Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 46 of 186
Found at i:13866126 original size:23 final size:23
Alignment explanation
Indices: 13866049--13866139 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 23
13866039 GAGACATGGC
13866049 CAGTAAGCTCTTCATGAGCTGATAA
1 CAGTAAGCTCTT-ATGAGCTGA-AA
13866074 CAGTAAGCT-TTATTGAGCTGAAAA
1 CAGTAAGCTCTTA-TGAGCTG-AAA
* *
13866098 CGGTAAGCTCCTATGAGCTGAAA
1 CAGTAAGCTCTTATGAGCTGAAA
* *
13866121 CAGTAAGCTCATAAGAGCT
1 CAGTAAGCTCTTATGAGCT
13866140 ATGGTGAGTC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 20 0.34
24 26 0.45
25 12 0.21
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (23 bp):
CAGTAAGCTCTTATGAGCTGAAA
Found at i:13872429 original size:21 final size:21
Alignment explanation
Indices: 13872388--13872429 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13872378 GAATATTTTA
* *
13872388 AAATAAATTTAATTATTAAAT
1 AAATAAATTTAAGTATGAAAT
13872409 AAATAAATTTAGAGT-TGAAAT
1 AAATAAATTTA-AGTATGAAAT
13872430 CGAATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
AAATAAATTTAAGTATGAAAT
Found at i:13875839 original size:18 final size:18
Alignment explanation
Indices: 13875818--13875866 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
13875808 TCTTTCTCTT
* * *
13875818 TTTCTTTCTTTTTTTTTG
1 TTTCTTTCCTATTGTTTG
*
13875836 TTTCGTTCCTATTGTTTG
1 TTTCTTTCCTATTGTTTG
*
13875854 TTTCTTTTCTATT
1 TTTCTTTCCTATT
13875867 TCATTTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.04, C:0.14, G:0.08, T:0.73
Consensus pattern (18 bp):
TTTCTTTCCTATTGTTTG
Found at i:13875902 original size:5 final size:5
Alignment explanation
Indices: 13875892--13875935 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
13875882 ATTTAGTTAT
13875892 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
13875936 TACTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:13882021 original size:27 final size:27
Alignment explanation
Indices: 13881991--13882156 Score: 242
Period size: 27 Copynumber: 6.1 Consensus size: 27
13881981 TACTGAAATG
*
13881991 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* **
13882018 CCCTCGATTTATAGAATTACCGTTTCC
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
13882045 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
13882072 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
13882099 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
13882126 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
13882153 CCCT
1 CCCT
13882157 TAATTTAAAA
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:13882106 original size:81 final size:81
Alignment explanation
Indices: 13881991--13882156 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 81
13881981 TACTGAAATG
* *
13881991 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCCCCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
*
13882056 CAAAATTACTATTTTA
66 CAAAATTACCATTTTA
*
13882072 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
13882137 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
13882153 CCCT
1 CCCT
13882157 TAATTTAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:13882162 original size:27 final size:27
Alignment explanation
Indices: 13881991--13882198 Score: 229
Period size: 27 Copynumber: 7.7 Consensus size: 27
13881981 TACTGAAATG
* *
13881991 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * **
13882018 CCCTCGATTTATAGAATTACCGTTTCC
1 CCCTCGATTTATAAAATTACCATTTTA
* *
13882045 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
13882072 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
13882099 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
13882126 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
** * ** * *
13882153 CCCTTAATTTAAAAAATTGTCGTTTTG
1 CCCTCGATTTATAAAATTACCATTTTA
*
13882180 CCCTCGA-TTATGAAATTAC
1 CCCTCGATTTATAAAATTAC
13882199 TGAAATACCC
Statistics
Matches: 151, Mismatches: 30, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 8 0.05
27 143 0.95
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:13882184 original size:81 final size:81
Alignment explanation
Indices: 13882005--13882188 Score: 269
Period size: 81 Copynumber: 2.3 Consensus size: 81
13881995 CGATTTGTAG
* *
13882005 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCCCCCTCGATTTACAAAATTACTATTT
1 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTT
* * *
13882070 TACCCTCGATTTATAG
66 TACCCTCAATTTAAAA
*
13882086 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
1 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTT
*
13882151 TACCCTTAATTTAAAA
66 TACCCTCAATTTAAAA
** * *
13882167 AATTGTCGTTTTGCCCTCGATT
1 AATTACCATTTTACCCTCGATT
13882189 ATGAAATTAC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTT
TACCCTCAATTTAAAA
Found at i:13882222 original size:27 final size:27
Alignment explanation
Indices: 13882192--13882343 Score: 146
Period size: 27 Copynumber: 5.6 Consensus size: 27
13882182 CTCGATTATG
** *
13882192 AAATTACTGAAATACCCCTA-TAAGATA
1 AAATTACCAAAATACCCCTAGTTAG-TA
*
13882219 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTAGTA
*
13882246 AAATTACCAAAATACCCCTAGTTCGTA
1 AAATTACCAAAATACCCCTAGTTAGTA
* ** * * *
13882273 AAATTACCGAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTTAGTA
* * *
13882300 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTAGTA
13882327 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
13882344 TTAATTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 99 0.94
28 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTAGTA
Found at i:13882344 original size:27 final size:27
Alignment explanation
Indices: 13882217--13882371 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
13882207 CCCTATAAGA
13882217 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTC-AGTTTG
*
13882244 TAAAATTACCAAAATACCC-CTAGTTCG
1 TAAAATTACCAAAATACCCTC-AGTTTG
* * **
13882271 TAAAATTACCGAAATACCATTGGTTTG
1 TAAAATTACCAAAATACCCTCAGTTTG
* * *
13882298 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCAGTTTG
* * *
13882325 TAAAATTACCAAAATACCCTTAATTTA
1 TAAAATTACCAAAATACCCTCAGTTTG
*
13882352 CAAAATTA-CAGAAATACCCT
1 TAAAATTACCA-AAATACCCT
13882372 TGACTTTCTA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 108 0.98
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCAGTTTG
Found at i:13882357 original size:81 final size:81
Alignment explanation
Indices: 13882219--13882369 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
13882209 CTATAAGATA
* * ** *
13882219 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTCGTAAAATTACCGAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTCACAAAATTACAGAA
13882284 ATACCATTGGTTTGTG
66 ATACCATTGGTTTGTG
* * *
13882300 AAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCTTAATTTACAAAATTACAGA
1 AAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAATTCACAAAATTACAGA
13882364 AATACC
65 AATACC
13882370 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.07
81 57 0.93
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTCACAAAATTACAGAA
ATACCATTGGTTTGTG
Found at i:13882371 original size:54 final size:55
Alignment explanation
Indices: 13882192--13882371 Score: 181
Period size: 54 Copynumber: 3.3 Consensus size: 55
13882182 CTCGATTATG
* ** *
13882192 AAATTACTGAAATACCC-CT-ATAAGATAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACAGAAATACCCTCTAATTCG-TAAAATTACCAAAATACCCTTAGTTTGTA
* * * * *
13882246 AAATTACCA-AAATACCC-CTAGTTCGTAAAATTACCGAAATACCATTGGTTTGTG
1 AAATTA-CAGAAATACCCTCTAATTCGTAAAATTACCAAAATACCCTTAGTTTGTA
* * * **
13882300 AAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCTTAATTTACA
1 AAATTACAGAAATACCCTCTAATTCGTAAAATTACCAAAATACCCTTAGTTTGTA
13882354 AAATTACAGAAATACCCT
1 AAATTACAGAAATACCCT
13882372 TGACTTTCTA
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 97 0.95
55 4 0.04
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (55 bp):
AAATTACAGAAATACCCTCTAATTCGTAAAATTACCAAAATACCCTTAGTTTGTA
Found at i:13882372 original size:27 final size:27
Alignment explanation
Indices: 13882300--13882423 Score: 108
Period size: 27 Copynumber: 4.5 Consensus size: 27
13882290 TTGGTTTGTG
* * **
13882300 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACAGAAATACCCTTAATTTACA
13882327 AAATTACCA-AAATACCCTTAATTTACA
1 AAATTA-CAGAAATACCCTTAATTTACA
*
13882354 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACAGAAATACCCTT-AATTTAC--A
* * **
13882383 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTAATTTACA
*
13882410 AAATTACTGAAATA
1 AAATTACAGAAATA
13882424 GCATTGGTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
26 2 0.03
27 51 0.64
28 8 0.10
29 19 0.24
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTAATTTACA
Found at i:13882428 original size:27 final size:27
Alignment explanation
Indices: 13882348--13882433 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
13882338 ATACCCTTAA
* * *
13882348 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
13882376 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
13882404 TTTACAAAATTACT-GAAATAGCATTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
13882431 TTT
1 TTT
13882434 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 23 0.46
28 7 0.14
29 20 0.40
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:13882562 original size:27 final size:28
Alignment explanation
Indices: 13882487--13882563 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
13882477 ACCCCTAATA
*
13882487 GGTAAAAAGACCGTAA-AGCCCTTGTAG
1 GGTAAAATGACCGTAATAGCCCTTGTAG
* *
13882514 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATAGCCCTTGTAG
13882541 GGTAAAATGA-CG-AATATGCCCTT
1 GGTAAAATGACCGTAATA-GCCCTT
13882564 ATGTTCCGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.09
26 2 0.05
27 36 0.84
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (28 bp):
GGTAAAATGACCGTAATAGCCCTTGTAG
Found at i:13883318 original size:16 final size:16
Alignment explanation
Indices: 13883297--13883327 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13883287 CAAATATGGG
*
13883297 CATGACATTTTGCATA
1 CATGACATATTGCATA
13883313 CATGACATATTGCAT
1 CATGACATATTGCAT
13883328 GGGATATGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATATTGCATA
Found at i:13883398 original size:25 final size:24
Alignment explanation
Indices: 13883360--13883429 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
13883350 AGGAAGTGCT
*
13883360 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
13883384 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
13883409 AGAAAGGGCTTTACCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
13883430 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:13883442 original size:24 final size:24
Alignment explanation
Indices: 13883360--13883442 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
13883350 AGGAAGTGCT
* * *
13883360 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTACCCCAGTTTATC
*
13883384 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTACCCCAGTTTATC
*
13883409 AGAAAGGGCTTTACCCCAG-TTATT
1 A-AAAGGGCTTTACCCCAGTTTATC
13883433 AAAAGAGGCT
1 AAAAG-GGCT
13883443 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:13883643 original size:41 final size:42
Alignment explanation
Indices: 13883577--13883667 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 42
13883567 TAGTCTCCCC
*
13883577 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
13883619 AAATGGGCTTGC-TACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
13883660 AAATGGGC
1 AAATGGGC
13883668 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 36 0.75
42 12 0.25
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:13883734 original size:31 final size:31
Alignment explanation
Indices: 13883691--13883774 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
13883681 CGTTTACAGT
13883691 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
13883722 AAAGACTTCGGCCCAGTGATATTATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
13883753 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
13883775 TCAAGACTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:13885203 original size:5 final size:5
Alignment explanation
Indices: 13885193--13885219 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13885183 CAGACTTCTT
13885193 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
13885220 TACTTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:13889397 original size:29 final size:32
Alignment explanation
Indices: 13889357--13889420 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
13889347 ATAATCTATA
13889357 TTTTTATAATTTTTAAAAGATTAAA-T-TAAT
1 TTTTTATAATTTTTAAAAGATTAAAGTGTAAT
**
13889387 TTTTTAT-ATTTTTAGGAGATTAAAGTGTAAT
1 TTTTTATAATTTTTAAAAGATTAAAGTGTAAT
13889418 TTT
1 TTT
13889421 ACATTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 15 0.50
30 8 0.27
31 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (32 bp):
TTTTTATAATTTTTAAAAGATTAAAGTGTAAT
Found at i:13893809 original size:44 final size:45
Alignment explanation
Indices: 13893756--13893844 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
13893746 AATGAATTAT
* *
13893756 TCCTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAA
1 TCCTATCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
*
13893800 TCCTATCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTATCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
13893845 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 17 0.43
46 23 0.57
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (45 bp):
TCCTATCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
Found at i:13899762 original size:46 final size:44
Alignment explanation
Indices: 13899658--13899765 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13899648 TGTCTTTGAC
** * * *
13899658 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13899702 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13899748 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13899766 TTTCTGCTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13904151 original size:21 final size:21
Alignment explanation
Indices: 13904125--13904164 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13904115 TCTGCTCAAA
* *
13904125 CTCCACCTGTTTTGGAGTACG
1 CTCCACCTGCTGTGGAGTACG
13904146 CTCCACCTGCTGTGGAGTA
1 CTCCACCTGCTGTGGAGTA
13904165 TTGCTCGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.25, T:0.30
Consensus pattern (21 bp):
CTCCACCTGCTGTGGAGTACG
Found at i:13907351 original size:6 final size:6
Alignment explanation
Indices: 13907340--13907376 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
13907330 TGCTCAGAGG
13907340 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA T
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA T
13907377 AGTTATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
TTGAGA
Found at i:13907616 original size:31 final size:30
Alignment explanation
Indices: 13907575--13907633 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
13907565 TTCAATTTGA
13907575 TCAAATTTAA-TCTCTATACTCTTTGAATTAG
1 TCAAATTTAATTC-CTATACT-TTTGAATTAG
* *
13907606 TCAAGTTTAATTCCTATACTTTTTAATT
1 TCAAATTTAATTCCTATACTTTTGAATT
13907634 TTTAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 16 0.64
32 2 0.08
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (30 bp):
TCAAATTTAATTCCTATACTTTTGAATTAG
Found at i:13908946 original size:28 final size:30
Alignment explanation
Indices: 13908896--13908955 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
13908886 ACTTATTTTC
13908896 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
13908926 TTGTTAA-TTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
13908954 TT
1 TT
13908956 ACTTGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 18 0.64
29 3 0.11
30 7 0.25
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:13921722 original size:1 final size:1
Alignment explanation
Indices: 13921716--13921756 Score: 73
Period size: 1 Copynumber: 41.0 Consensus size: 1
13921706 TTCACAGAAC
*
13921716 AAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13921757 GCTTCTGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.98, C:0.00, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:13921807 original size:14 final size:14
Alignment explanation
Indices: 13921788--13921824 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13921778 TTGACAGAAC
13921788 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
13921802 AAAAAAAGAAAAAG
1 AAAAAAAAAAAAAG
13921816 AAAAAAAAA
1 AAAAAAAAA
13921825 GAAGACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:13921813 original size:16 final size:16
Alignment explanation
Indices: 13921788--13921827 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
13921778 TTGACAGAAC
13921788 AAAAAAAA-AAAAAG-
1 AAAAAAAAGAAAAAGA
13921802 -AAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
13921817 AAAAAAAAGAA
1 AAAAAAAAGAA
13921828 GACTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
16 10 0.43
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:13929993 original size:65 final size:65
Alignment explanation
Indices: 13929889--13930020 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
13929879 ATCTGATTTA
13929889 TCTTCCGATCTAGCCGGTTAATCTAGGACTAACGAATGGGTGTGCAACAAGATTACCTTCTGGTC
1 TCTTCCGATCTAGCCGGTTAATCTAGGACTAACGAATGGGTGTGCAACAAGATTACCTTCTGGTC
*
13929954 TCTTCCGATCTCGCCGGTTAATCTAGGACTAACGAATGGGTGTGCAACAAGATTACCTTCTGGTC
1 TCTTCCGATCTAGCCGGTTAATCTAGGACTAACGAATGGGTGTGCAACAAGATTACCTTCTGGTC
13930019 TC
1 TC
13930021 ACTTTATCTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (65 bp):
TCTTCCGATCTAGCCGGTTAATCTAGGACTAACGAATGGGTGTGCAACAAGATTACCTTCTGGTC
Found at i:13930755 original size:22 final size:22
Alignment explanation
Indices: 13930727--13930792 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
13930717 ATCAAGTTAG
*
13930727 AATTGGATATCGCAATATCCGA
1 AATTGGATATCGCAATATCCAA
13930749 AATTGGATATCGCAATATCCAA
1 AATTGGATATCGCAATATCCAA
*
13930771 AATTGGATATCGCAATACCCAA
1 AATTGGATATCGCAATATCCAA
13930793 GTTAGAATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (22 bp):
AATTGGATATCGCAATATCCAA
Found at i:13938029 original size:16 final size:17
Alignment explanation
Indices: 13938008--13938045 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13937998 AATAAAAGAC
13938008 AGAGAAT-AAAGAACAA
1 AGAGAATGAAAGAACAA
* *
13938024 AGAGAATGAAATAGCAA
1 AGAGAATGAAAGAACAA
13938041 AGAGA
1 AGAGA
13938046 GAGTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.63, C:0.05, G:0.24, T:0.08
Consensus pattern (17 bp):
AGAGAATGAAAGAACAA
Found at i:13945620 original size:64 final size:64
Alignment explanation
Indices: 13945540--13945723 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
13945530 AGACATTATG
* * *
13945540 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
13945604 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
13945669 AA
63 AA
* * * *
13945671 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
13945724 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13950381 original size:30 final size:30
Alignment explanation
Indices: 13950347--13950411 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
13950337 GAGGAACAAG
13950347 TCCAATATATGGGTAACAATAACTCTCAAT
1 TCCAATATATGGGTAACAATAACTCTCAAT
13950377 TCCAATATATGGGTAACAATAACTCTCAAT
1 TCCAATATATGGGTAACAATAACTCTCAAT
*
13950407 CCCAA
1 TCCAA
13950412 AATAACCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (30 bp):
TCCAATATATGGGTAACAATAACTCTCAAT
Found at i:13954493 original size:13 final size:13
Alignment explanation
Indices: 13954475--13954500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13954465 TTGGTTATTA
13954475 TTATTATTATTTT
1 TTATTATTATTTT
13954488 TTATTATTATTTT
1 TTATTATTATTTT
13954501 GTATGTCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:13956383 original size:20 final size:20
Alignment explanation
Indices: 13956340--13956384 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
13956330 ACTGTTTTGT
13956340 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
13956360 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
13956379 TATGGG
1 TATGGG
13956385 TAAGGCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:13958922 original size:23 final size:23
Alignment explanation
Indices: 13958890--13958936 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
13958880 AATATATGAT
13958890 TACCTATGGATTATTTTGAGATA
1 TACCTATGGATTATTTTGAGATA
*
13958913 TACCTGTGGATTATTTTGAGATA
1 TACCTATGGATTATTTTGAGATA
13958936 T
1 T
13958937 TATCGATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (23 bp):
TACCTATGGATTATTTTGAGATA
Found at i:13961112 original size:65 final size:65
Alignment explanation
Indices: 13961037--13961165 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
13961027 AAAAAACGAT
*
13961037 TGAATTAAGACAATACCTAAGGAAGAATCCACCTAGACTTCATTTGTTATTCTGACTCCGAATCG
1 TGAATTAAGACAATACCTAAGGAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCG
13961102 TGAATTAAGACAATACCTAAGGAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATC
1 TGAATTAAGACAATACCTAAGGAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATC
13961166 AGACAATTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (65 bp):
TGAATTAAGACAATACCTAAGGAAGAATCCACCTAGACTTCACTTGTTATTCTGACTCCGAATCG
Found at i:13961497 original size:14 final size:14
Alignment explanation
Indices: 13961478--13961516 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
13961468 TCAAAACAAG
13961478 AATTAAGAACACAT
1 AATTAAGAACACAT
13961492 AATTAAGAACACAT
1 AATTAAGAACACAT
13961506 AATTAAGAACA
1 AATTAAGAACA
13961517 AGTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:13966399 original size:21 final size:20
Alignment explanation
Indices: 13966354--13966409 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
13966344 CACGTTAGTG
**
13966354 AATAAATATGGATATAAATA
1 AATAAATATTTATATAAATA
13966374 AATAAATATTTATATAAATAA
1 AATAAATATTTATATAAAT-A
13966395 AATAAATATTTATAT
1 AATAAATATTTATAT
13966410 TTAAAATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AATAAATATTTATATAAATA
Found at i:13968889 original size:24 final size:24
Alignment explanation
Indices: 13968836--13968892 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
13968826 CATACATAAA
13968836 TTAATTTTTAATAATAAAACAAAT
1 TTAATTTTTAATAATAAAACAAAT
** *
13968860 GAAATTTTTAATAA-AAAGACTAAT
1 TTAATTTTTAATAATAAA-ACAAAT
13968884 TTAATTTTT
1 TTAATTTTT
13968893 GATCTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
TTAATTTTTAATAATAAAACAAAT
Found at i:13968927 original size:24 final size:25
Alignment explanation
Indices: 13968900--13968950 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
13968890 TTTGATCTAA
13968900 TATACATTTTAATACAAAA-AA-TTT
1 TATA-ATTTTAATACAAAACAACTTT
**
13968924 TATAATTTTTTTACAAAACAACTTT
1 TATAATTTTAATACAAAACAACTTT
13968949 TA
1 TA
13968951 CTTTTGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 6 0.26
25 5 0.22
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (25 bp):
TATAATTTTAATACAAAACAACTTT
Found at i:13971974 original size:20 final size:19
Alignment explanation
Indices: 13971949--13971992 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13971939 TTATATTTTT
* *
13971949 AAAATTCATTATTTACTATA
1 AAAATTCATTA-GTACGATA
*
13971969 AAAATTTATTAGTACGATA
1 AAAATTCATTAGTACGATA
13971988 AAAAT
1 AAAAT
13971993 AATTTCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAATTCATTAGTACGATA
Found at i:13973888 original size:35 final size:36
Alignment explanation
Indices: 13973760--13973893 Score: 148
Period size: 35 Copynumber: 3.7 Consensus size: 36
13973750 TCCTCATTGA
* *
13973760 AATACCATACCTACATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTATGAGAT
* ** *
13973795 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCGGTAT-GA---GAT
13973835 AATACCATACCTACATTTCACAACTCGGTAT-AGAT
1 AATACCATACCTACATTTCACAACTCGGTATGAGAT
*
13973870 GATACCATACCTACATTTCA-AACT
1 AATACCATACCTACATTTCACAACT
13973894 TTTCCATGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
34 4 0.05
35 48 0.58
36 1 0.01
38 1 0.01
39 2 0.02
40 27 0.33
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCGGTATGAGAT
Found at i:13973903 original size:75 final size:74
Alignment explanation
Indices: 13973756--13973893 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 74
13973746 GTTTTCCTCA
* * * *
13973756 TTGAAATACCATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACATTTCTTAACTC
1 TTGAAATACCATACCTACATTTCACAACTCGGTATGAGAAATACCATACCTACATTTCTAAACTC
13973821 AGTATGGAT
66 AGTATGGAT
*
13973830 TTGATAATACCATACCTACATTTCACAACTCGGTAT-AGATGATACCATACCTACATTTC-AAAC
1 TTGA-AATACCATACCTACATTTCACAACTCGGTATGAGA-AATACCATACCTACATTTCTAAAC
13973893 T
64 T
13973894 TTTCCATGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
74 10 0.18
75 47 0.82
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCGGTATGAGAAATACCATACCTACATTTCTAAACTC
AGTATGGAT
Found at i:13975479 original size:22 final size:21
Alignment explanation
Indices: 13975424--13975479 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
13975414 CTTCTTGGCC
13975424 ATAATTT-TAAAA-ACTTTTT
1 ATAATTTATAAAATACTTTTT
13975443 A-AGATTTA-AATAATACTTTTT
1 ATA-ATTTATAA-AATACTTTTT
13975464 ATAACTTTATAAAATA
1 ATAA-TTTATAAAATA
13975480 AATAAATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 2 0.07
21 9 0.30
22 9 0.30
23 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAATTTATAAAATACTTTTT
Found at i:13980824 original size:13 final size:13
Alignment explanation
Indices: 13980808--13980834 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13980798 CTCAATCAAC
13980808 CAAATCAAGAATT
1 CAAATCAAGAATT
13980821 CAAATCAAGAATT
1 CAAATCAAGAATT
13980834 C
1 C
13980835 TATACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (13 bp):
CAAATCAAGAATT
Found at i:13982400 original size:42 final size:41
Alignment explanation
Indices: 13982344--13982426 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 41
13982334 GGCATTTAAC
*
13982344 GAGTTTTTTTTAAGCCGTTTTAGGTTATTTTATTAAATTTT
1 GAGTTTTTTCTAAGCCGTTTTAGGTTATTTTATTAAATTTT
*
13982385 GAGTTTGTTTCTAAGCCGTTTTAGTTTATTTTATTAAATTTT
1 GAGTTT-TTTCTAAGCCGTTTTAGGTTATTTTATTAAATTTT
13982427 CTGTTTCAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 6 0.15
42 33 0.85
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (41 bp):
GAGTTTTTTCTAAGCCGTTTTAGGTTATTTTATTAAATTTT
Found at i:13983705 original size:40 final size:39
Alignment explanation
Indices: 13983647--13983783 Score: 136
Period size: 37 Copynumber: 3.5 Consensus size: 39
13983637 ACACACCAAT
*
13983647 TTGACACCCAGTGCCTCATAGGATAATTCGAAGTAGTAAA
1 TTGACACCCAGTGCCTCATAGGATAAATCGAA-TAGTAAA
* * *
13983687 TTGACACCCAGTGTCTCATTA-GTTAAACCG-A-AGTAAA
1 TTGACACCCAGTGCCTCA-TAGGATAAATCGAATAGTAAA
* * * *
13983724 TTGGCACCCAGTGCCTCATCGAATAAATCAGAAATAATAAA
1 TTGACACCCAGTGCCTCATAGGATAAATC-G-AATAGTAAA
*
13983765 TTGACACCCAGTGTCTCAT
1 TTGACACCCAGTGCCTCAT
13983784 CGACTCGAAG
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
36 1 0.01
37 27 0.35
38 1 0.01
39 1 0.01
40 24 0.31
41 24 0.31
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
TTGACACCCAGTGCCTCATAGGATAAATCGAATAGTAAA
Found at i:13987948 original size:40 final size:40
Alignment explanation
Indices: 13987903--13987980 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
13987893 ACATACCATG
* *
13987903 TGGGGATAAAATCGATCCA-CTCAACCCTACACACCAAGTA
1 TGGGGATAAAATCAACCCATC-CAACCCTACACACCAAGTA
*
13987943 TGGGGATATAATCAACCCATCCAACCCTACACACCAAG
1 TGGGGATAAAATCAACCCATCCAACCCTACACACCAAG
13987981 AGGTACCGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.32, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:13994038 original size:21 final size:21
Alignment explanation
Indices: 13994008--13994047 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13993998 TTTGCCAAAG
* *
13994008 ATATGTATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
13994029 ATATGAATTGTATTAAATT
1 ATATGAATTGGATTAAATT
13994048 AAGCTAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:13994400 original size:25 final size:25
Alignment explanation
Indices: 13994365--13994579 Score: 167
Period size: 25 Copynumber: 8.7 Consensus size: 25
13994355 ACACACCAAA
* *
13994365 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
* * *
13994390 ACTCTCATGAGTTTCCCGTTATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
* ** *
13994415 GCTATCCGGAGCTTCCCGATAATTG
1 GCTCTCATGAGCTTCCCGATATTTG
* *
13994440 GCTCTTATGAGCTTCCCGAT-TAATG
1 GCTCTCATGAGCTTCCCGATAT-TTG
*
13994465 GCTCTCCA-GAGCTTTCCGATA-TTG
1 GCTCT-CATGAGCTTCCCGATATTTG
* *
13994489 GCTCGCATGAGCTTCTCGA-ATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
*
13994513 GCTCTCTTGAGCTTCCCG-T-TTATG
1 GCTCTCATGAGCTTCCCGATATT-TG
* *
13994537 GCTCGT-ATGAGATTCCCGATAATTG
1 GCTC-TCATGAGCTTCCCGATATTTG
*
13994562 GCTCGT-AAGAGCTTCCCG
1 GCTC-TCATGAGCTTCCCG
13994580 TTATACAACT
Statistics
Matches: 148, Mismatches: 32, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
23 5 0.03
24 49 0.33
25 92 0.62
26 2 0.01
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATTTG
Found at i:13994562 original size:73 final size:73
Alignment explanation
Indices: 13994365--13994579 Score: 179
Period size: 73 Copynumber: 2.9 Consensus size: 73
13994355 ACACACCAAA
* * * * * ** **
13994365 GCTCTTATGAGCATCCCGA-TATTTGACTCTCATGAGTTTCCCGTTATTTGGCTATCCGGAGCTT
1 GCTCTTATGAGCTTCCCGATTA-ATGGCTCTCA-GAGATTCCCGATA-TTGGCTCGCAAGAGCTT
13994429 CCCGATAATTG
63 CCCGATAATTG
* * * *
13994440 GCTCTTATGAGCTTCCCGATTAATGGCTCTCCAGAGCTTTCCGATATTGGCTCGCATGAGCTTCT
1 GCTCTTATGAGCTTCCCGATTAATGGCTCT-CAGAGATTCCCGATATTGGCTCGCAAGAGCTTCC
*
13994505 CGA-ATTTG
65 CGATAATTG
* *
13994513 GCTCTCT-TGAGCTTCCCG-TTTATGGCTCGT-ATGAGATTCCCGATAATTGGCTCGTAAGAGCT
1 GCTCT-TATGAGCTTCCCGATTAATGGCTC-TCA-GAGATTCCCGAT-ATTGGCTCGCAAGAGCT
13994575 TCCCG
62 TCCCG
13994580 TTATACAACT
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
72 19 0.16
73 40 0.34
74 18 0.16
75 34 0.29
76 4 0.03
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (73 bp):
GCTCTTATGAGCTTCCCGATTAATGGCTCTCAGAGATTCCCGATATTGGCTCGCAAGAGCTTCCC
GATAATTG
Found at i:14001840 original size:21 final size:21
Alignment explanation
Indices: 14001814--14001854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14001804 TCCAGCAACC
*
14001814 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
14001835 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
14001855 CTGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:14004468 original size:12 final size:12
Alignment explanation
Indices: 14004451--14004487 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
14004441 ATACAGAAAG
*
14004451 AGATGCAGGAAC
1 AGATGCAAGAAC
*
14004463 AGATGCAAGCAC
1 AGATGCAAGAAC
14004475 AGATGCAAGAAC
1 AGATGCAAGAAC
14004487 A
1 A
14004488 ATTGGCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.19, G:0.27, T:0.08
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:14012238 original size:64 final size:64
Alignment explanation
Indices: 14012137--14012263 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
14012127 CATTCATAAT
* *
14012137 ACATCTAGTTAGGAGCACTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGCTAGGAGCACTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
*
14012201 ACATCTAGCTAGGAGCACTTGGA-TTATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCACTT-GATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
14012264 AGATACATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 57 0.97
65 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCACTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:14012502 original size:45 final size:45
Alignment explanation
Indices: 14012453--14012540 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
14012443 AAGCAGACTA
*
14012453 AAAATTACAGA-TCTTATCTCCATGTATCAGCTATGGAGCAGATCG
1 AAAA-TACAGAGTCTTATCTCCATGTATCAGCTATGGAACAGATCG
** *
14012498 AAAATGGAGAGTCTTATCTCCATGTATCGGCTATGGAACAGAT
1 AAAATACAGAGTCTTATCTCCATGTATCAGCTATGGAACAGAT
14012541 TTCAACCACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 4 0.11
45 34 0.89
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
AAAATACAGAGTCTTATCTCCATGTATCAGCTATGGAACAGATCG
Found at i:14012618 original size:45 final size:45
Alignment explanation
Indices: 14012554--14012664 Score: 186
Period size: 45 Copynumber: 2.5 Consensus size: 45
14012544 AACCACCACC
* *
14012554 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGT
*
14012599 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGT
*
14012644 CTTATCTTCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAG
14012665 GAAGTAGACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGT
Found at i:14012829 original size:223 final size:221
Alignment explanation
Indices: 14012377--14013052 Score: 684
Period size: 223 Copynumber: 3.0 Consensus size: 221
14012367 GATTAAAAAC
* * * *
14012377 CTTATCTCCCTGAAGCTGTAGTGGAGCAGGTTGAAG-TGACAAGTCTTATCTTCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAAGATGACAAGTCTTATCTTCCTGAAGTTGCA
* * * *
14012441 GGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGA
65 GGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGC
* * * * *
14012506 GAGTCTTATCTCCATGTATCGGCTATGGAACAGATTTCAACCACCACCCTTATCTCCCTGAAGTT
130 GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATCTTCCTGAAGTT
* *
14012571 GCAGTGGAGCAGACT-AAAGATAGTAAG-T
195 GCAG-GAAGCAGACTGAAA-AT-TTAAGAT
* *
14012599 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTTCCTAAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATGA-CAAGTCTTATCTTCCTGAAGTTGC
* *
14012663 AGGAAGTAGACTGAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AGAAATG
64 AGGAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGA-AAATG
* * * *
14012727 GCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCTTGAAG
128 GCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATCTTCCTGAAG
14012792 TTGCAGGAAGCAGACTGAAAATTTATAGAT
193 TTGCAGGAAGCAGACTGAAAATTTA-AGAT
* * * * * * *
14012822 TTTATCTCCATGTA-TCGGCTA-TGGAGTAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGT-TGC-AGTGGAGCAGAT-GAAGATGACAAGTCTTATCTTCCTGAAGTTG
* * * *
14012885 CAGTGGAGCAGACTG-AAG--ATAGCAAGTCTTATTTTCC-TGAAGT-TGC-A-GGAAGCAGA-C
63 CAG-GAAGCAGACTGAAAGTTATAG--A-TCTTA-TCTCCATGTA-TCAGCTATGG-AGCAGATC
** * * * *
14012942 TGAAAATTAC-AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAGCTACTATTCTTATC
121 -GAAAATGGCGAG-TCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATC
14013006 TTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGAT
184 TTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTA-AGAT
14013044 CTTATCTCC
1 CTTATCTCC
14013053 ATGTAACGGC
Statistics
Matches: 385, Mismatches: 48, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
221 7 0.02
222 67 0.17
223 284 0.74
224 22 0.06
225 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (221 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATGACAAGTCTTATCTTCCTGAAGTTGCAG
GAAGCAGACTGAAAGTTATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCG
AGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAGCCACTACTCTTATCTTCCTGAAGTTG
CAGGAAGCAGACTGAAAATTTAAGAT
Found at i:14012892 original size:45 final size:45
Alignment explanation
Indices: 14012854--14012964 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
14012844 GGAGTAGATC
14012854 GAAAAT-GACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 GAAAATAG-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * *
14012899 GAAGATAGCAAGTCTTATTTTCCTGAAGTTGCAG-GAAGCAGACT
1 GAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
14012943 GAAAATTA-C-AGATCTTATCTCC
1 GAAAA-TAGCAAG-TCTTATCTCC
14012965 ATGTATCAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.04
44 22 0.39
45 31 0.55
46 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
GAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
Found at i:14012987 original size:134 final size:133
Alignment explanation
Indices: 14012595--14013033 Score: 528
Period size: 134 Copynumber: 3.3 Consensus size: 133
14012585 TAAAGATAGT
* *
14012595 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTAAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
* *
14012660 TGCAGGAAGTAGACTGAAAGTTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAA
66 TGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCA-AAA
*
14012725 TGGC
130 TGAC
* ** * * * ** ** * *
14012729 GAGTCTTATCTCTATGTA-TCGGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCTTGAA
1 AAGTCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAA
* *
14012791 GTTGCAGGAAGCAGACTGAAAATTTATAGATTTTATCTCCATGTATCGGCTATGGAGTAGATCGA
64 GTTGCAGGAAGCAGACTGAAAA-TTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-A
14012856 AAATGAC
127 AAATGAC
*
14012863 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATTTTCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
* * * **
14012928 TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCTCAGC
66 TGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATC-AAAA
14012993 T-AC
130 TGAC
* * * *
14012996 TATTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAA
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
14013034 AATTACAGAT
Statistics
Matches: 254, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
132 12 0.05
133 62 0.24
134 139 0.55
135 41 0.16
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (133 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
TGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAT
GAC
Found at i:14013091 original size:88 final size:88
Alignment explanation
Indices: 14012911--14013104 Score: 273
Period size: 88 Copynumber: 2.2 Consensus size: 88
14012901 AGATAGCAAG
* *
14012911 TCTTATTTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCAGCT
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACAGCT
* *
14012976 ATGGAGCAGATCTCAGCTACTAT
66 ATGGAACAGATCTCAGCCACTAT
*
14012999 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACGGCT
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACAGCT
** ** *
14013064 ATGGAATGGATCTTGGCCATTGA-
66 ATGGAACAGATCTCAGCCACT-AT
*
14013087 TCTTATCTCCCTGAAGTT
1 TCTTATCTTCCTGAAGTT
14013105 ACAGTGGGGC
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 93 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAACAGCT
ATGGAACAGATCTCAGCCACTAT
Found at i:14015526 original size:124 final size:124
Alignment explanation
Indices: 14015293--14015570 Score: 337
Period size: 124 Copynumber: 2.2 Consensus size: 124
14015283 GTTCGAGGGG
* * *
14015293 TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCGTTCAACTAAAATACGGAATATCTTTTGGAATT
1 TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCG-ACAACTAAAATACAGAATATCTTTTGGAAAT
* * * * *
14015358 TTCGTCCATGCTTTTAAAAATTAAAATGAGGCAATATTTCATATTTGGGGAGTTTGGGAGA
65 TTCATCCATGCTTTTAAAAATTAAAATGAGGCAATATTTCATATTT-GGAAATTCGGGAAA
* * *
14015419 TCGTGCCCAATCGTGCTGGGTTTCGATTTTTC-ACGACTAAAGTACAGAATATCCTTTT-GAAAT
1 TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCGACAACTAAAATACAGAATAT-CTTTTGGAAAT
* ** * * *
14015482 TTCATCCGTG-TTTTCTCAAATTAAAATGAGGCATTGTTTCATATTTGGAAATTCGGTAAA
65 TTCATCCATGCTTTT-AAAAATTAAAATGAGGCAATATTTCATATTTGGAAATTCGGGAAA
*
14015542 TCGTGCCCAATCGTGCCGGGTTTTGATTT
1 TCGTGCCCAATCGTGCCGGGTTTCGATTT
14015571 ACCGTTTGGG
Statistics
Matches: 131, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
123 40 0.31
124 55 0.42
125 5 0.04
126 31 0.24
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (124 bp):
TCGTGCCCAATCGTGCCGGGTTTCGATTTTTCGACAACTAAAATACAGAATATCTTTTGGAAATT
TCATCCATGCTTTTAAAAATTAAAATGAGGCAATATTTCATATTTGGAAATTCGGGAAA
Found at i:14016168 original size:43 final size:42
Alignment explanation
Indices: 14016108--14016216 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
14016098 CATACCAATG
* *** * *
14016108 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATG
1 CCATAGCCCAGATATGGTCTTACAAAAAATCTCATATCGATA
*
14016150 CCAATAGCCCA-ACTATGGTCTTAAAAAAAATCTCATATCGATA
1 CC-ATAGCCCAGA-TATGGTCTTACAAAAAATCTCATATCGATA
*
14016193 CCATATCCCAGATATGGTCTTACA
1 CCATAGCCCAGATATGGTCTTACA
14016217 CGAAGTCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
42 21 0.38
43 34 0.62
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (42 bp):
CCATAGCCCAGATATGGTCTTACAAAAAATCTCATATCGATA
Found at i:14016226 original size:42 final size:41
Alignment explanation
Indices: 14016105--14016259 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
14016095 TACCATACCA
* *
14016105 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * **
14016147 ATGCCAATAGCCCA-ACTATGGTCTTAAAAAAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTT-ACACGAATCTCATATCG
* *
14016190 ATACCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAA-TCTCATATCG
* * * *
14016232 TTGTCATATCCCAAATATGGTATTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
14016260 ATAGACTTAG
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 32 0.35
44 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:14018002 original size:28 final size:29
Alignment explanation
Indices: 14017971--14018035 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
14017961 ATAGAATTTT
14017971 CCAC-AAGACATTCC-TTTAACAGAGATAG
1 CCACAAAGACA-TCCTTTTAACAGAGATAG
*
14017999 CCACAAAGGCATCCTTTTAACAGAGATAG
1 CCACAAAGACATCCTTTTAACAGAGATAG
*
14018028 CCATAAAG
1 CCACAAAG
14018036 GCTTCATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (29 bp):
CCACAAAGACATCCTTTTAACAGAGATAG
Found at i:14018025 original size:29 final size:29
Alignment explanation
Indices: 14017985--14018262 Score: 198
Period size: 29 Copynumber: 9.9 Consensus size: 29
14017975 AAGACATTCC
* * *
14017985 TTTAACAGAGATAGCCACAAAGGCATCCT
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
*
14018014 TTTAACAGAGATAGCCATAAAGGC-TTCA
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * * * *
14018042 TTTGACAAAAAAAACCACAAAGGCATTCA
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* *
14018071 TTTAATAGAGATCA-CCACAAAGGTTTTC-
1 TTTAACAGAGAT-AGCCACAAAGGCTTTCA
*
14018099 TTATAACAGAGATCGCCACAAAGGCTTTCA
1 TT-TAACAGAGATAGCCACAAAGGCTTTCA
* * * *
14018129 TTTAACAAAGATCGCCATAAAGGC-TTCC
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * *
14018157 TATAACAGAGATCGTCATAAAGGCTTTCA
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * *
14018186 TTTAATAGAGATCGCCATAAAGGC-TTCC
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
* * * *
14018214 TTT-A-ATAGACAGTCACAAAGGC-TTCC
1 TTTAACAGAGATAGCCACAAAGGCTTTCA
*
14018240 TTT--TAGAGATAGCCACAAAGGCT
1 TTTAACAGAGATAGCCACAAAGGCT
14018263 CACTTATATG
Statistics
Matches: 203, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 35 0.17
27 1 0.00
28 52 0.26
29 112 0.55
30 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAGGCTTTCA
Found at i:14018167 original size:86 final size:86
Alignment explanation
Indices: 14017971--14018211 Score: 247
Period size: 86 Copynumber: 2.8 Consensus size: 86
14017961 ATAGAATTTT
* * * *
14017971 CCAC-AAGACATTCCTTTAACAGAGAT-AGCCACAAAGGCATCCTTTTAACAGAGATAGCCATAA
1 CCACAAAGGCATTCCTTTAACAGAGATCA-CCACAAAGGCTTTC-TTTAACAGAGATCGCCATAA
*
14018034 AGGC-TTCATTTGACAAAAAAAA
64 AGGCTTTCATTTAACAAAAAAAA
* * * *
14018056 CCACAAAGGCATTCATTTAATAGAGATCACCACAAAGGTTTTCTTATAACAGAGATCGCCACAAA
1 CCACAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCTT-TAACAGAGATCGCCATAAA
* ***
14018121 GGCTTTCATTTAACAAAGATCG
65 GGCTTTCATTTAACAAAAAAAA
* * ** * *
14018143 CCATAAAGGC-TTCCTATAACAGAGATCGTCATAAAGGCTTTCATTTAATAGAGATCGCCATAAA
1 CCACAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTC-TTTAACAGAGATCGCCATAAA
14018207 GGCTT
65 GGCTT
14018212 CCTTTAATAG
Statistics
Matches: 128, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
85 6 0.05
86 97 0.76
87 25 0.20
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (86 bp):
CCACAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCTTTAACAGAGATCGCCATAAAG
GCTTTCATTTAACAAAAAAAA
Found at i:14018175 original size:28 final size:28
Alignment explanation
Indices: 14017981--14018218 Score: 206
Period size: 29 Copynumber: 8.3 Consensus size: 28
14017971 CCACAAGACA
* *
14017981 TTCCTTTAACAGAGATAGCCACAAAGGC
1 TTCCTTTAACAGAGATCGCCATAAAGGC
* *
14018009 ATCCTTTTAACAGAGATAGCCATAAAGGC
1 TTCC-TTTAACAGAGATCGCCATAAAGGC
* * * * *** *
14018038 TTCATTTGACAAAAAAAACCACAAAGGC
1 TTCCTTTAACAGAGATCGCCATAAAGGC
* * * * *
14018066 ATTCATTTAATAGAGATCACCACAAAGGT
1 -TTCCTTTAACAGAGATCGCCATAAAGGC
* *
14018095 TTTCTTATAACAGAGATCGCCACAAAGGC
1 TTCCTT-TAACAGAGATCGCCATAAAGGC
* *
14018124 TTTCATTTAACAAAGATCGCCATAAAGGC
1 -TTCCTTTAACAGAGATCGCCATAAAGGC
* *
14018153 TTCCTATAACAGAGATCGTCATAAAGGC
1 TTCCTTTAACAGAGATCGCCATAAAGGC
* *
14018181 TTTCATTTAATAGAGATCGCCATAAAGGC
1 -TTCCTTTAACAGAGATCGCCATAAAGGC
14018210 TTCCTTTAA
1 TTCCTTTAA
14018219 TAGACAGTCA
Statistics
Matches: 170, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
28 57 0.34
29 109 0.64
30 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (28 bp):
TTCCTTTAACAGAGATCGCCATAAAGGC
Found at i:14018181 original size:57 final size:57
Alignment explanation
Indices: 14017981--14018214 Score: 243
Period size: 57 Copynumber: 4.1 Consensus size: 57
14017971 CCACAAGACA
* * * * * * *
14017981 TTCCTTTAACAGAGATAGCCACAAAGGCATCCTTTTAACAGAGATAGCCATAAAGGC
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
* * * * * *** * * * *
14018038 TTCATTTGACAAAAAAAACCACAAAGGCATTCATTTAATAGAGATCACCACAAAGGTT
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGG-C
* * *
14018096 TTCTTATAACAGAGATCGCCACAAAGGCTTTCATTTAACAAAGATCGCCATAAAGGC
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
* *
14018153 TTCCTATAACAGAGATCGTCATAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
1 TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
14018210 TTCCT
1 TTCCT
14018215 TTAATAGACA
Statistics
Matches: 144, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
57 101 0.70
58 43 0.30
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (57 bp):
TTCCTATAACAGAGATCGCCACAAAGGCTTTCATTTAATAGAGATCGCCATAAAGGC
Found at i:14018240 original size:26 final size:26
Alignment explanation
Indices: 14018199--14018262 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
14018189 AATAGAGATC
* *
14018199 GCCATAAAGGCTTCCTTTAATAGACA
1 GCCACAAAGGCTTCCTTTAAGAGACA
* * *
14018225 GTCACAAAGGCTTCCTTTTAGAGATA
1 GCCACAAAGGCTTCCTTTAAGAGACA
14018251 GCCACAAAGGCT
1 GCCACAAAGGCT
14018263 CACTTATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (26 bp):
GCCACAAAGGCTTCCTTTAAGAGACA
Found at i:14024245 original size:40 final size:40
Alignment explanation
Indices: 14024160--14024299 Score: 120
Period size: 40 Copynumber: 3.4 Consensus size: 40
14024150 GACTATGTTC
*
14024160 GGCACTAAGTGTGCGATTTGAAATAGCTTCAACTATAAAT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTATAAAT
* * ** **
14024200 AGCACTAAGTGTGCGAATTGGAATAGCTTCGGCT-TCATGT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTAT-AAAT
* * * **
14024240 GGCACTAAGTGTGCAATATTGAGATAGTTTCGATTTAATATAAT
1 GGCACTAAGTGTGCGA-ATTGAAATAGCTTC-AACT-ATA-AAT
14024284 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
14024300 TATTTTATAG
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
39 1 0.01
40 45 0.59
41 11 0.14
42 1 0.01
43 1 0.01
44 17 0.22
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCAACTATAAAT
Found at i:14024298 original size:84 final size:80
Alignment explanation
Indices: 14024160--14024317 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 80
14024150 GACTATGTTC
*
14024160 GGCACTAAGTGTGCGATTTGAAATAGCTTCAACTATAAATAGCACTAAGTGTGCGA-ATTGGAAT
1 GGCACTAAGTGTGCAATTTGAAATAGCTTCAACTATAAATAGCACTAAGTGTGCGATATT-GAAT
14024224 AGCTTCGGCTTCATGT
65 AGCTTCGGCTTCATGT
* * ** * *
14024240 GGCACTAAGTGTGCAATATTGAGATAGTTTCGATTTAATATAATGGCACTAAGTGTGCGATATTT
1 GGCACTAAGTGTGCAAT-TTGAAATAGCTTC-AACT-ATA-AATAGCACTAAGTGTGCGATATTG
*
14024305 TATAGCTTCGGCT
62 AATAGCTTCGGCT
14024318 AGATTATTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 16 0.25
81 11 0.17
82 2 0.03
83 3 0.05
84 30 0.46
85 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (80 bp):
GGCACTAAGTGTGCAATTTGAAATAGCTTCAACTATAAATAGCACTAAGTGTGCGATATTGAATA
GCTTCGGCTTCATGT
Found at i:14056516 original size:15 final size:15
Alignment explanation
Indices: 14056498--14056532 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
14056488 ATAAACATTA
14056498 AAATAATAATAAAAT
1 AAATAATAATAAAAT
14056513 AAATAATAATAAAAT
1 AAATAATAATAAAAT
14056528 AAATA
1 AAATA
14056533 TTTTAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:14062172 original size:43 final size:42
Alignment explanation
Indices: 14062104--14062269 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 42
14062094 TAAGCTCGTA
* * ** *
14062104 CAATGCCATATCCCAGATATAGTCTTACATGTTATCATATAT
1 CAATGCCATGTCCCAGACACGGTCTTACATGTAATCATATAT
* * *
14062146 CGATGCCACTGTCCCAGACAGGGTCTTACATGAAATCATATAAT
1 CAATGCCA-TGTCCCAGACACGGTCTTACATGTAATCATAT-AT
*
14062190 -AATGCCTATGTCCCAGACATGGTCTTACATGTAATGACA-ATA-
1 CAATGCC-ATGTCCCAGACACGGTCTTACATGTAAT--CATATAT
*
14062232 CAATACCAATGTCCCAGACACGGTCTTACATGTAATCA
1 CAATGCC-ATGTCCCAGACACGGTCTTACATGTAATCA
14062270 CCTCTCGATA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 89 0.85
44 5 0.05
45 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACACGGTCTTACATGTAATCATATAT
Found at i:14078996 original size:40 final size:40
Alignment explanation
Indices: 14078763--14079025 Score: 299
Period size: 39 Copynumber: 6.7 Consensus size: 40
14078753 TTGAATGATG
* * *
14078763 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
14078803 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
** * *
14078843 TCTTGGCTAAG-CCCGAAGGCTTTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
14078882 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
14078921 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
14078960 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
14079001 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14079026 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 108 0.55
40 75 0.38
41 12 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:14079056 original size:79 final size:79
Alignment explanation
Indices: 14078764--14079058 Score: 228
Period size: 78 Copynumber: 3.7 Consensus size: 79
14078754 TGAATGATGT
** * * * **
14078764 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
14078827 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * ** * * *
14078844 CTTGGCTAAGCCCGAAGGCTTTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATCCCGAAGGCATTTG
*
14078907 TGCGAGATACTAATT
65 TGCGAGATACTAATA
* ** * *
14078922 CCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
14078987 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* ** *
14079001 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTGTATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
14079059 TACGTGATTT
Statistics
Matches: 180, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
77 2 0.01
78 70 0.39
79 69 0.38
80 39 0.22
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:14084618 original size:27 final size:27
Alignment explanation
Indices: 14084578--14084850 Score: 269
Period size: 27 Copynumber: 10.1 Consensus size: 27
14084568 AGAATATCGA
** ***
14084578 AATACCCCCATAGGGTAAAATGATTAT
1 AATACCCCTGTAGGGTAAAATGACCGT
*
14084605 AATACCCCTGTAGGGTAAAATGACTGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
14084632 AATGCCCCTGTAGGATAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
*
14084659 AAT-GCCCTAGTAGGGTAAAATGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
* * *
14084686 AATGCACCTGTAAGGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* *
14084713 AATTCCCCTGTAGGGTAAAATGATCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* ** *
14084740 AATGCCTTTGTAGGGTAAAATGATCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * *
14084767 AATACCTCTATAGGGTAAAATGATCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * **
14084794 AATGCCCCTATAAAGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
* * * *
14084821 AATACTCCTATACGATAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCGT
14084848 AAT
1 AAT
14084851 GCCCTGGTGG
Statistics
Matches: 212, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.02
27 205 0.97
28 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:14084697 original size:81 final size:80
Alignment explanation
Indices: 14084588--14084870 Score: 297
Period size: 81 Copynumber: 3.5 Consensus size: 80
14084578 AATACCCCCA
***
14084588 TAGGGTAAAATGATTATAATACCCCTGTAGGGTAAAATGACTGTAATGCCCCTGTAGGATAAAAT
1 TAGGGTAAAATGACCGTAATA-CCCTGTAGGGTAAAATGACTGTAATGCCCCTGTAGGATAAAAT
14084653 GACCGTAATGCCCTAG
65 GACCGTAATGCCCTAG
* * * * *
14084669 TAGGGTAAAATGACCGTAATGCACCTGTAAGGTAAAATGACCGTAATTCCCCTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATAC-CCTGTAGGGTAAAATGACTGTAATGCCCCTGTAGGATAAAAT
* * *
14084734 GATCGTAATGCCTTTG
65 GACCGTAATGCCCTAG
* * * *
14084750 TAGGGTAAAATGATCGTAATACCTCTATAGGGTAAAATGA-TCGTAATGCCCCTATA-AAGTAAA
1 TAGGGTAAAATGACCGTAATACC-CTGTAGGGTAAAATGACT-GTAATGCCCCTGTAGGA-TAAA
*
14084813 ATGACCGTAATACTCCTA-
63 ATGACCGTAATGC-CCTAG
* * *
14084831 TACGATAAAATGACCGTAATGCCCTGGT-GGGT-AAATGACT
1 TAGGGTAAAATGACCGTAATACCCT-GTAGGGTAAAATGACT
14084871 ATTTTTGCCT
Statistics
Matches: 166, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
79 6 0.04
80 9 0.05
81 149 0.90
82 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (80 bp):
TAGGGTAAAATGACCGTAATACCCTGTAGGGTAAAATGACTGTAATGCCCCTGTAGGATAAAATG
ACCGTAATGCCCTAG
Found at i:14085076 original size:27 final size:26
Alignment explanation
Indices: 14085017--14085082 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
14085007 GGAAGTATTA
*
14085017 TACTGGTGGCTCTGCCACAATCACTGT
1 TACTGGTGGCT-TGCCACAATCACTAT
*
14085044 TGCTGGTGGCTTGGCCACATAT-ACTAT
1 TACTGGTGGCTT-GCCACA-ATCACTAT
*
14085071 TACTGGTAGCTT
1 TACTGGTGGCTT
14085083 TGCTGCGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 30 0.91
28 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
TACTGGTGGCTTGCCACAATCACTAT
Found at i:14085161 original size:32 final size:32
Alignment explanation
Indices: 14085120--14085269 Score: 166
Period size: 32 Copynumber: 4.7 Consensus size: 32
14085110 GCTGCGATGC
* *
14085120 TACTGATGGCTTTGTGTCGGTCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
14085152 TACTGATGGCTTTGTGCC-AGTCATAGTACCGT
1 TACTGATGGCTTTGTGCCGA-TCATAGTACCGT
*
14085184 TACTAATGGCTTTGTGCCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACCGT
* *
14085216 TACTGATGGCTGTGTG-CGATCATA-T-CACTT
1 TACTGATGGCTTTGTGCCGATCATAGTAC-CGT
* *
14085246 CTACTGATGACTTTGTGCCAATCA
1 -TACTGATGGCTTTGTGCCGATCA
14085270 CATTACTGTA
Statistics
Matches: 102, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 22 0.22
32 75 0.74
33 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:14085311 original size:22 final size:22
Alignment explanation
Indices: 14085286--14085327 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14085276 TGTACATATG
* *
14085286 GCTTGTAACCATTCTGTTTATA
1 GCTTATAACCATCCTGTTTATA
*
14085308 GCTTATAACTATCCTGTTTA
1 GCTTATAACCATCCTGTTTA
14085328 CGGCTCTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (22 bp):
GCTTATAACCATCCTGTTTATA
Found at i:14090403 original size:21 final size:22
Alignment explanation
Indices: 14090374--14090420 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14090364 CAGAAGGAGT
*
14090374 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14090396 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14090417 GAGT
1 GAGT
14090421 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:14092780 original size:16 final size:17
Alignment explanation
Indices: 14092750--14092782 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14092740 GTAAATGGAC
14092750 TTTTGAGATTGTTTAAT
1 TTTTGAGATTGTTTAAT
*
14092767 TTTTGGGATT-TTTAAT
1 TTTTGAGATTGTTTAAT
14092783 CTCCGTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (17 bp):
TTTTGAGATTGTTTAAT
Found at i:14093116 original size:4 final size:4
Alignment explanation
Indices: 14093102--14093131 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
14093092 ATATATAATG
14093102 ATAA TATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA A
14093132 CCGTTTTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:14114801 original size:14 final size:15
Alignment explanation
Indices: 14114778--14114821 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
14114768 TGTAGGTATG
*
14114778 AAGCAAGAAAAGA-A
1 AAGCAGGAAAAGAGA
14114792 AAGCAGGAAAAGAGA
1 AAGCAGGAAAAGAGA
14114807 AAG-AGGAAAAGAGA
1 AAGCAGGAAAAGAGA
14114821 A
1 A
14114822 CGAAAGATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.66, C:0.05, G:0.30, T:0.00
Consensus pattern (15 bp):
AAGCAGGAAAAGAGA
Found at i:14119520 original size:29 final size:29
Alignment explanation
Indices: 14119480--14119643 Score: 165
Period size: 29 Copynumber: 5.6 Consensus size: 29
14119470 TAGCTTCAGT
*
14119480 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* * * *
14119509 ATCGAATATGAAAAGGGATAGCT-TCAACT
1 ATCGAATATGAAAAGGGAT-GGTGACGACC
*
14119538 ATC-AATTATGAAAAGGTATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
14119567 ATC-AACTAT-AAAAGGGGATGGTGACGACC
1 ATCGAA-TATGAAAA-GGGATGGTGACGACC
* ** *
14119596 ATCGATTAATGAAAAGGGATGGTTTCGGCC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
14119626 ATCGAATATGAAAAGGGA
1 ATCGAATATGAAAAGGGA
14119644 CGAATACGAC
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
28 8 0.07
29 76 0.68
30 23 0.21
31 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:14119560 original size:58 final size:57
Alignment explanation
Indices: 14119459--14119643 Score: 205
Period size: 58 Copynumber: 3.2 Consensus size: 57
14119449 ATCATTGAAC
* *
14119459 ATGAAAAAGGATAGCTTCAGTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTCACTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
* *
14119516 ATGAAAAGGGATAGCTTCAACTATCAATTATGAAAAGGTATGGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTC-ACTATCGATTATGAAAAGGGATGGTGACGACCATCGAA-T
* * * ** *
14119574 AT-AAAAGGGGAT-GGTGACGACCATCGATTAATGAAAAGGGATGGTTTCGGCCATCGAAT
1 ATGAAAA-GGGATAGCT-TC-ACTATCGATT-ATGAAAAGGGATGGTGACGACCATCGAAT
14119633 ATGAAAAGGGA
1 ATGAAAAGGGA
14119644 CGAATACGAC
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
57 25 0.23
58 49 0.45
59 28 0.26
60 6 0.06
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATAGCTTCACTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:14119656 original size:29 final size:30
Alignment explanation
Indices: 14119590--14119656 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
14119580 GGGGATGGTG
* * **
14119590 ACGACCATCGATTAATGAAAAGGGATGGTT
1 ACGACCATCGAATAATGAAAAGGGACGAAT
* *
14119620 TCGGCCATCGAAT-ATGAAAAGGGACGAAT
1 ACGACCATCGAATAATGAAAAGGGACGAAT
14119649 ACGACCAT
1 ACGACCAT
14119657 TGTTTAGCAC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.19
Consensus pattern (30 bp):
ACGACCATCGAATAATGAAAAGGGACGAAT
Found at i:14129359 original size:24 final size:24
Alignment explanation
Indices: 14129314--14129361 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14129304 ACAAATAGAA
* *
14129314 CATTAAAACATATATTTCATACAT
1 CATTAAAACATATATATAATACAT
14129338 CATTGAAAACATAT-TATAATACAT
1 CATT-AAAACATATATATAATACAT
14129362 TCTTTCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (24 bp):
CATTAAAACATATATATAATACAT
Found at i:14135125 original size:22 final size:22
Alignment explanation
Indices: 14135072--14135126 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
14135062 CTGGCTAAGT
*
14135072 TTTTGGGTTGTAATTATCTTGG
1 TTTTGGGTTTTAATTATCTTGG
14135094 TTTTGGGTTTTAATTATCTTGG
1 TTTTGGGTTTTAATTATCTTGG
14135116 TTTTGGGTTTT
1 TTTTGGGTTTT
14135127 TAACCCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.11, C:0.04, G:0.25, T:0.60
Consensus pattern (22 bp):
TTTTGGGTTTTAATTATCTTGG
Found at i:14136266 original size:24 final size:24
Alignment explanation
Indices: 14136236--14136285 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14136226 AACCTTTTTG
14136236 GTGTCATTAAATGCCCATGTTCGT
1 GTGTCATTAAATGCCCATGTTCGT
14136260 GTGTCATTAAATGCCCATGTTCGT
1 GTGTCATTAAATGCCCATGTTCGT
14136284 GT
1 GT
14136286 CGTGAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (24 bp):
GTGTCATTAAATGCCCATGTTCGT
Found at i:14144754 original size:15 final size:15
Alignment explanation
Indices: 14144734--14144774 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
14144724 TTGTTTTTCC
*
14144734 TTTTCATTTGTATTT
1 TTTTCATTTATATTT
14144749 TTTTCATTATTATATTT
1 TTTTCA-T-TTATATTT
14144766 TTTTCATTT
1 TTTTCATTT
14144775 TTACATGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 13 0.57
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTCATTTATATTT
Found at i:14146390 original size:13 final size:13
Alignment explanation
Indices: 14146372--14146404 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
14146362 AAGAGAAACA
14146372 AGGATTTTGGAAG
1 AGGATTTTGGAAG
14146385 AGGATTTTGGAAG
1 AGGATTTTGGAAG
*
14146398 GGGATTT
1 AGGATTT
14146405 AGAGAGCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.33
Consensus pattern (13 bp):
AGGATTTTGGAAG
Found at i:14152636 original size:14 final size:15
Alignment explanation
Indices: 14152611--14152651 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
14152601 TTAAATTCAT
14152611 TACTTAAATTTTT-AA
1 TACTT-AATTTTTGAA
14152626 TACTTAATTTTTGAA
1 TACTTAATTTTTGAA
*
14152641 CACTT-ATTTTT
1 TACTTAATTTTT
14152652 TCAACATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (15 bp):
TACTTAATTTTTGAA
Found at i:14152665 original size:15 final size:15
Alignment explanation
Indices: 14152627--14152669 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
14152617 AATTTTTAAT
* *
14152627 ACTTAATTTTTGAAC
1 ACTTATTTTTTCAAC
14152642 ACTTATTTTTTCAAC
1 ACTTATTTTTTCAAC
* *
14152657 ATTTTTTTTTTCA
1 ACTTATTTTTTCA
14152670 GTTTATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.58
Consensus pattern (15 bp):
ACTTATTTTTTCAAC
Found at i:14162273 original size:11 final size:11
Alignment explanation
Indices: 14162259--14162297 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14162249 ACAATATAAA
14162259 AGCAAAATGAC
1 AGCAAAATGAC
**
14162270 AGCAAAACAAC
1 AGCAAAATGAC
*
14162281 ATCAAAATGAC
1 AGCAAAATGAC
14162292 AGCAAA
1 AGCAAA
14162298 CAACAACAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (11 bp):
AGCAAAATGAC
Found at i:14162300 original size:21 final size:22
Alignment explanation
Indices: 14162261--14162308 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
14162251 AATATAAAAG
*
14162261 CAAAATGACAGCAAAACAACAT
1 CAAAATGACAGCAAAACAACAA
14162283 CAAAATGACAGC-AAACAACAA
1 CAAAATGACAGCAAAACAACAA
14162304 CAAAA
1 CAAAA
14162309 CAACAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.62, C:0.23, G:0.08, T:0.06
Consensus pattern (22 bp):
CAAAATGACAGCAAAACAACAA
Found at i:14169257 original size:13 final size:14
Alignment explanation
Indices: 14169229--14169266 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
14169219 ACGTATAAAC
*
14169229 ATAATGATATTTGAA
1 ATAAT-ATAATTGAA
14169244 ATAAT-TAATTGAA
1 ATAATATAATTGAA
14169257 ATAATATAAT
1 ATAATATAAT
14169267 ATATAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (14 bp):
ATAATATAATTGAA
Found at i:14176509 original size:50 final size:50
Alignment explanation
Indices: 14176455--14176622 Score: 135
Period size: 50 Copynumber: 3.2 Consensus size: 50
14176445 CCATATATGA
* * * * * *
14176455 TCTTACATGGGAGTTCTCATATCGGTGCTC-ATGCCATGTCCTAGACATGG
1 TCTTACATGGGAGCTCTCATATCAGTGC-CAACGCCATGTCCCAAACATAG
*
14176505 TCTTAC--GGGAGACCTCTCATCTCAGTGCCAACGCCATGTCCCAAACATAG
1 TCTTACATGGGAG--CTCTCATATCAGTGCCAACGCCATGTCCCAAACATAG
* * * *
14176555 TCTTACATGGGACCTCTCATAATCTTAATGATGCCAATGCCATGTCCTAAACATCG
1 TCTTACATGGGAGCTCTCAT-ATC---A-G-TGCCAACGCCATGTCCCAAACATAG
14176611 TCTTACATGGGA
1 TCTTACATGGGA
14176623 TCTCATTCCC
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
48 5 0.05
49 1 0.01
50 47 0.49
51 2 0.02
52 4 0.04
54 1 0.01
55 1 0.01
56 34 0.36
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
TCTTACATGGGAGCTCTCATATCAGTGCCAACGCCATGTCCCAAACATAG
Found at i:14178289 original size:18 final size:19
Alignment explanation
Indices: 14178262--14178297 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14178252 GGCCCACATG
*
14178262 CCCATGTGGCCT-ACACAA
1 CCCATATGGCCTCACACAA
14178280 CCCATATGGCCTCACACA
1 CCCATATGGCCTCACACA
14178298 TGTCTGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.28, C:0.42, G:0.14, T:0.17
Consensus pattern (19 bp):
CCCATATGGCCTCACACAA
Found at i:14179062 original size:40 final size:40
Alignment explanation
Indices: 14179007--14179086 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
14178997 TTCACTTTCT
*
14179007 TTCTTCGTTTTCTCGTTTTGCTTGAATGGATTTCTACCAA
1 TTCTTCATTTTCTCGTTTTGCTTGAATGGATTTCTACCAA
*
14179047 TTCTTCATTTTCTCGTTTTGCTTGAATGGGTTTCTACCAA
1 TTCTTCATTTTCTCGTTTTGCTTGAATGGATTTCTACCAA
14179087 ATTAATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.50
Consensus pattern (40 bp):
TTCTTCATTTTCTCGTTTTGCTTGAATGGATTTCTACCAA
Found at i:14183107 original size:20 final size:20
Alignment explanation
Indices: 14183081--14183125 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
14183071 TTGGAGCAGG
14183081 AATATCAATACCTTAAGAAA
1 AATATCAATACCTTAAGAAA
* *
14183101 TATATCAGTACCTTAAGAAA
1 AATATCAATACCTTAAGAAA
14183121 AATAT
1 AATAT
14183126 TGATACTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (20 bp):
AATATCAATACCTTAAGAAA
Found at i:14183230 original size:21 final size:21
Alignment explanation
Indices: 14183200--14183256 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
14183190 GATATCTTGT
*
14183200 AAAA-TATCGATGCTTAGACA
1 AAAAGTATCGATACTTAGACA
14183220 AAAAGTATCGATACTTAGACA
1 AAAAGTATCGATACTTAGACA
14183241 AAAAGTATCGATACTT
1 AAAAGTATCGATACTT
14183257 TTTTGTCCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (21 bp):
AAAAGTATCGATACTTAGACA
Found at i:14187485 original size:21 final size:21
Alignment explanation
Indices: 14187446--14187485 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14187436 TTTTTGATAA
* *
14187446 AATAAAAGTATTATGATATTT
1 AATAAAAGTATAATAATATTT
*
14187467 AATAAAATTATAATAATAT
1 AATAAAAGTATAATAATAT
14187486 AATAATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AATAAAAGTATAATAATATTT
Found at i:14188685 original size:21 final size:22
Alignment explanation
Indices: 14188659--14188705 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14188649 CTCTGCTCAA
*
14188659 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
14188680 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
14188702 ACTC
1 ACTC
14188706 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:14192098 original size:59 final size:59
Alignment explanation
Indices: 14192028--14192351 Score: 648
Period size: 59 Copynumber: 5.5 Consensus size: 59
14192018 TATATTTGAG
14192028 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
1 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
14192087 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
1 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
14192146 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
1 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
14192205 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
1 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
14192264 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
1 TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
14192323 TAAGTGAATATTTTATTTCCTCAAGAAAA
1 TAAGTGAATATTTTATTTCCTCAAGAAAA
14192352 TCTTCTTTTT
Statistics
Matches: 265, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 265 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (59 bp):
TAAGTGAATATTTTATTTCCTCAAGAAAACAAAGTTTGGTACAAGTTAGCAAGTTCAAT
Found at i:14192906 original size:16 final size:16
Alignment explanation
Indices: 14192873--14192905 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
14192863 TTTATTTTGA
14192873 TTCTTTCTTTCTTTTT
1 TTCTTTCTTTCTTTTT
14192889 TTCTTT-TTTCTTTTT
1 TTCTTTCTTTCTTTTT
14192904 TT
1 TT
14192906 TTTACATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTCTTTCTTTTT
Found at i:14195303 original size:18 final size:17
Alignment explanation
Indices: 14195276--14195309 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
14195266 ACCAATAATC
14195276 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
14195293 AAAAGAAAAAAGAAAAA
1 AAAA-AAAAAAGAAAAA
14195310 AAACCCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:14196478 original size:3 final size:3
Alignment explanation
Indices: 14196470--14196497 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14196460 TAGTATTTTC
14196470 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14196498 GTCGTAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14197731 original size:11 final size:11
Alignment explanation
Indices: 14197717--14197790 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
14197707 ATTAAAAGCG
14197717 TATACATAATA
1 TATACATAATA
*
14197728 TATACGTAATA
1 TATACATAATA
*
14197739 TATAAAATAA-A
1 TAT-ACATAATA
14197750 GTATACAT-ATA
1 -TATACATAATA
*
14197761 -ATATAT-A-A
1 TATACATAATA
*
14197769 TATACATAAAA
1 TATACATAATA
*
14197780 TATATATAATA
1 TATACATAATA
14197791 CTTAAAAGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.02
9 11 0.22
10 2 0.04
11 28 0.57
12 7 0.14
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (11 bp):
TATACATAATA
Found at i:14197791 original size:18 final size:18
Alignment explanation
Indices: 14197718--14197797 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
14197708 TTAAAAGCGT
* **
14197718 ATACATAATATATACGTA
1 ATACATAAAATATATATA
*
14197736 ATATATAAAATA-A-AGT-
1 ATACATAAAATATATA-TA
*
14197752 ATACATATAATATATA-A
1 ATACATAAAATATATATA
14197769 TATACATAAAATATATATA
1 -ATACATAAAATATATATA
*
14197788 ATACTTAAAA
1 ATACATAAAA
14197798 GGAACAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 10 0.20
17 3 0.06
18 35 0.71
19 1 0.02
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (18 bp):
ATACATAAAATATATATA
Found at i:14199281 original size:3 final size:3
Alignment explanation
Indices: 14199273--14199427 Score: 57
Period size: 3 Copynumber: 50.7 Consensus size: 3
14199263 ATTAGTAATC
* *
14199273 TAT TAT TAT TCT TAT TAGT GTAT TAT TAT T-T CCTATT TAT CA- TAT
1 TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT --TA-T TAT TAT TAT
* * * * *
14199318 TAT TGT TGT TAT TAG TAT GTA- TAT TAT TAT TTT CTAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * * * * *
14199364 CAC TAA TAT CAC TAT TAG CAT T-T TTT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
14199411 TAT TTT TGT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
14199428 ATTTTAATTC
Statistics
Matches: 110, Mismatches: 31, Indels: 22
0.67 0.19 0.13
Matches are distributed among these distances:
2 6 0.05
3 92 0.84
4 9 0.08
5 2 0.02
6 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:14199299 original size:23 final size:21
Alignment explanation
Indices: 14199238--14199303 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
14199228 TATCATTACC
* *
14199238 CTTATTAATATATTAGTATTTT
1 CTTATTAGT-TATTATTATTTT
*
14199260 CTTATTAGTAATCTATTATTATT
1 CTTATTAGTTAT-TATTATT-TT
14199283 CTTATTAGTGTATTATTATTT
1 CTTATTAGT-TATTATTATTT
14199304 CCTATTTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 2 0.05
22 15 0.41
23 18 0.49
24 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
CTTATTAGTTATTATTATTTT
Found at i:14200195 original size:80 final size:80
Alignment explanation
Indices: 14200104--14200264 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
14200094 TCTAATATGT
14200104 TTCTTTAATTAGCTATATTTTAATTTCCATTATTTGATTAGTAATGTTTTCCAAAATAGGATGTG
1 TTCTTTAATTAGCTATATTTTAATTTCCATTATTTGATTAGTAATGTTTTCCAAAATAGGATGTG
14200169 TGCTCATTGCTATTA
66 TGCTCATTGCTATTA
14200184 TTCTTTAATTAGCTATATTTTAATTTCCATTATTTGATTAGTAATGTTTTCCAAAATAGGATGTG
1 TTCTTTAATTAGCTATATTTTAATTTCCATTATTTGATTAGTAATGTTTTCCAAAATAGGATGTG
14200249 TGCTCATTGCTATTA
66 TGCTCATTGCTATTA
14200264 T
1 T
14200265 ATATTTATTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.49
Consensus pattern (80 bp):
TTCTTTAATTAGCTATATTTTAATTTCCATTATTTGATTAGTAATGTTTTCCAAAATAGGATGTG
TGCTCATTGCTATTA
Found at i:14205209 original size:2 final size:2
Alignment explanation
Indices: 14205202--14205247 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
14205192 GGGATCATAC
14205202 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14205244 AG AG
1 AG AG
14205248 TTTCTGAGGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14205992 original size:17 final size:17
Alignment explanation
Indices: 14205970--14206004 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14205960 ACCTATCTGC
14205970 AACGCTTCATGAATCTA
1 AACGCTTCATGAATCTA
14205987 AACGCTTCATGAATCTA
1 AACGCTTCATGAATCTA
14206004 A
1 A
14206005 CTCTTGCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (17 bp):
AACGCTTCATGAATCTA
Found at i:14207427 original size:16 final size:15
Alignment explanation
Indices: 14207381--14207428 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
14207371 TAAACAAACC
*
14207381 AAATCAAAAACCAAAA
1 AAAT-AAAAAACAAAA
*
14207397 AAATAAAAAATAAAA
1 AAATAAAAAACAAAA
*
14207412 AAATAGATAAACAAAA
1 AAATA-AAAAACAAAA
14207428 A
1 A
14207429 TTAATAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.10
Consensus pattern (15 bp):
AAATAAAAAACAAAA
Done.