Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold94
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: 2274668
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 33727 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:2036198 original size:219 final size:219
Alignment explanation
Indices: 2035819--2036230 Score: 797
Period size: 219 Copynumber: 1.9 Consensus size: 219
2035809 AATAATTGTA
2035819 ACTCATTAGAATTCCTTTACAAGGCCAAATGTGTTTCATGGGCTTCATCCAATTTGTAGTTCACG
1 ACTCATTAGAATTCCTTTACAAGGCCAAATGTGTTTCATGGGCTTCATCCAATTTGTAGTTCACG
*
2035884 ATTGTCAATCATGTTACTAATTAGAACAAAAACCTTGAATCATTAAGTGATAGATCTGTATTATT
66 ATTGTCAATCATGCTACTAATTAGAACAAAAACCTTGAATCATTAAGTGATAGATCTGTATTATT
2035949 AACTAATATTTGTCTCATCCAAGCCAATTGGCTGTAAGGTATATGCTAACATCTCTCACTTGCCA
131 AACTAATATTTGTCTCATCCAAGCCAATTGGCTGTAAGGTATATGCTAACATCTCTCACTTGCCA
2036014 ATTGTCAATCATTAAGGAATTCTC
196 ATTGTCAATCATTAAGGAATTCTC
2036038 ACTCATTAGAATTCCTTTACAAGGCCAAATGTGTTTCATGGGCTTCATCCAATTTGTAGTTCACG
1 ACTCATTAGAATTCCTTTACAAGGCCAAATGTGTTTCATGGGCTTCATCCAATTTGTAGTTCACG
*
2036103 ATTGTCAATCATGCTACTAATTAGAACGAAAACCTTGAATCATTAAGTGATAGATCTGTATTATT
66 ATTGTCAATCATGCTACTAATTAGAACAAAAACCTTGAATCATTAAGTGATAGATCTGTATTATT
*
2036168 AACTAATATTTGTCTCATCCAAGCCAATTGGCTGTAGGGTATATGCTAACATCTCTCACTTGC
131 AACTAATATTTGTCTCATCCAAGCCAATTGGCTGTAAGGTATATGCTAACATCTCTCACTTGC
2036231 ACTAAGCCAA
Statistics
Matches: 190, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 190 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (219 bp):
ACTCATTAGAATTCCTTTACAAGGCCAAATGTGTTTCATGGGCTTCATCCAATTTGTAGTTCACG
ATTGTCAATCATGCTACTAATTAGAACAAAAACCTTGAATCATTAAGTGATAGATCTGTATTATT
AACTAATATTTGTCTCATCCAAGCCAATTGGCTGTAAGGTATATGCTAACATCTCTCACTTGCCA
ATTGTCAATCATTAAGGAATTCTC
Found at i:2036486 original size:27 final size:26
Alignment explanation
Indices: 2036456--2036626 Score: 106
Period size: 27 Copynumber: 6.7 Consensus size: 26
2036446 TTTCTAGAAT
*
2036456 AGCACCTAGCTGTACACAACTCCTCAC
1 AGCACATAGCTGTACACAACT-CTCAC
* * * *
2036483 AGCACATAGCTATACACAACCTAGTTAT
1 AGCACATAGCTGTACACAA-CT-CTCAC
*
2036511 A-CATATAGCTGTACACAACT-TGCA-
1 AGCACATAGCTGTACACAACTCT-CAC
** *
2036535 A-CATTTAGTTGTACACAA--CTCAC
1 AGCACATAGCTGTACACAACTCTCAC
* *
2036558 AGCACCTAGCTGTACACAACTTCTTAC
1 AGCACATAGCTGTACACAAC-TCTCAC
* *
2036585 AGCGCATAGTTGTACACAA--CTCAC
1 AGCACATAGCTGTACACAACTCTCAC
* *
2036609 AGCACCTAGCTGCACACA
1 AGCACATAGCTGTACACA
2036627 TAGTTGTACA
Statistics
Matches: 113, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 49 0.43
25 1 0.01
26 2 0.02
27 52 0.46
28 5 0.04
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (26 bp):
AGCACATAGCTGTACACAACTCTCAC
Found at i:2036571 original size:24 final size:24
Alignment explanation
Indices: 2036516--2036626 Score: 105
Period size: 24 Copynumber: 4.5 Consensus size: 24
2036506 GTTATACATA
** * **
2036516 TAGCTGTACACAACTTGCAACATT
1 TAGCTGTACACAACTCACAGCACC
*
2036540 TAGTTGTACACAACTCACAGCACC
1 TAGCTGTACACAACTCACAGCACC
* *
2036564 TAGCTGTACACAACTTCTTACAGCGCA
1 TAGCTGTACACAAC-TC--ACAGCACC
*
2036591 TAGTTGTACACAACTCACAGCACC
1 TAGCTGTACACAACTCACAGCACC
*
2036615 TAGCTGCACACA
1 TAGCTGTACACA
2036627 TAGTTGTACA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
24 47 0.67
25 2 0.03
26 2 0.03
27 19 0.27
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (24 bp):
TAGCTGTACACAACTCACAGCACC
Found at i:2041464 original size:36 final size:36
Alignment explanation
Indices: 2041387--2041478 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 36
2041377 ACATAGCTGT
* *
2041387 ACAGCACTTAGGTGTACACATAGCTATACATAACTT
1 ACAGCACTTAGGTGTACACATAGCTATACACAACTC
* * *
2041423 GCAGCACTTAGGTGTACACATAGCTGTGCACAACTC
1 ACAGCACTTAGGTGTACACATAGCTATACACAACTC
* *
2041459 ACAGCACCTAGCTGTACACA
1 ACAGCACTTAGGTGTACACA
2041479 ACTCCTTACA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (36 bp):
ACAGCACTTAGGTGTACACATAGCTATACACAACTC
Found at i:2041470 original size:24 final size:24
Alignment explanation
Indices: 2041439--2041529 Score: 119
Period size: 24 Copynumber: 3.7 Consensus size: 24
2041429 CTTAGGTGTA
*
2041439 CACATAGCTGTGCACAACTCACAG
1 CACATAGCTGTACACAACTCACAG
*
2041463 CACCTAGCTGTACACAACTCCTTACAG
1 CACATAGCTGTACACAACT-C--ACAG
*
2041490 CACATAGTTGTACACAACTCACAG
1 CACATAGCTGTACACAACTCACAG
*
2041514 CACATAGCTGCACACA
1 CACATAGCTGTACACA
2041530 TAGTTGCACA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
24 35 0.60
25 1 0.02
26 1 0.02
27 21 0.36
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.19
Consensus pattern (24 bp):
CACATAGCTGTACACAACTCACAG
Found at i:2041515 original size:51 final size:48
Alignment explanation
Indices: 2041438--2041554 Score: 144
Period size: 51 Copynumber: 2.4 Consensus size: 48
2041428 ACTTAGGTGT
* * * * *
2041438 ACACATAGCTGTGCACAACTCACAGCACCTAGCTGTACACAACTCCTTAC
1 ACACATAGTTGTACACAACTCACAGCACATAGCTGCACAC-A-TACTTAC
* *
2041488 AGCACATAGTTGTACACAACTCACAGCACATAGCTGCACACATAGTTGC
1 A-CACATAGTTGTACACAACTCACAGCACATAGCTGCACACATACTTAC
2041537 ACACATAGTTGTACACAA
1 ACACATAGTTGTACACAA
2041555 TTTCTCACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 17 0.29
49 5 0.08
50 2 0.03
51 35 0.59
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.21
Consensus pattern (48 bp):
ACACATAGTTGTACACAACTCACAGCACATAGCTGCACACATACTTAC
Found at i:2041553 original size:14 final size:12
Alignment explanation
Indices: 2041514--2041553 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
2041504 CAACTCACAG
*
2041514 CACATAGCTGCA
1 CACATAGTTGCA
2041526 CACATAGTTGCA
1 CACATAGTTGCA
*
2041538 CACATAGTTGTA
1 CACATAGTTGCA
2041550 CACA
1 CACA
2041554 ATTTCTCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.23
Consensus pattern (12 bp):
CACATAGTTGCA
Found at i:2041563 original size:24 final size:23
Alignment explanation
Indices: 2041438--2041556 Score: 69
Period size: 24 Copynumber: 4.9 Consensus size: 23
2041428 ACTTAGGTGT
* * *
2041438 ACACATAGCTGTGCACAACTCAC
1 ACACATAGTTGTACACAATTCAC
* * *
2041461 AGCACCTAGCTGTACACAACTCCTTAC
1 A-CACATAGTTGTACACAA-T--TCAC
*
2041488 AGCACATAGTTGTACACAACTCAC
1 A-CACATAGTTGTACACAATTCAC
* * *
2041512 AGCACATAGCTGCACACATAGTT-GC
1 A-CACATAGTTGTACACA-A-TTCAC
2041537 ACACATAGTTGTACACAATT
1 ACACATAGTTGTACACAATT
2041557 TCTCACAATA
Statistics
Matches: 76, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 48 0.63
25 3 0.04
26 1 0.01
27 20 0.26
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.22
Consensus pattern (23 bp):
ACACATAGTTGTACACAATTCAC
Found at i:2042456 original size:30 final size:30
Alignment explanation
Indices: 2042337--2042489 Score: 216
Period size: 30 Copynumber: 5.1 Consensus size: 30
2042327 ATTTAAATTA
* *
2042337 GATAGTGATGCACTAGTCCTTAATTTAAGA
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
* *
2042367 GATAGTGATGCACTAGTCCCTAATTTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
*
2042397 GATAGTGGTGCACTAGTCCCTAATTTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
2042427 GATAGTGGTGCACTAGTCCTTAATTTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
* * * * *
2042457 AATAATGGTGTACTAGTTCTTAATCTAAGG
1 GATAGTGGTGCACTAGTCCTTAATTTAAGG
2042487 GAT
1 GAT
2042490 TTAAATTAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 113 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (30 bp):
GATAGTGGTGCACTAGTCCTTAATTTAAGG
Found at i:2047350 original size:30 final size:30
Alignment explanation
Indices: 2047261--2047352 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
2047251 TTTAAATTAG
* *
2047261 ATAGTGGTGCGCTAGTCCTTAATCTAAGGG
1 ATAGTGGTGCACTAGTCCTTAATCTAAGGA
*
2047291 ATAGTGGTGTACTAGTCCTTAATCTAAGGA
1 ATAGTGGTGCACTAGTCCTTAATCTAAGGA
* *
2047321 ATAGTAGTGCACTAGTCCTTAATTTAAGGA
1 ATAGTGGTGCACTAGTCCTTAATCTAAGGA
2047351 AT
1 AT
2047353 TTAAATTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (30 bp):
ATAGTGGTGCACTAGTCCTTAATCTAAGGA
Found at i:2049351 original size:36 final size:36
Alignment explanation
Indices: 2049298--2049366 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
2049288 TTTTGGGAAG
*
2049298 GTTTTCTTAAATTGGACATTATCTAACTTTTAGGTT
1 GTTTTCCTAAATTGGACATTATCTAACTTTTAGGTT
2049334 GTTTTCCT-AATTAGGACATTATCTAACTTTTAG
1 GTTTTCCTAAATT-GGACATTATCTAACTTTTAG
2049367 ATAACTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 4 0.13
36 27 0.87
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (36 bp):
GTTTTCCTAAATTGGACATTATCTAACTTTTAGGTT
Found at i:2059190 original size:122 final size:122
Alignment explanation
Indices: 2058969--2059210 Score: 430
Period size: 122 Copynumber: 2.0 Consensus size: 122
2058959 CCTGCTAGAG
2058969 AAAGAATGGGGGAGATCGGAAAACAAACCCACTACAGGAATCATTGTCATTACTGGAAGAGCATC
1 AAAGAATGGGGGAGATCGGAAAACAAACCCACTACAGGAATCATTGTCATTACTGGAAGAGCATC
*
2059034 AGTCTCAGCTAAAAAGAGAATAGACTGAGACGCCATTATTGCCACAGGCTCAACAGC
66 AGTCTCAGCTAAAAAGAAAATAGACTGAGACGCCATTATTGCCACAGGCTCAACAGC
** *
2059091 AAAGAATGGGGGAGATCGGAAAACAAACCCACTATGGGAATCATTGTCATTACTGGAGGAGCATC
1 AAAGAATGGGGGAGATCGGAAAACAAACCCACTACAGGAATCATTGTCATTACTGGAAGAGCATC
* *
2059156 GGTCTCAGCTAAAAAGAAAATAGACTGAGGCGCCATTATTGCCACAGGCTCAACA
66 AGTCTCAGCTAAAAAGAAAATAGACTGAGACGCCATTATTGCCACAGGCTCAACA
2059211 ACCACAGTGC
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (122 bp):
AAAGAATGGGGGAGATCGGAAAACAAACCCACTACAGGAATCATTGTCATTACTGGAAGAGCATC
AGTCTCAGCTAAAAAGAAAATAGACTGAGACGCCATTATTGCCACAGGCTCAACAGC
Found at i:2061249 original size:11 final size:11
Alignment explanation
Indices: 2061235--2061259 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2061225 AATATATTTA
2061235 TATATTAATAT
1 TATATTAATAT
2061246 TATATTAATAT
1 TATATTAATAT
2061257 TAT
1 TAT
2061260 TTTTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATTAATAT
Found at i:2075974 original size:18 final size:18
Alignment explanation
Indices: 2075951--2075993 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2075941 CGGCTTTGAG
2075951 TTTTTTACATTTTTCATT
1 TTTTTTACATTTTTCATT
*** *
2075969 TTTTTTGGTTTTTTTATT
1 TTTTTTACATTTTTCATT
2075987 TTTTTTA
1 TTTTTTA
2075994 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTACATTTTTCATT
Found at i:2075989 original size:9 final size:9
Alignment explanation
Indices: 2075960--2076000 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
2075950 GTTTTTTACA
*
2075960 TTTTTCATT
1 TTTTTTATT
**
2075969 TTTTTTGGT
1 TTTTTTATT
2075978 TTTTTTATT
1 TTTTTTATT
2075987 TTTTTTATT
1 TTTTTTATT
2075996 TTTTT
1 TTTTT
2076001 ATTAAAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.07, C:0.02, G:0.05, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:2075997 original size:17 final size:18
Alignment explanation
Indices: 2075960--2076003 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2075950 GTTTTTTACA
* *
2075960 TTTTTCATTTTTTTTGGT
1 TTTTTTATTTTTTTTGAT
2075978 TTTTTTATTTTTTTT-AT
1 TTTTTTATTTTTTTTGAT
2075995 TTTTTTATT
1 TTTTTTATT
2076004 AAAAAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTTATTTTTTTTGAT
Found at i:2076277 original size:24 final size:25
Alignment explanation
Indices: 2076250--2076301 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
2076240 ATATATAACG
*
2076250 AAATGATAATTTAAATATTT-ATTT
1 AAATCATAATTTAAATATTTAATTT
**
2076274 AAATCATTTTTTAAATATTTAATTT
1 AAATCATAATTTAAATATTTAATTT
2076299 AAA
1 AAA
2076302 AAATGGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
AAATCATAATTTAAATATTTAATTT
Found at i:2076299 original size:13 final size:12
Alignment explanation
Indices: 2076258--2076301 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
2076248 CGAAATGATA
2076258 ATTTAAATATTT
1 ATTTAAATATTT
2076270 ATTTAAATCATTT
1 ATTTAAAT-ATTT
2076283 -TTTAAATATTT
1 ATTTAAATATTT
2076294 AATTTAAA
1 -ATTTAAA
2076302 AAATGGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.14
12 15 0.52
13 10 0.34
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTAAATATTT
Found at i:2076667 original size:12 final size:12
Alignment explanation
Indices: 2076645--2076687 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
2076635 ATTTTAATTT
2076645 AATTAATTTAAAA
1 AATT-ATTTAAAA
2076658 AATTATTTAAAA
1 AATTATTTAAAA
*
2076670 AATAATATTTAATA
1 AAT--TATTTAAAA
2076684 AATT
1 AATT
2076688 TTAATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 4 0.15
14 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTATTTAAAA
Found at i:2076671 original size:14 final size:14
Alignment explanation
Indices: 2076650--2076686 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
2076640 AATTTAATTA
2076650 ATTTAAAAAAT--T
1 ATTTAAAAAATAAT
2076662 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
*
2076676 ATTTAATAAAT
1 ATTTAAAAAAT
2076687 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAAAAATAAT
Found at i:2078131 original size:30 final size:30
Alignment explanation
Indices: 2078067--2078131 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
2078057 CTTGTGAATT
* *
2078067 ATAAATTTAATAATATAATATAAAAATAAT
1 ATAAATTTAATAATATAATAAAAAAATAAC
2078097 ATAAATATTATATAA-AT-ATAAAAAAATAAC
1 ATAAAT-TTA-ATAATATAATAAAAAAATAAC
2078127 ATAAA
1 ATAAA
2078132 AAAATTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 22 0.71
31 5 0.16
32 4 0.13
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (30 bp):
ATAAATTTAATAATATAATAAAAAAATAAC
Found at i:2078381 original size:2 final size:2
Alignment explanation
Indices: 2078374--2078410 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2078364 TAATGAGTGC
2078374 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2078411 ATGCAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2078621 original size:16 final size:17
Alignment explanation
Indices: 2078591--2078624 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2078581 GTGTCATTTT
*
2078591 TGTTCATAAATTTTTAA
1 TGTTCATAAAATTTTAA
2078608 TGTT-ATAAAATTTTAA
1 TGTTCATAAAATTTTAA
2078624 T
1 T
2078625 AATGTAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TGTTCATAAAATTTTAA
Found at i:2080233 original size:19 final size:19
Alignment explanation
Indices: 2080211--2080252 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2080201 ATAATTTTTT
* *
2080211 TAAAAAAATTTTAAATAAA
1 TAAAAAAATTGTAAAAAAA
2080230 TAAAAAAATTGTAAAAAAA
1 TAAAAAAATTGTAAAAAAA
2080249 TAAA
1 TAAA
2080253 CATATCCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAAAATTGTAAAAAAA
Found at i:2086966 original size:34 final size:32
Alignment explanation
Indices: 2086917--2086987 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
2086907 CATTATCTGA
*
2086917 ATTTATATTATATATTTTATTAATAAATTTGAAT
1 ATTTATATTAGATA-TTTATTAATAAATTT-AAT
* * *
2086951 ATTTATATTCGATATTTATTTATATATTTAAT
1 ATTTATATTAGATATTTATTAATAAATTTAAT
2086983 -TTTAT
1 ATTTAT
2086988 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 5 0.15
32 3 0.09
33 13 0.39
34 12 0.36
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (32 bp):
ATTTATATTAGATATTTATTAATAAATTTAAT
Found at i:2087027 original size:17 final size:17
Alignment explanation
Indices: 2086995--2087046 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
2086985 TATTATTTTA
2086995 TAAAATAATTTAATAAAT
1 TAAAAT-ATTTAATAAAT
*
2087013 TAAAATATTTTATAAAT
1 TAAAATATTTAATAAAT
** *
2087030 TTTAATATTTGATAAAT
1 TAAAATATTTAATAAAT
2087047 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAAAATATTTAATAAAT
Found at i:2087421 original size:14 final size:13
Alignment explanation
Indices: 2087383--2087425 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
2087373 ACTAAATCCT
2087383 TTTATATTATTTT-
1 TTTATA-TATTTTA
*
2087396 TTTATTTATTTTA
1 TTTATATATTTTA
2087409 TTTCATATATTTTA
1 TTT-ATATATTTTA
2087423 TTT
1 TTT
2087426 TTTTTAGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 8 0.31
14 12 0.46
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:2087565 original size:14 final size:14
Alignment explanation
Indices: 2087546--2087597 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
2087536 TATTAAAAAA
2087546 ATATTTTAATTTTT
1 ATATTTTAATTTTT
*
2087560 ATATTTTTAATTTTA
1 ATA-TTTTAATTTTT
*
2087575 ATAATTTT-ATTTAT
1 AT-ATTTTAATTTTT
*
2087589 ATACTTTAA
1 ATATTTTAA
2087598 AAATAGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 16 0.52
16 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTTAATTTTT
Found at i:2087569 original size:15 final size:15
Alignment explanation
Indices: 2087548--2087583 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2087538 TTAAAAAAAT
*
2087548 ATTTTAATTTTTATA
1 ATTTTAATTTTAATA
*
2087563 TTTTTAATTTTAATA
1 ATTTTAATTTTAATA
2087578 ATTTTA
1 ATTTTA
2087584 TTTATATACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTAATTTTAATA
Found at i:2087664 original size:19 final size:19
Alignment explanation
Indices: 2087622--2087670 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2087612 AAAAAATAAT
**
2087622 AATATTAAAAAATTATTTA
1 AATATTAAAAAATTATCGA
*
2087641 AATATTAATAAATTATCGA
1 AATATTAAAAAATTATCGA
*
2087660 TATATGTAAAA
1 AATAT-TAAAA
2087671 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
AATATTAAAAAATTATCGA
Found at i:2088507 original size:22 final size:21
Alignment explanation
Indices: 2088482--2088523 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2088472 AATAAAAAAA
2088482 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
2088502 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
2088523 A
1 A
2088524 AATAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:2092498 original size:15 final size:15
Alignment explanation
Indices: 2092462--2092499 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2092452 CAACTAATTT
2092462 AATTAAAAAATTATA
1 AATTAAAAAATTATA
2092477 AACTTAAAAAA-TATTA
1 AA-TTAAAAAATTA-TA
2092493 AATTAAA
1 AATTAAA
2092500 TGGACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTAAAAAATTATA
Found at i:2092871 original size:28 final size:28
Alignment explanation
Indices: 2092806--2092890 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 28
2092796 TATATTTTTT
2092806 TATA-TCATAATTATA-TTTAAAATATTA
1 TATATTCAT-ATTATATTTTAAAATATTA
* *
2092833 TATATTTATATTA-ATTTTAATATATTTA
1 TATATTCATATTATATTTTAAAATA-TTA
*
2092861 TATATTCATATTATATTTTAAATTA-TA
1 TATATTCATATTATATTTTAAAATATTA
2092888 TAT
1 TAT
2092891 TTTTAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.02
27 21 0.43
28 18 0.37
29 9 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TATATTCATATTATATTTTAAAATATTA
Found at i:2092905 original size:18 final size:20
Alignment explanation
Indices: 2092879--2092919 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
2092869 TATTATATTT
*
2092879 TAAATTATATATT-TT-TAA
1 TAAAATATATATTCTTATAA
2092897 TAAAATATATATTCTTATAA
1 TAAAATATATATTCTTATAA
2092917 TAA
1 TAA
2092920 GCTACCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 2 0.10
20 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATATATATTCTTATAA
Found at i:2093759 original size:14 final size:15
Alignment explanation
Indices: 2093742--2093771 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2093732 TATAAATAAA
2093742 TTAATATT-TATATT
1 TTAATATTATATATT
2093756 TTAATATTATATATT
1 TTAATATTATATATT
2093771 T
1 T
2093772 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATATTATATATT
Found at i:2093771 original size:21 final size:20
Alignment explanation
Indices: 2093741--2093779 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2093731 ATATAAATAA
2093741 ATTAATATTTATATTTTAAT
1 ATTAATATTTATATTTTAAT
*
2093761 ATTATATATTTATTTTTTA
1 ATTA-ATATTTATATTTTA
2093780 TAGAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTAATATTTATATTTTAAT
Found at i:2098012 original size:2 final size:2
Alignment explanation
Indices: 2098005--2098049 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2097995 ACCAGTCACT
2098005 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2098047 TC T
1 TC T
2098050 TGCTCATCAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2103779 original size:28 final size:27
Alignment explanation
Indices: 2103734--2103802 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
2103724 ATAAAAATAC
*
2103734 TTAATATGTGAAA-ATTTTAAAT-TCTA
1 TTAATAT-TAAAAGATTTTAAATATCTA
*
2103760 TTGAATATTAATAAGATTTTATATATCTA
1 TT-AATATTAA-AAGATTTTAAATATCTA
2103789 TTAATATTAAAAGA
1 TTAATATTAAAAGA
2103803 ATGATTGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 4 0.11
27 11 0.30
28 16 0.43
29 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (27 bp):
TTAATATTAAAAGATTTTAAATATCTA
Found at i:2106432 original size:13 final size:13
Alignment explanation
Indices: 2106392--2106440 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
2106382 ACATATTTTC
2106392 TTCTTTTTCTTT-
1 TTCTTTTTCTTTG
*
2106404 TTCCTTCCTTTTTTTG
1 TT-CTT--TTTCTTTG
2106420 TTCTTTTTCTTTG
1 TTCTTTTTCTTTG
2106433 TTCTTTTT
1 TTCTTTTT
2106441 TCATCCTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 18 0.58
15 9 0.29
16 2 0.06
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (13 bp):
TTCTTTTTCTTTG
Found at i:2106439 original size:22 final size:22
Alignment explanation
Indices: 2106389--2106441 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
2106379 AACACATATT
2106389 TTCTTCTTTTTCTTTTTCCTTCC
1 TTCTT-TTTTTCTTTTTCCTTCC
**
2106412 TT-TTTTTGTTCTTTTT-CTTTG
1 TTCTTTTT-TTCTTTTTCCTTCC
2106433 TTCTTTTTT
1 TTCTTTTTT
2106442 CATCCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 9 0.35
22 15 0.58
23 2 0.08
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (22 bp):
TTCTTTTTTTCTTTTTCCTTCC
Found at i:2108929 original size:12 final size:13
Alignment explanation
Indices: 2108895--2108948 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
2108885 TATTATATAA
2108895 AATAAATAATATATT
1 AATAAAT-ATA-ATT
2108910 -ATATAATATAATT
1 AATA-AATATAATT
2108923 AA-AAATA-AATT
1 AATAAATATAATT
2108934 AATAAAT-TAATT
1 AATAAATATAATT
2108946 AAT
1 AAT
2108949 TTGGTTCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.17
12 15 0.43
13 4 0.11
14 7 0.20
15 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATAAATATAATT
Found at i:2119841 original size:20 final size:19
Alignment explanation
Indices: 2119791--2119841 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
2119781 TTAAATTAAT
*
2119791 TTTATTTATTTGATTTATA
1 TTTATATATTTGATTTATA
*
2119810 TTTATCTAATTTGATTATTATA
1 TTTATAT-ATTTGA-T-TTATA
2119832 TTT-TATATTT
1 TTTATATATTT
2119842 TATTCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 3 0.11
22 8 0.30
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTATATATTTGATTTATA
Found at i:2121872 original size:108 final size:108
Alignment explanation
Indices: 2121591--2122264 Score: 499
Period size: 108 Copynumber: 6.1 Consensus size: 108
2121581 GACACGGAAT
** * * * * * **
2121591 ATTTCAACTCCATCAGTATGCGATTCTGTTTCGACTGCTTCTATTGTTGATCTGGACGCGACAGT
1 ATTTCAACTCCATCAGCCTGAGATTCTGTTTCGACTGCTTCTGTTGTTGAACTGGATGCTATGGT
* * * *
2121656 GGATGAACTTATAATTCCCCCAGACGCTGAATTTATCC-CTGAG
66 GGATGAACTTACAACTCCCCTAGACGCAGAATTTATCCTC-GAG
* * * * *
2121699 ATTTCAGCTCCATCCCTAACAACATGAAATTCTGTTTCGACTGCTTTTGTTGTTG-ATTGGGATG
1 ATTTCAACTCCAT--C-AGC--C-TGAGATTCTGTTTCGACTGCTTCTGTTGTTGAACT-GGATG
* * *
2121763 CTATGGTAGATGAACTTACAACTCCCCTAGATGCAGAATTCATCCTCGAG
59 CTATGGTGGATGAACTTACAACTCCCCTAGACGCAGAATTTATCCTCGAG
** * *
2121813 ATTTCAACTCTGTCAGCCTGAGATTCTATTTTGACTGCTTCTGTTGTTGAACTGGATGCTATGGT
1 ATTTCAACTCCATCAGCCTGAGATTCTGTTTCGACTGCTTCTGTTGTTGAACTGGATGCTATGGT
* *
2121878 GGATGAACTTACAACTACCCC-AGATG-TGAAATTTAT-CTCCGAG
66 GGATGAACTTACAACT-CCCCTAGACGCAG-AATTTATCCT-CGAG
** * * * * *
2121921 ATTTCATTTCCATCAGTCTGAGATTCTGTTTCG-CTTTCTTCTATTGTTGATCTGGATGGTATGG
1 ATTTCAACTCCATCAGCCTGAGATTCTGTTTCGAC-TGCTTCTGTTGTTGAACTGGATGCTATGG
** *** * *
2121985 TGGATGATTTTACAACT-CCCTCAGACATGGAATTTATCCCCAAG
65 TGGATGAACTTACAACTCCCCT-AGACGCAGAATTTATCCTCGAG
* **
2122029 ATTTCAACTCCATCTCTAACAGCATGAGATTCTGTTTCGACTGCTTCTGTTGTT-AATCCAGATG
1 ATTTCAACTCCA----T--CAGCCTGAGATTCTGTTTCGACTGCTTCTGTTGTTGAA-CTGGATG
* * * * ** * *
2122093 CTATAGTAGATGAACTTACTACTCCTCTAGACATACAATTTGT-CTCTGAG
59 CTATGGTGGATGAACTTACAACTCCCCTAGACGCAGAATTTATCCTC-GAG
* * * * * * *
2122143 ATTTCAACTCCATCA-CCATTAGATTCTATATCGACTGCTTCTATTGTTGATCTGGATGCCATAG
1 ATTTCAACTCCATCAGCC-TGAGATTCTGTTTCGACTGCTTCTGTTGTTGAACTGGATGCTATGG
* *
2122207 TGGATGAACTTAAAACT-CCCTCAGACGC-GAAATTTATCCTCGGG
65 TGGATGAACTTACAACTCCCCT-AGACGCAG-AATTTATCCTCGAG
2122251 ATTTCAACTCCATC
1 ATTTCAACTCCATC
2122265 CATAATAGCA
Statistics
Matches: 444, Mismatches: 90, Indels: 64
0.74 0.15 0.11
Matches are distributed among these distances:
106 3 0.01
107 8 0.02
108 248 0.56
109 13 0.03
110 2 0.00
111 3 0.01
112 2 0.00
113 4 0.01
114 156 0.35
115 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (108 bp):
ATTTCAACTCCATCAGCCTGAGATTCTGTTTCGACTGCTTCTGTTGTTGAACTGGATGCTATGGT
GGATGAACTTACAACTCCCCTAGACGCAGAATTTATCCTCGAG
Found at i:2122059 original size:222 final size:222
Alignment explanation
Indices: 2121826--2122295 Score: 538
Period size: 222 Copynumber: 2.1 Consensus size: 222
2121816 TCAACTCTGT
* * * ** * *
2121826 CAGCCTGAGATTCTATTTTGACTGCTTCTGTTGTTGAA-CTGGATGCTATGGTGGATGAACTTAC
1 CAGCATGAGATTCTGTTTCGACTGCTTCTGTTGTT-AATCCAGATGCTATAGTAGATGAACTTAC
** ** * * *
2121890 AACTACC-CCAGATGTGA-AATTTATCTCCGAGATTTCATTTCCATCAGTC-TGAGATTCTGTTT
65 AACT-CCTCCAGACAT-ACAATTTATCTCCGAGATTTCAACTCCATCA-CCATGAGATTCTATAT
* ** * ** * * *
2121952 CG-CTTTCTTCTATTGTTGATCTGGATGGTATGGTGGATGATTTTACAACTCCCTCAGACATGGA
127 CGAC-TGCTTCTATTGTTGATCTGGATGCCATAGTGGATGAACTTAAAACTCCCTCAGACACGAA
2122016 ATTTATCCCCAAGATTTCAACTCCATCTC-TAA
191 ATTTATCCCCAAGATTTCAACTCCATC-CATAA
*
2122048 CAGCATGAGATTCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACT
1 CAGCATGAGATTCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACA
* * * *
2122113 ACTCCTCTAGACATACAATTTGTCTCTGAGATTTCAACTCCATCACCATTAGATTCTATATCGAC
66 ACTCCTCCAGACATACAATTTATCTCCGAGATTTCAACTCCATCACCATGAGATTCTATATCGAC
*
2122178 TGCTTCTATTGTTGATCTGGATGCCATAGTGGATGAACTTAAAACTCCCTCAGACGCGAAATTTA
131 TGCTTCTATTGTTGATCTGGATGCCATAGTGGATGAACTTAAAACTCCCTCAGACACGAAATTTA
* **
2122243 TCCTCGGGATTTCAACTCCATCCATAA
196 TCCCCAAGATTTCAACTCCATCCATAA
* *
2122270 TAGCATGAGATTGTGTTTCGACTGCT
1 CAGCATGAGATTCTGTTTCGACTGCT
2122296 GCTATTTTGT
Statistics
Matches: 208, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
221 7 0.03
222 200 0.96
223 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (222 bp):
CAGCATGAGATTCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACA
ACTCCTCCAGACATACAATTTATCTCCGAGATTTCAACTCCATCACCATGAGATTCTATATCGAC
TGCTTCTATTGTTGATCTGGATGCCATAGTGGATGAACTTAAAACTCCCTCAGACACGAAATTTA
TCCCCAAGATTTCAACTCCATCCATAA
Found at i:2122256 original size:330 final size:330
Alignment explanation
Indices: 2121599--2122244 Score: 800
Period size: 330 Copynumber: 2.0 Consensus size: 330
2121589 ATATTTCAAC
*
2121599 TCCATCAGTATGCGATTCTGTTTCGACTGCTTCTATTGTTGATCTGGACGCGACAGTGGATGAAC
1 TCCATCAGTATGAGATTCTGTTTCGACTGCTTCTATTGTTGATCTGGACGCGACAGTGGATGAAC
* * * ** *
2121664 TTATAATTCCCCCAGACGCTGAATTTATCCCTGAGATTTCAGCTCCATCCCTAACAACATGAAAT
66 TTACAACTCCCCCAGACGATGAATTTATCCCCAAGATTTCAACTCCATCCCTAACAACATGAAAT
* * *** *
2121729 TCTGTTTCGACTGCTTTTGTTGTTGATTGGGATGCTATGGTAGATGAACTTACAACTCCCCTAGA
131 TCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACAACTCCCCTAGA
** * ** * * *
2121794 TGCAGAATTCATCCTCGAGATTTCAACTCTGTCAGCCTGAGATTCTATTTTGACTGCTTCTGTTG
196 CACACAATTCATCCTCGAGATTTCAACTCCATCAGCCTGAGATTCTATATCGACTGCTTCTATTG
* * * * *
2121859 TTGAACTGGATGCTATGGTGGATGAACTTACAACTACCCCAGATGTGAAATTTATCTCCGAGATT
261 TTGAACTGGATGCCATAGTGGATGAACTTAAAACTACCCCAGACGCGAAATTTATCTCCGAGATT
2121924 TCATT
326 TCATT
* * * **
2121929 TCCATCAGTCTGAGATTCTGTTTCG-CTTTCTTCTATTGTTGATCTGGATG-GTATGGTGGATGA
1 TCCATCAGTATGAGATTCTGTTTCGAC-TGCTTCTATTGTTGATCTGGACGCG-ACAGTGGATGA
** * * *
2121992 TTTTACAACTCCCTCAGAC-ATGGAATTTATCCCCAAGATTTCAACTCCATCTCTAACAGCATGA
64 ACTTACAACTCCCCCAGACGAT-GAATTTATCCCCAAGATTTCAACTCCATCCCTAACAACATGA
* * *
2122056 GATTCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACTACTCCTCT
128 AATTCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACAACTCCCCT
* ** *
2122121 AGACATACAATTTGT-CTCTGAGATTTCAACTCCATCA-CCATTAGATTCTATATCGACTGCTTC
193 AGACACACAATTCATCCTC-GAGATTTCAACTCCATCAGCC-TGAGATTCTATATCGACTGCTTC
*
2122184 TATTGTTGATCTGGATGCCATAGTGGATGAACTTAAAACT-CCCTCAGACGCGAAATTTATC
256 TATTGTTGAACTGGATGCCATAGTGGATGAACTTAAAACTACCC-CAGACGCGAAATTTATC
2122245 CTCGGGATTT
Statistics
Matches: 266, Mismatches: 44, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
329 11 0.04
330 255 0.96
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (330 bp):
TCCATCAGTATGAGATTCTGTTTCGACTGCTTCTATTGTTGATCTGGACGCGACAGTGGATGAAC
TTACAACTCCCCCAGACGATGAATTTATCCCCAAGATTTCAACTCCATCCCTAACAACATGAAAT
TCTGTTTCGACTGCTTCTGTTGTTAATCCAGATGCTATAGTAGATGAACTTACAACTCCCCTAGA
CACACAATTCATCCTCGAGATTTCAACTCCATCAGCCTGAGATTCTATATCGACTGCTTCTATTG
TTGAACTGGATGCCATAGTGGATGAACTTAAAACTACCCCAGACGCGAAATTTATCTCCGAGATT
TCATT
Found at i:2124187 original size:21 final size:22
Alignment explanation
Indices: 2124163--2124206 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
2124153 TTATTTAATT
2124163 TTAATTAT-AATCATTAA-AAAA
1 TTAATTATAAAT-ATTAAGAAAA
*
2124184 TTAATTGTAAATATTAAGAAAA
1 TTAATTATAAATATTAAGAAAA
2124206 T
1 T
2124207 AAAAATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TTAATTATAAATATTAAGAAAA
Found at i:2124597 original size:14 final size:14
Alignment explanation
Indices: 2124559--2124606 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
2124549 TTATTTGAAC
*
2124559 AAAGGAAAGAGAAAG
1 AAAGGAAA-TGAAAG
*
2124574 AAAGGGAAATTAAAG
1 AAA-GGAAATGAAAG
2124589 AAAGGAAATGAAAG
1 AAAGGAAATGAAAG
2124603 AAAG
1 AAAG
2124607 AAAAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 14 0.48
15 10 0.34
16 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (14 bp):
AAAGGAAATGAAAG
Found at i:2136751 original size:15 final size:16
Alignment explanation
Indices: 2136727--2136768 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2136717 TAATTTATTT
*
2136727 ATATAAATAAT-TTTA
1 ATATATATAATCTTTA
2136742 ATATATATAATTCTTTA
1 ATATATATAA-TCTTTA
2136759 ATA-ATATAAT
1 ATATATATAAT
2136769 ATACTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 7 0.29
17 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATATAATCTTTA
Found at i:2139958 original size:2 final size:2
Alignment explanation
Indices: 2139951--2139991 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2139941 TCCTATTAAT
2139951 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2139992 TTACAGCATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2143646 original size:2 final size:2
Alignment explanation
Indices: 2143639--2143668 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2143629 TTGCGTGTGC
2143639 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
2143669 GAAATTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2145352 original size:9 final size:9
Alignment explanation
Indices: 2145340--2145374 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
2145330 TATATAATAT
2145340 ATTTTATAA
1 ATTTTATAA
*
2145349 ATTTTAATAT
1 ATTTT-ATAA
2145359 ATTTTATAA
1 ATTTTATAA
2145368 ATTTTAT
1 ATTTTAT
2145375 TATATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTATAA
Found at i:2145356 original size:19 final size:19
Alignment explanation
Indices: 2145334--2145381 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
2145324 ATAATATATA
2145334 TAATATATTTTATAAATTT
1 TAATATATTTTATAAATTT
2145353 TAATATATTTTATAAATTT
1 TAATATATTTTATAAATTT
*
2145372 TATTATATTT
1 TAATATATTT
2145382 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATATATTTTATAAATTT
Found at i:2148602 original size:16 final size:16
Alignment explanation
Indices: 2148581--2148613 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2148571 TTCTGTGCTT
2148581 CATATCACTGAAATAA
1 CATATCACTGAAATAA
2148597 CATATCACTGAAATAA
1 CATATCACTGAAATAA
2148613 C
1 C
2148614 GGGGCTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
CATATCACTGAAATAA
Found at i:2150326 original size:2 final size:2
Alignment explanation
Indices: 2150319--2150392 Score: 60
Period size: 2 Copynumber: 37.0 Consensus size: 2
2150309 CGTACATTTA
* * * * ** *
2150319 AT AT AT AT AT AT AT AT AT AC AC AC AT AT AT AT GT AT GC AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2150361 AT AT AT AT GA- AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
2150393 TGATATTTGA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2150369 original size:18 final size:18
Alignment explanation
Indices: 2150325--2150391 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
2150315 TTTAATATAT
* *
2150325 ATATATATATATACACAC
1 ATATATATGTATACATAC
*
2150343 ATATATATGTATGCATAC
1 ATATATATGTATACATAC
* * *
2150361 ATATATATGAATATATAT
1 ATATATATGTATACATAC
2150379 ATATATATGTATA
1 ATATATATGTATA
2150392 TTGATATTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (18 bp):
ATATATATGTATACATAC
Found at i:2153307 original size:10 final size:11
Alignment explanation
Indices: 2153284--2153314 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2153274 AAAATTTTTA
2153284 TTTTTGAAATT
1 TTTTTGAAATT
*
2153295 TTTTTGAGATT
1 TTTTTGAAATT
2153306 TTTTTGAAA
1 TTTTTGAAA
2153315 AACTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (11 bp):
TTTTTGAAATT
Found at i:2153928 original size:165 final size:165
Alignment explanation
Indices: 2153709--2154094 Score: 388
Period size: 164 Copynumber: 2.3 Consensus size: 165
2153699 TAAAAAATTT
* * * * ** * **
2153709 TCAAATATTATCATTTAACACTCATCAAATCAGTTTCGAAAAATTCCTTTTATTTCTTTTAAGTT
1 TCAAATATTATTATTAAACTCTCATTAAATCAGTTTTAAAAAATT-CATTTATTTCTCATAAGTT
* *** * * * * *
2153774 ATTGA-TTTTCTTTGAAATTTTTCTATTTTCAAAATA-CGAAATTTTTTACTCCGTAAATGTTTT
65 -TTCATTTTTCTTTGAAATTCCCCTATTTCCAAAATATCG-AACTTTCTACTCCATAAATATTTT
* * **
2153837 C-GGGAGAATTTTTCAT-GGTTTTTAATTTTTAAAATTCA
128 CGGGGAG-ATTTTTC-TCGATATAAAATTTTTAAAATTCA
* * * * *
2153875 TCAAATATTATTTTTTAA-TTTATATTAAATTAGTTTTAAAAAATTCATTTATTT-TCATAAGTT
1 TCAAATATTATTATTAAACTCT-CATTAAATCAGTTTTAAAAAATTCATTTATTTCTCATAAGTT
* * *
2153938 TTCATTTTTCTTTGAAATTCCCCTATTTCCAAAATATCGAGCTTTCTATTCCATCAATATTTTCG
65 TTCATTTTTCTTTGAAATTCCCCTATTTCCAAAATATCGAACTTTCTACTCCATAAATATTTTCG
2154003 GGGAGATTTTTCTCGATATAAAATTTTTAAAATTCA
130 GGGAGATTTTTCTCGATATAAAATTTTTAAAATTCA
*
2154039 TCAAATATTATTATTAAACTCTCATTAAATCAGTTTTCAAAAATTCAATTTATTTC
1 TCAAATATTATTATTAAACTCTCATTAAATCAGTTTTAAAAAATTC-ATTTATTTC
2154095 ATAAATTTTA
Statistics
Matches: 178, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
163 4 0.02
164 114 0.64
165 26 0.15
166 34 0.19
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.48
Consensus pattern (165 bp):
TCAAATATTATTATTAAACTCTCATTAAATCAGTTTTAAAAAATTCATTTATTTCTCATAAGTTT
TCATTTTTCTTTGAAATTCCCCTATTTCCAAAATATCGAACTTTCTACTCCATAAATATTTTCGG
GGAGATTTTTCTCGATATAAAATTTTTAAAATTCA
Found at i:2154266 original size:17 final size:15
Alignment explanation
Indices: 2154244--2154277 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
2154234 AATTATATTT
2154244 TTTAATTTGAAATTTTA
1 TTTAATTT--AATTTTA
2154261 TTTAATTTAATTTTA
1 TTTAATTTAATTTTA
2154276 TT
1 TT
2154278 CATTTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTAATTTAATTTTA
Found at i:2157786 original size:76 final size:75
Alignment explanation
Indices: 2157612--2158013 Score: 459
Period size: 76 Copynumber: 5.3 Consensus size: 75
2157602 AATAACAGAA
* * * ** *
2157612 TTGGAGTATCCTCTCAAAAATAATGGGGTTGGAGTATCCTAAATAAAAAATTGACATTTTTAGAA
1 TTGGAGTATCCCCTAAAAAATAATGAGGTTGGAGTATCC-CGAT-AAAAATCGACATTTTTAGAA
*
2157677 GTAAAAATGGGG
64 GTAAAAACGGGG
* * *
2157689 TTGGAGTATCCCCTCAGAAATAATGAGGTTGGAGTATCTCCGATAAAAATCGATATTTTTAGAAG
1 TTGGAGTATCCCCTAAAAAATAATGAGGTTGGAGTATC-CCGATAAAAATCGACATTTTTAGAAG
**
2157754 TAAAAACAAGG
65 TAAAAACGGGG
* * * *
2157765 TTGGAGCATTCCCTAAAAAATAACGAGGTTGGAGTATCCTCGATAAAAATCAACATTTTTAGAAG
1 TTGGAGTATCCCCTAAAAAATAATGAGGTTGGAGTATCC-CGATAAAAATCGACATTTTTAGAAG
2157830 TAAAAACGGGG
65 TAAAAACGGGG
* * * * * *
2157841 TTGAAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCTGATAAAAATCGAAATTTTTAGAAG
1 TTGGAGTATCCCCTAAAAAATAATGAGGTTGGAGTATCCC-GATAAAAATCGACATTTTTAGAAG
2157906 TAAAAACGGGG
65 TAAAAACGGGG
* ** **
2157917 TAGGAGTATCCCCTAGGAAATAAT-AGAGTTGGAGTATCCCCGATAAAAATC-A-ACCTTTAGAA
1 TTGGAGTATCCCCTAAAAAATAATGAG-GTTGGAGTAT-CCCGATAAAAATCGACATTTTTAGAA
2157979 GTAAAAACGGGG
64 GTAAAAACGGGG
**
2157991 TTGGAGTATCCCCTTGAAAATAA
1 TTGGAGTATCCCCTAAAAAATAA
2158014 CAGAGTTAAA
Statistics
Matches: 280, Mismatches: 40, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
74 40 0.14
75 4 0.01
76 195 0.70
77 40 0.14
78 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (75 bp):
TTGGAGTATCCCCTAAAAAATAATGAGGTTGGAGTATCCCGATAAAAATCGACATTTTTAGAAGT
AAAAACGGGG
Found at i:2160578 original size:20 final size:21
Alignment explanation
Indices: 2160551--2160610 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
2160541 TCAAAAACCC
2160551 AGAATGTATCGATACAATG--
1 AGAATGTATCGATACAATGTA
*
2160570 AGAAATGTATCGACACAATTGTA
1 AG-AATGTATCGATACAA-TGTA
*
2160593 AGCATGTATCGATACAAT
1 AGAATGTATCGATACAAT
2160611 TTTTTACGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.41
21 3 0.09
22 13 0.38
23 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (21 bp):
AGAATGTATCGATACAATGTA
Found at i:2161308 original size:61 final size:61
Alignment explanation
Indices: 2161238--2161856 Score: 579
Period size: 61 Copynumber: 10.2 Consensus size: 61
2161228 CTTGCTTTTG
* * * *
2161238 GAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCGTCTTACTTTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* * * * * * * * *
2161299 GAGGACTAAAAGGTGCCACTAGCTTGTGTGTGCTTT-TAAAG-GAAAGTGTCTTGCTTTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* * * * * *
2161358 GAGGACTAGAAGGTGCTATCGACTTGTGTGGGCTTTAAAAAGAGACAA-CGTCCTACTCTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAAAGCGTCCTACTCTTT
* * * ** * * *
2161419 AAGGACTGAAAGGTGCCACCAACTTGAGT-GGCTTTGAATGGAGAAGGCGTCCTGCTCTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* *
2161479 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAATGCGTCCTACTCTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* * * * * *
2161540 AAGGATTGAAAGGTGCCATCGACTTGTGTGGGCTTTG-AAA-AAAAAGTGTCCTACTCTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* * * * *
2161599 GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAGAAGAAAAGGCATCCTGCTCTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* ** * * * * *
2161660 GAGGACTAAAATGTGCCATTAACTTGTATGGGCTTT-AAAAGGGAAAGGCGTCCTATTATTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCGTCCTACTCTTT
* * ** * * * *
2161721 AAGGACTAAAAGGTGCCACCAACTCGTGTGAACTTTGAAAGGAGAAAGCATCCTACTTTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
* * ** *
2161782 GAGGATTGAAATATGCCACCAACTTGTGTAGGCTTTG-AAAGAAACAAGGCGTCCTACTCTTT
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA-AA-GCGTCCTACTCTTT
* *
2161844 GAGAACTATAAGG
1 GAGGACTAAAAGG
2161857 ATAAAAGGTT
Statistics
Matches: 442, Mismatches: 105, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
59 92 0.21
60 69 0.16
61 257 0.58
62 24 0.05
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (61 bp):
GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTCCTACTCTTT
Found at i:2161635 original size:120 final size:120
Alignment explanation
Indices: 2161238--2161856 Score: 598
Period size: 120 Copynumber: 5.1 Consensus size: 120
2161228 CTTGCTTTTG
* * * * *
2161238 GAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCGTCTTACTTTTTGAGG
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCGTCCTACTCTTTGAGG
* * * * * ** * * * *
2161303 ACTAAAAGGTGCCACTAGCTTGTGTGTGCTTTTAAAGGAAAGTGTCTTGCTTTTT
66 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGCGTCCTACTCTTT
* * * * * *
2161358 GAGGACTAGAAGGTGCTATCGACTTGTGTGGGCTTTAAAAAGAGACAA-CGTCCTACTCTTTAAG
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGA-AAGCGTCCTACTCTTTGAG
* * * * *
2161422 GACTGAAAGGTGCCACCAACTTGAGT-GGCTTTGAATGGAGAAGGCGTCCTGCTCTTT
65 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA--AAAAAAGCGTCCTACTCTTT
* *
2161479 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAATGCGTCCTACTCTTTAAGG
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCGTCCTACTCTTTGAGG
* * * *
2161544 ATTGAAAGGTGCCATCGACTTGTGTGGGCTTTGAAAAAAAAGTGTCCTACTCTTT
66 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGCGTCCTACTCTTT
* * * *
2161599 GAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTGAGAAGA-AAAGGCATCCTGCTCTTTGAG
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAA-GCGTCCTACTCTTTGAG
* * ** * * * *
2161663 GACTAAAATGTGCCATTAACTTGTATGGGCTTT-AAAAGGGAAAGGCGTCCTATTATTT
65 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA---AAAAGCGTCCTACTCTTT
* * ** * * *
2161721 AAGGACTAAAAGGTGCCACCAACTCGTGTGAACTTTGAAAGGAGAAAGCATCCTACTTTTTGAGG
1 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCGTCCTACTCTTTGAGG
* ** *
2161786 ATTGAAATATGCCACCAACTTGTGTAGGCTTTGAAAGAAACAAGGCGTCCTACTCTTT
66 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-AAA-AA-GCGTCCTACTCTTT
* *
2161844 GAGAACTATAAGG
1 GAGGACTAAAAGG
2161857 ATAAAAGGTT
Statistics
Matches: 411, Mismatches: 74, Indels: 25
0.81 0.15 0.05
Matches are distributed among these distances:
119 13 0.03
120 172 0.42
121 96 0.23
122 101 0.25
123 28 0.07
124 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (120 bp):
GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCGTCCTACTCTTTGAGG
ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGCGTCCTACTCTTT
Found at i:2162857 original size:10 final size:10
Alignment explanation
Indices: 2162842--2162874 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
2162832 TTCTTTCCTC
2162842 TTTTGTTTTT
1 TTTTGTTTTT
2162852 TTTTGTTTTT
1 TTTTGTTTTT
2162862 TTGTTGTTTTT
1 TT-TTGTTTTT
2162873 TT
1 TT
2162875 AAAAGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:2162863 original size:11 final size:11
Alignment explanation
Indices: 2162842--2162874 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2162832 TTCTTTCCTC
2162842 TTTTG-TTTTT
1 TTTTGTTTTTT
2162852 TTTTGTTTTTT
1 TTTTGTTTTTT
*
2162863 TGTTGTTTTTT
1 TTTTGTTTTTT
2162874 T
1 T
2162875 AAAAGAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:2173894 original size:32 final size:33
Alignment explanation
Indices: 2173853--2173917 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2173843 CAATTTGTCC
* *
2173853 ATGTATCGATACAATG-AACATGTATTGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
*
2173885 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
2173918 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATACA
Found at i:2174807 original size:16 final size:16
Alignment explanation
Indices: 2174786--2174838 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
2174776 GTTTTCATTT
2174786 TTCTCCCCTTAAAAAA
1 TTCTCCCCTTAAAAAA
*
2174802 TTCTCCCCTTAAACAAT
1 TTCTCCCCTTAAA-AAA
*
2174819 TATCTCCCCCTTAAACAA
1 T-TCT-CCCCTTAAAAAA
2174837 TT
1 TT
2174839 ATCTTCTCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 13 0.42
17 4 0.13
18 5 0.16
19 9 0.29
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
TTCTCCCCTTAAAAAA
Found at i:2174830 original size:19 final size:18
Alignment explanation
Indices: 2174787--2174842 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 18
2174777 TTTTCATTTT
*
2174787 TCTCCCCTTAAA-AAAT-
1 TCTCCCCTTAAACAATTA
2174803 TCTCCCCTTAAACAATTA
1 TCTCCCCTTAAACAATTA
2174821 TCTCCCCCTTAAACAATTA
1 TCT-CCCCTTAAACAATTA
2174840 TCT
1 TCT
2174843 TCTCCCCCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 12 0.33
17 3 0.08
18 3 0.08
19 18 0.50
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (18 bp):
TCTCCCCTTAAACAATTA
Found at i:2174849 original size:22 final size:20
Alignment explanation
Indices: 2174786--2174852 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
2174776 GTTTTCATTT
2174786 TTCT-CCCCTTAAA-AA--A
1 TTCTCCCCCTTAAACAATTA
2174802 TTCT-CCCCTTAAACAATTA
1 TTCTCCCCCTTAAACAATTA
2174821 -TCTCCCCCTTAAACAATTA
1 TTCTCCCCCTTAAACAATTA
2174840 TCTTCTCCCCCTT
1 --TTCTCCCCCTT
2174853 TATGTAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.30
17 2 0.05
18 3 0.07
19 16 0.36
22 10 0.23
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.36
Consensus pattern (20 bp):
TTCTCCCCCTTAAACAATTA
Found at i:2176582 original size:21 final size:20
Alignment explanation
Indices: 2176541--2176583 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2176531 TTCTGTTGAT
*
2176541 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAATAAAA
2176561 GATTTTGAAGTGAAAAA-AAAA
1 GATTTTG-A-TGAAAAATAAAA
2176582 GA
1 GA
2176584 AATTTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (20 bp):
GATTTTGATGAAAAATAAAA
Found at i:2182960 original size:32 final size:33
Alignment explanation
Indices: 2182919--2182983 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2182909 CAATTTGTCC
* *
2182919 ATGTATCGATACAATG-AACATGTATTGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
*
2182951 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
2182984 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATACA
Found at i:2184495 original size:3 final size:3
Alignment explanation
Indices: 2184487--2184512 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2184477 ATATTCCTCG
2184487 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
2184513 TTCTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:2184517 original size:3 final size:3
Alignment explanation
Indices: 2184511--2184538 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2184501 ATCATCATCA
2184511 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
2184539 TATCGTCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:2185471 original size:14 final size:14
Alignment explanation
Indices: 2185452--2185479 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2185442 CAAAACTTGC
2185452 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
2185466 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
2185480 GTTTCCTGCA
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:2188253 original size:15 final size:16
Alignment explanation
Indices: 2188233--2188262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2188223 ATAATTTTTA
2188233 TTTTA-TTTTATAAAT
1 TTTTATTTTTATAAAT
2188248 TTTTATTTTTATAAA
1 TTTTATTTTTATAAA
2188263 AAATTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATTTTTATAAAT
Found at i:2195807 original size:49 final size:49
Alignment explanation
Indices: 2195735--2195832 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
2195725 GCCACTTCTT
2195735 GGATGAAGATTATAGGTAATTCTTCGAATGGAATTCTTATGGATCAAAC
1 GGATGAAGATTATAGGTAATTCTTCGAATGGAATTCTTATGGATCAAAC
2195784 GGATGAAGATTATAGGTAATTCTTCGAATGGAATTCTTATGGATCAAAC
1 GGATGAAGATTATAGGTAATTCTTCGAATGGAATTCTTATGGATCAAAC
2195833 ATGAAATTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (49 bp):
GGATGAAGATTATAGGTAATTCTTCGAATGGAATTCTTATGGATCAAAC
Found at i:2195940 original size:2 final size:2
Alignment explanation
Indices: 2195933--2195976 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2195923 AACTTGAAAT
2195933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2195975 TA
1 TA
2195977 ACAAAAGATA
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):
TA
Found at i:2196191 original size:24 final size:26
Alignment explanation
Indices: 2196147--2196218 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 26
2196137 ATAATAAAAA
*
2196147 TAAAATATGAATTT-TAA-AT-TTAAT
1 TAAAATAT-AATTTATAATATATTTAT
2196171 T-AAAT-TAATTTATAAT-TATTT-T
1 TAAAATATAATTTATAATATATTTAT
*
2196193 TAAAATATAATTTTTAATATATTTAT
1 TAAAATATAATTTATAATATATTTAT
2196219 AATTCAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
21 5 0.13
22 7 0.18
23 10 0.26
24 11 0.28
25 5 0.13
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
TAAAATATAATTTATAATATATTTAT
Found at i:2196794 original size:2 final size:2
Alignment explanation
Indices: 2196783--2196823 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2196773 ACTAGTGGGA
*
2196783 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA 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
2196824 GTTGTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2198994 original size:51 final size:52
Alignment explanation
Indices: 2198913--2199029 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 52
2198903 TCGAAAATAA
* * * *
2198913 CGGGATTGGAGTAT-CTCCGATTGTGGAAAATCGATGTTCTGGAAATAAAAT
1 CGGGGTTGGAGTATCCTCCGATGGTGAAAAATCGATGTTCTGGAAATAAAAC
* * *
2198964 CGGGGTTGGAGTATCCT-CGATGGTGAAAAATTGGTGTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCTCCGATGGTGAAAAATCGATGTTCTGGAAATAAAAC
2199015 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
2199030 TCCTCAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 56 0.97
52 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCTCCGATGGTGAAAAATCGATGTTCTGGAAATAAAAC
Found at i:2199091 original size:130 final size:129
Alignment explanation
Indices: 2198870--2199104 Score: 296
Period size: 130 Copynumber: 1.8 Consensus size: 129
2198860 AAATTTAATA
* * * * *
2198870 TTTTGGAGATAAAGACGGGGTTAGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCTCCGATT
1 TTTTGGAAATAAAGACGGGGTTAGAGTATCCCCTCAAAAATAAAGAGATTGGAGTATCCCCGATT
* * *
2198935 GTGGAAAATCGATGTTCTGGAAATAAAATCGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTG
66 ATGGAAAATCGATATTCTGAAAAT-AAATCGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTG
* *
2199000 TTTTGGAAATAAA-ACCGGGGTTGGAGTATCTCCTCAAAAATAATAGAG-TTGGAGTATCCCCGA
1 TTTTGGAAATAAAGA-CGGGGTTAGAGTATCCCCTCAAAAATAA-AGAGATTGGAGTATCCCCGA
* * *
2199063 TTATGTAAAATCGGTATT-TTAAAGATAAATCGGGGTTGGAGT
64 TTATGGAAAATCGATATTCTGAAA-ATAAATCGGGGTTGGAGT
2199105 GTCCCCTCGA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
129 20 0.22
130 67 0.75
131 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (129 bp):
TTTTGGAAATAAAGACGGGGTTAGAGTATCCCCTCAAAAATAAAGAGATTGGAGTATCCCCGATT
ATGGAAAATCGATATTCTGAAAATAAATCGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTG
Found at i:2199129 original size:78 final size:79
Alignment explanation
Indices: 2198964--2199249 Score: 337
Period size: 78 Copynumber: 3.6 Consensus size: 79
2198954 GAAATAAAAT
* * * * *
2198964 CGGGGTTGGAGTATCCTCGATGGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTAT
* *
2199029 CTCCTCAAAAATAA
66 CCCCTCGAAAATAA
** * * * * *
2199043 TAGAGTTGGAGTATCCCCGATTATGTAAAATCGGTATTTT-AAAGAT-AAATCGGGGTTGGAGTG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAA-ATAAAATCGGGGTTGGAGTA
*
2199106 TCCCCTCGAGAATAA
65 TCCCCTCGAAAATAA
* * *
2199121 CGGGGTTGGAGTATCTCCGATTGTG-AAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTAT
2199185 CCCCTTCGAAAATAA
66 CCCC-TCGAAAATAA
* *
2199200 CGGGATTGGAGTATCGCCGATTGTGAAAAATCGGTGTTTT-AGAAATAAAA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGA-AAATAAAA
2199250 ACATGAATGA
Statistics
Matches: 173, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
77 14 0.08
78 72 0.42
79 66 0.38
80 21 0.12
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:2204160 original size:52 final size:52
Alignment explanation
Indices: 2204090--2204210 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
2204080 GAAAATTTAT
*
2204090 CTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGC
2204142 CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
2204194 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2204211 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 64 0.96
53 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2204223 original size:52 final size:50
Alignment explanation
Indices: 2204090--2204230 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 50
2204080 GAAAATTTAT
*
2204090 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2204142 CTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGCAAATTTGC
2204194 CTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
2204231 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 77 0.94
53 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (50 bp):
CTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2204237 original size:13 final size:13
Alignment explanation
Indices: 2204219--2204243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2204209 CAAAGATCAG
2204219 TGTATCGATACAA
1 TGTATCGATACAA
2204232 TGTATCGATACA
1 TGTATCGATACA
2204244 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2204327 original size:13 final size:13
Alignment explanation
Indices: 2204309--2204333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2204299 CAAAAAAGTA
2204309 TGTATCGATACAT
1 TGTATCGATACAT
2204322 TGTATCGATACA
1 TGTATCGATACA
2204334 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2204329 original size:33 final size:33
Alignment explanation
Indices: 2204287--2204353 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2204277 AGTAGCTTAA
2204287 ATTGTATCGATACAAAAAAGTATGTATCGATAC
1 ATTGTATCGATACAAAAAAGTATGTATCGATAC
* ***
2204320 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAGTATGTATCGATAC
2204353 A
1 A
2204354 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAGTATGTATCGATAC
Found at i:2206762 original size:2 final size:2
Alignment explanation
Indices: 2206755--2206787 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2206745 TTGATTTGTA
2206755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2206788 CTTACCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2208359 original size:12 final size:12
Alignment explanation
Indices: 2208342--2208366 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2208332 AATAATCATC
2208342 ATAATGACAAGT
1 ATAATGACAAGT
2208354 ATAATGACAAGT
1 ATAATGACAAGT
2208366 A
1 A
2208367 AAAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:2209742 original size:22 final size:23
Alignment explanation
Indices: 2209694--2209743 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
2209684 AATATTTTTT
* *
2209694 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAACAAATAAACATA
2209717 ATTTTTTAAAA-AAA-AAACATA
1 ATTTTTTAAAACAAATAAACATA
*
2209738 AATTTT
1 ATTTTT
2209744 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 11 0.46
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (23 bp):
ATTTTTTAAAACAAATAAACATA
Found at i:2210286 original size:10 final size:10
Alignment explanation
Indices: 2210273--2210302 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2210263 CCATTTCATA
2210273 TTTTTTCTTT
1 TTTTTTCTTT
2210283 TTTTTTCTTT
1 TTTTTTCTTT
*
2210293 TTCTTTCTTT
1 TTTTTTCTTT
2210303 CTTCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2210299 original size:20 final size:22
Alignment explanation
Indices: 2210276--2210329 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
2210266 TTTCATATTT
*
2210276 TTTCTTTTTTT-TTCTT-TTTC
1 TTTCTTTTTTTCATCTTCTTTC
2210296 TTTCTTTCTTCTTCATCTTCTTTC
1 TTTCTTT-TT-TTCATCTTCTTTC
2210320 TTTCTTTTTT
1 TTTCTTTTTT
2210330 ACCTAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 3 0.10
23 6 0.21
24 11 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTTCTTTC
Found at i:2211613 original size:32 final size:32
Alignment explanation
Indices: 2211550--2211959 Score: 669
Period size: 32 Copynumber: 12.8 Consensus size: 32
2211540 AAAATGGTGA
* * * **
2211550 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2211582 TTTTAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2211614 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
2211646 TTTGGAATGGGTTGCCACCAACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2211678 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2211710 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2211742 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2211774 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2211806 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2211838 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2211870 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2211902 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2211934 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
2211960 GATTTAAAAG
Statistics
Matches: 355, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
31 13 0.04
32 342 0.96
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:2211976 original size:27 final size:27
Alignment explanation
Indices: 2211942--2213089 Score: 1873
Period size: 27 Copynumber: 42.0 Consensus size: 27
2211932 GCTTTGAAAT
* *
2211942 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2211969 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2211996 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212023 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2212050 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212077 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
2212105 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
2212132 GAGATACCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
2212160 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212187 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212214 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212241 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
**
2212269 GGGTGCCACAAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2212296 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
2212324 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212351 GGGTGCCACGGAGTTGTGGTCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
2212379 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212406 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212433 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212460 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212487 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
2212515 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2212542 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
2212570 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212597 GGGTGCCACGGAGTTGTGGTCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
2212625 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212652 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212679 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2212706 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212733 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
2212761 GGGTGCCACCGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2212788 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
2212816 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2212843 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212870 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
2212898 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212925 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2212952 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2212979 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2213006 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
2213034 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
2213061 GGATGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
2213089 G
1 G
2213090 AAAATGCCAT
Statistics
Matches: 1054, Mismatches: 54, Indels: 25
0.93 0.05 0.02
Matches are distributed among these distances:
27 749 0.71
28 305 0.29
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:2212213 original size:164 final size:163
Alignment explanation
Indices: 2211927--2213089 Score: 1900
Period size: 164 Copynumber: 7.1 Consensus size: 163
2211917 CACCGACTTG
* * *
2211927 TGTGGGCTTTGAAATGGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTT
1 TGTGGACTTT-AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
2211992 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
65 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * *
2212057 ACAGAGTTGTGGACTAAAAAGGGTGCCACAGAGT
130 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
2212091 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATACCACGGAGTTATGGACTT
1 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTT
* *
2212156 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCC
65 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
2212221 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
130 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
2212255 TGTGGACTTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTT
1 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTT
*
2212320 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGC
65 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGC
2212385 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
129 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * *
2212420 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAA
1 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
* *
2212484 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGC
66 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGC
*
2212549 CACGGAGTTATGGACTTAAAAGGGTGCCACGGAGT
129 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * *
2212584 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
*
2212648 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCC
65 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* *
2212713 ACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGT
130 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
2212747 TGTGGACTTTAAAAGGGTGCCACCGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTT
1 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTT
*
2212812 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGC
65 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGC
2212877 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
129 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
2212912 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
1 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
* *
2212976 AAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCC
66 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCC
* * *
2213041 ACAGAGTTGTGGACTTAAAAGGATGCCACAGAGT
130 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
2213075 TGTGGACTTTAAAAG
1 TGTGGACTTTAAAAG
2213090 AAAATGCCAT
Statistics
Matches: 942, Mismatches: 47, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
163 242 0.26
164 550 0.58
165 150 0.16
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (163 bp):
TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTA
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:2212401 original size:246 final size:245
Alignment explanation
Indices: 2211942--2213089 Score: 1935
Period size: 246 Copynumber: 4.7 Consensus size: 245
2211932 GCTTTGAAAT
* * *
2211942 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
2212007 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACAGAGTTGTGGA
66 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
* * * *
2212070 CTAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAG
131 CTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG-G
* * * *
2212135 ATACCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAA
194 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
2212187 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
2212252 AGTTGTGGACTTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
66 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
2212317 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGG
131 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTC-TTAAAAGGG
2212382 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
195 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
2212433 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
2212498 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
66 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
2212563 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGG
131 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTC-TTAAAAGGG
2212628 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
195 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
2212679 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
2212744 AGTTGTGGACTTTAAAAGGGTGCCACCGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
66 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
2212809 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGA
131 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGG-
2212874 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
195 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
2212925 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * * *
2212990 AGTTGTGGAC-TAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG-GGTGCCACAGAGTTGTGG
66 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGAGATGCCACGGAGTTATGG
* *
2213053 ACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
130 ACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
2213090 AAAATGCCAT
Statistics
Matches: 863, Mismatches: 34, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
245 147 0.17
246 667 0.77
247 49 0.06
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (245 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGT
GCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:2218991 original size:12 final size:12
Alignment explanation
Indices: 2218974--2218998 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2218964 AATAATCATC
2218974 ATAATGACAAGT
1 ATAATGACAAGT
2218986 ATAATGACAAGT
1 ATAATGACAAGT
2218998 A
1 A
2218999 AAAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:2220376 original size:22 final size:23
Alignment explanation
Indices: 2220328--2220377 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
2220318 AATATTTTTT
* *
2220328 ATTTTTTAAAACAAATAAAGATT
1 ATTTTTTAAAACAAATAAACATA
2220351 ATTTTTTAAAA-AAA-AAACATA
1 ATTTTTTAAAACAAATAAACATA
*
2220372 AATTTT
1 ATTTTT
2220378 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 11 0.46
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTTTTAAAACAAATAAACATA
Found at i:2220522 original size:2 final size:2
Alignment explanation
Indices: 2220515--2220551 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2220505 GATTTTCAAA
* *
2220515 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2220552 AATAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2220933 original size:10 final size:10
Alignment explanation
Indices: 2220920--2220949 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2220910 CCATTTCATA
2220920 TTTTTTCTTT
1 TTTTTTCTTT
2220930 TTTTTTCTTT
1 TTTTTTCTTT
*
2220940 TTCTTTCTTT
1 TTTTTTCTTT
2220950 CTTCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2220946 original size:20 final size:22
Alignment explanation
Indices: 2220923--2220976 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
2220913 TTTCATATTT
*
2220923 TTTCTTTTTTT-TTCTT-TTTC
1 TTTCTTTTTTTCATCTTCTTTC
2220943 TTTCTTTCTTCTTCATCTTCTTTC
1 TTTCTTT-TT-TTCATCTTCTTTC
2220967 TTTCTTTTTT
1 TTTCTTTTTT
2220977 ACCTAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 3 0.10
23 6 0.21
24 11 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTTCTTTC
Found at i:2224639 original size:24 final size:24
Alignment explanation
Indices: 2224611--2224679 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
2224601 ATTAAAGTTA
* *
2224611 TTTTATTT-TAAGATATGATTTAAT
1 TTTTATTTATAAAAT-TAATTTAAT
2224635 TTTTATTTATAAAATTAATTTAAT
1 TTTTATTTATAAAATTAATTTAAT
* *
2224659 TTATT-TTTATTAAATTTATTT
1 TT-TTATTTATAAAATTAATTT
2224680 TTTATTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 32 0.82
25 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATTTATAAAATTAATTTAAT
Found at i:2224692 original size:15 final size:16
Alignment explanation
Indices: 2224652--2224692 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2224642 TATAAAATTA
2224652 ATTTAATT-TATTTTT
1 ATTTAATTATATTTTT
*
2224667 ATTAAATT-TATTTTTT
1 ATTTAATTATA-TTTTT
2224683 ATTTAATTAT
1 ATTTAATTAT
2224693 GTAGGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 12 0.55
17 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTAATTATATTTTT
Found at i:2225050 original size:23 final size:22
Alignment explanation
Indices: 2225001--2225050 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
2224991 GGTAGTTTAA
*
2225001 AATTTATTTTATTTTAAGGTTT
1 AATTTATTTTATTTTAAGGATT
*
2225023 GATTTATTTTTATTTATAA-GATT
1 AATTTA-TTTTATTT-TAAGGATT
2225046 AATTT
1 AATTT
2225051 GATTAGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
AATTTATTTTATTTTAAGGATT
Found at i:2225355 original size:11 final size:11
Alignment explanation
Indices: 2225321--2225359 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2225311 AGAAGGAATG
*
2225321 AAGGAAAAAAA
1 AAGGGAAAAAA
*
2225332 AAGAGAGAAAAA
1 AAGGGA-AAAAA
2225344 AAGGGAAAAAA
1 AAGGGAAAAAA
2225355 AAGGG
1 AAGGG
2225360 CTGCGTGCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAGGGAAAAAA
Found at i:2226284 original size:24 final size:24
Alignment explanation
Indices: 2226220--2226277 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
2226210 TTTAAAGTTA
* *
2226220 TTTTATTT-TAAGATATGATTTAAT
1 TTTTATTTATAAAAT-TAATTTAAT
2226244 TTTTATTTATAAAATTAATTTAAT
1 TTTTATTTATAAAATTAATTTAAT
2226268 TTATT-TTTAT
1 TT-TTATTTAT
2226278 TTAATTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATTTATAAAATTAATTTAAT
Found at i:2226766 original size:71 final size:70
Alignment explanation
Indices: 2226681--2226893 Score: 194
Period size: 74 Copynumber: 2.9 Consensus size: 70
2226671 TAGAGTTATT
2226681 ATTTATTTCTATTTGTAGAAGATTAAATTTATTTTTTATTTGATTATATAAGTTTAAATTTGT-A
1 ATTTATTT-TATTTGTAGAA-ATTAAATTTATTTTTTATTTGATTATATAAGTTTAAATTTGTAA
2226745 GGGTATA
64 GGGTATA
* * ** * *
2226752 ATTTATTTTGATTTGTAGAAATTTAATTGTGTTTTTTATCAGGTATGATATAAGTTTAAATTTTT
1 ATTTATTTT-ATTTGTAGAAATTAAATT-TATTTTTTAT-TTG-ATTATATAAGTTTAAATTTGT
** *
2226817 AATTGTGTA
62 AAGGGTATA
* * * ** *
2226826 ATTTAATTTTATTTATAAAAATTTAAGATTTATTTTTTAATTTGATTATAGAACATTAAATTTTT
1 ATTT-ATTTTATTTGTAGAAA-TTAA-ATTTATTTTTT-ATTTGATTATATAAGTTTAAATTTGT
2226891 AAG
62 AAG
2226894 AGTGGTATTT
Statistics
Matches: 113, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
70 8 0.07
71 27 0.24
72 1 0.01
73 19 0.17
74 37 0.33
75 16 0.14
76 5 0.04
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.54
Consensus pattern (70 bp):
ATTTATTTTATTTGTAGAAATTAAATTTATTTTTTATTTGATTATATAAGTTTAAATTTGTAAGG
GTATA
Found at i:2227901 original size:24 final size:24
Alignment explanation
Indices: 2227837--2227894 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
2227827 TTTAAAGTTA
* *
2227837 TTTTATTT-TAAGATATGATTTAAT
1 TTTTATTTATAAAAT-TAATTTAAT
2227861 TTTTATTTATAAAATTAATTTAAT
1 TTTTATTTATAAAATTAATTTAAT
2227885 TTATT-TTTAT
1 TT-TTATTTAT
2227895 TTAATTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATTTATAAAATTAATTTAAT
Found at i:2228289 original size:23 final size:22
Alignment explanation
Indices: 2228240--2228289 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
2228230 GGTAGTTTAA
*
2228240 AATTTATTTTATTTTAAGGTTT
1 AATTTATTTTATTTTAAGGATT
*
2228262 GATTTATTTTTATTTATAA-GATT
1 AATTTA-TTTTATTT-TAAGGATT
2228285 AATTT
1 AATTT
2228290 GATTAGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
AATTTATTTTATTTTAAGGATT
Found at i:2229471 original size:24 final size:24
Alignment explanation
Indices: 2229441--2229509 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
2229431 TTTAAAGTTA
*
2229441 TTTTATTT-TAAGATATGATTTAAT
1 TTTTATTTATAAAAT-TGATTTAAT
2229465 TTTTATTTATAAAATTGATTTAAT
1 TTTTATTTATAAAATTGATTTAAT
* *
2229489 TTATT-TTTATTAAATTTATTT
1 TT-TTATTTATAAAATTGATTT
2229510 TTATTTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 33 0.82
25 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTATTTATAAAATTGATTTAAT
Found at i:2229506 original size:15 final size:15
Alignment explanation
Indices: 2229486--2229519 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2229476 AAATTGATTT
2229486 AATTTATTTTTATTA
1 AATTTATTTTTATTA
*
2229501 AATTTATTTTTATTT
1 AATTTATTTTTATTA
2229516 AATT
1 AATT
2229520 ATGTAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
AATTTATTTTTATTA
Found at i:2229907 original size:23 final size:22
Alignment explanation
Indices: 2229858--2229907 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
2229848 GGTAGTTTAA
*
2229858 AATTTATTTTATTTTAAGGTTT
1 AATTTATTTTATTTTAAGGATT
*
2229880 GATTTATTTTTATTTATAA-GATT
1 AATTTA-TTTTATTT-TAAGGATT
2229903 AATTT
1 AATTT
2229908 GATTAGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
AATTTATTTTATTTTAAGGATT
Found at i:2235523 original size:18 final size:18
Alignment explanation
Indices: 2235479--2235524 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
2235469 GCATGTTAAA
* *
2235479 AAATCAATTTAAAATCTT
1 AAATCATTTTAAAATCCT
2235497 AAATCATTTTAAAATCCT
1 AAATCATTTTAAAATCCT
*
2235515 AAATGATTTT
1 AAATCATTTT
2235525 TTCAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATCATTTTAAAATCCT
Found at i:2236499 original size:201 final size:201
Alignment explanation
Indices: 2236154--2236964 Score: 1568
Period size: 201 Copynumber: 4.0 Consensus size: 201
2236144 CAAGGCATAA
2236154 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
1 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
*
2236219 TTATTTATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
66 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
*
2236284 GTCCAGATTCAGATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
131 GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
2236349 AAGGAG
196 AAGGAG
2236355 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
1 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
2236420 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
66 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
*
2236485 GTCCAGATTCAGATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
131 GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
2236550 AAGGAG
196 AAGGAG
2236556 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
1 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
2236621 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
66 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
*
2236686 GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGTCATCAAGATACTCCAACCCCATTTCTCT
131 GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
2236751 AAGGAG
196 AAGGAG
2236757 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
1 ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
*
2236822 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTACTTTTAAACTT
66 TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
*
2236887 GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGTCATCAAGATACTCCAACCCCATTTCTCT
131 GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
2236952 AAGGAG
196 AAGGAG
2236958 ATACTTT
1 ATACTTT
2236965 AACCCCGTTT
Statistics
Matches: 606, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 606 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.38
Consensus pattern (201 bp):
ATACTTTTACATCTTTACTATCCTCATTCACATCAATTTTCTTTATAAAAAAATATATTGAAATT
TTATTCATCGGGGATACTCCAATCCCATTCTTCTAAAGGGACACTCTAACCCTGCTTTTAAACTT
GTCCAGATTCAAATCTTATTTTTGCTTAAGTTATTGCCATCAAGATACTCCAACCCCATTTCTCT
AAGGAG
Found at i:2238340 original size:3 final size:3
Alignment explanation
Indices: 2238332--2238390 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
2238322 ATTTTAAGAA
2238332 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2238380 ATT ATT ATT AT
1 ATT ATT ATT AT
2238391 AATATAGCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2239010 original size:4 final size:4
Alignment explanation
Indices: 2239001--2239032 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2238991 TTAGTGGCTA
2239001 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
2239033 ATAAAAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:2241867 original size:31 final size:31
Alignment explanation
Indices: 2241829--2241903 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
2241819 ATTAATTGTT
* *
2241829 TTTGGTTATTTACG-GTTTAAGTTATTTTGAA
1 TTTGGTTATTT-CGAGTATAAATTATTTTGAA
*
2241860 TTTGGTTATTTTGAGTATAAATTATTTTGAA
1 TTTGGTTATTTCGAGTATAAATTATTTTGAA
2241891 TTTGGATTATTTC
1 TTTGG-TTATTTC
2241904 AAGTTTAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 1 0.03
31 31 0.82
32 6 0.16
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (31 bp):
TTTGGTTATTTCGAGTATAAATTATTTTGAA
Found at i:2241899 original size:16 final size:16
Alignment explanation
Indices: 2241850--2241902 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
2241840 ACGGTTTAAG
2241850 TTATTTTGAATTTGG-
1 TTATTTTGAATTTGGA
* * **
2241865 TTATTTTGAGTATAAA
1 TTATTTTGAATTTGGA
2241881 TTATTTTGAATTTGGA
1 TTATTTTGAATTTGGA
2241897 TTATTT
1 TTATTT
2241903 CAAGTTTAGG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.58
Consensus pattern (16 bp):
TTATTTTGAATTTGGA
Found at i:2244945 original size:37 final size:37
Alignment explanation
Indices: 2244904--2244974 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
2244894 TCGAGCTTAA
*
2244904 ATCAATTAAATTTAATATTCGAGTTAATCAAGTTTGG
1 ATCAATCAAATTTAATATTCGAGTTAATCAAGTTTGG
** * * *
2244941 ATCAATCAGGTTTAGTATTCGGGTTTATCAAGTT
1 ATCAATCAAATTTAATATTCGAGTTAATCAAGTT
2244975 CGATCATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (37 bp):
ATCAATCAAATTTAATATTCGAGTTAATCAAGTTTGG
Found at i:2245106 original size:16 final size:16
Alignment explanation
Indices: 2245017--2245110 Score: 66
Period size: 16 Copynumber: 5.8 Consensus size: 16
2245007 ATTATTTAAG
* *
2245017 TTATTTTGGGTTCGAA
1 TTATTTTAGATTCGAA
*
2245033 TCATTTTA-AGTTCGAA
1 TTATTTTAGA-TTCGAA
* *
2245049 GTTATTTTTAGTTTTG-A
1 -TTA-TTTTAGATTCGAA
* **
2245066 TTATTTTAAATTTAAA
1 TTATTTTAGATTCGAA
2245082 TTATTTTAGATTCGAA
1 TTATTTTAGATTCGAA
*
2245098 TCATTTTAGATTC
1 TTATTTTAGATTC
2245111 AGATTGATTA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
15 8 0.13
16 41 0.68
17 3 0.05
18 8 0.13
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (16 bp):
TTATTTTAGATTCGAA
Found at i:2245861 original size:47 final size:47
Alignment explanation
Indices: 2245801--2245894 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
2245791 TTTCGTTAAA
*
2245801 CTTTCACATTGCAATAAATTTATAATAAGACTCTAAAGAATTTTTTT
1 CTTTCACATTGCAATAAATTTATAACAAGACTCTAAAGAATTTTTTT
*
2245848 CTTTCACATTGCAATAAATTTATAACCAGACTCTAAAGAATTTTTTT
1 CTTTCACATTGCAATAAATTTATAACAAGACTCTAAAGAATTTTTTT
2245895 AGAGGGCAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.41
Consensus pattern (47 bp):
CTTTCACATTGCAATAAATTTATAACAAGACTCTAAAGAATTTTTTT
Done.