Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 311 of 333
Found at i:101815627 original size:12 final size:12
Alignment explanation
Indices: 101815612--101815636 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101815602 TTGCTAATTG
101815612 ATGCACTAAAAT
1 ATGCACTAAAAT
101815624 ATGCACTAAAAT
1 ATGCACTAAAAT
101815636 A
1 A
101815637 ATACTCTTAT
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:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGCACTAAAAT
Found at i:101819544 original size:44 final size:45
Alignment explanation
Indices: 101819491--101819593 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
101819481 TGTCTTTGAC
* * * *
101819491 ATGGACTTACATGAATTATTCCCGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCCATCTCCAAAGCCATATTATAAT
** * *
101819535 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCCATCTCCAAAGCCATA-TTATAAT
101819581 ATGGACTTACATG
1 ATGGACTTACATG
101819594 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCCATCTCCAAAGCCATATTATAAT
Found at i:101820739 original size:37 final size:37
Alignment explanation
Indices: 101820682--101820833 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
101820672 TATGATCACT
*
101820682 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
101820717 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
101820754 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
101820799 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
101820834 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:101820817 original size:46 final size:46
Alignment explanation
Indices: 101820750--101821018 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
101820740 TAAGTGTAGC
* **
101820750 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
101820796 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
101820842 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
101820894 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
101820940 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
101820992 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
101821019 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:101820869 original size:52 final size:52
Alignment explanation
Indices: 101820793--101821012 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
101820783 TAGCTAAAGC
* *
101820793 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
101820846 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
101820898 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
101820944 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
101820996 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
101821013 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:101820915 original size:98 final size:98
Alignment explanation
Indices: 101820750--101821018 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
101820740 TAAGTGTAGC
* * *
101820750 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
101820815 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
101820849 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
101820914 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
101820947 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
101821012 GATCAGA
66 GATCAGA
101821019 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:101825507 original size:47 final size:46
Alignment explanation
Indices: 101825433--101825529 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 46
101825423 TATCCATGTG
* * *
101825433 ACAAAAAATGACGTTGTAATGAGCCTAAATTTATTA-AGGAATTTTA
1 ACAAAAAATGACATTGTAATGAGCCTAAATTTAATAGA-GAATTTAA
*
101825479 ACAAAAATATGACATTGTAATG-GACCTAAGTTTAATAGAGAATTTAA
1 ACAAAAA-ATGACATTGTAATGAG-CCTAAATTTAATAGAGAATTTAA
101825526 ACAA
1 ACAA
101825530 TGTTAACAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
46 8 0.18
47 35 0.80
48 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (46 bp):
ACAAAAAATGACATTGTAATGAGCCTAAATTTAATAGAGAATTTAA
Found at i:101826343 original size:62 final size:62
Alignment explanation
Indices: 101826246--101826372 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
101826236 CCCAAATAGA
101826246 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTTCCTATCCCTATTTTTTCT
1 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTTCCTATCCCTATTTTTTCT
101826308 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTTCCTATCCCTATTTTTTCT
1 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTTCCTATCCCTATTTTTTCT
101826370 CAT
1 CAT
101826373 ATTTCTTTCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (62 bp):
CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTTCCTATCCCTATTTTTTCT
Found at i:101826379 original size:29 final size:29
Alignment explanation
Indices: 101826345--101826410 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
101826335 AATTAGAACT
101826345 TTTCTTTCCTATCCCTATTTTTTCTCATA
1 TTTCTTTCCTATCCCTATTTTTTCTCATA
101826374 TTTCTTTCCTATCCCTATTTTTTCTCATA
1 TTTCTTTCCTATCCCTATTTTTTCTCATA
101826403 TTTCTTTC
1 TTTCTTTC
101826411 TTTTCCTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTCTTTCCTATCCCTATTTTTTCTCATA
Found at i:101827668 original size:102 final size:101
Alignment explanation
Indices: 101827487--101827669 Score: 267
Period size: 102 Copynumber: 1.8 Consensus size: 101
101827477 TGCAACATTG
* * * *
101827487 GTGGTTCATCCACAAATTACTGGTAGCTTTTATCTGCAAATCTGTTGTGCATCCACAACCTACTG
1 GTGGTTCATCCACAAACTACTGGGAGCTATTATCTGCAAATATGTTGTGCATCCACAACCTACTG
**** *
101827552 GTGGTTTGTTTGCAAACCGTTTAACTAGAAATACTA
66 GCAACTTGTCTGCAAACCGTTTAACTAGAAATACTA
*
101827588 GTGGTTCATCCACAAACTACTGGGAGCCTATTATCTGTAAATATGTTGTGCATCCACAACCTACT
1 GTGGTTCATCCACAAACTACTGGGAG-CTATTATCTGCAAATATGTTGTGCATCCACAACCTACT
101827653 GGCAACTTGTCTGCAAA
65 GGCAACTTGTCTGCAAA
101827670 TACTAGTGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 24 0.34
102 47 0.66
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (101 bp):
GTGGTTCATCCACAAACTACTGGGAGCTATTATCTGCAAATATGTTGTGCATCCACAACCTACTG
GCAACTTGTCTGCAAACCGTTTAACTAGAAATACTA
Found at i:101836532 original size:22 final size:21
Alignment explanation
Indices: 101836494--101836540 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
101836484 TATTGAGTAT
*
101836494 AATTAAAATATATTAATTTATA
1 AATTAAAATATATTAATATA-A
*
101836516 AATTCAAATAT-TATAATATAA
1 AATTAAAATATAT-TAATATAA
101836537 AATT
1 AATT
101836541 TTAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAAATATATTAATATAA
Found at i:101839910 original size:85 final size:86
Alignment explanation
Indices: 101839802--101839977 Score: 212
Period size: 85 Copynumber: 2.1 Consensus size: 86
101839792 GTTTCATCTA
* * ** *
101839802 CAAATAGTGTGGTTCGATTATGAAACAAGTGACATTTTATTTAATCTGTAAAAATGTTGTGCACT
1 CAAATAGTGTGGTTCGATCATGAAACAAGTGACAATTTATTTAATCTACAAAAATGTTGTGCACC
* * *
101839867 CATAACAAGTGGCAATAACTG
66 CACAACAAGTGACAACAACTG
* * * *
101839888 CAAATA-TGTGGTTC-AGTCATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCAC
1 CAAATAGTGTGGTTCGA-TCATGAAACAAGTGACAATTTATTTAATCTACAAAAATGTTGTGCAC
101839951 CCACAACAAGTGACAACAACTG
65 CCACAACAAGTGACAACAACTG
*
101839973 TAAAT
1 CAAAT
101839978 CAATGGTGGT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 1 0.01
85 69 0.91
86 6 0.08
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (86 bp):
CAAATAGTGTGGTTCGATCATGAAACAAGTGACAATTTATTTAATCTACAAAAATGTTGTGCACC
CACAACAAGTGACAACAACTG
Found at i:101840723 original size:21 final size:21
Alignment explanation
Indices: 101840695--101840750 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
101840685 AACAACGGTG
*
101840695 GCGGTGAGATTAGTTACTGAA
1 GCGGTGAGATTAGATACTGAA
* * *
101840716 GTGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGAA
*
101840737 GCGATGAGATTAGA
1 GCGGTGAGATTAGA
101840751 AACAAATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGAA
Found at i:101846361 original size:18 final size:18
Alignment explanation
Indices: 101846334--101846427 Score: 98
Period size: 18 Copynumber: 5.2 Consensus size: 18
101846324 AATAATCTTT
101846334 AGTAACAATCAATTATTC
1 AGTAACAATCAATTATTC
** *
101846352 AGTAGTAATCATTTATTC
1 AGTAACAATCAATTATTC
* ** *
101846370 AGTAACAGTCGTTTATTT
1 AGTAACAATCAATTATTC
*
101846388 AGTAACAATAAATTATTC
1 AGTAACAATCAATTATTC
* *
101846406 AGTAATAATCAGTTATTC
1 AGTAACAATCAATTATTC
101846424 AGTA
1 AGTA
101846428 CCTTTATTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (18 bp):
AGTAACAATCAATTATTC
Found at i:101846799 original size:20 final size:20
Alignment explanation
Indices: 101846762--101846801 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
101846752 TTTCATTTTC
101846762 AATCAGTATATATTTCAATT
1 AATCAGTATATATTTCAATT
101846782 AATCA-TATATATTCTCAATT
1 AATCAGTATATATT-TCAATT
101846802 CAATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (20 bp):
AATCAGTATATATTTCAATT
Found at i:101846809 original size:16 final size:15
Alignment explanation
Indices: 101846769--101846818 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
101846759 TTCAATCAGT
101846769 ATATATTTCAATTAATCA
1 ATATATTTCAA-T--TCA
101846787 TATATATTCTCAATTCA
1 -ATATATT-TCAATTCA
101846804 ATATATTTCAATTCA
1 ATATATTTCAATTCA
101846819 CTTTAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATTTCAATTCA
Found at i:101846809 original size:20 final size:19
Alignment explanation
Indices: 101846762--101846816 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
101846752 TTTCATTTTC
101846762 AATCAGTATATATTTCAATT
1 AATCA-TATATATTTCAATT
101846782 AATCATATATATTCTCAA-T
1 AATCATATATATT-TCAATT
101846801 --TCA-ATATATTTCAATT
1 AATCATATATATTTCAATT
101846817 CACTTTAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
17 3 0.09
19 9 0.27
20 9 0.27
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (19 bp):
AATCATATATATTTCAATT
Found at i:101847996 original size:4 final size:4
Alignment explanation
Indices: 101847987--101848020 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
101847977 CACAATTGTC
101847987 TTTA TTTA TTTA TTTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
101848021 ATTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:101848005 original size:9 final size:8
Alignment explanation
Indices: 101847987--101848020 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
101847977 CACAATTGTC
101847987 TTTATTTA
1 TTTATTTA
101847995 TTTATTTTA
1 TTTA-TTTA
101848004 TTTATTTA
1 TTTATTTA
101848012 CTTTATTTA
1 -TTTATTTA
101848021 ATTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:101848005 original size:13 final size:13
Alignment explanation
Indices: 101847986--101848020 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
101847976 ACACAATTGT
101847986 CTTTATTTATTTA
1 CTTTATTTATTTA
*
101847999 TTTTATTTATTTA
1 CTTTATTTATTTA
101848012 CTTTATTTA
1 CTTTATTTA
101848021 ATTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:101849476 original size:12 final size:12
Alignment explanation
Indices: 101849461--101849489 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
101849451 GTGAATAAAG
101849461 AAGATAAATGGA
1 AAGATAAATGGA
101849473 AAGAT-AATGGA
1 AAGATAAATGGA
101849484 AAGATA
1 AAGATA
101849490 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:101853579 original size:12 final size:12
Alignment explanation
Indices: 101853564--101853592 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
101853554 GTAAATAAAG
101853564 AAGATAAATGGA
1 AAGATAAATGGA
101853576 AAGAT-AATGGA
1 AAGATAAATGGA
101853587 AAGATA
1 AAGATA
101853593 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:101856564 original size:34 final size:34
Alignment explanation
Indices: 101856526--101856710 Score: 253
Period size: 34 Copynumber: 5.4 Consensus size: 34
101856516 AGCATGTCTT
* * * * *
101856526 TTGCTACTTTAATGATTTGTTAGAAGCATATGAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
* * * *
101856560 TTGCTACCGTATTGATATGTTATAAGCATATTCA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
* * *
101856594 TTGTTACTGTATTGATCTATTATAAGCATATTAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
101856628 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
101856662 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
*
101856696 TTGCTACCGTATTGA
1 TTGCTACTGTATTGA
101856711 AATGTTCATG
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 135 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (34 bp):
TTGCTACTGTATTGATCTGTTACAAGCATATTAA
Found at i:101861964 original size:3 final size:3
Alignment explanation
Indices: 101861941--101862037 Score: 72
Period size: 3 Copynumber: 31.7 Consensus size: 3
101861931 GAAAGGAAAT
* * * * * *
101861941 ATA ATT ATA ATA GTG ATA ATA ATA AAA ATA ATA ACA ATA AT- ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
101861988 ATA ATA CATTA ATA ACA ACA ATA ATA AT- ATA CATTA ATA ATA ATA ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
101862036 AT
1 AT
101862038 TAATTAATTA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.04
3 63 0.85
4 4 0.05
5 4 0.05
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:101862005 original size:28 final size:26
Alignment explanation
Indices: 101861969--101862049 Score: 96
Period size: 25 Copynumber: 3.2 Consensus size: 26
101861959 ATAATAAAAA
101861969 TAATAACAATAATACAATAATAATACAT
1 TAATAACAATAATA-AATAAT-ATACAT
*
101861997 TAATAACAACAAT-AATAATATACAT
1 TAATAACAATAATAAATAATATACAT
* *
101862022 TAATAATAATAATAATTAAT-TA-AT
1 TAATAACAATAATAAATAATATACAT
101862046 TAAT
1 TAAT
101862050 CTTACTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.12
25 19 0.40
26 11 0.23
28 12 0.25
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (26 bp):
TAATAACAATAATAAATAATATACAT
Found at i:101862032 original size:31 final size:29
Alignment explanation
Indices: 101861956--101862033 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
101861946 TATAATAGTG
* *
101861956 ATAATAATAAAAATAATAACAATAATACA
1 ATAATAATAATAATAACAACAATAATACA
101861985 ATAATAATACATTAATAACAACAATAATA-A
1 ATAATAATA-A-TAATAACAACAATAATACA
101862015 TATACATTAATAATAATAA
1 -ATA-A-TAATAATAATAA
101862034 TAATTAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 9 0.21
30 2 0.05
31 24 0.57
32 2 0.05
33 5 0.12
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (29 bp):
ATAATAATAATAATAACAACAATAATACA
Found at i:101863349 original size:23 final size:23
Alignment explanation
Indices: 101863319--101863370 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
101863309 TTTTTTTTTG
101863319 TTTTTTGAACTATCTGTTTCTTT
1 TTTTTTGAACTATCTGTTTCTTT
101863342 TTTTTTGAACTATCTGTTTCTTT
1 TTTTTTGAACTATCTGTTTCTTT
101863365 TTTTTT
1 TTTTTT
101863371 ATTGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.69
Consensus pattern (23 bp):
TTTTTTGAACTATCTGTTTCTTT
Found at i:101873247 original size:28 final size:27
Alignment explanation
Indices: 101873216--101873309 Score: 68
Period size: 28 Copynumber: 3.2 Consensus size: 27
101873206 CACTGGGCTT
101873216 TAGCCCATATCAATATTAATCTGGGTCA
1 TAGCCCATATCAATATTAATCTGGG-CA
*
101873244 TAGCCCCTTACAGTATCAGAGTA-T-AT-TGGGCC
1 TAG--CC---CA-TATCA-A-TATTAATCTGGGCA
101873276 TAGCCCATATCAATATTAATCTGGGCCA
1 TAGCCCATATCAATATTAATCTGGG-CA
101873304 TAGCCC
1 TAGCCC
101873310 TATTACAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 24
0.67 0.03 0.31
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 7 0.13
27 6 0.12
28 10 0.19
30 4 0.08
32 4 0.08
33 6 0.12
34 7 0.13
35 2 0.04
36 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (27 bp):
TAGCCCATATCAATATTAATCTGGGCA
Found at i:101873329 original size:60 final size:59
Alignment explanation
Indices: 101873216--101873345 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 59
101873206 CACTGGGCTT
* * *
101873216 TAGCCCATATCAATATTAATCTGGGTCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATATTGGACC
101873276 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACA-AGTC-GAGATATATTGGACC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTGGACC
*
101873336 TTGCCCATAT
1 TAGCCCATAT
101873346 TAACACAGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
59 4 0.06
60 54 0.86
61 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (59 bp):
TAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAGATCAGAGTATATTGGACC
Found at i:101876890 original size:18 final size:18
Alignment explanation
Indices: 101876865--101876911 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
101876855 TATTAAAAAA
101876865 TAATTAAAATAATATT-T
1 TAATTAAAATAATATTAT
101876882 TATATT-AAATAAATATTAT
1 TA-ATTAAAAT-AATATTAT
*
101876901 TAATGAAAATA
1 TAATTAAAATA
101876912 TTGCTAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATTAAAATAATATTAT
Found at i:101903820 original size:26 final size:27
Alignment explanation
Indices: 101903772--101903831 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
101903762 TTTATTTTTC
*
101903772 TTTTTAATTTTTATGAATTTTTTAT-A
1 TTTTTAATTTTTATGAATGTTTTATAA
101903798 TTATTTAATTTTT-TGAATGTTTTATAA
1 TT-TTTAATTTTTATGAATGTTTTATAA
101903825 TTTTTAA
1 TTTTTAA
101903832 ATGGGTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTTATGAATGTTTTATAA
Found at i:101903830 original size:9 final size:8
Alignment explanation
Indices: 101903772--101903829 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 8
101903762 TTTATTTTTC
101903772 TTTTTAAT
1 TTTTTAAT
101903780 TTTTATGAAT
1 TTTT-T-AAT
101903790 TTTTTATAT
1 TTTTTA-AT
*
101903799 TATTTAAT
1 TTTTTAAT
101903807 TTTTTGAAT
1 TTTTT-AAT
101903816 GTTTTATAAT
1 -TTTT-TAAT
101903826 TTTT
1 TTTT
101903830 AAATGGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 11 0.26
9 16 0.38
10 14 0.33
11 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (8 bp):
TTTTTAAT
Found at i:101908391 original size:21 final size:20
Alignment explanation
Indices: 101908361--101908399 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
101908351 AAATACTAAA
101908361 AAATTTATTA-AGAAAATAAT
1 AAATTTATTATA-AAAATAAT
101908381 AAATATTATTATAAAAATA
1 AAAT-TTATTATAAAAATA
101908400 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 12 0.71
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AAATTTATTATAAAAATAAT
Found at i:101915574 original size:22 final size:21
Alignment explanation
Indices: 101915540--101915580 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
101915530 TATTAAGTTT
* *
101915540 TTAATTGAGTTTATGTTATAAG
1 TTAAGTGACTTTAT-TTATAAG
101915562 TTAAGTGACTTTATTTATA
1 TTAAGTGACTTTATTTATA
101915581 TTTTGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (21 bp):
TTAAGTGACTTTATTTATAAG
Found at i:101915725 original size:17 final size:17
Alignment explanation
Indices: 101915675--101915725 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
101915665 TTGAGATTTG
*
101915675 AGATTTTATAATTTTCTA
1 AGATTTTAT-ATTTTTTA
* *
101915693 AAATTTAATATATTTTT-
1 AGATTTTATAT-TTTTTA
101915710 AGATTTTATATTTTTT
1 AGATTTTATATTTTTT
101915726 GTAATTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
AGATTTTATATTTTTTA
Found at i:101920533 original size:19 final size:17
Alignment explanation
Indices: 101920505--101920547 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
101920495 CAGTCAATTA
101920505 CTCA-TTTGTTTGTATTGT
1 CTCATTTTGTTTG-ATT-T
101920523 CTCATTTTGTTTGATTT
1 CTCATTTTGTTTGATTT
*
101920540 CTTATTTT
1 CTCATTTT
101920548 CAAGCATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (17 bp):
CTCATTTTGTTTGATTT
Found at i:101926151 original size:3 final size:3
Alignment explanation
Indices: 101926143--101926175 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
101926133 ATTGTTTGAT
101926143 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
101926176 CTTTCTCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:101927656 original size:72 final size:72
Alignment explanation
Indices: 101927547--101927731 Score: 268
Period size: 72 Copynumber: 2.6 Consensus size: 72
101927537 AACAAATTTT
* *
101927547 ATATCC-AAAATCAAACATAAACCACTATTGATAAAACTAGATTACA-AATAAA-AATGTATAAC
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACAA-AAATAA-GTAGAAC
101927609 ATAAATTCA
64 ATAAATTCA
*
101927618 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACAT
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACAT
**
101927683 AAATTTG
66 AAATTCA
*
101927690 ATATCCAAAAATCAAATATAAACAACTATTGATAAAAACTAG
1 ATATCCAAAAATCAAACATAAACAACTATTGAT-AAAACTAG
101927732 TTTAGCATTG
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
71 6 0.06
72 85 0.83
73 12 0.12
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (72 bp):
ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACAT
AAATTCA
Found at i:101931575 original size:28 final size:28
Alignment explanation
Indices: 101931536--101931594 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
101931526 ATTATTTTAA
101931536 AAAATCTACAATAATATCATCTCATACT
1 AAAATCTACAATAATATCATCTCATACT
101931564 AAAATCTACAATAATATCATCTCATACT
1 AAAATCTACAATAATATCATCTCATACT
101931592 AAA
1 AAA
101931595 TATATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATCTACAATAATATCATCTCATACT
Found at i:101934728 original size:20 final size:21
Alignment explanation
Indices: 101934686--101934730 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
101934676 GTTAAAATTC
*
101934686 TTAAAAGATTTAAAAGATTCT
1 TTAAAAGATTTAAAAGATCCT
**
101934707 TTAAAAGA-TTACGAGATCCT
1 TTAAAAGATTTAAAAGATCCT
101934727 TTAA
1 TTAA
101934731 TATTACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (21 bp):
TTAAAAGATTTAAAAGATCCT
Found at i:101937642 original size:27 final size:27
Alignment explanation
Indices: 101937601--101937653 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
101937591 GACAACGCCC
*
101937601 AGCAGCAACAGCAGCAGCAGCCACAAG
1 AGCAGCAACAACAGCAGCAGCCACAAG
101937628 AGCAGCAACAACAGCAGCAGCCACAA
1 AGCAGCAACAACAGCAGCAGCCACAA
101937654 CCGCAGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00
Consensus pattern (27 bp):
AGCAGCAACAACAGCAGCAGCCACAAG
Found at i:101937653 original size:15 final size:15
Alignment explanation
Indices: 101937600--101937660 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
101937590 AGACAACGCC
*
101937600 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
*
101937615 CAGCAGCCAC-A-AG
1 CAGCAGCAACAACAG
101937628 -AGCAGCAACAACAG
1 CAGCAGCAACAACAG
* *
101937642 CAGCAGCCACAACCG
1 CAGCAGCAACAACAG
101937657 CAGC
1 CAGC
101937661 TGCCGCGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 8 0.21
13 3 0.08
14 2 0.05
15 25 0.66
ACGTcount: A:0.39, C:0.38, G:0.23, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:101937659 original size:27 final size:27
Alignment explanation
Indices: 101937600--101937660 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
101937590 AGACAACGCC
*
101937600 CAGCAGCAACAGCAGCAGCAGCCACAA
1 CAGCAGCAACAACAGCAGCAGCCACAA
*
101937627 GAGCAGCAACAACAGCAGCAGCCACAA
1 CAGCAGCAACAACAGCAGCAGCCACAA
*
101937654 CCGCAGC
1 CAGCAGC
101937661 TGCCGCGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.38, G:0.23, T:0.00
Consensus pattern (27 bp):
CAGCAGCAACAACAGCAGCAGCCACAA
Found at i:101937723 original size:18 final size:18
Alignment explanation
Indices: 101937689--101937727 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101937679 AACTGGTCAA
*
101937689 GGTTAAGAAAGTAGTGGT
1 GGTTAAGAAAGAAGTGGT
101937707 GGTTAAG-AAGAAGGTGGT
1 GGTTAAGAAAGAA-GTGGT
101937725 GGT
1 GGT
101937728 GGGAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.26
Consensus pattern (18 bp):
GGTTAAGAAAGAAGTGGT
Found at i:101952132 original size:178 final size:179
Alignment explanation
Indices: 101951832--101952187 Score: 660
Period size: 178 Copynumber: 2.0 Consensus size: 179
101951822 TCCTTTTTTC
* *
101951832 TTTTTCAATCTTTTAACTTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCTTAACGT
1 TTTTTCAATCTTTTAACGTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCGTAACGT
101951897 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
66 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
* *
101951962 ATAGCTATGTCCCCTGATTTACCACTTTGTGCATCAGTGACAGTGACTT
131 ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACTT
*
101952011 TTTTTCAATCTTTTAACGTTGTTTATTTGCT-CATTTTTACTGTTGGGTGCATCCTGCGTAACGT
1 TTTTTCAATCTTTTAACGTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCGTAACGT
101952075 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
66 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
101952140 ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACT
131 ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACT
101952188 GGATGAAAAG
Statistics
Matches: 172, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
178 142 0.83
179 30 0.17
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (179 bp):
TTTTTCAATCTTTTAACGTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCGTAACGT
GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACTT
Found at i:101956216 original size:15 final size:15
Alignment explanation
Indices: 101956196--101956225 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101956186 GCGCAAGCCT
101956196 ATAAAATAATTAAAA
1 ATAAAATAATTAAAA
*
101956211 ATAAAATTATTAAAA
1 ATAAAATAATTAAAA
101956226 TCTATAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAATAATTAAAA
Found at i:101956616 original size:16 final size:16
Alignment explanation
Indices: 101956595--101956654 Score: 102
Period size: 16 Copynumber: 3.8 Consensus size: 16
101956585 TTTGGTTCGC
*
101956595 TGTAATAGAATAGAGT
1 TGTAATGGAATAGAGT
101956611 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
101956627 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGT
101956643 TGTAATGGAATA
1 TGTAATGGAATA
101956655 AAACTGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.28, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:101956661 original size:16 final size:16
Alignment explanation
Indices: 101956593--101956664 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
101956583 CGTTTGGTTC
*
101956593 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
*
101956609 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
101956625 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
101956641 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
101956657 ACTGTAAT
1 GCTGTAAT
101956665 TAGTAATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:101966556 original size:12 final size:12
Alignment explanation
Indices: 101966539--101966563 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101966529 TTTGTAAAGA
101966539 TAATGCATAAAT
1 TAATGCATAAAT
101966551 TAATGCATAAAT
1 TAATGCATAAAT
101966563 T
1 T
101966564 TGGTACCTGA
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATGCATAAAT
Found at i:101971165 original size:27 final size:28
Alignment explanation
Indices: 101971133--101971189 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
101971123 ATCTAACAAG
*
101971133 TTTAATTAATTAGTT-TGAGTTATCAAA
1 TTTAATTAATTAATTATGAGTTATCAAA
*
101971160 TTTAATTAATTAATTATGAGTTATGAAA
1 TTTAATTAATTAATTATGAGTTATCAAA
101971188 TT
1 TT
101971190 CAAGTAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTAATTAATTAATTATGAGTTATCAAA
Found at i:101971910 original size:19 final size:20
Alignment explanation
Indices: 101971881--101971923 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
101971871 CATTATCATG
101971881 TTATATTTTTCTATTATT-TT
1 TTATATTTTTCTATT-TTATT
101971901 TTAT-TTTTTCTATTTTATT
1 TTATATTTTTCTATTTTATT
101971920 TTAT
1 TTAT
101971924 GTCATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 16 0.73
20 4 0.18
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATATTTTTCTATTTTATT
Found at i:101979970 original size:39 final size:39
Alignment explanation
Indices: 101979926--101980065 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
101979916 GCTCTGATGA
*
101979926 GCTTCAATTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
* * * *
101979965 ACTTCAGTTAGCCTTCGGGCTTTCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
*
101980004 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
* * *
101980043 GCTTTAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
101980066 AGATCACGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
Found at i:101986259 original size:39 final size:39
Alignment explanation
Indices: 101986213--101986306 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
101986203 ACTCTGATGA
** *
101986213 GCTTCAGTTAGCCTTCAGGATTCTGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCAGGATTCCATTTAACACTTATGT
* *
101986252 GCTTCAGTTAGCCTAT-AGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCT-TCAGGATTCCATTTAACACTTATGT
* *
101986291 GCTTCAGCTAGACTTC
1 GCTTCAGTTAGCCTTC
101986307 GGGCTTCAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 44 0.96
40 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGATTCCATTTAACACTTATGT
Found at i:101986295 original size:21 final size:21
Alignment explanation
Indices: 101986238--101986295 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 21
101986228 CAGGATTCTG
* *
101986238 TTTAACACTTGTGTGCTT-CA
1 TTTAGCACTTATGTGCTTCCA
*
101986258 GTTAGC-C-TATAG-GCTTCCA
1 TTTAGCACTTAT-GTGCTTCCA
101986277 TTTAGCACTTATGTGCTTC
1 TTTAGCACTTATGTGCTTC
101986296 AGCTAGACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
18 6 0.21
19 9 0.31
20 6 0.21
21 8 0.28
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TTTAGCACTTATGTGCTTCCA
Found at i:101987018 original size:12 final size:12
Alignment explanation
Indices: 101986994--101987027 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
101986984 TGAGTTTTTT
*
101986994 TAAAATAAT-AA
1 TAAAAAAATAAA
101987005 TAAAAAAATAAA
1 TAAAAAAATAAA
101987017 TAAAAAAATAA
1 TAAAAAAATAA
101987028 CTATATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:101994020 original size:4 final size:4
Alignment explanation
Indices: 101994013--101994059 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
101994003 TCCTTCGTAC
101994013 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
101994060 CATGTGTGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:102000929 original size:20 final size:20
Alignment explanation
Indices: 102000887--102000929 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
102000877 CGAAAAAAAA
* *
102000887 AACATCATATAAAATTACAC
1 AACATAATATAAAATAACAC
102000907 AACATAATA-AAAATAACATC
1 AACATAATATAAAATAACA-C
102000927 AAC
1 AAC
102000930 GAACCCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (20 bp):
AACATAATATAAAATAACAC
Found at i:102002874 original size:25 final size:25
Alignment explanation
Indices: 102002846--102002931 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
102002836 ATATTGATAA
* *
102002846 ATATTAATGAAAAGAAACGCAAAGC
1 ATATAAATTAAAAGAAACGCAAAGC
**
102002871 ATATAAATTAAAA-ATATTG-ATAA--
1 ATATAAATTAAAAGA-AACGCA-AAGC
*
102002894 ATATTAATTAAAAGAAACGCAAAGC
1 ATATAAATTAAAAGAAACGCAAAGC
102002919 ATATAAATTAAAA
1 ATATAAATTAAAA
102002932 AGCCATTATC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
23 16 0.34
24 4 0.09
25 27 0.57
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.24
Consensus pattern (25 bp):
ATATAAATTAAAAGAAACGCAAAGC
Found at i:102002900 original size:48 final size:48
Alignment explanation
Indices: 102002824--102002932 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
102002814 TTGGGTGTTT
*
102002824 TATAGATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
1 TATAAATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
*
102002872 TATAAATTAAAAATATTGATAAATATTAATTAAAAGAAACGCAAAGCA
1 TATAAATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
102002920 TATAAATTAAAAA
1 TATAAATTAAAAA
102002933 GCCATTATCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.27
Consensus pattern (48 bp):
TATAAATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
Found at i:102002902 original size:23 final size:23
Alignment explanation
Indices: 102002829--102002906 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
102002819 TGTTTTATAG
102002829 ATTAAAAATATTGATAAATATTA
1 ATTAAAAATATTGATAAATATTA
* ** *
102002852 ATGAAAAGA-AACGCA-AAGCATATAA
1 ATTAAAA-ATATTG-ATAA--ATATTA
102002877 ATTAAAAATATTGATAAATATTA
1 ATTAAAAATATTGATAAATATTA
102002900 ATTAAAA
1 ATTAAAA
102002907 GAAACGCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
23 22 0.54
24 4 0.10
25 15 0.37
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (23 bp):
ATTAAAAATATTGATAAATATTA
Found at i:102004079 original size:45 final size:45
Alignment explanation
Indices: 102004015--102004244 Score: 246
Period size: 45 Copynumber: 5.1 Consensus size: 45
102004005 AACAATTAGG
* * *
102004015 ATATACATATAGGAGGTACTATGTATCAGTGTTGGCTATCATGTC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
* * * *
102004060 ATATACATATAGTAGGTACTACGTATC-GATGTCGGCTATCATGCC
1 ATATACATACAGCAGGTACTATGTATCAG-TGTTGGCTATCATGCC
* * * * * * *
102004105 AAATACATACAGCAAGTACTATGTATCGGTATCGACTTTCATGCC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
* * *
102004150 ATATAAATACAGCAGGTACTATATATCAGTGTTGGCTATCATACC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
* * * * *
102004195 ATATACATACAACAGGTATTATGTATCGGTGTTGGCTTTTATGCC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
102004240 ATATA
1 ATATA
102004245 AGCATAACAA
Statistics
Matches: 153, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 151 0.99
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (45 bp):
ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
Found at i:102004263 original size:45 final size:44
Alignment explanation
Indices: 102004030--102004274 Score: 167
Period size: 45 Copynumber: 5.5 Consensus size: 44
102004020 CATATAGGAG
* * * * *
102004030 GTACTATGTATCAGTGTTGGCTATCATGTCATAT-ACATATAGTAG
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATA-A-CAA
* * * * *
102004075 GTACTACGTATCGATGTCGGCTATCATGCCAAAT-ACATACAGCAA
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATA-A-CAA
* * * *
102004120 GTACTATGTATCGGTATCGACTTTCATGCCATATAA-ATACAGCAG
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATA-A-CAA
* * * * *
102004165 GTACTATATATCAGTGTTGGCTATCATACCATAT-ACATACAACAG
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACAT--AACAA
* *
102004210 GTATTATGTATCGGTGTTGGCTTTTATGCCATATAAGCATAACAA
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAA-CATAACAA
*
102004255 GTAATATGTA-CGGGTGTTGG
1 GTACTATGTATC-GGTGTTGG
102004275 TTATTTTTCC
Statistics
Matches: 162, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
44 2 0.01
45 153 0.94
46 3 0.02
47 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (44 bp):
GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATAACAA
Found at i:102004274 original size:90 final size:90
Alignment explanation
Indices: 102004093--102004261 Score: 207
Period size: 90 Copynumber: 1.9 Consensus size: 90
102004083 TATCGATGTC
* *
102004093 GGCTATCATGCCAAATACATACAGCAAGTACTATGTATCGGTATCGACTTTCATGCCATATAAAT
1 GGCTATCATACCAAATACATACAACAAGTACTATGTATCGGTATCGACTTTCATGCCATATAAAT
* *
102004158 ACAGCAGGTACTATATATCAGTGTT
66 ACAGCAAGTAATATATATCAGTGTT
* * * * * * *
102004183 GGCTATCATACCATATACATACAACAGGTATTATGTATCGGTGTTGGCTTTTATGCCATATAAGC
1 GGCTATCATACCAAATACATACAACAAGTACTATGTATCGGTATCGACTTTCATGCCATATAA--
102004248 ATA-A-CAAGTAATAT
64 ATACAGCAAGTAATAT
102004262 GTACGGGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
90 62 0.94
91 1 0.02
92 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (90 bp):
GGCTATCATACCAAATACATACAACAAGTACTATGTATCGGTATCGACTTTCATGCCATATAAAT
ACAGCAAGTAATATATATCAGTGTT
Found at i:102006361 original size:32 final size:32
Alignment explanation
Indices: 102006325--102006393 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
102006315 CAACAAATTC
*
102006325 AATTAATAGCTCTAATCAACCATCCAAGAAAT
1 AATTAATAGCTCTAATCAACCATCCAAAAAAT
* *
102006357 AATTAATGGCTCTAATCAACCATCTAAAAAAT
1 AATTAATAGCTCTAATCAACCATCCAAAAAAT
102006389 AATTA
1 AATTA
102006394 TTGACAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.28
Consensus pattern (32 bp):
AATTAATAGCTCTAATCAACCATCCAAAAAAT
Found at i:102007630 original size:16 final size:18
Alignment explanation
Indices: 102007611--102007655 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
102007601 TCTTAAAATT
*
102007611 TAAAATAA-ATAAA-TAA
1 TAAAATAATAAAAACTAA
102007627 TAAAATAATAAAAACTAA
1 TAAAATAATAAAAACTAA
102007645 TAAATATAATA
1 TAAA-ATAATA
102007656 TTGGACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 4 0.16
18 7 0.28
19 6 0.24
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAATAATAAAAACTAA
Found at i:102007638 original size:19 final size:19
Alignment explanation
Indices: 102007614--102007655 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
102007604 TAAAATTTAA
102007614 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
102007633 AATAAAAACTAATAAATAT
1 AATAAAAAATAATAAATAT
102007652 AATA
1 AATA
102007656 TTGGACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:102009771 original size:18 final size:19
Alignment explanation
Indices: 102009748--102009789 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
102009738 TTAGAATTTC
*
102009748 TTTTATCGT-ACTAATATT
1 TTTTATAGTAACTAATATT
*
102009766 TTTTATAGTAATTAATATT
1 TTTTATAGTAACTAATATT
102009785 TTTTA
1 TTTTA
102009790 AAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTATAGTAACTAATATT
Found at i:102016094 original size:6 final size:6
Alignment explanation
Indices: 102016085--102016125 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
102016075 ATTATAATTA
*
102016085 TTTATT TTTATT TTTATTT TTTACT TTTATT TTCTATT TTT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TT-TATT TTT
102016126 GGTTTTGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:102016107 original size:13 final size:13
Alignment explanation
Indices: 102016085--102016125 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
102016075 ATTATAATTA
102016085 TTTA-TTTTTATT
1 TTTATTTTTTATT
*
102016097 TTTATTTTTTACT
1 TTTATTTTTTATT
*
102016110 TTTATTTTCTATT
1 TTTATTTTTTATT
102016123 TTT
1 TTT
102016126 GGTTTTGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:102016112 original size:19 final size:20
Alignment explanation
Indices: 102016085--102016125 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
102016075 ATTATAATTA
*
102016085 TTTATTTTTATTTT-TATTT
1 TTTACTTTTATTTTCTATTT
102016104 TTTACTTTTATTTTCTATTT
1 TTTACTTTTATTTTCTATTT
102016124 TT
1 TT
102016126 GGTTTTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTACTTTTATTTTCTATTT
Found at i:102033267 original size:38 final size:38
Alignment explanation
Indices: 102033225--102033325 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
102033215 TTAAAGACCA
* *
102033225 GCAGGCTATATGCTGGAATTATATCCGGATTAAA-TCTC
1 GCAGGCTATGTGCTGGTATTATATCCGGATTAAATTC-C
*
102033263 GCAGGCT-TCGTGCTGGTATTATATCCGGGTTAAATTCC
1 GCAGGCTAT-GTGCTGGTATTATATCCGGATTAAATTCC
102033301 GCAGGCCTA-GTGCTGGTATTATATC
1 GCAGG-CTATGTGCTGGTATTATATC
102033326 TGAGTTTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 51 0.91
39 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
GCAGGCTATGTGCTGGTATTATATCCGGATTAAATTCC
Found at i:102040168 original size:111 final size:111
Alignment explanation
Indices: 102039964--102040186 Score: 320
Period size: 111 Copynumber: 2.0 Consensus size: 111
102039954 CTACCATCCT
*
102039964 ATCTCCCTAAAGCTGTAATGGAATAGGCTGAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
1 ATCTCCCTAAAGCTGTAATGGAATAGGCTAAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
* * *
102040029 GAGCAGATCGAAGACGACAAATCTTGTCTTTCTGAAGTTGCAGTGA
66 GACCAGATCGAAGACGACAAATCCTGTCTTCCTGAAGTTGCAGTGA
* * * * * *
102040075 ATCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTG
1 ATCTCCCTAAAGCTGTAATGGAATAGGCTAAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
* * * *
102040140 GACCAGATCGAAGATGGCGAATCCTGTCTTCCTGAAGTTGCGGTGA
66 GACCAGATCGAAGACGACAAATCCTGTCTTCCTGAAGTTGCAGTGA
102040186 A
1 A
102040187 ACAGATTTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (111 bp):
ATCTCCCTAAAGCTGTAATGGAATAGGCTAAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
GACCAGATCGAAGACGACAAATCCTGTCTTCCTGAAGTTGCAGTGA
Found at i:102040285 original size:45 final size:44
Alignment explanation
Indices: 102040115--102040320 Score: 143
Period size: 45 Copynumber: 4.7 Consensus size: 44
102040105 AAGATTGTAG
* * *
102040115 ATCTTGTTTCCCTGAAGTTGCAGTGGACCAGATCGAAGATGGC-GA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-T-GCACA
* * * * * ** * *
102040160 ATCCTGTCTTCCTGAAGTTGCGGTGAAACAGATTTAAG-CCACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTGCACA
* * * * *
102040203 ATCTTATCTCCCTAAAGTTGTAGTGGAGTA-AGCCGAAGTTTGCA-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAG--TGCACA
102040248 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGT-CACA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTGCACA
* * *
102040291 ATCTTCATCTCTCTGAAGTTGCAGTAGAGC
1 ATCTT-GTCTCCCTGAAGTTGCAGTGGAGC
102040321 GGGATAAAAA
Statistics
Matches: 120, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
42 4 0.03
43 31 0.26
44 21 0.17
45 61 0.51
46 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTGCACA
Found at i:102041339 original size:37 final size:37
Alignment explanation
Indices: 102041298--102041383 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
102041288 AGGGCTGAAT
* *
102041298 ACGGCATCGTTTTAAGCCTGATTTAGTGGCTCCAAAA
1 ACGGCGTCGTTTTAAGCCTGATTCAGTGGCTCCAAAA
*
102041335 ACGGCGTCGTTTTGAGCCTGATTCAGTGGCTCCAAAA
1 ACGGCGTCGTTTTAAGCCTGATTCAGTGGCTCCAAAA
102041372 ACGGCGTCGTTT
1 ACGGCGTCGTTT
102041384 AGGGGAGGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (37 bp):
ACGGCGTCGTTTTAAGCCTGATTCAGTGGCTCCAAAA
Found at i:102044206 original size:25 final size:25
Alignment explanation
Indices: 102044154--102044293 Score: 149
Period size: 25 Copynumber: 5.6 Consensus size: 25
102044144 ATATTCGGGA
* * *
102044154 AAGCTCATACGAGCACATA-AATGGG
1 AAGCTCATGCGAGC-CATATAACGAG
* *
102044179 AAGCTCTTTCGAGCCATATAACGAG
1 AAGCTCATGCGAGCCATATAACGAG
* * *
102044204 AAGCTCATGTGAGCCATGTACCGAG
1 AAGCTCATGCGAGCCATATAACGAG
*
102044229 AAGCTCATGCGAGCCATGTAACGAG
1 AAGCTCATGCGAGCCATATAACGAG
* *
102044254 AAGCTCATGCGAGCCGTA-ATCGAG
1 AAGCTCATGCGAGCCATATAACGAG
*
102044278 AAGCTCATACGAGCCA
1 AAGCTCATGCGAGCCA
102044294 GTATCGGGAA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
24 23 0.23
25 75 0.77
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (25 bp):
AAGCTCATGCGAGCCATATAACGAG
Found at i:102045070 original size:18 final size:17
Alignment explanation
Indices: 102045043--102045090 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
102045033 CGGGCCCATA
102045043 AAAAATAAAATAAAACC
1 AAAAATAAAATAAAACC
*
102045060 AAAAATAAAAATAAACCC
1 AAAAAT-AAAATAAAACC
*
102045078 AAACA-AAAATAAA
1 AAAAATAAAATAAA
102045091 TAATAGACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 14 0.50
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAATAAAATAAAACC
Found at i:102048472 original size:13 final size:13
Alignment explanation
Indices: 102048454--102048481 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102048444 TTTTATTTTA
102048454 TTATTTATCATCT
1 TTATTTATCATCT
102048467 TTATTTATCATCT
1 TTATTTATCATCT
102048480 TT
1 TT
102048482 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:102050799 original size:25 final size:20
Alignment explanation
Indices: 102050744--102050786 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
102050734 TAGGTATTTG
102050744 TTGCTGATTGTGGTGGAATT
1 TTGCTGATTGTGGTGGAATT
102050764 TTGCTGATTGTGGTGGAATT
1 TTGCTGATTGTGGTGGAATT
102050784 TTG
1 TTG
102050787 ATCTGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.35, T:0.47
Consensus pattern (20 bp):
TTGCTGATTGTGGTGGAATT
Found at i:102056102 original size:41 final size:41
Alignment explanation
Indices: 102055958--102056092 Score: 211
Period size: 41 Copynumber: 3.3 Consensus size: 41
102055948 ACCGACACTT
102055958 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
*
102055999 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTT
1 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
* *
102056040 AGCCTGCTAGACTTAAAGTCTG-AAT-TACTTCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATGTA--TCACCGGCATTA
102056081 AGCCTGCTAGAC
1 AGCCTGCTAGAC
102056093 GTAACGTCTG
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 83 0.94
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
Found at i:102059271 original size:120 final size:119
Alignment explanation
Indices: 102059025--102059399 Score: 515
Period size: 120 Copynumber: 3.2 Consensus size: 119
102059015 GGAGAAGCTG
** *
102059025 CAGCAGTTTGAGATTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCC-TT--T
1 CAGCAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGATACAGCCTTTGGT
*
102059087 GGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGA-GTCTGAAGCTA
66 GGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACCGGAGGT-TGAAG-TA
* * * * *
102059142 CAGCTGTTTGAGCCTGAAGAACCGCCGTCGCCATTTGTGGTTTAGGCTCAGCTACAGCCTTTGGT
1 CAGCAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGATACAGCCTTTGGT
* * *
102059207 GGAGGAGACGGTACTTTCTGGTCTCTTAGTTTTTCAACACCGGAGGTTGAAGTTA
66 GGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACCGGAGGTTGAAG-TA
* *
102059262 CAGCAGTTTGAGCCTGAGGAGCCGTCGTCGCCATTGGTGGTTTAGGCTCAGATACAGTCTTTGGT
1 CAGCAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGATACAGCCTTTGGT
* * * * *
102059327 GGAGGTGACGGTACTTTTTGGCCTCTTTGTTTTTCAATGCCGGAGGCTGAAGCA
66 GGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACCGGAGGTTGAAGTA
102059381 GCAGCAGTTTGAGCCTGAG
1 -CAGCAGTTTGAGCCTGAG
102059400 CCGTTGGCAT
Statistics
Matches: 226, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
117 52 0.23
118 2 0.01
119 1 0.00
120 169 0.75
121 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (119 bp):
CAGCAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGATACAGCCTTTGGT
GGAGGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACCGGAGGTTGAAGTA
Found at i:102059437 original size:6 final size:6
Alignment explanation
Indices: 102059426--102059454 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
102059416 AGAAGGGAGG
102059426 GGCTGC GGCTGC GGCTGC GGCTGC GGCTG
1 GGCTGC GGCTGC GGCTGC GGCTGC GGCTG
102059455 AGTAATGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.52, T:0.17
Consensus pattern (6 bp):
GGCTGC
Found at i:102068768 original size:50 final size:50
Alignment explanation
Indices: 102068693--102068793 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
102068683 AGCTGATGCT
102068693 TTGGCAAAAATGGCTCTGTCAAGTAATGAATCCTTCAACATATTTGAGAG
1 TTGGCAAAAATGGCTCTGTCAAGTAATGAATCCTTCAACATATTTGAGAG
102068743 TTGGCAAAAATGGCTCTGTCAAGTAATGAATCCTTCAACATATTTGAGAG
1 TTGGCAAAAATGGCTCTGTCAAGTAATGAATCCTTCAACATATTTGAGAG
102068793 T
1 T
102068794 CCCCCTTTAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (50 bp):
TTGGCAAAAATGGCTCTGTCAAGTAATGAATCCTTCAACATATTTGAGAG
Found at i:102074288 original size:12 final size:12
Alignment explanation
Indices: 102074271--102074296 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
102074261 AAGTTACCCA
102074271 TTGGCTAAAGTT
1 TTGGCTAAAGTT
102074283 TTGGCTAAAGTT
1 TTGGCTAAAGTT
102074295 TT
1 TT
102074297 CGATTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (12 bp):
TTGGCTAAAGTT
Found at i:102076725 original size:14 final size:13
Alignment explanation
Indices: 102076700--102076739 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
102076690 GCTGGTTAAA
102076700 TTTTTT-TTAATT
1 TTTTTTGTTAATT
102076712 TTTTTTGTTAAATT
1 TTTTTTGTT-AATT
*
102076726 TTTTTTGTTGATT
1 TTTTTTGTTAATT
102076739 T
1 T
102076740 GCGTGCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 6 0.24
13 6 0.24
14 13 0.52
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTGTTAATT
Found at i:102084188 original size:15 final size:15
Alignment explanation
Indices: 102084168--102084198 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
102084158 CTTTTTCATT
102084168 ATCCATAAACTTTAA
1 ATCCATAAACTTTAA
102084183 ATCCATAAACTTTAA
1 ATCCATAAACTTTAA
102084198 A
1 A
102084199 CTACTACAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (15 bp):
ATCCATAAACTTTAA
Found at i:102084661 original size:77 final size:77
Alignment explanation
Indices: 102084552--102084714 Score: 224
Period size: 77 Copynumber: 2.1 Consensus size: 77
102084542 AACCACTTAA
* * * *
102084552 TTAAGAATTTTCAAGTTAAAAATCAATTTAAGGAAAAATA-AGTTTTTTTAGTTGCATTTGTCTC
1 TTAAGATTTTTCAAGTTAAAAATCAATTTAAGGAAAAATATA-TTTTTATAATTACATTTGTCTC
* *
102084616 ACATATTTTCCTTT
65 AAATA-TTGCCTTT
*
102084630 TTAAGATTTTTCAAGTT-AAAATCAATTTAAGGAAAGATATATTTTTATAATTACATTTGTCTCA
1 TTAAGATTTTTCAAGTTAAAAATCAATTTAAGGAAAAATATATTTTTATAATTACATTTGTCTCA
102084694 AATATTGCCTTT
66 AATATTGCCTTT
102084706 TTAA-ATTTT
1 TTAAGATTTT
102084715 ACCAATGCAA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
75 5 0.06
76 11 0.14
77 44 0.57
78 17 0.22
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (77 bp):
TTAAGATTTTTCAAGTTAAAAATCAATTTAAGGAAAAATATATTTTTATAATTACATTTGTCTCA
AATATTGCCTTT
Found at i:102087667 original size:17 final size:17
Alignment explanation
Indices: 102087613--102087672 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
102087603 ATTTACGTGT
* *
102087613 TTAATTATTTTAATCAA
1 TTAATTATTTTTATGAA
102087630 TTAATTATATATTCTATTGAA
1 TTAATTAT-T-TT-TA-TGAA
102087651 TTAATTATTTTTATGAA
1 TTAATTATTTTTATGAA
*
102087668 ATAAT
1 TTAAT
102087673 CAAAATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 16 0.44
18 3 0.08
19 4 0.11
20 2 0.06
21 11 0.31
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAATTATTTTTATGAA
Found at i:102088002 original size:17 final size:17
Alignment explanation
Indices: 102087980--102088018 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
102087970 TTCTTTTTTT
102087980 TCTTTTATTT-TCCATTC
1 TCTTTTATTTCTCC-TTC
*
102087997 TCTTTTGTTTCTCCTTC
1 TCTTTTATTTCTCCTTC
102088014 TCTTT
1 TCTTT
102088019 GATTGATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.67
Consensus pattern (17 bp):
TCTTTTATTTCTCCTTC
Found at i:102102065 original size:44 final size:43
Alignment explanation
Indices: 102102002--102102090 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 43
102101992 ATTAATAATT
** * *
102102002 TTAATTTTAATTATTTTTAAATGTGTAATTATCACAATTTCTA
1 TTAATTTTAATTACATTTAAATGTATAATTATCACAACTTCTA
*
102102045 TTAATTTATAATTACATTTAAATGTATAATTATGACAACTTCTA
1 TTAATTT-TAATTACATTTAAATGTATAATTATCACAACTTCTA
102102089 TT
1 TT
102102091 GTATTTCAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 7 0.17
44 33 0.82
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (43 bp):
TTAATTTTAATTACATTTAAATGTATAATTATCACAACTTCTA
Found at i:102108745 original size:69 final size:69
Alignment explanation
Indices: 102108634--102108772 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
102108624 GATAGGAAAA
*
102108634 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
102108699 GCTG
66 GCTG
102108703 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
102108768 GCTG
66 GCTG
102108772 A
1 A
102108773 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:102121965 original size:33 final size:33
Alignment explanation
Indices: 102121868--102121966 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
102121858 TTTCTTCTTG
*
102121868 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
102121901 ACATTCCAGCTCCTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
*
102121934 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
102121967 CCACTCAGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.31, C:0.41, G:0.10, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
Found at i:102127792 original size:25 final size:25
Alignment explanation
Indices: 102127745--102127792 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
102127735 CCTGCGAAGC
102127745 CAAAAGATAAAAGAAAGAAAGAATT
1 CAAAAGATAAAAGAAAGAAAGAATT
102127770 CAAAAGA-AAATA-AAAGAACAGAA
1 CAAAAGATAAA-AGAAAGAA-AGAA
102127793 ATGAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.71, C:0.06, G:0.15, T:0.08
Consensus pattern (25 bp):
CAAAAGATAAAAGAAAGAAAGAATT
Found at i:102127894 original size:18 final size:17
Alignment explanation
Indices: 102127862--102127895 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
102127852 GGCGTGAAAA
*
102127862 CAAAATTGGCTTAAATG
1 CAAAATTGCCTTAAATG
102127879 CAAAATTGACCTTAAAT
1 CAAAATTG-CCTTAAAT
102127896 TGTACTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (17 bp):
CAAAATTGCCTTAAATG
Found at i:102129047 original size:17 final size:16
Alignment explanation
Indices: 102129014--102129066 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
102129004 ATAATTTTAT
*
102129014 TATTATTAATTTAAAA
1 TATTATAAATTTAAAA
102129030 TATTATAAATTATAAAA
1 TATTATAAATT-TAAAA
*
102129047 TA-TCTAAA-TTAAAA
1 TATTATAAATTTAAAA
*
102129061 TTTTAT
1 TATTAT
102129067 TATTTTAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 6 0.19
15 3 0.10
16 15 0.48
17 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATAAATTTAAAA
Found at i:102142095 original size:29 final size:30
Alignment explanation
Indices: 102142045--102142105 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
102142035 TCAGAACTAC
* *
102142045 ATATTAATTTTAGTTTAATGTGCAATGTTAT
1 ATATAAATTTTAATTT-ATGTGCAATGTTAT
* *
102142076 ATATAAATTTTAATTT-TGTGTAATTTTAT
1 ATATAAATTTTAATTTATGTGCAATGTTAT
102142105 A
1 A
102142106 CATTTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 12 0.46
31 14 0.54
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (30 bp):
ATATAAATTTTAATTTATGTGCAATGTTAT
Found at i:102142828 original size:16 final size:16
Alignment explanation
Indices: 102142807--102142858 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
102142797 TTTGGTTCGC
102142807 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
102142823 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
102142839 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
102142855 TGTA
1 TGTA
102142859 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:102143114 original size:16 final size:16
Alignment explanation
Indices: 102143074--102143128 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
102143064 TTAATCATAT
*
102143074 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
102143090 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
102143105 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
102143123 -TAAAAT
1 TTAAAAT
102143129 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:102143121 original size:18 final size:17
Alignment explanation
Indices: 102143094--102143128 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
102143084 TTTTTATTAA
*
102143094 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
102143112 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
102143129 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:102143241 original size:18 final size:17
Alignment explanation
Indices: 102143214--102143248 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
102143204 TTACTATTAA
*
102143214 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
102143232 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
102143249 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:102143294 original size:61 final size:60
Alignment explanation
Indices: 102143109--102143299 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
102143099 TTTTAATTAA
* *
102143109 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
102143170 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
102143228 A
60 T
*
102143229 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
102143290 AATATATAAT
1 AATATATAAT
102143300 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:102143377 original size:120 final size:120
Alignment explanation
Indices: 102143072--102143355 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
102143062 ATTTAATCAT
*
102143072 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
102143137 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
102143193 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
102143258 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
102143313 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
102143356 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:102147893 original size:24 final size:24
Alignment explanation
Indices: 102147866--102147912 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
102147856 TATTTTAAAT
102147866 ATATATATAATACATTAAAAATAA
1 ATATATATAATACATTAAAAATAA
102147890 ATATATATAATACATTAAAAATA
1 ATATATATAATACATTAAAAATA
102147913 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
ATATATATAATACATTAAAAATAA
Found at i:102148835 original size:12 final size:13
Alignment explanation
Indices: 102148820--102148848 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
102148810 ATTTACATTT
102148820 ATTAATTAAAA-A
1 ATTAATTAAAATA
102148832 ATTAATTAAAATA
1 ATTAATTAAAATA
102148845 ATTA
1 ATTA
102148849 TAATTGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAATTAAAATA
Found at i:102149260 original size:23 final size:24
Alignment explanation
Indices: 102149225--102149292 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 24
102149215 AGTACAAATA
102149225 TTTTA-ATTATGATTTGAATTTT-
1 TTTTATATTATGATTTGAATTTTC
*
102149247 TTTTATATCATGATATTTGAAATTTTC
1 TTTTATATTATG--ATTTG-AATTTTC
102149274 TTTT-TATTAT-ATTTGAATT
1 TTTTATATTATGATTTGAATT
102149293 CTTAAATGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 9 0.23
23 10 0.26
25 5 0.13
26 11 0.28
27 4 0.10
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTTATATTATGATTTGAATTTTC
Found at i:102149592 original size:17 final size:18
Alignment explanation
Indices: 102149560--102149627 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
102149550 GAAAGTTGTG
102149560 ATAATTATACATTTAAAA
1 ATAATTATACATTTAAAA
*
102149578 ATAATTATA-ATTT-AAT
1 ATAATTATACATTTAAAA
* * *
102149594 AGAAGTACACATTTAAAA
1 ATAATTATACATTTAAAA
102149612 ATAATTATA-ATTTAAA
1 ATAATTATACATTTAAA
102149628 TTGCAATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
16 8 0.20
17 15 0.38
18 17 0.43
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTATACATTTAAAA
Found at i:102151571 original size:17 final size:17
Alignment explanation
Indices: 102151546--102151578 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102151536 ATGTGCGAAT
*
102151546 ATATGTATATGTGTGTA
1 ATATATATATGTGTGTA
102151563 ATATATATATGTGTGT
1 ATATATATATGTGTGT
102151579 GGATCGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (17 bp):
ATATATATATGTGTGTA
Found at i:102151579 original size:19 final size:19
Alignment explanation
Indices: 102151543--102151579 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
102151533 TTAATGTGCG
*
102151543 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
*
102151562 AATATATATATGTGTGTG
1 AATATATATATATGTGTG
102151580 GATCGAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:102151859 original size:41 final size:41
Alignment explanation
Indices: 102151797--102151972 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
102151787 GTTTGGAATT
* *
102151797 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
102151838 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
102151879 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
102151920 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
102151961 GGTGATCCGAAT
1 GGTGATCTGAAT
102151973 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:102151934 original size:82 final size:82
Alignment explanation
Indices: 102151797--102151966 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
102151787 GTTTGGAATT
102151797 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
102151862 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
102151879 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
102151944 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
102151961 GGTGAT
1 GGTGAT
102151967 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:102159211 original size:19 final size:19
Alignment explanation
Indices: 102159187--102159223 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102159177 TTAATGTGCG
*
102159187 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
102159206 AATATATATATATGTGTG
1 AATATATATATATGTGTG
102159224 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:102159499 original size:41 final size:41
Alignment explanation
Indices: 102159437--102159612 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
102159427 GTTTGGAATT
* *
102159437 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
102159478 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
102159519 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
102159560 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
102159601 GGTGATCCGAAT
1 GGTGATCTGAAT
102159613 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:102159574 original size:82 final size:82
Alignment explanation
Indices: 102159437--102159606 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
102159427 GTTTGGAATT
102159437 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
102159502 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
102159519 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
102159584 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
102159601 GGTGAT
1 GGTGAT
102159607 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:102163382 original size:16 final size:16
Alignment explanation
Indices: 102163361--102163391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102163351 TGATATAAAA
102163361 TATATATGTTTAATAT
1 TATATATGTTTAATAT
*
102163377 TATATATTTTTAATA
1 TATATATGTTTAATA
102163392 ATAAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATATATGTTTAATAT
Found at i:102172247 original size:35 final size:35
Alignment explanation
Indices: 102172201--102172272 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
102172191 TCTTTACTTT
102172201 TTGAAATAAAAATATAAGTCCAAATATTAACATTA
1 TTGAAATAAAAATATAAGTCCAAATATTAACATTA
* *
102172236 TTGAATTAAAAATGTAAGTCCAAATATTAACATTA
1 TTGAAATAAAAATATAAGTCCAAATATTAACATTA
102172271 TT
1 TT
102172273 AAAGTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (35 bp):
TTGAAATAAAAATATAAGTCCAAATATTAACATTA
Found at i:102188677 original size:30 final size:31
Alignment explanation
Indices: 102188643--102188705 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
102188633 AATTTATATA
*
102188643 TTTATAAATTTT-AAATAATTAAAT-TAAATT
1 TTTATAAATTTTAAAATAATAAAATAT-AATT
* *
102188673 TTTATTATTTTTAAAATAATAAAATATAATT
1 TTTATAAATTTTAAAATAATAAAATATAATT
102188704 TT
1 TT
102188706 ATTTTTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 10 0.36
31 17 0.61
32 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTATAAATTTTAAAATAATAAAATATAATT
Found at i:102191806 original size:32 final size:31
Alignment explanation
Indices: 102191770--102191874 Score: 83
Period size: 32 Copynumber: 3.3 Consensus size: 31
102191760 TTTTATGTTT
*
102191770 CTTAAAAGTTAGAGAAAAATATTTTTAGGTCC
1 CTTAAAAGTTAGAGAAAAATATTTTT-GGCCC
* *
102191802 CTTAAAACTT-G-GCAAAAATAATTTTTGGGCC
1 CTTAAAAGTTAGAG-AAAAAT-ATTTTTGGCCC
* *
102191833 CTTAAAAGCTA-AAATAAAAT-TTTTTGGGGCCC
1 CTTAAAAGTTAGAGA-AAAATATTTTT--GGCCC
102191865 CTTAAAAGTT
1 CTTAAAAGTT
102191875 GATAATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
30 6 0.10
31 20 0.34
32 33 0.56
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (31 bp):
CTTAAAAGTTAGAGAAAAATATTTTTGGCCC
Found at i:102192393 original size:28 final size:30
Alignment explanation
Indices: 102192347--102192402 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 30
102192337 TTTGAAGTTT
102192347 AAATATCTGACCCCAAATT-T-AAAAAATA
1 AAATATCTGACCCCAAATTGTGAAAAAATA
102192375 AAAT-TCTGACCCCAAAATTGTGAAAAAA
1 AAATATCTGACCCC-AAATTGTGAAAAAA
102192403 ATTCAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.36
28 9 0.36
29 1 0.04
30 6 0.24
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (30 bp):
AAATATCTGACCCCAAATTGTGAAAAAATA
Found at i:102193152 original size:18 final size:20
Alignment explanation
Indices: 102193107--102193149 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
102193097 TAATTTTAAA
*
102193107 ATTTTAAAATATATAAAATT
1 ATTTTAAAATATAAAAAATT
102193127 ATTTTAAAA-ATAAAAAATT
1 ATTTTAAAATATAAAAAATT
102193146 ATTT
1 ATTT
102193150 AAATTGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTAAAATATAAAAAATT
Found at i:102194283 original size:31 final size:30
Alignment explanation
Indices: 102194224--102194286 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 30
102194214 CTTTTTAATT
*
102194224 CCTATACTTTTCAAATTGGTTAATTTTAGTC
1 CCTATACTTTTCAAATT-GTTAAATTTAGTC
102194255 CCTATACTTTTCAAATT-TTGAAAATTTAGTC
1 CCTATACTTTTCAAATTGTT--AAATTTAGTC
102194286 C
1 C
102194287 TGACTCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
31 27 0.93
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (30 bp):
CCTATACTTTTCAAATTGTTAAATTTAGTC
Found at i:102195844 original size:27 final size:27
Alignment explanation
Indices: 102195808--102195859 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
102195798 ACATGTTGCA
* *
102195808 CCTATCTGACAGGCTCAACTAGTTGAG
1 CCTATCTGACAAGCACAACTAGTTGAG
* *
102195835 CCTATTTGACAAGCACGACTAGTTG
1 CCTATCTGACAAGCACAACTAGTTG
102195860 TGTCTTCTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (27 bp):
CCTATCTGACAAGCACAACTAGTTGAG
Done.