Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 46 of 240
Found at i:15892237 original size:17 final size:17
Alignment explanation
Indices: 15892183--15892240 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 17
15892173 AGAGAAAATT
*
15892183 TTTTTTGAAGACACGAA
1 TTTTTTGAAAACACGAA
** *
15892200 -AATTTCAAAACACGGGAA
1 TTTTTTGAAAACAC--GAA
15892218 TTTTTTGAAAACACGAA
1 TTTTTTGAAAACACGAA
15892235 TTTTTT
1 TTTTTT
15892241 TGAGTATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 9 0.29
17 9 0.29
18 3 0.10
19 10 0.32
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (17 bp):
TTTTTTGAAAACACGAA
Found at i:15892607 original size:24 final size:24
Alignment explanation
Indices: 15892560--15892604 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15892550 AATTGAACCC
* *
15892560 CTTTTTTCTTTTTTCTTTTCTTCT
1 CTTTTTTCCTTCTTCTTTTCTTCT
15892584 CTTTTTTCCTTCTT-TTTTCTT
1 CTTTTTTCCTTCTTCTTTTCTT
15892605 TCTGCTGGGC
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
CTTTTTTCCTTCTTCTTTTCTTCT
Found at i:15892817 original size:17 final size:17
Alignment explanation
Indices: 15892795--15892836 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
15892785 TGAAGATGCT
15892795 GGGTCGGGCCGTCAGTC
1 GGGTCGGGCCGTCAGTC
* * *
15892812 GGGTCGAGTCGTCAGTT
1 GGGTCGGGCCGTCAGTC
15892829 GGGTCGGG
1 GGGTCGGG
15892837 TCAGGTCGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (17 bp):
GGGTCGGGCCGTCAGTC
Found at i:15892888 original size:4 final size:4
Alignment explanation
Indices: 15892881--15892950 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
15892871 TTTTTTATTT
* *
15892881 TTTC TTTC TTTT TCTTC -TTC CTTC TTTC TTTC TTTC TTTC TTCTC TTTTC
1 TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC
*
15892931 TTTC TCTT- TTTT TTTC TTTC
1 TTTC T-TTC TTTC TTTC TTTC
15892951 CCAATCAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
3 5 0.09
4 41 0.73
5 8 0.14
6 2 0.04
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:15892931 original size:26 final size:25
Alignment explanation
Indices: 15892881--15892948 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
15892871 TTTTTTATTT
15892881 TTTCTTTC-TTTTTCTTCTTCCTTC
1 TTTCTTTCTTTTTTCTTCTTCCTTC
*
15892905 TTTCTTTCTTTCTTTCTTC-TCTTTTC
1 TTTCTTTCTTT-TTTCTTCTTC-CTTC
*
15892931 TTTCTCTTTTTTTTTCTT
1 TTTCT-TTCTTTTTTCTT
15892949 TCCCAATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 8 0.21
25 4 0.11
26 21 0.55
27 5 0.13
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCTTTCTTTTTTCTTCTTCCTTC
Found at i:15893110 original size:35 final size:35
Alignment explanation
Indices: 15893060--15893127 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
15893050 ATTTTTCTTC
15893060 TTTTCTCTTTCTTTTTTTT-CTCTTTTGCTTGTTAT
1 TTTTCTCTTTCTTTTTTTTGCT-TTTTGCTTGTTAT
*
15893095 TTTTCTCTCTT-TTTTTTTTGCTTTTTGGTTGTT
1 TTTTCTCT-TTCTTTTTTTTGCTTTTTGCTTGTT
15893128 TTGCTAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.01, C:0.15, G:0.09, T:0.75
Consensus pattern (35 bp):
TTTTCTCTTTCTTTTTTTTGCTTTTTGCTTGTTAT
Found at i:15893550 original size:59 final size:59
Alignment explanation
Indices: 15893434--15893567 Score: 155
Period size: 59 Copynumber: 2.3 Consensus size: 59
15893424 AAACTTTTGG
* * *
15893434 GGTCAAAACATAATTTTGAGAAAGTTTAGGGGTCAAATCGTAATTTTGAGAAAGTTTAGA
1 GGTCAAAATATAA-TTTCAGAAAGTTTAGGGGTCAAATCGTAAATTTGAGAAAGTTTAGA
* * * *
15893494 GGTCAAAATATAATTTCATAATGTTTAGGGGTTGAAAT-GTAAATTTGA-AAATGTTTAGG
1 GGTCAAAATATAATTTCAGAAAGTTTAGGGG-TCAAATCGTAAATTTGAGAAA-GTTTAGA
*
15893553 GGTCAAAATGTAATT
1 GGTCAAAATATAATT
15893568 ACAACTGCCC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
58 3 0.05
59 44 0.69
60 17 0.27
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (59 bp):
GGTCAAAATATAATTTCAGAAAGTTTAGGGGTCAAATCGTAAATTTGAGAAAGTTTAGA
Found at i:15893562 original size:30 final size:30
Alignment explanation
Indices: 15893432--15893565 Score: 130
Period size: 30 Copynumber: 4.5 Consensus size: 30
15893422 CAAAACTTTT
** *
15893432 GGGGTCAAAACATAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAAATTTGAGAAAGTTTA
*
15893462 GGGGTC-AAATCGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAAT-GTAAATTTGAGAAAGTTTA
* * * * *
15893492 GAGGTCAAAATAT-AATTTCATAATGTTTA
1 GGGGTCAAAATGTAAATTTGAGAAAGTTTA
**
15893521 GGGGTTGAAATGTAAATTTGA-AAATGTTTA
1 GGGGTCAAAATGTAAATTTGAGAAA-GTTTA
15893551 GGGGTCAAAATGTAA
1 GGGGTCAAAATGTAA
15893566 TTACAACTGC
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
29 26 0.31
30 54 0.64
31 4 0.05
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAATGTAAATTTGAGAAAGTTTA
Found at i:15893962 original size:76 final size:76
Alignment explanation
Indices: 15893691--15894526 Score: 1055
Period size: 76 Copynumber: 10.9 Consensus size: 76
15893681 AGAATAGCTT
* *
15893691 GGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
15893756 AAAAGAATACCTC
66 -AAA-AATACCTC
* * * * *
15893769 GGCATGCGACCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA-ATAAATTT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
15893833 AAAAGAAATACCTC
66 --AA-AAATACCTC
* * *
15893847 GGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGCAATTT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
15893912 AAAAATACCTC
66 AAAAATACCTC
* * *
15893923 GGCGTATGACCCAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACCA-AAATT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATT
*
15893987 GAAAAATACCTC
65 TAAAAATACCTC
* * * *
15893999 AGTGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAA-T
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT
* *
15894063 TGAAAATACCTT
65 TAAAAATACCTC
* * *
15894075 AGC--GTAACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA-AGAAATTT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
*
15894137 AAAAGAAATACATC
66 --AA-AAATACCTC
* * * * *
15894151 GGCATGTGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGCAATTG
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
*
15894216 AAAAATACATC
66 AAAAATACCTC
*
15894227 GGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AATTT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
15894291 GAAAAATACCTC
66 -AAAAATACCTC
* * *
15894303 AGCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAA-T
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT
* *
15894367 TGAAAATCCCTC
65 TAAAAATACCTC
* *
15894379 AGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA-AGAAATTT
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
15894441 AAAAGAAATACCTC
66 --AA-AAATACCTC
* * * * * * *
15894455 GACATGCGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTCAAAAACAGAAATTG
1 GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
15894520 AAAAATA
66 AAAAATA
15894527 TAATTCTTGA
Statistics
Matches: 675, Mismatches: 60, Indels: 48
0.86 0.08 0.06
Matches are distributed among these distances:
72 10 0.01
73 26 0.04
74 77 0.11
75 6 0.01
76 278 0.41
77 44 0.07
78 214 0.32
79 20 0.03
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (76 bp):
GGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT
AAAAATACCTC
Found at i:15894256 original size:304 final size:303
Alignment explanation
Indices: 15893692--15894526 Score: 1323
Period size: 304 Copynumber: 2.7 Consensus size: 303
15893682 GAATAGCTTG
* * * *
15893692 GCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTT
1 GCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAA-TT
* * * * * *
15893756 AAAAGAATACCTCGGCATGCGACCCAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
65 -GAA-AATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGA
*
15893821 AAAAATAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
126 AAAAAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATG
* * *
15893886 AGTTGATTTTTGAAAAATAGCAATTTAAAAATACCTCGGCGTATGACCCAAGCCTCAACTCACCT
190 AGTTGATTTTTGAAAAACAGCAATTGAAAAATACATCGGCGTATGACCCAAGCCTCAACTCACCT
15893951 CTCGCAATATGAGTTGATTTTTGAAAAACCA-AAATTGAAAAATACCTCA
255 CTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATTGAAAAATACCTCA
*
15894000 GTGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTG
1 GCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTG
* *
15894065 AAAATACCTTAGCGTAACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
66 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
* *
15894130 GAAATTTAAAAGAAATACATCGGCATGTGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTG
131 GAAATTTAAAAGAAATACCTCGGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
15894195 ATTTTTGAAAAACAGCAATTGAAAAATACATCGGCGTGTGACCCAAGGCTCAACTCACCTCTCGC
195 ATTTTTGAAAAACAGCAATTGAAAAATACATCGGCGTATGACCCAAGCCTCAACTCACCTCTCGC
*
15894260 AATATGAGTTGATTTTTGAAAAACAGAATTTGAAAAATACCTCA
260 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCA
15894304 GCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTG
1 GCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTG
*
15894369 AAAATCCCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
66 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
* * *
15894434 GAAATTTAAAAGAAATACCTCGACATGCGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTG
131 GAAATTTAAAAGAAATACCTCGGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
15894499 ATTTTTCAAAAACAGAAATTGAAAAATA
195 ATTTTTGAAAAACAGCAATTGAAAAATA
15894527 TAATTCTTGA
Statistics
Matches: 490, Mismatches: 33, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
303 4 0.01
304 417 0.85
306 9 0.02
307 2 0.00
308 42 0.09
309 16 0.03
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (303 bp):
GCGTGTGACCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTG
AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAA
GAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAGCAATTGAAAAATACATCGGCGTATGACCCAAGCCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCA
Found at i:15902951 original size:51 final size:51
Alignment explanation
Indices: 15902884--15903295 Score: 285
Period size: 52 Copynumber: 7.9 Consensus size: 51
15902874 TTGAAACATG
* * * **
15902884 AGAATGTTTTT-AAACACGGGAATTTTT-AAGCACGAATTTTTTTAAAAAAA
1 AGAAAGTTTTTGAAACACGAGAATTTTTGAAACACGAA-AATTTTAAAAAAA
*
15902934 AGAAAGTTTTTGAAACACGAGAATTTTTGAAACACGAAAATTTTAAAAACA
1 AGAAAGTTTTTGAAACACGAGAATTTTTGAAACACGAAAATTTTAAAAAAA
* * ** ** *
15902985 CGACAA-TTTTTGAAACACGAGAATTTTTTTAAACATAAAAATTTTTTAAACA
1 AGA-AAGTTTTTGAAACACGAGAA-TTTTTGAAACACGAAAATTTTAAAAAAA
* * * * * *
15903037 CGAAAATTTGTGAAACACGAGAATTGTTGAAAACACGAAAATTTTGAAAACA
1 AGAAAGTTTTTGAAACACGAGAATTTTTG-AAACACGAAAATTTTAAAAAAA
* * * * *
15903089 CGAAAATTTTTGAAAACATGAAAATTTTTGAAACACGAAAATTTTTAGAAAACA
1 AGAAAGTTTTTG-AAACACGAGAATTTTTGAAACACGAAAA-TTTTA-AAAAAA
* * * * * *
15903143 CGAAAATTTTTGAAAACATG-GAAATTTTTAGAAACACGGAAATTTTTAAAACA
1 AGAAAGTTTTTG-AAACACGAG-AATTTTT-GAAACACGAAAATTTTAAAAAAA
* * * * * *
15903196 CGAAAATTTTTGAAACACGAGAATTTTTTTCAAAACACAAAAATTTTTAAAACA
1 AGAAAGTTTTTGAAACACGAGAA--TTTTT-GAAACACGAAAATTTTAAAAAAA
* * * *
15903250 CGAAAATTTGTGAAACATGAGAATTTTTTGAAA-ACTTGAAAATTTT
1 AGAAAGTTTTTGAAACACGAGAA-TTTTTGAAACAC--GAAAATTTT
15903296 TGAAACACGT
Statistics
Matches: 310, Mismatches: 36, Indels: 29
0.83 0.10 0.08
Matches are distributed among these distances:
50 10 0.03
51 52 0.17
52 103 0.33
53 51 0.16
54 83 0.27
55 11 0.04
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (51 bp):
AGAAAGTTTTTGAAACACGAGAATTTTTGAAACACGAAAATTTTAAAAAAA
Found at i:15902961 original size:35 final size:35
Alignment explanation
Indices: 15902895--15903506 Score: 400
Period size: 35 Copynumber: 17.3 Consensus size: 35
15902885 GAATGTTTTT
** * **
15902895 AAACACGGGAATTTTT-AAGCACGAATTTTTTTAA
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTAA
* * * * *
15902929 AAAAAAGAAAGTTTTTGAAACACGAGAATTTTT-G
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTAA
** * *
15902963 AAACACGAAAATTTTAAAAACACGACAATTTTT-G
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTAA
* * ** *
15902997 AAACACGAGAATTTTTTTAAACATAAAAATTTTT-T
1 AAACACGA-AAATTTTTGAAACACGAAAATTTTTAA
* * * *
15903032 AAACACGAAAATTTGTGAAACACGAGAATTGTTGA
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTAA
*
15903067 AAACACGAAAA-TTTTGAAAACACGAAAATTTTTGA
1 AAACACGAAAATTTTTG-AAACACGAAAATTTTTAA
*
15903102 AAACATGAAAATTTTTGAAACACGAAAATTTTTAGA
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTA-A
* * *
15903138 AAACACGAAAATTTTTGAAAACATGGAAATTTTTAG
1 AAACACGAAAATTTTTG-AAACACGAAAATTTTTAA
* * *
15903174 AAACACGGAAATTTTTAAAACACGAAAATTTTT-G
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTAA
* * *
15903208 AAACACGAGAATTTTTTTCAAAACACAAAAATTTTT-A
1 AAACACGA-AA-ATTTTT-GAAACACGAAAATTTTTAA
* * * *
15903245 AAACACGAAAATTTGTGAAACATGAGAATTTTTTGA
1 AAACACGAAAATTTTTGAAACACGA-AAATTTTTAA
** *
15903281 AAACTTGAAAATTTTTGAAACACGTAAATTTTTAGA
1 AAACACGAAAATTTTTGAAACACGAAAATTTTTA-A
* * **
15903317 AAACACGAAAATTTTTTAAAATCACCG-GAATTTTTGG
1 AAACACGAAAA-TTTTTGAAA-CA-CGAAAATTTTTAA
* * **
15903354 AAACACGAAGATTTTTGAAAAAATAAAGATTTTTTAA
1 AAACACGAAAATTTTTGAAACACGAAA-A-TTTTTAA
*** * *
15903391 ATGTA-G-GAATTTTTCGAAAACACGAAAAATTTTAA
1 AAACACGAAAATTTTT-G-AAACACGAAAATTTTTAA
* * * ** *
15903426 AAA-ATGGAATTTTTTGAAAACACGGGAATTTTTGA
1 AAACACGAAAATTTTTG-AAACACGAAAATTTTTAA
* ** *
15903461 AAACATGAAAATTTTTGAAACATCGGAATTTTTTTTA
1 AAACACGAAAATTTTTGAAACA-C-GAAAATTTTTAA
15903498 AAACACGAA
1 AAACACGAA
15903507 TTTTTCAATT
Statistics
Matches: 452, Mismatches: 100, Indels: 49
0.75 0.17 0.08
Matches are distributed among these distances:
34 84 0.19
35 166 0.37
36 105 0.23
37 86 0.19
38 9 0.02
39 2 0.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (35 bp):
AAACACGAAAATTTTTGAAACACGAAAATTTTTAA
Found at i:15903042 original size:18 final size:17
Alignment explanation
Indices: 15902890--15903506 Score: 391
Period size: 17 Copynumber: 34.9 Consensus size: 17
15902880 CATGAGAATG
**
15902890 TTTTT-AAACACGGGAA
1 TTTTTAAAACACGAAAA
* **
15902906 TTTTT-AAGCACGAATT
1 TTTTTAAAACACGAAAA
* * *
15902922 TTTTTAAAAAAAAGAAAG
1 TTTTT-AAAACACGAAAA
* *
15902940 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
15902957 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
15902974 TTTTAAAAACACGACAA
1 TTTTTAAAACACGAAAA
* *
15902991 TTTTTGAAACACGAGAAT
1 TTTTTAAAACACGA-AAA
* **
15903009 TTTTTTAAACATAAAAA
1 TTTTTAAAACACGAAAA
*
15903026 TTTTTTAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * *
15903043 TTTGTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
15903060 TTGTTGAAAACACGAAAA
1 TT-TTTAAAACACGAAAA
*
15903078 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
15903095 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
*
15903113 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
15903130 TTTTTAGAAAACACGAAAA
1 TTTTT--AAAACACGAAAA
* *
15903149 TTTTTGAAAACATGGAAA
1 TTTTT-AAAACACGAAAA
*
15903167 TTTTTAGAAACACGGAAA
1 TTTTTA-AAACACGAAAA
15903185 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
15903202 TTTTTGAAACACGAGAATT
1 TTTTTAAAACACGA-AA-A
*
15903221 TTTTTCAAAACACAAAAA
1 TTTTT-AAAACACGAAAA
15903239 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * * *
15903256 TTTGTGAAACATGAGAAT
1 TTTTTAAAACACGA-AAA
**
15903274 TTTTTGAAAACTTGAAAA
1 TTTTT-AAAACACGAAAA
* *
15903292 TTTTTGAAACACGTAAA
1 TTTTTAAAACACGAAAA
15903309 TTTTTAGAAAACACGAAAA
1 TTTTT--AAAACACGAAAA
*
15903328 TTTTTTAAAATCACCG-GAA
1 -TTTTTAAAA-CA-CGAAAA
* *
15903347 TTTTTGGAAACACGAAGA
1 TTTTT-AAAACACGAAAA
**
15903365 TTTTTGAAAA-AATAAAGA
1 TTTTT-AAAACACGAAA-A
* * *
15903383 TTTTT-TAA-ATGTAGGAA
1 TTTTTAAAACACG-A-AAA
15903400 TTTTTCGAAAACACGAAAA
1 TTTTT--AAAACACGAAAA
* * * * *
15903419 ATTTTAAAAAATGGAAT
1 TTTTTAAAACACGAAAA
**
15903436 TTTTTGAAAACACGGGAA
1 TTTTT-AAAACACGAAAA
*
15903454 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
* **
15903472 TTTTTGAAACATCGGAATTT
1 TTTTTAAAACA-C-GAA-AA
15903492 TTTTTAAAACACGAA
1 TTTTTAAAACACGAA
15903507 TTTTTCAATT
Statistics
Matches: 472, Mismatches: 98, Indels: 60
0.75 0.16 0.10
Matches are distributed among these distances:
16 19 0.04
17 204 0.43
18 163 0.35
19 57 0.12
20 27 0.06
21 2 0.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:15903455 original size:19 final size:19
Alignment explanation
Indices: 15903431--15903504 Score: 66
Period size: 18 Copynumber: 4.0 Consensus size: 19
15903421 TTTAAAAAAT
15903431 GGAATTTTTTGAAAACACG
1 GGAATTTTTTGAAAACACG
*
15903450 GGAA-TTTTTGAAAACA-T
1 GGAATTTTTTGAAAACACG
* *
15903467 GAAAATTTTTG-AAACATC-
1 GGAATTTTTTGAAAACA-CG
*
15903485 GGAATTTTTTTTAAAACACG
1 GGAA-TTTTTTGAAAACACG
15903505 AATTTTTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
17 8 0.18
18 21 0.48
19 10 0.23
20 5 0.11
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (19 bp):
GGAATTTTTTGAAAACACG
Found at i:15903483 original size:17 final size:17
Alignment explanation
Indices: 15902935--15903482 Score: 422
Period size: 17 Copynumber: 30.9 Consensus size: 17
15902925 TTAAAAAAAA
*
15902935 GAAAGTTTTTGAAACAC
1 GAAAATTTTTGAAACAC
*
15902952 GAGAATTTTTGAAACAC
1 GAAAATTTTTGAAACAC
**
15902969 GAAAATTTTAAAAACAC
1 GAAAATTTTTGAAACAC
*
15902986 GACAATTTTTGAAACAC
1 GAAAATTTTTGAAACAC
* * *
15903003 GAGAATTTTTTTAAACAT
1 GA-AAATTTTTGAAACAC
* *
15903021 AAAAATTTTTTAAACAC
1 GAAAATTTTTGAAACAC
*
15903038 GAAAATTTGTGAAACAC
1 GAAAATTTTTGAAACAC
* *
15903055 GAGAATTGTTGAAAACAC
1 GAAAATTTTTG-AAACAC
15903073 GAAAA-TTTTGAAAACAC
1 GAAAATTTTTG-AAACAC
*
15903090 GAAAATTTTTGAAAACAT
1 GAAAATTTTTG-AAACAC
15903108 GAAAATTTTTGAAACAC
1 GAAAATTTTTGAAACAC
15903125 GAAAATTTTTAGAAAACAC
1 GAAAATTTTT-G-AAACAC
*
15903144 GAAAATTTTTGAAAACAT
1 GAAAATTTTTG-AAACAC
*
15903162 GGAAATTTTTAGAAACAC
1 GAAAATTTTT-GAAACAC
* *
15903180 GGAAATTTTTAAAACAC
1 GAAAATTTTTGAAACAC
15903197 GAAAATTTTTGAAACAC
1 GAAAATTTTTGAAACAC
* *
15903214 GAGAATTTTTTTCAAAACAC
1 GA-AA-ATTTTT-GAAACAC
* *
15903234 AAAAATTTTTAAAACAC
1 GAAAATTTTTGAAACAC
* *
15903251 GAAAATTTGTGAAACAT
1 GAAAATTTTTGAAACAC
*
15903268 GAGAATTTTTTGAAA-AC
1 GA-AAATTTTTGAAACAC
15903285 TTGAAAATTTTTGAAACAC
1 --GAAAATTTTTGAAACAC
*
15903304 GTAAATTTTTAGAAAACAC
1 GAAAATTTTT-G-AAACAC
*
15903323 GAAAATTTTTTAAAATCACC
1 GAAAA-TTTTTGAAA-CA-C
*
15903343 G-GAATTTTTGGAAACAC
1 GAAAATTTTT-GAAACAC
* * *
15903360 GAAGATTTTTGAAAAAA
1 GAAAATTTTTGAAACAC
* * *
15903377 TAAAGATTTTT-TAA-AT
1 GAAA-ATTTTTGAAACAC
*
15903393 GTAGGAATTTTTCGAAAACAC
1 G-A-AAATTTTT-G-AAACAC
* * * *
15903414 GAAAAATTTTAAAAAAT
1 GAAAATTTTTGAAACAC
* *
15903431 GGAATTTTTTGAAAACAC
1 GAAAATTTTTG-AAACAC
** *
15903449 GGGAATTTTTGAAAACAT
1 GAAAATTTTTG-AAACAC
15903467 GAAAATTTTTGAAACA
1 GAAAATTTTTGAAACA
15903483 TCGGAATTTT
Statistics
Matches: 427, Mismatches: 76, Indels: 56
0.76 0.14 0.10
Matches are distributed among these distances:
16 1 0.00
17 200 0.47
18 156 0.37
19 51 0.12
20 17 0.04
21 2 0.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (17 bp):
GAAAATTTTTGAAACAC
Found at i:15903507 original size:18 final size:20
Alignment explanation
Indices: 15903472--15903511 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15903462 AACATGAAAA
*
15903472 TTTTTGAAACATCGGAATTT
1 TTTTTAAAACATCGGAATTT
15903492 TTTTTAAAACA-C-GAATTT
1 TTTTTAAAACATCGGAATTT
15903510 TT
1 TT
15903512 CAATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTTTAAAACATCGGAATTT
Found at i:15903637 original size:20 final size:21
Alignment explanation
Indices: 15903612--15903660 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
15903602 TTCGTTGCCT
*
15903612 TATTTTTTTGAAA-ACGCGAA
1 TATTTTTTTGAAATACGAGAA
15903632 TA-TTTTTTGAAATACGAGAA
1 TATTTTTTTGAAATACGAGAA
*
15903652 AATTTTTTT
1 TATTTTTTT
15903661 TTGAAGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 9 0.36
21 6 0.24
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (21 bp):
TATTTTTTTGAAATACGAGAA
Found at i:15903639 original size:19 final size:20
Alignment explanation
Indices: 15903615--15903659 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15903605 GTTGCCTTAT
* *
15903615 TTTTTTGAAA-ACGCGAATA
1 TTTTTTGAAATACGAGAAAA
15903634 TTTTTTGAAATACGAGAAAA
1 TTTTTTGAAATACGAGAAAA
15903654 TTTTTT
1 TTTTTT
15903660 TTTGAAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTTTTGAAATACGAGAAAA
Found at i:15903715 original size:18 final size:18
Alignment explanation
Indices: 15903613--15903717 Score: 56
Period size: 19 Copynumber: 5.6 Consensus size: 18
15903603 TCGTTGCCTT
*
15903613 ATTTTTTTGAAAACGCGA
1 ATTTTTTTGAAAACACGA
15903631 ATATTTTTTGAAATACGA-GAAA
1 AT-TTTTTTGAAA-AC-ACG--A
*
15903653 ATTTTTTTTTGAAGACACGA
1 A--TTTTTTTGAAAACACGA
** *
15903673 A--AATTTCAAAACACGGGA
1 ATTTTTTTGAAAACAC--GA
15903691 A-TTTTTTGAAAACACGA
1 ATTTTTTTGAAAACACGA
15903708 ATTTTTTTGA
1 ATTTTTTTGA
15903718 GTATTTTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
16 9 0.14
17 3 0.05
18 13 0.20
19 20 0.30
20 5 0.08
21 1 0.02
22 5 0.08
23 9 0.14
24 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
ATTTTTTTGAAAACACGA
Found at i:15904081 original size:24 final size:24
Alignment explanation
Indices: 15904034--15904078 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15904024 AATTGAAGCC
* *
15904034 CTTTTTTCTTTTTTCTTTTCTTCT
1 CTTTTTTCCTTCTTCTTTTCTTCT
15904058 CTTTTTTCCTTCTT-TTTTCTT
1 CTTTTTTCCTTCTTCTTTTCTT
15904079 TCTGCTGTGC
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
CTTTTTTCCTTCTTCTTTTCTTCT
Found at i:15904356 original size:10 final size:10
Alignment explanation
Indices: 15904341--15904415 Score: 82
Period size: 10 Copynumber: 7.3 Consensus size: 10
15904331 AAATTAATTT
15904341 TTTTTCTTTC
1 TTTTTCTTTC
15904351 TTTTTCTTTC
1 TTTTTCTTTC
15904361 TTTTTC-TTC
1 TTTTTCTTTC
*
15904370 TTTCTTCTTCC
1 TTT-TTCTTTC
15904381 TTCTTTC-TTC
1 TT-TTTCTTTC
15904391 TCTTTTCTTTC
1 T-TTTTCTTTC
*
15904402 TCTTTTTTTTC
1 T-TTTTCTTTC
15904413 TTT
1 TTT
15904416 CCCAATCAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
9 6 0.11
10 28 0.49
11 22 0.39
12 1 0.02
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:15904360 original size:14 final size:14
Alignment explanation
Indices: 15904338--15904416 Score: 76
Period size: 14 Copynumber: 5.7 Consensus size: 14
15904328 ACTAAATTAA
15904338 TTTTT-TTTCTTTC
1 TTTTTCTTTCTTTC
15904351 TTTTTCTTTCTTT-
1 TTTTTCTTTCTTTC
*
15904364 TTCTTCTTTC-TTC
1 TTTTTCTTTCTTTC
*
15904377 TTCCTTCTTTC-TTC
1 TT-TTTCTTTCTTTC
*
15904391 TCTTTTCTTTCTCTTT
1 T-TTTTCTTTCT-TTC
15904407 TTTTTCTTTC
1 TTTTTCTTTC
15904417 CCAATCAGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
12 2 0.04
13 16 0.28
14 26 0.46
15 10 0.18
16 3 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:15904374 original size:4 final size:4
Alignment explanation
Indices: 15904343--15904416 Score: 52
Period size: 4 Copynumber: 19.0 Consensus size: 4
15904333 ATTAATTTTT
* *
15904343 TTTC TTTC -TT- TTTC TTTC TTTT TCTTC TTTC -TTC -TTC CTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC
15904388 TTCTC TTTTC TTTC TCTT- TTT- TTTC TTTC
1 TT-TC -TTTC TTTC T-TTC TTTC TTTC TTTC
15904417 CCAATCAGCC
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
3 15 0.25
4 33 0.56
5 9 0.15
6 2 0.03
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:15904588 original size:33 final size:33
Alignment explanation
Indices: 15904522--15904590 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 33
15904512 TCCATTTTTC
*
15904522 TTCTTTTCTCTTTTTTTTCTCTTTTGCTTGTTGT
1 TTCTTTTCTCTTTTTTTTCTCTTTT-CTGGTTGT
15904556 TTCTTTCTCTCTTTTTTTT-TGCTTTT-TGGTTGT
1 TTCTTT-TCTCTTTTTTTTCT-CTTTTCTGGTTGT
15904589 TT
1 TT
15904591 TGCTAATTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 8 0.25
34 7 0.22
35 17 0.53
ACGTcount: A:0.00, C:0.16, G:0.10, T:0.74
Consensus pattern (33 bp):
TTCTTTTCTCTTTTTTTTCTCTTTTCTGGTTGT
Found at i:15905023 original size:89 final size:90
Alignment explanation
Indices: 15904895--15905062 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 90
15904885 CAAAACTTTT
* * *
15904895 GGGGTCAAAACGTAATGTTTAGAAAGTTCAGGGGTTGAAACATAATTTTTAGAAA-GTTTAGGGG
1 GGGGTCAAAACGTAATGTTCAGAAAGTTCAGGGGTTGAAACATAATTTTGA-AAATGTTTAAGGG
*
15904959 TTAAAATGTAATTTTGAGAAAGTTTG
65 TCAAAATGTAATTTTGAGAAAGTTTG
* * **
15904985 GGGGTCAAAATGTAAT-TTCA-AAATGTTTAGGGGTTGAAATGTAATTTTGAAAATGTTTAAGGG
1 GGGGTCAAAACGTAATGTTCAGAAA-GTTCAGGGGTTGAAACATAATTTTGAAAATGTTTAAGGG
15905048 TCAAAATGTAATTTT
65 TCAAAATGTAATTTT
15905063 TTAAAACACA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 6 0.09
89 47 0.69
90 15 0.22
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (90 bp):
GGGGTCAAAACGTAATGTTCAGAAAGTTCAGGGGTTGAAACATAATTTTGAAAATGTTTAAGGGT
CAAAATGTAATTTTGAGAAAGTTTG
Found at i:15905024 original size:29 final size:30
Alignment explanation
Indices: 15904895--15905062 Score: 164
Period size: 30 Copynumber: 5.6 Consensus size: 30
15904885 CAAAACTTTT
* * *
15904895 GGGGTCAAAACGTAATGTTT-AGAAAGTTCA
1 GGGGTTAAAATGTAAT-TTTGAGAAAGTTTA
* ** *
15904925 GGGGTTGAAACATAATTTTTAGAAAGTTTA
1 GGGGTTAAAATGTAATTTTGAGAAAGTTTA
*
15904955 GGGGTTAAAATGTAATTTTGAGAAAGTTTG
1 GGGGTTAAAATGTAATTTTGAGAAAGTTTA
* *
15904985 GGGGTCAAAATGTAA-TTTCA-AAATGTTTA
1 GGGGTTAAAATGTAATTTTGAGAAA-GTTTA
*
15905014 GGGGTTGAAATGTAATTTTGA-AAATGTTTA
1 GGGGTTAAAATGTAATTTTGAGAAA-GTTTA
* *
15905044 AGGGTCAAAATGTAATTTT
1 GGGGTTAAAATGTAATTTT
15905063 TTAAAACACA
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.03
29 24 0.21
30 90 0.77
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTGAGAAAGTTTA
Found at i:15905030 original size:59 final size:59
Alignment explanation
Indices: 15904950--15905061 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
15904940 TTTTTAGAAA
**
15904950 GTTTAGGGGTTAAAATGTAATTTTGAGAAA-GTTTGGGGGTCAAAATGTAATTTCAAAAT
1 GTTTAGGGGTTAAAATGTAATTTTGA-AAATGTTTAAGGGTCAAAATGTAATTTCAAAAT
*
15905009 GTTTAGGGGTTGAAATGTAATTTTGAAAATGTTTAAGGGTCAAAATGTAATTT
1 GTTTAGGGGTTAAAATGTAATTTTGAAAATGTTTAAGGGTCAAAATGTAATTT
15905062 TTTAAAACAC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
58 3 0.06
59 46 0.94
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (59 bp):
GTTTAGGGGTTAAAATGTAATTTTGAAAATGTTTAAGGGTCAAAATGTAATTTCAAAAT
Found at i:15907700 original size:62 final size:62
Alignment explanation
Indices: 15907625--15907749 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
15907615 CGAAAGTGCA
*
15907625 AGCGCAATAACATGCTACATGAACGAAACTGGGTGCTCAGAGGCAATGGCTTGCCAACACAT
1 AGCGCAATAACATGCTACATGAACGAAACTGGGTGCTCAGAGGCAATGGCTTACCAACACAT
15907687 AGCGCAATAACATGCTACATGAACGAAACTGGGTGCTCAGAGGCAATGGCTTACCAACACAT
1 AGCGCAATAACATGCTACATGAACGAAACTGGGTGCTCAGAGGCAATGGCTTACCAACACAT
15907749 A
1 A
15907750 AATGACTTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (62 bp):
AGCGCAATAACATGCTACATGAACGAAACTGGGTGCTCAGAGGCAATGGCTTACCAACACAT
Found at i:15908751 original size:28 final size:28
Alignment explanation
Indices: 15908705--15908759 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
15908695 CAATTTCAAA
15908705 AAAAGTTATAAAAATATAAAAAAAATTC
1 AAAAGTTATAAAAATATAAAAAAAATTC
*
15908733 AAAAGTTTTATAAAA-ATAAAAAAAATT
1 AAAAGTTATA-AAAATATAAAAAAAATT
15908760 ATTTAAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (28 bp):
AAAAGTTATAAAAATATAAAAAAAATTC
Found at i:15915076 original size:23 final size:23
Alignment explanation
Indices: 15915031--15915077 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
15915021 GATCCAAAAG
* **
15915031 ATGAAAGTATAATTTCTCTCTGA
1 ATGAAAATATAATTTCTAACTGA
*
15915054 ATGAAAATATATTTTCTAACTGA
1 ATGAAAATATAATTTCTAACTGA
15915077 A
1 A
15915078 AAGCGGTTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (23 bp):
ATGAAAATATAATTTCTAACTGA
Found at i:15919264 original size:46 final size:45
Alignment explanation
Indices: 15919211--15919347 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 45
15919201 ACAATGCTAT
* * *
15919211 AACTCAGTATGGTTTCCTTCACTGAAATATCATATCTACTTTTCAC
1 AACTCAGTATGGTTT-CTTCACTGAAACACCATACCTACTTTTCAC
15919257 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTCTTCACTGAAACACCATACCTACTTTTCAC
*
15919303 AACTCAGTATGGATTTCTTCATTGAAACACCATACCTACTTTTCA
1 AACTCAGTATGG-TTTCTTCACTGAAACACCATACCTACTTTTCA
15919348 TAATTTTCCA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
46 82 0.96
47 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATGGTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:15920622 original size:16 final size:17
Alignment explanation
Indices: 15920576--15920622 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
15920566 AAATTATTTT
15920576 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
15920593 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
15920610 TAATTCA-AAAATT
1 TAAATCACAAAATT
15920623 ATTCTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:15921344 original size:22 final size:21
Alignment explanation
Indices: 15921267--15921347 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 21
15921257 AGCTGACAAT
15921267 AAAGAGAAAAAGAAAG-AA-GA
1 AAAG-GAAAAAGAAAGAAAGGA
* * * *
15921287 GAATGACAAAACAAAAAAAGGA
1 AAAGGA-AAAAGAAAGAAAGGA
15921309 AAAGGAAAAAGAAAGAAAGTGA
1 AAAGGAAAAAGAAAGAAAG-GA
*
15921331 AAA-GAAGAAGGAAAGAA
1 AAAGGAA-AAAGAAAGAA
15921348 GAAGGGAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
19 2 0.04
20 9 0.19
21 16 0.34
22 20 0.43
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.02
Consensus pattern (21 bp):
AAAGGAAAAAGAAAGAAAGGA
Found at i:15921345 original size:11 final size:11
Alignment explanation
Indices: 15921331--15921361 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15921321 AAGAAAGTGA
15921331 AAAGAAGAAGG
1 AAAGAAGAAGG
15921342 AAAGAAGAAGG
1 AAAGAAGAAGG
*
15921353 GAAGAAGAA
1 AAAGAAGAA
15921362 CATTTAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAGG
Found at i:15931983 original size:31 final size:32
Alignment explanation
Indices: 15931947--15932011 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15931937 CTTAGATAAT
15931947 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
15931978 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
15932010 TT
1 TT
15932012 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:15932615 original size:23 final size:22
Alignment explanation
Indices: 15932560--15932634 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
15932550 TTTAAATAAA
15932560 AGCAAAAAAAAAACAGCAAAAAC
1 AGCAAAAAAAAAA-AGCAAAAAC
*
15932583 AGC-TAAAAAAAAAGCAAAAAGC
1 AGCAAAAAAAAAAAGCAAAAA-C
* *
15932605 -GCAAAAGAAAAAAAGAAAAAAA
1 AGCAAAA-AAAAAAAGCAAAAAC
15932627 AGCAAAAA
1 AGCAAAAA
15932635 GCGCAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
21 10 0.23
22 12 0.27
23 22 0.50
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.01
Consensus pattern (22 bp):
AGCAAAAAAAAAAAGCAAAAAC
Found at i:15936465 original size:46 final size:46
Alignment explanation
Indices: 15936412--15936630 Score: 285
Period size: 46 Copynumber: 4.6 Consensus size: 46
15936402 CTTACGTATG
* *
15936412 ATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCT
* *
15936458 ATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCT
* * *
15936504 ATAACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCT
* *
15936550 ATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCT
* *
15936602 ACCACTTATCACTTTATCACTTGATCAGA
1 ATCACTTATCACTTTGTCACTTGATCAGA
15936631 AGTACTCAAA
Statistics
Matches: 153, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
46 111 0.73
48 1 0.01
50 1 0.01
52 40 0.26
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (46 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCT
Found at i:15939372 original size:20 final size:20
Alignment explanation
Indices: 15939320--15939359 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15939310 GAGTCATTAC
*
15939320 AATTATTTAAAAATTATAAA
1 AATTATTAAAAAATTATAAA
15939340 AATTATTAAAAAATT-TAAA
1 AATTATTAAAAAATTATAAA
15939359 A
1 A
15939360 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTATTAAAAAATTATAAA
Found at i:15940028 original size:24 final size:22
Alignment explanation
Indices: 15939992--15940048 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
15939982 TCGTTAAGTA
*
15939992 AAAAAT-ACACTTTTATTTGAT-
1 AAAAATAATACTTTTATTT-ATC
15940013 AAACAAGTAATAC-TTTATTTATC
1 AAA-AA-TAATACTTTTATTTATC
15940036 AAAAATAATACTT
1 AAAAATAATACTT
15940049 GAGTGTAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
21 9 0.30
22 7 0.23
23 11 0.37
24 3 0.10
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
AAAAATAATACTTTTATTTATC
Found at i:15940046 original size:21 final size:23
Alignment explanation
Indices: 15940003--15940048 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15939993 AAAATACACT
15940003 TTTATTTGATAAACAAGTAATAC
1 TTTATTTGATAAACAAGTAATAC
15940026 TTTATTT-ATCAAA-AA-TAATAC
1 TTTATTTGAT-AAACAAGTAATAC
15940047 TT
1 TT
15940049 GAGTGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
TTTATTTGATAAACAAGTAATAC
Found at i:15942042 original size:18 final size:18
Alignment explanation
Indices: 15942019--15942058 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
15942009 TATAATTTTA
*
15942019 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
15942037 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
15942055 AAAA
1 AAAA
15942059 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:15943185 original size:12 final size:12
Alignment explanation
Indices: 15943168--15943197 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15943158 ACAAAATCTG
15943168 AATTTAATTTCC
1 AATTTAATTTCC
*
15943180 AATTTAATTTCT
1 AATTTAATTTCC
15943192 AATTTA
1 AATTTA
15943198 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:15948369 original size:29 final size:30
Alignment explanation
Indices: 15948310--15948367 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15948300 TCCGAGCCTT
*
15948310 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
15948340 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
15948368 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:15948597 original size:13 final size:13
Alignment explanation
Indices: 15948579--15948610 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15948569 TTTCCAGCAA
15948579 TTATGAATTTATT
1 TTATGAATTTATT
15948592 TTATGAATTTATT
1 TTATGAATTTATT
*
15948605 TGATGA
1 TTATGA
15948611 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:15948818 original size:50 final size:50
Alignment explanation
Indices: 15948705--15949146 Score: 616
Period size: 50 Copynumber: 8.7 Consensus size: 50
15948695 ATTTGGGTAA
* * * *
15948705 AGAGATCCCATGTAAGACCATGTCTGGGACAAGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
15948761 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15948811 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
15948861 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15948911 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
15948961 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15949011 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15949061 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
15949111 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
15949147 TTTGGCATGT
Statistics
Matches: 349, Mismatches: 35, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
49 1 0.00
50 275 0.79
51 29 0.08
52 1 0.00
53 3 0.01
55 2 0.01
56 38 0.11
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:15948889 original size:100 final size:100
Alignment explanation
Indices: 15948705--15949153 Score: 738
Period size: 100 Copynumber: 4.4 Consensus size: 100
15948695 ATTTGGGTAA
* * * *
15948705 AGAGATCCCATGTAAGACCATGTCTGGGACAAGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC----GA-GATGAGAGGTCCC
15948770 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
60 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
15948811 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTGTAA
15948876 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
66 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
15948911 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTGTAA
15948976 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
66 GACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
15949011 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTGTAA
*
15949076 GACCATGTCTGGGACATGGCATGGGCACC-ATCACG
66 GACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
15949111 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
15949154 TGTTATTATC
Statistics
Matches: 332, Mismatches: 9, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
99 1 0.00
100 251 0.76
101 39 0.12
105 2 0.01
106 39 0.12
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.19
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTGTAA
GACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:15954022 original size:50 final size:50
Alignment explanation
Indices: 15953898--15954041 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
15953888 GATAATAACA
** *
15953898 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATGATGG
* * * * *
15953949 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGAT-GG
*
15953999 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
15954042 GTCCCAAATG
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 46 0.57
51 33 0.41
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATGG
Found at i:15954156 original size:13 final size:13
Alignment explanation
Indices: 15954135--15954166 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15954125 GCTTGGATCA
*
15954135 TCATCAAATAAAT
1 TCATAAAATAAAT
15954148 TCATAAAATAAAT
1 TCATAAAATAAAT
15954161 TCATAA
1 TCATAA
15954167 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15958225 original size:4 final size:4
Alignment explanation
Indices: 15958216--15958253 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
15958206 TTGCTTGTAT
*
15958216 ATAA ATAA ATAA ATAAA ATGA A-AA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA AT
15958254 GCTCAAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
4 24 0.80
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:15962846 original size:11 final size:11
Alignment explanation
Indices: 15962830--15962854 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15962820 AATGTCCAAA
15962830 AATATAAGGGT
1 AATATAAGGGT
15962841 AATATAAGGGT
1 AATATAAGGGT
15962852 AAT
1 AAT
15962855 GTGCAGGATA
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:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (11 bp):
AATATAAGGGT
Found at i:15971865 original size:13 final size:13
Alignment explanation
Indices: 15971847--15971873 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15971837 GCAGTTTAAC
15971847 ATTGTTTTTGAAA
1 ATTGTTTTTGAAA
15971860 ATTGTTTTTGAAA
1 ATTGTTTTTGAAA
15971873 A
1 A
15971874 GTTTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
ATTGTTTTTGAAA
Found at i:15972635 original size:10 final size:10
Alignment explanation
Indices: 15972542--15972713 Score: 75
Period size: 10 Copynumber: 17.7 Consensus size: 10
15972532 TATTTAAACT
15972542 TAAAAT-TTA
1 TAAAATATTA
15972551 TTAAAATATTA
1 -TAAAATATTA
*
15972562 AAAAAT-TTA
1 TAAAATATTA
15972571 TAGAAA-ATCTA
1 TA-AAATAT-TA
15972582 TAAAAATATT-
1 T-AAAATATTA
*
15972592 T-AAATATAA
1 TAAAATATTA
15972601 TAAAAT-TT-
1 TAAAATATTA
*
15972609 TAAAA-ACTA
1 TAAAATATTA
**
15972618 CCAAATATTA
1 TAAAATATTA
15972628 TAAAATATTA
1 TAAAATATTA
* *
15972638 TTAATATGTTA
1 -TAAAATATTA
15972649 TGAAAA-A-TA
1 T-AAAATATTA
*
15972658 TGAAATATTA
1 TAAAATATTA
*
15972668 AATAAATATTA
1 TA-AAATATTA
15972679 TAAAA-ATT-
1 TAAAATATTA
*
15972687 TAGAA-ATTA
1 TAAAATATTA
15972696 TAGAAA-ATATA
1 TA-AAATAT-TA
15972707 TAAAATA
1 TAAAATA
15972714 ATTAAAATGA
Statistics
Matches: 122, Mismatches: 20, Indels: 39
0.67 0.11 0.22
Matches are distributed among these distances:
8 22 0.18
9 18 0.15
10 44 0.36
11 35 0.29
12 3 0.02
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (10 bp):
TAAAATATTA
Found at i:15972712 original size:19 final size:17
Alignment explanation
Indices: 15972669--15972784 Score: 51
Period size: 19 Copynumber: 6.5 Consensus size: 17
15972659 GAAATATTAA
15972669 ATAAATATTATAAAAATT
1 ATAAA-ATTATAAAAATT
15972687 -TAGAAATTATAGAAAATAT
1 ATA-AAATTATA-AAAAT-T
* * *
15972706 ATAAAATAATTAAAATG
1 ATAAAATTATAAAAATT
* *
15972723 ATAAAGTATAAAAAAAGTT
1 ATAAAAT-TATAAAAA-TT
*
15972742 GTAAAAATT-TAAAAAATAT
1 AT-AAAATTAT-AAAAAT-T
*
15972761 ATAAGAAATATAAAAA--
1 ATAA-AATTATAAAAATT
15972777 ATAAAATT
1 ATAAAATT
15972785 TGTTATTACG
Statistics
Matches: 73, Mismatches: 14, Indels: 25
0.65 0.12 0.22
Matches are distributed among these distances:
15 3 0.04
16 4 0.05
17 14 0.19
18 20 0.27
19 25 0.34
20 7 0.10
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
ATAAAATTATAAAAATT
Found at i:15991600 original size:36 final size:37
Alignment explanation
Indices: 15991553--15991623 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
15991543 GAGATTATTA
*
15991553 GGAGAAAGTAG-AATCTGTGGAAATACCTGTGGATTT
1 GGAGAAAGTAGAAATCCGTGGAAATACCTGTGGATTT
15991589 GGAGAAAGTAGAAATCCGTGGAAATACCTGTGGAT
1 GGAGAAAGTAGAAATCCGTGGAAATACCTGTGGAT
15991624 ATTTTCGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 11 0.33
37 22 0.67
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (37 bp):
GGAGAAAGTAGAAATCCGTGGAAATACCTGTGGATTT
Found at i:15996687 original size:23 final size:23
Alignment explanation
Indices: 15996661--15996729 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
15996651 AAGCGAGCAA
15996661 TATCGAGAAGCTCACAAAGAGCC
1 TATCGAGAAGCTCACAAAGAGCC
* *
15996684 TATCGGGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACAAAGAGCC
* *
15996707 TATTGAGAAGCTCACAAAAAGCC
1 TATCGAGAAGCTCACAAAGAGCC
15996730 ATATAACACG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (23 bp):
TATCGAGAAGCTCACAAAGAGCC
Found at i:15996692 original size:46 final size:46
Alignment explanation
Indices: 15996638--15996729 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
15996628 TATAGCCATA
* * *
15996638 TATCGGGAAGTTCAAG-CGAGCAATATCGAGAAGCTCACAAAGAGCC
1 TATCGGGAAGCTCAAGAAGAGC-ATATCGAGAAGCTCACAAAAAGCC
* * *
15996684 TATCGGGAAGCTCACGAAGAGCCTATTGAGAAGCTCACAAAAAGCC
1 TATCGGGAAGCTCAAGAAGAGCATATCGAGAAGCTCACAAAAAGCC
15996730 ATATAACACG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 35 0.90
47 4 0.10
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (46 bp):
TATCGGGAAGCTCAAGAAGAGCATATCGAGAAGCTCACAAAAAGCC
Found at i:15998646 original size:23 final size:23
Alignment explanation
Indices: 15998594--15998638 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15998584 AAATTATATA
* *
15998594 AATATTTTGAAATTTATTTGTTT
1 AATATTTTAAAATTTATTTGTGT
15998617 AATATTTTAAAATTTA-TTGTGT
1 AATATTTTAAAATTTATTTGTGT
15998639 CATAATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (23 bp):
AATATTTTAAAATTTATTTGTGT
Found at i:16000761 original size:23 final size:22
Alignment explanation
Indices: 16000718--16000761 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
16000708 TTCTAAGTCG
16000718 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
16000741 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
16000762 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:16002711 original size:17 final size:17
Alignment explanation
Indices: 16002686--16002852 Score: 101
Period size: 18 Copynumber: 9.5 Consensus size: 17
16002676 CGAGATTTTT
16002686 TTTTGAAAACACAAAAA
1 TTTTGAAAACACAAAAA
* * *
16002703 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CAAAAA
* *
16002721 TTTTGAAAACA-AGAGGAT
1 TTTTGAAAACACA-A-AAA
*
16002739 TTTTGAAATAC-GAAAAA
1 TTTTGAAA-ACACAAAAA
*
16002756 TTTTGAAAACACGAAAAT
1 TTTTGAAAACAC-AAAAA
* *
16002774 TTTTG-AAACACGGAAAT
1 TTTTGAAAACAC-AAAAA
* *
16002791 TTTTGAAAACGC-AAAT
1 TTTTGAAAACACAAAAA
16002807 TTTTG-AAACACAAAAA
1 TTTTGAAAACACAAAAA
*
16002823 TTTTTAAAAGACACTAAAAA
1 -TTTTGAAA-ACAC-AAAAA
16002843 TTTTGGAAAA
1 TTTT-GAAAA
16002853 TGGATTTTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
15 5 0.04
16 14 0.12
17 40 0.33
18 41 0.34
19 12 0.10
20 8 0.07
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACAAAAA
Found at i:16002713 original size:38 final size:36
Alignment explanation
Indices: 16002647--16002724 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 36
16002637 AGACATAATA
* *
16002647 TTTTTTTTAAAACCAAAATTTATGAAACA-CGAGAT
1 TTTTTTTTAAAACCAAAATTTATAAAACACCGAAAT
16002682 TTTTTTTTGAAAACACAAAAATTT-TCAAAACACCGAAAT
1 TTTTTTTT-AAAAC-C-AAAATTTAT-AAAACACCGAAAT
16002721 TTTT
1 TTTT
16002725 GAAAACAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
35 8 0.22
36 5 0.14
37 2 0.06
38 12 0.33
39 9 0.25
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (36 bp):
TTTTTTTTAAAACCAAAATTTATAAAACACCGAAAT
Found at i:16002724 original size:18 final size:17
Alignment explanation
Indices: 16002685--16002852 Score: 123
Period size: 17 Copynumber: 9.6 Consensus size: 17
16002675 ACGAGATTTT
16002685 TTTTTGAAAACACAAAA
1 TTTTTGAAAACACAAAA
* * *
16002702 ATTTTCAAAACACCGAAA
1 TTTTTGAAAACA-CAAAA
*
16002720 TTTTTGAAAACA-AGAGGA
1 TTTTTGAAAACACA-A-AA
16002738 TTTTTGAAATACGA-AAAA
1 TTTTTGAAA-AC-ACAAAA
16002756 -TTTTGAAAACACGAAAA
1 TTTTTGAAAACAC-AAAA
*
16002773 TTTTTG-AAACACGGAAA
1 TTTTTGAAAACAC-AAAA
*
16002790 TTTTTGAAAACGC-AAA
1 TTTTTGAAAACACAAAA
16002806 TTTTTG-AAACACAAAAA
1 TTTTTGAAAACAC-AAAA
*
16002823 TTTTTAAAAGACACTAAAAA
1 TTTTTGAAA-ACAC--AAAA
*
16002843 TTTTGGAAAA
1 TTTTTGAAAA
16002853 TGGATTTTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.05
16 11 0.09
17 47 0.38
18 37 0.30
19 8 0.07
20 14 0.11
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (17 bp):
TTTTTGAAAACACAAAA
Found at i:16002731 original size:35 final size:35
Alignment explanation
Indices: 16002685--16002851 Score: 153
Period size: 35 Copynumber: 4.8 Consensus size: 35
16002675 ACGAGATTTT
**
16002685 TTTTTGAAAACACAAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACCGAAA
** *
16002720 TTTTTGAAAACA-AGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACA-AAAATTTTTGAAACACCG-AAA
* * *
16002755 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACCGAAA
* **
16002790 TTTTTGAAAACGC--AAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACCGAAA
* *
16002823 TTTTTAAAAGACACTAAAAATTTTGGAAA
1 TTTTTGAAA-ACAC-AAAAATTTTTGAAA
16002852 ATGGATTTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
33 26 0.25
34 6 0.06
35 62 0.58
36 1 0.01
37 11 0.10
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (35 bp):
TTTTTGAAAACACAAAAATTTTTGAAACACCGAAA
Found at i:16003061 original size:20 final size:19
Alignment explanation
Indices: 16003023--16003069 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
16003013 GAATATATTT
16003023 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
16003043 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
16003062 -TTTTGAAA
1 TTTTTGAAA
16003070 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:16003445 original size:8 final size:8
Alignment explanation
Indices: 16003432--16003527 Score: 99
Period size: 8 Copynumber: 12.0 Consensus size: 8
16003422 GAAACTCTTT
16003432 TTTTTTTC
1 TTTTTTTC
16003440 TTTTTTTC
1 TTTTTTTC
16003448 TTCTTTTTTCC
1 -T-TTTTTT-C
*
16003459 TTTTTTCC
1 TTTTTTTC
16003467 TTTTTTTC
1 TTTTTTTC
*
16003475 -TCTTTTC
1 TTTTTTTC
16003482 TTTTTTTC
1 TTTTTTTC
*
16003490 -TTCTTTC
1 TTTTTTTC
16003497 TTTTTTTC
1 TTTTTTTC
16003505 -TTTTTTC
1 TTTTTTTC
* *
16003512 TTTCTCTC
1 TTTTTTTC
16003520 TTTTTTTC
1 TTTTTTTC
16003528 CTGGCCTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
7 19 0.26
8 39 0.54
9 6 0.08
10 7 0.10
11 1 0.01
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:16003484 original size:15 final size:15
Alignment explanation
Indices: 16003427--16003525 Score: 112
Period size: 15 Copynumber: 6.5 Consensus size: 15
16003417 GAATTGAAAC
16003427 TCTTTTTT-TTTTCTT
1 TCTTTTTTCTTTT-TT
16003442 T-TTTTCTTCTTTTTT
1 TCTTTT-TTCTTTTTT
*
16003457 CCTTTTTTCCTTTTTT
1 TCTTTTTT-CTTTTTT
*
16003473 TCTCTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
*
16003488 TCTTCTTTCTTTTTT
1 TCTTTTTTCTTTTTT
* *
16003503 TCTTTTTTCTTTCTC
1 TCTTTTTTCTTTTTT
16003518 TCTTTTTT
1 TCTTTTTT
16003526 TCCTGGCCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.06
15 47 0.65
16 21 0.29
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TCTTTTTTCTTTTTT
Found at i:16003509 original size:53 final size:53
Alignment explanation
Indices: 16003427--16003527 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
16003417 GAATTGAAAC
* *
16003427 TCTTTTTTTTTTCTTTTTTTCTTCTTTTTTCCTTT-TTTCCTTTTTTTCTCTTT
1 TCTTTTTTTCTTCTTTTTTTCTTCTTTTTTCCTTTCTCT-CTTTTTTTCTCTTT
*
16003480 TCTTTTTTTCTTCTTTCTTTTTTTCTTTTTT-CTTTCTCTCTTTTTTTC
1 TCTTTTTTTCTTCTTT-TTTTCTTCTTTTTTCCTTTCTCTCTTTTTTTC
16003528 CTGGCCTGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 28 0.65
54 15 0.35
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (53 bp):
TCTTTTTTTCTTCTTTTTTTCTTCTTTTTTCCTTTCTCTCTTTTTTTCTCTTT
Found at i:16003679 original size:18 final size:16
Alignment explanation
Indices: 16003640--16003682 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
16003630 GCTATTTTTT
16003640 CTTTTTTTTTTGGGGG
1 CTTTTTTTTTTGGGGG
* *
16003656 CCTTTTCTTTTTGGGCTG
1 -CTTTTTTTTTTGGG-GG
16003674 CTTTTTTTT
1 CTTTTTTTT
16003683 GCTTTGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.21, T:0.65
Consensus pattern (16 bp):
CTTTTTTTTTTGGGGG
Found at i:16003856 original size:3 final size:3
Alignment explanation
Indices: 16003850--16003877 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16003840 TTTTTTTTCT
16003850 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
16003878 CCTCCTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:16003978 original size:10 final size:10
Alignment explanation
Indices: 16003943--16003992 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
16003933 ACACCGGTAC
16003943 TCTT-TCTTT
1 TCTTCTCTTT
* *
16003952 TCTTCTCCTC
1 TCTTCTCTTT
16003962 T-TTCTCTTT
1 TCTTCTCTTT
16003971 TCTTCTCTTT
1 TCTTCTCTTT
*
16003981 TCTTCTTTTT
1 TCTTCTCTTT
16003991 TC
1 TC
16003993 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:16003990 original size:19 final size:19
Alignment explanation
Indices: 16003947--16003989 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
16003937 CGGTACTCTT
16003947 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
16003966 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
16003983 TTCTTTT
1 -TCTTTT
16003990 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:16010977 original size:12 final size:12
Alignment explanation
Indices: 16010960--16011042 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 12
16010950 GTAAACATTT
16010960 ATTAAATATTAA
1 ATTAAATATTAA
*
16010972 ATTAAAAATTAA
1 ATTAAATATTAA
*
16010984 TTTTAAGATGATTATA
1 -ATTAA-AT-ATTA-A
* *
16011000 TATAAAATTTTAA
1 -ATTAAATATTAA
**
16011013 A-TAAATAATTTT
1 ATTAAAT-ATTAA
16011025 ATTAAATATTAA
1 ATTAAATATTAA
16011037 ATTAAA
1 ATTAAA
16011043 AATAATATGG
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
11 4 0.08
12 24 0.45
13 10 0.19
14 4 0.08
15 6 0.11
16 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (12 bp):
ATTAAATATTAA
Found at i:16011294 original size:11 final size:11
Alignment explanation
Indices: 16011278--16011303 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16011268 ATATTACTTA
16011278 AAATAAAATAT
1 AAATAAAATAT
16011289 AAATAAAATAT
1 AAATAAAATAT
16011300 AAAT
1 AAAT
16011304 CTTTATTTTA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:16013106 original size:31 final size:31
Alignment explanation
Indices: 16013071--16013133 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
16013061 TAATATACAA
*
16013071 AACCGATTCACAACCCAAGTACTTGCCATAT
1 AACCGATTCACAACCCAAGTACTTACCATAT
16013102 AACCGATTCACAACCCAAGTACTTACCATAT
1 AACCGATTCACAACCCAAGTACTTACCATAT
16013133 A
1 A
16013134 TCGAAACGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.32, G:0.08, T:0.22
Consensus pattern (31 bp):
AACCGATTCACAACCCAAGTACTTACCATAT
Found at i:16014426 original size:18 final size:17
Alignment explanation
Indices: 16014381--16014428 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
16014371 ATATATAATT
16014381 TCACATTCAATTTCAAAA
1 TCACATTCAA-TTCAAAA
**
16014399 TCACATTTCAATTCATCA
1 TCACA-TTCAATTCAAAA
16014417 TCTACATTCAAT
1 TC-ACATTCAAT
16014429 ATCTCATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (17 bp):
TCACATTCAATTCAAAA
Found at i:16015214 original size:30 final size:31
Alignment explanation
Indices: 16015180--16015237 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
16015170 GTTTTCATAG
*
16015180 TTTTAGGTTAGGTTTT-TCTTTTCTTTTCTT
1 TTTTAGATTAGGTTTTCTCTTTTCTTTTCTT
16015210 TTTTAGATTAGGTTTTCTCTTTTCTTTT
1 TTTTAGATTAGGTTTTCTCTTTTCTTTT
16015238 TAGGATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.09, C:0.10, G:0.12, T:0.69
Consensus pattern (31 bp):
TTTTAGATTAGGTTTTCTCTTTTCTTTTCTT
Found at i:16017318 original size:237 final size:228
Alignment explanation
Indices: 16016817--16017377 Score: 818
Period size: 237 Copynumber: 2.4 Consensus size: 228
16016807 ATACAATAAT
* * *
16016817 TAATATATAATGTATTACTATTATATATAACTATTATTATATTATACATTATAATAAAAGATACA
1 TAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAAGATATA
* * *
16016882 ATATTACATGATATTATAATGTTTAATCATTGATGCATATATATAAACTATTAATATATTATATA
66 ATATTACATGATATTATAATGTTTAATCATTAATGCATATATATAAACCATTAATATATCATATA
* * *
16016947 CCATATGATATGATATAATACAGTAGGAGGGCTAACTTTCAAATGTACGAAAAGTATAGGGATTT
131 CCATATGATATGATATAATACAGTAGGAGGGCTAACTTTCAAATGTACGAAAAATATAGAGACTT
**
16017012 AAAGTATATTTCAAATAGTATAATAATAAACAA
196 AAAACATATTTCAAATAGTATAATAATAAACAA
* *
16017045 TAATATATAATATACTACCATTATATATAACTATTATTATATTATAGATTATAATAAAAGATATA
1 TAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAAGATATA
*
16017110 ATATTACATGATATTGTAATGTTTAATCATTAATGCATATATATAAATAAACCATTAATATATCA
66 ATATTACATGATATTATAATGTTTAATCATTAATGC--ATATAT--ATAAACCATTAATATATCA
*
16017175 TATACTC-TATGATATGATATTATATAGTATAGTAGGAGGGCTAACTTTCAAATGTACGAAAAAT
127 TATAC-CATATGATATG--A-TATA-A-TACAGTAGGAGGGCTAACTTTCAAATGTACGAAAAAT
* ** *
16017239 ATAGAGACTTAAAACATATTTGACGTAGTATAATTATAAACAA
186 ATAGAGACTTAAAACATATTTCAAATAGTATAATAATAAACAA
*
16017282 TAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAATATATA
1 TAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAAGATATA
* * *
16017347 GTATTACATGTTATTATAATGTTCAATCATT
66 ATATTACATGATATTATAATGTTTAATCATT
16017378 GTACATATAT
Statistics
Matches: 297, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
228 94 0.32
230 6 0.02
232 31 0.10
233 1 0.00
234 1 0.00
235 4 0.01
236 1 0.00
237 159 0.54
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (228 bp):
TAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAAGATATA
ATATTACATGATATTATAATGTTTAATCATTAATGCATATATATAAACCATTAATATATCATATA
CCATATGATATGATATAATACAGTAGGAGGGCTAACTTTCAAATGTACGAAAAATATAGAGACTT
AAAACATATTTCAAATAGTATAATAATAAACAA
Found at i:16031333 original size:19 final size:20
Alignment explanation
Indices: 16031287--16031333 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
16031277 CGTAATGACT
*
16031287 TTGATGAAAATAGAATTGAG
1 TTGATGAAAATAGAATTGAA
16031307 TTGA-GAAAATA-AATT-AA
1 TTGATGAAAATAGAATTGAA
16031324 TTGGATGAAA
1 TT-GATGAAA
16031334 TTGTAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.12
18 6 0.25
19 11 0.46
20 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (20 bp):
TTGATGAAAATAGAATTGAA
Found at i:16033493 original size:15 final size:15
Alignment explanation
Indices: 16033473--16033507 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
16033463 AATGTTATCA
*
16033473 TTATTTTTACTATTG
1 TTATTTTTAATATTG
16033488 TTATTTTTAATATTG
1 TTATTTTTAATATTG
16033503 TTATT
1 TTATT
16033508 ACTATTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATTTTTAATATTG
Found at i:16033709 original size:33 final size:31
Alignment explanation
Indices: 16033653--16033720 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
16033643 CATTATACAT
*
16033653 ATATTTTTATAATATATATATATACACGTAC
1 ATATTTTTATAATATATACATATACACGTAC
* * *
16033684 ATATTTTTATAACTTATTTACATATATATGTAC
1 ATATTTTTATAA--TATATACATATACACGTAC
16033717 ATAT
1 ATAT
16033721 ACATACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 12 0.39
33 19 0.61
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTTTATAATATATACATATACACGTAC
Found at i:16033747 original size:19 final size:20
Alignment explanation
Indices: 16033720--16033775 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
16033710 TATGTACATA
16033720 TACATACTTATATATTT-TT
1 TACATACTTATATATTTGTT
*
16033739 TATATACTT-TATAATTTGTT
1 TACATACTTATAT-ATTTGTT
16033759 TACATATCTATATATAT
1 TACATA-CT-TATATAT
16033776 CTATATACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 7 0.23
21 2 0.07
22 3 0.10
23 3 0.10
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (20 bp):
TACATACTTATATATTTGTT
Found at i:16034334 original size:73 final size:73
Alignment explanation
Indices: 16034215--16034350 Score: 245
Period size: 73 Copynumber: 1.9 Consensus size: 73
16034205 CAAACTCAAG
* * *
16034215 TTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATTATCCTTTTTTT
1 TTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCATTTTTT
16034280 CCTTAAGT
66 CCTTAAGT
16034288 TTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCATTTT
1 TTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCATTTT
16034351 CTAAACCCGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (73 bp):
TTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCATTTTTT
CCTTAAGT
Found at i:16038180 original size:6 final size:6
Alignment explanation
Indices: 16038171--16038227 Score: 71
Period size: 6 Copynumber: 9.3 Consensus size: 6
16038161 CTATGAGTTT
* *
16038171 AGAAAA AGAAGA AG-AAA AGAAAA AGAAAA AGAAAA AGAACAA AAAGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAA-AA AGA-AAA
16038220 AGAAAA AG
1 AGAAAA AG
16038228 GAGATGCCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 4 0.09
6 31 0.70
7 8 0.18
8 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:16038190 original size:11 final size:11
Alignment explanation
Indices: 16038174--16038227 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
16038164 TGAGTTTAGA
*
16038174 AAAAGAAGAAG
1 AAAAGAAAAAG
16038185 AAAAGAAAAAG
1 AAAAGAAAAAG
16038196 AAAAAGAAAAAG
1 -AAAAGAAAAAG
*
16038208 --AACAAAAAG
1 AAAAGAAAAAG
16038217 AAAAGAAAAAG
1 AAAAGAAAAAG
16038228 GAGATGCCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.22
11 18 0.49
12 11 0.30
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:16038220 original size:26 final size:29
Alignment explanation
Indices: 16038171--16038227 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 29
16038161 CTATGAGTTT
16038171 AGAAAAAGAAGAAGAAAAGAAAAAGAAAA
1 AGAAAAAGAAGAAGAAAAGAAAAAGAAAA
*
16038200 AGAAAAAGAA-CA-AAAAG-AAAAGAAAA
1 AGAAAAAGAAGAAGAAAAGAAAAAGAAAA
16038226 AG
1 AG
16038228 GAGATGCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 11 0.41
27 5 0.19
28 1 0.04
29 10 0.37
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (29 bp):
AGAAAAAGAAGAAGAAAAGAAAAAGAAAA
Found at i:16040164 original size:41 final size:41
Alignment explanation
Indices: 16040109--16040423 Score: 459
Period size: 41 Copynumber: 7.7 Consensus size: 41
16040099 TTAATTTAAA
* * * *
16040109 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
16040151 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
16040192 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
16040233 CAAATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
16040274 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
16040315 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
16040356 TAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
16040397 TAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
16040424 TTTTAAAACC
Statistics
Matches: 250, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
41 247 0.99
42 3 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:16043324 original size:134 final size:134
Alignment explanation
Indices: 16043015--16043593 Score: 494
Period size: 134 Copynumber: 4.3 Consensus size: 134
16043005 CCTCAAACAA
* *
16043015 CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAAATAACAGATCTTGCCTTCCTGTAC
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTTGCATTCCTGTAC
* * * * *
16043080 TGACAGTGAAGCAAATCGAAGACACTAGCCTTGCCTTCCTATACTGATAGCGGAGCAGACTGAAG
66 TGACAGCGAAGCAAATCAAAGACACCAGCCTTGCCTTCCTATACTGACAGCAGAGCAGACTGAAG
16043145 ATAG
131 ATAG
* **
16043149 CAAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCATTCCTGTAC
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTTGCATTCCTGTAC
* *
16043214 TGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAG
66 TGACAGCGAAGCAAATCAAAGACACCAGCCTTGCCTTCCTATACTGACAGCAGAGCAGACTGAAG
16043279 ATAG
131 ATAG
* * * * * * * *
16043283 CAGATCTTGCCTTTCTGTACTGACAGCGAAGCAGA-TCGAAGACACCA-ACCTTGCCTTTCTATA
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATAACAGATCTTGCATTCCTGTA
* * * * * * ** * * * * * * *
16043346 TTGACAGTGGAGTAAA-CTGAAGATAATAGATCTTGCGTTCCTGTACTAACAACAAAGTAGA-TC
65 CTGACAGCGAAGCAAATC-AAAGACACCAG-CCTTGCCTTCCTATACTGACAGCAGAGCAGACT-
* *
16043409 GAAGACAC
127 GAAGATAG
* * * * * * *
16043417 CAG-TCTTTCCTCCCTGGGT-TTG-CAGCGGAGCAAACTGAAGATAACAGATATTGCCTTCCTAT
1 CAGATCTTGCCTTCCT--GTACTGACAGCGGAGCAGACTGAAGATAACAGATCTTGCATTCCTGT
** * * ** * * * *
16043479 ACTGACAGCGAAATAGATCGAAGACACCAATCTTGCCTCCCTGGAT-TTG-TAGTAGAGCAGACT
64 ACTGACAGCGAAGCAAATCAAAGACACCAGCCTTGCCTTCCT--ATACTGACAGCAGAGCAGACT
16043542 GAAGATAG
127 GAAGATAG
* * *
16043550 CAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGA-TCGAAGATA
1 CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATA
16043594 CCATAGTTTG
Statistics
Matches: 351, Mismatches: 78, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
132 3 0.01
133 87 0.25
134 257 0.73
135 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (134 bp):
CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTTGCATTCCTGTAC
TGACAGCGAAGCAAATCAAAGACACCAGCCTTGCCTTCCTATACTGACAGCAGAGCAGACTGAAG
ATAG
Found at i:16043367 original size:178 final size:176
Alignment explanation
Indices: 16043016--16043596 Score: 566
Period size: 178 Copynumber: 3.3 Consensus size: 176
16043006 CTCAAACAAC
* * * * *
16043016 AGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAA-ATAACAGATCTTGCCTTCCTGTAC
1 AGATCTTGCCTTCCTGTACTAACAGCGAAGCAGA-TCAAAGACACCAG-TCTTGCCTTCCTGTAC
* * * * * *
16043080 TGACAG-TGAAGCAAATCGAAGACACTAG-CCTTGCCTTCCTATACTGATAGCGGAGCAGA-CTG
64 TGACAGCAG-AGCAACT-GAAGATAC-AGATCTTGCCTTCCTATACTGACAGCGAAGCAGATC-G
* * * * *
16043142 AAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGT
125 AAGACA-CCAATCTTGCCTTCCTATATTGACAGTGGAGCAGACTGAAGATAGT
* * *
16043195 AGATCTTGCATTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTTCCTGTACTG
* *
16043260 ACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGCAGATCGAAGA
66 ACAGCAGAGCA-ACTGAAGATA-CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGA
* * * * *
16043325 CACCAACCTTGCCTTTCTATATTGACAGTGGAGTAAACTGAAGATAAT
129 CACCAATCTTGCCTTCCTATATTGACAGTGGAGCAGACTGAAGATAGT
* * * * * * * *
16043373 AGATCTTGCGTTCCTGTACTAACAACAAAGTAGATCGAAGACACCAGTCTTTCCTCCCTGGGT-T
1 AGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTTCCT--GTAC
* * **
16043437 TG-CAGCGGAGCAAACTGAAGATAACAGATATTGCCTTCCTATACTGACAGCGAAATAGATCGAA
64 TGACAGCAGAGC-AACTGAAGAT-ACAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAA
* * * *
16043501 GACACCAATCTTGCCTCCCTGGAT-TTG-TAGTAGAGCAGACTGAAGATAGC
127 GACACCAATCTTGCCTTCCT--ATATTGACAGTGGAGCAGACTGAAGATAGT
* * *
16043551 AGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGATACCA
1 AGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCAAAGACACCA
16043597 TAGTTTGTAG
Statistics
Matches: 335, Mismatches: 55, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
178 250 0.75
179 80 0.24
180 5 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (176 bp):
AGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCAAAGACACCAGTCTTGCCTTCCTGTACTG
ACAGCAGAGCAACTGAAGATACAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACA
CCAATCTTGCCTTCCTATATTGACAGTGGAGCAGACTGAAGATAGT
Found at i:16043408 original size:89 final size:89
Alignment explanation
Indices: 16043015--16043596 Score: 480
Period size: 89 Copynumber: 6.5 Consensus size: 89
16043005 CCTCAAACAA
** * * * *
16043015 CAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTGAAAATAACAGATCTTGCCTTCCTGTA
1 CAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC-GAAGACACCA-ACCTTGCCTTCCTGTA
* * * * *
16043079 CTGACAGTGAAGCA-AATCGAAGACA-
64 TTGACAGCGGAGCAGACT-GAAGATAG
* * * ** * * *
16043104 CTAG-CCTTGCCTTCCTATACTGATAGCGGAGCAGA-CTGAAGATAGCAAATCTTGCCTTCCTGT
1 C-AGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC-GAAGACA-CCAACCTTGCCTTCCTGT
*
16043167 ACTGACAGCGGAGCAGACTGAAGATAG
63 ATTGACAGCGGAGCAGACTGAAGATAG
* * * * * *
16043194 TAGATCTTGCATTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTCCTGTACT
1 CAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTATT
*
16043259 GACAGCAGAGCAGACTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* * * *
16043283 CAGATCTTGCCTTTCTGTACTGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTTTCTATATT
1 CAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTATT
* * * *
16043348 GACAGTGGAGTAAACTGAAGATAA
66 GACAGCGGAGCAGACTGAAGATAG
* * * * * ** * *
16043372 TAGATCTTGCGTTCCTGTACTAACAACAAAGTAGATCGAAGACACCAGTCTTTCCTCCCTGGGT-
1 CAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTTCCT--GTA
* *
16043436 TTG-CAGCGGAGCAAACTGAAGATAA
64 TTGACAGCGGAGCAGACTGAAGATAG
* * * * * *
16043461 CAGATATTGCCTTCCTATACTGACAGCGAAA-TAGATCGAAGACACCAATCTTGCCTCCCTGGAT
1 CAGATCTTGCCTTCCTGTACTGACAGC-AAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTA-
* **
16043525 TTG-TAGTAGAGCAGACTGAAGATAG
64 TTGACAGCGGAGCAGACTGAAGATAG
* ** *
16043550 CAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGATACCA
1 CAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATCGAAGACACCA
16043597 TAGTTTGTAG
Statistics
Matches: 410, Mismatches: 71, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
87 1 0.00
88 2 0.00
89 363 0.89
90 42 0.10
91 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
CAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTATT
GACAGCGGAGCAGACTGAAGATAG
Found at i:16043473 original size:223 final size:224
Alignment explanation
Indices: 16043011--16043487 Score: 534
Period size: 223 Copynumber: 2.1 Consensus size: 224
16043001 TGTTCCTCAA
*
16043011 ACAACAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAAATAACAGATCTTGCCTTCCT
1 ACAACAGATCTTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAAATAACAGATCTTGCCTTCCT
* * * * *
16043076 GTACTGACAGTGAAGCAAATCGAAGACACTAGCCTTGCCTTCCTATACTGATAGCGGAGCAGACT
66 GTACTGACAGCGAAGCAAATCGAAGACACCAACCTTGCCTTCCTATACTGACAGCGGAGCAAACT
* * * ** * **
16043141 GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCAT
131 GAAGATAACAAATCTTGCCTTCCTGTACTAACAACAAAGCAGACTGAAGACACCAGATCTTGCAT
* *
16043206 TCCTGTACTGACAGCGAAGCAGATCAAAG
196 CCCTGTACTGACAGCGAAGCAAATCAAAG
* * * * *
16043235 ACACCAG-CCTTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTTCT
1 ACAACAGATCTTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAAATAACAGATCTTGCCTTCCT
* * * * *
16043299 GTACTGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTTTCTATATTGACAGTGGAGTAAACT
66 GTACTGACAGCGAAGCAAATCGAAGACACCAACCTTGCCTTCCTATACTGACAGCGGAGCAAACT
* * * * * *
16043364 GAAGATAATAGATCTTGCGTTCCTGTACTAACAACAAAGTAGA-TCGAAGACACCAG-TCTTTCC
131 GAAGATAACAAATCTTGCCTTCCTGTACTAACAACAAAGCAGACT-GAAGACACCAGATCTTGCA
* * *
16043427 TCCCTGGGT-TTG-CAGCGGAGCAAA-CTGAAG
195 TCCCT--GTACTGACAGCGAAGCAAATC-AAAG
* * *
16043457 ATAACAGATATTGCCTTCCTATACTGACAGC
1 ACAACAGATCTTGCCTTCCTGTACTGACAGC
16043488 GAAATAGATC
Statistics
Matches: 208, Mismatches: 40, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
221 1 0.00
222 28 0.13
223 171 0.82
224 8 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (224 bp):
ACAACAGATCTTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAAATAACAGATCTTGCCTTCCT
GTACTGACAGCGAAGCAAATCGAAGACACCAACCTTGCCTTCCTATACTGACAGCGGAGCAAACT
GAAGATAACAAATCTTGCCTTCCTGTACTAACAACAAAGCAGACTGAAGACACCAGATCTTGCAT
CCCTGTACTGACAGCGAAGCAAATCAAAG
Found at i:16043647 original size:31 final size:31
Alignment explanation
Indices: 16043581--16043647 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
16043571 AACAGTGAAG
* * * *
16043581 CAGATCGAAGATACCATAGTTTGTAGCGAAG
1 CAGATCGAAGACACCATAGTTTGCAGCAAAA
*
16043612 CAGATCGAAGACACCATGGTTTGCAGCAAAA
1 CAGATCGAAGACACCATAGTTTGCAGCAAAA
16043643 CAGAT
1 CAGAT
16043648 TAAAGATAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (31 bp):
CAGATCGAAGACACCATAGTTTGCAGCAAAA
Found at i:16044059 original size:44 final size:45
Alignment explanation
Indices: 16043946--16044072 Score: 118
Period size: 44 Copynumber: 2.9 Consensus size: 45
16043936 CTCATCTTTC
* *
16043946 TGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAAACCTTATCGCCA
1 TGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAACCTTATAGCCA
* ** * *
16043990 TGAAGTTGCAGT-GGGACA-AGTTGAAGATA-CAAGTCTTATATCCT
1 TGAAGTTGCAGTAGAG-CAGA-TTGAAGATAGCAAACCTTATAGCCA
* * *
16044034 TGAAGTTGCAGTAGAGCAGACTGAAGATAGTAAATCTTA
1 TGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAACCTTA
16044073 CCTCTGAAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
43 2 0.03
44 51 0.77
45 13 0.20
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (45 bp):
TGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAACCTTATAGCCA
Found at i:16045471 original size:3 final size:3
Alignment explanation
Indices: 16045427--16045453 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16045417 CTAGCTTTGC
16045427 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
16045454 TATACTCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16045729 original size:48 final size:50
Alignment explanation
Indices: 16045619--16045732 Score: 117
Period size: 52 Copynumber: 2.3 Consensus size: 50
16045609 ATATTTATAC
* * *
16045619 ATACATATTTTTTTTATATTTTATAACTTTAAAATATATATATACAGACAT
1 ATACAT-TTTTATATATATTTTATAACTTTAAAATATACATATACAGACAT
* * *
16045670 ATATTCTTTTTTATATATATTTTATAA-TCTTAAAATATACGTATACA-TC-T
1 ATA--CATTTTTATATATATTTTATAACT-TTAAAATATACATATACAGACAT
16045720 ATACATTTTTATA
1 ATACATTTTTATA
16045733 ATACATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
48 9 0.17
50 4 0.08
51 5 0.09
52 33 0.62
53 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.51
Consensus pattern (50 bp):
ATACATTTTTATATATATTTTATAACTTTAAAATATACATATACAGACAT
Found at i:16045766 original size:26 final size:26
Alignment explanation
Indices: 16045726--16045778 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16045716 ATCTATACAT
*
16045726 TTTTATAATACATATATGTACATATA
1 TTTTATAATACATATATATACATATA
** *
16045752 TTTTATAATTTATATGTATACATATA
1 TTTTATAATACATATATATACATATA
16045778 T
1 T
16045779 ATTTGTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTATAATACATATATATACATATA
Found at i:16046260 original size:73 final size:72
Alignment explanation
Indices: 16046150--16046291 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 72
16046140 TCTTTTCAAA
* * *
16046150 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACT-GTGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAAAAAAGATCGTGTCCTAACTTACTAG-GCATGATCC
*
16046214 TTTTTTTC
65 CTTTTTTC
16046222 CTCAAGTTTTTAAACGATCTCGGGAATTAAAAAAAGATCGTGTCCTAACTTACTAGGCATGATCC
1 CTCAAG-TTTTAAACGATCTCGGGAATTAAAAAAAGATCGTGTCCTAACTTACTAGGCATGATCC
16046287 CTTTT
65 CTTTT
16046292 CTAAACCCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 6 0.09
73 57 0.89
74 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAAAAAAGATCGTGTCCTAACTTACTAGGCATGATCCC
TTTTTTC
Found at i:16053418 original size:14 final size:15
Alignment explanation
Indices: 16053401--16053429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16053391 TTTTAGTTCA
16053401 AATTTT-TATTTTTG
1 AATTTTATATTTTTG
16053415 AATTTTATATTTTTG
1 AATTTTATATTTTTG
16053430 TTTAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
AATTTTATATTTTTG
Found at i:16054983 original size:20 final size:18
Alignment explanation
Indices: 16054958--16054997 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
16054948 TTTTTTTTAT
16054958 AAATTTAGAAAACATTATTA
1 AAATTTAGAAAA-A-TATTA
*
16054978 AAATTTATAAAAATATTA
1 AAATTTAGAAAAATATTA
16054996 AA
1 AA
16054998 TAATTTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATTTAGAAAAATATTA
Found at i:16055724 original size:21 final size:21
Alignment explanation
Indices: 16055677--16055734 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
16055667 TTTTATTTAA
*
16055677 TATTTTTAT-AATTT-TCAAT
1 TATTTTTATAAATTTATAAAT
*
16055696 AATGTTTTATAAATTTATAAAT
1 TAT-TTTTATAAATTTATAAAT
* *
16055718 TATTTTTTTAAAATTAT
1 TATTTTTATAAATTTAT
16055735 TTTTTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 17 0.55
22 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTTTATAAATTTATAAAT
Found at i:16055733 original size:14 final size:15
Alignment explanation
Indices: 16055709--16055748 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
16055699 GTTTTATAAA
16055709 TTTATAAATTA-TTTT
1 TTTA-AAATTATTTTT
16055724 TTTAAAATTATTTTT
1 TTTAAAATTATTTTT
16055739 TTTAAAATTA
1 TTTAAAATTA
16055749 AGCTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAAAATTATTTTT
Found at i:16055737 original size:13 final size:15
Alignment explanation
Indices: 16055709--16055744 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
16055699 GTTTTATAAA
16055709 TTTATAAATTATTTT
1 TTTATAAATTATTTT
16055724 TTTA-AAATTATTTT
1 TTTATAAATTATTTT
16055738 TTT-TAAA
1 TTTATAAA
16055745 ATTAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATAAATTATTTT
Found at i:16061578 original size:13 final size:13
Alignment explanation
Indices: 16061560--16061584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16061550 AGTTCTTTAT
16061560 TACTTTTGAGAAG
1 TACTTTTGAGAAG
16061573 TACTTTTGAGAA
1 TACTTTTGAGAA
16061585 ATTTGAGTGT
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:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TACTTTTGAGAAG
Found at i:16062197 original size:22 final size:21
Alignment explanation
Indices: 16062172--16062215 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
16062162 AAGCATATGA
*
16062172 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
16062194 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
16062215 A
1 A
16062216 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:16062224 original size:22 final size:22
Alignment explanation
Indices: 16062199--16062269 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
16062189 TCAATAAATG
16062199 ATTTGGTTAATACAATACTTAT
1 ATTTGGTTAATACAATACTTAT
* * **
16062221 ATTT-GATAA-GCATATGA-AAAT
1 ATTTGGTTAATACA-AT-ACTTAT
16062242 GATTTGGTTAATACAATACTTAT
1 -ATTTGGTTAATACAATACTTAT
16062265 ATTTG
1 ATTTG
16062270 ATAAGCATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.23
22 15 0.43
23 8 0.23
24 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTTGGTTAATACAATACTTAT
Found at i:16062242 original size:44 final size:44
Alignment explanation
Indices: 16062194--16062287 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
16062184 TATATTCAAT
16062194 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
16062238 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
16062282 AAATGA
1 AAATGA
16062288 AAGTCGAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:16065687 original size:17 final size:18
Alignment explanation
Indices: 16065665--16065698 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16065655 TTCTTCATTG
16065665 CTTTTCAAAG-AAAAGCA
1 CTTTTCAAAGTAAAAGCA
*
16065682 CTTTTCTAAGTAAAAGC
1 CTTTTCAAAGTAAAAGC
16065699 TCGTTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (18 bp):
CTTTTCAAAGTAAAAGCA
Found at i:16065698 original size:18 final size:18
Alignment explanation
Indices: 16065665--16065713 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16065655 TTCTTCATTG
*
16065665 CTTTTCAAAG-AAAAGCA
1 CTTTTCTAAGTAAAAGCA
*
16065682 CTTTTCTAAGTAAAAGCT
1 CTTTTCTAAGTAAAAGCA
*
16065700 CGTTTCTTAAGTAA
1 CTTTTC-TAAGTAA
16065714 CGAAGAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 9 0.33
18 11 0.41
19 7 0.26
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
CTTTTCTAAGTAAAAGCA
Found at i:16066504 original size:19 final size:19
Alignment explanation
Indices: 16066481--16066533 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
16066471 TTTCATAATT
16066481 TTTTTATGATTTTTATAAA-A
1 TTTTTAT-ATTTTT-TAAAGA
16066501 -TTTTATAATTTTTTAAAGA
1 TTTTTAT-ATTTTTTAAAGA
16066520 TTTTTATATTTTTT
1 TTTTTATATTTTTT
16066534 CTAACTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.13
19 20 0.67
20 6 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTATATTTTTTAAAGA
Found at i:16066509 original size:30 final size:30
Alignment explanation
Indices: 16066470--16066527 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16066460 TTTTTTCTAG
* *
16066470 ATTTCATAATTTTTTTATGATTTTTATAAA
1 ATTTCATAATTTTTTAAAGATTTTTATAAA
*
16066500 ATTTTATAATTTTTTAAAGATTTTTATA
1 ATTTCATAATTTTTTAAAGATTTTTATA
16066528 TTTTTTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTTCATAATTTTTTAAAGATTTTTATAAA
Found at i:16066532 original size:28 final size:29
Alignment explanation
Indices: 16066501--16066594 Score: 95
Period size: 28 Copynumber: 3.3 Consensus size: 29
16066491 TTTTATAAAA
* *
16066501 TTTTATAATTTT-TTAAAGATTTTTATATT
1 TTTTATAATTTTATTAAA-ATTTTAATAAT
* * *
16066530 TTTTCTAACTTTTAATAAAATTTAAAT-AT
1 TTTTATAA-TTTTATTAAAATTTTAATAAT
*
16066559 TTTTATATTTTTATTAAAA-TTTAATAAT
1 TTTTATAATTTTATTAAAATTTTAATAAT
16066587 TTTTATAA
1 TTTTATAA
16066595 AAAATTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
27 5 0.10
28 19 0.37
29 14 0.27
30 10 0.19
31 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTATAATTTTATTAAAATTTTAATAAT
Found at i:16066582 original size:38 final size:39
Alignment explanation
Indices: 16066481--16066586 Score: 119
Period size: 38 Copynumber: 2.7 Consensus size: 39
16066471 TTTCATAATT
* **
16066481 TTTTTATGATTTTTA-TAAAATTTTATAATTTTTTAAAGA
1 TTTTTAT-ATTTTTATTAAAATTTAATAATAATTTAAAGA
** *
16066520 TTTTTATATTTTT-TCTAACTTTTAATAA-AATTTAAATA
1 TTTTTATATTTTTAT-TAAAATTTAATAATAATTTAAAGA
16066558 TTTTTATATTTTTATTAAAATTTAATAAT
1 TTTTTATATTTTTATTAAAATTTAATAAT
16066587 TTTTATAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
38 37 0.67
39 18 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (39 bp):
TTTTTATATTTTTATTAAAATTTAATAATAATTTAAAGA
Found at i:16067475 original size:21 final size:21
Alignment explanation
Indices: 16067449--16067502 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
16067439 ACCGCTATTT
* *
16067449 CTAATCTCACTGCTACAATAC
1 CTAATCTCACCGCTACAATAA
* *
16067470 CTAATCTCACCGCTATAGTAA
1 CTAATCTCACCGCTACAATAA
16067491 CTAATCTCACCG
1 CTAATCTCACCG
16067503 TCACCGCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.28
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:16071310 original size:29 final size:29
Alignment explanation
Indices: 16071263--16071323 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
16071253 CCTTATAAGT
*
16071263 AAATTTTAAAATATTTTTATAAT-TATTTA
1 AAATTTTAAAATATGTTTA-AATGTATTTA
16071292 AAATTTTAAAA-ATGGTTTAAATGTATTTA
1 AAATTTTAAAATAT-GTTTAAATGTATTTA
16071321 AAA
1 AAA
16071324 AGAAATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
AAATTTTAAAATATGTTTAAATGTATTTA
Found at i:16075272 original size:20 final size:21
Alignment explanation
Indices: 16075243--16075283 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16075233 AATTTATAAT
* *
16075243 GTTTTTTAAGTTTGAT-GATA
1 GTTTTATAAGCTTGATAGATA
16075263 GTTTTATAAGCTTGATAGATA
1 GTTTTATAAGCTTGATAGATA
16075284 AAAAAAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (21 bp):
GTTTTATAAGCTTGATAGATA
Found at i:16079875 original size:7 final size:7
Alignment explanation
Indices: 16079863--16079892 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16079853 CTCCGATATG
16079863 CCATTGC
1 CCATTGC
16079870 CCATTGC
1 CCATTGC
16079877 CCATTGC
1 CCATTGC
16079884 CCATTGC
1 CCATTGC
16079891 CC
1 CC
16079893 TGTGAAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.47, G:0.13, T:0.27
Consensus pattern (7 bp):
CCATTGC
Found at i:16080018 original size:22 final size:21
Alignment explanation
Indices: 16079984--16080028 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
16079974 CATATATCCA
16079984 TTTAATTATTTTGACTTCATAC
1 TTTAATTATTTTGACTTCA-AC
16080006 TTTAATCTA-TTTGACTTCAAC
1 TTTAAT-TATTTTGACTTCAAC
16080027 TT
1 TT
16080029 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 16 0.73
23 2 0.09
ACGTcount: A:0.27, C:0.16, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTAATTATTTTGACTTCAAC
Found at i:16094661 original size:3 final size:3
Alignment explanation
Indices: 16094653--16094685 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16094643 TATATGGGTT
16094653 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
16094686 AGAGGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16117186 original size:45 final size:45
Alignment explanation
Indices: 16117119--16117298 Score: 213
Period size: 45 Copynumber: 4.0 Consensus size: 45
16117109 ATAGATACAT
* * * **
16117119 GTGG-ATCAGCACACAAC-ACCACCCTTATAGTAAATGATACTAG
1 GTGGAATCAGCACACAGCAACCACCCTTATAATCAATGATACCCG
* * * *
16117162 GTGGAATTAGCACATAGCAACCA-CCTCCATAATCAATGGTACCCG
1 GTGGAATCAGCACACAGCAACCACCCT-TATAATCAATGATACCCG
* *
16117207 GTGAAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCG
1 GTGGAATCAGCACACAGCAACCACCCTTATAATCAATGATACCCG
* *
16117252 GTGGAATCAGCACACAACAACCACCTTTATAATCAATGATACCCG
1 GTGGAATCAGCACACAGCAACCACCCTTATAATCAATGATACCCG
16117297 GT
1 GT
16117299 ACATGTAGTA
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
43 4 0.03
44 13 0.11
45 97 0.84
46 2 0.02
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (45 bp):
GTGGAATCAGCACACAGCAACCACCCTTATAATCAATGATACCCG
Found at i:16117275 original size:90 final size:89
Alignment explanation
Indices: 16117123--16117298 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 89
16117113 ATACATGTGG
* * * * *
16117123 ATCAGCACACAACACCACCCTTATAGTAAATGATACTAGGTGGAATTAGCACATAGCAACCACCT
1 ATCAGCACACAACACCACCCTTATAATAAATGATACCAGGTGGAATCAGCACACAACAACCACCT
*
16117188 CCATAATCAATGGTACCCGGTGAA
66 CCATAATCAATGATACCCGGTGAA
* * * *
16117212 ATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAACAACCACC
1 ATCAGCACACAAC-ACCACCCTTATAATAAATGATACCAGGTGGAATCAGCACACAACAACCACC
**
16117277 TTTATAATCAATGATACCCGGT
65 TCCATAATCAATGATACCCGGT
16117299 ACATGTAGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
89 12 0.16
90 62 0.84
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.20
Consensus pattern (89 bp):
ATCAGCACACAACACCACCCTTATAATAAATGATACCAGGTGGAATCAGCACACAACAACCACCT
CCATAATCAATGATACCCGGTGAA
Found at i:16119771 original size:41 final size:39
Alignment explanation
Indices: 16119640--16119773 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
16119630 CCAGTTTGGT
** * *
16119640 ACCCAGTACCTCATC-AGATAATTCGAAGTAATAAGTTGAT
1 ACCCAGTGTCTCATCGA-ATAATCCGAAGTAATAA-TTGAC
* * *
16119680 ACCCAGTGTCTTATCGAATAAACCGAAGT-A-AATTGGC
1 ACCCAGTGTCTCATCGAATAATCCGAAGTAATAATTGAC
*
16119717 ACCCAGTGCCTCATCGAATTAATCCGAAGTAATAGATTGAC
1 ACCCAGTGTCTCATCGAA-TAATCCGAAGTAATA-ATTGAC
*
16119758 ACTCAGTGTCTCATCG
1 ACCCAGTGTCTCATCG
16119774 GCTAAAAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 19 0.25
38 12 0.16
39 2 0.03
40 23 0.30
41 20 0.26
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
ACCCAGTGTCTCATCGAATAATCCGAAGTAATAATTGAC
Found at i:16120058 original size:40 final size:40
Alignment explanation
Indices: 16120014--16120150 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
16120004 GGCGTTTGGA
16120014 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
* * * * * *
16120054 TAAAAAATGCCACTAAAGATCAAGTATTACCGGTGCTTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
*
16120094 T-AAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
* *
16120131 CTAAAAAGCGCCGCAAAAAA
1 -TAAAAAACGCCGCTAAAAA
16120151 CCTAAGTCCA
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
37 4 0.05
38 11 0.14
39 30 0.38
40 35 0.44
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
Done.