTCAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGTC-TTTTAATTTCTATTTTCAATTTC
58993870 TGTTTTTTAAT
65 TGTTTTTT-AT
* *
58993881 TTTTC-AAAGATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTTTAATTT
1 TTTTCAAAAG-TCAATTCATATTGCGAGAGGTGAGTTGAGTCTTTTAATTT
58993930 TCGTTTTTCA
Statistics
Matches: 116, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
72 40 0.34
73 23 0.20
74 14 0.12
75 5 0.04
76 34 0.29
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (74 bp):
TTTTCAAAAGTCAATTCATATTGCGAGAGGTGAGTTGAGTCTTTTAATTTCTATTTTCAATTTCT
GTTTTTTAT
Found at i:58994005 original size:13 final size:13
Alignment explanation
Indices: 58993989--58994013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58993979 TGAATTGAAC
58993989 CTTTTAATTTCTG
1 CTTTTAATTTCTG
58994002 CTTTTAATTTCT
1 CTTTTAATTTCT
58994014 ATGTTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:58995995 original size:21 final size:17
Alignment explanation
Indices: 58995955--58996015 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 17
58995945 TCTTATATGG
*
58995955 TATTATTTTT-A-ACAT
1 TATTATTTTTAATATAT
58995970 TATTATTTTTACTATTATATT
1 TATTATTTTTA--A-TATA-T
58995991 TATTATTTTTAATATAT
1 TATTATTTTTAATATAT
58996008 TATTATTT
1 TATTATTT
58996016 ACTACTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 10 0.26
17 9 0.23
18 5 0.13
19 1 0.03
20 2 0.05
21 12 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTTTTAATATAT
Found at i:58995996 original size:36 final size:36
Alignment explanation
Indices: 58995955--58996027 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 36
58995945 TCTTATATGG
58995955 TATTATTTTTAACATTATTATT-TTTACTA-TTATATT
1 TATTATTTTTAACA-TATTATTATTTACTACTT-TATT
*
58995991 TATTATTTTTAATATATTATTATTTACTACTTTATT
1 TATTATTTTTAACATATTATTATTTACTACTTTATT
58996027 T
1 T
58996028 TCCTTACCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.21
36 25 0.74
37 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (36 bp):
TATTATTTTTAACATATTATTATTTACTACTTTATT
Found at i:58996084 original size:3 final size:3
Alignment explanation
Indices: 58996070--58996117 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
58996060 TGTATTTTTC
* ** *
58996070 TAT TAT TGT TAT TAT TAT TAT CCT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58996118 CATAGTACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:58996090 original size:15 final size:15
Alignment explanation
Indices: 58996078--58996117 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
58996068 TCTATTATTG
*
58996078 TTATTATTATTATCC
1 TTATTATTATTATCA
58996093 TTATTATTATTATCA
1 TTATTATTATTATCA
58996108 TTATTATTAT
1 TTATTATTAT
58996118 CATAGTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:58996295 original size:14 final size:14
Alignment explanation
Indices: 58996276--58996302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58996266 TGTAACATTA
58996276 TTTTTTTTCTTTTC
1 TTTTTTTTCTTTTC
58996290 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
58996303 TAATATGTAT
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:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:58996574 original size:26 final size:24
Alignment explanation
Indices: 58996535--58996593 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
58996525 TTATTTCATT
* *
58996535 AAATAAA-AAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
58996558 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
58996584 AAATAAATAT
1 AAATAAATAT
58996594 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:58996605 original size:22 final size:22
Alignment explanation
Indices: 58996564--58996622 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
58996554 ATAATAAATC
* *
58996564 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
58996584 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
58996606 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
58996623 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:58996699 original size:15 final size:16
Alignment explanation
Indices: 58996669--58996701 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58996659 AAATAGTTAT
58996669 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
58996686 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
58996701 A
1 A
58996702 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:58997069 original size:21 final size:20
Alignment explanation
Indices: 58997028--58997074 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
58997018 TTTTTTATTT
*
58997028 TATTATATGTATATCTTTAA
1 TATTATATGCATATCTTTAA
58997048 TATTATATTGCATAT-TTCTAA
1 TATTATA-TGCATATCTT-TAA
58997069 TATTAT
1 TATTAT
58997075 TATTACTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (20 bp):
TATTATATGCATATCTTTAA
Found at i:58999112 original size:22 final size:23
Alignment explanation
Indices: 58999087--58999133 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
58999077 ATTTCTCAAC
58999087 AAAAATTACAAA-ATA-ATTTTAA
1 AAAAATTA-AAATATATATTTTAA
58999109 AAAAATTAAAATATATATTTTAA
1 AAAAATTAAAATATATATTTTAA
58999132 AA
1 AA
58999134 TATACACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.13
22 11 0.48
23 9 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAATTAAAATATATATTTTAA
Found at i:58999131 original size:14 final size:15
Alignment explanation
Indices: 58999114--58999154 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
58999104 TTTAAAAAAA
58999114 TTAAAATATATA-TT
1 TTAAAATATATACTT
*
58999128 TTAAAATATACACTT
1 TTAAAATATATACTT
*
58999143 TTTAAATATATA
1 TTAAAATATATA
58999155 AAGATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAAATATATACTT
Found at i:58999149 original size:15 final size:14
Alignment explanation
Indices: 58999114--58999152 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
58999104 TTTAAAAAAA
*
58999114 TTAAAATATATATT
1 TTAAAATATACATT
58999128 TTAAAATATACACTT
1 TTAAAATATACA-TT
*
58999143 TTTAAATATA
1 TTAAAATATA
58999153 TAAAGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAAATATACATT
Found at i:58999860 original size:11 final size:11
Alignment explanation
Indices: 58999840--58999871 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
58999830 TATATATTTT
*
58999840 AAAATTATATA
1 AAAATAATATA
58999851 AAAATAATATA
1 AAAATAATATA
58999862 AAAATAATAT
1 AAAATAATAT
58999872 GGGCGAGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATATA
Found at i:59000893 original size:17 final size:18
Alignment explanation
Indices: 59000860--59000894 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
59000850 ATTTGGTTAA
*
59000860 AATCGATTTAATGAATTC
1 AATCGATTTAATCAATTC
59000878 AATCGA-TTAATCAATTC
1 AATCGATTTAATCAATTC
59000895 GATTAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (18 bp):
AATCGATTTAATCAATTC
Found at i:59001591 original size:23 final size:23
Alignment explanation
Indices: 59001559--59001603 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
59001549 ATTTTTTCAT
* *
59001559 ATTATTTTATAAATATTTAAAAA
1 ATTATGTTATAAATATTCAAAAA
*
59001582 ATTATGTTATTAATATTCAAAA
1 ATTATGTTATAAATATTCAAAA
59001604 TTTAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATGTTATAAATATTCAAAAA
Found at i:59006602 original size:20 final size:19
Alignment explanation
Indices: 59006577--59006629 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
59006567 TGTGTATGTA
59006577 TTATATATATTTTATACATT
1 TTATATATATTTTATACA-T
* *
59006597 TTATATATATTATATATAT
1 TTATATATATTTTATACAT
59006616 TTAT-TATATTTTAT
1 TTATATATATTTTAT
59006630 GTATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 9 0.30
19 5 0.17
20 16 0.53
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATATATTTTATACAT
Found at i:59006603 original size:11 final size:11
Alignment explanation
Indices: 59006577--59006671 Score: 67
Period size: 9 Copynumber: 8.5 Consensus size: 11
59006567 TGTGTATGTA
59006577 TTATATATA-T
1 TTATATATATT
*
59006587 TT-TATACATT
1 TTATATATATT
59006597 TTATATATA--
1 TTATATATATT
59006606 TTATATATA-T
1 TTATATATATT
59006616 TTAT-TATATT
1 TTATATATATT
59006626 TTATGTATATATTT
1 TTA--TATATA-TT
59006640 TTAATATCATATT
1 TT-ATAT-ATATT
*
59006653 ATTCATATATTTT
1 -TT-ATATATATT
59006666 TTATAT
1 TTATAT
59006672 TATGTAAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
9 18 0.26
10 13 0.19
11 9 0.13
12 3 0.04
13 13 0.19
14 13 0.19
15 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:59006607 original size:29 final size:29
Alignment explanation
Indices: 59006575--59006635 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
59006565 AATGTGTATG
59006575 TATTATATATATTT-TATACATTTTATATA
1 TATTATATATATTTAT-TACATTTTATATA
* *
59006604 TATTATATATATTTATTATATTTTATGTA
1 TATTATATATATTTATTACATTTTATATA
59006633 TAT
1 TAT
59006636 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TATTATATATATTTATTACATTTTATATA
Found at i:59006634 original size:20 final size:20
Alignment explanation
Indices: 59006577--59006635 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
59006567 TGTGTATGTA
*
59006577 TTATATATATTTTATACAT-T
1 TTAT-TATATTTTATATATAT
*
59006597 TTA-TATATATTATATATAT
1 TTATTATATTTTATATATAT
*
59006616 TTATTATATTTTATGTATAT
1 TTATTATATTTTATATATAT
59006636 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 12 0.36
19 4 0.12
20 17 0.52
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATTATATTTTATATATAT
Found at i:59006991 original size:26 final size:26
Alignment explanation
Indices: 59006961--59007012 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
59006951 ATTATGTATA
*
59006961 TATTTTTAATACTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
* *
59006987 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
59007013 AATACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTCTAATACTACGTATATATTTT
Found at i:59007233 original size:18 final size:18
Alignment explanation
Indices: 59007182--59007246 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
59007172 ATACCATGTG
*
59007182 TTATTATC-GTTTCA-TA
1 TTATTATCATTTTCATTA
* *
59007198 CTATTATTATTTAT-ATTA
1 TTATTATCATTT-TCATTA
59007216 TTATTATCATTTTCATTA
1 TTATTATCATTTTCATTA
* *
59007234 TCATTGTCATTTT
1 TTATTATCATTTT
59007247 TATTTTGCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 6 0.16
17 4 0.11
18 28 0.74
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.60
Consensus pattern (18 bp):
TTATTATCATTTTCATTA
Found at i:59012929 original size:21 final size:21
Alignment explanation
Indices: 59012904--59012967 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
59012894 TAGCCTTCGG
59012904 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
59012925 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
59012943 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
59012964 GCTT
1 GCTT
59012968 TAGCTTGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 8 0.24
21 11 0.32
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:59012933 original size:39 final size:39
Alignment explanation
Indices: 59012887--59012967 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
59012877 CTCTGATGAA
59012887 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
59012926 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
59012965 CTT
1 CTT
59012968 TAGCTTGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (39 bp):
CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
Found at i:59012981 original size:39 final size:39
Alignment explanation
Indices: 59012887--59012986 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
59012877 CTCTGATGAA
*
59012887 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGTG
*
59012926 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGTG
* *
59012965 CTTTAGCTT-GATTTCGGGCTTC
1 CTTCAG-TTAGACTTCGGGCTTC
59012987 AGATCACGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 55 0.96
40 2 0.04
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (39 bp):
CTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGTG
Found at i:59014040 original size:17 final size:18
Alignment explanation
Indices: 59014014--59014049 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59014004 TGTTGAAGAG
59014014 TTTGTCTT-GGGCATGGA
1 TTTGTCTTGGGGCATGGA
*
59014031 TTTGTTTTGGGGCATGGA
1 TTTGTCTTGGGGCATGGA
59014049 T
1 T
59014050 AGGACAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.08, G:0.36, T:0.44
Consensus pattern (18 bp):
TTTGTCTTGGGGCATGGA
Found at i:59014576 original size:13 final size:13
Alignment explanation
Indices: 59014558--59014648 Score: 108
Period size: 13 Copynumber: 7.6 Consensus size: 13
59014548 AAATATCTTT
59014558 ACTCCACTAAACC
1 ACTCCACTAAACC
59014571 ACT-C-C--AACC
1 ACTCCACTAAACC
*
59014580 CCTCCACTAAACC
1 ACTCCACTAAACC
59014593 ACTCCACTAAACC
1 ACTCCACTAAACC
*
59014606 ACTACACTAAACC
1 ACTCCACTAAACC
59014619 ACTCCACTAAACC
1 ACTCCACTAAACC
59014632 AC-CC-C--AACC
1 ACTCCACTAAACC
59014641 ACTCCACT
1 ACTCCACT
59014649 TGCCTACAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
9 12 0.18
10 3 0.04
11 4 0.06
12 3 0.04
13 45 0.67
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.14
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:59015057 original size:3 final size:3
Alignment explanation
Indices: 59015045--59015119 Score: 59
Period size: 3 Copynumber: 24.3 Consensus size: 3
59015035 TTTTTATTTT
*
59015045 TTA TTT TTA TTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA TGTA TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A T-TA T-TA
59015093 TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
59015120 ATATGGCCTC
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
2 5 0.08
3 46 0.77
4 7 0.12
5 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:59015060 original size:12 final size:12
Alignment explanation
Indices: 59015045--59015119 Score: 75
Period size: 12 Copynumber: 6.1 Consensus size: 12
59015035 TTTTTATTTT
*
59015045 TTATTTTTATTA
1 TTATTTATATTA
59015057 TTATTTATATTA
1 TTATTTATATTA
59015069 TTA-TTATTATT-
1 TTATTTA-TATTA
59015080 TCTCATGTATATATTA
1 T-T-AT-T-TATATTA
59015096 TTATTTATATTA
1 TTATTTATATTA
59015108 TTA-TTATATTA
1 TTATTTATATTA
59015119 T
1 T
59015120 ATATGGCCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
11 13 0.24
12 29 0.53
13 2 0.04
14 2 0.04
15 6 0.11
16 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:59015094 original size:21 final size:18
Alignment explanation
Indices: 59015038--59015123 Score: 97
Period size: 18 Copynumber: 4.7 Consensus size: 18
59015028 TTTTATTTTT
*
59015038 TTATT-TTT-TATTTTTA
1 TTATTATTTATATTATTA
59015054 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
59015072 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
59015093 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
59015111 TTA-TATTATATAT
1 TTATTATT-TATAT
59015124 GGCCTCTCCA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.08
17 7 0.11
18 27 0.44
19 5 0.08
20 5 0.08
21 12 0.20
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:59015384 original size:12 final size:12
Alignment explanation
Indices: 59015351--59015393 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
59015341 TATATTAGTG
* *
59015351 TATATTTTTATG
1 TATATTTATATA
*
59015363 TATATATATATA
1 TATATTTATATA
59015375 TATATTTATATA
1 TATATTTATATA
59015387 TAGTATT
1 TA-TATT
59015394 GTTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (12 bp):
TATATTTATATA
Found at i:59015416 original size:119 final size:119
Alignment explanation
Indices: 59015291--59015547 Score: 272
Period size: 122 Copynumber: 2.1 Consensus size: 119
59015281 TCTAATAAAT
* *
59015291 TATTAATATTACTCATATTTTCATTATTT-TTGCTAT-TACTATTATTATTATATATTAGTGTAT
1 TATTAATATTA-TCATATTTGC-TT-TTTATTGCTATAT-CTATTATTATTATATAGTAGTGTAT
* * * *
59015354 ATTTTTATGTATAT-ATATATATATATTTATATATAGTATTGTTTTTTA-TTACTTTAA
62 ATTTCTAT-TATATAATATATATATATTTATATATAGAATTATTATTTACTTACTTTAA
* * * *
59015411 T-TTAATATTTTTATTATATTTGCTTTTTGCATTTCTATATTTATTATTATTATATAGTAGTGTT
1 TATTAATA---TTATCATATTTGCTTTTT--ATTGCTATATCTATTATTATTATATAGTAGTGTA
59015475 TATTTCTATTATATACATATATATATATTTATATATAGAATTATTATTTACTTTACTTTAA
61 TATTTCTATTATATA-ATATATATATATTTATATATAGAATTATTATTTAC-TTACTTTAA
*
59015536 TATTATTATTAT
1 TATTAATATTAT
59015548 TATCATTATA
Statistics
Matches: 114, Mismatches: 11, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
119 9 0.08
120 3 0.03
121 13 0.11
122 38 0.33
123 36 0.32
125 10 0.09
126 5 0.04
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (119 bp):
TATTAATATTATCATATTTGCTTTTTATTGCTATATCTATTATTATTATATAGTAGTGTATATTT
CTATTATATAATATATATATATTTATATATAGAATTATTATTTACTTACTTTAA
Found at i:59016442 original size:5 final size:5
Alignment explanation
Indices: 59016432--59016469 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
59016422 GAAATTGTGA
*
59016432 AAAAT AAAAT AGAAT AAAAT -AAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAA
59016470 GAACACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:59023679 original size:32 final size:32
Alignment explanation
Indices: 59023643--59023802 Score: 266
Period size: 32 Copynumber: 5.0 Consensus size: 32
59023633 TATAACTATA
59023643 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
59023675 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
59023707 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
59023739 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
59023771 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
59023803 ATTTTTTATG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 117 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:59023744 original size:64 final size:64
Alignment explanation
Indices: 59023643--59023802 Score: 293
Period size: 64 Copynumber: 2.5 Consensus size: 64
59023633 TATAACTATA
*
59023643 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
59023707 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
59023771 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
59023803 ATTTTTTATG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:59025829 original size:21 final size:21
Alignment explanation
Indices: 59025805--59025857 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
59025795 CGCTGTTTCT
* * *
59025805 AATCTCACTGTTACAGTATCC
1 AATCTCACCGCTACAGTAACC
59025826 AATCTCACCGCTACAGTAACC
1 AATCTCACCGCTACAGTAACC
59025847 AATCTCACCGC
1 AATCTCACCGC
59025858 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:59028563 original size:135 final size:136
Alignment explanation
Indices: 59028303--59028722 Score: 788
Period size: 136 Copynumber: 3.1 Consensus size: 136
59028293 TATTGGGCCT
** * *
59028303 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
59028368 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
59028433 ATATGC
131 ATATGC
*
59028439 AAGCCCATTTGGGTAACAGCGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
59028504 -GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
59028568 ATATGC
131 ATATGC
59028574 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
59028639 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
59028704 ATATGC
131 ATATGC
59028710 AAGCCCATTTGGG
1 AAGCCCATTTGGG
59028723 GAGACTACTC
Statistics
Matches: 277, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
135 134 0.48
136 143 0.52
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:59028758 original size:21 final size:21
Alignment explanation
Indices: 59028729--59028776 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
59028719 TGGGGAGACT
*
59028729 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
59028750 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
59028771 ACTCCA
1 ACTCCA
59028777 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:59029006 original size:25 final size:26
Alignment explanation
Indices: 59028969--59029020 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
59028959 TCAAACATGC
59028969 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
59028995 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
59029020 A
1 A
59029021 AACAGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:59030532 original size:26 final size:26
Alignment explanation
Indices: 59030496--59030631 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
59030486 CATGATATTC
59030496 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
59030522 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59030548 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59030574 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59030600 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59030626 TTATCA
1 TTATCA
59030632 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:59034502 original size:64 final size:64
Alignment explanation
Indices: 59034429--59034645 Score: 154
Period size: 64 Copynumber: 3.3 Consensus size: 64
59034419 CTAGGCCAGA
* *
59034429 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
***** * ** *
59034493 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTA
1 GCCCATTTCAAAATACAAT--AA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA
* *
59034555 CTGGGCCAGA-
55 -TGGCCCATAG
* * *
59034565 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
59034629 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
59034646 TGCAACATCA
Statistics
Matches: 107, Mismatches: 30, Indels: 32
0.63 0.18 0.19
Matches are distributed among these distances:
63 9 0.08
64 31 0.29
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 16 0.15
73 9 0.08
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:59034639 original size:136 final size:136
Alignment explanation
Indices: 59034395--59034815 Score: 788
Period size: 136 Copynumber: 3.1 Consensus size: 136
59034385 TATTGGGCCT
** * *
59034395 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
59034460 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
59034525 ATATGC
131 ATATGC
59034531 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
59034596 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
*
59034661 ATATGT
131 ATATGC
59034667 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
59034732 AGCCCTTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
59034797 ATATGC
131 ATATGC
59034803 AAGCCCATTTGGG
1 AAGCCCATTTGGG
59034816 GAGACTACTC
Statistics
Matches: 278, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 278 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:59036627 original size:26 final size:26
Alignment explanation
Indices: 59036591--59036726 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
59036581 CATGATATTC
59036591 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
59036617 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
59036643 TTATCATGGAGCATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59036669 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59036695 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59036721 TTATCA
1 TTATCA
59036727 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:59037292 original size:59 final size:59
Alignment explanation
Indices: 59037152--59037292 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 59
59037142 TTTAGTGTTA
*
59037152 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAATAT
1 ACTGGGCCTT-GCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGT-ACAGAATAT
* *
59037213 ACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCGTAG-CCCTATACAAGT-C-GAGATAT
1 ACTGGGCCTTGCCCATATCAGTATTAATCTGGGCCATAGCCCCT-TAC-AGTACAGA-ATAT
*
59037272 ATTGGGCCTTGCCCATATCAG
1 ACTGGGCCTTGCCCATATCAG
59037293 CACAGTTGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
58 2 0.03
59 28 0.39
60 30 0.42
61 12 0.17
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTACAGAATAT
Found at i:59037638 original size:26 final size:27
Alignment explanation
Indices: 59037609--59037670 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
59037599 AAATTAACCC
*
59037609 TAGGGGTATAACGGTCATTTT-ACACT
1 TAGGGGTATAACGGTAATTTTCACACT
* * *
59037635 TAGGGGTAAAATGGTAATTTTCATACT
1 TAGGGGTATAACGGTAATTTTCACACT
59037662 TAGGGGTAT
1 TAGGGGTAT
59037671 TTCAGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (27 bp):
TAGGGGTATAACGGTAATTTTCACACT
Found at i:59039718 original size:15 final size:15
Alignment explanation
Indices: 59039681--59039709 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59039671 TTTTTCTATC
59039681 TAATAATAATAATTA
1 TAATAATAATAATTA
59039696 TAATAATAATAATT
1 TAATAATAATAATT
59039710 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:59040747 original size:27 final size:28
Alignment explanation
Indices: 59040693--59040747 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
59040683 AATAAAAATT
* *
59040693 ATATCAATTATTTCTATATATTAAATAA
1 ATATCAATTATTTATATATAATAAATAA
*
59040721 ATAT-AATTATTTATATATAATATATAA
1 ATATCAATTATTTATATATAATAAATAA
59040748 TCATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATCAATTATTTATATATAATAAATAA
Found at i:59044166 original size:19 final size:20
Alignment explanation
Indices: 59044132--59044174 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
59044122 TTATATGTTG
59044132 TAAAAATAATATTTTTATTCA
1 TAAAAATAATATTTTTA-TCA
59044153 TAAAAAT-A-ATTTTTATCA
1 TAAAAATAATATTTTTATCA
59044171 TAAA
1 TAAA
59044175 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 1 0.05
21 7 0.32
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAATAATATTTTTATCA
Found at i:59049469 original size:11 final size:11
Alignment explanation
Indices: 59049453--59049477 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59049443 TATTTGAATT
59049453 AATTTAAAATA
1 AATTTAAAATA
59049464 AATTTAAAATA
1 AATTTAAAATA
59049475 AAT
1 AAT
59049478 GTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:59049687 original size:25 final size:27
Alignment explanation
Indices: 59049625--59049687 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
59049615 AATTCAAAAT
*
59049625 AAATTTTAAATTTTTAAATATTTATAA
1 AAATTTTAATTTTTTAAATATTTATAA
** *
59049652 AAATTCCAATTTTTTTAA-A-TTATAA
1 AAATTTTAATTTTTTAAATATTTATAA
59049677 AAATTTTAATT
1 AAATTTTAATT
59049688 AATTAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 15 0.50
26 1 0.03
27 14 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATTTTAATTTTTTAAATATTTATAA
Found at i:59050955 original size:24 final size:22
Alignment explanation
Indices: 59050928--59051007 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 22
59050918 TATGAAAGTG
59050928 TATATATGTAAAAATAATATATAA
1 TATATA-GTAAAAATAATA-ATAA
59050952 TATATA-TAAATAATTAATAAATATA
1 TATATAGTAAA-AA-TAAT-AATA-A
*
59050977 TAATACAAGTAAAATATAATAATAA
1 T-ATA-TAGTAAAA-ATAATAATAA
59051002 TATATA
1 TATATA
59051008 AATAATAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
22 4 0.09
23 3 0.07
24 16 0.35
25 5 0.11
26 7 0.15
27 6 0.13
28 5 0.11
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (22 bp):
TATATAGTAAAAATAATAATAA
Found at i:59050971 original size:11 final size:12
Alignment explanation
Indices: 59050941--59051014 Score: 66
Period size: 11 Copynumber: 6.1 Consensus size: 12
59050931 ATATGTAAAA
*
59050941 ATAATATATAAT
1 ATAATAAATAAT
59050953 ATATATAAATAAT
1 ATA-ATAAATAAT
59050966 -TAATAAAT-AT
1 ATAATAAATAAT
59050976 ATAATACAAGTAAAAT
1 ATAATA-AA-T--AAT
59050992 ATAAT-AATAAT
1 ATAATAAATAAT
59051003 AT-ATAAATAAT
1 ATAATAAATAAT
59051014 A
1 A
59051015 ATGTAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 17
0.75 0.01 0.24
Matches are distributed among these distances:
10 4 0.08
11 23 0.43
12 7 0.13
13 10 0.19
14 2 0.04
16 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:59051048 original size:33 final size:33
Alignment explanation
Indices: 59050960--59051105 Score: 104
Period size: 33 Copynumber: 4.4 Consensus size: 33
59050950 AATATATATA
* * *
59050960 AATAATTAATAAATATATAATACAAGTAAAAT-AT
1 AATAA-TAATATATAAATAATA-ATGTAAAATAAT
59050994 AATAATAATATATAAATAATAATGTAAAATAAT
1 AATAATAATATATAAATAATAATGTAAAATAAT
* * * * *
59051027 AAAAATAATTTGTGAAA-AATAATATATAATAAAT
1 AATAATAATATAT-AAATAATAATGTAAAAT-AAT
* *
59051061 AATAATAATAT-GAAATAATATATTGTTAAAAT-GT
1 AATAATAATATATAAATAATA-A-TG-TAAAATAAT
59051095 AA-AATAATATA
1 AATAATAATATA
59051106 AAAGATATAT
Statistics
Matches: 90, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
32 11 0.12
33 49 0.54
34 24 0.27
35 1 0.01
36 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (33 bp):
AATAATAATATATAAATAATAATGTAAAATAAT
Found at i:59051077 original size:10 final size:10
Alignment explanation
Indices: 59050940--59051083 Score: 53
Period size: 10 Copynumber: 15.0 Consensus size: 10
59050930 TATATGTAAA
59050940 AATAATATAT
1 AATAATATAT
59050950 AAT-ATATAT
1 AATAATATAT
59050959 -A-AATA-ATT
1 AATAATATA-T
59050967 AATAA-ATAT
1 AATAATATAT
*
59050976 -ATAATACA-
1 AATAATATAT
* *
59050984 AGTAAAATAT
1 AATAATATAT
59050994 AATAATA-AT
1 AATAATATAT
*
59051003 -AT-ATAAAT
1 AATAATATAT
* *
59051011 AATAATGTAA
1 AATAATATAT
*
59051021 AATAATA-AA
1 AATAATATAT
* *
59051030 AATAATTTGTGAAA
1 AATAA--TAT--AT
59051044 AATAATATAT
1 AATAATATAT
59051054 AATAA-ATAAT
1 AATAATAT-AT
59051064 AATAATATGA-
1 AATAATAT-AT
59051074 AATAATATAT
1 AATAATATAT
59051084 TGTTAAAATG
Statistics
Matches: 101, Mismatches: 14, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
7 4 0.04
8 13 0.13
9 30 0.30
10 41 0.41
11 4 0.04
12 2 0.02
14 7 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:59055267 original size:26 final size:26
Alignment explanation
Indices: 59055230--59055339 Score: 202
Period size: 26 Copynumber: 4.2 Consensus size: 26
59055220 TGATACAAAT
* *
59055230 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59055256 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59055282 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59055308 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59055334 TGATAA
1 TGATAA
59055340 GAATATCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:59056860 original size:25 final size:26
Alignment explanation
Indices: 59056818--59056870 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
59056808 AATTACTGTT
59056818 ATACCCCTAGGTGAAAATT-ACCGAA
1 ATACCCCTAGGTGAAAATTGACCGAA
* *
59056843 ATACCCCTAGG-GTTAAATTGACCTAA
1 ATACCCCTAGGTG-AAAATTGACCGAA
59056869 AT
1 AT
59056871 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 16 0.67
26 7 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
ATACCCCTAGGTGAAAATTGACCGAA
Found at i:59057361 original size:135 final size:136
Alignment explanation
Indices: 59057119--59057402 Score: 534
Period size: 135 Copynumber: 2.1 Consensus size: 136
59057109 AGTAGTCTCC
59057119 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
59057184 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAA-GGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
59057248 CTGTTA
131 CTGTTA
59057254 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
59057319 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
59057384 CTGTTA
131 CTGTTA
*
59057390 CCTGAATGGGCTT
1 CC-AAATGGGCTT
59057403 AGGCCCAATA
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 111 0.77
136 25 0.17
137 9 0.06
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:59061180 original size:26 final size:26
Alignment explanation
Indices: 59061143--59061276 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
59061133 TGATACAAAT
59061143 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
59061169 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
59061194 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
59061220 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59061245 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59061271 TGATAA
1 TGATAA
59061277 GAATTCATGT
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
25 48 0.47
26 55 0.53
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59061198 original size:51 final size:51
Alignment explanation
Indices: 59061143--59061276 Score: 234
Period size: 51 Copynumber: 2.6 Consensus size: 51
59061133 TGATACAAAT
59061143 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTTCA
59061194 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
* *
59061245 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
59061277 GAATTCATGT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 13 0.16
51 67 0.84
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
Found at i:59063297 original size:137 final size:137
Alignment explanation
Indices: 59063051--59063337 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
59063041 GAGTAGTCTC
59063051 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
59063116 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
59063181 ACTGTTA
131 ACTGTTA
59063188 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
59063253 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
59063318 ACTGTTA
131 ACTGTTA
**
59063325 CCTGAATGGGCTT
1 CCCAAATGGGCTT
59063338 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:59065167 original size:33 final size:33
Alignment explanation
Indices: 59065120--59065215 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
59065110 GGTGTCAGAC
* *
59065120 GCGTGGAACATGGTGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
59065153 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
* *
59065186 GCGTGGGGCGTGGTGGCCAAGGCTGAGGGG
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGG
59065216 TATGGTTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.18, C:0.18, G:0.50, T:0.15
Consensus pattern (33 bp):
GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
Found at i:59066147 original size:206 final size:206
Alignment explanation
Indices: 59065793--59066832 Score: 1679
Period size: 206 Copynumber: 5.1 Consensus size: 206
59065783 CAAATCTACC
* *
59065793 ATGTCTTCGATTTATTCCTTGTAAGCATAAGGATGCCAAATCTTCTTGGATCTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
* *
59065858 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCAATTGAAGTGGAGATGCCAGACTTCAAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCAAT
* *
59065923 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAAG
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAG
59065988 CCAAATCAGCT
196 CCAAATCAGCT
*
59065999 ATGTCTTCAATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
* *
59066064 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCAATTGAAGTGGAGATGCCAGACTTCAAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCAAT
* *
59066129 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAAG
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAG
59066194 CCAAATCAGCT
196 CCAAATCAGCT
* *
59066205 ATGTCTTCAATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATTTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
** * * **
59066270 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTAAAGATG-CAAACTTTGAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCAAT
* * * *
59066334 TCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATTGTAATCACGTGAAAG
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAG
59066399 CCAAATCAGCT
196 CCAAATCAGCT
* * * *
59066410 ACGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTTACTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
* * ** *
59066475 AACATTTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGCCAAACTTCAA
66 AACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCAA
* *
59066539 TTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAA
130 TTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
59066604 GCCAAATCAGCT
195 GCCAAATCAGCT
* * *
59066616 ATGTCTTTGATTTGTTCCTTGTAAGCACAATGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
* * *
59066681 AACATCTGAAGGTCAGATCTGCTATGTATCGGCTTTCCATTGAAGTGAAGATGCCAGACTTCGAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCAAT
*
59066746 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAATACGTGAAAG
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAG
*
59066811 CCAAATCAACT
196 CCAAATCAGCT
59066822 ATGTCTTCGAT
1 ATGTCTTCGAT
59066833 CTGCTCCCCG
Statistics
Matches: 782, Mismatches: 49, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
204 1 0.00
205 185 0.24
206 595 0.76
207 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (206 bp):
ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCAAT
TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAG
CCAAATCAGCT
Found at i:59066556 original size:411 final size:412
Alignment explanation
Indices: 59065793--59066832 Score: 1681
Period size: 411 Copynumber: 2.5 Consensus size: 412
59065783 CAAATCTACC
* *
59065793 ATGTCTTCGATTTATTCCTTGTAAGCATAAGGATGCCAAATCTTCTTGGATCTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
* * *
59065858 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCAATTGAAGTGGAGATGCCAGACTTCAAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCGAT
* * *
59065923 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAAG
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAG
* * *
59065988 CCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
196 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTT
* ** *
59066053 GCTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCAATTGAAGTGGAGATGC
261 ACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCAATCAAAGTGAAGATGC
* * *
59066118 CAGACTTCAATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAA
326 CAAACTTCAATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAA
59066183 ACACGTGAAAGCCAAATCAGCT
391 ACACGTGAAAGCCAAATCAGCT
* *
59066205 ATGTCTTCAATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATTTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
** * * *
59066270 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTAAAGATG-CAAACTTTGAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCGAT
* * *
59066334 TCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTCATTGTAATCACGTGAAAG
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAG
*
59066399 CCAAATCAGCTACGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTT
196 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTT
* * *
59066464 ACTTCAGTATAAACATTTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATG
261 ACTTCAGTATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCAATCAAAGTGAAGATG
*
59066528 CCAAACTTCAATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTA
325 CCAAACTTCAATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTA
*
59066593 ATCACGTGAAAGCCAAATCAGCT
390 AACACGTGAAAGCCAAATCAGCT
* * *
59066616 ATGTCTTTGATTTGTTCCTTGTAAGCACAATGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
1 ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
* *
59066681 AACATCTGAAGGTCAGATCTGCTATGTATCGGCTTTCCATTGAAGTGAAGATGCCAGACTTCGAT
66 AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCGAT
59066746 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAAT-ACGTGAAA
131 TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGT-AATCACGTGAAA
*
59066810 GCCAAATCAACTATGTCTTCGAT
195 GCCAAATCAGCTATGTCTTCGAT
59066833 CTGCTCCCCG
Statistics
Matches: 574, Mismatches: 51, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
410 1 0.00
411 374 0.65
412 196 0.34
413 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (412 bp):
ATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATA
AACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCCAGACTTCGAT
TTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGAAAG
CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTT
ACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCAATCAAAGTGAAGATGC
CAAACTTCAATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAACGTAA
ACACGTGAAAGCCAAATCAGCT
Found at i:59074871 original size:13 final size:15
Alignment explanation
Indices: 59074841--59074871 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59074831 TTCCAGATTT
59074841 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
59074856 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
59074871 T
1 T
59074872 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:59074957 original size:15 final size:14
Alignment explanation
Indices: 59074915--59074964 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
59074905 ATAACTTTGA
*
59074915 ATGCAAATGATGTG
1 ATGCAAATGATGAG
59074929 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
59074944 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
59074958 ATGCAAA
1 ATGCAAA
59074965 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:59076569 original size:33 final size:30
Alignment explanation
Indices: 59076525--59076594 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
59076515 AAAAATATAT
*
59076525 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
59076556 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
59076588 ATATATA
1 ATATATA
59076595 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:59076771 original size:14 final size:16
Alignment explanation
Indices: 59076742--59076773 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
59076732 AGGTAAATAT
59076742 AATAAAATGATATTAA
1 AATAAAATGATATTAA
59076758 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
59076772 AA
1 AA
59076774 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:59076819 original size:3 final size:3
Alignment explanation
Indices: 59076811--59076846 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
59076801 ACAAGGATAT
59076811 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59076847 TTGAAACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:59076962 original size:3 final size:3
Alignment explanation
Indices: 59076948--59077032 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
59076938 AATGTATTTC
*
59076948 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59076996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
59077033 TTGAAATGCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59077526 original size:11 final size:12
Alignment explanation
Indices: 59077510--59077545 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
59077500 AGGAAAAAAA
59077510 GAAGAGAG-AGG
1 GAAGAGAGAAGG
59077521 GAAGAGAGAAGG
1 GAAGAGAGAAGG
59077533 G-AGAGAGAAGG
1 GAAGAGAGAAGG
59077544 GA
1 GA
59077546 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:59077641 original size:11 final size:11
Alignment explanation
Indices: 59077625--59077664 Score: 71
Period size: 11 Copynumber: 3.5 Consensus size: 11
59077615 AGGTAAATTT
59077625 TTTTTTGTATA
1 TTTTTTGTATA
59077636 TTTTTTGTATA
1 TTTTTTGTATA
59077647 TTTTTTTGTATA
1 -TTTTTTGTATA
59077659 TTTTTT
1 TTTTTT
59077665 ATGTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTGTATA
Found at i:59077641 original size:12 final size:12
Alignment explanation
Indices: 59077624--59077664 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
59077614 AAGGTAAATT
59077624 TTTTTTTGTATA
1 TTTTTTTGTATA
59077636 -TTTTTTGTATA
1 TTTTTTTGTATA
59077647 TTTTTTTGTATA
1 TTTTTTTGTATA
59077659 TTTTTT
1 TTTTTT
59077665 ATGTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:59078087 original size:35 final size:35
Alignment explanation
Indices: 59078042--59078110 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
59078032 GAGTGTGTGA
*
59078042 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
59078077 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
59078111 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:59079019 original size:115 final size:116
Alignment explanation
Indices: 59078726--59079108 Score: 705
Period size: 116 Copynumber: 3.3 Consensus size: 116
59078716 GTGTCCTGAA
59078726 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
*
59078791 TTTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
*
59078842 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAGAAATAAAAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
59078907 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTG-CCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
59078957 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
* **
59079022 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGTCTTGAG
66 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
*
59079073 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
59079109 CGAACAGAAA
Statistics
Matches: 260, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
115 114 0.44
116 146 0.56
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (116 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
Found at i:59079128 original size:14 final size:14
Alignment explanation
Indices: 59079111--59079139 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59079101 GATTTTGACG
59079111 AACAGAAATTGAAA
1 AACAGAAATTGAAA
59079125 AACAGAAATTGAAA
1 AACAGAAATTGAAA
59079139 A
1 A
59079140 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:59079253 original size:76 final size:77
Alignment explanation
Indices: 59079125--59079270 Score: 233
Period size: 76 Copynumber: 1.9 Consensus size: 77
59079115 GAAATTGAAA
*
59079125 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCA-CGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
59079190 ATTTTTTTTGATG
65 ATTTTTTTTGATG
* *
59079203 AACAGAAATT-AAAATTACCTCA-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
59079266 ATTTT
65 ATTTT
59079271 GACGAACAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
76 43 0.67
77 4 0.06
78 17 0.27
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (77 bp):
AACAGAAATTGAAAATACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTTGATG
Found at i:59079347 original size:163 final size:164
Alignment explanation
Indices: 59079048--59079351 Score: 565
Period size: 163 Copynumber: 1.9 Consensus size: 164
59079038 AATTTAAAAC
*
59079048 TAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
59079113 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCA
59079178 CAATATGAGTTAATTTTTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTTTTTGATGAACAGAAAT
*
59079212 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
59079277 CA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACTTCTCA
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCA
59079341 CAATATGAGTT
131 CAATATGAGTT
59079352 GATTCTTTGG
Statistics
Matches: 136, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
163 71 0.52
164 65 0.48
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (164 bp):
TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCA
CAATATGAGTTAATTTTTTTTGATGAACAGAAAT
Found at i:59098454 original size:40 final size:40
Alignment explanation
Indices: 59098409--59098575 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59098399 CGGAATATAA
59098409 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59098449 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59098489 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59098529 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59098568 CCGGATAT
1 CCGGATAT
59098576 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59113172 original size:27 final size:27
Alignment explanation
Indices: 59113142--59113194 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
59113132 GACCCCGGTT
* *
59113142 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
59113169 TGTAAAATGACCGTAATACCCTTGTA
1 TGTAAAATGACCGAAATACCCTTGTA
59113195 TGGTAGAATG
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:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:59117396 original size:42 final size:41
Alignment explanation
Indices: 59117345--59117491 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 41
59117335 ACATTAGGTT
* *
59117345 TATGAGATTTCATGTAAGACCATATATGGGATATGACATCGA
1 TATGAAATTTCGTGTAAGACCATAT-TGGGATATGACATCGA
* * * * * *
59117387 TATGAGATTTTGTGTAAGACCGTACCTAGGATATGTCATCGA
1 TATGAAATTTCGTGTAAGACCATA-TTGGGATATGACATCGA
* * * *
59117429 TATGAAATTTTGTGTAAGACGATAGTTGGGCTATTGGCATCGA
1 TATGAAATTTCGTGTAAGACCATA-TTGGGATA-TGACATCGA
59117472 TATGAAATTTCGTGTAAGAC
1 TATGAAATTTCGTGTAAGAC
59117492 GATAGCTGGG
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 61 0.69
43 27 0.31
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (41 bp):
TATGAAATTTCGTGTAAGACCATATTGGGATATGACATCGA
Found at i:59117479 original size:43 final size:43
Alignment explanation
Indices: 59117381--59117517 Score: 179
Period size: 43 Copynumber: 3.2 Consensus size: 43
59117371 TGGGATATGA
* * * * *
59117381 CATCGATATGAGATTTTGTGTAAGACCG-TACCTAGGATA-TGT
1 CATCGATATGAAATTTTGTGTAAGA-CGATAGCTGGGCTATTGG
*
59117423 CATCGATATGAAATTTTGTGTAAGACGATAGTTGGGCTATTGG
1 CATCGATATGAAATTTTGTGTAAGACGATAGCTGGGCTATTGG
*
59117466 CATCGATATGAAATTTCGTGTAAGACGATAGCTGGGCTATTGG
1 CATCGATATGAAATTTTGTGTAAGACGATAGCTGGGCTATTGG
*
59117509 TATCGATAT
1 CATCGATAT
59117518 AAGACCCCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.02
42 31 0.37
43 51 0.61
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
CATCGATATGAAATTTTGTGTAAGACGATAGCTGGGCTATTGG
Found at i:59117531 original size:43 final size:43
Alignment explanation
Indices: 59117441--59117543 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
59117431 TGAAATTTTG
* *** *
59117441 TGTAAGACGATAGTTGGGCTATTGGCATCGATATGAAATTTCG
1 TGTAAGACGATAGCTGGGCTATTGGCATCGATATGAAACCCCA
*
59117484 TGTAAGACGATAGCTGGGCTATTGGTATCGATAT-AAGACCCCA
1 TGTAAGACGATAGCTGGGCTATTGGCATCGATATGAA-ACCCCA
* *
59117527 TGTAAGACCATATCTGG
1 TGTAAGACGATAGCTGG
59117544 TATATGGCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 2 0.04
43 49 0.96
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACGATAGCTGGGCTATTGGCATCGATATGAAACCCCA
Found at i:59124239 original size:45 final size:45
Alignment explanation
Indices: 59124160--59124265 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
59124150 ACATTAGGGT
*
59124160 TATGAGATTTCGTGT---AAGACCATATCTAGGATATGGCATCGA
1 TATGAGATTTCGTGTAAGAAGACCATATCTAGGATATGGCATCAA
* *
59124202 TATGAGATTTTGTGTAAGAAGACCATAT-TTGAGATATGGCATCAA
1 TATGAGATTTCGTGTAAGAAGACCATATCTAG-GATATGGCATCAA
59124247 TATGAGATTTCGTGTAAGA
1 TATGAGATTTCGTGTAAGA
59124266 TAATAGCTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 14 0.25
44 2 0.04
45 40 0.71
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (45 bp):
TATGAGATTTCGTGTAAGAAGACCATATCTAGGATATGGCATCAA
Found at i:59131182 original size:47 final size:47
Alignment explanation
Indices: 59131120--59131246 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 47
59131110 ACAATCGATA
* * *
59131120 AGTACTTATACCATGGCCCATAGCAAAATCAAGGTAACTTATCTCGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCGG
* * *
59131167 AGTACCTATAACATGG-CCAGTAGCCAAATCAA-GTAACTCCTCTCTG
1 AGTACCTATACCATGGCCCA-TAGCCAAATCAAGGTAACTCATCTCGG
* *
59131213 AATACCTATACCATGGCCCATATCCAAATCAAGG
1 AGTACCTATACCATGGCCCATAGCCAAATCAAGG
59131247 AATTATTCGC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 39 0.57
47 29 0.43
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTCGG
Found at i:59132852 original size:53 final size:53
Alignment explanation
Indices: 59132652--59132858 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
59132642 ATTAGGGTTT
* * * * *
59132652 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG-TTCATAAGGC
* * * * * * * *
59132706 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGTTC-ATAAGGC
* * * * * *
59132761 AAAGATCCCATGGAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
* * *
59132814 AAGGATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT
59132859 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 43 0.36
54 37 0.31
55 39 0.33
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
Found at i:59138490 original size:34 final size:35
Alignment explanation
Indices: 59138439--59138517 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
59138429 AATATGCACA
*
59138439 TTCAAAATAACTTCACATAAAACCAAATATAT-AAG
1 TTCAATATAACTTCACATAAAACCAAATA-ATCAAG
* ** *
59138474 TTCATTATAA-TTCACATGTAATCAAATAATCAAG
1 TTCAATATAACTTCACATAAAACCAAATAATCAAG
59138508 TTCAATATAA
1 TTCAATATAA
59138518 GATTACATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.05
34 27 0.73
35 8 0.22
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (35 bp):
TTCAATATAACTTCACATAAAACCAAATAATCAAG
Done.