Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 141 of 199
Found at i:42512408 original size:4 final size:4
Alignment explanation
Indices: 42512392--42512430 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
42512382 ATGAGTTATT
* * *
42512392 TAAG TAAG CAAG TAAG TAAA TAAG TAAG TGAG TAAG TAA
1 TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAA
42512431 AGAAGCGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (4 bp):
TAAG
Found at i:42512557 original size:51 final size:51
Alignment explanation
Indices: 42512481--42512585 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
42512471 GTATGATTAT
42512481 TTATGATAAATGTTGTTATTTATTTACTTGTAAACTTACTAAGTTTTATGC
1 TTATGATAAATGTTGTTATTTATTTACTTGTAAACTTACTAAGTTTTATGC
42512532 TTATGATAAATGTTGTTATTTATTTACTTGTAAACTTACTAAGTTTTATGC
1 TTATGATAAATGTTGTTATTTATTTACTTGTAAACTTACTAAGTTTTATGC
42512583 TTA
1 TTA
42512586 CTTTCTTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (51 bp):
TTATGATAAATGTTGTTATTTATTTACTTGTAAACTTACTAAGTTTTATGC
Found at i:42515817 original size:2 final size:2
Alignment explanation
Indices: 42515810--42515853 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
42515800 ACAATCACTG
42515810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42515852 AT
1 AT
42515854 CATCTAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42516281 original size:46 final size:42
Alignment explanation
Indices: 42516201--42516285 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 42
42516191 AATACTTATA
* * *
42516201 AAATTAAGTTATATTTTTTTAAATGTGTTATTATCACAATTT
1 AAATTAAATTATATTATTTTAAATGTATTATTATCACAATTT
42516243 AAATTAAATTATAATTATTTTAAATGTATAATAATTATCACAA
1 AAATTAAATTAT-ATTATTTTAAATGTAT--T-ATTATCACAA
42516286 AATTTTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.31
43 14 0.39
45 1 0.03
46 10 0.28
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (42 bp):
AAATTAAATTATATTATTTTAAATGTATTATTATCACAATTT
Found at i:42525770 original size:14 final size:14
Alignment explanation
Indices: 42525753--42525780 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42525743 TTCTCACATT
42525753 TATTTTCTTTTCTC
1 TATTTTCTTTTCTC
42525767 TATTTTCTTTTCTC
1 TATTTTCTTTTCTC
42525781 CAGATTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTCTTTTCTC
Found at i:42529165 original size:18 final size:17
Alignment explanation
Indices: 42529144--42529181 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
42529134 ATATTAAGAA
*
42529144 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
42529162 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
42529179 TTT
1 TTT
42529182 AATAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:42529188 original size:15 final size:15
Alignment explanation
Indices: 42529157--42529208 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
42529147 TATTAAATTA
*
42529157 TATATTTTTACTAAAT
1 TATATTTTTAAT-AAT
42529173 TATATTTTTAATAAT
1 TATATTTTTAATAAT
42529188 TAT-TATTTT-A-AAT
1 TATAT-TTTTAATAAT
42529201 TATATTTT
1 TATATTTT
42529209 ATAGTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
15 10 0.30
16 11 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTTTTAATAAT
Found at i:42529192 original size:18 final size:18
Alignment explanation
Indices: 42529152--42529193 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
42529142 AATTTTATTA
*
42529152 AATTA-TATATTTTTACT
1 AATTATTATATTTTTAAT
42529169 AA--ATTATATTTTTAAT
1 AATTATTATATTTTTAAT
42529185 AATTATTAT
1 AATTATTAT
42529194 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 2 0.10
18 5 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTATTATATTTTTAAT
Found at i:42529217 original size:28 final size:29
Alignment explanation
Indices: 42529168--42529223 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
42529158 ATATTTTTAC
42529168 TAAATTATATTTTTAATAATTAT-TATTT
1 TAAATTATATTTTTAATAATTATATATTT
*
42529196 TAAATTATATTTTATAGT-ATTATATATT
1 TAAATTATATTTT-TAATAATTATATATT
42529224 ATGATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TAAATTATATTTTTAATAATTATATATTT
Found at i:42529310 original size:15 final size:15
Alignment explanation
Indices: 42529279--42529330 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
42529269 TATTAAATTA
*
42529279 TATATTTTTACTAAAT
1 TATATTTTTAAT-AAT
42529295 TATATTTTTAATAAT
1 TATATTTTTAATAAT
42529310 TAT-TATTTT-A-AAT
1 TATAT-TTTTAATAAT
42529323 TATATTTT
1 TATATTTT
42529331 ATAGTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
15 10 0.30
16 11 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTTTTAATAAT
Found at i:42529339 original size:28 final size:29
Alignment explanation
Indices: 42529290--42529345 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
42529280 ATATTTTTAC
42529290 TAAATTATATTTTTAATAATTAT-TATTT
1 TAAATTATATTTTTAATAATTATGTATTT
*
42529318 TAAATTATATTTTATAGT-ATTATGTATT
1 TAAATTATATTTT-TAATAATTATGTATT
42529346 ATGATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
TAAATTATATTTTTAATAATTATGTATTT
Found at i:42529494 original size:120 final size:120
Alignment explanation
Indices: 42529068--42529682 Score: 1074
Period size: 122 Copynumber: 5.1 Consensus size: 120
42529058 GATTCAAATT
42529068 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
*
42529130 TTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAA
66 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAA
42529187 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
*
42529252 TTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAA
66 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAA
* *
42529309 TTATTATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
42529374 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
66 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
*
42529429 TAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
42529494 TTTAAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
66 TTT-AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
* * *
42529550 TTATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
42529615 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
66 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
* *
42529670 TAATTATGTTAAA
1 TTATTATTTTAAA
42529683 ATATGATTAA
Statistics
Matches: 480, Mismatches: 12, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
119 54 0.11
120 136 0.28
121 116 0.24
122 174 0.36
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (120 bp):
TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATA
TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAA
Found at i:42529521 original size:17 final size:18
Alignment explanation
Indices: 42529501--42529541 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
42529491 ATATTTAAAT
42529501 ATTA-AGAATTTTATTAA
1 ATTATAGAATTTTATTAA
* *
42529518 ATTATATATTTTTATTAA
1 ATTATAGAATTTTATTAA
42529536 ATTATA
1 ATTATA
42529542 TTTAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATAGAATTTTATTAA
Found at i:42529532 original size:18 final size:18
Alignment explanation
Indices: 42529509--42529662 Score: 80
Period size: 18 Copynumber: 7.9 Consensus size: 18
42529499 ATATTAAGAA
42529509 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
42529527 TTTTATTAAATTATATTTAAT
1 TTTTATTAAATTATA--T-AT
42529548 AATTATTATTTTAAATTATAT-T
1 --TT-TTA--TTAAATTATATAT
* *
42529570 TTATAGTATTATATAATATGA-
1 TT-T--TATTAAATTATAT-AT
*
42529591 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
42529610 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
42529629 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
42529647 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
42529663 TTAATAATAA
Statistics
Matches: 106, Mismatches: 13, Indels: 34
0.69 0.08 0.22
Matches are distributed among these distances:
17 4 0.04
18 45 0.42
19 11 0.10
20 20 0.19
21 7 0.07
22 3 0.03
23 2 0.02
24 4 0.04
26 10 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:42529561 original size:241 final size:240
Alignment explanation
Indices: 42529068--42529682 Score: 1083
Period size: 241 Copynumber: 2.5 Consensus size: 240
42529058 GATTCAAATT
42529068 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--TAAGAATAT
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTAAGAATAT
* *
42529131 TTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATTATTATTT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTT
42529196 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
129 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
42529261 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAA
194 AAGAATTTTATTAAATTATATATTTTTACTAAATTATA-TTTTAATAA
* *
42529309 TTATTATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA-TTAAGAATA
42529374 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTT
65 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTT
42529439 AAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATT
130 AAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-AATATT
*
42529504 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTAATAA
194 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTAATAA
* *
42529550 TTATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATA
1 TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT-TAAGAATA
*
42529615 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTT
65 TTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTT
42529680 AAA
130 AAA
42529683 ATATGATTAA
Statistics
Matches: 359, Mismatches: 10, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
240 1 0.00
241 187 0.52
242 75 0.21
243 43 0.12
244 53 0.15
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (240 bp):
TTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTAAGAATAT
TTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTA
AATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAA
GAATTTTATTAAATTATATATTTTTACTAAATTATATTTTAATAA
Found at i:42529868 original size:39 final size:41
Alignment explanation
Indices: 42529809--42529914 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 41
42529799 TTTCCTTATG
* * *
42529809 CTATTACACCTCTATCCCATTCAACCAAACACAAGA-ATAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAGATAC
* *
42529849 C-ATTACGCCTTTATTCCATTCCATTCAACCAAACAAAAGAGTTAC
1 CTATTACGCC-----TCTATTCCATTCAACCAAACAAAAGAGATAC
42529894 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
42529915 ACGCATCTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
40 1 0.02
41 10 0.19
44 23 0.43
45 4 0.08
46 8 0.15
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAGATAC
Found at i:42529911 original size:46 final size:44
Alignment explanation
Indices: 42529825--42529914 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
42529815 CACCTCTATC
* *
42529825 CCATTCAACCAAACACAAGAATACCATTACGCCTTTATTCCATT
1 CCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATT
*
42529869 CCATTCAACCAAACAAAAGAGTTACCTATTACGCCTCTATTCCATT
1 CCATTCAACCAAACAAAAGA-ATACC-ATTACGCCTCTATTCCATT
42529915 ACGCATCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.46
45 4 0.10
46 18 0.44
ACGTcount: A:0.36, C:0.31, G:0.06, T:0.28
Consensus pattern (44 bp):
CCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATT
Found at i:42529917 original size:16 final size:16
Alignment explanation
Indices: 42529896--42529948 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
42529886 AGAGTTACCT
42529896 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* * *
42529912 ATTACGCATCTAATCA
1 ATTACGCCTCTATTCC
42529928 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
42529944 ATTAC
1 ATTAC
42529949 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:42530773 original size:14 final size:13
Alignment explanation
Indices: 42530705--42530764 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
42530695 TTTTACCCCG
*
42530705 AACCCAAAACTCTA
1 AACCCTAAACTC-A
*
42530719 AACCCT-AACCCAA
1 AACCCTAAACTC-A
42530732 AACCC-AAACTCA
1 AACCCTAAACTCA
*
42530744 AACCTTAAACTCA
1 AACCCTAAACTCA
42530757 AACCCTAA
1 AACCCTAA
42530765 GTCTCAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 5 0.13
13 28 0.74
14 5 0.13
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCCTAAACTCA
Found at i:42533424 original size:17 final size:17
Alignment explanation
Indices: 42533352--42533635 Score: 133
Period size: 17 Copynumber: 15.7 Consensus size: 17
42533342 ATGAGAATTT
* *
42533352 TTTTTGAAACACTAAAA
1 TTTTTAAAACACGAAAA
* * * *
42533369 CTTTTGAAATACGAGAA
1 TTTTTAAAACACGAAAA
42533386 -TTTTAAGAACACGAAAA
1 TTTTTAA-AACACGAAAA
42533403 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
** * *
42533420 TTTTTGTAACAAGAGAATT
1 TTTTTAAAACACGA-AA-A
**
42533439 TTTTTGAAAACACGAGGATTTT
1 TTTTT-AAAACACGA--A--AA
*
42533461 TTTTTGAAAACACAAAAAA
1 TTTTT-AAAACAC-GAAAA
* * *
42533480 TTTGTGAAACACGAGAAT
1 TTTTTAAAACACGA-AAA
** *
42533498 TTTTTGAAAACGTGAGAA
1 TTTTT-AAAACACGAAAA
42533516 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
** * *
42533534 TTTTCGAAGCACGAGAAT
1 TTTTTAAAACACGA-AAA
42533552 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
42533570 TTTTTTAAAACACGAAAA
1 -TTTTTAAAACACGAAAA
* * *
42533588 TATTTGAAACATGAGAAA
1 TTTTTAAAACACGA-AAA
42533606 TTTTTTTAAAACA--AAAA
1 --TTTTTAAAACACGAAAA
42533623 TTTTTGAAAACAC
1 TTTTT-AAAACAC
42533636 AGATTTTTTG
Statistics
Matches: 204, Mismatches: 44, Indels: 38
0.71 0.15 0.13
Matches are distributed among these distances:
15 5 0.02
16 11 0.05
17 64 0.31
18 64 0.31
19 27 0.13
20 15 0.07
21 3 0.01
22 14 0.07
23 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:42533460 original size:54 final size:55
Alignment explanation
Indices: 42533351--42533699 Score: 281
Period size: 54 Copynumber: 6.3 Consensus size: 55
42533341 CATGAGAATT
* * *
42533351 TTTTTTG-AAACACTAAAACTTTTGAAATACGAGAA--TTTT-AAGAACACGAAAA
1 TTTTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAA-AACACGAAAA
* * **
42533403 -TTTTT-AAAACACGAAAATTTTTGTAACAAGAGAATTTTTTTGAAAACACGAGGATTT
1 TTTTTTGAAAACACGAAAATTTTTGAAACACGAGAA-TTTTTTGAAAACACGA--A-AA
* * ** *
42533460 TTTTTTGAAAACACAAAAAATTTGTGAAACACGAGAATTTTTTGAAAACGTGAGAA
1 TTTTTTGAAAACAC-GAAAATTTTTGAAACACGAGAATTTTTTGAAAACACGAAAA
* *
42533516 -TTTTTGAAAACACGAAAATTTTCGAAGCACGAGAATTTTTTGAAAACACGAAAA
1 TTTTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAAAACACGAAAA
* * *
42533570 TTTTTT-AAAACACGAAAATATTTGAAACATGAGAAATTTTTTTAAAACA--AAAA
1 TTTTTTGAAAACACGAAAATTTTTGAAACACGAG-AATTTTTTGAAAACACGAAAA
*** * * * *
42533623 -TTTTTGAAAACACAGATTTTTTGTTTTGAAA-ACAAGAATTTTTTTTAAGACACGAGAA
1 TTTTTTGAAAACAC-GA--AAAT-TTTTGAAACACGAGAA-TTTTTTGAAAACACGAAAA
*
42533681 TTTTTTGAAAATACGAAAA
1 TTTTTTGAAAACACGAAAA
42533700 CATGAAATTT
Statistics
Matches: 235, Mismatches: 40, Indels: 40
0.75 0.13 0.13
Matches are distributed among these distances:
51 28 0.12
52 5 0.02
53 11 0.05
54 70 0.30
55 36 0.15
56 17 0.07
57 7 0.03
58 10 0.04
59 33 0.14
60 18 0.08
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (55 bp):
TTTTTTGAAAACACGAAAATTTTTGAAACACGAGAATTTTTTGAAAACACGAAAA
Found at i:42533652 original size:22 final size:22
Alignment explanation
Indices: 42533624--42533666 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42533614 AAACAAAAAT
42533624 TTTTGAAAACACAG-ATTTTTTG
1 TTTTGAAAACA-AGAATTTTTTG
42533646 TTTTGAAAACAAGAATTTTTT
1 TTTTGAAAACAAGAATTTTTT
42533667 TTAAGACACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTTGAAAACAAGAATTTTTTG
Found at i:42533864 original size:9 final size:9
Alignment explanation
Indices: 42533845--42533905 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
42533835 CAAATTGAAT
42533845 TTTTCTTTTC
1 TTTT-TTTTC
42533855 TTTTTTTTC
1 TTTTTTTTC
42533864 -TTTTTTTC
1 TTTTTTTTC
*
42533872 --TTTTCTC
1 TTTTTTTTC
42533879 TTTTTTTATC
1 TTTTTTT-TC
*
42533889 TTTTTTCTC
1 TTTTTTTTC
42533898 TTTTTTTT
1 TTTTTTTT
42533906 TTCTTCTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 6 0.14
8 8 0.18
9 18 0.41
10 12 0.27
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:42534059 original size:8 final size:7
Alignment explanation
Indices: 42534046--42534077 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
42534036 TAAAAAATAA
42534046 TTTTTTC
1 TTTTTTC
42534053 TTTTTTTC
1 -TTTTTTC
42534061 TTTTTTC
1 TTTTTTC
42534068 TTTTTTC
1 TTTTTTC
42534075 TTT
1 TTT
42534078 CCCCCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:42534103 original size:12 final size:12
Alignment explanation
Indices: 42534088--42534132 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
42534078 CCCCCTTTCT
42534088 TTTTCCTTCTTC
1 TTTTCCTTCTTC
*
42534100 TTTTTCTTCTTC
1 TTTTCCTTCTTC
* *
42534112 CTTTCTTTCTTC
1 TTTTCCTTCTTC
42534124 TTCTTCCTT
1 TT-TTCCTT
42534133 GTTTGGCCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCCTTCTTC
Found at i:42534126 original size:18 final size:17
Alignment explanation
Indices: 42534049--42534132 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 17
42534039 AAAATAATTT
*
42534049 TTTCTTTTT-TTCTT-T
1 TTTCTTTTTCTTCTTCC
**
42534064 TTTCTTTTTTCTTTCCCCC
1 TTTC-TTTTTC-TTCTTCC
42534083 TTTCTTTTTC--CTT-C
1 TTTCTTTTTCTTCTTCC
42534097 -TTCTTTTTCTTCTTCC
1 TTTCTTTTTCTTCTTCC
42534113 TTTCTTTCTTCTTCTTCC
1 TTTCTTT-TTCTTCTTCC
42534131 TT
1 TT
42534133 GTTTGGCCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
15 8 0.15
16 6 0.11
17 6 0.11
18 21 0.38
19 4 0.07
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTTTTTCTTCTTCC
Found at i:42534685 original size:59 final size:60
Alignment explanation
Indices: 42534607--42534752 Score: 222
Period size: 59 Copynumber: 2.5 Consensus size: 60
42534597 TAATTTCAAG
* *
42534607 AAAGTTTAAGGGTCAAAATGTAATTTTAAGAAATTTTAAGGGTCAAAATGTAA-TTTAGA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATGTAATTTTAGA
** * * *
42534666 AAAGTTTAGGGGTTGAAATGTAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTAGA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATGTAATTTTAGA
42534726 AAAGTTTAGGGGTCAAAATGTAATTTT
1 AAAGTTTAGGGGTCAAAATGTAATTTT
42534753 TTTAAACACG
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 46 0.60
60 31 0.40
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.36
Consensus pattern (60 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATGTAATTTTAGA
Found at i:42534752 original size:30 final size:31
Alignment explanation
Indices: 42534577--42534752 Score: 211
Period size: 30 Copynumber: 5.9 Consensus size: 31
42534567 AAATGCAGTA
* * ** *
42534577 AAAGTTTTGGGGCCAAAACCTAATTTCA-AG
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAG
*
42534607 AAAGTTTAAGGGTCAAAATGTAATTTTA-AG
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAG
* *
42534637 AAATTTTAAGGGTCAAAATGTAA-TTTAGA-
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAG
**
42534666 AAAGTTTAGGGGTTGAAATGTAATTTT-GAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAG
*
42534696 AAAGTTTAGGGGTTAAAATGTAATTTTAGA-
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGAG
42534726 AAAGTTTAGGGGTCAAAATGTAATTTT
1 AAAGTTTAGGGGTCAAAATGTAATTTT
42534753 TTTAAACACG
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
29 25 0.19
30 102 0.79
31 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (31 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTAGAG
Found at i:42535014 original size:78 final size:77
Alignment explanation
Indices: 42534904--42535126 Score: 324
Period size: 78 Copynumber: 2.9 Consensus size: 77
42534894 AGCAGAAATC
* *
42534904 AAGAATAGCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAA
1 AAGAATATCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAA
*
42534969 AAA-AGAAATTGAA
65 AAACAAAAATTG-A
* * *
42534982 AAGAATATCTCGGCATACGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAA
1 AAGAATATCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAA
42535047 AAAACAAAAATTGA
64 AAAACAAAAATTGA
*
42535061 AA-AATATCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAA
1 AAGAATATCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAA
42535125 AA
65 AA
42535127 CAGACCTCTC
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
76 4 0.03
77 6 0.05
78 100 0.76
79 12 0.09
80 9 0.07
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (77 bp):
AAGAATATCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA
AACAAAAATTGA
Found at i:42535141 original size:35 final size:35
Alignment explanation
Indices: 42535095--42535165 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
42535085 GGCTCAACTC
42535095 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
42535130 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
42535165 A
1 A
42535166 AATTTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (35 bp):
ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:42535213 original size:110 final size:113
Alignment explanation
Indices: 42535017--42535240 Score: 355
Period size: 110 Copynumber: 2.0 Consensus size: 113
42535007 GGCTCAACTC
* * *
42535017 ACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATCTCAGCGTGCGACC
1 ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTACGACC
*
42535082 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
66 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
* * *
42535130 ACCTCTCGCAATATGAGTTGA-TTTTAG-AAAAACAGAAATT-TAAAATACCTCAGCGTACGACC
1 ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTACGACC
*
42535192 CAATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
66 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
42535240 A
1 A
42535241 AATTTAAAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
110 66 0.64
111 12 0.12
112 5 0.05
113 20 0.19
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (113 bp):
ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTACGACC
CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:42535294 original size:185 final size:190
Alignment explanation
Indices: 42534939--42535311 Score: 551
Period size: 185 Copynumber: 2.0 Consensus size: 190
42534929 GGCTCAACTC
* *
42534939 ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATTGAAAAGAATATCTCGGCATACGACC
1 ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATT-AAAAGAATACCTCAGCATACGACC
* * *
42535004 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATC
65 CAAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACC
*
42535069 TCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
130 TCAGCGTGCGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTAGAAAAACAG
* * * *
42535130 ACCTCTCGCAATATGAGTTGATT-TTAGAAAAACAGAAATT-TAA-AATACCTCAGCGTACGACC
1 ACCTCTCGCAACATGAGTTGATTCTT-GAAAAAAAGAAATTAAAAGAATACCTCAGCATACGACC
* * * *
42535192 CAATGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAG-AAAAACAGAAATT-TAAAATACC
65 CAAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACC
*
42535254 TCAGCGTGCGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAAAA
130 TCAGCGTGCGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTAGAAAAA
42535312 GACAGAAATT
Statistics
Matches: 166, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
185 63 0.38
186 12 0.07
187 5 0.03
188 47 0.28
189 2 0.01
190 2 0.01
191 35 0.21
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (190 bp):
ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATTAAAAGAATACCTCAGCATACGACCC
AAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCT
CAGCGTGCGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:42535355 original size:78 final size:76
Alignment explanation
Indices: 42535130--42535794 Score: 838
Period size: 78 Copynumber: 8.6 Consensus size: 76
42535120 AGAAAAACAG
* * ** *
42535130 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATT-TAAAATACCTCAGCGTACGACCCA
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCG
*
42535194 ATGCTCAACTC
66 AGGCTCAACTC
* * *
42535205 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATT-TAAAATACCTCAGCGTGCGACCCG
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCG
42535269 AGGCTCAACTC
66 AGGCTCAACTC
*
42535280 AACTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAATTGAAAAATACCTCAGCGTGTGACC
1 ACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAATTGAAAAATACCTCAGCGTGTGACC
42535345 CGAGGCTCAACTC
64 CGAGGCTCAACTC
* * * * * *
42535358 ACTTCTAGCAATATGAGTTGATATTTGAAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGTGTGAC
42535423 CCGAGGCTCAACTC
63 CCGAGGCTCAACTC
** * * * *
42535437 ACCTCTTACAATATGAGTTGATTTTT-CAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCGTGTGAC
42535501 CCGAGGCTCAACTC
63 CCGAGGCTCAACTC
* * *
42535515 ACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCTCAGC--GTAACCTG
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCG
*
42535578 AGACTCAACTC
66 AGGCTCAACTC
* * *
42535589 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTGAAAAATACATCGGCGTGTG-CC
1 ACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACC
*
42535653 CGAGGCTCATCTC
64 CGAGGCTCAACTC
* * *
42535666 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAGAGAATACCTCGGCATGTGA
1 ACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA-A-AATACCTCAGCGTGTGA
*
42535731 CTCGAGGCTCAACTC
62 CCCGAGGCTCAACTC
*
42535746 ACCTCTCGCAATATGAGTTGATTTTTGCAAAAACAGAGATTGAAAAATA
1 ACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAAATA
42535795 ATCTGTGAAA
Statistics
Matches: 531, Mismatches: 43, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
74 37 0.07
75 103 0.19
76 46 0.09
77 70 0.13
78 151 0.28
79 90 0.17
80 34 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (76 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCG
AGGCTCAACTC
Found at i:42535371 original size:263 final size:265
Alignment explanation
Indices: 42534890--42535393 Score: 732
Period size: 263 Copynumber: 1.9 Consensus size: 265
42534880 CTTTTTATTT
* * * * *
42534890 GAAAAGCAGAAATCAAGAATAGCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGA
1 GAAAAACAGAAATCAAGAATACCTCAGCGTACGACCCAAGGCTCAACTCACCTCTCGCAACATGA
* * *
42534955 GTTGATTCTTGAAAAAAAGAAATTGAAAAGAATATCTCGGCATACGACCCGAGGCTCAACTCACC
66 GTTGATTCTTGAAAAAAAGAAATT-AAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCAAC
*
42535020 TCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATCTCAGCGTGCGACCCGA
130 TCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACCCGA
*
42535085 GGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTAGAAAAACAGACCTCTCGCAATATGAGTT
195 GGCTCAACTCACCTCTAGCAATATGAGTTGATATTT-GAAAAACAGACCTCTCGCAATATGAGTT
42535149 GATTTTA
259 GATTTTA
* * *
42535156 GAAAAACAGAAATTTAA-AATACCTCAGCGTACGACCCAATGCTCAACTCACCTCTCGCAATATG
1 GAAAAACAGAAA-TCAAGAATACCTCAGCGTACGACCCAAGGCTCAACTCACCTCTCGCAACATG
* * * *
42535220 AGTTGATT-TTAGAAAAACAGAAATT-TAA-AATACCTCAGCGTGCGACCCGAGGCTCAACTCAA
65 AGTTGATTCTT-GAAAAAAAGAAATTAAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCAA
* * *
42535282 CTCTCGCAATATGAGTTGA-TTTTTGAAAAAGACAGAAATTGAAAAATACCTCAGCGTGTGACCC
129 CTCTAGCAATATGAGTTGATTTTTTGAAAAA-ACAAAAATTGAAAAATACCTCAGCGTGCGACCC
*
42535346 GAGGCTCAACTCACTTCTAGCAATATGAGTTGATATTTGAAAAACAGA
193 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATATTTGAAAAACAGA
42535394 AACTTAAAAG
Statistics
Matches: 213, Mismatches: 21, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
262 11 0.05
263 119 0.56
264 5 0.02
265 2 0.01
266 73 0.34
267 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (265 bp):
GAAAAACAGAAATCAAGAATACCTCAGCGTACGACCCAAGGCTCAACTCACCTCTCGCAACATGA
GTTGATTCTTGAAAAAAAGAAATTAAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCAACT
CTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACCCGAG
GCTCAACTCACCTCTAGCAATATGAGTTGATATTTGAAAAACAGACCTCTCGCAATATGAGTTGA
TTTTA
Found at i:42535499 original size:157 final size:153
Alignment explanation
Indices: 42535130--42535792 Score: 822
Period size: 157 Copynumber: 4.3 Consensus size: 153
42535120 AGAAAAACAG
* **
42535130 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTT--AAAATACCTCAGCGTACGACCC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAATACCTCAGCGTGTGACCC
* * * *
42535193 AATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATT-TAAAATACCTCA
66 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCA
* *
42535257 GCGTGCGACCCGAGGCTCAACTC
131 GCATGTGACCCGAGGCTCAACTC
* *
42535280 AACTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAA-TTGAAAAATACCTCAGCGTGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAATTTAAAAAATACCTCAGCGTGTGAC
* * * *
42535344 CCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATATTTGAAAAACAGAAACTTAAAAGAAATA
64 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATA
*
42535409 CCTCGGCATGTGACCCGAGGCTCAACTC
126 CCTCAGCATGTGACCCGAGGCTCAACTC
** * * *
42535437 ACCTCTTACAATATGAGTTGATTTTT-CAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTT-AAA-AAATACCTCAGCGTGTGAC
*
42535501 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCT
64 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCT
* * *
42535566 CAGC--GTAACCTGAGACTCAACTC
129 CAGCATGTGACCCGAGGCTCAACTC
* * * *
42535589 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAA-TTGAAAAATACATCGGCGTGTG-C
1 ACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTTAAAAAATACCTCAGCGTGTGAC
* *
42535652 CCGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAGAGAAT
64 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA-A-AAT
* *
42535717 ACCTCGGCATGTGACTCGAGGCTCAACTC
125 ACCTCAGCATGTGACCCGAGGCTCAACTC
* *
42535746 ACCTCTCGCAATATGAGTTGATTTTTGCAAAAACAGAGATTGAAAAA
1 ACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTTAAAAA
42535793 TAATCTGTGA
Statistics
Matches: 442, Mismatches: 50, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
150 25 0.06
151 41 0.09
152 57 0.13
153 91 0.21
154 23 0.05
155 26 0.06
156 20 0.05
157 159 0.36
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (153 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAATACCTCAGCGTGTGACCC
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCA
GCATGTGACCCGAGGCTCAACTC
Found at i:42535739 original size:309 final size:308
Alignment explanation
Indices: 42535130--42535792 Score: 910
Period size: 309 Copynumber: 2.1 Consensus size: 308
42535120 AGAAAAACAG
* ** *
42535130 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTT---AAAATACCTCAGCGTACGACC
1 ACCTCTCACAATATGAGTTGATTTT-TCAAAACAGAAATTTAAAAAAATACCTCAGCATACGACC
* *
42535192 CAATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTTAAAATACCTCA
65 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTAAAAATACCTCA
* *
42535257 GCGTGCGACCCGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAATT
130 GCGT-CAACCCGAGACTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAATT
* *
42535322 GAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATATTTGAA
194 GAAAAATACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATATTTGAA
42535387 AAACAGAAACTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTC
259 AAACAGAAACTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTC
* * **
42535437 ACCTCTTACAATATGAGTTGATTTTTCAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACC
1 ACCTCTCACAATATGAGTTGATTTTTCAAAACAGAAATTTAAAA-AAATACCTCAGCATACGACC
* * *
42535502 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCTC
65 CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATT-AAAAATACCTC
* * *
42535567 AGCGT-AACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-ATAGAAAT
129 AGCGTCAACCCGAGACTCAACTCAACTCTCGCAATATGAGTTGA-TTTTTGAAAAAGACAGAAAT
* * * *
42535630 TGAAAAATACATCGGCGTGTG-CCCGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTTTTTT
193 TGAAAAATACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--TATTT
* * *
42535694 GAAAAATAGAAA-TT-GAAGAGAATACCTCGGCATGTGACTCGAGGCTCAACTC
256 GAAAAACAGAAACTTAAAAGA-AATACCTCGGCATGTGACCCGAGGCTCAACTC
* * *
42535746 ACCTCTCGCAATATGAGTTGATTTTTGCAAAAACAGAGATTGAAAAA
1 ACCTCTCACAATATGAGTTGATTTTT-C-AAAACAGAAATTTAAAAA
42535793 TAATCTGTGA
Statistics
Matches: 314, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
306 13 0.04
307 23 0.07
308 37 0.12
309 118 0.38
310 93 0.30
311 30 0.10
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (308 bp):
ACCTCTCACAATATGAGTTGATTTTTCAAAACAGAAATTTAAAAAAATACCTCAGCATACGACCC
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTAAAAATACCTCAG
CGTCAACCCGAGACTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAAAAGACAGAAATTGA
AAAATACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATATTTGAAAA
ACAGAAACTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTC
Found at i:42536670 original size:19 final size:19
Alignment explanation
Indices: 42536642--42536720 Score: 90
Period size: 19 Copynumber: 4.3 Consensus size: 19
42536632 TTCATCTTGA
42536642 TTTTTC-ATTTTTTTTGTT
1 TTTTTCTATTTTTTTTGTT
* **
42536660 TCTTTCTATTTTTTCAGTT
1 TTTTTCTATTTTTTTTGTT
*
42536679 TTTTTCT-GTTTTTTTGTT
1 TTTTTCTATTTTTTTTGTT
* *
42536697 TTTTTCTATTTTTTCTATT
1 TTTTTCTATTTTTTTTGTT
42536716 TTTTT
1 TTTTT
42536721 AGGCATAACA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
18 20 0.41
19 29 0.59
ACGTcount: A:0.06, C:0.09, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTCTATTTTTTTTGTT
Found at i:42536674 original size:9 final size:9
Alignment explanation
Indices: 42536642--42536719 Score: 63
Period size: 9 Copynumber: 8.6 Consensus size: 9
42536632 TTCATCTTGA
42536642 TTTTTC-AT
1 TTTTTCTAT
* *
42536650 TTTTTTTGT
1 TTTTTCTAT
42536659 TTCTTTCTAT
1 TT-TTTCTAT
42536669 TTTTTC-AGTT
1 TTTTTCTA--T
*
42536679 TTTTTCTGT
1 TTTTTCTAT
*
42536688 TTTTT-TGTT
1 TTTTTCT-AT
42536697 TTTTTCTAT
1 TTTTTCTAT
42536706 TTTTTCTAT
1 TTTTTCTAT
42536715 TTTTT
1 TTTTT
42536720 TAGGCATAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
8 7 0.12
9 34 0.61
10 15 0.27
ACGTcount: A:0.06, C:0.09, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:42536684 original size:37 final size:37
Alignment explanation
Indices: 42536642--42536720 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 37
42536632 TTCATCTTGA
42536642 TTTTTCAT-TTTTTTTGTTTCTTTCTATTTTTTC-AGTT
1 TTTTTC-TGTTTTTTTGTTTCTTTCTATTTTTTCTA-TT
*
42536679 TTTTTCTGTTTTTTTGTTTTTTTCTATTTTTTCTATT
1 TTTTTCTGTTTTTTTGTTTCTTTCTATTTTTTCTATT
42536716 TTTTT
1 TTTTT
42536721 AGGCATAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 1 0.03
37 37 0.95
38 1 0.03
ACGTcount: A:0.06, C:0.09, G:0.05, T:0.80
Consensus pattern (37 bp):
TTTTTCTGTTTTTTTGTTTCTTTCTATTTTTTCTATT
Found at i:42540260 original size:46 final size:45
Alignment explanation
Indices: 42540193--42540511 Score: 309
Period size: 46 Copynumber: 7.6 Consensus size: 45
42540183 TTTGAGTACT
* *
42540193 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACA-TTA
*
42540239 TCTGATTAAGTGACAAAGTGATAA---GT-GC--TA-C-AC-TTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACATTA
*
42540275 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACA-TTA
42540321 TCTGATCAAGTGACAAAGTGATAA---GTA-C--TA-C-AC-TTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACATTA
*
42540357 TCTGATCAA--G------TGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACA-TTA
42540395 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCT-TTAGCTACA-TTA
*
42540441 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACA-TTA
* *
42540487 TCTGAT-TAGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
42540512 ATCATACGTA
Statistics
Matches: 232, Mismatches: 11, Indels: 62
0.76 0.04 0.20
Matches are distributed among these distances:
28 6 0.03
31 2 0.01
32 1 0.00
34 3 0.01
35 1 0.00
36 39 0.17
38 16 0.07
39 4 0.02
40 7 0.03
42 5 0.02
43 6 0.03
44 14 0.06
45 6 0.03
46 122 0.53
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACATTA
Found at i:42540332 original size:82 final size:82
Alignment explanation
Indices: 42540193--42540511 Score: 397
Period size: 82 Copynumber: 3.9 Consensus size: 82
42540183 TTTGAGTACT
* * *
42540193 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATTAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
42540258 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
42540275 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
42540340 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
*
42540357 TCTGAT-------C-AAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
42540414 GATAAGTGGTAGTCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * * *
42540441 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT-TAGGGAC-AAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
42540504 GATAAGTG
66 GATAAGTG
42540512 ATCATACGTA
Statistics
Matches: 209, Mismatches: 10, Indels: 38
0.81 0.04 0.15
Matches are distributed among these distances:
74 52 0.25
75 2 0.01
80 3 0.01
81 1 0.00
82 84 0.40
83 1 0.00
84 17 0.08
89 1 0.00
90 7 0.03
91 6 0.03
92 35 0.17
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:42540399 original size:38 final size:38
Alignment explanation
Indices: 42540290--42540407 Score: 163
Period size: 38 Copynumber: 3.2 Consensus size: 38
42540280 TCAAGAGACA
*
42540290 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATC
* *
42540328 AAGTGACAAAGTGATAAG---TA-CTACACTTATCTGATC
1 AAGTGA-TAAGTG-TTAGCTTTAGCTACACTTATCTGATC
42540364 AAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATC
1 AAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATC
42540402 AAGTGA
1 AAGTGA
42540408 CAAAGTGATA
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
34 3 0.04
35 5 0.07
36 22 0.32
37 4 0.06
38 28 0.41
39 5 0.07
40 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (38 bp):
AAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATC
Found at i:42544565 original size:18 final size:19
Alignment explanation
Indices: 42544528--42544565 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
42544518 ATTCTCTTAC
* *
42544528 AAAAACAAATATAAATGTA
1 AAAAAAAAATATAAAGGTA
42544547 AAAAAAAAATA-AAAGGTA
1 AAAAAAAAATATAAAGGTA
42544565 A
1 A
42544566 GAGGCGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (19 bp):
AAAAAAAAATATAAAGGTA
Found at i:42545653 original size:54 final size:54
Alignment explanation
Indices: 42545586--42545712 Score: 200
Period size: 54 Copynumber: 2.4 Consensus size: 54
42545576 TTGATCCAAT
* * *
42545586 TGAAACATGAGAATTTTTTGAAAACGCGAGAATTTTTGAAAACACGAAAATTTG
1 TGAAACAAGAGAATTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTG
* * *
42545640 TGAAGCACGAGAATTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTT
1 TGAAACAAGAGAATTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTG
42545694 TGAAACAAGAGAATTTTTT
1 TGAAACAAGAGAATTTTTT
42545713 TTTAATTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (54 bp):
TGAAACAAGAGAATTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTG
Found at i:42545712 original size:18 final size:19
Alignment explanation
Indices: 42545588--42545711 Score: 136
Period size: 18 Copynumber: 6.9 Consensus size: 19
42545578 GATCCAATTG
* *
42545588 AAACATGAGAATTTTTTGA
1 AAACACGAGAAATTTTTGA
*
42545607 AAACGCGAG-AATTTTTGA
1 AAACACGAGAAATTTTTGA
*
42545625 AAACACGA-AAATTTGTG-
1 AAACACGAGAAATTTTTGA
* *
42545642 AAGCACGAGAATTTTTTGA
1 AAACACGAGAAATTTTTGA
42545661 AAACACGA-AAATTTTTGA
1 AAACACGAGAAATTTTTGA
42545679 AAACACGA-AAATTTTTG-
1 AAACACGAGAAATTTTTGA
*
42545696 AAACAAGAG-AATTTTT
1 AAACACGAGAAATTTTT
42545712 TTTTAATTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
17 21 0.23
18 55 0.61
19 14 0.16
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (19 bp):
AAACACGAGAAATTTTTGA
Found at i:42545738 original size:17 final size:18
Alignment explanation
Indices: 42545716--42545764 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
42545706 ATTTTTTTTT
*
42545716 AATTTTTGAAACAC-CGG
1 AATTTTTGAAACACTAGG
42545733 AATTTTTGAAAACACTAGG
1 AATTTTTG-AAACACTAGG
42545752 -ATTTTTGAAACAC
1 AATTTTTGAAACAC
42545765 AATTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 14 0.48
18 13 0.45
19 2 0.07
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (18 bp):
AATTTTTGAAACACTAGG
Found at i:42545745 original size:18 final size:19
Alignment explanation
Indices: 42545716--42545761 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
42545706 ATTTTTTTTT
*
42545716 AATTTTTG-AAACAC-CGG
1 AATTTTTGAAAACACTAGG
42545733 AATTTTTGAAAACACTAGG
1 AATTTTTGAAAACACTAGG
42545752 -ATTTTTGAAA
1 AATTTTTGAAA
42545762 CACAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 16 0.62
19 2 0.08
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
AATTTTTGAAAACACTAGG
Found at i:42545773 original size:17 final size:20
Alignment explanation
Indices: 42545753--42545832 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 20
42545743 AACACTAGGA
42545753 TTTTTG-AAACAC-AATTTT
1 TTTTTGAAAACACGAATTTT
*
42545771 TTTTTGAAAACACTAACTTTT
1 TTTTTGAAAACACGAA-TTTT
**
42545792 TGTTTTG-AAACACGAA--AA
1 T-TTTTGAAAACACGAATTTT
42545810 TTTTTGAAAACACGAATTTT
1 TTTTTGAAAACACGAATTTT
42545830 TTT
1 TTT
42545833 AAGACATGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.10
18 16 0.32
19 6 0.12
20 5 0.10
21 13 0.26
22 5 0.10
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (20 bp):
TTTTTGAAAACACGAATTTT
Found at i:42545802 original size:21 final size:18
Alignment explanation
Indices: 42545753--42545804 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
42545743 AACACTAGGA
42545753 TTTTTGAAACACAATTTT
1 TTTTTGAAACACAATTTT
42545771 TTTTTGAAAACACTAACTTTT
1 TTTTTG-AAACAC-AA-TTTT
42545792 TGTTTTGAAACAC
1 T-TTTTGAAACAC
42545805 GAAAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 2 0.07
21 11 0.37
22 5 0.17
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (18 bp):
TTTTTGAAACACAATTTT
Found at i:42545813 original size:21 final size:20
Alignment explanation
Indices: 42545754--42545813 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
42545744 ACACTAGGAT
*
42545754 TTTTGAAACAC--AATTTTT
1 TTTTGAAACACAAAATTTTG
**
42545772 TTTTGAAAACACTAACTTTTTG
1 TTTTG-AAACAC-AAAATTTTG
42545794 TTTTGAAACACGAAAATTTT
1 TTTTGAAACAC-AAAATTTT
42545814 TGAAAACACG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
21 12 0.38
22 9 0.28
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (20 bp):
TTTTGAAACACAAAATTTTG
Found at i:42545813 original size:22 final size:20
Alignment explanation
Indices: 42545754--42545815 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
42545744 ACACTAGGAT
42545754 TTTTGAAACAC-AATTTTT-
1 TTTTGAAACACAAATTTTTG
*
42545772 TTTTGAAAACACTAACTTTTTG
1 TTTTG-AAACAC-AAATTTTTG
42545794 TTTTGAAACACGAAAATTTTTG
1 TTTTGAAACAC--AAATTTTTG
42545816 AAAACACGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.14
19 6 0.17
21 12 0.33
22 13 0.36
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTTGAAACACAAATTTTTG
Found at i:42545822 original size:18 final size:18
Alignment explanation
Indices: 42545794--42545863 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
42545784 TAACTTTTTG
42545794 TTTTG-AAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
42545811 TTTTGAAAACACG-AATT
1 TTTTGAAAACACGAAAAT
* * * *
42545828 TTTTTAAGACATGAGAAT
1 TTTTGAAAACACGAAAAT
*
42545846 TTGTTGAAAATACGAAAA
1 TT-TTGAAAACACGAAAA
42545864 CATGAAATTT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
17 18 0.46
18 11 0.28
19 10 0.26
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:42546019 original size:21 final size:21
Alignment explanation
Indices: 42545993--42546057 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
42545983 ATTCGTTGCC
*
42545993 TTTTTTTTGAAA-ACGCG-AA
1 TTTTTTTTGAAACACGAGAAA
*
42546012 TATTTTTTTGAAACATGAGAAA
1 T-TTTTTTTGAAACACGAGAAA
*
42546034 TTTTTTTTGAAGATACGA-AAA
1 TTTTTTTTGAA-ACACGAGAAA
42546055 TTT
1 TTT
42546058 CGAAACACGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 11 0.29
21 19 0.50
22 7 0.18
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (21 bp):
TTTTTTTTGAAACACGAGAAA
Found at i:42546036 original size:20 final size:20
Alignment explanation
Indices: 42545994--42546040 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
42545984 TTCGTTGCCT
*
42545994 TTTTTTTGAAAACGCGAATA
1 TTTTTTTGAAAACGAGAATA
*
42546014 TTTTTTTGAAACATGAGAA-A
1 TTTTTTTGAAA-ACGAGAATA
42546034 TTTTTTT
1 TTTTTTT
42546041 TGAAGATACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTTTTTGAAAACGAGAATA
Found at i:42546281 original size:15 final size:15
Alignment explanation
Indices: 42546252--42546308 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 15
42546242 AAATTGAGTT
42546252 AAAT-TAAAA-ATAA
1 AAATATAAAATATAA
42546265 AAATATAAAATATAA
1 AAATATAAAATATAA
42546280 AAATGCATAAAATACTAA
1 AAAT--ATAAAATA-TAA
*
42546298 TAATATTAAAA
1 AAATA-TAAAA
42546309 CGAAATAGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 4 0.11
14 5 0.14
15 8 0.22
16 1 0.03
17 13 0.35
18 6 0.16
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:42546437 original size:10 final size:10
Alignment explanation
Indices: 42546414--42546469 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
42546404 CAAATTGAAC
42546414 TTTTCTTTTCT
1 TTTTCTTTT-T
42546425 TTTTC-TTTT
1 TTTTCTTTTT
*
42546434 TTTT-TGTTT
1 TTTTCTTTTT
*
42546443 TTTTGTTTTT
1 TTTTCTTTTT
*
42546453 TTCTCTTTTT
1 TTTTCTTTTT
42546463 TTTTCTT
1 TTTTCTT
42546470 CTCTCTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
9 12 0.32
10 21 0.55
11 5 0.13
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:42546443 original size:15 final size:14
Alignment explanation
Indices: 42546413--42546482 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 14
42546403 GCAAATTGAA
42546413 CTTTTCTTTTCTTTTT
1 CTTTT-TTTT-TTTTT
42546429 CTTTTTTTTTGTTTT
1 CTTTTTTTTT-TTTT
* *
42546444 -TTTGTTTTTTTCT
1 CTTTTTTTTTTTTT
42546457 CTTTTTTTTTCTTCTCT
1 CTTTTTTTTT-TT-T-T
42546474 CTTTTTTTT
1 CTTTTTTTT
42546483 CTGGCCTGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
13 3 0.07
14 17 0.38
15 10 0.22
16 5 0.11
17 10 0.22
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (14 bp):
CTTTTTTTTTTTTT
Found at i:42546444 original size:17 final size:16
Alignment explanation
Indices: 42546414--42546482 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
42546404 CAAATTGAAC
* *
42546414 TTTTCTTTTCTTTTTC
1 TTTTTTTTTCTTTTTT
*
42546430 TTTTTTTTTGTTTTTT
1 TTTTTTTTTCTTTTTT
42546446 TGTTTTTTTCTCTTTTTT
1 T-TTTTTTT-TCTTTTTT
* *
42546464 TTTCTTCTCTCTTTTTT
1 TTT-TTTTTTCTTTTTT
42546481 TT
1 TT
42546483 CTGGCCTGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 14 0.32
17 19 0.43
18 11 0.25
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTCTTTTTT
Found at i:42546479 original size:28 final size:27
Alignment explanation
Indices: 42546413--42546484 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
42546403 GCAAATTGAA
42546413 CTTT-TCTTTTCTTTT-TCTTTTTTTTT
1 CTTTCTCTTTT-TTTTCTCTTTTTTTTT
* * *
42546439 GTTTTTTTGTTTTTTTCTCTTTTTTTTT
1 CTTTCTCT-TTTTTTTCTCTTTTTTTTT
42546467 CTTCTCTCTTTTTTTTCT
1 CTT-TCTCTTTTTTTTCT
42546485 GGCCTGCTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 6 0.16
28 25 0.68
29 3 0.08
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (27 bp):
CTTTCTCTTTTTTTTCTCTTTTTTTTT
Found at i:42546631 original size:7 final size:7
Alignment explanation
Indices: 42546619--42546662 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
42546609 GCTGTAAAAT
42546619 TTTTTTC
1 TTTTTTC
42546626 TTTTTTC
1 TTTTTTC
42546633 TTTGTTT-
1 TTT-TTTC
42546640 TTTTTTC
1 TTTTTTC
42546647 -TTTTTC
1 TTTTTTC
42546653 TTTTTTC
1 TTTTTTC
42546660 TTT
1 TTT
42546663 CCCCCTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 9 0.26
7 22 0.65
8 3 0.09
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:42546645 original size:14 final size:13
Alignment explanation
Indices: 42546620--42546662 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
42546610 CTGTAAAATT
42546620 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
*
42546633 TTTGTTTTTTTTTC
1 TTT-TTCTTTTTTC
42546647 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
42546660 TTT
1 TTT
42546663 CCCCCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:42546688 original size:12 final size:12
Alignment explanation
Indices: 42546673--42546717 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
42546663 CCCCCTTTCT
42546673 TTTTCCTTCTTC
1 TTTTCCTTCTTC
*
42546685 TTTTTCTTCTTC
1 TTTTCCTTCTTC
* *
42546697 CTTTCTTTCTTC
1 TTTTCCTTCTTC
42546709 TTCTTCCTT
1 TT-TTCCTT
42546718 GTTCGGCCCC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCCTTCTTC
Found at i:42546711 original size:18 final size:17
Alignment explanation
Indices: 42546666--42546717 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
42546656 TTTCTTTCCC
42546666 CCTTTCTTTTTC--CTT
1 CCTTTCTTTTTCTTCTT
42546681 -C-TTCTTTTTCTTCTT
1 CCTTTCTTTTTCTTCTT
42546696 CCTTTCTTTCTTCTTCTT
1 CCTTTCTTT-TTCTTCTT
42546714 CCTT
1 CCTT
42546718 GTTCGGCCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
15 3 0.09
16 1 0.03
17 6 0.19
18 12 0.38
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
CCTTTCTTTTTCTTCTT
Found at i:42546989 original size:20 final size:21
Alignment explanation
Indices: 42546951--42546989 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
42546941 GAGGCTACTG
42546951 TTTTTGCTTGATTTCTTTTAC
1 TTTTTGCTTGATTTCTTTTAC
* *
42546972 TTTTT-CTTGTTTTTTTTT
1 TTTTTGCTTGATTTCTTTT
42546990 GCTTGGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (21 bp):
TTTTTGCTTGATTTCTTTTAC
Found at i:42547200 original size:30 final size:30
Alignment explanation
Indices: 42547166--42547310 Score: 118
Period size: 30 Copynumber: 4.9 Consensus size: 30
42547156 AAATTCAGTA
* *
42547166 AAAGTTTTGGGGCCAAAACGTAATTTTAAG
1 AAAGTTTTGGGGTCAAAATGTAATTTTAAG
* * * *
42547196 AAAGTGTAGGGGTTAAAATATAA-TTT-AG
1 AAAGTTTTGGGGTCAAAATGTAATTTTAAG
* * ** *
42547224 AAAATTTTAAGGGTTGAAATGTAATTTTGAG
1 AAAGTTTT-GGGGTCAAAATGTAATTTTAAG
42547255 AAA-TTTTAGGGGTCAAAATGTAATTTTAA-
1 AAAGTTTT-GGGGTCAAAATGTAATTTTAAG
* * *
42547284 AAAGTTTAGGGGTTAAAATATAATTTT
1 AAAGTTTTGGGGTCAAAATGTAATTTT
42547311 TTTAAACAAG
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
28 7 0.08
29 35 0.38
30 45 0.49
31 5 0.05
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATGTAATTTTAAG
Found at i:42547279 original size:59 final size:59
Alignment explanation
Indices: 42547180--42547310 Score: 156
Period size: 59 Copynumber: 2.2 Consensus size: 59
42547170 TTTTGGGGCC
* * *
42547180 AAAACGTAATTTTAAGAAAGTGTAGGGGTTAAAATATAA-TTTAGAAAATTTTAAGGGTT
1 AAAATGTAATTTTAAGAAAGTGTAGGGGTCAAAATATAATTTTA-AAAAGTTTAAGGGTT
* * * * * *
42547239 GAAATGTAATTTTGAGAAATTTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAGGGGTT
1 AAAATGTAATTTTAAGAAAGTGTAGGGGTCAAAATATAATTTTAAAAAGTTTAAGGGTT
*
42547298 AAAATATAATTTT
1 AAAATGTAATTTT
42547311 TTTAAACAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 56 0.93
60 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.37
Consensus pattern (59 bp):
AAAATGTAATTTTAAGAAAGTGTAGGGGTCAAAATATAATTTTAAAAAGTTTAAGGGTT
Found at i:42547310 original size:29 final size:29
Alignment explanation
Indices: 42547186--42547310 Score: 135
Period size: 29 Copynumber: 4.2 Consensus size: 29
42547176 GGCCAAAACG
*
42547186 TAATTTTAAGAAAGTGTAGGGGTTAAAATA
1 TAATTTTAA-AAAGTTTAGGGGTTAAAATA
* * * *
42547216 TAA-TTTAGAAAATTTTAAGGGTTGAAATG
1 TAATTTTA-AAAAGTTTAGGGGTTAAAATA
* * * *
42547245 TAATTTTGAGAAATTTTAGGGGTCAAAATG
1 TAATTTT-AAAAAGTTTAGGGGTTAAAATA
42547275 TAATTTTAAAAAGTTTAGGGGTTAAAATA
1 TAATTTTAAAAAGTTTAGGGGTTAAAATA
42547304 TAATTTT
1 TAATTTT
42547311 TTTAAACAAG
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
29 47 0.59
30 31 0.39
31 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (29 bp):
TAATTTTAAAAAGTTTAGGGGTTAAAATA
Found at i:42563421 original size:21 final size:21
Alignment explanation
Indices: 42563395--42563437 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
42563385 AGTGTTAGTA
42563395 TCGATACCTATGGACCTAGCT
1 TCGATACCTATGGACCTAGCT
42563416 TCGATACCTATGGACCTAGCT
1 TCGATACCTATGGACCTAGCT
42563437 T
1 T
42563438 GAGAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (21 bp):
TCGATACCTATGGACCTAGCT
Found at i:42572173 original size:31 final size:31
Alignment explanation
Indices: 42572131--42572192 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
42572121 TAAAAATGGT
42572131 TACAAGCCTATGATGTTCACCAGTGTAGGCC
1 TACAAGCCTATGATGTTCACCAGTGTAGGCC
* *
42572162 TACAAGTCTATGATGTTCACCAGTGTGGGCC
1 TACAAGCCTATGATGTTCACCAGTGTAGGCC
42572193 CACACGCCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (31 bp):
TACAAGCCTATGATGTTCACCAGTGTAGGCC
Found at i:42572958 original size:28 final size:28
Alignment explanation
Indices: 42572926--42573028 Score: 154
Period size: 28 Copynumber: 3.7 Consensus size: 28
42572916 AGTACAATGA
* *
42572926 GGGCCTTAACCCAATGCAGTAA-CAGTGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
*
42572954 GGGCCTTAGCCCAATATAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
*
42572982 GGGCATTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
42573010 GGGCCTTAGCCCAATACAG
1 GGGCCTTAGCCCAATACAG
42573029 TAAAAATGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 2 0.03
28 66 0.97
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGAATCAGTGT
Found at i:42573923 original size:296 final size:296
Alignment explanation
Indices: 42573407--42574024 Score: 1236
Period size: 296 Copynumber: 2.1 Consensus size: 296
42573397 ACAGTTATTT
42573407 TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
1 TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
42573472 GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
66 GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
42573537 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
131 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
42573602 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
196 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
42573667 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
261 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
42573703 TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
1 TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
42573768 GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
66 GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
42573833 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
131 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
42573898 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
196 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
42573963 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
261 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
42573999 TACCCTATGGGGGTATTTCGGTCATT
1 TACCCTATGGGGGTATTTCGGTCATT
42574025 CTACTCTATG
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
296 322 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (296 bp):
TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
Found at i:42574086 original size:296 final size:296
Alignment explanation
Indices: 42573407--42574125 Score: 1147
Period size: 296 Copynumber: 2.4 Consensus size: 296
42573397 ACAGTTATTT
* * * **
42573407 TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTACGAAGGCATTTCGGTCATTCTAACCTACGAA
* * * *
42573472 GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
66 AGTATTTTCGTCATTCTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
42573537 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
131 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
42573602 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
196 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
42573667 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
261 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
* * * **
42573703 TACCCTATGGGGGTATTTCGGTCATTTTACCCTACGAAGGCATTTCGTTCATTCTAACCTATGGG
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTACGAAGGCATTTCGGTCATTCTAACCTACGAA
* * * *
42573768 GGTATTTTTGTTATTTTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
66 AGTATTTTCGTCATTCTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
42573833 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
131 CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
42573898 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
196 ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
42573963 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
261 TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
* * ** * * *
42573999 TACCCTATGGGGGTATTTCGGTCATTCTACTCTATGGGGGTATTTTGGTCACTT-TACCCTACGA
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTACGAAGGCATTTCGGTCA-TTCTAACCTACGA
* *
42574063 AAGTA-TTTCGATCATTCTACCCTATGTG-GGTATTTCGATTATTTTACCCTACGGGGGTATTTC
65 AAGTATTTTCG-TCATTCTACCCTAT-TGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTC
42574126 AGTTATTTTA
Statistics
Matches: 402, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
295 4 0.01
296 394 0.98
297 4 0.01
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (296 bp):
TACCCTATGGGGGTATTTCGGTCATTCTACCCTACGAAGGCATTTCGGTCATTCTAACCTACGAA
AGTATTTTCGTCATTCTACCCTATTGAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGT
CATTCAACCCTATGGGGGTATTTCAGTCATTCTATCCTATAGGGGTATTTCTGTCATTTTACCCT
ATGAGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATT
TCAGTCATTCTACCCTATGGGGTATTTCGGTCATTC
Found at i:42574135 original size:27 final size:27
Alignment explanation
Indices: 42573407--42574125 Score: 796
Period size: 27 Copynumber: 26.7 Consensus size: 27
42573397 ACAGTTATTT
*
42573407 TACCCTATGGGGGTATTTCGGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* ** * *
42573434 TACCCTACGAAGGCATTTCGTTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* ** * *
42573461 TAACCTATGGGGGTATTTTTGTTATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
42573488 TACCCTATTGAGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
42573515 TACCCTATGGGGGTATTTCGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42573542 AACCCTATGGGGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
42573569 TATCCTATAGGGGTATTTCTGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42573596 TACCCTATGAGGGTATTTTGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* **
42573623 TACCCTATAGGGGTATTTTAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42573650 TACCCTATGAGGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
42573677 TACCCTAT-GGGGTATTTCGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
*
42573703 TACCCTATGGGGGTATTTCGGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* ** * *
42573730 TACCCTACGAAGGCATTTCGTTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* ** * *
42573757 TAACCTATGGGGGTATTTTTGTTATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
42573784 TACCCTATTGAGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
42573811 TACCCTATGGGGGTATTTCGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42573838 AACCCTATGGGGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
42573865 TATCCTATAGGGGTATTTCTGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42573892 TACCCTATGAGGGTATTTTGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* **
42573919 TACCCTATAGGGGTATTTTAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42573946 TACCCTATGAGGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
42573973 TACCCTAT-GGGGTATTTCGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
42573999 TACCCTATGGGGGTATTTCGGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
42574026 TACTCTATGGGGGTATTTTGGTCACTT-
1 TACCCTATGGGGGTATTTCGGTCA-TTC
* *** *
42574053 TACCCTACGAAAGTATTTCGATCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
42574080 TACCCTATGTGGGTATTTCGATTATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
*
42574107 TACCCTACGGGGGTATTTC
1 TACCCTATGGGGGTATTTC
42574126 AGTTATTTTA
Statistics
Matches: 574, Mismatches: 114, Indels: 8
0.82 0.16 0.01
Matches are distributed among these distances:
26 50 0.09
27 522 0.91
28 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGGTCATTC
Found at i:42578846 original size:43 final size:43
Alignment explanation
Indices: 42578780--42578866 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
42578770 TTCGAGGATC
* * *
42578780 AACCCTAATCCCCTCAGCTGAAACCACATAGCCCAGAAATGTT
1 AACCCTAATCCCCTAAGCAGAAACCACATAGCCCAAAAATGTT
*
42578823 AACCCTAATCCCCTAAGCAGAAACCACATGGCCCAAAAATGTT
1 AACCCTAATCCCCTAAGCAGAAACCACATAGCCCAAAAATGTT
42578866 A
1 A
42578867 CTTTCTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.38, C:0.33, G:0.11, T:0.17
Consensus pattern (43 bp):
AACCCTAATCCCCTAAGCAGAAACCACATAGCCCAAAAATGTT
Found at i:42592132 original size:41 final size:41
Alignment explanation
Indices: 42592087--42592184 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
42592077 GCGTTTGGAT
*
42592087 AAAAAACGCCGCTAAAAATCAAGTATTAGCGGCACTTTTCA
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTCA
* * ** *
42592128 AAAAAA-GCCGCTAAAGATCGAGCATTAGCGGTGCTTTTTA
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTCA
*
42592168 AAAAAGCGCCGC-AAAAA
1 AAAAAACGCCGCTAAAAA
42592185 CCTAAGCCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 37 0.77
41 11 0.23
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTCA
Found at i:42592701 original size:14 final size:15
Alignment explanation
Indices: 42592673--42592705 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
42592663 AAAGTTTATA
42592673 GATTATGGAATTAGG
1 GATTATGGAATTAGG
42592688 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
42592702 GATT
1 GATT
42592706 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:42592820 original size:14 final size:14
Alignment explanation
Indices: 42592800--42592853 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
42592790 ATTCAGTGTC
42592800 AGGTTAGGGTTTAG
1 AGGTTAGGGTTTAG
* *
42592814 GGGTTAGGGGTTAG
1 AGGTTAGGGTTTAG
*
42592828 AGGTTAGAGGTTAAG
1 AGGTTAG-GGTTTAG
*
42592843 A-GTTAGTGTTT
1 AGGTTAGGGTTT
42592854 TAGGGTTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 3 0.09
14 23 0.72
15 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (14 bp):
AGGTTAGGGTTTAG
Found at i:42592827 original size:21 final size:22
Alignment explanation
Indices: 42592801--42592863 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 22
42592791 TTCAGTGTCA
42592801 GGTTAG-GGTTTAGGGGTTAGG
1 GGTTAGAGGTTTAGGGGTTAGG
* *
42592822 GGTTAGAGG-TTAGAGGTTAAG
1 GGTTAGAGGTTTAGGGGTTAGG
* * * *
42592843 AGTTAGTGTTTTAGGGTTTAG
1 GGTTAGAGGTTTAGGGGTTAG
42592864 AGATTTGGGG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.37
Consensus pattern (22 bp):
GGTTAGAGGTTTAGGGGTTAGG
Found at i:42593802 original size:12 final size:12
Alignment explanation
Indices: 42593769--42593801 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42593759 TGTGGTTTGA
42593769 TTTTATTTTATT
1 TTTTATTTTATT
42593781 TTTTAGTTTTA-T
1 TTTTA-TTTTATT
42593793 TTTTATTTT
1 TTTTATTTT
42593802 TTTGAGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 11 0.55
13 5 0.25
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:42596943 original size:43 final size:42
Alignment explanation
Indices: 42596868--42597003 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 42
42596858 AAGTCATGTT
* * **
42596868 TTTAGCGGCATTTGT-GAAAAAGCGTAGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGG-TATGATC
***
42596910 TTTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGG--CCCT-
1 TTTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTATGATC
* * * * *
42596949 TTTAGTGGCGTTTTTA-TAAAAGTGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGT-ATGATC
42596991 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
42597004 ATTTCTAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 16 0.22
39 14 0.19
40 1 0.01
42 26 0.36
43 16 0.22
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTAGTAAAAGCGCCGCTAAAGGTATGATC
Found at i:42601892 original size:9 final size:9
Alignment explanation
Indices: 42601878--42601908 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
42601868 GTTAAACGAA
42601878 TCGAGTTAT
1 TCGAGTTAT
*
42601887 TCGAGTTAA
1 TCGAGTTAT
42601896 TCGAGTTAT
1 TCGAGTTAT
42601905 TCGA
1 TCGA
42601909 ATAAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:42603025 original size:5 final size:5
Alignment explanation
Indices: 42603015--42603045 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
42603005 CTCGAAAATT
*
42603015 TTCGA TTCGA TTCGA TTCGA TTCTA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
42603046 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:42604589 original size:14 final size:14
Alignment explanation
Indices: 42604567--42604596 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42604557 TTGTGCATTC
42604567 TTTTATTTGTTTTT
1 TTTTATTTGTTTTT
*
42604581 TTTTTTTTGTTTTT
1 TTTTATTTGTTTTT
42604595 TT
1 TT
42604597 ACAATGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTATTTGTTTTT
Found at i:42607935 original size:37 final size:37
Alignment explanation
Indices: 42607891--42607961 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
42607881 TATCATTTTT
* *
42607891 ATTAAATTTTATTTAATAATAATTATATTAAAATATG
1 ATTAAATTATATTTAATAATAATCATATTAAAATATG
*
42607928 ATTAAATTATATTTAATAATAATCCTATTAAAAT
1 ATTAAATTATATTTAATAATAATCATATTAAAAT
42607962 TTAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCATATTAAAATATG
Found at i:42614247 original size:27 final size:28
Alignment explanation
Indices: 42614215--42614269 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
42614205 TCCTGTTACT
* *
42614215 GTTAGGGTTTTGGG-TTTTTGGTTTAGG
1 GTTAGGGTTTGGGGATTTTAGGTTTAGG
42614242 GTTAGGGTTTGGGGATTTTAGGTTTAGG
1 GTTAGGGTTTGGGGATTTTAGGTTTAGG
42614270 TTTTTAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (28 bp):
GTTAGGGTTTGGGGATTTTAGGTTTAGG
Found at i:42614446 original size:93 final size:94
Alignment explanation
Indices: 42614300--42614592 Score: 290
Period size: 93 Copynumber: 3.1 Consensus size: 94
42614290 TAAATAAGTG
* * * *
42614300 ATTAGGGTTTAGGATTTCTTAATTAAATTAACTATAAAATTTTT--AAAATTAGATTAGGGTTTC
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAA-T-TAAAATTTTTAAAAAATTAGATTAGGGTTTA
* * *
42614363 GTGTTTATAGTTTTT-CTAAAAATTAATTAA
64 GTGTTTAGAGTTTTTACGAAAAATTAAATAA
* *
42614393 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTAAAATTTTTAAAAAATTAGATTAGGCTTTGGT
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTAAAATTTTTAAAAAATTAGATTAGGGTTTAGT
* * *
42614458 GTTAAGGGTTTTTAAGGAAAAATTAAATAA
66 GTTTAGAGTTTTT-ACGAAAAATTAAATAA
* * * * * **
42614488 ATTAGAGTTTAGGGTTACTTGAGTCAATTAAATATAAA--TTAAAAAAATTAGATTAATGTTTAG
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTA-AAATTTTTAAAAAATTAGATTAGGGTTTAG
* * *
42614551 TGTTTAGGGTTTTTAAGGAAAAACTCAAATAA
65 TGTTTAGAGTTTTT-ACGAAAAA-TTAAATAA
*
42614583 ATTAAGGTTT
1 ATTAGGGTTT
42614593 GGGGTTTAGG
Statistics
Matches: 170, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
91 10 0.06
92 1 0.01
93 57 0.34
94 42 0.25
95 57 0.34
96 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.41
Consensus pattern (94 bp):
ATTAGGGTTTAGGATTACTTGAGTAAATTAATTAAAATTTTTAAAAAATTAGATTAGGGTTTAGT
GTTTAGAGTTTTTACGAAAAATTAAATAA
Found at i:42614510 original size:95 final size:94
Alignment explanation
Indices: 42614300--42614592 Score: 310
Period size: 95 Copynumber: 3.1 Consensus size: 94
42614290 TAAATAAGTG
* * * *
42614300 ATTAGGGTTTAGGATTTCTTAATTAAATTAACTATAAAATTTTT--AAAATTAGATTAGGGTTTC
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAA-T-TAAAATTTTTAAAAAATTAGATTA-GGTTTA
** ** *
42614363 GTGTTTATAGTTTTT--CTAAAAATTAATTAA
63 GTGTTTAGGGTTTTTAAGGAAAAATTAAATAA
*
42614393 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTAAAATTTTTAAAAAATTAGATTAGGCTTTGGT
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTAAAATTTTTAAAAAATTAGATTAGG-TTTAGT
*
42614458 GTTAAGGGTTTTTAAGGAAAAATTAAATAA
65 GTTTAGGGTTTTTAAGGAAAAATTAAATAA
* * * * * *
42614488 ATTAGAGTTTAGGGTTACTTGAGTCAATTAAATATAAA--TTAAAAAAATTAGATTAATGTTTAG
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTA-AAATTTTTAAAAAATTAGATT-AGGTTTAG
*
42614551 TGTTTAGGGTTTTTAAGGAAAAACTCAAATAA
64 TGTTTAGGGTTTTTAAGGAAAAA-TTAAATAA
*
42614583 ATTAAGGTTT
1 ATTAGGGTTT
42614593 GGGGTTTAGG
Statistics
Matches: 171, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
91 10 0.06
92 3 0.02
93 55 0.32
94 41 0.24
95 59 0.35
96 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.41
Consensus pattern (94 bp):
ATTAGGGTTTAGGATTACTTGAGTAAATTAATTAAAATTTTTAAAAAATTAGATTAGGTTTAGTG
TTTAGGGTTTTTAAGGAAAAATTAAATAA
Found at i:42614801 original size:126 final size:127
Alignment explanation
Indices: 42614627--42614918 Score: 408
Period size: 126 Copynumber: 2.3 Consensus size: 127
42614617 TTGTTAATTT
** * *
42614627 AAAAAAGCTTTCACGTGGACGTTGTTTTGCTACAATAGC-TCTTGAAAAAATAATTTTGAGAAGA
1 AAAAAAGCTCCCACGTGGACGTTTTTTTGCTACAGTAGCTTCTTGAAAAAATAATTTTGAGAAGA
* * * *
42614691 CGTTTCTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTATTG
66 CGTTTCTGAGCAAATAGTGTCAAAAACACCTTAAACAGGATGCATTGTCAGCAAAAGTATTG
* * *
42614753 AAAAAAGTTCCCACGTGGACGTTTTTTTGTTACAGTAGCTTC-TGAAAAAATAATTTTGAGTAGA
1 AAAAAAGCTCCCACGTGGACGTTTTTTTGCTACAGTAGCTTCTTGAAAAAATAATTTTGAGAAGA
* * *
42614817 CGTTTTTGAGCAAATAGTGTCAAAAATACCTTAAACAGGATGCTTTGTCAGCAAAAGTATTG
66 CGTTTCTGAGCAAATAGTGTCAAAAACACCTTAAACAGGATGCATTGTCAGCAAAAGTATTG
* * **
42614879 AAAGAAGCTCCCACATGGACGCGTTTTTGCTACAGTAGCT
1 AAAAAAGCTCCCACGTGGACGTTTTTTTGCTACAGTAGCT
42614919 CCTGTTTGGC
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
126 143 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (127 bp):
AAAAAAGCTCCCACGTGGACGTTTTTTTGCTACAGTAGCTTCTTGAAAAAATAATTTTGAGAAGA
CGTTTCTGAGCAAATAGTGTCAAAAACACCTTAAACAGGATGCATTGTCAGCAAAAGTATTG
Found at i:42618879 original size:36 final size:36
Alignment explanation
Indices: 42618801--42618882 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
42618791 GTAATATTGT
42618801 TGCTGGTATATTGTTACGTATGTTGTTATACATGAC
1 TGCTGGTATATTGTTACGTATGTTGTTATACATGAC
* * *
42618837 TACTGGTATATTGTTGCTTATGTTGTTATACATGGA-
1 TGCTGGTATATTGTTACGTATGTTGTTATACAT-GAC
42618873 TGCTGGTATA
1 TGCTGGTATA
42618883 CATGGCTAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 39 0.95
37 2 0.05
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.45
Consensus pattern (36 bp):
TGCTGGTATATTGTTACGTATGTTGTTATACATGAC
Found at i:42621504 original size:31 final size:31
Alignment explanation
Indices: 42621438--42621513 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
42621428 GTTGGGATAG
* * *
42621438 TAAACACAAAATAGACAATCCGCTATGATAG
1 TAAACACAAAATAGACAATCCGCTAGGACAA
* * *
42621469 TAAACACATAATAGACAATCTGTTAGGACAA
1 TAAACACAAAATAGACAATCCGCTAGGACAA
*
42621500 TAAACACAGAATAG
1 TAAACACAAAATAG
42621514 TTAGTTCATC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (31 bp):
TAAACACAAAATAGACAATCCGCTAGGACAA
Found at i:42624140 original size:108 final size:108
Alignment explanation
Indices: 42623936--42624269 Score: 403
Period size: 108 Copynumber: 3.1 Consensus size: 108
42623926 CCGACACCGA
*
42623936 TTTTTTTTTTCTTTTTTCGTATACTGGTGTCGGCCATTGACACGA--AAAAAGTAAAAAAAAAAT
1 TTTTTTTTTTCTTTTTTCGTATACTGGTGCCGGCCATTGACA-GACCAAAAA-T-AAAAAAAAAT
* *
42623999 TGGGAAAAAGGTGGTGCTGGCCATTGGCAGGCCACCACCAAAACGAT
63 TGGGAAAAAGGTGGAGCTGGCCATTGGCAGGCCACCA-CAAAACAAT
* *
42624046 TTTTTTTTTTACTTTTTTCGTATACTGATGCCAGCCATTGACAGACCAAAAAT-AAAAAAAATT-
1 TTTTTTTTTT-CTTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAATAAAAAAAAATTG
* * * *
42624109 GGAAACAGGTGGAGCCGGCCATTGGCAGGCCACCACAAAAAAAC
65 GGAAAAAGGTGGAGCTGGCCATTGGCAGGCCACCACAAAACAAT
* * * **
42624153 ATTTTTTTTCCTTTATTCGTATACTGGTGCCGGCCATTGACAGACCAAAGGTAAAAAAAAATTTG
1 TTTTTTTTTTCTTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAATAAAAAAAAA-TTG
* *
42624218 GGAAAAAGGT-GATGCTGGCCATTAGCAGGCTA--ATCAAAACAAT
65 GGAAAAAGGTGGA-GCTGGCCATTGGCAGGCCACCA-CAAAACAAT
42624261 TTTTTTTTT
1 TTTTTTTTT
42624270 ACNNNNNNNN
Statistics
Matches: 193, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
106 37 0.19
107 23 0.12
108 51 0.26
109 35 0.18
110 12 0.06
111 30 0.16
112 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (108 bp):
TTTTTTTTTTCTTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAATAAAAAAAAATTGG
GAAAAAGGTGGAGCTGGCCATTGGCAGGCCACCACAAAACAAT
Found at i:42624208 original size:106 final size:110
Alignment explanation
Indices: 42623937--42624247 Score: 391
Period size: 106 Copynumber: 2.8 Consensus size: 110
42623927 CGACACCGAT
* * *
42623937 TTTTTTTTTCTTTTTTCGTATACTGGTGTCGGCCATTGACACGA-AAAAAGTAAAAAAAAAATTG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACA-GACCAAAAGT-AAAAAAAAATTG
* * ***
42624001 GGAAAAAGGTGGTGCTGGCCATTGGCAGGCCACCACCAAAACGATTT
64 GGAAAAAGGTGGAGCTGGCCATTGGCAGGCCACCACCAAAACAAACA
* * *
42624048 TTTTTTTTACTTTTTTCGTATACTGATGCCAGCCATTGACAGACCAAAAAT-AAAAAAAATT-GG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAATTGGG
* *
42624111 AAACAGGTGGAGCCGGCCATTGGCAGGCCACCA-CAAAA-AAACA
66 AAAAAGGTGGAGCTGGCCATTGGCAGGCCACCACCAAAACAAACA
* * *
42624154 TTTTTTTTCCTTTATTCGTATACTGGTGCCGGCCATTGACAGACCAAAGGTAAAAAAAAATTTGG
1 TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAA-TTGG
*
42624219 GAAAAAGGT-GATGCTGGCCATTAGCAGGC
65 GAAAAAGGTGGA-GCTGGCCATTGGCAGGC
42624248 TAATCAAAAC
Statistics
Matches: 173, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
106 46 0.27
107 13 0.08
108 36 0.21
109 34 0.20
110 2 0.01
111 42 0.24
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (110 bp):
TTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAAAAGTAAAAAAAAATTGGG
AAAAAGGTGGAGCTGGCCATTGGCAGGCCACCACCAAAACAAACA
Found at i:42624594 original size:104 final size:106
Alignment explanation
Indices: 42624372--42624654 Score: 279
Period size: 104 Copynumber: 2.7 Consensus size: 106
42624362 NNNNNNNNNN
42624372 AAAAAGGTGGTTGCCGGCCATTGGGCAGGCCACC-CTTCAAATTTGTTTTTACTTTTTTCGTATA
1 AAAAAGGTGG-TGCCGGCCATT-GGCAGGCCACCACTT-AAATTTGTTTTTACTTTTTTCGTATA
* * * *
42624436 CTGGTTCCTGCCATTGACATGAAAAAAGTACAAAAAAAATTTGA
63 CTGGTGCCTACAATTGACACGAAAAAAGTACAAAAAAAATTTGA
* * * * * *
42624480 AAAAACGTGGTGCCGACCATTAGCAGGCCACCAC-T-AATTTTTTTTTATTTTTTTCTTATACTG
1 AAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACTTAAATTTGTTTTTACTTTTTTCGTATACTG
*
42624543 GTGCCTACAATTGACACGAAAAAAGTA-AAAAAAAATTACT-T
66 GTGCCTACAATTGACACGAAAAAAGTACAAAAAAAATT--TGA
*** * ** * * * *
42624584 TTTAAGGTGGTGCCGGCCATTGGCAGACCACCACCAAAAATTTTTTTTTTACCTTTTTCATATTC
1 AAAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-CTTAAA-TTTGTTTTTACTTTTTTCGTATAC
42624649 TGGTGC
64 TGGTGC
42624655 AAGCCATTGA
Statistics
Matches: 145, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
103 10 0.07
104 74 0.51
105 2 0.01
106 11 0.08
107 13 0.09
108 35 0.24
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (106 bp):
AAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACTTAAATTTGTTTTTACTTTTTTCGTATACTG
GTGCCTACAATTGACACGAAAAAAGTACAAAAAAAATTTGA
Found at i:42626068 original size:12 final size:13
Alignment explanation
Indices: 42626045--42626073 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
42626035 GGGCTATAAC
42626045 TATTGCATTTATT
1 TATTGCATTTATT
42626058 TATTG-ATTTATT
1 TATTGCATTTATT
42626070 TATT
1 TATT
42626074 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:42629418 original size:54 final size:54
Alignment explanation
Indices: 42629354--42629461 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
42629344 GGTTTTCGCC
*
42629354 AAATTTATGGTGTTGACTATGATGAAACCTTTTCTCCTGTAGCTATGTTTAAAT
1 AAATTTATGGTGTTGACTATGATGAAACCTATTCTCCTGTAGCTATGTTTAAAT
42629408 AAATTTATGGTGTTGACTATGATGAAACCTATTCTCCTGTAGCTATGTTTAAAT
1 AAATTTATGGTGTTGACTATGATGAAACCTATTCTCCTGTAGCTATGTTTAAAT
42629462 CCATTAGGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (54 bp):
AAATTTATGGTGTTGACTATGATGAAACCTATTCTCCTGTAGCTATGTTTAAAT
Found at i:42629454 original size:26 final size:26
Alignment explanation
Indices: 42629370--42629454 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
42629360 ATGGTGTTGA
*
42629370 CTATGATGAAACCTTTTCTCCTGTAG
1 CTATGATGAAACCTATTCTCCTGTAG
* * *** * ** *
42629396 CTATGTTTAAATAAATTTATGGTGTTG
1 CTATGATGAAACCTA-TTCTCCTGTAG
42629423 ACTATGATGAAACCTATTCTCCTGTAG
1 -CTATGATGAAACCTATTCTCCTGTAG
42629450 CTATG
1 CTATG
42629455 TTTAAATCCA
Statistics
Matches: 38, Mismatches: 19, Indels: 4
0.62 0.31 0.07
Matches are distributed among these distances:
26 14 0.37
27 14 0.37
28 10 0.26
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (26 bp):
CTATGATGAAACCTATTCTCCTGTAG
Found at i:42632311 original size:3 final size:3
Alignment explanation
Indices: 42632305--42632371 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
42632295 AAATATGTTG
42632305 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42632353 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
42632372 ATTGTGAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:42632525 original size:22 final size:22
Alignment explanation
Indices: 42632500--42632543 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
42632490 TTGTGAATAA
42632500 AATATTATT-ATATGATTATTAT
1 AATA-TATTGATATGATTATTAT
* *
42632522 AATATATTGTTATTATTATTAT
1 AATATATTGATATGATTATTAT
42632544 TAACTAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
AATATATTGATATGATTATTAT
Found at i:42632592 original size:17 final size:17
Alignment explanation
Indices: 42632570--42632602 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42632560 GGAATAGAAT
*
42632570 AAAAGAATAAAAGAAAG
1 AAAAGAAGAAAAGAAAG
42632587 AAAAGAAGAAAAGAAA
1 AAAAGAAGAAAAGAAA
42632603 CAGAGACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAG
Found at i:42635213 original size:31 final size:31
Alignment explanation
Indices: 42635132--42635218 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
42635122 GAGGTAAGTT
* *
42635132 TGTTAGGATAGTAAACACAAAACAGACAATC
1 TGTTAGGATAGTAAACACAGAATAGACAATC
*
42635163 CGTTAGGATAGTAAACACAGAATAGACAATC
1 TGTTAGGATAGTAAACACAGAATAGACAATC
* *
42635194 TGTTAGGACAATAAACACAGAATAG
1 TGTTAGGATAGTAAACACAGAATAG
42635219 TCAGTTCATC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (31 bp):
TGTTAGGATAGTAAACACAGAATAGACAATC
Found at i:42653438 original size:9 final size:10
Alignment explanation
Indices: 42653412--42653437 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42653402 ATATCCTTTT
42653412 GTTTTTTAGG
1 GTTTTTTAGG
42653422 GTTTTTTAGG
1 GTTTTTTAGG
42653432 GTTTTT
1 GTTTTT
42653438 AAGAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.27, T:0.65
Consensus pattern (10 bp):
GTTTTTTAGG
Found at i:42660554 original size:9 final size:10
Alignment explanation
Indices: 42660528--42660553 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42660518 ATATCCTTTT
42660528 GTTTTTTAGG
1 GTTTTTTAGG
42660538 GTTTTTTAGG
1 GTTTTTTAGG
42660548 GTTTTT
1 GTTTTT
42660554 AAGAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.27, T:0.65
Consensus pattern (10 bp):
GTTTTTTAGG
Found at i:42662283 original size:43 final size:43
Alignment explanation
Indices: 42662218--42662307 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
42662208 TTTACATAGA
42662218 AATT-TATTCATAAAGCCTAAAATTAAAACTAAGTATTTAAAG
1 AATTATATTCATAAAGCCTAAAATTAAAACTAAGTATTTAAAG
42662260 AATTATATTCATAAAGCCTAAAATTAAAACTAAGTATTTAAAG
1 AATTATATTCATAAAGCCTAAAATTAAAACTAAGTATTTAAAG
42662303 AATTA
1 AATTA
42662308 AAACTTAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (43 bp):
AATTATATTCATAAAGCCTAAAATTAAAACTAAGTATTTAAAG
Found at i:42664763 original size:15 final size:15
Alignment explanation
Indices: 42664743--42664791 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
42664733 AAAAACTAAT
*
42664743 GAAAATTGAAGCAAA
1 GAAAATGGAAGCAAA
*
42664758 GAAAATGGATGCAAA
1 GAAAATGGAAGCAAA
*
42664773 GAAAATGGATGCAAA
1 GAAAATGGAAGCAAA
42664788 GAAA
1 GAAA
42664792 TTTGAATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (15 bp):
GAAAATGGAAGCAAA
Found at i:42668150 original size:17 final size:17
Alignment explanation
Indices: 42668124--42668189 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
42668114 CGAATTGCGG
*
42668124 ATTGCGAGCTCACCAAA
1 ATTGCAAGCTCACCAAA
42668141 ATTGCAAGCTCACCAAAA
1 ATTGCAAGCTCACC-AAA
* **
42668159 AATGTGAGCTCACCAAA
1 ATTGCAAGCTCACCAAA
*
42668176 CTTG-AGAGCTCACC
1 ATTGCA-AGCTCACC
42668190 TGCAAGCTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 26 0.65
18 14 0.35
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.18
Consensus pattern (17 bp):
ATTGCAAGCTCACCAAA
Found at i:42668168 original size:18 final size:18
Alignment explanation
Indices: 42668126--42668175 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
42668116 AATTGCGGAT
*
42668126 TGCGAGCTCACC-AAAAT
1 TGCGAGCTCACCAAAAAA
*
42668143 TGCAAGCTCACCAAAAAA
1 TGCGAGCTCACCAAAAAA
*
42668161 TGTGAGCTCACCAAA
1 TGCGAGCTCACCAAA
42668176 CTTGAGAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.40, C:0.28, G:0.16, T:0.16
Consensus pattern (18 bp):
TGCGAGCTCACCAAAAAA
Found at i:42679487 original size:20 final size:22
Alignment explanation
Indices: 42679450--42679489 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
42679440 ACAATCTTTT
42679450 AAATATTTTATGTAATTATATA
1 AAATATTTTATGTAATTATATA
42679472 AAATATTTT-T-TAATTATA
1 AAATATTTTATGTAATTATA
42679490 CAAATTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
AAATATTTTATGTAATTATATA
Found at i:42679689 original size:21 final size:20
Alignment explanation
Indices: 42679644--42679714 Score: 110
Period size: 19 Copynumber: 3.6 Consensus size: 20
42679634 ATCTTCAAGG
42679644 ATATGCAATCTTAGATATG-
1 ATATGCAATCTTAGATATGA
42679663 ATATGCAATCTTAGATATGA
1 ATATGCAATCTTAGATATGA
*
42679683 TATATGCAATCTTGGATAT-A
1 -ATATGCAATCTTAGATATGA
42679703 ATATGCAATCTT
1 ATATGCAATCTT
42679715 GAAAGATATG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 31 0.63
20 1 0.02
21 17 0.35
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (20 bp):
ATATGCAATCTTAGATATGA
Found at i:42679689 original size:40 final size:41
Alignment explanation
Indices: 42679644--42679740 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
42679634 ATCTTCAAGG
*
42679644 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATAATATGCAATCTTAAGATATGAT
*
42679684 ATATGCAATCTTGGATATAATATGCAATCTTGAAAGATATGAT
1 ATATGCAATCTTAGATATAATATGCAATCTT--AAGATATGAT
* *
42679727 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
42679741 GATTTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 29 0.59
42 11 0.22
43 9 0.18
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATAATATGCAATCTTAAGATATGAT
Found at i:42686777 original size:10 final size:9
Alignment explanation
Indices: 42686762--42686786 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42686752 AGGATGGTGC
42686762 AAAAAAAAG
1 AAAAAAAAG
42686771 AAAAAAAAG
1 AAAAAAAAG
42686780 AAAAAAA
1 AAAAAAA
42686787 CTCTTCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:42688530 original size:88 final size:88
Alignment explanation
Indices: 42688396--42689071 Score: 915
Period size: 88 Copynumber: 7.7 Consensus size: 88
42688386 GTTTGCAGCA
* * * * *
42688396 GAGCAGGTTGAAAATAACAGATTTTGCCTTCCTGTA-CTGACGGCGAAGCAGATCGAAGATACCA
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATC-GACAGTGAAGCAGATCGAAGATACCA
*
42688460 GCCTTGCCTCCTTGGGTTGTAGTG
65 GCCTTGCCTCCCTGGGTTGTAGTG
* * * *
42688484 GAGCAGGTTGAAGATAGTAAATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
* * *
42688549 CCTAGCCTCCCTTGGTTGTAGTT
66 CCTTGCCTCCCTGGGTTGTAGTG
* *
42688572 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGTAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
42688637 CCTTGCCTCCCTGAGTTGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* *
42688660 GAGCAGGTTGAAAATAGCAGATCTTGCATTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
42688725 TCTTGCCTCCCTGGGTTGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * ** * *
42688748 GAGCAGGTTGAAGATAACAGATCTTGCCTTCTTACATCGACAGCGAAACAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
42688813 CCTTGCCTCACTGGGTTGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * * *
42688836 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATACCGACAGTGAAGTAGATCAAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
42688901 CCTTGCCTCCCTGGGTCGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* *
42688924 GAGCAGGTTGAAGATAGCAGATCTTGCCTTACTGTATCGACAGTGAAGCAGATCAAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
42688989 CCTTGCCTCCCTGGGTTGTCGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * * * * * * * * * * *
42689012 AAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATA
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATA
42689072 GCAGATCTTG
Statistics
Matches: 522, Mismatches: 65, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
87 18 0.03
88 503 0.96
89 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (88 bp):
GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
CCTTGCCTCCCTGGGTTGTAGTG
Found at i:42689020 original size:43 final size:43
Alignment explanation
Indices: 42688440--42689020 Score: 158
Period size: 44 Copynumber: 13.2 Consensus size: 43
42688430 TACTGACGGC
* * * *
42688440 GAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGTTGTAGT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
* * ** ** ** * ** * *
42688483 GGAGCAGGTTGAAGATAGTAAATCTTGCCTTCCTGCATCGACAGC
1 GAAGCAGATCAAAGATA-CCAGCCTTGCCTCCCTGGGTCGTC-GT
* * * * *
42688528 GAAGCAGATCGAAGATACCAGCCTAGCCTCCCTTGGTTGTAGTT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCG-T
* ** * * * *** *
42688572 G-AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGT
1 GAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTCGTC-GT
* * * * *
42688616 GAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGAGTTGTAGT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
* * * * * * * ** *
42688659 GGAGCAGGTTGAAA-ATAGCAGATCTTGCATTCCTGTATCGACAGT
1 GAAGCA-GATCAAAGATACCAG-CCTTGCCTCCCTGGGTCGTC-GT
* * * *
42688704 GAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGTAGT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
* * ** * * * * *** * *
42688747 GGAGCAGGTTGAAGATAACAGATCTTGCCTTCTTACATCGACAGC
1 GAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTCGTC-GT
* * * * *
42688792 GAAACAGATCGAAGATACCAGCCTTGCCTCACTGGGTTGTAGT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
* * ** * * * **** *
42688835 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATACCGACAGT
1 GAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTCGTC-GT
* *
42688880 GAAGTAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTAGT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
* * ** * * ** ** *
42688923 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTACTGTATCGACAGT
1 GAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGGTCGTC-GT
*
42688968 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTCGT
1 GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
*
42689011 GAAGTAGATC
1 GAAGCAGATC
42689021 GAAAAAAGCA
Statistics
Matches: 356, Mismatches: 166, Indels: 32
0.64 0.30 0.06
Matches are distributed among these distances:
43 107 0.30
44 153 0.43
45 96 0.27
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (43 bp):
GAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTCGT
Found at i:42689058 original size:44 final size:44
Alignment explanation
Indices: 42688934--42689307 Score: 421
Period size: 44 Copynumber: 8.5 Consensus size: 44
42688924 GAGCAGGTTG
* * * *
42688934 AAGATAGCAGATCTTGCCTT-ACTGTATCGACAGTGAAGCAGATCA
1 AAGATAGCAGATCTTGTCTTCA-TGTATTGGC-GTGAAGTAGATCA
* * * * * ** *
42688979 AAGATACCAG-CCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC-A
*
42689023 AA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
* *
42689066 AAGATAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
* *** * * *
42689110 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCA
* * *
42689155 AAGAAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
* *
42689199 AAGATAGTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
* * *
42689243 AAGATAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
42689287 AAGATAGCAGATCTTGTCTTC
1 AAGATAGCAGATCTTGTCTTC
42689308 CCATACTGGT
Statistics
Matches: 275, Mismatches: 49, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
43 19 0.07
44 212 0.77
45 44 0.16
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
Found at i:42689115 original size:176 final size:177
Alignment explanation
Indices: 42688413--42689308 Score: 684
Period size: 176 Copynumber: 5.1 Consensus size: 177
42688403 TTGAAAATAA
* * * *
42688413 CAGATTTTGCCTTCCTGTA-CTGACGGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCTTGGGT
1 CAGATCTTGCCTTCCTGTATC-GACAGCGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGT
* * * * * * * * * * * *
42688477 TGTAGTGGAGCAGGTTGAAGATAGTAAATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAG
65 TGTAGTGAAGCAGATCGAAAATAGCAGATCTTGTCTTCATGTATCGACAGTGAAGTAGATCAAAG
* * * * * *
42688542 ATACCAGCCTAGCCTCCCT-TGGTT-GTAGTTG-AGCAGGTTGAAGATAG
130 ATACCAGTCTTGCCTCCATGT-ATTGGTAG-TGAAGCAGATCGAAGATAG
* * * * *
42688589 CAGATCTTGCCTTCCTGTACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGAGTT
1 CAGATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
* * * * * *
42688654 GTAGTGGAGCAGGTTGAAAATAGCAGATCTTG-CATTCCTGTATCGACAGTGAAGCAGATCGAAG
66 GTAGTGAAGCAGATCGAAAATAGCAGATCTTGTC-TTCATGTATCGACAGTGAAGTAGATCAAAG
* ** * * * *
42688718 ATACCAGTCTTGCCTCCCTGGGTT-GTAGTGGAGCAGGTTGAAGATAA
130 ATACCAGTCTTGCCTCCATGTATTGGTAGTGAAGCAGATCGAAGATAG
* ** * * *
42688765 CAGATCTTGCCTTCTTACATCGACAGCGAAACAGATCGAAGATACCAGCCTTGCCTCACTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
* * * * * * * *
42688830 GTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATACCGACAGTGAAGTAGATCAAAGA
66 GTAGTGAAGCAGATCGAAAATAGCAGATCTTGTCTTCATGTATCGACAGTGAAGTAGATCAAAGA
* * ** * * * *
42688895 TACCAGCCTTGCCTCCCTG-GGTCGTAGTGGAGCAGGTTGAAGATAG
131 TACCAGTCTTGCCTCCATGTATTGGTAGTGAAGCAGATCGAAGATAG
* *
42688941 CAGATCTTGCCTTACTGTATCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
* * * * *
42689006 GTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGA
66 GTAGTGAAGCAGATCGAAAATAGCAGATCTTGTCTTCATGTATCGACAGTGAAGTAGATCAAAGA
* * * * *
42689070 TAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATAA
131 TACCAG-TCTTGCCTCCATGTATTGGTAGTGAAGCAGATCGAAGATAG
* ** *** * * * * * * ***
42689117 CAGATCTTGTCTTCCCATA-CTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATA
1 CAGATCTTGCCTTCCTGTATC-GACAGCGAAGCAGATCAAAGATACCAG-CCTTGCCTCCCTGGG
** * * * * *
42689181 TTGGCGTGAAGTAGATC-AAAGATAGTAGATATTGTCTTCATGTATTGGC-GTGAAGTAGATCAA
64 TTGTAGTGAAGCAGATCGAAA-ATAGCAGATCTTGTCTTCATGTATCGACAGTGAAGTAGATCAA
* * ** * * *
42689244 AGATAGCAAATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAG
128 AGATA-CCAGTCTTGCCTCCATGTATTGGTAGTGAAGCAGATCGAAGATAG
*
42689294 CAGATCTTGTCTTCC
1 CAGATCTTGCCTTCC
42689309 CATACTGGTG
Statistics
Matches: 615, Mismatches: 92, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
175 28 0.05
176 460 0.75
177 126 0.20
178 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (177 bp):
CAGATCTTGCCTTCCTGTATCGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
GTAGTGAAGCAGATCGAAAATAGCAGATCTTGTCTTCATGTATCGACAGTGAAGTAGATCAAAGA
TACCAGTCTTGCCTCCATGTATTGGTAGTGAAGCAGATCGAAGATAG
Found at i:42689150 original size:264 final size:264
Alignment explanation
Indices: 42688396--42689158 Score: 802
Period size: 264 Copynumber: 2.9 Consensus size: 264
42688386 GTTTGCAGCA
* * * * * * *
42688396 GAGCAGGTTGAAAATAACAGATTTTGCCTTCCTGTA-CTGACGGCGAAGCAGATCGAAGATACCA
1 GAGCAGGTTGAAAATAGCAGATCTTGCATTACTGTATC-GACAGTGAAGCAGATCAAAGATACCA
* * * * * ** * * *
42688460 GCCTTGCCTCCTTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAAATCTTGCCTTCCTGCATCGAC
65 GCCTTGCCTCCCTGGGTTGTAGTGAAGCAGATCGAAGAAAACAGATCTTGCCTTCATACATCGAC
* * * * * *
42688525 AGCGAAGCAGATCGAAGATACCAGCCTAGCCTCCCTTGG-TTGTAGTTG-AGCAGGTTGAAGATA
130 AGCGAAACAGATCAAAGATACCAGCCTTGCCTCAC-TGGATTGTAG-TGAAGCAGATCGAAGATA
* ** * *
42688588 GCAGATCTTGCCTTCCTGTACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCTCCCTGAGT
193 ACAGATCTTGCCTTCCCATACCGACAGCGAAGTAGATCAAAGATACCAGCCTTGCCTCCCTGAGT
*
42688653 TGTAGTG
258 CGTAGTG
* *
42688660 GAGCAGGTTGAAAATAGCAGATCTTGCATTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAAATAGCAGATCTTGCATTACTGTATCGACAGTGAAGCAGATCAAAGATACCAG
* * * * * *
42688725 TCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAACAGATCTTGCCTTCTTACATCGACA
66 CCTTGCCTCCCTGGGTTGTAGTGAAGCAGATCGAAGAAAACAGATCTTGCCTTCATACATCGACA
* * * * * *
42688790 GCGAAACAGATCGAAGATACCAGCCTTGCCTCACTGGGTTGTAGTGGAGCAGGTTGAAGATAGCA
131 GCGAAACAGATCAAAGATACCAGCCTTGCCTCACTGGATTGTAGTGAAGCAGATCGAAGATAACA
* * *
42688855 GATCTTGCCTTCCTATACCGACAGTGAAGTAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGT
196 GATCTTGCCTTCCCATACCGACAGCGAAGTAGATCAAAGATACCAGCCTTGCCTCCCTGAGTCGT
42688920 AGTG
261 AGTG
* *
42688924 GAGCAGGTTGAAGATAGCAGATCTTGCCTTACTGTATCGACAGTGAAGCAGATCAAAGATACCAG
1 GAGCAGGTTGAAAATAGCAGATCTTGCATTACTGTATCGACAGTGAAGCAGATCAAAGATACCAG
* * * ** * *
42688989 CCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAA-AAAAGCAGATCTTGTCTTCATGTATTGGC
66 CCTTGCCTCCCTGGGTTGTAGTGAAGCAGATCGAAGAAAA-CAGATCTTGCCTTCATACATCGAC
* ** * * * * *
42689053 -GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCA-TGTATTGGT-GTGAAGTAGATCGAAGAT
130 AGCGAAACAGATCAAAGATACCAG-CCTTG-CCTCACTGGATT-GTAGTGAAGCAGATCGAAGAT
* * ***
42689115 AACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA
192 AACAGATCTTGCCTTCCCATACCGACAGCGAAGTAGATCAAAGA
42689159 AAGCAGATCT
Statistics
Matches: 435, Mismatches: 57, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
263 26 0.06
264 402 0.92
265 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (264 bp):
GAGCAGGTTGAAAATAGCAGATCTTGCATTACTGTATCGACAGTGAAGCAGATCAAAGATACCAG
CCTTGCCTCCCTGGGTTGTAGTGAAGCAGATCGAAGAAAACAGATCTTGCCTTCATACATCGACA
GCGAAACAGATCAAAGATACCAGCCTTGCCTCACTGGATTGTAGTGAAGCAGATCGAAGATAACA
GATCTTGCCTTCCCATACCGACAGCGAAGTAGATCAAAGATACCAGCCTTGCCTCCCTGAGTCGT
AGTG
Found at i:42689171 original size:133 final size:132
Alignment explanation
Indices: 42689011--42689307 Score: 416
Period size: 133 Copynumber: 2.2 Consensus size: 132
42689001 GGGTTGTCGT
*
42689011 GAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
1 GAAGTAGATC-AAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCA
* * * * * *
42689075 GATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGG
65 GATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTATCTTCACATACTGG
*
42689140 TGGC
130 -CGC
* *
42689144 GAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATCAAAGATAGTAG
1 GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAG
* ** *
42689209 ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAAATCTTATCTTCATGTATTGGC
66 ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTATCTTCACATACTGGC
*
42689274 GT
131 GC
* *
42689276 GAAGTAGATCGAAGATAGCAGATCTTGTCTTC
1 GAAGTAGATCAAAGAAAGCAGATCTTGTCTTC
42689308 CCATACTGGT
Statistics
Matches: 145, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
132 33 0.23
133 112 0.77
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAG
ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTATCTTCACATACTGGC
GC
Found at i:42689224 original size:177 final size:177
Alignment explanation
Indices: 42689008--42689338 Score: 565
Period size: 177 Copynumber: 1.9 Consensus size: 177
42688998 CCTGGGTTGT
*
42689008 CGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
1 CGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
* * *
42689073 CAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
66 CAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
*
42689138 GGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
131 GGTGGCAAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
* *
42689185 CGTGAAGTAGATC-AAAGATAGTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
1 CGTGAAGTAGATCGAAA-AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
*
42689249 GCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATAC
65 GCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATAC
*
42689314 TGGTGGCAAAGTAGATCGAAGAAAG
130 TGGTGGCAAAGTAGATCAAAGAAAG
42689339 TAGGTATTGG
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 3 0.02
177 141 0.98
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (177 bp):
CGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
CAAATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
GGTGGCAAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
Found at i:42689326 original size:133 final size:132
Alignment explanation
Indices: 42689006--42689347 Score: 368
Period size: 133 Copynumber: 2.6 Consensus size: 132
42688996 TCCCTGGGTT
* *** *
42689006 GTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTG-AAGTAGATCAAAGA
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATA-TGGTG-GCAAGTAGATCAAAGA
* * * * * * *
42689070 TAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCAT
64 TAGTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTATCTTCACAT
42689135 ACTG
129 ACTG
* * * **
42689139 GTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTC-T-CCATATATTGGCGTGAAGTAGATCAAAG
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATGGTGGC---AAGTAGATCAAAG
* **
42689202 ATAGTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAAATCTTATCTTCATG
63 ATAGTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTATCTTCACA
*
42689267 TATTG
128 TACTG
* *
42689272 G-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGA
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATA-TGGTGGC-AAGTAGATCAAAGA
* *
42689336 AAGTAGGTATTG
64 TAGTAGATATTG
42689348 GCAAAGTAGA
Statistics
Matches: 171, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
129 1 0.01
130 2 0.01
131 2 0.01
132 29 0.17
133 127 0.74
134 5 0.03
135 5 0.03
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (132 bp):
GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATGGTGGCAAGTAGATCAAAGATA
GTAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTATCTTCACATAC
TG
Found at i:42689823 original size:21 final size:21
Alignment explanation
Indices: 42689798--42689875 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
42689788 ATCTTCAAGG
42689798 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
42689819 ATATGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
42689838 ATATGCAATCTTGAAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
42689862 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
42689876 GATTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 12 0.25
20 3 0.06
21 18 0.38
22 6 0.12
23 9 0.19
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:42693568 original size:32 final size:31
Alignment explanation
Indices: 42693526--42693630 Score: 86
Period size: 32 Copynumber: 3.1 Consensus size: 31
42693516 TAAATTGATG
*
42693526 ATCTACTATAAAATCTTAAATTCTAAAATCTA
1 ATCTAATATAAAATC-TAAATTCTAAAATCTA
* *
42693558 ATCTAATATAAAA-CAAAATCCTAAAATTCAATTTA
1 ATCTAATATAAAATCTAAATTCTAAAA-TC----TA
*
42693593 GATTCTAATATAAAATCCTAAATTCTAAAATATA
1 -A-TCTAATATAAAAT-CTAAATTCTAAAATCTA
42693627 ATCT
1 ATCT
42693631 TTTTTAAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
30 10 0.17
31 3 0.05
32 15 0.26
33 1 0.02
34 2 0.03
35 2 0.03
36 1 0.02
37 12 0.21
38 1 0.02
39 11 0.19
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.35
Consensus pattern (31 bp):
ATCTAATATAAAATCTAAATTCTAAAATCTA
Done.