Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 193 of 295
Found at i:66026714 original size:30 final size:30
Alignment explanation
Indices: 66026680--66026776 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66026670 TAAACTAAAA
*
66026680 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
66026710 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66026740 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66026769 ATGAGCTA
1 -TGAGCTA
66026777 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:66029876 original size:23 final size:22
Alignment explanation
Indices: 66029825--66029888 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
66029815 CCTCGTCTTT
*
66029825 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
66029847 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
66029870 TTCTTTTCAATTTCTTTTT
1 TTCTTTTC--TTTCTTTTT
66029889 TTCACATTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 16 0.46
24 11 0.31
25 1 0.03
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.66
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:66033783 original size:12 final size:12
Alignment explanation
Indices: 66033768--66033798 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66033758 TTCTTTTTGC
66033768 TTTTCAAAGGCT
1 TTTTCAAAGGCT
66033780 TTTTCAAAGGCT
1 TTTTCAAAGGCT
66033792 TTTTCAA
1 TTTTCAA
66033799 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:66033875 original size:6 final size:6
Alignment explanation
Indices: 66033859--66033908 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
66033849 TTTCTTTTTA
*
66033859 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
66033908 T
1 T
66033909 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:66033891 original size:37 final size:37
Alignment explanation
Indices: 66033848--66033918 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
66033838 CTTGCCTCTC
66033848 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
66033885 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
66033919 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:66033919 original size:16 final size:16
Alignment explanation
Indices: 66033844--66033904 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
66033834 GCCTCTTGCC
*
66033844 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
66033860 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
66033876 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
66033892 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
66033905 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:66036634 original size:30 final size:30
Alignment explanation
Indices: 66036600--66036696 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66036590 TAAACTAAAA
*
66036600 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
66036630 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66036660 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66036689 ATGAGCTA
1 -TGAGCTA
66036697 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:66043924 original size:27 final size:27
Alignment explanation
Indices: 66043894--66044075 Score: 244
Period size: 27 Copynumber: 6.7 Consensus size: 27
66043884 CCCTAATTGA
66043894 TAAAATGACTATTTCT-CCCTTA-AGTGG
1 TAAAATGACTATTT-TGCCCTTATA-TGG
* *
66043921 TAAAATGACTGTTTTGCCCTTATTTGG
1 TAAAATGACTATTTTGCCCTTATATGG
66043948 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
66043975 TAAGATGACTATTTTGCCCCTTATATGG
1 TAAAATGACTATTTTG-CCCTTATATGG
* *
66044003 TAAAATGACTGTTTTGCCCTTA-GTGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
66044029 TAAAATGATTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
66044056 TAAGATGACTGTTTTGCCCT
1 TAAAATGACTATTTTGCCCT
66044076 ATGTGATGTA
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 24 0.18
27 88 0.64
28 25 0.18
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:66044045 original size:81 final size:82
Alignment explanation
Indices: 66043898--66044074 Score: 281
Period size: 81 Copynumber: 2.2 Consensus size: 82
66043888 AATTGATAAA
*
66043898 ATGACTA-TTT-CTCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATTTGGTAAAATGACTATT
1 ATGACTATTTTGC-CCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATT
66043961 TTGCCCTTATATGGTAAG
65 TTGCCCTTATATGGTAAG
*
66043979 ATGACTATTTTGCCCCTTATA-TGGTAAAATGACTGTTTTGCCCTTA-GTGGTAAAATGATTATT
1 ATGACTATTTTGCCCCTTA-AGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATT
66044042 TTGCCCTTATATGGTAAG
65 TTGCCCTTATATGGTAAG
*
66044060 ATGACTGTTTTGCCC
1 ATGACTATTTTGCCC
66044075 TATGTGATGT
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
81 54 0.60
82 34 0.38
83 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (82 bp):
ATGACTATTTTGCCCCTTAAGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTT
TGCCCTTATATGGTAAG
Found at i:66048512 original size:24 final size:23
Alignment explanation
Indices: 66048458--66048535 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
66048448 GGATAATTAA
**
66048458 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
66048481 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
66048505 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
66048526 GAAATAGTAT
1 GAAATGGTAT
66048536 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:66048520 original size:21 final size:21
Alignment explanation
Indices: 66048494--66048560 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
66048484 TTGGTATTTG
66048494 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
66048515 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
66048536 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
66048559 GG
1 GG
66048561 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:66055090 original size:12 final size:12
Alignment explanation
Indices: 66055073--66055123 Score: 66
Period size: 12 Copynumber: 4.0 Consensus size: 12
66055063 AACCGTATGC
66055073 AATTTTTTTTTT
1 AATTTTTTTTTT
*
66055085 AATTTTTTTTTC
1 AATTTTTTTTTT
66055097 AATTTTTTTTTT
1 AATTTTTTTTTT
66055109 CGAACTTTTTTTTTT
1 --AA-TTTTTTTTTT
66055124 TTTACGCACC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 22 0.65
14 2 0.06
15 10 0.29
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTT
Found at i:66055442 original size:24 final size:23
Alignment explanation
Indices: 66055388--66055465 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
66055378 GGATAATTAA
**
66055388 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
66055411 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
66055435 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
66055456 GAAATAGTAT
1 GAAATGGTAT
66055466 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:66055450 original size:21 final size:21
Alignment explanation
Indices: 66055424--66055490 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
66055414 TTGGTATTTG
66055424 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
66055445 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
66055466 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
66055489 GG
1 GG
66055491 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:66063603 original size:20 final size:20
Alignment explanation
Indices: 66063580--66063633 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
66063570 AGTTTTTCCC
*
66063580 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
66063600 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
66063620 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
66063634 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:66063615 original size:30 final size:30
Alignment explanation
Indices: 66063580--66063653 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
66063570 AGTTTTTCCC
66063580 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
66063610 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
66063640 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
66063654 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:66063643 original size:20 final size:20
Alignment explanation
Indices: 66063580--66063644 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
66063570 AGTTTTTCCC
* * * *
66063580 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
66063600 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
66063619 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
66063640 AGCTC
1 AGCTC
66063645 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:66069621 original size:38 final size:38
Alignment explanation
Indices: 66069570--66069717 Score: 215
Period size: 38 Copynumber: 3.9 Consensus size: 38
66069560 AAAGGCTCGA
* * *
66069570 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
*
66069608 ATATAATACCAGCACGAACCCTACGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
* * * * *
66069646 ATATATTACCAGCACGAAGACTGCGGGATTCAACTCGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
66069684 ATATAATACCAGCACGAAGCCTACGGGATTTAAC
1 ATATAATACCAGCACGAAGCCTACGGGATTTAAC
66069718 TCTGATATCA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 96 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
Found at i:66070565 original size:42 final size:42
Alignment explanation
Indices: 66070506--66070609 Score: 190
Period size: 42 Copynumber: 2.5 Consensus size: 42
66070496 TTTAAGCCTT
66070506 TTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCATC
1 TTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCATC
*
66070548 TTAGTTTAATAAATGAGTTGCTGGTCTTTAATACAACTCATC
1 TTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCATC
66070590 TTAGTTTAATTAAATGAGTT
1 TTAGTTTAA-TAAATGAGTT
66070610 TATTTAATGA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 50 0.83
43 10 0.17
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (42 bp):
TTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCATC
Found at i:66070611 original size:14 final size:14
Alignment explanation
Indices: 66070592--66070636 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
66070582 AACTCATCTT
*
66070592 AGTTTAATTAAATG
1 AGTTTAATTTAATG
66070606 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
* *
66070619 AATTTATTTTAATG
1 AGTTTAATTTAATG
66070633 AGTT
1 AGTT
66070637 GCTTCTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:66071642 original size:29 final size:29
Alignment explanation
Indices: 66071609--66071668 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
66071599 ATAACCAAAC
*
66071609 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
66071638 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
66071667 CT
1 CT
66071669 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:66071661 original size:15 final size:15
Alignment explanation
Indices: 66071615--66071662 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
66071605 AAACCTACAA
*
66071615 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
66071630 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
66071644 AAACTTCATATCCAT
1 AAACTTCATATCCAT
66071659 AAAC
1 AAAC
66071663 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:66074822 original size:22 final size:22
Alignment explanation
Indices: 66074792--66074835 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
66074782 TTTGGTATTT
66074792 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
66074814 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
66074836 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:66079776 original size:30 final size:30
Alignment explanation
Indices: 66079691--66079787 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66079681 TAAACTAAAA
* * *
66079691 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTAAGCTGAAGT
* * * * *
66079721 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTAAGCTGAAGT
66079751 TGAGCTAAGGTTTAGCTCGTAAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTAAGCTGAAGT
66079780 ATGAGCTA
1 -TGAGCTA
66079788 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTAAGCTGAAGT
Found at i:66081944 original size:30 final size:30
Alignment explanation
Indices: 66081873--66081955 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
66081863 CTTTTGTTTC
* *
66081873 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
66081904 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
66081933 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
66081956 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:66082053 original size:6 final size:6
Alignment explanation
Indices: 66082037--66082086 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
66082027 TTTCTTTTTA
*
66082037 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
66082086 T
1 T
66082087 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:66082069 original size:37 final size:37
Alignment explanation
Indices: 66082026--66082096 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
66082016 CTTGCCTCTC
66082026 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
66082063 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
66082097 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:66082097 original size:16 final size:16
Alignment explanation
Indices: 66082022--66082082 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
66082012 GCCTCTTGCC
*
66082022 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
66082038 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
66082054 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
66082070 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
66082083 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:66083974 original size:21 final size:21
Alignment explanation
Indices: 66083929--66083991 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
66083919 TTTGAACCAT
* *
66083929 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
66083951 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
66083972 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
66083992 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:66086414 original size:30 final size:30
Alignment explanation
Indices: 66086331--66086427 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
66086321 TAAACTAAAA
* * *
66086331 TGAGCTAAGCTTAAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTAAGCTCGTAAGCTGAAGT
* * * * *
66086361 TAAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTAAGCTCGTAAGCTGAAGT
*
66086391 TGAGCTAAGGTTTAGCTCGTAAGCTGAA-T
1 TGAGCTAAGGTTAAGCTCGTAAGCTGAAGT
66086420 ATGAGCTA
1 -TGAGCTA
66086428 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGGTTAAGCTCGTAAGCTGAAGT
Found at i:66086680 original size:38 final size:38
Alignment explanation
Indices: 66086597--66086691 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 38
66086587 CGTATCACTG
* *
66086597 TGGGATTTAACCCGGATATATTACCAGCACGAAGCCTA
1 TGGGATTTAACCCGGATATAATACCAACACGAAGCCTA
**
66086635 TTTGATTTAACCCGGATATAATACCAACACGAAGCCT-
1 TGGGATTTAACCCGGATATAATACCAACACGAAGCCTA
* *
66086672 TCGGGATTTGACCCGAATAT
1 T-GGGATTTAACCCGGATAT
66086692 CATATTTCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.02
38 47 0.98
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (38 bp):
TGGGATTTAACCCGGATATAATACCAACACGAAGCCTA
Found at i:66091152 original size:30 final size:30
Alignment explanation
Indices: 66091118--66091226 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 30
66091108 TAAACTAAAA
* *
66091118 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
66091148 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * **
66091178 TGAGCTAAGGTTTAGCTTGTGAGCTGAATA
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* *
66091208 TGAGCTAGGAGTTAGCTCG
1 TGAGCTAAGATTTAGCTCG
66091227 GTTTAGCTCA
Statistics
Matches: 58, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:66096231 original size:11 final size:10
Alignment explanation
Indices: 66096206--66096266 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
66096196 ACCAATAAAA
66096206 TAAA-TGAGC
1 TAAATTGAGC
*
66096215 TGAATTGTAGC
1 TAAATTG-AGC
66096226 TAAATTGAGC
1 TAAATTGAGC
**
66096236 TCGATTGAGC
1 TAAATTGAGC
66096246 TGAAA-TGAGC
1 T-AAATTGAGC
*
66096256 TCAATTGAGC
1 TAAATTGAGC
66096266 T
1 T
66096267 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:66096267 original size:20 final size:20
Alignment explanation
Indices: 66096207--66096267 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
66096197 CCAATAAAAT
*
66096207 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
66096227 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
66096248 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
66096268 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:66097082 original size:17 final size:19
Alignment explanation
Indices: 66097057--66097101 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
66097047 TTTCTTGTCT
*
66097057 TTCTTTTCTTTTGATC-TC
1 TTCTTTTCTTTTCATCTTC
66097075 TT-TTTTCTTTTCATCTTC
1 TTCTTTTCTTTTCATCTTC
66097093 TTCTTTTCT
1 TTCTTTTCT
66097102 CACTTGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 12 0.50
18 6 0.25
19 6 0.25
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.71
Consensus pattern (19 bp):
TTCTTTTCTTTTCATCTTC
Found at i:66097957 original size:12 final size:12
Alignment explanation
Indices: 66097940--66097972 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
66097930 ATACTTCGAT
66097940 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
66097952 TTTTTTTTTGGA
1 TTTTTTTTTGAA
66097964 TTTTTTTTT
1 TTTTTTTTT
66097973 TCAAATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:66100947 original size:30 final size:31
Alignment explanation
Indices: 66100876--66100958 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
66100866 CTTTTGTGTC
*
66100876 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
*
66100907 AATTTC-TTTTCGT-TCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATCT-TCTTTTTCAATCTCA
* * *
66100936 ATTTTCTTTTTCATTTTATTTTT
1 AATTTCTTTTTCATCTTCTTTTT
66100959 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.14
30 31 0.70
31 7 0.16
ACGTcount: A:0.14, C:0.20, G:0.01, T:0.64
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:66101067 original size:15 final size:14
Alignment explanation
Indices: 66101027--66101072 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
66101017 CTCTTGCCTC
*
66101027 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
66101042 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
66101057 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
66101072 T
1 T
66101073 TTCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:66101071 original size:12 final size:11
Alignment explanation
Indices: 66101027--66101080 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
66101017 CTCTTGCCTC
66101027 TCTTTTCTTTT
1 TCTTTTCTTTT
* *
66101038 T-ATTTCATTT
1 TCTTTTCTTTT
*
66101048 TC-TTT-TTCT
1 TCTTTTCTTTT
66101057 TCTTTTGCTTTT
1 TCTTTT-CTTTT
66101069 TCTTTTCTTTT
1 TCTTTTCTTTT
66101080 T
1 T
66101081 TTATTTTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
9 4 0.12
10 14 0.41
11 7 0.21
12 9 0.26
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.78
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:66103398 original size:19 final size:19
Alignment explanation
Indices: 66103374--66103413 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66103364 AGCTCCCATG
66103374 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
66103393 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
66103412 TA
1 TA
66103414 TCAGCTCATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:66104980 original size:30 final size:31
Alignment explanation
Indices: 66104946--66105042 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
66104936 AGCTCACTCC
*
66104946 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
66104976 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
66105006 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
66105036 TAGCTCA
1 TAGCTCA
66105043 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:66105931 original size:22 final size:20
Alignment explanation
Indices: 66105899--66105947 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
66105889 GCCTAATTTA
66105899 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
66105922 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
66105942 TGAACA
1 TGAACA
66105948 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:66106764 original size:11 final size:11
Alignment explanation
Indices: 66106748--66106788 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
66106738 ATACAAGTTA
66106748 AAAAAAATTCG
1 AAAAAAATTCG
66106759 AAAAAAATTCG
1 AAAAAAATTCG
*
66106770 AAAAAAAATTTG
1 -AAAAAAATTCG
66106782 AAAAAAA
1 AAAAAAA
66106789 ATAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:66106764 original size:12 final size:12
Alignment explanation
Indices: 66106747--66106790 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
66106737 TATACAAGTT
66106747 AAAAAAAATTCG
1 AAAAAAAATTCG
66106759 -AAAAAAATTCG
1 AAAAAAAATTCG
*
66106770 AAAAAAAATTTG
1 AAAAAAAATTCG
66106782 AAAAAAAAT
1 AAAAAAAAT
66106791 AAAAAAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:66112037 original size:19 final size:19
Alignment explanation
Indices: 66112013--66112052 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66112003 AGCTCCCATG
66112013 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
66112032 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
66112051 TA
1 TA
66112053 TTAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:66117940 original size:16 final size:16
Alignment explanation
Indices: 66117919--66117949 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66117909 GCACTAAGTG
*
66117919 TGCGATTTTAAATAGT
1 TGCGATTATAAATAGT
66117935 TGCGATTATAAATAG
1 TGCGATTATAAATAG
66117950 CACTAAGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (16 bp):
TGCGATTATAAATAGT
Found at i:66118015 original size:40 final size:41
Alignment explanation
Indices: 66117949--66118045 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 41
66117939 ATTATAAATA
*
66117949 GCACTAAGTGTGCGAAATGGAATAGCTTTAGCTATAT-GA-G
1 GCACTAAGTGTGC-AAATGGAATAGCTTCAGCTATATAGATG
* * * * *
66117989 GCACTAAGTGTGCAATTTGAGGTAGCTTCGGCTATTTGAGATG
1 GCACTAAGTGTGCAAATGGA-ATAGCTTCAGCTATAT-AGATG
66118032 GCACTAAGTGTGCA
1 GCACTAAGTGTGCA
66118046 GGTTCATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
39 5 0.11
40 25 0.53
42 2 0.04
43 15 0.32
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (41 bp):
GCACTAAGTGTGCAAATGGAATAGCTTCAGCTATATAGATG
Found at i:66122879 original size:43 final size:43
Alignment explanation
Indices: 66122815--66122919 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
66122805 TTCAATGAAC
* * *
66122815 TCGCAAACTTAGTGCCGATTAATTAGCTGAAGCTATAATTGCA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGCA
* *
66122858 TCGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGCA
*
66122901 TCGTACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
66122920 ACATTAAACC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGCA
Found at i:66131251 original size:30 final size:30
Alignment explanation
Indices: 66131217--66131313 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66131207 AGCTCACTCC
66131217 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
66131247 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
66131277 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
66131307 TAGCTCA
1 TAGCTCA
66131314 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:66134049 original size:37 final size:37
Alignment explanation
Indices: 66133998--66134068 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
66133988 CATTCTTGTA
66133998 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
66134035 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
66134069 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:66134068 original size:6 final size:6
Alignment explanation
Indices: 66134008--66134057 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
66133998 AAGAGAAAAC
*
66134008 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
66134057 A
1 A
66134058 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:66134150 original size:11 final size:12
Alignment explanation
Indices: 66134118--66134148 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66134108 TTGAGAGAAC
66134118 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66134130 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66134142 TTGAAAA
1 TTGAAAA
66134149 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:66136356 original size:30 final size:30
Alignment explanation
Indices: 66136322--66136417 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66136312 AGCTCACTCC
66136322 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
66136352 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
66136382 CAGCTCAACTTTAGCTCACGAGCTAAA-CT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
66136411 TAGCTCA
1 TAGCTCA
66136418 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 9 0.18
30 42 0.82
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:66139628 original size:13 final size:13
Alignment explanation
Indices: 66139612--66139648 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
66139602 AAAGGAGTTC
66139612 AAAAAAAATTGAA
1 AAAAAAAATTGAA
*
66139625 AAAAAAATTTGAA
1 AAAAAAAATTGAA
66139638 AAAAAAAATTG
1 AAAAAAAATTG
66139649 CATACGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:66141856 original size:17 final size:17
Alignment explanation
Indices: 66141811--66141864 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
66141801 AGAAAAGAGC
* *
66141811 GAAAATACAAAAGAAAA
1 GAAAATTCAAAAAAAAA
* *
66141828 GAAAAATGAAAAAAAAA
1 GAAAATTCAAAAAAAAA
*
66141845 GAAAATTCAAAAAAAGA
1 GAAAATTCAAAAAAAAA
66141862 GAA
1 GAA
66141865 TGAAAAGAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (17 bp):
GAAAATTCAAAAAAAAA
Found at i:66151577 original size:44 final size:44
Alignment explanation
Indices: 66151419--66151593 Score: 217
Period size: 44 Copynumber: 3.9 Consensus size: 44
66151409 ATGGTTGAGC
66151419 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
66151463 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
66151512 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
66151556 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66151594 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 40 0.36
45 1 0.01
46 33 0.29
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:66154549 original size:15 final size:15
Alignment explanation
Indices: 66154529--66154592 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
66154519 GTATCTTGGG
66154529 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
66154544 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
66154559 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
66154574 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
66154587 TTTCTT
1 TTTCTT
66154593 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:66159588 original size:20 final size:20
Alignment explanation
Indices: 66159565--66159612 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
66159555 AGCTCCGTCC
66159565 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** **
66159585 AGCTCGTTTCAGCTTGTTTG
1 AGCTCAACTCAGCTCATTTG
66159605 AGCTCAAC
1 AGCTCAAC
66159613 CGAACTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:66164180 original size:40 final size:40
Alignment explanation
Indices: 66164135--66164309 Score: 269
Period size: 40 Copynumber: 4.4 Consensus size: 40
66164125 TATGTGCACA
* *
66164135 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGCTAAGTCCCGAAG
* *
66164175 GCATTCGTGCGGGTTATTATAGCCGGGCTAAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGCTAAGTCCCGAAG
66164215 GCATTCGTGCAGGTTATTATAACCGGGCTAAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGCTAAGTCCCGAAG
* * * *
66164255 GCATTCGTGCAAGTTATTATTACCGGGTTAAGTCTCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGCTAAGTCCCGAAG
*
66164295 GCATTCGTGCTGGTT
1 GCATTCGTGCAGGTT
66164310 GTTACATCCG
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCAGGTTATTATAACCGGGCTAAGTCCCGAAG
Found at i:66167440 original size:17 final size:17
Alignment explanation
Indices: 66167394--66167440 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
66167384 AAAGCAAGCG
*
66167394 AGAAAAGAAGAAGATGAAA
1 AGAAAAG-AG-AGATCAAA
66167413 AGCAAAA-AGAGATCAAA
1 AG-AAAAGAGAGATCAAA
66167430 AGAAAAGAGAG
1 AGAAAAGAGAG
66167441 GCAAGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 13 0.52
18 2 0.08
19 2 0.08
20 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.26, T:0.04
Consensus pattern (17 bp):
AGAAAAGAGAGATCAAA
Found at i:66167548 original size:18 final size:18
Alignment explanation
Indices: 66167516--66167560 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
66167506 TGAAAGAAAA
*
66167516 AGAAAATGAGATTGAGAG
1 AGAAAAAGAGATTGAGAG
* *
66167534 TGAAAAAGAGTTTGAGAG
1 AGAAAAAGAGATTGAGAG
66167552 AGAAAAAGA
1 AGAAAAAGA
66167561 ATATGAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.31, T:0.16
Consensus pattern (18 bp):
AGAAAAAGAGATTGAGAG
Found at i:66170730 original size:12 final size:12
Alignment explanation
Indices: 66170709--66170743 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
66170699 ATATAAAAGT
66170709 GAAAGAGAAAAA
1 GAAAGAGAAAAA
66170721 -AAATGAGAAAAA
1 GAAA-GAGAAAAA
66170733 GAAAGAGAAAA
1 GAAAGAGAAAA
66170744 TAACAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (12 bp):
GAAAGAGAAAAA
Found at i:66171305 original size:20 final size:20
Alignment explanation
Indices: 66171259--66171305 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66171249 AGCTCGTTTC
*
66171259 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
66171279 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66171299 CAGCTCA
1 CAGCTCA
66171306 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66177863 original size:354 final size:354
Alignment explanation
Indices: 66177208--66177918 Score: 1386
Period size: 354 Copynumber: 2.0 Consensus size: 354
66177198 TGGGCCTCGC
66177208 CTTCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAG
1 CTTCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAG
*
66177273 ATCCAATGCGTTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTG
66 ATCCAATGCATTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTG
*
66177338 ATTTTCTTGATTCTTGAAATCTCTTCGAACAGTAAAATTGGGCCAAGATTCGATTTCTTGATTTT
131 ATTTTCTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTT
66177403 CTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTA
196 CTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTA
*
66177468 ACAAGCTCTTGAATGGTCCCATTTAGTTTGGACCCCATTTGTCGGGCCTTTGATCTCGTTATTGG
261 ACAAGCTCTTGAATGGTCCCATTTAGTTTGGACCCCATTTGTCGGGCCTTTGATCTCGTTATTGA
66177533 GCCTTGTGGCAATTTGAGCCCATCACGTT
326 GCCTTGTGGCAATTTGAGCCCATCACGTT
66177562 CTTCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAG
1 CTTCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAG
66177627 ATCCAATGCATTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTG
66 ATCCAATGCATTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTG
66177692 ATTTTCTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTT
131 ATTTTCTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTT
66177757 CTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTA
196 CTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTA
*
66177822 ACAAGCTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGTTATTGA
261 ACAAGCTCTTGAATGGTCCCATTTAGTTTGGACCCCATTTGTCGGGCCTTTGATCTCGTTATTGA
66177887 GCCTTGTGGCAATTTGAGCCCATCACGTT
326 GCCTTGTGGCAATTTGAGCCCATCACGTT
66177916 CTT
1 CTT
66177919 GAACTTGGAT
Statistics
Matches: 353, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
354 353 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (354 bp):
CTTCAAGAATTTGGGCTCGTGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAG
ATCCAATGCATTTTGGCTGCAAGATTTGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTG
ATTTTCTTGATTCTTGAAATCTCTTCGAACAGCAAAATTGGGCCAAGATTCGATTTCTTGATTTT
CTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTA
ACAAGCTCTTGAATGGTCCCATTTAGTTTGGACCCCATTTGTCGGGCCTTTGATCTCGTTATTGA
GCCTTGTGGCAATTTGAGCCCATCACGTT
Found at i:66179018 original size:23 final size:22
Alignment explanation
Indices: 66178966--66179018 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
66178956 TCCACGTCTT
*
66178966 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
66178988 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
66179011 TTTCTTTT
1 TTTCTTTT
66179019 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:66182600 original size:18 final size:18
Alignment explanation
Indices: 66182555--66182603 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
66182545 GTTTACTGGA
* *
66182555 TTAAATTAAATAAGTTAG
1 TTAAATTAATTAAGTCAG
66182573 TTAAATTAATTAAGTCAG
1 TTAAATTAATTAAGTCAG
66182591 CTTAAA-TAATTAA
1 -TTAAATTAATTAA
66182604 TTGTGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAAATTAATTAAGTCAG
Found at i:66183536 original size:24 final size:26
Alignment explanation
Indices: 66183481--66183533 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
66183471 ATATATATGT
* *
66183481 TTTAATATGTCTAGTTTAGGACATAA
1 TTTAATATGTCTAGATTAGAACATAA
*
66183507 TTTAATGTGTCTAGATTAGAACA-AA
1 TTTAATATGTCTAGATTAGAACATAA
66183532 TT
1 TT
66183534 AATTAGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (26 bp):
TTTAATATGTCTAGATTAGAACATAA
Found at i:66186758 original size:22 final size:22
Alignment explanation
Indices: 66186728--66186771 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
66186718 TTTAGTATTT
*
66186728 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATAGTAA
*
66186750 GGGATTTGGTACGAAATAGTAA
1 GGGAATTGGTACGAAATAGTAA
66186772 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATAGTAA
Found at i:66189174 original size:21 final size:22
Alignment explanation
Indices: 66189128--66189174 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
66189118 CATTTTTCTT
*
66189128 TTCTTTTTCACTCTCTCTCAAT
1 TTCTTTTTCACTCTCTCTCAAA
* *
66189150 TTCTTTTTCAGT-TCTTTCAAA
1 TTCTTTTTCACTCTCTCTCAAA
66189171 TTCT
1 TTCT
66189175 CCAAAGATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (22 bp):
TTCTTTTTCACTCTCTCTCAAA
Found at i:66190764 original size:20 final size:20
Alignment explanation
Indices: 66190741--66190787 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66190731 GGGTTAAGAT
*
66190741 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
66190761 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
66190781 TGAGCTG
1 TGAGCTG
66190788 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:66193832 original size:10 final size:10
Alignment explanation
Indices: 66193817--66193878 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
66193807 TTTGAACCGT
*
66193817 TACCAATTCG
1 TACCAATTCA
*
66193827 TACCAAATACCA
1 TACC-AAT-TCA
*
66193839 TACCATTTCA
1 TACCAATTCA
66193849 TACCAATTCCA
1 TACCAATT-CA
* *
66193860 TACCATTTCG
1 TACCAATTCA
66193870 TACCAATTC
1 TACCAATTC
66193879 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:66193862 original size:21 final size:21
Alignment explanation
Indices: 66193817--66193879 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
66193807 TTTGAACCGT
* *
66193817 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
66193839 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
66193860 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
66193880 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:66197193 original size:20 final size:21
Alignment explanation
Indices: 66197168--66197209 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
66197158 TGGAATGGTT
66197168 AATTTAA-TCAATTTAGCTTG
1 AATTTAATTCAATTTAGCTTG
* *
66197188 AATTTAATTCATTTTAGGTTG
1 AATTTAATTCAATTTAGCTTG
66197209 A
1 A
66197210 TTGCATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (21 bp):
AATTTAATTCAATTTAGCTTG
Found at i:66202626 original size:12 final size:12
Alignment explanation
Indices: 66202611--66202642 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
66202601 ATTTTTATTT
66202611 TTATTTATTTAC
1 TTATTTATTTAC
66202623 TTATTTATTTAC
1 TTATTTATTTAC
66202635 TTAGTTTA
1 TTA-TTTA
66202643 AATTTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (12 bp):
TTATTTATTTAC
Found at i:66203786 original size:16 final size:15
Alignment explanation
Indices: 66203753--66203782 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66203743 GAAAGAGTTA
66203753 CTTGCTATTGTGTTT
1 CTTGCTATTGTGTTT
66203768 CTTGCTATTGTGTTT
1 CTTGCTATTGTGTTT
66203783 TCTTTTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.20, T:0.60
Consensus pattern (15 bp):
CTTGCTATTGTGTTT
Found at i:66206370 original size:19 final size:19
Alignment explanation
Indices: 66206346--66206384 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
66206336 TATGTTTGGC
66206346 ACATAGTTTGCGTATAGAG
1 ACATAGTTTGCGTATAGAG
66206365 ACATAGTTTGCGTATAGAG
1 ACATAGTTTGCGTATAGAG
66206384 A
1 A
66206385 TAGCTTCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
ACATAGTTTGCGTATAGAG
Found at i:66206543 original size:42 final size:41
Alignment explanation
Indices: 66206406--66206543 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
66206396 ATATAAAGCG
* * * ** *
66206406 CTTAGTGTGCG-GATCAAAATAGCTTCGGCTATATATGGCA
1 CTTAGTGTGTGAGATTAAGATAGCTTCAACTATGTATGGCA
* * *
66206446 CTTAGTGTGTGAGACTAAGATAGCTTCAACTATGAAAGGCA
1 CTTAGTGTGTGAGATTAAGATAGCTTCAACTATGTATGGCA
*
66206487 CTTAGTGTGCGAGATTATA-ATAGCTTCAACTATGTTATGGCA
1 CTTAGTGTGTGAGATTA-AGATAGCTTCAACTATG-TATGGCA
66206529 CTTAGTGTGTGAGAT
1 CTTAGTGTGTGAGAT
66206544 ATAGAGTATT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 10 0.12
41 51 0.63
42 20 0.25
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (41 bp):
CTTAGTGTGTGAGATTAAGATAGCTTCAACTATGTATGGCA
Found at i:66209334 original size:30 final size:30
Alignment explanation
Indices: 66209289--66209348 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
66209279 ATTTAATATG
* *
66209289 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTCTGCCCCTA
* *
66209319 AACTTTTGCATAATTACACTTCTGCCCCTA
1 AACTTTGGCAAAATTACACTTCTGCCCCTA
66209349 GGTTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTCTGCCCCTA
Found at i:66212665 original size:43 final size:43
Alignment explanation
Indices: 66212508--66212665 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
66212498 TAGTATTTTT
*
66212508 GATATGTGATTTCATGTAAGACCACGTCTAGGG-C-GTTGGCATC
1 GATATTTGATTTCATGTAAGACCACGTCT-GGGACAG-TGGCATC
* * * *
66212551 GAT-TTGAGATTTCGTGTAAGACCATGTCTGGGACA-TCGGCACC
1 GATATT-TGATTTCATGTAAGACCACGTCTGGGACAGT-GGCATC
*
66212594 G-TATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATC
1 GATATTTGATTTCATGTAAGACCAC-GTCTGGGACAGTGGCATC
* *
66212636 GATATTTGATTGCATGTAAGATCACGTCTG
1 GATATTTGATTTCATGTAAGACCACGTCTG
66212666 AGACGTTGGC
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
42 38 0.40
43 56 0.59
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
GATATTTGATTTCATGTAAGACCACGTCTGGGACAGTGGCATC
Found at i:66214343 original size:25 final size:23
Alignment explanation
Indices: 66214315--66214371 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
66214305 TTTTCTCTTA
*
66214315 AATTTTTAATTTTATTTAATTATTT
1 AATTTTTAA-TTTATTGAATTA-TT
66214340 AATTTTTCAATTTATTGAATTATT
1 AATTTTT-AATTTATTGAATTATT
*
66214364 AATATTTA
1 AATTTTTA
66214372 TACTAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 8 0.28
25 18 0.62
26 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
AATTTTTAATTTATTGAATTATT
Found at i:66218172 original size:22 final size:22
Alignment explanation
Indices: 66218144--66218187 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66218134 TTTGGTATTT
66218144 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
66218166 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
66218188 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGATTTGGTACGAAATGGTAA
Found at i:66220310 original size:20 final size:20
Alignment explanation
Indices: 66220287--66220327 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66220277 GGGTTAAGAT
*
66220287 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
66220307 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
66220327 T
1 T
66220328 AAGCAGGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.34, T:0.32
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:66222055 original size:48 final size:48
Alignment explanation
Indices: 66222000--66222105 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
66221990 TTGTCTTTTC
*
66222000 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
66222048 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
66222096 TTTCTTTTTC
1 TTTCTTTTTC
66222106 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:66224738 original size:20 final size:20
Alignment explanation
Indices: 66224715--66224761 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66224705 GGGTTAAGAT
*
66224715 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
66224735 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
66224755 TGAGCTG
1 TGAGCTG
66224762 GAAACAAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:66226624 original size:22 final size:22
Alignment explanation
Indices: 66226585--66226628 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
66226575 AAAAAGTTTT
*
66226585 GAAAAAAAAATCCGAAAAAAAA
1 GAAAAAAAAATCCAAAAAAAAA
* *
66226607 GAAAAAAAATTGCAAAAAAAAA
1 GAAAAAAAAATCCAAAAAAAAA
66226629 ATTGCATACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (22 bp):
GAAAAAAAAATCCAAAAAAAAA
Found at i:66226625 original size:14 final size:14
Alignment explanation
Indices: 66226608--66226634 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66226598 GAAAAAAAAG
66226608 AAAAAAAATTGCAA
1 AAAAAAAATTGCAA
66226622 AAAAAAAATTGCA
1 AAAAAAAATTGCA
66226635 TACGGTCTAG
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:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAAAAATTGCAA
Found at i:66230923 original size:21 final size:22
Alignment explanation
Indices: 66230899--66230939 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
66230889 AAAAAGTTTT
66230899 AAAAAAAATCG-AAAAAAAAGA
1 AAAAAAAATCGCAAAAAAAAGA
*
66230920 AAAAAAAATTGCAAAAAAAA
1 AAAAAAAATCGCAAAAAAAA
66230940 AATTGCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.07
Consensus pattern (22 bp):
AAAAAAAATCGCAAAAAAAAGA
Found at i:66230936 original size:14 final size:14
Alignment explanation
Indices: 66230919--66230946 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66230909 GAAAAAAAAG
66230919 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
66230933 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
66230947 TACGGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAAAATTGCA
Found at i:66233222 original size:24 final size:25
Alignment explanation
Indices: 66233195--66233251 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
66233185 ATGAGTGATA
*
66233195 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
66233219 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
66233243 AAAAAAGAA
1 AAAAAAGAA
66233252 TTTGTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 13 0.46
24 7 0.25
25 8 0.29
ACGTcount: A:0.63, C:0.04, G:0.23, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:66241603 original size:6 final size:6
Alignment explanation
Indices: 66241585--66241726 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
66241575 AAGAAACGTT
* *
66241585 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
66241634 ATTAGA ATCA-A TAACAGA ATCAGA ATCAGA ATCAGT ATTAGTA A-CAGA
1 ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA
* * *
66241682 ATTAGA ATCAGA ATCAGA ATTACGTG A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
66241727 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
5 6 0.06
6 91 0.86
7 7 0.07
8 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:66241660 original size:30 final size:30
Alignment explanation
Indices: 66241594--66241726 Score: 161
Period size: 31 Copynumber: 4.6 Consensus size: 30
66241584 TATCAGAACT
*
66241594 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTA-GTAAC
*
66241625 AGAATCAGAATTAGAATC---A--A-TAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
*
66241649 AGAATCAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
* *
66241679 AGAATTAGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATCAGAATTA-GTAAC
66241710 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
66241727 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
24 20 0.23
26 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 27 0.31
31 37 0.42
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGAATTAGTAAC
Found at i:66241881 original size:27 final size:26
Alignment explanation
Indices: 66241844--66241909 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
66241834 AGCATGACTG
* *
66241844 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAAAGCCA
* *
66241870 CCAGATACAGATATTGTGGCAAAGCCA
1 CCAGA-ACAGATATCGTGACAAAGCCA
66241897 CCAGAATCAGATA
1 CCAGAA-CAGATA
66241910 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAAAGCCA
Found at i:66241914 original size:27 final size:27
Alignment explanation
Indices: 66241868--66241925 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
66241858 GTGACAGAGT
* *
66241868 CACCAGATACAGATATTGTGGCAAAGC
1 CACCAGATACAGATAATGTGGCAAACC
66241895 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
66241922 CACC
1 CACC
66241926 TAACAGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:66242293 original size:27 final size:26
Alignment explanation
Indices: 66242228--66242310 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
66242218 TCGATCGGTC
* * *
66242228 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
66242254 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
66242281 AACAAATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
66242308 AAC
1 AAC
66242311 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.14
27 43 0.86
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:66242541 original size:27 final size:27
Alignment explanation
Indices: 66242511--66242696 Score: 219
Period size: 27 Copynumber: 6.9 Consensus size: 27
66242501 GGCAAAATGA
* * *
66242511 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
66242538 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* * *
66242565 TATTTCTACCCTACAATGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
66242592 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* * *
66242619 TAATTCTATCCTATAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGG
* * *
66242646 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGG
*
66242673 AAATTCTACCCTACAAGGGTATTT
1 TAATTCTACCCTACAAGGGTATTT
66242697 TAGTAATTTC
Statistics
Matches: 134, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGG
Found at i:66242653 original size:81 final size:82
Alignment explanation
Indices: 66242509--66242704 Score: 247
Period size: 81 Copynumber: 2.4 Consensus size: 82
66242499 GGGGCAAAAT
* * * * * *
66242509 GATAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCGGTATTTCTAC
1 GATAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTAC
*
66242574 CCTACAATGGTATTTC-
66 CCTACAAGGGTATTTCA
*
66242590 GATAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATA-A-GGGTATTTCAGTAATTCT
1 GATAATTCTACCCTACAAGGGTATTTTGGTAATTCTA-CCT-TACAGGGGTATTTCAGTAATTCT
* *
66242653 ACCCTATAGGGGTATTTCA
64 ACCCTACAAGGGTATTTCA
*
66242672 GA-AATTCTACCCTACAAGGGTATTTTAGTAATT
1 GATAATTCTACCCTACAAGGGTATTTTGGTAATT
66242705 TCACAATCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
81 92 0.92
82 6 0.06
83 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (82 bp):
GATAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTAC
CCTACAAGGGTATTTCA
Found at i:66242702 original size:54 final size:54
Alignment explanation
Indices: 66242511--66242704 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
66242501 GGCAAAATGA
* * * * *
66242511 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
* * *
66242565 TATTTCTACCCTACAATGGTATTTC-GATAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGG
* * * *
66242619 TAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
* *
66242673 AAATTCTACCCTACAAGGGTATTTTAGTAATT
1 TAATTCTACCCTACAAGGGTATTTCAGTAATT
66242705 TCACAATCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 118 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
Found at i:66242750 original size:27 final size:27
Alignment explanation
Indices: 66242716--66243415 Score: 815
Period size: 27 Copynumber: 25.9 Consensus size: 27
66242706 CACAATCAAT
66242716 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * * *
66242743 GGTGAAACGATAATTTTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
* * * * *
66242770 GGTGAACCAGTAATTCTGTAAATCAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
66242797 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
66242824 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** * *
66242851 GGTAAAATAGTAATTTTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
* * *
66242878 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
66242905 GGTAAAATAGTAATTCTATAAA-CTAAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
66242932 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
66242959 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
66242986 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
66243013 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
*
66243040 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** * *
66243067 GGTAAAATAGTATTTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
66243094 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** * *
66243121 GGTAAAACAATAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
66243148 AGTAAAACGGTAATTGTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
66243175 GGTAAAACAGTAATTCTATAAA-CAGAA
1 GGTAAAACGGTAATTCTATAAATC-GAG
*
66243202 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
66243229 GGTAAAATAGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
66243256 GGTAAAACGGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
66243283 GGTAAAACGGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
66243310 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * *
66243337 GGTAAAACGATAATTTTAAAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
66243364 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
66243391 GGTAAAACGGTAATTTTGTAAATCG
1 GGTAAAACGGTAATTCTATAAATCG
66243416 GGAGTACTTT
Statistics
Matches: 578, Mismatches: 81, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.01
27 566 0.98
28 6 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTATAAATCGAG
Found at i:66245379 original size:6 final size:6
Alignment explanation
Indices: 66245361--66245500 Score: 121
Period size: 6 Copynumber: 23.3 Consensus size: 6
66245351 ATAAGAAATT
* *
66245361 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGTG A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA
* * *
66245409 AT-AGA ATCA-A TAACAGA ATCAGA ATCAGA ATCAGT ATTAGTA A-CAGA
1 ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA
* *
66245456 ATCAGA ATCAGA ATCAGA ATTACGTG A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
66245501 GTGAATGCAA
Statistics
Matches: 108, Mismatches: 14, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.10
6 90 0.83
7 6 0.06
8 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:66245431 original size:53 final size:54
Alignment explanation
Indices: 66245370--66245471 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 54
66245360 TATCAGAACT
*
66245370 AGAATCAGAATCAGAATCAGAATTAGTGACAGAATCAGAAT-AGAATCAATAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATCAATAAC
*
66245423 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATCA
66245472 GAATTACGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 39 0.85
54 7 0.15
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (54 bp):
AGAATCAGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATCAATAAC
Found at i:66245655 original size:27 final size:26
Alignment explanation
Indices: 66245618--66245683 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
66245608 AGCATGGCTG
*
66245618 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
66245644 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
66245671 CCAGAATCAGATA
1 CCAGAA-CAGATA
66245684 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:66245688 original size:27 final size:27
Alignment explanation
Indices: 66245618--66245691 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
66245608 AGCATGGCTG
* *
66245618 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
66245644 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
66245671 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
66245692 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:66245698 original size:27 final size:27
Alignment explanation
Indices: 66245642--66245699 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
66245632 GTGACAGAGT
* * *
66245642 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
66245669 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
66245696 CACC
1 CACC
66245700 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:66246081 original size:27 final size:26
Alignment explanation
Indices: 66246002--66246084 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
66245992 TCGATCGGTC
* * *
66246002 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
66246028 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
66246055 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
66246082 AAC
1 AAC
66246085 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:66246302 original size:27 final size:28
Alignment explanation
Indices: 66246240--66246303 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
66246230 CAGTCACTTG
*
66246240 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
66246268 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
66246294 CCCACAAGGG
1 CCCACAAGGG
66246304 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:66246313 original size:27 final size:27
Alignment explanation
Indices: 66246283--66246478 Score: 203
Period size: 27 Copynumber: 7.3 Consensus size: 27
66246273 AGGGCAAAAT
* * *
66246283 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
66246310 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
66246337 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
66246364 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
66246391 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
66246418 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
66246445 AGAAATTGTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
66246472 AGTAATT
1 GGTAATT
66246479 TCACAATCAA
Statistics
Matches: 141, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:66246407 original size:81 final size:82
Alignment explanation
Indices: 66246285--66246478 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 82
66246275 GGCAAAATGG
* * * * * *** *
66246285 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCC
66246350 TACAAGGGTATTTC-GA
66 TACAAGGGTATTTCAGA
* *
66246366 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCC
* *
66246431 TATAGGGGTATTTCAGA
66 TACAAGGGTATTTCAGA
* *
66246448 -AATTGTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
66246479 TCACAATCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 94 0.98
82 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCC
TACAAGGGTATTTCAGA
Found at i:66246472 original size:54 final size:54
Alignment explanation
Indices: 66246282--66246478 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
66246272 AAGGGCAAAA
* * * **
66246282 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
* * *
66246336 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
* *
66246390 TGGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
** * * * *
66246444 CAGAAATTGTACCCTACAGGGGTATTTCAGTAATT
1 TGGTAATTCTACCCTACAAGGGTATTTCAATAATT
66246479 TCACAATCAA
Statistics
Matches: 124, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
Found at i:66246513 original size:27 final size:27
Alignment explanation
Indices: 66246483--66247105 Score: 668
Period size: 27 Copynumber: 23.1 Consensus size: 27
66246473 GTAATTTCAC
* * *
66246483 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
66246510 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66246537 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
66246564 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66246591 AATCGAGGGTAAAAGGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* ** *
66246618 AATCGAGGATAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66246645 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* **
66246672 AATTGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66246699 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
66246726 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
66246753 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* ** *
66246780 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
66246807 AA-CTGAGGATAAAATGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
66246834 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66246861 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
66246888 AATCGAGGGTAAAACGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66246915 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
66246942 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
66246969 AA-CTGAGGGT-AAATGGTAATTTTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
66246995 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66247022 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
66247049 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
66247076 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
66247103 AAT
1 AAT
66247106 TGGGAGTACT
Statistics
Matches: 512, Mismatches: 69, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
26 27 0.05
27 480 0.94
28 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:66247124 original size:81 final size:81
Alignment explanation
Indices: 66246483--66247104 Score: 747
Period size: 81 Copynumber: 7.7 Consensus size: 81
66246473 GTAATTTCAC
* * * * * * *
66246483 AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTA
*
66246548 AACCAGTAATTCTATA
66 AAACAGTAATTCTATA
* * * * *
66246564 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAGGGTAATTCTGTAAA-TCGAGGAT
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACT-GAGGGT
* *
66246628 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTATA
* * * **
66246645 AA-CTGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTATAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGT
66246709 AAAACAGTAATTCTATA
65 AAAACAGTAATTCTATA
* *
66246726 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCAAGGGT
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACT-GAGGGT
* *
66246790 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTATA
* * * * * ** *
66246807 AA-CTGAGGATAAAATGATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGT
*
66246871 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTATA
* * *
66246888 AATCGAGGGTAAAACGATAATTTTAAAAATCGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGT
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACT-GAGGGT
* *
66246952 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTATA
* *
66246969 AA-CTGAGGGT-AAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGT
66247032 AAAAC-GATAATTCTATA
65 AAAACAG-TAATTCTATA
* *
66247049 AATCGAGGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAA
66247105 TTGGGAGTAC
Statistics
Matches: 466, Mismatches: 61, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.00
80 73 0.16
81 388 0.83
82 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTA
AAACAGTAATTCTATA
Found at i:66250792 original size:22 final size:22
Alignment explanation
Indices: 66250767--66250810 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
66250757 ATAATGTAAC
*
66250767 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
66250789 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
66250811 GATTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:66255400 original size:30 final size:30
Alignment explanation
Indices: 66255304--66255388 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
66255294 TAAACTAAAA
*
66255304 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
66255334 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
66255364 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGGTTTAGCTCGTGAGCT
66255389 GAATATGAGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:66258417 original size:11 final size:11
Alignment explanation
Indices: 66258401--66258428 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
66258391 AAAATAGGCT
66258401 ATTTTCAAGCC
1 ATTTTCAAGCC
66258412 ATTTTCAAGCC
1 ATTTTCAAGCC
66258423 ATTTTC
1 ATTTTC
66258429 TCACCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (11 bp):
ATTTTCAAGCC
Found at i:66261132 original size:30 final size:30
Alignment explanation
Indices: 66261098--66261194 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
66261088 AGCTCACTCC
66261098 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * *
66261128 TAGCTCAACTTTAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
66261158 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
66261188 TAGCTCA
1 TAGCTCA
66261195 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:66263843 original size:9 final size:10
Alignment explanation
Indices: 66263836--66263899 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 10
66263826 AAGAGAAAAC
66263836 AAAGAAAAGA
1 AAAGAAAAGA
66263846 AAAGAAAAAGA
1 AAAG-AAAAGA
66263857 AAA-AAGCAAGA
1 AAAGAA--AAGA
*
66263868 GAAGAAAAAGA
1 AAAG-AAAAGA
66263879 AAATGAAATA-A
1 AAA-GAAA-AGA
66263890 AAAGAAAAGA
1 AAAGAAAAGA
66263900 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
9 3 0.07
10 9 0.20
11 28 0.64
12 2 0.05
13 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:66263846 original size:5 final size:5
Alignment explanation
Indices: 66263836--66263899 Score: 51
Period size: 5 Copynumber: 12.0 Consensus size: 5
66263826 AAGAGAAAAC
*
66263836 AAAGA AAAGA AAAGAA AAAGA AAA-A AGCAAGA GAAGAA AAAGA AAATGA
1 AAAGA AAAGA AAAG-A AAAGA AAAGA A--AAGA AAAG-A AAAGA AAA-GA
66263885 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
66263900 GAGGCAAGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
4 3 0.06
5 29 0.59
6 15 0.31
7 2 0.04
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:66263855 original size:16 final size:16
Alignment explanation
Indices: 66263836--66263899 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
66263826 AAGAGAAAAC
66263836 AAAG-AAAAGAAAAGAA
1 AAAGAAAAAGAAAAG-A
*
66263852 AAAGAAAAA-AGCAAGA
1 AAAGAAAAAGA-AAAGA
*
66263868 GAAGAAAAAGAAAATG-
1 AAAGAAAAAGAAAA-GA
*
66263884 AAATAAAAAGAAAAGA
1 AAAGAAAAAGAAAAGA
66263900 GAGGCAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.03
16 28 0.74
17 9 0.24
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAGAAAAGA
Found at i:66263870 original size:19 final size:19
Alignment explanation
Indices: 66263826--66263881 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
66263816 CATTCTTGTA
66263826 AAGAGAAAACAAAGAAAAG
1 AAGAGAAAACAAAGAAAAG
*
66263845 AAAAGAAAA-AGAA-AAAAG
1 AAGAGAAAACA-AAGAAAAG
66263863 CAAGAGAAGAA-AAAGAAAA
1 -AAGAGAA-AACAAAGAAAA
66263882 TGAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 6 0.19
19 18 0.58
20 7 0.23
ACGTcount: A:0.77, C:0.04, G:0.20, T:0.00
Consensus pattern (19 bp):
AAGAGAAAACAAAGAAAAG
Found at i:66263979 original size:11 final size:12
Alignment explanation
Indices: 66263947--66263977 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66263937 TTGAGAGAAC
66263947 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66263959 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66263971 TTGAAAA
1 TTGAAAA
66263978 GCAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:66266152 original size:30 final size:30
Alignment explanation
Indices: 66266118--66266214 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66266108 AGCTCACTCC
66266118 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
66266148 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
66266178 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
66266208 TAGCTCA
1 TAGCTCA
66266215 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Done.