Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 68 of 228
Found at i:20364494 original size:21 final size:21
Alignment explanation
Indices: 20364470--20364509 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
20364460 TCAAATTTCG
20364470 AATAATAATACAAAGTTGTAA
1 AATAATAATACAAAGTTGTAA
20364491 AATAATAATACAAAGTTGT
1 AATAATAATACAAAGTTGT
20364510 CTTCAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
AATAATAATACAAAGTTGTAA
Found at i:20366085 original size:28 final size:29
Alignment explanation
Indices: 20366038--20366093 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
20366028 AAGGATTTCG
*
20366038 GGGGGAAAAAAGAATAAGGAGAAAAGGTT
1 GGGGGAAAAAAGAATAAGGAAAAAAGGTT
* *
20366067 GGGGGAAAAAAG-TTGAGGAAAAAAGGT
1 GGGGGAAAAAAGAATAAGGAAAAAAGGT
20366094 CGGGCTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.39, T:0.11
Consensus pattern (29 bp):
GGGGGAAAAAAGAATAAGGAAAAAAGGTT
Found at i:20366413 original size:113 final size:114
Alignment explanation
Indices: 20366270--20366490 Score: 268
Period size: 114 Copynumber: 1.9 Consensus size: 114
20366260 TTTATCCACA
* ** *
20366270 AGCGCCGCTAAATCCCTACATATTGCGGCG-TTTAACCG-AAATGCCACTAAAAAACCTACA-AA
1 AGCGCCGCTAAATCCCGACATATTGCGGCGTTTTAA-CGAAAACACCACTAAAAAACC-AAATAA
* *
20366332 AACGGCACCATTTTTATTAAAACAAAATAACATGTTGCGGCGTTTTTTGGT
64 AACGACACCATTTTGATTAAAACAAAATAACATGTTGCGGCGTTTTTTGGT
* * * *
20366383 AGCGTCGCTAAATCCCGACCTATTGCGGCGTTTTGACGAAAACACCACTAAAAAATCAAATAAAA
1 AGCGCCGCTAAATCCCGACATATTGCGGCGTTTTAACGAAAACACCACTAAAAAACCAAATAAAA
* * * * *
20366448 CGACTCTATTTTGATTAAAACAAATTAACCTTTTGCGGCGTTT
66 CGACACCATTTTGATTAAAACAAAATAACATGTTGCGGCGTTT
20366491 CACCAAAAAC
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
113 31 0.34
114 59 0.66
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (114 bp):
AGCGCCGCTAAATCCCGACATATTGCGGCGTTTTAACGAAAACACCACTAAAAAACCAAATAAAA
CGACACCATTTTGATTAAAACAAAATAACATGTTGCGGCGTTTTTTGGT
Found at i:20367070 original size:7 final size:7
Alignment explanation
Indices: 20367058--20367229 Score: 66
Period size: 7 Copynumber: 24.1 Consensus size: 7
20367048 ACTAATTAAT
20367058 CTAAACC
1 CTAAACC
20367065 CTAAACCC
1 CTAAA-CC
20367073 CT-AACTC
1 CTAAAC-C
20367080 CT-AACC
1 CTAAACC
20367086 CTTAAACC
1 C-TAAACC
**
20367094 CTAAATT
1 CTAAACC
** *
20367101 AAAAAAC
1 CTAAACC
*
20367108 ATAAACC
1 CTAAACC
20367115 CTAAACCC
1 CTAAA-CC
*
20367123 CTAACCC
1 CTAAACC
*
20367130 CCAAACC
1 CTAAACC
*
20367137 TTAAACC
1 CTAAACC
20367144 CT-AACC
1 CTAAACC
20367150 CTTAAACC
1 C-TAAACC
*
20367158 ATAAACC
1 CTAAACC
*
20367165 ATAAACC
1 CTAAACC
*
20367172 TTAAA--
1 CTAAACC
*
20367177 ATAGTAACTC
1 CTA--AAC-C
20367187 CTAAACC
1 CTAAACC
*
20367194 TTAAACC
1 CTAAACC
*
20367201 ATAAACC
1 CTAAACC
* *
20367208 ATAAATC
1 CTAAACC
* *
20367215 ATAATCC
1 CTAAACC
20367222 CTAAACC
1 CTAAACC
20367229 C
1 C
20367230 ATAATCCATC
Statistics
Matches: 127, Mismatches: 26, Indels: 24
0.72 0.15 0.14
Matches are distributed among these distances:
5 2 0.02
6 8 0.06
7 93 0.73
8 22 0.17
10 2 0.02
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:20367299 original size:72 final size:72
Alignment explanation
Indices: 20367132--20367311 Score: 215
Period size: 72 Copynumber: 2.5 Consensus size: 72
20367122 CCTAACCCCC
* * * *
20367132 AAACCTTAAACCCTAACCCTTAAA-CCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
1 AAACCATAAACCATAATCCATAAACCCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
20367196 AAACCAT
66 AAACCAT
* * * * *
20367203 AAACCATAAATCATAATCCCTAAACCCATAATCCATCAACCTTAAAATAGTAATTCCTAAACCTT
1 AAACCATAAACCATAATCCATAAACCCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
20367268 AAACTC-T
66 AAAC-CAT
* *
20367275 AAACCATATACCATTAA-CCATAAACCC-TAAACTATAA
1 AAACCATAAACCA-TAATCCATAAACCCATAAACCATAA
20367312 TGGTAATTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
71 26 0.28
72 62 0.67
73 4 0.04
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (72 bp):
AAACCATAAACCATAATCCATAAACCCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
AAACCAT
Found at i:20367311 original size:14 final size:14
Alignment explanation
Indices: 20367107--20367311 Score: 99
Period size: 14 Copynumber: 14.4 Consensus size: 14
20367097 AATTAAAAAA
20367107 CATAAACCCTAAACC
1 CATAAACCCTAAA-C
* * *
20367122 CCTAACCCCCAAAC
1 CATAAACCCTAAAC
* *
20367136 CTTAAACCCTAACC
1 CATAAACCCTAAAC
* *
20367150 CTTAAACCATAAAC
1 CATAAACCCTAAAC
*
20367164 CATAAACCTTAAA-
1 CATAAACCCTAAAC
20367177 -ATAGTAACTCCTAAAC
1 CATA--AAC-CCTAAAC
* *
20367193 CTTAAACCATAAAC
1 CATAAACCCTAAAC
* * *
20367207 CATAAATCATAATC
1 CATAAACCCTAAAC
* *
20367221 CCTAAACCCATAATC
1 CATAAACCC-TAAAC
* * *
20367236 CATCAACCTTAAAA
1 CATAAACCCTAAAC
* **
20367250 TAGTAATTCCTAAAC
1 CA-TAAACCCTAAAC
* *
20367265 CTTAAACTCTAAAC
1 CATAAACCCTAAAC
* * *
20367279 CATATACCATTAAC
1 CATAAACCCTAAAC
20367293 CATAAACCCTAAAC
1 CATAAACCCTAAAC
*
20367307 TATAA
1 CATAA
20367312 TGGTAATTAA
Statistics
Matches: 138, Mismatches: 45, Indels: 15
0.70 0.23 0.08
Matches are distributed among these distances:
12 3 0.02
14 97 0.70
15 36 0.26
17 2 0.01
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.22
Consensus pattern (14 bp):
CATAAACCCTAAAC
Found at i:20367991 original size:40 final size:40
Alignment explanation
Indices: 20367862--20367991 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
20367852 ATTTTTTTGT
* * * * *
20367862 GGCGTTTTTCATAAAGCGTCGCTAATTG-TTGACCTATAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAA-TGCTCGATCTATAGC
** * * * *
20367902 GGCGTTTTCCAAGAAGCGCCGCTAATGGTCTATCTATAGT
1 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC
* * *
20367942 GGCGATTTTTAAAAAGTGCTGCTAATGCTCGATCTATAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC
20367982 GGCGTTTTTT
1 GGCGTTTTTT
20367992 GTCCGCCGCT
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (40 bp):
GGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC
Found at i:20368376 original size:20 final size:20
Alignment explanation
Indices: 20368351--20368393 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
20368341 TTATTTTTTT
*
20368351 ATTTTATGAGAGTTTAATTG
1 ATTTTACGAGAGTTTAATTG
*
20368371 ATTTTACGAGGGTTTAATTG
1 ATTTTACGAGAGTTTAATTG
20368391 ATT
1 ATT
20368394 ATTTAAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (20 bp):
ATTTTACGAGAGTTTAATTG
Found at i:20368960 original size:11 final size:11
Alignment explanation
Indices: 20368944--20368977 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
20368934 TCGCCCATAT
20368944 TATTATTTTTA
1 TATTATTTTTA
20368955 TATTATTTTTTA
1 TATTA-TTTTTA
*
20368967 TATAATTTTTA
1 TATTATTTTTA
20368978 AAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:20368966 original size:12 final size:12
Alignment explanation
Indices: 20368944--20368976 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20368934 TCGCCCATAT
20368944 TATTA-TTTTTA
1 TATTATTTTTTA
20368955 TATTATTTTTTA
1 TATTATTTTTTA
*
20368967 TATAATTTTT
1 TATTATTTTT
20368977 AAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:20370410 original size:20 final size:20
Alignment explanation
Indices: 20370385--20370423 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20370375 TATTTTTTTC
20370385 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
20370405 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
20370424 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:20370766 original size:50 final size:50
Alignment explanation
Indices: 20370712--20370814 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 50
20370702 ACATGAGAGT
* * * *
20370712 TCTCATATCGGTGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
* ** *
20370762 TCTCATCTCGGTACCAACGCCATGTCTTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
20370812 TCT
1 TCT
20370815 TATAACCTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
Found at i:20372144 original size:32 final size:32
Alignment explanation
Indices: 20372104--20372167 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
20372094 TGTGAAATGG
*
20372104 TAGCAAAATAGTGAA-AAAAAACAACAAGAAAA
1 TAGCAAAATAAT-AATAAAAAACAACAAGAAAA
* *
20372136 TAGCAAAATAATAATAATAAACAACAATAAAA
1 TAGCAAAATAATAATAAAAAACAACAAGAAAA
20372168 CAGTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.69, C:0.09, G:0.08, T:0.14
Consensus pattern (32 bp):
TAGCAAAATAATAATAAAAAACAACAAGAAAA
Found at i:20372527 original size:19 final size:20
Alignment explanation
Indices: 20372491--20372529 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20372481 TTTAAAACTT
*
20372491 TTCTATACTTTTTTTTAAAA
1 TTCTATACTTTTTCTTAAAA
20372511 TTCTATA-TTTTTCTTAAAA
1 TTCTATACTTTTTCTTAAAA
20372530 AATTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCTATACTTTTTCTTAAAA
Found at i:20372529 original size:60 final size:60
Alignment explanation
Indices: 20372446--20372563 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
20372436 ATAATTTTAA
** * *
20372446 TAAAATTTATATATTATTCTAAAATCTTTATAACATTTAAAACTTTTCTATACTTTTTTT
1 TAAAATTTATATATTATTCTAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTTTT
20372506 TAAAATTCTATAT-TT-TTCTTAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTT
1 TAAAATT-TATATATTATTC-TAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTT
20372564 AATAATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
59 3 0.06
60 44 0.85
61 5 0.10
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (60 bp):
TAAAATTTATATATTATTCTAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTTTT
Found at i:20372530 original size:20 final size:20
Alignment explanation
Indices: 20372491--20372530 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20372481 TTTAAAACTT
*
20372491 TTCTATACTTTTTTTTAAAA
1 TTCTATACTTTTTTTAAAAA
20372511 TTCTATA-TTTTTCTTAAAAA
1 TTCTATACTTTTT-TTAAAAA
20372531 ATTTATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (20 bp):
TTCTATACTTTTTTTAAAAA
Found at i:20381856 original size:19 final size:19
Alignment explanation
Indices: 20381829--20381876 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
20381819 GCACTTATGA
* *
20381829 GCCAAGATGTACTTCGTGT
1 GCCAGGATGTACTTCATGT
20381848 GCCAGGATGTACTTCATGT
1 GCCAGGATGTACTTCATGT
*
20381867 GCCAGTATGT
1 GCCAGGATGT
20381877 GCTTTGTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (19 bp):
GCCAGGATGTACTTCATGT
Found at i:20385199 original size:13 final size:13
Alignment explanation
Indices: 20385183--20385207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20385173 AAAATGCATA
20385183 AGTAAATACAACG
1 AGTAAATACAACG
20385196 AGTAAATACAAC
1 AGTAAATACAAC
20385208 TACAATGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AGTAAATACAACG
Found at i:20396897 original size:66 final size:66
Alignment explanation
Indices: 20396790--20396927 Score: 188
Period size: 66 Copynumber: 2.1 Consensus size: 66
20396780 TCATATTTTG
* * * *
20396790 AAGTTGTAGTTGGAGTTCGTCATATTTTCTTGTTGCATCTACTTCCGTCGCTGCTGCCTCAACTT
1 AAGTTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTACTTCCGTCGATGCTGCCTCAACTT
20396855 T
66 T
* ** *
20396856 AAGTTGTAGCTGGAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTTTCGATGCTGCCTCCACT
1 AAGTTGTAGCTGGAGTTCATCATATTTTCTTGT-AGCATCTACTTCCGTCGATGCTGCCTCAACT
20396920 TT
65 TT
20396922 AAGTTG
1 AAGTTG
20396928 AGCAATTTGC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 62 0.98
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (66 bp):
AAGTTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTACTTCCGTCGATGCTGCCTCAACTT
T
Found at i:20397979 original size:45 final size:45
Alignment explanation
Indices: 20397915--20398004 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
20397905 GAAAGTAAAT
* *
20397915 ATAAATTAAACTTAAACCAAAGTATTGTAAATTACATTCACGTTA
1 ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
20397960 ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
1 ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
20398005 TTACCTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (45 bp):
ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
Found at i:20402989 original size:23 final size:24
Alignment explanation
Indices: 20402925--20402996 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 24
20402915 TTATTCATAA
*
20402925 AATTATTATGAAATATAATTATTT
1 AATTATTATGAAATATAATTAATT
* * *
20402949 AATTAAATCATCAAAAATTAATTAATT
1 AATT--ATTATGAAATA-TAATTAATT
*
20402976 AATTATTATGAAATATGATTA
1 AATTATTATGAAATATAATTA
20402997 TTTATTTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
24 9 0.24
25 8 0.22
26 8 0.22
27 12 0.32
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (24 bp):
AATTATTATGAAATATAATTAATT
Found at i:20403108 original size:5 final size:5
Alignment explanation
Indices: 20403084--20403126 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
20403074 ATAAACTATT
*
20403084 ATTTA ATTATA TAATTA ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATT-TA -ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
20403127 AAATAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 28 0.82
6 4 0.12
7 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTTA
Found at i:20411584 original size:11 final size:11
Alignment explanation
Indices: 20411564--20411596 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
20411554 GTTAAATTCG
20411564 TAATTGGTTGT
1 TAATTGGTTGT
*
20411575 TAATTTGTTGT
1 TAATTGGTTGT
20411586 TAATTGGTTGT
1 TAATTGGTTGT
20411597 GGTAATACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (11 bp):
TAATTGGTTGT
Found at i:20413075 original size:37 final size:38
Alignment explanation
Indices: 20413001--20413096 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 38
20412991 ACCCCTTCGA
* *
20413001 CCACCCTACACACCACAATTGGGCTATGGTAGGCCCAT
1 CCACCCTACACACCACAATAGGGCTATGGTAGACCCAT
*
20413039 CCACTCTACACACCACAA-AGGGCTATGGTAGACCCAT
1 CCACCCTACACACCACAATAGGGCTATGGTAGACCCAT
* *
20413076 CTACCCTACACACCACGATAG
1 CCACCCTACACACCACAATAG
20413097 TGGATCTAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
37 32 0.63
38 19 0.37
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.17
Consensus pattern (38 bp):
CCACCCTACACACCACAATAGGGCTATGGTAGACCCAT
Found at i:20415981 original size:19 final size:18
Alignment explanation
Indices: 20415957--20415999 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
20415947 TATATGTTGA
20415957 ATAAAATGAACAAAAATAG
1 ATAAAATG-ACAAAAATAG
* *
20415976 ATAAAAATGATAAAATTAG
1 AT-AAAATGACAAAAATAG
20415995 ATAAA
1 ATAAA
20416000 TAGATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 12 0.57
20 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (18 bp):
ATAAAATGACAAAAATAG
Found at i:20418062 original size:3 final size:3
Alignment explanation
Indices: 20418049--20418103 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
20418039 TTTAATTATG
20418049 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
20418095 TTA TTA TTA
1 TTA TTA TTA
20418104 CCATTACTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:20424714 original size:50 final size:50
Alignment explanation
Indices: 20424453--20424722 Score: 234
Period size: 50 Copynumber: 5.4 Consensus size: 50
20424443 TTCTTAGCAG
* * * *
20424453 TGCAGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TGCAGTTGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAT
* * * * *** * * *
20424503 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAG
1 TGCAGTTGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAT
* * * *
20424553 TGCAGTGGAACAGATTGAAGCTACAGCGGCGGATCTGGTTTCCCTGATAT
1 TGCAGTTGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAT
* * * * * *** * * *
20424603 TACAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAG
1 TGCAGTTGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAT
* * * *
20424653 TACAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCAACAT
1 TGCAGTTGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAT
*
20424703 TGCAGTTGAACAAATTGAAG
1 TGCAGTTGAACAGATTGAAG
20424723 ATTTCAGATC
Statistics
Matches: 161, Mismatches: 59, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 161 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
TGCAGTTGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAT
Found at i:20424722 original size:100 final size:100
Alignment explanation
Indices: 20424438--20424696 Score: 466
Period size: 100 Copynumber: 2.6 Consensus size: 100
20424428 ACCATAGATT
* *
20424438 TTACTTTCTTAGCAGTGCAGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
20424503 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
20424538 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTAC-AGCGGCGGATCTGGTTTCCCTGATA
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGA-CGGCGGATCTGGTTTCCCTGATA
*
20424602 TTACAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
20424638 TTACTTCCTTAGCAGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
20424697 CAACATTGCA
Statistics
Matches: 153, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
99 1 0.01
100 151 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:20424875 original size:132 final size:132
Alignment explanation
Indices: 20424716--20425163 Score: 682
Period size: 132 Copynumber: 3.4 Consensus size: 132
20424706 AGTTGAACAA
* * * **
20424716 ATTGAAGATTTCAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATTGAAGATGGCGGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTAC
* *
20424781 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAGCAGCGGAAT
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
20424846 AG
131 AG
* * *
20424848 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTAC
* *
20424913 CTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
20424978 AG
131 AG
* * *
20424980 ATTGAAGATTTCAGATCTTATCTCTCTAGGCAGTAATGGAGCAGATCAAAGATGGCGAATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTAC
* * *
20425045 CTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTGAAA
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGCGGAA
20425109 TAG
130 TAG
* * * *
20425112 ATTGAAGATTACAGATCTTACCTCCCTAGGCAGTAATGGAGCAGATCGAAGA
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGA
20425164 CCCCAGTCTT
Statistics
Matches: 292, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 291 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTAC
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
AG
Found at i:20426738 original size:3 final size:3
Alignment explanation
Indices: 20426730--20426780 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
20426720 AATTATGTTA
* *
20426730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20426778 TAT
1 TAT
20426781 ATACACAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:20433302 original size:22 final size:22
Alignment explanation
Indices: 20433262--20433353 Score: 67
Period size: 25 Copynumber: 3.9 Consensus size: 22
20433252 CGGAACAAAT
*
20433262 ACAGAGAGCACAAATGTGCTGA
1 ACAGAGAGCACAAACGTGCTGA
** *
20433284 ACAGAGAGCACTGACGTGCTAAA
1 ACAGAGAGCACAAACGTGCT-GA
* *
20433307 TATCAGAGAGCACCAACGTGCTAATA
1 -A-CAGAGAGCACAAACGTGCT--GA
*
20433333 ATCAGAGAGCACCAACGTGCT
1 A-CAGAGAGCACAAACGTGCT
20433354 AATAATCAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.29
23 1 0.02
24 1 0.02
25 38 0.64
26 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (22 bp):
ACAGAGAGCACAAACGTGCTGA
Found at i:20433316 original size:25 final size:25
Alignment explanation
Indices: 20433285--20433392 Score: 173
Period size: 25 Copynumber: 4.3 Consensus size: 25
20433275 ATGTGCTGAA
**
20433285 CAGAGAGCACTGACGTGCTAA-ATAT
1 CAGAGAGCACCAACGTGCTAATA-AT
20433310 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
20433335 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
*
20433360 CAGAGAGCACCAACGTACTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
20433385 CAGAGAGC
1 CAGAGAGC
20433393 GCGCTAAAGT
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 78 0.99
26 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (25 bp):
CAGAGAGCACCAACGTGCTAATAAT
Found at i:20433720 original size:11 final size:11
Alignment explanation
Indices: 20433693--20433726 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
20433683 GGTTCCATAA
20433693 TATTTTA-TTT
1 TATTTTATTTT
*
20433703 TACTTTATTTT
1 TATTTTATTTT
20433714 TATTTTATTTT
1 TATTTTATTTT
20433725 TA
1 TA
20433727 AATAAATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:20434239 original size:12 final size:13
Alignment explanation
Indices: 20434222--20434253 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
20434212 GATTTCCATC
20434222 AATTCAAT-CACT
1 AATTCAATCCACT
20434234 AATTC-ATCCACT
1 AATTCAATCCACT
20434246 AATTCAAT
1 AATTCAAT
20434254 ATAAGCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 14 0.78
13 2 0.11
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
AATTCAATCCACT
Found at i:20434445 original size:11 final size:11
Alignment explanation
Indices: 20434429--20434454 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20434419 TCTTTCTTTC
20434429 TTTCTCCCCTG
1 TTTCTCCCCTG
20434440 TTTCTCCCCTG
1 TTTCTCCCCTG
20434451 TTTC
1 TTTC
20434455 GTTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:20434524 original size:5 final size:5
Alignment explanation
Indices: 20434514--20434548 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
20434504 TATATATATA
*
20434514 ATAAT ATAAT ATAAT ATTAT AATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
20434549 CAACTCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:20434534 original size:21 final size:22
Alignment explanation
Indices: 20434505--20434548 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
20434495 CTTTTGCTTT
20434505 ATATATATAATAATATAATATA
1 ATATATATAATAATATAATATA
20434527 ATAT-TATAATAATATAATATA
1 ATATATATAATAATATAATATA
20434548 A
1 A
20434549 CAACTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAATAATATAATATA
Found at i:20435380 original size:64 final size:65
Alignment explanation
Indices: 20435303--20435513 Score: 175
Period size: 64 Copynumber: 3.3 Consensus size: 65
20435293 GCTATTCAGA
*
20435303 GTTGCGATCTTAAATCAACTAACTCAAATAAAATTATTCATGATCTGAAATC-GAATGAACTTAG
1 GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCAGAATGAACTTAG
* * * * * * * * *
20435367 GTTGCGATATTAAATCAGCGAAC-CTTAATAATATGAATT-GTGATCTTAAATCAGCTAGTTG-C
1 GTTGCGATCTTAAATCAGCTAACTC-AAATAAAAT-TATTCATGATCTGAAATCAG--A-ATGAA
**
20435429 CGGA-
61 CTTAG
* * * * *
20435433 GTTGTGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTAG
1 GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCAGAATGAACTTAG
20435497 GTTGCGAT-TTAAATCAG
1 GTTGCGATCTTAAATCAG
20435514 TGAACCTTAA
Statistics
Matches: 107, Mismatches: 30, Indels: 21
0.68 0.19 0.13
Matches are distributed among these distances:
62 2 0.02
63 12 0.11
64 45 0.42
65 8 0.07
66 34 0.32
67 4 0.04
68 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (65 bp):
GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCAGAATGAACTTAG
Found at i:20435481 original size:130 final size:130
Alignment explanation
Indices: 20435301--20435604 Score: 477
Period size: 130 Copynumber: 2.3 Consensus size: 130
20435291 GAGCTATTCA
* * * *
20435301 GAGTTGCGATCTTAAATCAACTAACTCAAATAAAATTATTCATGATCTGAAA-TCGAATGAACTT
1 GAGTTGCGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATGAACTGAAACT-GAATGAACTT
* *
20435365 AGGTTGCGATATTAAATCAGCGAACCTTAATAATATGAATTGTGATCTTAAATCAGCTAGTTG-C
65 AGGTTGCGAT-TTAAATCAGCGAACCTTAATAATATCAATTGTGATCTTAAATCAGCAAGTTGTC
20435429 CG
129 CG
*
20435431 GAGTTGTGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATGAACTGAAACTGAATGAACTTA
1 GAGTTGCGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATGAACTGAAACTGAATGAACTTA
* * *
20435496 GGTTGCGATTTAAATCAGTGAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCG
66 GGTTGCGATTTAAATCAGCGAACCTTAATAATATCAATTGTGATCTTAAATCAGCAAGTTGTCCG
*
20435561 GAGTTGCGATCTTAAATTAGCAAACTCAAATAAAATTGTTCATG
1 GAGTTGCGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATG
20435605 TTAAATAAAG
Statistics
Matches: 160, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
129 48 0.30
130 111 0.69
131 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (130 bp):
GAGTTGCGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATGAACTGAAACTGAATGAACTTA
GGTTGCGATTTAAATCAGCGAACCTTAATAATATCAATTGTGATCTTAAATCAGCAAGTTGTCCG
Found at i:20438866 original size:24 final size:24
Alignment explanation
Indices: 20438809--20438872 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
20438799 ACACAAATGT
* ** *
20438809 AGATACAAAAACAGGTTCAGTTAC
1 AGATACAAATACAAATTCAATTAC
*
20438833 AGATGCAAATACAAATTCAATTAC
1 AGATACAAATACAAATTCAATTAC
*
20438857 AGATACAAATGCAAAT
1 AGATACAAATACAAAT
20438873 GCAAACACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
AGATACAAATACAAATTCAATTAC
Found at i:20440160 original size:40 final size:42
Alignment explanation
Indices: 20440116--20440193 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
20440106 GGAACACTTG
*
20440116 TGACAAAAATTG-AA-AAAAAAAACCAAGCAAACAAAAGTTT
1 TGACAAAAATTGAAAGAAAAAAAAACAAGCAAACAAAAGTTT
*
20440156 TGACAAAAATTGAAAGAAAAAAAAACAAGCAAAGAAAA
1 TGACAAAAATTGAAAGAAAAAAAAACAAGCAAACAAAA
20440194 CTTATAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 12 0.35
41 2 0.06
42 20 0.59
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.12
Consensus pattern (42 bp):
TGACAAAAATTGAAAGAAAAAAAAACAAGCAAACAAAAGTTT
Found at i:20442968 original size:112 final size:109
Alignment explanation
Indices: 20442741--20442947 Score: 245
Period size: 112 Copynumber: 1.8 Consensus size: 109
20442731 AAATAATTTC
* * *
20442741 TTTTTTTTGTGCTGGCACACTGATGGCCAACTCCCACTTTATCAGATAAAAAAATTTTGGTTTGG
1 TTTTTTTTGTGCTGGCACACTAATGGCCAACACCCACTTTATCAAATAAAAAAATTTTGGTTTGG
* * * * **
20442806 GAGAATTAGATGGCCAGCATCACCTTTGTCATATTAAAAAAATAA
66 GAGAACTAAATGGACAACATCACCTTTGTCATAGGAAAAAAAT-A
*
20442851 TTTTTTTTAGATGCTGGCACACTAATGGCTAACACCCACTTTATCAAATAAAAAAAATTTCTTAG
1 TTTTTTTT-G-TGCTGGCACACTAATGGCCAACACCCACTTTATCAAAT-AAAAAAA-TT-TT-G
*
20442916 G-TTGGGGGAACTAAATGGACAACATCACCTTT
60 GTTTGGGAGAACTAAATGGACAACATCACCTTT
20442948 TTTAGGAATA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
110 8 0.10
111 1 0.01
112 34 0.41
113 7 0.09
114 2 0.02
115 28 0.34
116 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (109 bp):
TTTTTTTTGTGCTGGCACACTAATGGCCAACACCCACTTTATCAAATAAAAAAATTTTGGTTTGG
GAGAACTAAATGGACAACATCACCTTTGTCATAGGAAAAAAATA
Found at i:20445972 original size:24 final size:24
Alignment explanation
Indices: 20445945--20445994 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
20445935 CACATGATTC
* * *
20445945 AATTTAATTTATAGTGTAAATAAA
1 AATTCAATTAATAGTATAAATAAA
20445969 AATTCAATTAATAGTATAAATAAA
1 AATTCAATTAATAGTATAAATAAA
20445993 AA
1 AA
20445995 AATAATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
AATTCAATTAATAGTATAAATAAA
Found at i:20446001 original size:24 final size:23
Alignment explanation
Indices: 20445949--20446001 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
20445939 TGATTCAATT
* * *
20445949 TAATTTATAGTGTAAATAAAAAT
1 TAATTAATAGTATAAATAAAAAA
20445972 TCAATTAATAGTATAAATAAAAAAA
1 T-AATTAATAGTATAAAT-AAAAAA
20445997 TAATT
1 TAATT
20446002 TGATACATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 18 0.72
25 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (23 bp):
TAATTAATAGTATAAATAAAAAA
Found at i:20446203 original size:163 final size:164
Alignment explanation
Indices: 20446032--20446382 Score: 530
Period size: 161 Copynumber: 2.1 Consensus size: 164
20446022 GATTTTAAAT
20446032 TAAAGTTTAAATTAAAAATTAATTGAACAGATATATTTTAATT-AAAAAATCAATTTAAAGATTA
1 TAAAGTTTAAATTAAAAATTAATTGAACAGATATATTTTAATTAAAAAAATCAATTT-AA-A-TA
* * * *
20446096 TAAATAAAATATAATTTAATACATTTTAATTGAATAGATTAAAACTAATTACTGTATAAATTAAA
63 TAAATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAA
*
20446161 GTATAGATAATTTC-A-AATAA-AAAAATTAAATACA
128 GTATAGATAATTTCAAGAAAAATAAAAATTAAATACA
* *
20446195 TAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAAATCAATTTAAATATAA
1 TAAAGTTTAAATTAAAAATTAATTGAACAGATATATTTTAATTAAAAAAATCAATTTAAATATAA
*
20446260 ATAAAAAATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAGTA
66 ATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAGTA
*
20446325 TAGTTAATTTCAAGTAAAAATTAAAAATTAAATACA
131 TAGATAATTTCAAG-AAAAA-TAAAAATTAAATACA
* *
20446361 TAAAGTTTAACTTAATAATTAA
1 TAAAGTTTAAATTAAAAATTAA
20446383 ATTTTAAATT
Statistics
Matches: 170, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
161 75 0.44
162 2 0.01
163 43 0.25
164 17 0.10
166 33 0.19
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (164 bp):
TAAAGTTTAAATTAAAAATTAATTGAACAGATATATTTTAATTAAAAAAATCAATTTAAATATAA
ATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAGTA
TAGATAATTTCAAGAAAAATAAAAATTAAATACA
Found at i:20446383 original size:19 final size:19
Alignment explanation
Indices: 20446361--20446401 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20446351 ATTAAATACA
* *
20446361 TAAAGTTTAACTTAATAAT
1 TAAAGTTTAAATTAAAAAT
*
20446380 TAAATTTTAAATTAAAAAT
1 TAAAGTTTAAATTAAAAAT
20446399 TAA
1 TAA
20446402 TTGAATAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAGTTTAAATTAAAAAT
Found at i:20446405 original size:185 final size:189
Alignment explanation
Indices: 20446187--20446571 Score: 620
Period size: 189 Copynumber: 2.1 Consensus size: 189
20446177 ATAAAAAAAT
20446187 TAAATACA-TAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAAATCAATT
1 TAAATA-ATTAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATT-AAAAAATCAATT
* *
20446251 T-AA-A-TATAAAT-AAAA-AATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATG
64 TAAAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATA
*
20446311 TATAAATTAAAGTATAGTTAATTTCAAGTAAAAATTAAAAATTAAATACATAAAGTTTAAC
129 TATAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACATAAAGTTTAAC
* * *
20446372 TTAATAATTAAATTTTAAATTAAAAATTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
1 TAAATAATTAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
* **
20446437 AAGATTATAAATAAAAATAATAATTTAATATATTTCAATTGAATAGATTAAAATGAATTAATATA
66 AAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATATA
*
20446502 TAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACATAAATTTTAAC
131 TAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACATAAAGTTTAAC
20446561 TAAATAATTAA
1 TAAATAATTAA
20446572 TTGAAATAAA
Statistics
Matches: 183, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
184 14 0.08
185 48 0.26
186 1 0.01
187 7 0.04
188 4 0.02
189 109 0.60
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (189 bp):
TAAATAATTAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
AAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATATA
TAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACATAAAGTTTAAC
Found at i:20449540 original size:90 final size:88
Alignment explanation
Indices: 20449430--20449707 Score: 272
Period size: 90 Copynumber: 3.1 Consensus size: 88
20449420 AGAAAATACA
*
20449430 AACATTCTACAAAACTAATATACGAAAATATATAATTCGACCAACAAATAATACCGACTAAATTT
1 AACATTTTACAAAACTAATATACGAAAATATA-AATTCGACCAACAAATAATA-CGACTAAATTT
*
20449495 TATTTATAGATACAAAACTCATATG
64 TATTTATAGATACAAAACTAATATG
* * * *
20449520 AACATTTTAGAAAATTAATATACGAAAATATAATATTCGATCAGA-AAATAATACAAGCTAAAAT
1 AACATTTTACAAAACTAATATACGAAAATATAA-ATTCGACCA-ACAAATAATACGA-CT-AAAT
* * * * **
20449584 ATT-TTTACAGATCCAAAAATAATACA
62 TTTATTTATAGATACAAAACTAATATG
* * * * * *
20449610 AACATTTTACAGAACTGATATAGGAAAATATAAAAATCGACCAACAAATAATATGGACTAAAATT
1 AACATTTTACAAAACTAATATACGAAAATAT-AAATTCGACCAACAAATAATA-CGACTAAATTT
* * *
20449675 GATTTATGGACACAAAACTAATATG
64 TATTTATAGATACAAAACTAATATG
*
20449700 AATATTTT
1 AACATTTT
20449708 GAATAATAGT
Statistics
Matches: 148, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
89 8 0.05
90 130 0.88
91 10 0.07
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (88 bp):
AACATTTTACAAAACTAATATACGAAAATATAAATTCGACCAACAAATAATACGACTAAATTTTA
TTTATAGATACAAAACTAATATG
Found at i:20461011 original size:26 final size:25
Alignment explanation
Indices: 20460982--20461031 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
20460972 CTAATTTTAT
20460982 TAAAAATTATTTAT-ATTATAAAATAA
1 TAAAAATTATTT-TGA-TATAAAATAA
*
20461008 TAAATATTATTTTGATATAAAATA
1 TAAAAATTATTTTGATATAAAATA
20461032 TTAAGGTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAAAAATTATTTTGATATAAAATAA
Found at i:20465299 original size:15 final size:13
Alignment explanation
Indices: 20465274--20465314 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
20465264 TCTTTAAATC
20465274 ATTTTTTATATAA
1 ATTTTTTATATAA
20465287 ATTTATGTTATAT-A
1 ATTT-T-TTATATAA
20465301 ATTTTTTATATAA
1 ATTTTTTATATAA
20465314 A
1 A
20465315 CTTTGGTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 6 0.24
15 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTTTTTATATAA
Found at i:20467332 original size:19 final size:19
Alignment explanation
Indices: 20467291--20467343 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
20467281 AAAATTATCA
*
20467291 TTTAACTTTTTTTTTAATT
1 TTTAACTTTTTTTATAATT
20467310 TTTAACTTTTTTTAT-ATT
1 TTTAACTTTTTTTATAATT
*
20467328 CTTTAAATATTTTTTA
1 -TTTAACT-TTTTTTA
20467344 AAAAAACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 3 0.10
19 20 0.67
20 7 0.23
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTAACTTTTTTTATAATT
Found at i:20467353 original size:22 final size:21
Alignment explanation
Indices: 20467328--20467369 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20467318 TTTTTATATT
20467328 CTTTAAATATTTTTTAAAAAAA
1 CTTTAAA-ATTTTTTAAAAAAA
* *
20467350 CTTTATAATTTTTTCAAAAA
1 CTTTAAAATTTTTTAAAAAA
20467370 TATAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
CTTTAAAATTTTTTAAAAAAA
Found at i:20467402 original size:9 final size:9
Alignment explanation
Indices: 20467390--20467436 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
20467380 GGAATTTTTA
20467390 TAAATATTT
1 TAAATATTT
20467399 T-AA-ATTT
1 TAAATATTT
20467406 TAAATATTT
1 TAAATATTT
20467415 TAAAT-TTT
1 TAAATATTT
*
20467423 TAAAAATTGT
1 TAAATATT-T
20467433 TAAA
1 TAAA
20467437 AAACTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 11 0.33
9 12 0.36
10 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TAAATATTT
Found at i:20467411 original size:16 final size:17
Alignment explanation
Indices: 20467385--20467436 Score: 70
Period size: 16 Copynumber: 3.0 Consensus size: 17
20467375 TTTTTGGAAT
20467385 TTTTATAAATATTTTAAA
1 TTTT-TAAATATTTTAAA
20467403 -TTTTAAATATTTTAAA
1 TTTTTAAATATTTTAAA
*
20467419 TTTTTAAAAATTGTTAAA
1 TTTTTAAATATT-TTAAA
20467437 AAACTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 13 0.42
17 13 0.42
18 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTTTAAATATTTTAAA
Found at i:20469853 original size:11 final size:11
Alignment explanation
Indices: 20469837--20469861 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20469827 CTGCACATCT
20469837 TCAATGAGCAA
1 TCAATGAGCAA
20469848 TCAATGAGCAA
1 TCAATGAGCAA
20469859 TCA
1 TCA
20469862 TTTAGGGATC
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:0.20, G:0.16, T:0.20
Consensus pattern (11 bp):
TCAATGAGCAA
Found at i:20472896 original size:29 final size:29
Alignment explanation
Indices: 20472864--20472967 Score: 74
Period size: 30 Copynumber: 3.6 Consensus size: 29
20472854 ATTTTTGACC
20472864 AAAATAATATATAATTTATTAAGAAACTA
1 AAAATAATATATAATTTATTAAGAAACTA
* *
20472893 AAAA-AA-ATATAA-ATA-TAAGTGAAAATGA
1 AAAATAATATATAATTTATTAA--GAAACT-A
* *
20472921 TTTAAAT-ATATATAATTTATCAAGAAACTA
1 --AAAATAATATATAATTTATTAAGAAACTA
*
20472951 AAAATTATACTATAATT
1 AAAATAATA-TATAATT
20472968 ATATATGTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 21
0.67 0.08 0.25
Matches are distributed among these distances:
25 3 0.05
26 2 0.04
27 11 0.19
28 7 0.12
29 7 0.12
30 12 0.21
31 11 0.19
32 2 0.04
33 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATAATATATAATTTATTAAGAAACTA
Found at i:20473554 original size:51 final size:51
Alignment explanation
Indices: 20473407--20473543 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
20473397 CTACCATCAA
* * *
20473407 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
20473458 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
20473509 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
20473544 GGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:20476356 original size:51 final size:51
Alignment explanation
Indices: 20476209--20476345 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
20476199 CTACCATCAA
* * *
20476209 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
20476260 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
20476311 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
20476346 GGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:20477035 original size:13 final size:13
Alignment explanation
Indices: 20477017--20477056 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
20477007 AATATAGTAA
20477017 ATTATTAAAAAAT
1 ATTATTAAAAAAT
*
20477030 ATTATTAAAATAT
1 ATTATTAAAAAAT
*
20477043 ATATATAAAAAAAT
1 AT-TATTAAAAAAT
20477057 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTATTAAAAAAT
Found at i:20477074 original size:22 final size:23
Alignment explanation
Indices: 20477014--20477074 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
20477004 ATGAATATAG
*
20477014 TAAATTA-TTA-AAAAATATTAT
1 TAAATTATTTATAAAAAAATTAT
*
20477035 TAAAATATATATATAAAAAAATT-T
1 T-AAAT-TATTTATAAAAAAATTAT
20477059 TAAATTATTTATAAAA
1 TAAATTATTTATAAAA
20477075 TAAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 1 0.03
22 14 0.42
23 6 0.18
24 4 0.12
25 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTATTTATAAAAAAATTAT
Found at i:20486314 original size:20 final size:20
Alignment explanation
Indices: 20486261--20486308 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
20486251 AGACTATTTG
20486261 ACCGTTAACTTTAATAGTTA
1 ACCGTTAACTTTAATAGTTA
20486281 ACCGTTAACTTTAATAGTTA
1 ACCGTTAACTTTAATAGTTA
20486301 ACCGTTAA
1 ACCGTTAA
20486309 AGTTAACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ACCGTTAACTTTAATAGTTA
Found at i:20486412 original size:9 final size:9
Alignment explanation
Indices: 20486400--20486442 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
20486390 ATAAAAGTTA
20486400 TAAAAATAT
1 TAAAAATAT
* *
20486409 TAAATATTAA
1 TAAA-AATAT
20486419 TAAAAATA-
1 TAAAAATAT
20486427 TAAAAATAT
1 TAAAAATAT
20486436 TAAAAAT
1 TAAAAAT
20486443 TAGGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 8 0.28
9 14 0.48
10 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:20486423 original size:19 final size:20
Alignment explanation
Indices: 20486399--20486438 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
20486389 AATAAAAGTT
*
20486399 ATAAAAATAT-TAAATATTA
1 ATAAAAATATAAAAATATTA
20486418 ATAAAAATATAAAAATATTA
1 ATAAAAATATAAAAATATTA
20486438 A
1 A
20486439 AAATTAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAATATAAAAATATTA
Found at i:20486428 original size:27 final size:27
Alignment explanation
Indices: 20486385--20486461 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
20486375 AAAAAAATAT
*
20486385 AATTAATAAAAGTTATAAAAATATTAAA
1 AATTAATAAAA-ATATAAAAATATTAAA
*
20486413 TATTAATAAAAATATAAAAATATTAAA
1 AATTAATAAAAATATAAAAATATTAAA
20486440 AATTAGGA-AAAAATATAAAAAT
1 AATTA--ATAAAAATATAAAAAT
20486462 CGTAGAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 19 0.43
28 24 0.55
29 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (27 bp):
AATTAATAAAAATATAAAAATATTAAA
Found at i:20486488 original size:18 final size:18
Alignment explanation
Indices: 20486428--20486529 Score: 69
Period size: 19 Copynumber: 5.3 Consensus size: 18
20486418 ATAAAAATAT
* *
20486428 AAAAATATTAAAAATTAGGA
1 AAAAATA-TAAAAA-TCGTA
20486448 AAAAATATAAAAATCGTA
1 AAAAATATAAAAATCGTA
*
20486466 GAAAAATATAAAATATTGTA
1 -AAAAATATAAAA-ATCGTA
** *
20486486 AAATTTTATAAAAATCATA
1 AAA-AATATAAAAATCGTA
* *
20486505 AAAACTTATAAAAATGCATA
1 AAAA-ATATAAAAAT-CGTA
20486525 AAAAA
1 AAAAA
20486530 CCCCTTTAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
18 3 0.04
19 38 0.56
20 27 0.40
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAATATAAAAATCGTA
Found at i:20486518 original size:10 final size:9
Alignment explanation
Indices: 20486385--20486519 Score: 80
Period size: 10 Copynumber: 14.3 Consensus size: 9
20486375 AAAAAAATAT
20486385 AATTAATAAA
1 AATT-ATAAA
*
20486395 AGTTATAAA
1 AATTATAAA
20486404 AA-TATTAAA
1 AATTA-TAAA
*
20486413 TATTAATAAA
1 AATT-ATAAA
20486423 AA-TATAAA
1 AATTATAAA
20486431 AA-TATTAAA
1 AATTA-TAAA
*
20486440 AATTAGGAAA
1 AATTA-TAAA
*
20486450 AAATATAAA
1 AATTATAAA
*
20486459 AATCGTAGAAA
1 AAT--TATAAA
20486470 AA-TATAAA
1 AATTATAAA
*
20486478 ATATTGTAAA
1 A-ATTATAAA
*
20486488 ATTTTATAAA
1 A-ATTATAAA
*
20486498 AATCATAAA
1 AATTATAAA
20486507 AACTTATAAA
1 AA-TTATAAA
20486517 AAT
1 AAT
20486520 GCATAAAAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 21
0.72 0.12 0.15
Matches are distributed among these distances:
8 17 0.17
9 33 0.34
10 40 0.41
11 8 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:20486518 original size:47 final size:47
Alignment explanation
Indices: 20486397--20486528 Score: 119
Period size: 47 Copynumber: 2.7 Consensus size: 47
20486387 TTAATAAAAG
*
20486397 TTATAAAAATATTAAATA-TTAATAAAAATATAAAAATATTAAAAATTA
1 TTATAAAAATA-TAAAAACTT-ATAAAAATATAAAAATATTAAAAATTA
** * * *
20486445 GGA-AAAAATATAAAAATCGTAGAAAAATAT-AAAATATTGTAAAATT-
1 TTATAAAAATATAAAAA-CTTATAAAAATATAAAAATATT-AAAAATTA
20486491 TTATAAAAATCATAAAAACTTATAAAAATGCATAAAAA
1 TTATAAAAAT-ATAAAAACTTATAAAAAT--ATAAAAA
20486529 ACCCCTTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
46 14 0.21
47 37 0.56
48 9 0.14
49 2 0.03
50 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (47 bp):
TTATAAAAATATAAAAACTTATAAAAATATAAAAATATTAAAAATTA
Found at i:20487137 original size:88 final size:86
Alignment explanation
Indices: 20486984--20487189 Score: 240
Period size: 90 Copynumber: 2.4 Consensus size: 86
20486974 AATTAAATGC
* ** *
20486984 AAAAAAAGTAGGGGCTTAATTACTTTTTTGAAAAAGTTTCAGGGCCTTTTTTTATGCATTTTGAA
1 AAAAAAAGTAGGGGCTTAATTGCTTTTTT-TTAAAGTTTCAGGG-CTTTTTTTATGCATTGTGAA
*
20487049 AGTTCAAGTAC-CAATTGAGTGCAAA
64 AGTTCAAGTACTCAAGTGAGTG---A
* *
20487074 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTAAAGTTTGAGGG-TTTTTTTGATGGATTGTGAAA
1 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTAAAGTTTCAGGGCTTTTTTT-ATGCATTGTGAAA
*
20487138 GTTGAAGTACTCAAGTGAGTGA
65 GTTCAAGTACTCAAGTGAGTGA
*
20487160 AAAAAAAG--GGGACTTAATTGCTTATTTTTT
1 AAAAAAAGTAGGGGCTTAATTGCTT-TTTTTT
20487190 TTAAAAAAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
84 14 0.13
85 6 0.06
86 9 0.09
87 7 0.07
88 20 0.19
89 20 0.19
90 28 0.27
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (86 bp):
AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTAAAGTTTCAGGGCTTTTTTTATGCATTGTGAAAG
TTCAAGTACTCAAGTGAGTGA
Found at i:20488802 original size:42 final size:42
Alignment explanation
Indices: 20488738--20488969 Score: 222
Period size: 43 Copynumber: 5.5 Consensus size: 42
20488728 CATGGAATAA
* * ** * *
20488738 AAAGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGAATCT-
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGTG
* *
20488779 AAAGGTGGTTGCTATGTGCTGATTTCACCC-TATCTTTGATTGTG
1 AAAGG-GGTTGCTATGTGCTGA-TTC-CCCGTATCATTGAATGTG
*
20488823 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATAT-
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGTG
* * *
20488864 AAAGGTGGTTGCTAGGTGCTGATTCCACCGTATCCTTGATTGTG
1 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGAATGTG
* * *
20488908 AAAGGGGTTGCTATGTGCTGATTTCCTGTATCACTGAAT-T-
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGTG
* *
20488948 TAAGGTGGTTGCTAAGTGCTGA
1 AAAGG-GGTTGCTATGTGCTGA
20488970 ATCCATCGAG
Statistics
Matches: 160, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
40 4 0.03
41 29 0.18
42 56 0.35
43 58 0.36
44 13 0.08
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (42 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGTG
Found at i:20488848 original size:85 final size:85
Alignment explanation
Indices: 20488738--20488974 Score: 305
Period size: 85 Copynumber: 2.8 Consensus size: 85
20488728 CATGGAATAA
* * * * *
20488738 AAAGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGAATCTAAAGGTGGTTGCTATGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCAAATCATTGAATATAAAGGTGGTTGCTAGGTGCTGATT
* *
20488803 TCACCCTATCTTTGATTGTG
66 CCACCCTATCCTTGATTGTG
**
20488823 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAGGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCAAATCATTGAATATAAAGGTGGTTGCTAGGTGCTGATT
*
20488888 CCACCGTATCCTTGATTGTG
66 CCACCCTATCCTTGATTGTG
* *** * * * *
20488908 AAAGGGGTTGCTATGTGCTGATTTCCTGTATCACTGAAT-TTAAGGTGGTTGCTAAGTGCTGAAT
1 AAAGGGGTTGCTATGTGCTGATTCCCCAAATCATTGAATATAAAGGTGGTTGCTAGGTGCTGATT
20488972 CCA
66 CCA
20488975 TCGAGTAACG
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 25 0.18
85 111 0.82
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (85 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCAAATCATTGAATATAAAGGTGGTTGCTAGGTGCTGATT
CCACCCTATCCTTGATTGTG
Found at i:20491993 original size:33 final size:33
Alignment explanation
Indices: 20491935--20492051 Score: 136
Period size: 34 Copynumber: 3.5 Consensus size: 33
20491925 TTTTGGTAAG
20491935 TTTAGGGTTTTTTAAAAAATTAATTAAATTAGGT
1 TTTAGGG-TTTTTAAAAAATTAATTAAATTAGGT
*
20491969 TTTTGGG-TTTTAAATAAATTAATTAAATTAAGG-
1 TTTAGGGTTTTTAAA-AAATTAATTAAATT-AGGT
*
20492002 ATTAGGGTTTTTAAGAAAATTAATTAAATTATGG-
1 TTTAGGGTTTTTAA-AAAATTAATTAAATTA-GGT
20492036 TTTA--GTTTTTAAAAAA
1 TTTAGGGTTTTTAAAAAA
20492052 AAATAAATTT
Statistics
Matches: 74, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
31 4 0.05
32 15 0.20
33 20 0.27
34 34 0.46
35 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTAGGGTTTTTAAAAAATTAATTAAATTAGGT
Found at i:20492269 original size:125 final size:125
Alignment explanation
Indices: 20492111--20492381 Score: 361
Period size: 125 Copynumber: 2.2 Consensus size: 125
20492101 AACTTTTGTT
** *
20492111 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAGATAATGT-AAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTGAACAA-ATAATGTCAAA
* *
20492174 AA-GCACTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCATATGGACGCTC
64 AATG--CTTCAAGCAGGATACACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCACATGGACGCTC
* **
20492237 TTTTTCTATAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATGGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAATGTCAAAAA
* * * *
20492302 TGCTTCAAGCAGGATACATTGTCAGTAAAATTGATGAAAAAAGCTCCCACGTGGACGCTG
66 TGCTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
20492362 TTTTTCTACAGTAGTTCCTA
1 TTTTTCTACAGTAGTTCCTA
20492382 TTTGGCCTTA
Statistics
Matches: 128, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
125 103 0.80
126 24 0.19
127 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAATGTCAAAAA
TGCTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
Found at i:20497518 original size:531 final size:533
Alignment explanation
Indices: 20496513--20497577 Score: 2116
Period size: 531 Copynumber: 2.0 Consensus size: 533
20496503 CAACATCCAT
20496513 GATTTAATTCCTTGACAACCTTGCGAACTAGAAGAACCCGACTCAAATCAACGACCTCAACTATA
1 GATTTAATTCCTTGACAACCTTGCGAACTAGAAGAACCCGACTCAAATCAACGACCTCAACTATA
20496578 CGAATTGTTTAAACTTGATTGTTAACTCCTTTGATAGATCCAACCACTTACTCAATTGGTCACAT
66 CGAATTGTTTAAACTTGATTGTTAACTCCTTTGATAGATCCAACCACTTACTCAATTGGTCACAT
20496643 CAATTTATTTTTTAGTGAAAAAAATACGATAATTATGGATCATATCAATTCACCAATTGTATGTT
131 CAATTTATTTTTTAGTGAAAAAAATACGATAATTATGGATCATATCAATTCACCAATTGTATGTT
20496708 GTCCAACATTGAAATGATAGGCGCTCTTTTCAATTTGATGCTAAAATAACGTTGTGAGATGATTG
196 GTCCAACATTGAAATGATAGGCGCTCTTTTCAATTTGATGCTAAAATAACGTTGTGAGATGATTG
20496773 AATTTATCTCATAATTAGAGAATTAACGAATACCAAAATGAAAAATATAAGTATGAATTCAAGTC
261 AATTTATCTCATAATTAGAGAATTAACGAATACCAAAATGAAAAATATAAGTATGAATTCAAGTC
20496838 TCATGATGCAAACATTGAATTAATTATCTTCCTAAAGCTAATTTAAATCTAACTACTCATAAACA
326 TCATGATGCAAACATTGAATTAATTATCTTCCTAAAGCTAATTTAAATCTAACTACTCATAAACA
20496903 ATGGAAAAAAAATTAAAAGAGAAATCTTATTGAAATAAAACAAAACAAAAACAATTGGACTGGAC
391 ATGGAAAAAAAATTAAAAGAGAAATCTTATTGAAATAAAACAAAACAAAAACAATTGGACTGGAC
20496968 TGGTTGTTTGCAAAGTTGTGGTATATAGTAATGCAAATATGAATGGCAAAGCTTAGAAGATGATA
456 TGGTTGTTTGCAAAGTTGTGGTATATAGTAATGCAAATATGAATGGCAAAGCTTAGAAGATGATA
20497033 TGCATATAATCTA
521 TGCATATAATCTA
20497046 GATTTAATTCCTTGACAACCTTGCGAACTAGAAGAACCCGACTCAAATCAACGACCTCAACTATA
1 GATTTAATTCCTTGACAACCTTGCGAACTAGAAGAACCCGACTCAAATCAACGACCTCAACTATA
20497111 CGAATTGTTTAAACTTGATTGTTAACTCCTTTGATAGATCCAACCACTTACTCAATTGGTCACAT
66 CGAATTGTTTAAACTTGATTGTTAACTCCTTTGATAGATCCAACCACTTACTCAATTGGTCACAT
20497176 CAATTTATTTTTTAGTG-AAAAAATACGATAATTATGGATCATATCAATTCACCAATTGTATGTT
131 CAATTTATTTTTTAGTGAAAAAAATACGATAATTATGGATCATATCAATTCACCAATTGTATGTT
20497240 GTCCAACATTGAAATGATAGGCGCTCTTTTCAATTTGATGCTAAAATAACGTTGTGAGATGATTG
196 GTCCAACATTGAAATGATAGGCGCTCTTTTCAATTTGATGCTAAAATAACGTTGTGAGATGATTG
20497305 AATTTATCTCATAATTAGAGAATTAACGAATACCAAAATG-AAAATATAAGTATGAATTCAAGTC
261 AATTTATCTCATAATTAGAGAATTAACGAATACCAAAATGAAAAATATAAGTATGAATTCAAGTC
20497369 TCATGATGCAAACATTGAATTAATTATCTTCCTAAAGCTAATTTAAATCTAACTACTCATAAACA
326 TCATGATGCAAACATTGAATTAATTATCTTCCTAAAGCTAATTTAAATCTAACTACTCATAAACA
20497434 ATGGAAAAAAAATTAAAAGAGAAATCTTATTGAAATAAAACAAAACAAAAACAATTGGACTGGAC
391 ATGGAAAAAAAATTAAAAGAGAAATCTTATTGAAATAAAACAAAACAAAAACAATTGGACTGGAC
20497499 TGGTTGTTTGCAAAGTTGTGGTATATAGTAATGCAAATATGAATGGCAAAGCTTAGAAGATGATA
456 TGGTTGTTTGCAAAGTTGTGGTATATAGTAATGCAAATATGAATGGCAAAGCTTAGAAGATGATA
20497564 TGCATATAATCTA
521 TGCATATAATCTA
20497577 G
1 G
20497578 CTTATGGTAT
Statistics
Matches: 532, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
531 233 0.44
532 152 0.29
533 147 0.28
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (533 bp):
GATTTAATTCCTTGACAACCTTGCGAACTAGAAGAACCCGACTCAAATCAACGACCTCAACTATA
CGAATTGTTTAAACTTGATTGTTAACTCCTTTGATAGATCCAACCACTTACTCAATTGGTCACAT
CAATTTATTTTTTAGTGAAAAAAATACGATAATTATGGATCATATCAATTCACCAATTGTATGTT
GTCCAACATTGAAATGATAGGCGCTCTTTTCAATTTGATGCTAAAATAACGTTGTGAGATGATTG
AATTTATCTCATAATTAGAGAATTAACGAATACCAAAATGAAAAATATAAGTATGAATTCAAGTC
TCATGATGCAAACATTGAATTAATTATCTTCCTAAAGCTAATTTAAATCTAACTACTCATAAACA
ATGGAAAAAAAATTAAAAGAGAAATCTTATTGAAATAAAACAAAACAAAAACAATTGGACTGGAC
TGGTTGTTTGCAAAGTTGTGGTATATAGTAATGCAAATATGAATGGCAAAGCTTAGAAGATGATA
TGCATATAATCTA
Found at i:20499885 original size:3 final size:3
Alignment explanation
Indices: 20499872--20499995 Score: 232
Period size: 3 Copynumber: 41.7 Consensus size: 3
20499862 AATGAAATTT
*
20499872 GAA GAA G-A GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20499919 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20499967 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
20499996 GGAGGAGGAG
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 116 0.98
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20500860 original size:9 final size:9
Alignment explanation
Indices: 20500846--20500891 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
20500836 TATTGGCATG
20500846 TTATTTTTA
1 TTATTTTTA
20500855 TTATTTTTA
1 TTATTTTTA
20500864 TTATTTTAATA
1 TTATTTT--TA
*
20500875 TAATTTTTA
1 TTATTTTTA
20500884 TTATTTTT
1 TTATTTTT
20500892 TATGTAGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 25 0.76
11 8 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTTTTA
Found at i:20500868 original size:29 final size:28
Alignment explanation
Indices: 20500816--20500891 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
20500806 AATTTATGTT
*
20500816 ATGTT-TTTGTTA-TATTTTTATATTGGC
1 ATGTTATTT-TTATTATTTTTATATTGGA
**
20500843 ATGTTATTTTTATTATTTTTATTATTTTA
1 ATGTTATTTTTATTATTTTTA-TATTGGA
* *
20500872 ATATAATTTTTATTATTTTT
1 ATGTTATTTTTATTATTTTT
20500892 TATGTAGGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 8 0.20
28 11 0.27
29 22 0.54
ACGTcount: A:0.24, C:0.01, G:0.07, T:0.68
Consensus pattern (28 bp):
ATGTTATTTTTATTATTTTTATATTGGA
Found at i:20505870 original size:21 final size:20
Alignment explanation
Indices: 20505846--20505884 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
20505836 TTTTATCATC
*
20505846 TTTAATTATTTCTCTTTTCAG
1 TTTAATCATTT-TCTTTTCAG
*
20505867 TTTAGTCATTTTCTTTTC
1 TTTAATCATTTTCTTTTC
20505885 TTAAATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTAATCATTTTCTTTTCAG
Found at i:20510902 original size:19 final size:18
Alignment explanation
Indices: 20510863--20510899 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20510853 CATTTATATG
20510863 TGTTAAATTGATTTTTTT
1 TGTTAAATTGATTTTTTT
20510881 TGTTAAATTGATTTTTTT
1 TGTTAAATTGATTTTTTT
20510899 T
1 T
20510900 TGTGAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (18 bp):
TGTTAAATTGATTTTTTT
Found at i:20512725 original size:12 final size:12
Alignment explanation
Indices: 20512707--20512743 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
20512697 TTGGGGCATA
20512707 CGAGCTAGAGCC
1 CGAGCTAGAGCC
*
20512719 TGAGCTAGAGCC
1 CGAGCTAGAGCC
*
20512731 CGAGCTATAGCC
1 CGAGCTAGAGCC
20512743 C
1 C
20512744 AAGCGGTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.30, T:0.14
Consensus pattern (12 bp):
CGAGCTAGAGCC
Found at i:20513541 original size:48 final size:48
Alignment explanation
Indices: 20513196--20513517 Score: 484
Period size: 48 Copynumber: 6.7 Consensus size: 48
20513186 TAATTGCAAT
* * ** * *
20513196 ATTAAAACTCGGAACAAATTTTGTGGTCATAAATTAGATTA-ATTGCAAC
1 ATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTA-AATACATTACAAC
*
20513245 ATTAAAACTTGGAACAAACTTTGTAGTATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
20513293 ATTAAAACTTGGAACAAACTTTGTAATATAAGTTAAATAAATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
20513341 ATTAAAACTTGGAACAAACTCTATAATATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
20513389 ATTAAAACTTGGAACAAACTTTTTAATATAAGTTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
20513437 ATTAAAACTTGGAACAAACTCTATAATATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
20513485 ATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 ATTAAAACTTGGAACAAACTTTGTAATATAAAT
20513518 GAGGTACATT
Statistics
Matches: 252, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
47 3 0.01
48 225 0.89
49 24 0.10
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.31
Consensus pattern (48 bp):
ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
Found at i:20516726 original size:30 final size:31
Alignment explanation
Indices: 20516687--20516746 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20516677 GGAGGTGGGA
*
20516687 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
20516718 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
20516747 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:20516974 original size:9 final size:9
Alignment explanation
Indices: 20516960--20516996 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20516950 TATAGTTTGA
20516960 TATTCGAAT
1 TATTCGAAT
20516969 TATTCGAAT
1 TATTCGAAT
*
20516978 TATTCGAGT
1 TATTCGAAT
*
20516987 TATTCAAAT
1 TATTCGAAT
20516996 T
1 T
20516997 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20517067 original size:9 final size:9
Alignment explanation
Indices: 20517050--20517080 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20517040 TCGAGTTGAT
20517050 TCGAATAAC
1 TCGAATAAC
*
20517059 TCGATTAAC
1 TCGAATAAC
20517068 TCGAATAAC
1 TCGAATAAC
20517077 TCGA
1 TCGA
20517081 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:20518487 original size:23 final size:24
Alignment explanation
Indices: 20518446--20518490 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20518436 AAATCACAAT
**
20518446 AAAAAAATAACTTTAAAACAAAAC
1 AAAAAAATAACACTAAAACAAAAC
20518470 AAAAAAATAACACT-AAACAAA
1 AAAAAAATAACACTAAAACAAA
20518491 CTATATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (24 bp):
AAAAAAATAACACTAAAACAAAAC
Found at i:20519103 original size:15 final size:15
Alignment explanation
Indices: 20519083--20519112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20519073 ACTTAGACCC
*
20519083 ATTAAACCCCAAATT
1 ATTAAACCCAAAATT
20519098 ATTAAACCCAAAATT
1 ATTAAACCCAAAATT
20519113 CAAGCCCAAA
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:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTAAACCCAAAATT
Found at i:20520905 original size:40 final size:40
Alignment explanation
Indices: 20520849--20520948 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
20520839 AATATATTTA
* * *
20520849 TTTTTTAATTTAAAAATATTTTTTTACATAC-TTTTTTAAT
1 TTTTTTAATTTTAAAATA-TTTTTAAAATACATTTTTTAAT
20520889 TTTTTTAATTTTAAAATATTTTTAAAATACATTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACATTTTTTAAT
*
20520929 TTTTTAAAATTTTTAAAATA
1 TTTTT-TAA-TTTTAAAATA
20520949 AAAAATGGGC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
39 10 0.19
40 31 0.58
41 2 0.04
42 10 0.19
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACATTTTTTAAT
Found at i:20520927 original size:31 final size:31
Alignment explanation
Indices: 20520889--20520948 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
20520879 CTTTTTTAAT
20520889 TTTTTTAA-TTTTAAAATATTTTTAAAATACA
1 TTTTTTAATTTTTAAAA-ATTTTTAAAATACA
*
20520920 TTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTAATTTTTAAAAATTTTTAAAATA
20520949 AAAAATGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTTTTAATTTTTAAAAATTTTTAAAATACA
Found at i:20523365 original size:39 final size:43
Alignment explanation
Indices: 20523322--20523405 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
20523312 TATACATGTC
*
20523322 TATACTTCAT-TTTCATAA-ATA-CTTATATATATAC-TTACA
1 TATACTTCATATTTCAAAATATATCTTATATATATACTTTACA
* *
20523361 TATACTTTATACTTTCAAAATATATCTTATATATATTCTTTACA
1 TATACTTCATA-TTTCAAAATATATCTTATATATATACTTTACA
20523405 T
1 T
20523406 TTTATGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.24
41 7 0.19
42 3 0.08
43 12 0.32
44 6 0.16
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (43 bp):
TATACTTCATATTTCAAAATATATCTTATATATATACTTTACA
Found at i:20536029 original size:50 final size:49
Alignment explanation
Indices: 20535909--20536286 Score: 196
Period size: 50 Copynumber: 7.6 Consensus size: 49
20535899 GCAGCGGAAT
*
20535909 AGATTGAAGCTACAACAGCGGATCTCACTTCCCTAACATTGCAATCAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCAATCAAA
* * * * * * *
20535958 AGATTGAAGCCACAACGGCGGATCTTACTTCCC-AGGCGTTGTAGTGGAACA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-ACATTGCAAT-CAA-A
* * *
20536009 A-ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCA-ATCAAA
* * * * * * * *
20536058 GGATCGAAGCCACAACGGCGAATCTTACTT-TC-AGGCGA-TGCAA-CGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-AC-ATTGCAATC--AAA
* * * **
20536107 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCAA-TCAAA
* * * ** * * * * * *
20536157 AGATTGAGGCCACAACGGCAAATCTTACTTTCCTAGCATTACAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCAAT-CAAA
* ** ** *
20536207 AGATTGAAGCTACAA-AGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACA-GCGGATCTTACTTCCCTAACATTGCAATCAAA
* * *
20536256 AGATTGAGGCCACAAC-GGGGAATCTTACTTC
1 AGATTGAAGCTACAACAGCGG-ATCTTACTTC
20536287 TCAGGTGATG
Statistics
Matches: 243, Mismatches: 67, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
48 3 0.01
49 96 0.40
50 140 0.58
51 3 0.01
52 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (49 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCAATCAAA
Found at i:20536038 original size:99 final size:99
Alignment explanation
Indices: 20535846--20536380 Score: 578
Period size: 99 Copynumber: 5.4 Consensus size: 99
20535836 TAACCATAGT
* * * *
20535846 TTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCGGAATAG
1 TTGCAA-TTAAAAGATTGAGGCCACAACGGCGAATCTTAC-TTCTCAGGCGATGCAGCGGAACAG
* **
20535911 ATTGAAGCTACAACAGCGGATCTCACTTCCCTAACA
64 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * * * *
20535947 TTGCAATCAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCAGGCGTTGTAGTGGAACAAAT
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* * *
20536012 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
20536046 TTGCAGTTTAAAGGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGATGCAACGGAACAGA
1 TTGCA-ATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGA
*
20536110 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
20536145 TTGCAATTCAAAAGATTGAGGCCACAACGGCAAATCTTACTT-TCCTA-GC-ATTACAGTGGAAC
1 TTGCAATT-AAAAGATTGAGGCCACAACGGCGAATCTTACTTCT-C-AGGCGA-TGCAGCGGAAC
*
20536207 AGATTGAAGCTACAA-AGGCGAATCTCGCTTCCCCGACA
62 AGATTGAAGCTACAACA-GCGAATCTCACTTCCCCGACA
* *
20536245 TTGCAATTAAAAGATTGAGGCCACAACGGGGAATCTTACTTCTCAGGTGATGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
* ** ** * *
20536310 TGAAGCTACGATGGCGAATCTTGCTTTCCCGATA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
20536344 TTACAACT-AAAGATTGAAGCCGCAACGTCGAATCTTA
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTA
20536381 TTTCCTCGGC
Statistics
Matches: 370, Mismatches: 54, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
98 28 0.08
99 219 0.59
100 116 0.31
101 7 0.02
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:20536260 original size:149 final size:148
Alignment explanation
Indices: 20535846--20536286 Score: 392
Period size: 149 Copynumber: 3.0 Consensus size: 148
20535836 TAACCATAGT
* * * ** *
20535846 TTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCGGAATAG
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTC-CTAGCATTGCAGTGGAA-AG
*
20535911 ATTGAAGCTACAACA-GCGGATCTCACTTCCCTA-ACATTGCAATCAAAAGATTGAAGCCACAAC
64 ATTGAAGCTACAA-AGGCGAATCTCACTTCCC-AGACATTGCAATCAAAAGATTGAAGCCACAAC
* * *
20535974 GGCGGATCTTACTTCCCAGGCG
127 GGCGAATCTTACTTCCCAGACA
* * ** * * * * * **
20535996 TTGTAGTGGAACAA-ATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAGTTTAAAG
1 TTGCAATTCAA-AAGATTGAGGCCACAACGGCGAATCTTACTTTCCTAG-CATTGCAGTGGAAA-
* * * * * * * *
20536059 GATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGA-TGCAA-CGGAACAGATTGAAGCTACA
63 GATTGAAGCTACAAAGGCGAATCTCACTTCCCAGAC-ATTGCAATC--AAAAGATTGAAGCCACA
* *
20536121 ACGGCGAATCTCACTTCCCCGACA
125 ACGGCGAATCTTACTTCCCAGACA
* *
20536145 TTGCAATTCAAAAGATTGAGGCCACAACGGCAAATCTTACTTTCCTAGCATTACAGTGGAACAGA
1 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAA-AGA
* * * * *
20536210 TTGAAGCTACAAAGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGG
65 TTGAAGCTACAAAGGCGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGC
20536275 GAATCTTACTTC
130 GAATCTTACTTC
20536287 TCAGGTGATG
Statistics
Matches: 220, Mismatches: 57, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
147 2 0.01
148 11 0.05
149 164 0.75
150 41 0.19
151 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (148 bp):
TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAAAGAT
TGAAGCTACAAAGGCGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGCG
AATCTTACTTCCCAGACA
Found at i:20536310 original size:149 final size:147
Alignment explanation
Indices: 20535858--20536338 Score: 364
Period size: 149 Copynumber: 3.2 Consensus size: 147
20535848 GCAATTTAAA
* * ** *
20535858 AGATTGAGGCCACAACGACGAATCTTACTTTCTCAAGCGGTGCAGCGGAATAGATTGAAGCTACA
1 AGATTGAGGCCACAACGGCGAATCTTACTTTC-CTAGCATTGCAGTGGAA-AGATTGAAGCTACA
*
20535923 ACA-GCGGATCTCACTTCCCTA-ACATTGCAATCAAAAGATTGAAGCCACAACGGCGG-ATCTTA
64 A-AGGCGAATCTCACTTCCC-AGACATTGCAATCAAAAGATTGAAGCCACAACGG-GGAATCTTA
* * *
20535985 CTTCCCAGGCGTTGTAGTGGAAC
126 CTT-CCAGGAGATGCAGTGGAAC
* * * * * * ** * *
20536008 AAATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAGTTTAAAGGATCGAAGCCACA
1 AGATTGAGGCCACAACGGCGAATCTTACTTTCCTAG-CATTGCAGTGGAAA-GATTGAAGCTACA
* * * * * * * *
20536072 ACGGCGAATCTTACTT-TCAGGCGA-TGCAA-CGGAACAGATTGAAGCTACAACGGCGAATCTCA
64 AAGGCGAATCTCACTTCCCAGAC-ATTGCAATC--AAAAGATTGAAGCCACAACGGGGAATCTTA
** * * ** *
20536134 CTTCCCCGACATTGCAATTCAAA
126 CTTCCAGGAGA-TGCAGTGGAAC
* *
20536157 AGATTGAGGCCACAACGGCAAATCTTACTTTCCTAGCATTACAGTGGAACAGATTGAAGCTACAA
1 AGATTGAGGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAA-AGATTGAAGCTACAA
* * * *
20536222 AGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGGGAATCTTACTTC
65 AGGCGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGGGAATCTTACTTC
* *
20536287 TCAGGTGATGCAGCGGAAC
130 -CAGGAGATGCAGTGGAAC
* * * * *
20536306 AGATTGAAGCTACGATGGCGAATCTTGCTTTCC
1 AGATTGAGGCCACAACGGCGAATCTTACTTTCC
20536339 CGATATTACA
Statistics
Matches: 243, Mismatches: 73, Indels: 31
0.70 0.21 0.09
Matches are distributed among these distances:
147 2 0.01
148 13 0.05
149 190 0.78
150 38 0.16
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (147 bp):
AGATTGAGGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAAAGATTGAAGCTACAAA
GGCGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGGGAATCTTACTTCC
AGGAGATGCAGTGGAAC
Found at i:20537918 original size:41 final size:40
Alignment explanation
Indices: 20537789--20537935 Score: 145
Period size: 41 Copynumber: 3.6 Consensus size: 40
20537779 ATTTAAACAG
* * * * * *
20537789 ATTCACTGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTT
1 ATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT
* *
20537829 AGTACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGT
1 A-TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-T
*
20537872 A-TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATT
1 ATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT
*
20537911 ACTTCACCGGCATTAAGCCTACTAG
1 A-TTCACCGGCATTAAGCCTGCTAG
20537936 GTACATAACC
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.07
41 75 0.84
42 4 0.04
43 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
ATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT
Found at i:20537949 original size:41 final size:40
Alignment explanation
Indices: 20537873--20537950 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
20537863 CTGAAATGTA
* **
20537873 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTACT
1 TCACCGGCATTAAGCCTACTAGA-GTAAAACCTGAATTACT
20537914 TCACCGGCATTAAGCCTACTAG-GTACATAACCTGAAT
1 TCACCGGCATTAAGCCTACTAGAGTA-A-AACCTGAAT
20537951 AGCATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 3 0.09
40 1 0.03
41 28 0.88
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTACTAGAGTAAAACCTGAATTACT
Found at i:20539696 original size:13 final size:13
Alignment explanation
Indices: 20539678--20539702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20539668 CAATCAAATG
20539678 CACACAAAATAAA
1 CACACAAAATAAA
20539691 CACACAAAATAA
1 CACACAAAATAA
20539703 TATTAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:20544966 original size:17 final size:17
Alignment explanation
Indices: 20544933--20544967 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20544923 AGTCTACAGC
20544933 AATATTAAATATATATA
1 AATATTAAATATATATA
20544950 AATATATAAATAT-TATA
1 AATAT-TAAATATATATA
20544967 A
1 A
20544968 CCTTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATTAAATATATATA
Found at i:20545770 original size:41 final size:40
Alignment explanation
Indices: 20545641--20545787 Score: 145
Period size: 41 Copynumber: 3.6 Consensus size: 40
20545631 ATTTAAACAG
* * * * * *
20545641 ATTCACTGGCATTTAGCCTGCTAGGCTTAAAGCCTGATTT
1 ATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT
* * *
20545681 AGTACACCGACACTT-AGCCTGCTAGACATATAGTCTGAAATGT
1 A-TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-T
*
20545724 A-TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATT
1 ATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT
20545763 ACTTCACCGGCATTAAGCCTGCTAG
1 A-TTCACCGGCATTAAGCCTGCTAG
20545788 GTACATAACC
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.07
41 74 0.84
42 4 0.05
43 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
ATTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT
Found at i:20545801 original size:41 final size:40
Alignment explanation
Indices: 20545725--20545802 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
20545715 CTGAAATGTA
**
20545725 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTACT
1 TCACCGGCATTAAGCCTGCTAGA-GTAAAACCTGAATTACT
20545766 TCACCGGCATTAAGCCTGCTAG-GTACATAACCTGAAT
1 TCACCGGCATTAAGCCTGCTAGAGTA-A-AACCTGAAT
20545803 AGCATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.09
40 1 0.03
41 29 0.88
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGAGTAAAACCTGAATTACT
Found at i:20546636 original size:18 final size:18
Alignment explanation
Indices: 20546613--20546654 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
20546603 GCAGACGCAA
20546613 TCGACTATTCGTTTACTT
1 TCGACTATTCGTTTACTT
20546631 TCGACTATTCGTTTACTT
1 TCGACTATTCGTTTACTT
20546649 TCGACT
1 TCGACT
20546655 TTCCCCGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.12, T:0.48
Consensus pattern (18 bp):
TCGACTATTCGTTTACTT
Found at i:20547555 original size:13 final size:13
Alignment explanation
Indices: 20547537--20547561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20547527 CAATCAAATG
20547537 CACACAAAATAAA
1 CACACAAAATAAA
20547550 CACACAAAATAA
1 CACACAAAATAA
20547562 TATTAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:20550658 original size:23 final size:22
Alignment explanation
Indices: 20550632--20550683 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
20550622 TAACATGAAA
20550632 TTAATTGGTAATAAGATTTTAAT
1 TTAATTGGTAA-AAGATTTTAAT
* * *
20550655 TTAATATGTTTAAATATTTTAAT
1 TTAAT-TGGTAAAAGATTTTAAT
20550678 TTAATT
1 TTAATT
20550684 CAAACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 20 0.80
24 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (22 bp):
TTAATTGGTAAAAGATTTTAAT
Found at i:20553525 original size:14 final size:14
Alignment explanation
Indices: 20553506--20553535 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20553496 ATAATTTAAC
*
20553506 TAAAAACTTTTGAA
1 TAAAAACTTTCGAA
20553520 TAAAAACTTTCGAA
1 TAAAAACTTTCGAA
20553534 TA
1 TA
20553536 TGCTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
TAAAAACTTTCGAA
Found at i:20558221 original size:3 final size:3
Alignment explanation
Indices: 20558215--20558254 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
20558205 GATGATGATG
20558215 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20558255 ACCTATACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20565597 original size:22 final size:22
Alignment explanation
Indices: 20565570--20565619 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
20565560 TTATTTCAAT
20565570 ATAATACCAGAAACAAAAGAAA
1 ATAATACCAGAAACAAAAGAAA
*
20565592 ATAATACCAGAGACAAAAGAAA
1 ATAATACCAGAAACAAAAGAAA
*
20565614 ACAATA
1 ATAATA
20565620 GTGAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.66, C:0.14, G:0.10, T:0.10
Consensus pattern (22 bp):
ATAATACCAGAAACAAAAGAAA
Found at i:20566838 original size:61 final size:63
Alignment explanation
Indices: 20566758--20566888 Score: 196
Period size: 61 Copynumber: 2.1 Consensus size: 63
20566748 CTGGCCAATA
*
20566758 GATGGCCGGCACCAAGTACATTTTTCGGGTCCCAACG-CAA-TTTT-TTTTACTTTGGGACACT
1 GATGGCCGACACCAAGTACATTTTTCGGGTCCCAA-GTCAATTTTTCTTTTACTTTGGGACACT
* * *
20566819 GATGGCCGACACTAAGTACATTTTTTGGGTCCCAAGTCAATTTTTCTTTTACTTTGGGACGCT
1 GATGGCCGACACCAAGTACATTTTTCGGGTCCCAAGTCAATTTTTCTTTTACTTTGGGACACT
20566882 GATGGCC
1 GATGGCC
20566889 AGCACCAGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
60 1 0.02
61 35 0.56
62 4 0.06
63 23 0.37
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (63 bp):
GATGGCCGACACCAAGTACATTTTTCGGGTCCCAAGTCAATTTTTCTTTTACTTTGGGACACT
Found at i:20570195 original size:44 final size:44
Alignment explanation
Indices: 20570145--20570296 Score: 261
Period size: 44 Copynumber: 3.5 Consensus size: 44
20570135 TTCTTATTCC
* *
20570145 TAATTTAAAACACGTTAAATTATAATACAATATACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
20570189 TAATTTAAAGA-ACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAA-ACACATTAAATTATAATACAATATACATACATATT
*
20570233 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
20570277 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
20570297 GAAATAAATT
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
43 1 0.01
44 100 0.98
45 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:20570280 original size:22 final size:22
Alignment explanation
Indices: 20570167--20570280 Score: 69
Period size: 22 Copynumber: 5.2 Consensus size: 22
20570157 CGTTAAATTA
*
20570167 TAATACAATATACATGCATATT
1 TAATACAATATACATACATATT
*
20570189 TAATTTA-AAGA-ACATTA-A-ATT
1 TAA--TACAATATACA-TACATATT
20570210 ATAATACAATATACATACATATT
1 -TAATACAATATACATACATATT
* ** * *
20570233 TATTTTAAAACACATTA-A-ATT
1 TAATACAATATACA-TACATATT
20570254 ATAATACAATATACATACATATT
1 -TAATACAATATACATACATATT
20570277 TAAT
1 TAAT
20570281 TTAAAACACA
Statistics
Matches: 67, Mismatches: 13, Indels: 24
0.64 0.12 0.23
Matches are distributed among these distances:
20 2 0.03
21 13 0.19
22 38 0.57
23 12 0.18
24 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.38
Consensus pattern (22 bp):
TAATACAATATACATACATATT
Found at i:20570291 original size:22 final size:22
Alignment explanation
Indices: 20570222--20570291 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
20570212 AATACAATAT
*
20570222 ACATACATATTTATTTTAAAAC
1 ACATACATATTTAATTTAAAAC
** * *
20570244 ACATTA-A-ATTATAATACAATAT
1 ACA-TACATATT-TAATTTAAAAC
20570266 ACATACATATTTAATTTAAAAC
1 ACATACATATTTAATTTAAAAC
20570288 ACAT
1 ACAT
20570292 TAAATGAAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 5 0.14
22 25 0.71
23 5 0.14
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (22 bp):
ACATACATATTTAATTTAAAAC
Found at i:20570369 original size:22 final size:21
Alignment explanation
Indices: 20570344--20570419 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 21
20570334 AAAACGTAAA
20570344 TTAAAATGGCAAGAAAGATAAT
1 TTAAAATGG-AAGAAAGATAAT
* * *
20570366 TTAAATGAAATGAGAAAAAAAAGTAAA
1 TT--A--AAATG-GAAGAAAGA-TAAT
20570393 TTAAAATGGAAAGAAAGATAAT
1 TTAAAATGG-AAGAAAGATAAT
20570415 TTAAA
1 TTAAA
20570420 TGAAATGAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.27
23 11 0.27
24 1 0.02
25 1 0.02
26 11 0.27
27 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.16, T:0.22
Consensus pattern (21 bp):
TTAAAATGGAAGAAAGATAAT
Found at i:20570392 original size:49 final size:48
Alignment explanation
Indices: 20570327--20570665 Score: 463
Period size: 49 Copynumber: 7.1 Consensus size: 48
20570317 AAAAATTAAT
* * * *
20570327 ATGA-AAAAAAACGTAAATTAAAATGGCAAGAAAGATAATTTAAATGAA
1 ATGAGAAAAAAA-TTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
* * *
20570375 ATGAGAAAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAA
1 ATGAG-AAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
* * *
20570424 ATGAGAAAAAAATAAAATTTAAATGGAAAAAAGGACAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
20570472 ATGAG-AAAAAATTAAATTTAAATGGAAAAAAAGAGATAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTAAATGG-AAAAAA-AGATAATTTAAATGAA
*
20570521 ATGAG-AAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATTAA
1 ATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
* *
20570568 ATGAGAAAAAAAATTAAATTTAAATGGAAAGAAACATAATTTAAATGAA
1 ATGAG-AAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
* *
20570617 AT--TAAAAAAATTAAATTTAAATGAAAAAAAAGATAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
20570663 ATG
1 ATG
20570666 GATATGGAAA
Statistics
Matches: 266, Mismatches: 18, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
46 42 0.16
47 39 0.15
48 58 0.22
49 120 0.45
50 7 0.03
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (48 bp):
ATGAGAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAA
Found at i:20570415 original size:21 final size:21
Alignment explanation
Indices: 20570342--20570421 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 21
20570332 AAAAAACGTA
*
20570342 AATTAAAATGGCAAGAAAGAT
1 AATTAAAATGGAAAGAAAGAT
*
20570363 AATTTAAATGAAATGAGAAA-AAAAAGT
1 AA-TT--A--AAATG-GAAAGAAAGA-T
20570390 AAATTAAAATGGAAAGAAAGAT
1 -AATTAAAATGGAAAGAAAGAT
*
20570412 AATTTAAATG
1 AATTAAAATG
20570422 AAATGAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
21 11 0.24
22 7 0.15
23 9 0.20
24 1 0.02
25 1 0.02
26 9 0.20
27 6 0.13
28 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.16, T:0.23
Consensus pattern (21 bp):
AATTAAAATGGAAAGAAAGAT
Found at i:20570505 original size:144 final size:142
Alignment explanation
Indices: 20570331--20570665 Score: 476
Period size: 144 Copynumber: 2.3 Consensus size: 142
20570321 ATTAATATGA
* * * *
20570331 AAAAAAACGTAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGAGAAAAAAAAGTAAATTA
1 AAAAAAA-TTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAG--AAAAAAGTAAATTA
* *
20570396 AAATGGAAAGAAAGATAATTTAAATGAAATGAG-AAAAAAATAAAATTTAAATGGAAA-AAAGGA
63 AAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATAAAATTTAAATGGAAAGAAA-CA
20570459 CAATTTAAATGAAATG
127 CAATTTAAATGAAATG
* *
20570475 AGAAAAAATTAAATTTAAATGGAAAAAAAGAGATAATTTAAATGAAATGAGAAAAAATTAAATTT
1 A-AAAAAATTAAATTTAAATGG-AAAAAA-AGATAATTTAAATGAAATGAGAAAAAAGTAAATTA
* * *
20570540 AAATGGAAAAAAAGATAATTTAAATTAAATGAGAAAAAAAATTAAATTTAAATGGAAAGAAACAT
63 AAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATAAAATTTAAATGGAAAGAAACAC
*
20570605 AATTTAAATGAAATT
128 AATTTAAATGAAATG
*
20570620 AAAAAAATTAAATTTAAATGAAAAAAAAGATAATTTAAATGAAATG
1 AAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
20570666 GATATGGAAA
Statistics
Matches: 173, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
142 19 0.11
143 6 0.03
144 75 0.43
145 49 0.28
146 24 0.14
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (142 bp):
AAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAGTAAATTAAAA
TGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATAAAATTTAAATGGAAAGAAACACAAT
TTAAATGAAATG
Found at i:20570533 original size:21 final size:22
Alignment explanation
Indices: 20570363--20570647 Score: 93
Period size: 26 Copynumber: 12.1 Consensus size: 22
20570353 CAAGAAAGAT
20570363 AATTTAAA-TGAAATGAGAAAAA
1 AATTTAAATTGAAATGAG-AAAA
** *
20570385 AAAGTAAATTAAAATGGAAAGAAAGA
1 AATTTAAATTGAAAT-G--AGAAA-A
20570411 TAATTTAAA-TGAAATGAGAAAA
1 -AATTTAAATTGAAATGAGAAAA
* * * *
20570433 AAATAAAATTTAAATGGAAAAAAGGA
1 AATTTAAATTGAAAT-G-AGAAA--A
20570459 CAATTTAAA-TGAAATGAGAAAA
1 -AATTTAAATTGAAATGAGAAAA
* *
20570481 AA-TTAAATTTAAATGGAAAAAAA
1 AATTTAAATTGAAAT-G-AGAAAA
* *
20570504 GAGATAATTTAAATGAAATGAGAAAA
1 -A-AT--TTAAATTGAAATGAGAAAA
* *
20570530 AA-TTAAATTTAAATGGAAAAAAAGA
1 AATTTAAATTGAAAT-G--AGAAA-A
20570555 TAATTTAAATT-AAATGAGAAAAA
1 -AATTTAAATTGAAATGAG-AAAA
* *
20570578 AAATTAAATTTAAATGGAAAGAAACA
1 AATTTAAATTGAAAT-G--AGAAA-A
*
20570604 TAATTTAAA-TGAAATTA-AAAA
1 -AATTTAAATTGAAATGAGAAAA
* *
20570625 AA-TTAAATTTAAATGAAAAAA
1 AATTTAAATTGAAATGAGAAAA
20570646 AA
1 AA
20570648 GATAATTTAA
Statistics
Matches: 197, Mismatches: 31, Indels: 71
0.66 0.10 0.24
Matches are distributed among these distances:
19 5 0.03
20 13 0.07
21 29 0.15
22 27 0.14
23 23 0.12
24 19 0.10
25 12 0.06
26 33 0.17
27 27 0.14
28 9 0.05
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (22 bp):
AATTTAAATTGAAATGAGAAAA
Found at i:20570537 original size:20 final size:20
Alignment explanation
Indices: 20570512--20570551 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20570502 AAGAGATAAT
20570512 TTAAA-TGAAATGAGAAAAAA
1 TTAAATTGAAATG-GAAAAAA
*
20570532 TTAAATTTAAATGGAAAAAA
1 TTAAATTGAAATGGAAAAAA
20570552 AGATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (20 bp):
TTAAATTGAAATGGAAAAAA
Found at i:20570628 original size:20 final size:20
Alignment explanation
Indices: 20570583--20570646 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
20570573 AAAAAAAATT
20570583 AAATTTAAATGGAAA-GAAACA
1 AAATTTAAAT-GAAATGAAA-A
* *
20570604 TAATTTAAATGAAATTAAAA
1 AAATTTAAATGAAATGAAAA
*
20570624 AAA-TTAAATTTAAATGAAAA
1 AAATTTAAA-TGAAATGAAAA
20570644 AAA
1 AAA
20570647 AGATAATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 19 0.53
21 12 0.33
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAATTTAAATGAAATGAAAA
Found at i:20570654 original size:21 final size:22
Alignment explanation
Indices: 20570379--20570663 Score: 170
Period size: 21 Copynumber: 12.2 Consensus size: 22
20570369 AATGAAATGA
*
20570379 GAAAAAAAAG-TAAATTAAAAT
1 GAAAAAAAAGATAAATTTAAAT
* *
20570400 GGAAAGAAAGAT-AATTTAAAT
1 GAAAAAAAAGATAAATTTAAAT
*
20570421 GAAATGAGAAAAAAATAAAATTTAAAT
1 G-AA--A-AAAAAGAT-AAATTTAAAT
* * *
20570448 GGAAAAAAGGA-CAATTTAAAT
1 GAAAAAAAAGATAAATTTAAAT
*
20570469 GAAATGAGAAAAAATTAAATTTAAAT
1 GAAA--A-AAAAGA-TAAATTTAAAT
20570495 GGAAAAAAAGAGAT-AATTTAAAT
1 -GAAAAAAA-AGATAAATTTAAAT
*
20570518 GAAATGAGAAAAAATTAAATTTAAAT
1 GAAA--A-AAAAGA-TAAATTTAAAT
* *
20570544 GGAAAAAAAGATAATTTAAATTAAAT
1 GAAAAAAAAGAT-A---AATTTAAAT
20570570 GAGAAAAAAA-ATTAAATTTAAAT
1 GA-AAAAAAAGA-TAAATTTAAAT
* * *
20570593 GGAAAGAAACAT-AATTTAAAT
1 GAAAAAAAAGATAAATTTAAAT
*
20570614 GAAATTAAAAAAATTAAATTTAAAT
1 GAAA--AAAAAGA-TAAATTTAAAT
20570639 GAAAAAAAAGAT-AATTTAAAT
1 GAAAAAAAAGATAAATTTAAAT
20570660 GAAA
1 GAAA
20570664 TGGATATGGA
Statistics
Matches: 207, Mismatches: 27, Indels: 60
0.70 0.09 0.20
Matches are distributed among these distances:
21 54 0.26
22 15 0.07
23 42 0.20
24 15 0.07
25 26 0.13
26 33 0.16
27 22 0.11
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (22 bp):
GAAAAAAAAGATAAATTTAAAT
Found at i:20570680 original size:5 final size:5
Alignment explanation
Indices: 20570656--20570712 Score: 69
Period size: 5 Copynumber: 10.6 Consensus size: 5
20570646 AAGATAATTT
*
20570656 AAATG AAATGG ATATGG AAATG AAATG AAATG AAATGG AAATAG AAATG
1 AAATG AAAT-G AAAT-G AAATG AAATG AAATG AAAT-G AAAT-G AAATG
20570705 AAATG AAA
1 AAATG AAA
20570713 AAAGAAGAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 28 0.60
6 19 0.40
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:20570687 original size:27 final size:27
Alignment explanation
Indices: 20570656--20570712 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
20570646 AAGATAATTT
* *
20570656 AAATGAAATGGATATGGAAATGAAATG
1 AAATGAAATGGAAATAGAAATGAAATG
20570683 AAATGAAATGGAAATAGAAATGAAATG
1 AAATGAAATGGAAATAGAAATGAAATG
20570710 AAA
1 AAA
20570713 AAAGAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (27 bp):
AAATGAAATGGAAATAGAAATGAAATG
Found at i:20570710 original size:22 final size:21
Alignment explanation
Indices: 20570656--20570712 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
20570646 AAGATAATTT
*
20570656 AAATGAAATGGATATGGAAATG
1 AAATGAAAT-GAAATGGAAATG
20570678 AAATGAAATGAAATGGAAATAG
1 AAATGAAATGAAATGGAAAT-G
20570700 AAATGAAATGAAA
1 AAATGAAATGAAA
20570713 AAAGAAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (21 bp):
AAATGAAATGAAATGGAAATG
Found at i:20570718 original size:17 final size:17
Alignment explanation
Indices: 20570682--20570718 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
20570672 GAAATGAAAT
* *
20570682 GAAATGAAATGGAAATA
1 GAAATGAAATGAAAAAA
20570699 GAAATGAAATGAAAAAA
1 GAAATGAAATGAAAAAA
20570716 GAA
1 GAA
20570719 GAAGATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.14
Consensus pattern (17 bp):
GAAATGAAATGAAAAAA
Done.