Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 213 of 216
Found at i:65976526 original size:13 final size:12
Alignment explanation
Indices: 65976508--65976570 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
65976498 AGTAATAATT
65976508 TTATTTATATATA
1 TTATTTATAT-TA
65976521 TTATTTATATTA
1 TTATTTATATTA
* *
65976533 TTAAATTAAATT-
1 TT-ATTTATATTA
*
65976545 TTATATTTTA-TA
1 TTAT-TTATATTA
65976557 TTATTTATATTA
1 TTATTTATATTA
65976569 TT
1 TT
65976571 GAATTGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 6 0.15
12 17 0.43
13 17 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:65976529 original size:9 final size:9
Alignment explanation
Indices: 65976507--65976570 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
65976497 TAGTAATAAT
65976507 TTTAT-TTA
1 TTTATATTA
*
65976515 TATATATTA
1 TTTATATTA
65976524 TTTATATTA
1 TTTATATTA
*
65976533 -TTAAATTAAA
1 TTTATATT--A
65976543 TTT-TA-TA
1 TTTATATTA
65976550 TTTTATATTA
1 -TTTATATTA
65976560 TTTATATTA
1 TTTATATTA
65976569 TT
1 TT
65976571 GAATTGTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 1 0.02
8 13 0.29
9 25 0.56
10 4 0.09
11 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATATTA
Found at i:65977940 original size:28 final size:30
Alignment explanation
Indices: 65977900--65977962 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
65977890 ACAGTTATAA
65977900 AAAAATAAT-AAAAATAATTAAATTTTATT
1 AAAAATAATAAAAAATAATTAAATTTTATT
*
65977929 AAAAAT-ATAAAAAATATTTAAATTTTATT
1 AAAAATAATAAAAAATAATTAAATTTTATT
65977958 AAAAA
1 AAAAA
65977963 CTAGGAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAATAATAAAAAATAATTAAATTTTATT
Found at i:65978065 original size:21 final size:21
Alignment explanation
Indices: 65978051--65978092 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
65978041 TTATATTTCC
65978051 TTTTAC-ATTTTTTATAATTT
1 TTTTACTATTTTTTATAATTT
*
65978071 TTTTACTA-TTTTTATGATTT
1 TTTTACTATTTTTTATAATTT
65978091 TT
1 TT
65978093 ATAAAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTACTATTTTTTATAATTT
Found at i:65978166 original size:63 final size:64
Alignment explanation
Indices: 65978052--65978174 Score: 171
Period size: 63 Copynumber: 1.9 Consensus size: 64
65978042 TATATTTCCT
* *
65978052 TTTACATTTTTTATAATTTTTTTACTATTTTTATGATTTTTATAAAGTTTTATAATTTTTGATTC
1 TTTACATTTTTTATAA-TTTTTTAATATTTTAATGATTTTTATAAAGTTTTATAATTTTTGATTC
*
65978117 TTTACATTTTTCT-TAA-TTTTTAATATTTTAAT-ATTTTTAATAAATTTTTATAATTTTT
1 TTTACATTTTT-TATAATTTTTTAATATTTTAATGATTTTT-ATAAAGTTTTATAATTTTT
65978175 TTATTAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
62 6 0.11
63 32 0.60
65 14 0.26
66 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (64 bp):
TTTACATTTTTTATAATTTTTTAATATTTTAATGATTTTTATAAAGTTTTATAATTTTTGATTC
Found at i:65978169 original size:10 final size:9
Alignment explanation
Indices: 65978059--65978174 Score: 62
Period size: 9 Copynumber: 12.6 Consensus size: 9
65978049 CCTTTTACAT
65978059 TTTTTATAA
1 TTTTTATAA
*
65978068 TTTTTTTACTA
1 TTTTTATA--A
*
65978079 TTTTTATGA
1 TTTTTATAA
65978088 TTTTTATAAA
1 TTTTTAT-AA
*
65978098 GTTTTATAA
1 TTTTTATAA
65978107 TTTTTGAT--
1 TTTTT-ATAA
* *
65978115 TCTTTA-CA
1 TTTTTATAA
*
65978123 TTTTTCTTAA
1 TTTTT-ATAA
65978133 TTTTTA-ATA
1 TTTTTATA-A
*
65978142 TTTTAAT-A
1 TTTTTATAA
65978150 TTTTTAATAAA
1 TTTTT-AT-AA
65978161 TTTTTATAA
1 TTTTTATAA
65978170 TTTTT
1 TTTTT
65978175 TTATTAAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 26
0.68 0.11 0.22
Matches are distributed among these distances:
7 1 0.01
8 14 0.17
9 36 0.44
10 17 0.21
11 13 0.16
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:65978175 original size:10 final size:10
Alignment explanation
Indices: 65978057--65978111 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
65978047 TTCCTTTTAC
65978057 ATTTTTTATA
1 ATTTTTTATA
65978067 ATTTTTT-TA
1 ATTTTTTATA
* *
65978076 CTATTTTTATG
1 AT-TTTTTATA
65978087 A-TTTTTATA
1 ATTTTTTATA
**
65978096 AAGTTTTATA
1 ATTTTTTATA
65978106 ATTTTT
1 ATTTTT
65978112 GATTCTTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
9 11 0.31
10 23 0.66
11 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:65981776 original size:25 final size:25
Alignment explanation
Indices: 65981728--65981776 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
65981718 TAGCCGCGTC
* * **
65981728 AGTTTTTAACAGTAAATATGAATTA
1 AGTTTTTAACAGAAAAGACCAATTA
65981753 AGTTTTTAACAGAAAAGACCAATT
1 AGTTTTTAACAGAAAAGACCAATT
65981777 TGCTCTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (25 bp):
AGTTTTTAACAGAAAAGACCAATTA
Found at i:65984622 original size:55 final size:55
Alignment explanation
Indices: 65984561--65984671 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
65984551 GGTATCGGTT
*
65984561 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCGTAA
1 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCATAA
*
65984616 TGCTACAGAGAATCATAATAATAAAGCACGTAAATAATACAGTTTCTTATCATAA
1 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCATAA
65984671 T
1 T
65984672 AACCGTGATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (55 bp):
TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCATAA
Found at i:65987504 original size:15 final size:13
Alignment explanation
Indices: 65987477--65987516 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
65987467 ACATTTTCAG
*
65987477 TTTATATAATATT
1 TTTATATATTATT
65987490 TTATATTATATTATT
1 TT-TA-TATATTATT
65987505 TTTATATATTAT
1 TTTATATATTAT
65987517 GTAATTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 10 0.42
14 4 0.17
15 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATATATTATT
Found at i:65987523 original size:18 final size:17
Alignment explanation
Indices: 65987478--65987523 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
65987468 CATTTTCAGT
*
65987478 TTATATAATATTTTATA
1 TTATATAATTTTTTATA
*
65987495 TTATATTATTTTTATATA
1 TTATATAATTTTT-TATA
*
65987513 TTATGTAATTT
1 TTATATAATTT
65987524 AGAACACATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATAATTTTTTATA
Found at i:65995683 original size:23 final size:24
Alignment explanation
Indices: 65995643--65995690 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
65995633 CCTTCATCAT
65995643 AGTGAAATAAAAAACCCCATAAAA
1 AGTGAAATAAAAAACCCCATAAAA
*
65995667 AGTGAAAT-TAAAACCCCATAAAA
1 AGTGAAATAAAAAACCCCATAAAA
65995690 A
1 A
65995691 CTTGTCATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.60, C:0.17, G:0.08, T:0.15
Consensus pattern (24 bp):
AGTGAAATAAAAAACCCCATAAAA
Found at i:66009104 original size:24 final size:25
Alignment explanation
Indices: 66009055--66009106 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
66009045 TTATTTTTTT
* *
66009055 TATATATTTTAGAATTTTTTAAAAA
1 TATAAATTTTAGAAATTTTTAAAAA
*
66009080 TATAAATTTT-GAAATTTTTATAAA
1 TATAAATTTTAGAAATTTTTAAAAA
66009104 TAT
1 TAT
66009107 TTTGAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TATAAATTTTAGAAATTTTTAAAAA
Found at i:66009116 original size:19 final size:19
Alignment explanation
Indices: 66009085--66009156 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
66009075 AAAAATATAA
66009085 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAACT
* *
66009105 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAACT
66009124 ATTTTGAATTTTTGAAAACT
1 ATTTTGAATTTTT-AAAACT
66009144 ATTTTGAATTTTT
1 ATTTTGAATTTTT
66009157 TTTGTAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
18 3 0.06
19 20 0.43
20 24 0.51
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAACT
Found at i:66009147 original size:39 final size:41
Alignment explanation
Indices: 66009071--66009155 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 41
66009061 TTTTAGAATT
66009071 TTTTAAAAATATAAATTTTGAAATTTTTATAAATATTTTGAA
1 TTTTAAAAATAT-AATTTTGAAATTTTTATAAATATTTTGAA
66009113 TTTTAAAAAT-T-ATTTTG-AATTTTTGA-AAACTATTTTGAA
1 TTTTAAAAATATAATTTTGAAATTTTT-ATAAA-TATTTTGAA
66009152 TTTT
1 TTTT
66009156 TTTTGTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
38 10 0.24
39 20 0.49
41 1 0.02
42 10 0.24
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (41 bp):
TTTTAAAAATATAATTTTGAAATTTTTATAAATATTTTGAA
Found at i:66016253 original size:33 final size:33
Alignment explanation
Indices: 66016216--66016286 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
66016206 CCCGAACCAT
66016216 GAACCCTAG-ACCCGAA-CCTAAACCA-TGAACCCC
1 GAACCCTAGCA-CCGAATCCTAAA-CATTGAA-CCC
* *
66016249 GAACCGTAGCATCGAATCCTAAACATTGAACCC
1 GAACCCTAGCACCGAATCCTAAACATTGAACCC
66016282 GAACC
1 GAACC
66016287 GCGAACCCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.37, C:0.37, G:0.14, T:0.13
Consensus pattern (33 bp):
GAACCCTAGCACCGAATCCTAAACATTGAACCC
Found at i:66019877 original size:4 final size:4
Alignment explanation
Indices: 66019870--66019911 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
66019860 CCAAGGTAGG
*
66019870 TACA TACA TACA CACA TACA T--A TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
66019912 CTCTTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
4 32 0.94
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:66019896 original size:18 final size:18
Alignment explanation
Indices: 66019873--66019909 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
66019863 AGGTAGGTAC
66019873 ATACATACACACATACAT
1 ATACATACACACATACAT
*
66019891 ATACATACATACATACAT
1 ATACATACACACATACAT
66019909 A
1 A
66019910 CACTCTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (18 bp):
ATACATACACACATACAT
Found at i:66019898 original size:22 final size:22
Alignment explanation
Indices: 66019870--66019911 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
66019860 CCAAGGTAGG
66019870 TACATACATACACACATACATA
1 TACATACATACACACATACATA
*
66019892 TACATACATACATACATACA
1 TACATACATACACACATACA
66019912 CTCTTTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (22 bp):
TACATACATACACACATACATA
Found at i:66021625 original size:21 final size:21
Alignment explanation
Indices: 66021579--66021618 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66021569 AACGCTGTTG
*
66021579 TTTTGTTGTTATTTTTTCATA
1 TTTTGTTGTTATTTTCTCATA
*
66021600 TTTTGTTGTTGTTTTCTCA
1 TTTTGTTGTTATTTTCTCA
66021619 CTTTTTGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.12, T:0.70
Consensus pattern (21 bp):
TTTTGTTGTTATTTTCTCATA
Found at i:66030202 original size:31 final size:29
Alignment explanation
Indices: 66030140--66030238 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 29
66030130 AAAATTAAAG
* *
66030140 TTTCATGTATACATTTGAACCATAATCAAA
1 TTTCATGTATA-AATTGCACCATAATCAAA
*
66030170 TTTTCATGTATATAATTGCACGA-AATCAAAA
1 -TTTCATGTATA-AATTGCACCATAATC-AAA
66030201 TTT-ATGTATCAAATTGCA-CATTAAATCAAA
1 TTTCATGTAT-AAATTGCACCA-T-AATCAAA
*
66030231 GTTCATGT
1 TTTCATGT
66030239 GTAACTTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
28 1 0.02
29 13 0.23
30 13 0.23
31 29 0.52
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.37
Consensus pattern (29 bp):
TTTCATGTATAAATTGCACCATAATCAAA
Found at i:66030215 original size:29 final size:30
Alignment explanation
Indices: 66030131--66030219 Score: 83
Period size: 31 Copynumber: 3.0 Consensus size: 30
66030121 GGTCGAAACA
* * * * * *
66030131 AAATTAAAGTTTCATGTATACATTTGAACC
1 AAATCAAAATTTCATGTATATAATTGCACG
*
66030161 ATAATCAAATTTTCATGTATATAATTGCACG
1 A-AATCAAAATTTCATGTATATAATTGCACG
66030192 AAATCAAAATTT-ATGTATCA-AATTGCAC
1 AAATCAAAATTTCATGTAT-ATAATTGCAC
66030220 ATTAAATCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 14 0.28
30 12 0.24
31 24 0.48
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATATAATTGCACG
Found at i:66034424 original size:16 final size:16
Alignment explanation
Indices: 66034393--66034425 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66034383 ATGTATATTT
66034393 ATTTTAAAATGATATA
1 ATTTTAAAATGATATA
66034409 ATTTGTAAAATG-TATA
1 ATTT-TAAAATGATATA
66034425 A
1 A
66034426 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTTTAAAATGATATA
Found at i:66038191 original size:86 final size:83
Alignment explanation
Indices: 66037951--66038255 Score: 321
Period size: 86 Copynumber: 3.6 Consensus size: 83
66037941 TTTAGATGTG
* *
66037951 TATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGGAAATGTTGATATTCGAAT
1 TATGAAA-CATTGG-TTATGGTTGAAATAGGAG-AAAGGGTTGTTGTAAATGTTGAGATTCGAAT
* * * *
66038016 CTTAGACTTACGAAAGT-TGTG
63 ATTGGACTTACGAAAATATG-A
* * * * * *
66038037 TATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTTGTAAATGTTGAGAGTCGAATGT
1 TATGAAACATTGGTTATGGTTGAAATAGGAGAAA-GGGTTGTTGTAAATGTTGAGATTCGAATAT
**
66038102 TGGACTTATTAAAATATGAA
65 TGGACTTACGAAAATATG-A
* ** *
66038122 TATGACACATTACTTATGATTGAAATAGGAGAAAGGGTTGGGTTGTAAATGTTGAGATTCGAATA
1 TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGTT--GTTGTAAATGTTGAGATTCGAATA
*
66038187 TTGGATTTACGAAAAGCTAT-A
64 TTGGACTTACGAAAA--TATGA
66038208 TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGG--GTTGTAAATGT
1 TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGTTGTTGTAAATGT
66038256 CAAAATTCTA
Statistics
Matches: 182, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
82 11 0.06
83 3 0.02
84 57 0.31
85 35 0.19
86 73 0.40
88 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (83 bp):
TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGTTGTTGTAAATGTTGAGATTCGAATATT
GGACTTACGAAAATATGA
Found at i:66038325 original size:24 final size:24
Alignment explanation
Indices: 66038298--66038345 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66038288 ATATCAAGGG
66038298 TGGTTGATGAATCAATTGAGTTAA
1 TGGTTGATGAATCAATTGAGTTAA
66038322 TGGTTGATGAATCAATTGAGTTAA
1 TGGTTGATGAATCAATTGAGTTAA
66038346 GTCCCGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (24 bp):
TGGTTGATGAATCAATTGAGTTAA
Found at i:66040789 original size:4 final size:4
Alignment explanation
Indices: 66040780--66040860 Score: 103
Period size: 4 Copynumber: 20.8 Consensus size: 4
66040770 GCTAAGAAGG
* * *
66040780 TACA TACA TACA TACA TAC- -ACA TACC TACA TACA TGCA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
66040826 TACA TACA TACA TACA TACA TACG CACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TACA TACA TAC
66040861 GAATCCGAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 2 0.03
4 63 0.97
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (4 bp):
TACA
Found at i:66043615 original size:21 final size:21
Alignment explanation
Indices: 66043591--66043652 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
66043581 GTAAGCTTTT
66043591 AAGAAGAAATGAAGCATCTAA
1 AAGAAGAAATGAAGCATCTAA
* * **
66043612 AAGATG--ACG-AGC-T-TTT
1 AAGAAGAAATGAAGCATCTAA
66043628 AAGAAGAAATGAAGCATCTAA
1 AAGAAGAAATGAAGCATCTAA
66043649 AAGA
1 AAGA
66043653 TGACGAAGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 6 0.21
17 1 0.04
18 5 0.18
19 5 0.18
20 1 0.04
21 10 0.36
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.18
Consensus pattern (21 bp):
AAGAAGAAATGAAGCATCTAA
Found at i:66043626 original size:37 final size:37
Alignment explanation
Indices: 66043584--66043658 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
66043574 GGTTTAAGTA
66043584 AGCTTTTAAGAAGAAATGAAGCATCTAAAAGATGACG
1 AGCTTTTAAGAAGAAATGAAGCATCTAAAAGATGACG
66043621 AGCTTTTAAGAAGAAATGAAGCATCTAAAAGATGACG
1 AGCTTTTAAGAAGAAATGAAGCATCTAAAAGATGACG
66043658 A
1 A
66043659 AGTATACAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (37 bp):
AGCTTTTAAGAAGAAATGAAGCATCTAAAAGATGACG
Found at i:66048342 original size:26 final size:26
Alignment explanation
Indices: 66048290--66048342 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
66048280 AAATACTATC
* * *
66048290 AAAATCAATCCATTAATCAATATAAA
1 AAAAACAATCAATTAATCAATAAAAA
* *
66048316 AAAAACAATCAATTAATTATTAAAAA
1 AAAAACAATCAATTAATCAATAAAAA
66048342 A
1 A
66048343 TTCATCACCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAACAATCAATTAATCAATAAAAA
Found at i:66051349 original size:15 final size:15
Alignment explanation
Indices: 66051329--66051358 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66051319 ATTCGAATAC
*
66051329 TATTCATATATGCAA
1 TATTCAAATATGCAA
66051344 TATTCAAATATGCAA
1 TATTCAAATATGCAA
66051359 AACAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (15 bp):
TATTCAAATATGCAA
Found at i:66051596 original size:30 final size:29
Alignment explanation
Indices: 66051560--66051649 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
66051550 TTATCTTTTT
* * *
66051560 AGTTAAATTTAGCTTTAATCTTATGAAAAA
1 AGTTAAATTTACCATTAACCTT-TGAAAAA
*
66051590 AGTTAAATTTGACCATTAACCTTTTAAAAA
1 AGTTAAATTT-ACCATTAACCTTTGAAAAA
* * *
66051620 AGTTAAATTTAACCATCAACTTTTCAAAAA
1 AGTTAAATTT-ACCATTAACCTTTGAAAAA
66051650 TAGTCGATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 42 0.82
31 9 0.18
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (29 bp):
AGTTAAATTTACCATTAACCTTTGAAAAA
Found at i:66051642 original size:29 final size:30
Alignment explanation
Indices: 66051585--66051649 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
66051575 TAATCTTATG
* *
66051585 AAAAAAGTTAAATTTGACCATTAACCTTTT
1 AAAAAAGTTAAATTTAACCATCAACCTTTT
66051615 AAAAAAGTTAAATTTAACCATCAA-CTTTT
1 AAAAAAGTTAAATTTAACCATCAACCTTTT
*
66051644 CAAAAA
1 AAAAAA
66051650 TAGTCGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AAAAAAGTTAAATTTAACCATCAACCTTTT
Found at i:66055867 original size:32 final size:28
Alignment explanation
Indices: 66055822--66055897 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 28
66055812 AAATTTTAAA
*
66055822 TTAATAAAT-ATAAAATTACACTTTGATCCCT
1 TTAA-AAATGATAAAATTA-A-TTTAAT-CCT
66055853 CTTAAAAATGATAAAAAATTAATTTAATCCT
1 -TTAAAAATGAT--AAAATTAATTTAATCCT
66055884 TTAAAAATGATAAA
1 TTAAAAATGATAAA
66055898 GATAGAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 3 0.08
30 11 0.28
31 7 0.17
32 11 0.28
33 1 0.03
34 7 0.17
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.36
Consensus pattern (28 bp):
TTAAAAATGATAAAATTAATTTAATCCT
Found at i:66057241 original size:19 final size:19
Alignment explanation
Indices: 66057203--66057241 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
66057193 AAATACTTTA
*
66057203 AAAATATTTTTTTATTTTT
1 AAAATATTTTTTTATGTTT
*
66057222 AAAATATTTTTTTGTGTTT
1 AAAATATTTTTTTATGTTT
66057241 A
1 A
66057242 TTAAAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
AAAATATTTTTTTATGTTT
Found at i:66061227 original size:24 final size:23
Alignment explanation
Indices: 66061185--66061247 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
66061175 AACCGATTTA
**
66061185 TAAACTAATAAATGCTAAATATAT
1 TAAA-TAATAAATATTAAATATAT
*
66061209 TATAATAATAAATATTAAATATTT
1 TA-AATAATAAATATTAAATATAT
* *
66061233 TAAAAAATATATATT
1 TAAATAATAAATATT
66061248 TTATTTAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 11 0.33
24 20 0.61
25 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAATAATAAATATTAAATATAT
Found at i:66069638 original size:22 final size:21
Alignment explanation
Indices: 66069607--66069656 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
66069597 CCAATTATGG
*
66069607 AATAAATTTATTGCTTTGTAA
1 AATAAATTTATTGCTTTATAA
*
66069628 AATAATATTTATTTCTTTATAA
1 AATAA-ATTTATTGCTTTATAA
66069650 AATAAAT
1 AATAAAT
66069657 GAGTTTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
AATAAATTTATTGCTTTATAA
Found at i:66073504 original size:15 final size:16
Alignment explanation
Indices: 66073467--66073508 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
66073457 AAGTTTGAAC
66073467 AACTCGAACACAAAAT
1 AACTCGAACACAAAAT
*
66073483 AATCTCGAATA-AAAAT
1 AA-CTCGAACACAAAAT
66073499 AACTCGAACA
1 AACTCGAACA
66073509 AGTAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 7 0.30
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (16 bp):
AACTCGAACACAAAAT
Found at i:66075045 original size:42 final size:43
Alignment explanation
Indices: 66074922--66075052 Score: 119
Period size: 42 Copynumber: 3.0 Consensus size: 43
66074912 CAGTGAAATT
*
66074922 ATAAAGCCTTGCCTCCCTCAGTTGCAGTGGAGCA-AGT-TAAAG
1 ATAAAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGA-TCGAAAG
** * * * *
66074964 ATAGCAAATCTTGCCTTCCTGCA-TCGACAGCGAAGCAGATCGAAA-
1 ATA--AAGCCTTGCCTCCCT-CAGTTG-CAGTGGAGCAGATCGAAAG
66075009 ATAAAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGATC-AAAG
1 ATAAAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGATCGAAAG
66075051 AT
1 AT
66075053 GGTGTATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
41 3 0.04
42 19 0.28
43 14 0.21
44 14 0.21
45 14 0.21
46 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (43 bp):
ATAAAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGATCGAAAG
Found at i:66076051 original size:88 final size:89
Alignment explanation
Indices: 66075678--66076057 Score: 202
Period size: 88 Copynumber: 4.3 Consensus size: 89
66075668 TTACAGATCT
* ** * *
66075678 TATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCTTGAGGTTACAGTG
1 TATCTCCCTAGGCAACAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAATG
66075743 GAGTACATTGAAGCCAGTA-ATTC
66 GAGTACATTGAAGCCAGTACATTC
* * * * *** * * * *
66075766 TATCTCCCTGGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG-T--AG
1 TATCTCCCTAGGCAACAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAG--GTTACAA
* * ** *** * * *
66075828 TGGAGCAGATCAAAGATGGCAGATTT
64 TGGAGTACATTGAAGCCAGTACATTC
* * ** * * * *** * * **
66075854 TACCTCCTTGAGGTTACAGTGGAGCACATTGAAGCCAGTA-ATTCTATCTCCCTG-GGCAACAAT
1 TATCTCCCT-AGGCAACAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAAT
* * * * *
66075917 GGAATATATTGAA--TATTACAGATC
65 GGAGTACATTGAAGCCAGTACA-TTC
* **
66075941 TTATCTCCCTAGACAATGGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAAT
1 -TATCTCCCTAGGCAACAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAAT
66076006 GGAGTACATTGAAGCCAGTA-ATTC
65 GGAGTACATTGAAGCCAGTACATTC
* *
66076030 TATCTCCCTAGGCAGCAGTGGAATAGAT
1 TATCTCCCTAGGCAACAGTGGAGTAGAT
66076058 TGAATATTAC
Statistics
Matches: 200, Mismatches: 79, Indels: 26
0.66 0.26 0.09
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 36 0.18
88 115 0.57
89 40 0.20
90 2 0.01
91 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (89 bp):
TATCTCCCTAGGCAACAGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAATG
GAGTACATTGAAGCCAGTACATTC
Found at i:66076203 original size:132 final size:132
Alignment explanation
Indices: 66075034--66076195 Score: 1812
Period size: 132 Copynumber: 8.8 Consensus size: 132
66075024 CCTCAGTTGC
*
66075034 AGTGGAGCAGATCAAAGATGGT-GTATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
1 AGTGGAGCAGATCGAAGATGGTAG-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
*
66075098 AGTAATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC
65 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC
66075163 AGT
130 AGT
* **
66075166 AGTGGAGCAGACCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
*
66075231 ATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66075296 GT
131 GT
*
66075298 AGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
66075363 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66075428 GT
131 GT
* *** *
66075430 AGTGGAGCAGATCAAAGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * *
66075495 GTAATTCTATTTTCCTGGGCAACAGTGGAATAGATTGAATATTACAGATCTTATCTCCCT-AGAC
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-C
66075559 AGT
130 AGT
* * *
66075562 GGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAATGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* *
66075627 GTAATTCTATCTCTCTGGGCAGCAGTGGAATAGATTGAATATTACAGATCTTATCTCCCT-AGAC
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-C
66075691 AGT
130 AGT
* *
66075694 AGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* *
66075759 GTAATTCTATCTCCCTGGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66075824 GT
131 GT
* * * *
66075826 AGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGCACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * *
66075891 GTAATTCTATCTCCCTGGGCAACAATGGAATATATTGAATATTACAGATCTTATCTCCCT-AGAC
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-C
*
66075955 AAT
130 AGT
* * *
66075958 GGTGGAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAATGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* *
66076023 GTAATTCTATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTACAGATCTTATCTCCCT-AGAC
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-C
66076087 AGT
130 AGT
* * **
66076090 AGTGGAGTAGATCGAAGATGGTAGATTTTACCTCTCTGAGGTTACAGTGGAGTATGTTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * * *
66076155 GTAATTCTAACTCCCTGGTCGGCAGTGGAATCGATCGAAGA
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
66076196 AAGCAGATAT
Statistics
Matches: 958, Mismatches: 68, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
131 4 0.00
132 951 0.99
133 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
GT
Found at i:66076250 original size:44 final size:44
Alignment explanation
Indices: 66076187--66076372 Score: 219
Period size: 44 Copynumber: 4.2 Consensus size: 44
66076177 CAGTGGAATC
* *
66076187 GATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAATA
1 GATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTA
* * *
66076231 GATCGAAGAAAGTAAATATTGTCTTCATGTATTGGCATGGAGTA
1 GATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTA
* * *
66076275 AATCGAAGAAAGCAGATCTTGTCTTCTTGTATTGGCATGAAGTA
1 GATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTA
* * * *** **
66076319 GATCAAAGAGAGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATATTGTCTTCATGTATTGG-CATGAAGTA
66076364 GATCGAAGA
1 GATCGAAGA
66076373 TACAAGTCTT
Statistics
Matches: 121, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 106 0.88
45 15 0.12
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (44 bp):
GATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTA
Found at i:66076603 original size:124 final size:125
Alignment explanation
Indices: 66076379--66076624 Score: 388
Period size: 124 Copynumber: 2.0 Consensus size: 125
66076369 AAGATACAAG
* * *
66076379 TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAACCGGTCCTATCTCCTTGGAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAACCAGTCCTATCTCCTTGAAGTTGCA
* * *
66076444 ATGGAGTGGATTAAAACTGCTGATCTTATCTCTCTG-AAGTTGCAG-AGAGCAGATCATA
66 ATGGAGTGGATTAAAACTACGGATCTCATCTCTCTGAAAGTTGCAGTAGAGCAGATCATA
* * *
66076502 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTGACCAAGTCTTATCTCCTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAACC-AGTCCTATCTCCTTGAAGTTGC
66076567 AATGGAGTGGATTAAAACTACGGATCTCATCTCTCTGAAAGTTGCAGTAGAGCAGATC
65 AATGGAGTGGATTAAAACTACGGATCTCATCTCTCTGAAAGTTGCAGTAGAGCAGATC
66076625 GCATCAGATT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
123 39 0.35
124 53 0.48
125 9 0.08
126 10 0.09
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (125 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAATAACCAGTCCTATCTCCTTGAAGTTGCA
ATGGAGTGGATTAAAACTACGGATCTCATCTCTCTGAAAGTTGCAGTAGAGCAGATCATA
Found at i:66078091 original size:15 final size:15
Alignment explanation
Indices: 66078066--66078115 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
66078056 TCCCATTATT
*
66078066 TATTA-TTATTGTTA
1 TATTATTTATTGTCA
66078080 TATTATTTATTGTCA
1 TATTATTTATTGTCA
66078095 TCATTA-TTATT-TC-
1 T-ATTATTTATTGTCA
66078108 TATTATTT
1 TATTATTT
66078116 TTATATTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 7 0.22
15 14 0.44
16 4 0.12
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (15 bp):
TATTATTTATTGTCA
Found at i:66079845 original size:15 final size:16
Alignment explanation
Indices: 66079808--66079849 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
66079798 AAGTTTGCGC
66079808 AACTCGAACACAAAAT
1 AACTCGAACACAAAAT
*
66079824 AATCTCGAATA-AAAAT
1 AA-CTCGAACACAAAAT
66079840 AACTCGAACA
1 AACTCGAACA
66079850 AGTAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 7 0.30
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (16 bp):
AACTCGAACACAAAAT
Found at i:66082318 original size:6 final size:6
Alignment explanation
Indices: 66082309--66082349 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
66082299 TTAAGGTTTT
* * *
66082309 GTATAC GTATAC GTATAC GTATTC GTATAT GTATAT GTATA
1 GTATAC GTATAC GTATAC GTATAC GTATAC GTATAC GTATA
66082350 TCTTTGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (6 bp):
GTATAC
Found at i:66083965 original size:21 final size:20
Alignment explanation
Indices: 66083939--66083990 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
66083929 AGCAGTGACA
* *
66083939 GTGAGATTAATTATTGTAGTG
1 GTGAGATTAA-TACTGTAGCG
66083960 GTGAGATTCAATACTGTAGCG
1 GTGAGATT-AATACTGTAGCG
66083981 GTGAGATTAA
1 GTGAGATTAA
66083991 AAACAACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.35
Consensus pattern (20 bp):
GTGAGATTAATACTGTAGCG
Found at i:66085498 original size:32 final size:32
Alignment explanation
Indices: 66085462--66085588 Score: 161
Period size: 32 Copynumber: 4.0 Consensus size: 32
66085452 ATATGTTTTC
66085462 TTACTTATCCATAGTACTAATTAACTGTATTG
1 TTACTTATCCATAGTACTAATTAACTGTATTG
66085494 TTACTTATCCATAGTACTAATTAACTGTATTGG
1 TTACTTATCCATAGTACTAATTAACTGTATT-G
** * * * *
66085527 TTA-TCGTCAAATCGT-C-ACTTGACTGTATTG
1 TTACTTATC-CATAGTACTAATTAACTGTATTG
66085557 TTACTTATCCATAGTACTAATTAACTGTATTG
1 TTACTTATCCATAGTACTAATTAACTGTATTG
66085589 GTTATCGTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
30 8 0.10
31 15 0.19
32 47 0.60
33 8 0.10
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (32 bp):
TTACTTATCCATAGTACTAATTAACTGTATTG
Found at i:66085558 original size:63 final size:63
Alignment explanation
Indices: 66085485--66085610 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
66085475 GTACTAATTA
66085485 ACTGTATTGTTACTTATCCATAGTACTAATTAACTGTATTGGTTATCGTCAAATCGTCACTTG
1 ACTGTATTGTTACTTATCCATAGTACTAATTAACTGTATTGGTTATCGTCAAATCGTCACTTG
66085548 ACTGTATTGTTACTTATCCATAGTACTAATTAACTGTATTGGTTATCGTCAAATCGTCACTTG
1 ACTGTATTGTTACTTATCCATAGTACTAATTAACTGTATTGGTTATCGTCAAATCGTCACTTG
66085611 TCTTACTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (63 bp):
ACTGTATTGTTACTTATCCATAGTACTAATTAACTGTATTGGTTATCGTCAAATCGTCACTTG
Found at i:66088008 original size:24 final size:24
Alignment explanation
Indices: 66087980--66088028 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
66087970 AATGATGTGC
*
66087980 TTAATTATTTTTAATTGTTCACTT
1 TTAATTATTCTTAATTGTTCACTT
*
66088004 TTAATTATTCTTAATTGTTGACTT
1 TTAATTATTCTTAATTGTTCACTT
66088028 T
1 T
66088029 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.08, G:0.06, T:0.61
Consensus pattern (24 bp):
TTAATTATTCTTAATTGTTCACTT
Found at i:66101560 original size:11 final size:11
Alignment explanation
Indices: 66101544--66101568 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66101534 CAAACAAGGG
66101544 AAAATGCCTGT
1 AAAATGCCTGT
66101555 AAAATGCCTGT
1 AAAATGCCTGT
66101566 AAA
1 AAA
66101569 TGTACTTGCC
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (11 bp):
AAAATGCCTGT
Found at i:66105638 original size:2 final size:2
Alignment explanation
Indices: 66105631--66105662 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66105621 TATGCACGCG
66105631 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
66105663 GACATACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:66105671 original size:4 final size:4
Alignment explanation
Indices: 66105664--66105702 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
66105654 ACACACACAG
66105664 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
66105703 GTCTATGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:66108863 original size:3 final size:3
Alignment explanation
Indices: 66108855--66108881 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
66108845 TTGTTGCTTC
66108855 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
66108882 TCAAGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66113582 original size:13 final size:13
Alignment explanation
Indices: 66113564--66113590 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66113554 CGTTAATTTT
66113564 TAAATCTAAAAAA
1 TAAATCTAAAAAA
66113577 TAAATCTAAAAAA
1 TAAATCTAAAAAA
66113590 T
1 T
66113591 TTCGACCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATCTAAAAAA
Found at i:66114523 original size:19 final size:18
Alignment explanation
Indices: 66114488--66114523 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
66114478 ATTATTGTTT
*
66114488 TATTTTTTATTTTTAATA
1 TATTTTTTATTTATAATA
66114506 TATTTTTTAGTTTATAAT
1 TATTTTTTA-TTTATAAT
66114524 TATCCTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTTTATTTATAATA
Found at i:66118906 original size:16 final size:16
Alignment explanation
Indices: 66118885--66118929 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
66118875 CTAATAAACA
*
66118885 AAAATATCTCAAACTT
1 AAAATAACTCAAACTT
* *
66118901 AAAATAACTCGAATTT
1 AAAATAACTCAAACTT
66118917 AAAATAA-TCAAAC
1 AAAATAACTCAAAC
66118930 AAGAAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATAACTCAAACTT
Found at i:66119863 original size:20 final size:19
Alignment explanation
Indices: 66119836--66119888 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
66119826 TACAAAATAA
66119836 TCAAAATAATTTTCATAAAT
1 TCAAAATAATTTTCA-AAAT
* *
66119856 TTAAAATAATTTTTAAAAT
1 TCAAAATAATTTTCAAAAT
66119875 TCAAAATAAATTTT
1 TCAAAAT-AATTTT
66119889 AAATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
TCAAAATAATTTTCAAAAT
Found at i:66119880 original size:19 final size:19
Alignment explanation
Indices: 66119836--66119891 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
66119826 TACAAAATAA
*
66119836 TCAAAATAATTTTCATAAAT
1 TCAAAATAATTTTTA-AAAT
*
66119856 TTAAAATAATTTTTAAAAT
1 TCAAAATAATTTTTAAAAT
*
66119875 TCAAAATAAATTTTAAA
1 TCAAAATAATTTTTAAA
66119892 TATTTTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TCAAAATAATTTTTAAAAT
Found at i:66131584 original size:25 final size:26
Alignment explanation
Indices: 66131525--66131584 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
66131515 GTTACTTAAT
* *
66131525 AAATAATTATTATTTTTGTTTACCAAA
1 AAATAATTATTATTTTTG-TAAACAAA
*
66131552 ATAA-AATTATTATTTTTG-AAAGAAA
1 A-AATAATTATTATTTTTGTAAACAAA
66131577 AAATAATT
1 AAATAATT
66131585 TAGTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.07
25 9 0.32
27 15 0.54
28 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (26 bp):
AAATAATTATTATTTTTGTAAACAAA
Found at i:66132828 original size:4 final size:4
Alignment explanation
Indices: 66132819--66132854 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
66132809 AAAAGGCTAA
66132819 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
66132855 AAACAATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:66133004 original size:4 final size:4
Alignment explanation
Indices: 66132995--66133031 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
66132985 CCTCTCTCAG
*
66132995 GTAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
66133032 CGCGCGCGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:66133094 original size:4 final size:4
Alignment explanation
Indices: 66133074--66133115 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
66133064 TCTGTCTGTG
* * *
66133074 TGTA TGTG TGCA TGTA TGTA TGTA TGTA CGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
66133116 AATGAATGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:66133503 original size:4 final size:4
Alignment explanation
Indices: 66133496--66133534 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
66133486 TCACACACAC
66133496 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
66133535 CTTACAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:66140808 original size:16 final size:15
Alignment explanation
Indices: 66140787--66140816 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
66140777 TATGGTGCTT
66140787 TTTTTTTCTTTCTTTC
1 TTTTTTTC-TTCTTTC
66140803 TTTTTTTCTTCTTT
1 TTTTTTTCTTCTTT
66140817 AAGAGTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTCTTTC
Found at i:66143989 original size:24 final size:24
Alignment explanation
Indices: 66143962--66144007 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
66143952 CACGTTCGTT
66143962 ACATGTCAGTTTTTTTTAATTCGA
1 ACATGTCAGTTTTTTTTAATTCGA
66143986 ACATGTCAGTTTTTTTTAATTC
1 ACATGTCAGTTTTTTTTAATTC
66144008 TATTGCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (24 bp):
ACATGTCAGTTTTTTTTAATTCGA
Found at i:66162341 original size:20 final size:20
Alignment explanation
Indices: 66162316--66162354 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
66162306 TCAAATAATA
66162316 TTTAAAAG-TCATAAAACGAG
1 TTTAAAAGATC-TAAAACGAG
66162336 TTTAAAAGATCTAAAACGA
1 TTTAAAAGATCTAAAACGA
66162355 AAAAAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (20 bp):
TTTAAAAGATCTAAAACGAG
Found at i:66163648 original size:41 final size:41
Alignment explanation
Indices: 66163602--66163685 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
66163592 TTAAAAATAT
* * *
66163602 TTATATTAAAAAACATTACCATTAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
66163643 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
66163684 TT
1 TT
66163686 GTATCAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.40
Consensus pattern (41 bp):
TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
Found at i:66167437 original size:38 final size:38
Alignment explanation
Indices: 66167394--66167471 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
66167384 TATGAGGATT
66167394 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
1 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
66167432 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
1 AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
66167470 AA
1 AA
66167472 AGTTTCACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (38 bp):
AATTTCCACATCCCTTTACAATTCGTTATGAGCAAATC
Found at i:66183502 original size:10 final size:10
Alignment explanation
Indices: 66183484--66183516 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
66183474 TTTTCAATTC
*
66183484 TCATACAATA
1 TCATCCAATA
66183494 TCATCCAATA
1 TCATCCAATA
66183504 TCATCCAATA
1 TCATCCAATA
66183514 TCA
1 TCA
66183517 ATCATAGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.30
Consensus pattern (10 bp):
TCATCCAATA
Found at i:66206546 original size:103 final size:103
Alignment explanation
Indices: 66206367--66206569 Score: 388
Period size: 103 Copynumber: 2.0 Consensus size: 103
66206357 AGTAATATGT
66206367 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
1 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
*
66206432 TAGGAACAGAAAGGAACATAAAAACATAGCTCATACAA
66 TAGCAACAGAAAGGAACATAAAAACATAGCTCATACAA
*
66206470 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAAGGGAAGTGGCAACCATATTGGAAG
1 ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
66206535 TAGCAACAGAAAGGAACATAAAAACATAGCTCATA
66 TAGCAACAGAAAGGAACATAAAAACATAGCTCATA
66206570 TAATCACAAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (103 bp):
ACATACATATTATCAGTTGAAAACACTGACCTCTCTAGCAACGGAAGTGGCAACCATATTGGAAG
TAGCAACAGAAAGGAACATAAAAACATAGCTCATACAA
Found at i:66213004 original size:31 final size:31
Alignment explanation
Indices: 66212969--66213037 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
66212959 ACCAAAAAAA
*
66212969 TATTAAGTGT-AGTAGAGCACGCTAAAATTAG
1 TATTAAGTGTAAG-AGAGCACACTAAAATTAG
* * *
66213000 TATTAATTTTAAAGAGTGCACACTAAAATTAG
1 TATTAAGTGT-AAGAGAGCACACTAAAATTAG
66213032 TATTAA
1 TATTAA
66213038 AATTTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.25
32 22 0.69
33 2 0.06
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (31 bp):
TATTAAGTGTAAGAGAGCACACTAAAATTAG
Found at i:66217222 original size:15 final size:16
Alignment explanation
Indices: 66217202--66217232 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
66217192 TCTTCTCCAT
66217202 CACATG-ATAGATAAA
1 CACATGAATAGATAAA
66217217 CACATGAATAGATAAA
1 CACATGAATAGATAAA
66217233 ATCAGGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (16 bp):
CACATGAATAGATAAA
Found at i:66220475 original size:7 final size:7
Alignment explanation
Indices: 66220465--66220496 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
66220455 AACTTGGGAC
66220465 TTTGGTA
1 TTTGGTA
66220472 TTTGGTA
1 TTTGGTA
66220479 TTTGGTA
1 TTTGGTA
66220486 TTTGGATA
1 TTTGG-TA
66220494 TTT
1 TTT
66220497 CTATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (7 bp):
TTTGGTA
Found at i:66223384 original size:6 final size:6
Alignment explanation
Indices: 66223373--66223403 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
66223363 TCAAGTATAC
66223373 ATACAT ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT ATACAT A
66223404 ACCCAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:66241151 original size:33 final size:31
Alignment explanation
Indices: 66241104--66241166 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
66241094 TATTTTAAAT
*
66241104 AAATTTAATCTTTTTAG-TTCAAACCTATTTTTC
1 AAATTTAATATTTTT-GCTT-AAACCT-TTTTTC
*
66241137 AAATTTACTATTTTTGCTTAAACCTTTTTT
1 AAATTTAATATTTTTGCTTAAACCTTTTTT
66241167 ATATATTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 5 0.19
32 7 0.26
33 15 0.56
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (31 bp):
AAATTTAATATTTTTGCTTAAACCTTTTTTC
Found at i:66241698 original size:19 final size:20
Alignment explanation
Indices: 66241674--66241720 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
66241664 AAATACAAAT
66241674 ATATATAAAATTATT-TAAC
1 ATATATAAAATTATTATAAC
* *
66241693 ATATATAATATTTTTATAAC
1 ATATATAAAATTATTATAAC
66241713 ATAATATA
1 AT-ATATA
66241721 GGTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATAAAATTATTATAAC
Found at i:66242498 original size:31 final size:31
Alignment explanation
Indices: 66242461--66242522 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
66242451 TAATTTATAA
*
66242461 AAAAAATTT-AAAGAGTTTAACTAAAACTTTT
1 AAAAAATTTGAAAGA-TTTAACTAAAAATTTT
* *
66242492 AAAAAATTTGAATGATTTAATTAAAAATTTT
1 AAAAAATTTGAAAGATTTAACTAAAAATTTT
66242523 GATTGCTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (31 bp):
AAAAAATTTGAAAGATTTAACTAAAAATTTT
Found at i:66244419 original size:17 final size:17
Alignment explanation
Indices: 66244393--66244427 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66244383 GGAGTTTGCG
*
66244393 TTATAGGAAGGTACCAA
1 TTATAGGAAGGGACCAA
*
66244410 TTATATGAAGGGACCAA
1 TTATAGGAAGGGACCAA
66244427 T
1 T
66244428 CGTTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (17 bp):
TTATAGGAAGGGACCAA
Found at i:66245288 original size:19 final size:20
Alignment explanation
Indices: 66245259--66245297 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
66245249 CATATTTTTT
*
66245259 TAAATAAATAATTAAGAAAA
1 TAAATAAATAATAAAGAAAA
66245279 TAAA-AAATAATAAAGAAAA
1 TAAATAAATAATAAAGAAAA
66245298 AAGTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
TAAATAAATAATAAAGAAAA
Found at i:66245609 original size:3 final size:3
Alignment explanation
Indices: 66245601--66245644 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
66245591 CCTACTTTCA
* * *
66245601 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATA TTC TTC ATC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
66245645 TATCAGGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:66246215 original size:21 final size:21
Alignment explanation
Indices: 66246192--66246230 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66246182 TTTTCTTGTT
*
66246192 TTTTC-ATGCATTTTTTTGAA
1 TTTTCAATGCATTCTTTTGAA
66246212 TTTTCAATGCATTCTTTTG
1 TTTTCAATGCATTCTTTTG
66246231 CCGGCGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTCAATGCATTCTTTTGAA
Found at i:66257343 original size:19 final size:17
Alignment explanation
Indices: 66257312--66257358 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
66257302 TCCAGAAATT
66257312 AAAAAAAGAAAAATTCAG
1 AAAAAAAGAAAAATT-AG
*
66257330 AAAAATAAGTAAAATTAG
1 AAAAA-AAGAAAAATTAG
66257348 -AAAAAAGAAAA
1 AAAAAAAGAAAA
66257359 GAAAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 4 0.15
18 7 0.27
19 9 0.35
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (17 bp):
AAAAAAAGAAAAATTAG
Found at i:66270085 original size:21 final size:21
Alignment explanation
Indices: 66270022--66270086 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
66270012 GCTTTACTAT
* *
66270022 CCTCCTCTATCTCCTCTGTA-
1 CCTCCTCTGTCTCCTCTGCAG
*
66270042 --TCCTCCGTCTCCTCTGC-G
1 CCTCCTCTGTCTCCTCTGCAG
66270060 ACCTCCTCTGTCTCCTCTGCAG
1 -CCTCCTCTGTCTCCTCTGCAG
66270082 CCTCC
1 CCTCC
66270087 AATTCCAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
18 14 0.39
21 21 0.58
22 1 0.03
ACGTcount: A:0.06, C:0.49, G:0.11, T:0.34
Consensus pattern (21 bp):
CCTCCTCTGTCTCCTCTGCAG
Found at i:66277792 original size:13 final size:13
Alignment explanation
Indices: 66277774--66277821 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
66277764 ATAACAAGGG
66277774 TAATAATATAATT
1 TAATAATATAATT
*
66277787 TAATAATTTAA--
1 TAATAATATAATT
66277798 -AATAAATATAATT
1 TAAT-AATATAATT
66277811 TAATAATATAA
1 TAATAATATAA
66277822 ATTATTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
13 17 0.59
14 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATATAATT
Found at i:66283415 original size:18 final size:20
Alignment explanation
Indices: 66283377--66283414 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66283367 TTTATTTTAG
66283377 TTTAAATATATTATTAAAAA
1 TTTAAATATATTATTAAAAA
*
66283397 TTTAAATATCTT-TTAAAA
1 TTTAAATATATTATTAAAA
66283415 TGTTCTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAATATATTATTAAAAA
Found at i:66289543 original size:268 final size:268
Alignment explanation
Indices: 66289066--66289568 Score: 844
Period size: 268 Copynumber: 1.9 Consensus size: 268
66289056 TTGTCACTTT
66289066 TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
1 TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
* * * *
66289131 GTGTTGAATTTTTCTCAATGACACTAATATGTGAATAATTATTTACTATATTCTTTAGTGATAAC
66 GTGTTGAATCTTTCTCAATGACACCAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
* *
66289196 TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAGTGTCTTCAAGTACAGGATATTG
131 TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAATGTCTTCAAGTACAGAATATTG
*
66289261 ATGATGTAGAAAAAGGCAATGTCTTGTTAAACTATTGTCAGTAGTTTGTCACCTACTATATTTGC
196 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCAGTAGTTTGTCACCTACTATATTTGC
66289326 TCAACTCA
261 TCAACTCA
* *
66289334 TCAATTTTAAATTGAAACAAAGACTGTGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
1 TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
* * *
66289399 GTGTTGAATCTTTCTCATTGACACCAATATTTGAATAACTATTTACTATATTCTTTAGGGATAAT
66 GTGTTGAATCTTTCTCAATGACACCAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
* * * ** *
66289464 TATTCATATCCGGTTGGATTTGTAGTAATCATTATTACAATAATGTGTTCAAGTACAGAATATTG
131 TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAATGTCTTCAAGTACAGAATATTG
66289529 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCA
196 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCA
66289569 CCCACTATAT
Statistics
Matches: 217, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
268 217 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (268 bp):
TCAATTTTAAAGTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
GTGTTGAATCTTTCTCAATGACACCAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
TATTCATATCCAGTTGGAGTTGAAGTAATCATTACCACAATAATGTCTTCAAGTACAGAATATTG
ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCAGTAGTTTGTCACCTACTATATTTGC
TCAACTCA
Found at i:66296604 original size:30 final size:30
Alignment explanation
Indices: 66296565--66296623 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
66296555 AGAGGTGAGA
*
66296565 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGGAAAAG
*
66296596 TGGG-AGGGAGTAAAAATTTTGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGGAAAA
66296624 ATAAAAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 14 0.54
31 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTTGGGGAAAAG
Found at i:66313950 original size:27 final size:27
Alignment explanation
Indices: 66313911--66313986 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
66313901 TAGTATTGGC
*
66313911 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
* *
66313938 GCCTATCTAGGAGGCACCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
66313965 GCCTATCTGGGAGGTGCCAATG
1 GCCTATCTGGGAGGCGCCAATG
66313987 CTCTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:66314027 original size:19 final size:19
Alignment explanation
Indices: 66314003--66314043 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
66313993 TTTTTTCGGG
*
66314003 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
66314022 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
66314041 TTT
1 TTT
66314044 TTGTGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:66314471 original size:260 final size:260
Alignment explanation
Indices: 66314003--66314508 Score: 949
Period size: 260 Copynumber: 1.9 Consensus size: 260
66313993 TTTTTTCGGG
* *
66314003 TTTAGGGTTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAACATT
1 TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
66314068 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTACTAATAAATTTATAACATAATCCTA
66 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTACTAATAAATTTATAACATAATCCTA
*
66314133 ATTTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA
131 AATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA
*
66314198 TATCCCGACATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAATTATTTAAAA
196 TATCCCGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAATTATTTAAAA
* *
66314263 TTTAGGATTATGTTGTAAATTTAGGATTATGTTATAATTTTTTGTGTTTGTAATTATTTAAAATT
1 TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
66314328 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTACTAATAAATTTATAACATAATCCTA
66 TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTACTAATAAATTTATAACATAATCCTA
*
66314393 AATTACTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAATA
131 AATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA
66314458 TATCCCGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
196 TATCCCGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
66314509 TAAAATTGCA
Statistics
Matches: 239, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
260 239 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (260 bp):
TTTAGGATTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATT
TAATTTATTAGTAATAAATTACAAAATTACTAATAAGTTACTAATAAATTTATAACATAATCCTA
AATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA
TATCCCGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAATTATTTAAAA
Found at i:66314503 original size:27 final size:27
Alignment explanation
Indices: 66314467--66314523 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
66314457 ATATCCCGAC
66314467 ATTACAATATTCACACAAAATTACAAT
1 ATTACAATATTCACACAAAATTACAAT
* * *
66314494 ATTACAATATTCATATAAAATTGCAAT
1 ATTACAATATTCACACAAAATTACAAT
66314521 ATT
1 ATT
66314524 TTTTTGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCACACAAAATTACAAT
Found at i:66314589 original size:22 final size:22
Alignment explanation
Indices: 66314564--66314650 Score: 120
Period size: 22 Copynumber: 3.7 Consensus size: 22
66314554 TCTATATTTA
66314564 GTATGAATATTGTAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
66314586 GTATGAATATTGTAATATTATAATTTT
1 GTATGAATATTGT-A-ATT-T--TTTT
*
66314613 GTATGAATATTGCAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
66314635 GTATGAATATTGTAAT
1 GTATGAATATTGTAAT
66314651 ATTGTAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 32 0.55
23 1 0.02
24 4 0.07
25 4 0.07
26 1 0.02
27 16 0.28
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (22 bp):
GTATGAATATTGTAATTTTTTT
Found at i:66314618 original size:49 final size:49
Alignment explanation
Indices: 66314559--66314658 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
66314549 GATTATCTAT
*
66314559 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
* *
66314608 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
66314657 AT
1 AT
66314659 ATTATAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:66314653 original size:8 final size:8
Alignment explanation
Indices: 66314640--66314711 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
66314630 TTTTTGTATG
66314640 AATATTGT
1 AATATTGT
66314648 AATATTGT
1 AATATTGT
*
66314656 AATATTAT
1 AATATTGT
*
66314664 AATTTTGTAT
1 AATATTG--T
66314674 GAATATTGT
1 -AATATTGT
* * *
66314683 AATGTCGGG
1 AATAT-TGT
66314692 ATATATTGT
1 A-ATATTGT
66314701 AATATTGT
1 AATATTGT
66314709 AAT
1 AAT
66314712 TTTTTGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 34 0.69
9 5 0.10
10 4 0.08
11 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (8 bp):
AATATTGT
Found at i:66315741 original size:85 final size:85
Alignment explanation
Indices: 66315598--66315767 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
66315588 ATTAATCCTC
* * *
66315598 GTAAAATAATAAGGATGTTGGTCGTACTTCGAAAGTTTTATTTCATTTGCACATCGTTGAACTCA
1 GTAAAATAATAAGGATATTAGTCATACTTCGAAAGTTTTATTTCATTTGCACATCGTTGAACTCA
66315663 AACCCATACTCTATAACATT
66 AACCCATACTCTATAACATT
66315683 GTAAAATAATAAGGATATTAGTCATACTTCGAAAGTTTTATTTCATTTGCACATCGTTGAACTCA
1 GTAAAATAATAAGGATATTAGTCATACTTCGAAAGTTTTATTTCATTTGCACATCGTTGAACTCA
66315748 AACCCATACTCTATAACATT
66 AACCCATACTCTATAACATT
66315768 ATAGAGCATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (85 bp):
GTAAAATAATAAGGATATTAGTCATACTTCGAAAGTTTTATTTCATTTGCACATCGTTGAACTCA
AACCCATACTCTATAACATT
Found at i:66327592 original size:33 final size:35
Alignment explanation
Indices: 66327539--66327604 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
66327529 CAAACAGTAG
* *
66327539 AAAATATTTTCTAGTAAATCA-TTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
66327573 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
66327605 TATTTTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:66335038 original size:30 final size:29
Alignment explanation
Indices: 66334987--66335044 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
66334977 GCCATTTAAG
**
66334987 TTTTGGGGTTTGCTTAAAATTTTCAAAAT
1 TTTTGGGGTTTAATTAAAATTTTCAAAAT
* *
66335016 TTTTGGGGGTTTAATTAGAATTTTTAAAA
1 TTTT-GGGGTTTAATTAAAATTTTCAAAA
66335045 ATTATGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.48
Consensus pattern (29 bp):
TTTTGGGGTTTAATTAAAATTTTCAAAAT
Found at i:66347997 original size:26 final size:25
Alignment explanation
Indices: 66347935--66347999 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
66347925 CTATTTTTGT
* * *
66347935 ATATTATAAAATTTATGTAATGTAA
1 ATATTAAAAAATATATATAATGTAA
* *
66347960 AAACTAATAAAATATATCATAATGTAA
1 ATATTAA-AAAATATAT-ATAATGTAA
66347987 ATATTAAAAAATA
1 ATATTAAAAAATA
66348000 ATTTATAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 4 0.13
26 14 0.45
27 13 0.42
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATTAAAAAATATATATAATGTAA
Found at i:66349558 original size:31 final size:31
Alignment explanation
Indices: 66349477--66349558 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
66349467 AATTAAAGGA
*
66349477 TTAATATATC-ATTTGGTATCTATATTTGGTT
1 TTAATAT-TCAATTTGGTACCTATATTTGGTT
* ** *
66349508 TTAATATTCAAATCAGTACCTATGTTTGGTT
1 TTAATATTCAATTTGGTACCTATATTTGGTT
*
66349539 TTAGTATTCAATTTGGTACC
1 TTAATATTCAATTTGGTACC
66349559 CAAACTAAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (31 bp):
TTAATATTCAATTTGGTACCTATATTTGGTT
Found at i:66351385 original size:17 final size:18
Alignment explanation
Indices: 66351353--66351391 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
66351343 AGGAAACAAT
*
66351353 TAATAGTACCATTAAAAA
1 TAATAGTACAATTAAAAA
66351371 TAATAGTA-AATTAAAAA
1 TAATAGTACAATTAAAAA
66351388 -AATA
1 TAATA
66351392 TTATTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
TAATAGTACAATTAAAAA
Found at i:66352778 original size:20 final size:20
Alignment explanation
Indices: 66352753--66352792 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66352743 CATGACGGAA
66352753 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
66352773 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
66352793 AACAATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:66360655 original size:6 final size:6
Alignment explanation
Indices: 66360641--66360673 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
66360631 AAATGAAAAA
*
66360641 AAAAAC AAAATC AAAATC AAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
66360674 AATAAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:66360656 original size:12 final size:12
Alignment explanation
Indices: 66360641--66360685 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
66360631 AAATGAAAAA
66360641 AAAAACAAAATC
1 AAAAACAAAATC
*
66360653 AAAATCAAAATC
1 AAAAACAAAATC
*
66360665 AAAATAAAAAAT-
1 AAAA-ACAAAATC
66360677 AAAAACAAA
1 AAAAACAAA
66360686 GAGAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 4 0.14
12 19 0.68
13 5 0.18
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (12 bp):
AAAAACAAAATC
Found at i:66362528 original size:88 final size:88
Alignment explanation
Indices: 66362368--66362937 Score: 730
Period size: 88 Copynumber: 6.5 Consensus size: 88
66362358 ACAGATCAAT
* *
66362368 GAAGTCACAAACCTTGCCTCTTTCGATTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
*
66362433 CTACATTGACAGCGAAGCAGATC
66 CTGCATTGACAGCGAAGCAGATC
* *
66362456 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
66362521 CTGCATTGACAGCGAAGCAGATC
66 CTGCATTGACAGCGAAGCAGATC
* *
66362544 GAAGACACAAACCTTGCCTCTTT-GGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
66362608 CTGCATTGACAGCGAAGCAGATC
66 CTGCATTGACAGCGAAGCAGATC
* *
66362631 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTC
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
** *
66362696 CTGCATTGACATTGAAGCAGGTC
66 CTGCATTGACAGCGAAGCAGATC
* ** *
66362719 GAAGACACAAACCTTGCCTCTCTCGGTTGT-AGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCGT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGA-TGGAGCTGGTTAAAGACAAAAGATCTTGCCTT
* *
66362782 CCTACATTAACAGCGAAGCAGATC
65 CCTGCATTGACAGCGAAGCAGATC
* ** * * * **
66362806 GAA-A-ACAAAGCCTTGCATCCATCGATTG-CAGTGGAGCTAGTTAAAGA-AGCAGATCTTGCCT
1 GAAGACACAAA-CCTTGCCTCTTTCGGTTGTGA-TGGAGCTGGTTAAAGACAAAAGATCTTGCCT
* *
66362867 TCCTGCATTAACAGCAAAGCAGATC
64 TCCTGCATTGACAGCGAAGCAGATC
* * *
66362892 -AA-AAACAAAGCCTTGCCTCCATT-GGTTG-CATTGGAGCTGGTTAAAG
1 GAAGACACAAA-CCTTGCCT-CTTTCGGTTGTGA-TGGAGCTGGTTAAAG
66362938 GTTACAGATT
Statistics
Matches: 441, Mismatches: 35, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
85 8 0.02
86 101 0.23
87 124 0.28
88 208 0.47
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (88 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
CTGCATTGACAGCGAAGCAGATC
Found at i:66362671 original size:175 final size:176
Alignment explanation
Indices: 66362368--66362937 Score: 739
Period size: 175 Copynumber: 3.3 Consensus size: 176
66362358 ACAGATCAAT
* *
66362368 GAAGTCACAAACCTTGCCTCTTTCGATTGTGA-TGGAGCTGGTTAAAGACAAAAGATCTTGCCTT
1 GAAGACACAAACCTTGCCTCTTT-GGTTGTGAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTT
66362432 CCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
65 CCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
*
66362497 TTGAAGACAAAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATC
130 TTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
* *
66362544 GAAGACACAAACCTTGCCTCTTTGGTTGTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTT
1 GAAGACACAAACCTTGCCTCTTTGGTTGTGAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
* *
66362608 CTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGT
66 CTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGT
** *
66362673 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACATTGAAGCAGGTC
131 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
* ** *
66362719 GAAGACACAAACCTTGCCTCTCTCGGTTGT-AGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCGT
1 GAAGACACAAACCTTGCCTCT-TTGGTTGTGAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTT
* * ** * *
66362782 CCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCATCCATCGATTG-CAGTGGAGCT
65 CCTACATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTTGTGA-TGGAGCT
* * ** * *
66362844 AGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC
128 GGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
* * * *
66362892 -AA-AAACAAAGCCTTGCCTCCATTGGTTG-CATTGGAGCTGGTTAAAG
1 GAAGACACAAA-CCTTGCCT-CTTTGGTTGTGAGTGGAGCTGGTTAAAG
66362938 GTTACAGATT
Statistics
Matches: 350, Mismatches: 37, Indels: 18
0.86 0.09 0.04
Matches are distributed among these distances:
171 6 0.02
172 32 0.09
173 39 0.11
174 28 0.08
175 201 0.57
176 44 0.13
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (176 bp):
GAAGACACAAACCTTGCCTCTTTGGTTGTGAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
CTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGT
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
Found at i:66363182 original size:43 final size:44
Alignment explanation
Indices: 66363082--66363187 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
66363072 GATCTTGTCC
* * *
66363082 CCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCT
1 CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
* * **
66363126 CCCCG-AGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCT
1 CCCTGAAG-TTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
66363169 CCCTGAAGTTACAGTGGAG
1 CCCTGAAGTTACAGTGGAG
66363188 TGGGTTAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
43 24 0.47
44 27 0.53
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (44 bp):
CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
Found at i:66363747 original size:20 final size:20
Alignment explanation
Indices: 66363722--66363761 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66363712 CATGACGGAA
66363722 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
66363742 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
66363762 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:66368802 original size:3 final size:3
Alignment explanation
Indices: 66368794--66368846 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
66368784 GTGTGGATAT
66368794 ATA ATA ATA ATA 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 ATA ATA ATA ATA
66368842 ATA AT
1 ATA AT
66368847 GGTAAAATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:66373934 original size:21 final size:21
Alignment explanation
Indices: 66373910--66373950 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66373900 TCAAATTTTT
*
66373910 TATATTTTAATTAAAGTAAAC
1 TATAATTTAATTAAAGTAAAC
*
66373931 TATAATTTAATTAAATTAAA
1 TATAATTTAATTAAAGTAAA
66373951 TTTTATAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAATTTAATTAAAGTAAAC
Found at i:66373962 original size:21 final size:21
Alignment explanation
Indices: 66373938--66373986 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
66373928 AACTATAATT
66373938 TAATTAAAT-TAAATTTTATAG
1 TAATTAAATGT-AATTTTATAG
* * *
66373959 TAATTCAATGTAATTTTTTTG
1 TAATTAAATGTAATTTTATAG
66373980 TAATTAA
1 TAATTAA
66373987 TATTTCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (21 bp):
TAATTAAATGTAATTTTATAG
Found at i:66379212 original size:28 final size:30
Alignment explanation
Indices: 66379171--66379235 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
66379161 TAGAGTTATG
*
66379171 ATCAAATTAATCCTT-TACTATT-AAATGA
1 ATCAAATTAATCCTTATACTATTAAAAAGA
* * *
66379199 ATCAATTTAGTCCTTATACTGTTAAAAAGA
1 ATCAAATTAATCCTTATACTATTAAAAAGA
66379229 ATCAAAT
1 ATCAAAT
66379236 AATGCGAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 13 0.43
29 6 0.20
30 11 0.37
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (30 bp):
ATCAAATTAATCCTTATACTATTAAAAAGA
Found at i:66381838 original size:69 final size:69
Alignment explanation
Indices: 66381727--66381866 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
66381717 TTTTCTATCC
* *
66381727 AGTTATCACGTTCAAGCTCTCATATGAGAATAGTTGTCTAATTTAAGCCCCAATGTGAAGACATT
1 AGTTATCAAGTTCAAGCTCTCATATAAGAATAGTTGTCTAATTTAAGCCCCAATGTGAAGACATT
66381792 TGTA
66 TGTA
*
66381796 AGTTATCAAGTTCAAGCTCTTATATAAGAATAAG-TGTCTAATTTAAGCCCCAATGTGAAGACAT
1 AGTTATCAAGTTCAAGCTCTCATATAAGAAT-AGTTGTCTAATTTAAGCCCCAATGTGAAGACAT
66381860 TTGTA
65 TTGTA
66381865 AG
1 AG
66381867 GATTAACTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 65 0.97
70 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (69 bp):
AGTTATCAAGTTCAAGCTCTCATATAAGAATAGTTGTCTAATTTAAGCCCCAATGTGAAGACATT
TGTA
Found at i:66385557 original size:10 final size:10
Alignment explanation
Indices: 66385542--66385574 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
66385532 AATTAAATTG
66385542 ATTTTATATT
1 ATTTTATATT
66385552 ATTTTATAATT
1 ATTTTAT-ATT
66385563 -TTTTATATT
1 ATTTTATATT
66385572 ATT
1 ATT
66385575 AATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.14
10 15 0.71
11 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTATATT
Found at i:66385581 original size:18 final size:20
Alignment explanation
Indices: 66385543--66385582 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
66385533 ATTAAATTGA
*
66385543 TTTTATATTATTTTATAATT
1 TTTTATATTATTTAATAATT
66385563 TTTTATATTA-TTAAT-ATT
1 TTTTATATTATTTAATAATT
66385581 TT
1 TT
66385583 AACAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATATTATTTAATAATT
Found at i:66387000 original size:3 final size:3
Alignment explanation
Indices: 66386992--66387016 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
66386982 AAGTTATGGT
66386992 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
66387017 CCATTAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:66387749 original size:31 final size:31
Alignment explanation
Indices: 66387714--66387835 Score: 99
Period size: 31 Copynumber: 3.9 Consensus size: 31
66387704 GAGCCTTTCA
*
66387714 AAAATTTTAATTAGACCTTCCAAAATTTTTG
1 AAAATTTTAATTAAACCTTCCAAAATTTTTG
* *
66387745 AAAATTCTT-ATT-AATCTTCTCGAAATCTTTT-
1 AAAATT-TTAATTAAACCTTC-CAAAAT-TTTTG
* *
66387776 AAAATTTTAATTAAACC-CCCTAAAGTTTTTG
1 AAAATTTTAATTAAACCTTCC-AAAATTTTTG
* * *
66387807 AAAATATTAAGTAAACCCTTCCAAGATTT
1 AAAATTTTAATTAAA-CCTTCCAAAATTT
66387836 AATGTCACGT
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
30 12 0.17
31 40 0.57
32 16 0.23
33 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.40
Consensus pattern (31 bp):
AAAATTTTAATTAAACCTTCCAAAATTTTTG
Found at i:66392023 original size:20 final size:20
Alignment explanation
Indices: 66391998--66392037 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
66391988 CGTAAAATGA
*
66391998 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
66392018 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
66392038 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:66392027 original size:34 final size:35
Alignment explanation
Indices: 66391983--66392049 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
66391973 CAGTAAAATA
*
66391983 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
66392017 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
66392050 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:66405929 original size:18 final size:18
Alignment explanation
Indices: 66405898--66405932 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66405888 TCTATTATTA
*
66405898 AGTGGGGAATGTGCAATG
1 AGTGGGGAAGGTGCAATG
*
66405916 AGTGGTGAAGGTGCAAT
1 AGTGGGGAAGGTGCAAT
66405933 AGCTGGGGTC
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:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
AGTGGGGAAGGTGCAATG
Found at i:66414662 original size:18 final size:17
Alignment explanation
Indices: 66414629--66414667 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
66414619 TTGTATAAAT
66414629 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
66414647 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
66414664 TGTG
1 TGTG
66414668 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.