Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 265 of 311
Found at i:87771948 original size:21 final size:21
Alignment explanation
Indices: 87771902--87771963 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
87771892 CGAATACACC
87771902 AATAGAAGCTCG-AA-AGCTG
1 AATAGAAGCTCGTAAGAGCTG
* *
87771921 AACAGAAGCTCGTAAGAGCTT
1 AATAGAAGCTCGTAAGAGCTG
* *
87771942 AATAGAAACTCATAAGAGCTG
1 AATAGAAGCTCGTAAGAGCTG
87771963 A
1 A
87771964 TCCATCCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (21 bp):
AATAGAAGCTCGTAAGAGCTG
Found at i:87774205 original size:53 final size:53
Alignment explanation
Indices: 87774143--87774261 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 53
87774133 TTATATATAT
* * *
87774143 ATCTGATAAATTTGGTGTCGGCCATCAATATCCCAAAACCAAAAAAAATAATA
1 ATCTGATAAAGTTGGTGTCGGCCATCAACATCCCAAAACCAAAAAAAAAAATA
** *
87774196 ATCTGATAAAGTTGGTGTCGGCCATCGGCGTCCCAAAACCAAAAAAAAAAATA
1 ATCTGATAAAGTTGGTGTCGGCCATCAACATCCCAAAACCAAAAAAAAAAATA
*
87774249 ATCTGAGAAAGTT
1 ATCTGATAAAGTT
87774262 AGTGCTAGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (53 bp):
ATCTGATAAAGTTGGTGTCGGCCATCAACATCCCAAAACCAAAAAAAAAAATA
Found at i:87774273 original size:53 final size:53
Alignment explanation
Indices: 87774173--87774300 Score: 168
Period size: 53 Copynumber: 2.4 Consensus size: 53
87774163 GCCATCAATA
* * * *
87774173 TCCCAAAACCAAAAAAAATAATAATCTGATAAAGTTGGTGTCGGCCATCGGCG
1 TCCCAAAACCAAAAAAAAAAATAATCTGAGAAAGTTAGTGTCAGCCATCGGCG
* *
87774226 TCCCAAAACCAAAAAAAAAAATAATCTGAGAAAGTTAGTG-CTAGCCATCTGTG
1 TCCCAAAACCAAAAAAAAAAATAATCTGAGAAAGTTAGTGTC-AGCCATCGGCG
* *
87774279 TCCCAAAACCCAAAACAAAAAT
1 TCCCAAAACCAAAAAAAAAAAT
87774301 TTTAGGACCC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
52 1 0.02
53 65 0.98
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.19
Consensus pattern (53 bp):
TCCCAAAACCAAAAAAAAAAATAATCTGAGAAAGTTAGTGTCAGCCATCGGCG
Found at i:87774386 original size:53 final size:54
Alignment explanation
Indices: 87774295--87774405 Score: 134
Period size: 53 Copynumber: 2.1 Consensus size: 54
87774285 AACCCAAAAC
* * * *
87774295 AAAAATTTTAGGACCCGAAAAAGGTGGTGTCGGCCATCAATGTACCAGA-TAAA
1 AAAAATTTTAGGACCCAAAAAAGGTGGTGCCGACCATCAATGTACCAAAGTAAA
* * * * *
87774348 AAAAATTTTGGGACCTAAAAAAGGTGGTGCCGATCATCAGTGTCCCAAAGTAAA
1 AAAAATTTTAGGACCCAAAAAAGGTGGTGCCGACCATCAATGTACCAAAGTAAA
87774402 AAAA
1 AAAA
87774406 GTTTGCCTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
53 40 0.83
54 8 0.17
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (54 bp):
AAAAATTTTAGGACCCAAAAAAGGTGGTGCCGACCATCAATGTACCAAAGTAAA
Found at i:87778032 original size:30 final size:30
Alignment explanation
Indices: 87777998--87778058 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87777988 ATCCCGAGCC
87777998 TAGGGGAAAAAATGTAAATATGCAAAAATT
1 TAGGGGAAAAAATGTAAATATGCAAAAATT
* * * * *
87778028 TAGGGGTAAAATTGTAATTTTGCCAAAATT
1 TAGGGGAAAAAATGTAAATATGCAAAAATT
87778058 T
1 T
87778059 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAAATATGCAAAAATT
Found at i:87780564 original size:45 final size:45
Alignment explanation
Indices: 87780364--87780557 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 45
87780354 TAGTTACTGT
* * *
87780364 TATTGCTACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
87780409 TATTGTTACTGTTACCGTTACTGATTCGGCACTGTGTGTGTCGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
** * *
87780454 TATTGTTACTGTTACCACTACTGATTCGGTACTTTGTGTGTCGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
87780499 TATTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAA
1 TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
**
87780544 TGCTGTTACTGTTA
1 TATTGTTACTGTTA
87780558 TTGTTACTAT
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (45 bp):
TATTGTTACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAA
Found at i:87780770 original size:18 final size:18
Alignment explanation
Indices: 87780749--87780939 Score: 133
Period size: 18 Copynumber: 10.6 Consensus size: 18
87780739 TAACTGATTA
87780749 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
87780767 TTAC-CAGATAATTGACTG
1 TTACTGA-ATAATTGACTG
*
87780785 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
** * * *
87780803 TTACCAAATAACTGAATA
1 TTACTGAATAATTGACTG
* * *
87780821 TTATTGAATAATTGATTA
1 TTACTGAATAATTGACTG
* *
87780839 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
87780857 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
87780875 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
87780894 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
87780911 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
87780929 TTACTGGATAA
1 TTACTGAATAA
87780940 CCGATCAATT
Statistics
Matches: 135, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
17 19 0.14
18 101 0.75
19 15 0.11
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:87780865 original size:36 final size:36
Alignment explanation
Indices: 87780737--87781032 Score: 138
Period size: 36 Copynumber: 8.0 Consensus size: 36
87780727 AAAGGTATAA
* * * *
87780737 AATAACTGATTATTACTGAATAATTGACTGTTAC-C
1 AATAACTGATTGTTACTGAATAATTGATTATTACTG
* * * * * **
87780772 AGATAATTGACTGTTACTGGAT-ATTAGACTGTTACCA
1 A-ATAACTGATTGTTACTGAATAATT-GATTATTACTG
* * *
87780809 AATAACTGAATATTATTGAATAATTGATTATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTATTACTG
* * **
87780845 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGATTGTTACTGAAT-AATTGATTATTACTG
* *
87780881 AATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATTATTACTG
* * *
87780917 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGA-TACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGAT-TATTACTG
* * * *
87780961 AATAACTGGTTATTATTGAATAATTGATTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGATTATTACTG
* * * *
87780997 AATAACTGACTATTACTGAATAAATAATTATT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTATTACTG
87781032 A
1 A
87781033 GTGTTAATGA
Statistics
Matches: 197, Mismatches: 44, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
35 17 0.09
36 128 0.65
37 24 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTATTACTG
Found at i:87780874 original size:72 final size:71
Alignment explanation
Indices: 87780736--87780939 Score: 189
Period size: 72 Copynumber: 2.8 Consensus size: 71
87780726 CAAAGGTATA
* * * * * * *
87780736 AAATAACTGATTATTACTGAATAATTGACTGTTAC-CAGATAATTGACTGTTACTGGATATTAGA
1 AAATAACTGAATATTACTGAATAATTGA-TTTTACTGA-ATAACTGACTGTCACTGAATAATAGA
*
87780800 CTGTTACC
64 CTGCTACC
* *
87780808 AAATAACTGAATATTATTGAATAATTGATTATTACTGAATAACTGATTGTCACTGAATGAAT-GA
1 AAATAACTGAATATTACTGAATAATTGATT-TTACTGAATAACTGACTGTCACTGAAT-AATAGA
*
87780872 CTGCTACT
64 CTGCTACC
* * * * *
87780880 GAATAACTTAATAGTTACTGAAT-ATCTGATTTTACTGAATAATTGACTGTTACTGGATAA
1 AAATAACTGAATA-TTACTGAATAAT-TGATTTTACTGAATAACTGACTGTCACTGAATAA
87780940 CCGATCAATT
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
71 3 0.03
72 90 0.83
73 16 0.15
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (71 bp):
AAATAACTGAATATTACTGAATAATTGATTTTACTGAATAACTGACTGTCACTGAATAATAGACT
GCTACC
Found at i:87780982 original size:18 final size:18
Alignment explanation
Indices: 87780956--87781032 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
87780946 AATTGATCGA
*
87780956 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* * *
87780974 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
*
87780992 TACTGAATAACTGACTAT
1 TACTGAATAACTGATTAT
* *
87781010 TACTGAATAAATAATTAT
1 TACTGAATAACTGATTAT
87781028 T-CTGA
1 TACTGA
87781033 GTGTTAATGA
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 4 0.08
18 44 0.92
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:87781365 original size:33 final size:33
Alignment explanation
Indices: 87781305--87781368 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
87781295 CCGATCCCGA
* **
87781305 ATTCAATGAGGTAAAGTATGTTGAGTATTGAGT
1 ATTCAATGAGGTAAAGTAGGTAAAGTATTGAGT
87781338 ATTCAATGAGGTAAAGTAGGTAAAGTATTGA
1 ATTCAATGAGGTAAAGTAGGTAAAGTATTGA
87781369 TGAAATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.33
Consensus pattern (33 bp):
ATTCAATGAGGTAAAGTAGGTAAAGTATTGAGT
Found at i:87782911 original size:28 final size:27
Alignment explanation
Indices: 87782867--87782940 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 27
87782857 CTATTCTTGA
87782867 TTTTTTTTATTTT-TTATTTTTTTTCC
1 TTTTTTTTATTTTATTATTTTTTTTCC
*
87782893 TTTTTTTTGATTTTATTATTTGTTTTCC
1 TTTTTTTT-ATTTTATTATTTTTTTTCC
87782921 TTTTTCTTTA-TTTATT-TTTT
1 TTTTT-TTTATTTTATTATTTT
87782941 CACTTTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 11 0.26
27 11 0.26
28 18 0.42
29 3 0.07
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (27 bp):
TTTTTTTTATTTTATTATTTTTTTTCC
Found at i:87782978 original size:12 final size:11
Alignment explanation
Indices: 87782951--87782999 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
87782941 CACTTTTACA
87782951 TTTTTATTTGT
1 TTTTTATTTGT
*
87782962 CTTTTATTTGTT
1 TTTTTATTTG-T
*
87782974 TTTTTAATTGT
1 TTTTTATTTGT
* *
87782985 TTATTATTTAT
1 TTTTTATTTGT
87782996 TTTT
1 TTTT
87783000 ATAATATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (11 bp):
TTTTTATTTGT
Found at i:87782984 original size:23 final size:23
Alignment explanation
Indices: 87782951--87783004 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
87782941 CACTTTTACA
* *
87782951 TTTTTATTTGTCTT-TTATTTGTT
1 TTTTTAATTGT-TTATTATTTATT
87782974 TTTTTAATTGTTTATTATTTATT
1 TTTTTAATTGTTTATTATTTATT
*
87782997 TTTATAAT
1 TTTTTAAT
87783005 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (23 bp):
TTTTTAATTGTTTATTATTTATT
Found at i:87783063 original size:21 final size:22
Alignment explanation
Indices: 87782992--87783071 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 22
87782982 TGTTTATTAT
87782992 TTATTTTTATAATATTTTAAATA
1 TTATTTTTA-AATATTTTAAATA
* *
87783015 -TATATTTTAAATGTTTTATAACA
1 TTAT-TTTTAAATATTTTA-AATA
87783038 TTATTTTTAAA-ATTTTAAATA
1 TTATTTTTAAATATTTTAAATA
87783059 TTATTTTTTAAAT
1 TTA-TTTTTAAAT
87783072 TTAGAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
21 6 0.12
22 24 0.50
23 15 0.31
24 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTATTTTTAAATATTTTAAATA
Found at i:87783072 original size:21 final size:21
Alignment explanation
Indices: 87782992--87783073 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 21
87782982 TGTTTATTAT
87782992 TTATTTTTATAATATTTTAAATA
1 TTATTTTT-TAA-ATTTTAAATA
* *
87783015 -TATATTTTAAATGTTTTATAACA
1 TTATTTTTTAAA--TTTTA-AATA
*
87783038 TTATTTTTAAAATTTTAAATA
1 TTATTTTTTAAATTTTAAATA
87783059 TTATTTTTTAAATTT
1 TTATTTTTTAAATTT
87783074 AGAAAATACT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 20 0.41
22 16 0.33
23 3 0.06
24 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (21 bp):
TTATTTTTTAAATTTTAAATA
Found at i:87783397 original size:27 final size:27
Alignment explanation
Indices: 87783359--87783442 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
87783349 ATGGTATATA
* * *
87783359 GGTTGCGCTTATCTGATAGACGCGACT
1 GGTTGAGCTTATCTGACAGGCGCGACT
*
87783386 GGTTGTGCTTATCTGACAGGCGCGACT
1 GGTTGAGCTTATCTGACAGGCGCGACT
* *
87783413 TGTTGAGCCTATCTGACAGGCGCGACT
1 GGTTGAGCTTATCTGACAGGCGCGACT
87783440 GGT
1 GGT
87783443 AGGTCCACAG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.29
Consensus pattern (27 bp):
GGTTGAGCTTATCTGACAGGCGCGACT
Found at i:87784284 original size:94 final size:94
Alignment explanation
Indices: 87784123--87784309 Score: 338
Period size: 94 Copynumber: 2.0 Consensus size: 94
87784113 CGGAGATTTC
*
87784123 GATACATCGTACAATGAGTTACAGGGATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
1 GATACATCGTACAATGAGTTACAGGAATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
87784188 AATTGAGTTGCAGACACGATCTTATTACA
66 AATTGAGTTGCAGACACGATCTTATTACA
*
87784217 GATACATCGTACAATGAGTTACAGGAATAGATAGCCGCTATGAGAGAGTACGTGTCGGGGACTAT
1 GATACATCGTACAATGAGTTACAGGAATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
* *
87784282 AATTGAGTTGTAGACACGATTTTATTAC
66 AATTGAGTTGCAGACACGATCTTATTAC
87784310 GGCTCGAATG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (94 bp):
GATACATCGTACAATGAGTTACAGGAATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
AATTGAGTTGCAGACACGATCTTATTACA
Found at i:87793178 original size:27 final size:28
Alignment explanation
Indices: 87793148--87793209 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
87793138 TATGGGCCCT
*
87793148 ACCAGTCACGCCTCTG-AGATAGGCTCA
1 ACCAGTCACGCCCCTGCAGATAGGCTCA
*
87793175 ACCAGTCGCGCCCCTGTCAGATAGGCTCA
1 ACCAGTCACGCCCCTG-CAGATAGGCTCA
87793204 ACCAGT
1 ACCAGT
87793210 TGCACTTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 14 0.45
29 17 0.55
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.18
Consensus pattern (28 bp):
ACCAGTCACGCCCCTGCAGATAGGCTCA
Found at i:87794113 original size:22 final size:22
Alignment explanation
Indices: 87794088--87794143 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
87794078 GATACCAAAT
*
87794088 TATTATTTCTTTAA-ATTTTAAA
1 TATTATTT-TTTAATATTTAAAA
87794110 TATTATTTTTTAATATTTAAAATA
1 TATTATTTTTTAATATTT-AAA-A
87794134 TATTATTTTT
1 TATTATTTTT
87794144 AAAGATACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 12 0.40
23 2 0.07
24 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTTTAATATTTAAAA
Found at i:87794352 original size:22 final size:23
Alignment explanation
Indices: 87794324--87794385 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
87794314 CTTTAAAAAT
87794324 AATTTAAAAAATTATATTT-AAA
1 AATTTAAAAAATTATATTTGAAA
*
87794346 AATTTAAAAAAATAGTATTTGAAA
1 AATTTAAAAAATTA-TATTTGAAA
* *
87794370 ATTTTAAAATATTATA
1 AATTTAAAAAATTATA
87794386 AAAAATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.38
23 7 0.21
24 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (23 bp):
AATTTAAAAAATTATATTTGAAA
Found at i:87794356 original size:24 final size:23
Alignment explanation
Indices: 87794324--87794378 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
87794314 CTTTAAAAAT
*
87794324 AATTTAAAAAATTA-TATTTAAA
1 AATTTAAAAAAATAGTATTTAAA
*
87794346 AATTTAAAAAAATAGTATTTGAA
1 AATTTAAAAAAATAGTATTTAAA
*
87794369 AATTTTAAAA
1 AATTTAAAAA
87794379 TATTATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
AATTTAAAAAAATAGTATTTAAA
Found at i:87794429 original size:19 final size:20
Alignment explanation
Indices: 87794383--87794422 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
87794373 TTAAAATATT
*
87794383 ATAAAAAATTGAAAAAGTAA
1 ATAAAAAATTGAAAAAGGAA
87794403 ATAAAAAA-TGAAAAAGGAA
1 ATAAAAAATTGAAAAAGGAA
87794422 A
1 A
87794423 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (20 bp):
ATAAAAAATTGAAAAAGGAA
Found at i:87794429 original size:20 final size:20
Alignment explanation
Indices: 87794385--87794430 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
87794375 AAAATATTAT
* *
87794385 AAAAAATTGAAAAAGTAAAT
1 AAAAAATTGAAAAAGGAAAA
87794405 AAAAAA-TGAAAAAGGAAAA
1 AAAAAATTGAAAAAGGAAAA
87794424 ATAAAAA
1 A-AAAAA
87794431 AAAATTAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (20 bp):
AAAAAATTGAAAAAGGAAAA
Found at i:87796245 original size:124 final size:127
Alignment explanation
Indices: 87796036--87796274 Score: 331
Period size: 124 Copynumber: 1.9 Consensus size: 127
87796026 GAGTATGAGC
* * **
87796036 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAATGACATTCGGATATTTAGAT
1 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGGATACATAGAT
* *
87796101 CAAACGGAAAATCAAAACCCAGTACGTTAGGGCACGACTACTCGAATTTCTAAATACGGATA
66 CAAACGAAAAATCAAAACCCAGTACGTTAGGACACGACTACTCGAATTTCTAAATACGGATA
* * * * *
87796163 TTGCCTT-TGTTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACATAGAT
1 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGGATACATAGAT
* * *
87796225 CAAACGAAAAATCGAAACCCAGTACGTTAGGACACGATTTCTCGAATTTC
66 CAAACGAAAAATCAAAACCCAGTACGTTAGGACACGACTACTCGAATTTC
87796275 CAAGTACCGA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
124 63 0.64
125 3 0.03
126 25 0.26
127 7 0.07
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (127 bp):
TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGGATACATAGAT
CAAACGAAAAATCAAAACCCAGTACGTTAGGACACGACTACTCGAATTTCTAAATACGGATA
Found at i:87796714 original size:3 final size:3
Alignment explanation
Indices: 87796592--87796695 Score: 70
Period size: 3 Copynumber: 33.0 Consensus size: 3
87796582 GAAAATGATG
* *
87796592 ATA ATA ATA ATGGA AGTA ATA AAA ATA ATA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA AT--A A-TA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * *
87796640 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ATA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
87796687 ATA ATA ATA
1 ATA ATA ATA
87796696 TACGTGCTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
2 5 0.06
3 62 0.77
4 9 0.11
5 4 0.05
6 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:87796876 original size:3 final size:3
Alignment explanation
Indices: 87796870--87796940 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
87796860 TAGCATATAG
* * * * * * *
87796870 AAT AAT AGT AA- AAGT AAT AAA AAT AAT AAT AGT AGT AGT AGT AGT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
87796915 AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
87796941 CACTCTCCCC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:87796903 original size:18 final size:20
Alignment explanation
Indices: 87796848--87796903 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 20
87796838 TAATAAAAAA
* *
87796848 AGAAAACAATAATAGCATAT
1 AGAAAATAATAATAGTATAT
* *
87796868 AGAATAATAGTAAAAGTA-AT
1 AGAA-AATAATAATAGTATAT
87796888 A-AAAATAATAATAGTA
1 AGAAAATAATAATAGTA
87796904 GTAGTAGTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 11 0.38
19 2 0.07
20 7 0.24
21 9 0.31
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (20 bp):
AGAAAATAATAATAGTATAT
Found at i:87798295 original size:133 final size:133
Alignment explanation
Indices: 87798152--87798440 Score: 425
Period size: 133 Copynumber: 2.2 Consensus size: 133
87798142 GAACCTACTT
* * *
87798152 CACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATA
1 CACTGCAACTTCAGGGAGATAAGGCTAGTAGCTTAAATCTACTCCATTACCGCTACATGGAGATA
* *
87798217 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
87798282 CTC
131 CTC
* * * *
87798285 CACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTGCAACTTCAGGGAGATAAGGCTAGTAGCTTAAATCTACTCCATTACCGCTACATGGAGATA
* * * * * *
87798350 AGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGAAATTTTTAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
87798415 CTC
131 CTC
* *
87798418 CACTACAACTTCAGAGAGATAAG
1 CACTGCAACTTCAGGGAGATAAG
87798441 ATTTGTATCT
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 137 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
CACTGCAACTTCAGGGAGATAAGGCTAGTAGCTTAAATCTACTCCATTACCGCTACATGGAGATA
AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
CTC
Found at i:87798346 original size:310 final size:311
Alignment explanation
Indices: 87797972--87798618 Score: 922
Period size: 310 Copynumber: 2.1 Consensus size: 311
87797962 CTTGATCTAT
* * *
87797972 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAG
1 TCCACTGTAACTTCAGGGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
*
87798037 ATAAAATTCGCCATCTACGATCTACT-TCACTACTGCTTAGGGAGATAAGA-TTCACTATCTTCA
66 ATAAAATTCGCCATCTACGATCTACTCT-ACTACTGCTTAGGGAGATAAGATTTCA-AATCTTCA
* * * *
87798100 GTCTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTCACTGCAACTTCA
129 GTCTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCA
*
87798165 GGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATAAGATTCGCCGTCC
194 GGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTACATGGAGATAAGATTCGCCGTCC
* *
87798230 TCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
259 TCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
*
87798283 TCCACTGTAACTTCAGGGAGATAA-AGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
1 TCCACTGTAACTTCAGGGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
* * * * * * * * *
87798347 ATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGAAATTTTTAGT
66 ATAAAATTCGCCATCTACGATCTACTCTACTACTGCTTAGGGAGATAAGATTTCAAATCTTCAGT
* * * *
87798412 CTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGG
131 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* * * * * * *
87798477 GAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGTCGTCTTC
196 GAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTACATGGAGATAAGATTCGCCGTCCTC
* * *
87798542 GATCTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGC
261 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
* *
87798593 TCCACTGCAACTTCAGGAAAATAAGA
1 TCCACTGTAACTTCAGGGAAATAAGA
87798619 CTTGTATCTT
Statistics
Matches: 295, Mismatches: 38, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
310 267 0.91
311 28 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (311 bp):
TCCACTGTAACTTCAGGGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
ATAAAATTCGCCATCTACGATCTACTCTACTACTGCTTAGGGAGATAAGATTTCAAATCTTCAGT
CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
GAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTACATGGAGATAAGATTCGCCGTCCTC
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
Found at i:87798349 original size:177 final size:175
Alignment explanation
Indices: 87797992--87798529 Score: 499
Period size: 177 Copynumber: 3.0 Consensus size: 175
87797982 CTTCAGGGAA
* * * *
87797992 ATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAAATTCGCCATCTACGA
1 ATAAGA-CTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATAAGATTCGCCATCT-CGA
* *
87798057 TCTACTTCACTACTGCTTAGGGAGATAAGATT-CACTATCTTCAGTCTGCTCCACTGCAACTTCA
64 TCTGCTCCACTACTGCTTAGGGAGATAAGATTGCA--ATCTTCAGTCTGCTCCACTGCAACTTCA
** * * * * * * * *
87798121 GGGAGAT-AGGACTTATATCTTGAACCTACTTCACTGCAACTTCAGGGAG
127 GGGAGATAAGG-CTGGTAGCTTAAATCTACTCCATTGCCACTACATGGAG
* *
87798170 ATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATAAGATTCGCCGTCCTCGAT
1 ATAAGACTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATAAGATTCGCCAT-CTCGAT
* * *
87798235 CTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGTAACTTCAGG
65 CTGCTCCACTACTGCTTAGGGAGATAAGAT-TGCAATCTTCAGTCTGCTCCACTGCAACTTCAGG
* *
87798300 GAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
129 GAGATAAGGCTGGTAGCTTAAATCTACTCCATTGCCACTACATGGAG
* * * ** * * * * * ** * **
87798347 ATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCT-TAGGGAGATAAGATTTGAAATTTTTAG
1 ATAAGACTAGT-GGCTTAAATCTGCTCCATTACCGCTATATGGAGATAAGATTCGCCATCTCGA-
** * * * ** *
87798411 TCTGCTCCACTACAACTTCAGAGAGATAAGATTTG-TATCTTGAACCTGCTCCATTGCAACTTCA
64 TCTGCTCCACTACTGCTT-AGGGAGATAAGA-TTGCAATCTTCAGTCTGCTCCACTGCAACTTCA
* * * *
87798475 GGGAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAG
127 GGGAGATAAGGCTGGTAGCTTAAATCTACTCCATTGCCACTACATGGAG
87798524 ATAAGA
1 ATAAGA
87798530 TTTGTCGTCT
Statistics
Matches: 296, Mismatches: 56, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
176 2 0.01
177 249 0.84
178 42 0.14
179 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (175 bp):
ATAAGACTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATAAGATTCGCCATCTCGATC
TGCTCCACTACTGCTTAGGGAGATAAGATTGCAATCTTCAGTCTGCTCCACTGCAACTTCAGGGA
GATAAGGCTGGTAGCTTAAATCTACTCCATTGCCACTACATGGAG
Found at i:87798460 original size:44 final size:44
Alignment explanation
Indices: 87797576--87798661 Score: 333
Period size: 44 Copynumber: 24.5 Consensus size: 44
87797566 AATCCACTCT
* * * * * * *
87797576 ACTGCAACTTTAGGGAGATAGGATTAGATGTCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * ** * *
87797621 GCTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * * * * *
87797665 AATGTAATTTCAGGGAGA-AGAGATTTGTAGCTTCG-ATCTACTTC
1 ACTGCAACTTCAGGGAGATA-AGATTTGTATCTT-GAATCTGCTCC
* * * * * * *
87797709 GCTGGAACTTCAAGAAGGTAAGAGTTGGTAAT-TTCAA-CGTGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGT-ATCTTGAATC-TGCTCC
* * * * * *
87797754 ACTGTAACTTCAGGGAGATAAGACTTGCTA-ATTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
** * * *
87797798 ACTGCAACTTCAGATAGATAA-AGTTTACTATCTTTG-ATCCGCTTC
1 ACTGCAACTTCAGGGAGATAAGA-TTT-GTATC-TTGAATCTGCTCC
* * * * *
87797843 GCTACAACTTCAGGGAGATAAGATCTGCTAT-TTCAATCTCCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * * ** * * * *
87797887 ACTGTAACTTCAGGGAGATGACACCTGTAACTTCAACCTG-TTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * ** **
87797930 TCTACAACTTCAAAGAGATAA-AGTTTGCTATCCTTG-ATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTG-TAT-CTTGAATCTGCTCC
* * * ** *
87797975 ACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TTGTATCTTGAATCTGCTCC
* ** * * * * * * * *
87798020 ATTGCCGCTACATGGAGATAAAATTCGCCATCTACG-ATCTACTTC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCT-TGAATCTGCTCC
* ** ** * *
87798065 ACTACTGCTT-AGGGAGATAAGATTCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-TGTATCTTGAATCTGCTCC
* * * * * *
87798109 ACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
** * ** *
87798153 ACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * ** * * ** *
87798197 ATTACCGCTAT-ATGGAGATAAGATTCGCCGTCCTCG-ATCTGCTCC
1 ACTGCAACT-TCAGGGAGATAAGATTTG-TAT-CTTGAATCTGCTCC
* ** * * * * *
87798242 ACTTCTGCTT-AGGGAGATAAGATCTGCAATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * * * * *
87798286 ACTGTAACTTCAGGGAGATAA-AGCTGGTAGCTTAAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGTATCTTGAATCTGCTCC
* ** * * * *
87798330 ATTGCCGCTACATGGAGATAAGATTTGTCGTCTTCG-ATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT-GAATCTGCTCC
* ** * * * *
87798375 ACTACTGCTT-AGGGAGATAAGATTTGAAATTTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * *
87798419 ACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * * ** *
87798463 ATTGCAACTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* ** * * * *
87798507 ATTGCCTCTACATGGAGATAAGATTTGTCGTCTTCG-ATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT-GAATCTGCTCC
* * * * * * *
87798552 ACTACTACTT-AGGGAGGTAAGATCTGTAATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTGAATCTGCTCC
* * * * *
87798596 ACTGCAACTTCAGGAAAATAAGACTTGTATCTTGAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
*
87798640 ACTGCAACTTAAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
87798662 GCTAGTGGCT
Statistics
Matches: 732, Mismatches: 263, Indels: 93
0.67 0.24 0.09
Matches are distributed among these distances:
42 1 0.00
43 26 0.04
44 454 0.62
45 242 0.33
46 9 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
Found at i:87798480 original size:133 final size:133
Alignment explanation
Indices: 87798152--87798484 Score: 353
Period size: 133 Copynumber: 2.5 Consensus size: 133
87798142 GAACCTACTT
* * * * * * * * ** * *
87798152 CACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGCTATATGGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* *
87798217 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
87798282 CTC
131 CTC
** * * ** *
87798285 CACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * * * * *
87798350 AGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGAAATTTTTAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
87798415 CTC
131 CTC
* * * * * *
87798418 CACTACAACTTCAGAGAGAT-AAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGAGAGATAAAG-CTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGAT
87798482 AAG
65 AAG
87798485 GTTGGTGGCT
Statistics
Matches: 171, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 3 0.02
133 168 0.98
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
CTC
Found at i:87798530 original size:177 final size:176
Alignment explanation
Indices: 87798279--87798792 Score: 686
Period size: 177 Copynumber: 2.9 Consensus size: 176
87798269 AATTTTCAGT
* * * * *
87798279 CTGCTCCACTGTAACTTCAGGGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCTCTACATG
*
87798344 GAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGAAATTTTT
66 GAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGAAATTTTT
*
87798409 AGTCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAAC
131 AGTCTGCTCCACTACAACTTCAG-GAGATAAGACTTGTATCTTGAAC
* *
87798456 CTGCTCCATTGCAACTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCTCTACATG
* * *
87798521 GAGATAAGATTTGTCGTCTTCGATCTGCT-TCACTACTACTTAGGGAGGTAAGATCTGTAATTTT
66 GAGATAAGATTTGTCGTCTTCGATCTGCTCT-ACTACTGCTTAGGGAGATAAGATCTGAAATTTT
* * *
87798585 CAGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTTGTATCTTGAAC
130 TAGTCTGCTCCACTACAACTTCAGG-AGATAAGACTTGTATCTTGAAC
* * * *
87798633 CTGCTCTACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTAAAT-TAGCTCCATTGCAGT-TACA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCT-GCTCCATTGC-CTCTACA
* * * *
87798696 TGGAGATAAGATTTGCCATCTTCGATCTGCTCTACTATTGCTTAGGCAGATAAGATCT-ACAA--
64 TGGAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGA-AATT
*
87798758 -TT--TCTGCTCCACTACAACTTTAGGGAGATAAGACT
128 TTTAGTCTGCTCCACTACAACTTCA-GGAGATAAGACT
87798793 GGTCGCTTAA
Statistics
Matches: 298, Mismatches: 32, Indels: 19
0.85 0.09 0.05
Matches are distributed among these distances:
172 27 0.09
173 2 0.01
174 1 0.00
176 3 0.01
177 263 0.88
178 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (176 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCTCTACATG
GAGATAAGATTTGTCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGAAATTTTT
AGTCTGCTCCACTACAACTTCAGGAGATAAGACTTGTATCTTGAAC
Found at i:87798811 original size:128 final size:128
Alignment explanation
Indices: 87798633--87798889 Score: 347
Period size: 128 Copynumber: 2.0 Consensus size: 128
87798623 TATCTTGAAC
* * * * *
87798633 CTGCTCTACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTAAATTAGCTCCATTGCAGTTACATG
1 CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAATTAGCTCCATTGCAGCTACA-G
* * *
87798698 -GAGATAAGATTTGCCATCTTCGATCTGCTCTACTATTGCTTAGGCAGATAAGATCTACAATTT
65 AGAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
* * *
87798761 CTGCTCCACTACAACTTTAGGGAGATAAGACTGGTCGCTTAAATCT-GCTCCATTGCCGCTACAG
1 CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAAT-TAGCTCCATTGCAGCTACAG
* * * *
87798825 AGAGATAAGATTTGCCGTCTTCGATCTGTTCCACTACTGCTCAGGGAGATAAGATCTGCAATTT
65 AGAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
87798889 C
1 C
87798890 ACCAGTGTTG
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
127 1 0.01
128 110 0.98
129 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (128 bp):
CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAATTAGCTCCATTGCAGCTACAGA
GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
Found at i:87800658 original size:13 final size:12
Alignment explanation
Indices: 87800633--87800675 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
87800623 ATTCCACAAA
*
87800633 TTTTTTTTGTTG
1 TTTTTTTTTTTG
87800645 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
*
87800658 TTTTTTTTCTTTC
1 TTTTTTTT-TTTG
87800671 TTTTT
1 TTTTT
87800676 GGCTGCCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:87800665 original size:16 final size:16
Alignment explanation
Indices: 87800635--87800664 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87800625 TCCACAAATT
87800635 TTTTTTGTTGTTTTTG
1 TTTTTTGTTGTTTTTG
87800651 TTTTTTGTT-TTTTT
1 TTTTTTGTTGTTTTT
87800665 TCTTTCTTTT
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:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTTGTTGTTTTTG
Found at i:87805403 original size:20 final size:20
Alignment explanation
Indices: 87805365--87805403 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
87805355 GGTCACCTCA
*
87805365 AAACGTGATTGTTTTTCAAT
1 AAACGTGATTGTTTATCAAT
87805385 AAAC-TGATTGATTTATCAA
1 AAACGTGATTG-TTTATCAA
87805404 AACAACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (20 bp):
AAACGTGATTGTTTATCAAT
Found at i:87805855 original size:20 final size:21
Alignment explanation
Indices: 87805826--87805864 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
87805816 CGGAATATTG
*
87805826 CATTTGTTTT-ATTTAAAACT
1 CATTTATTTTAATTTAAAACT
87805846 CATTTATTTTAATTTAAAA
1 CATTTATTTTAATTTAAAA
87805865 GGATAATCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (21 bp):
CATTTATTTTAATTTAAAACT
Found at i:87806239 original size:3 final size:3
Alignment explanation
Indices: 87806231--87806521 Score: 77
Period size: 3 Copynumber: 96.3 Consensus size: 3
87806221 GAAAATGACG
* *
87806231 ATA ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATCG A-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA
* *
87806276 ATA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ATA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * * * **
87806323 ATA AT- ATA CATG CTA ATA ATA ATA ATA ACA AT- ATA A-A AAA AGG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
87806366 A-A ATA ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA
* * * * * * * * * *
87806411 ATT GTA ATA A-A A-A GATA AAA ATA AAA AAA ACA CTA TTA CTTA CTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * *
87806456 GTA ATA ATA ATA ATA A-A AAA ACA GTA ATA GT- ATA TAGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
87806500 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
87806522 CACTCTCCCC
Statistics
Matches: 214, Mismatches: 47, Indels: 54
0.68 0.15 0.17
Matches are distributed among these distances:
2 21 0.10
3 167 0.78
4 19 0.09
5 6 0.03
6 1 0.00
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:87816278 original size:48 final size:48
Alignment explanation
Indices: 87816218--87816309 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
87816208 AAAAAAGGTT
* *
87816218 TATATAGGATGATGATGTTTATGTATTGTTGTCCCTTAAAAGTTTATA
1 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTTTATA
*
87816266 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTCAAAGTT
1 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTT
87816310 AAGTTATGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (48 bp):
TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTTTATA
Found at i:87818879 original size:66 final size:67
Alignment explanation
Indices: 87818748--87818880 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 67
87818738 TAGCTAAGAA
* * *
87818748 TATATCAATTTTTTTCCTTCTTTGTCCTTATGCTTCTTCACTCAATGTTGAAGGTATCAAATTTT
1 TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
87818813 TT
66 TT
*
87818815 TATATCAATTTTTTT-CTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACC-GATTTT
1 TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
87818878 TT
66 TT
87818880 T
1 T
87818881 GTTGCACTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 8 0.13
66 39 0.63
67 15 0.24
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.52
Consensus pattern (67 bp):
TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
TT
Found at i:87819702 original size:19 final size:17
Alignment explanation
Indices: 87819662--87819700 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
87819652 AACTAACAGT
87819662 TCAACAGCTCAGAGAGC
1 TCAACAGCTCAGAGAGC
87819679 TCAACAGCTCAGAGAGC
1 TCAACAGCTCAGAGAGC
87819696 T-AACA
1 TCAACA
87819701 ACTCTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.13
Consensus pattern (17 bp):
TCAACAGCTCAGAGAGC
Found at i:87824638 original size:16 final size:17
Alignment explanation
Indices: 87824595--87824640 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
87824585 ACAAACTAAC
* *
87824595 AGCTCAACAGCTCAGAG
1 AGCTCAACAACTCAGAA
87824612 AGCTCAACAACTCAGAA
1 AGCTCAACAACTCAGAA
87824629 AGCT-AACAACTC
1 AGCTCAACAACTC
87824641 TAATTACCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.13
Consensus pattern (17 bp):
AGCTCAACAACTCAGAA
Found at i:87827965 original size:95 final size:95
Alignment explanation
Indices: 87827799--87827974 Score: 280
Period size: 95 Copynumber: 1.9 Consensus size: 95
87827789 GACTCCAACA
* * * *
87827799 ATAATATATCTAATTATTGAATATCTCATTTTCACTCGTATTTCAACTATTTTTTTAATATATAA
1 ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
87827864 AATTTATTGATCAAATGGTCACTTAATTAC
66 AATTTATTGATCAAATGGTCACTTAATTAC
* * *
87827894 ATAATATATATAATTATTGATTATCCCATTTCCACTCTTATTTCAACTAATTTTTTAGTATATAA
1 ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
*
87827959 ATTTTATTGATCAAAT
66 AATTTATTGATCAAAT
87827975 AATCACTCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (95 bp):
ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
AATTTATTGATCAAATGGTCACTTAATTAC
Found at i:87828470 original size:15 final size:16
Alignment explanation
Indices: 87828432--87828474 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
87828422 TTGATTATCG
87828432 AATTACTTTCTTTTACAA
1 AATTA-TTT-TTTTACAA
87828450 AATTATTTTTTTAC-A
1 AATTATTTTTTTACAA
*
87828465 ATTTATTTTT
1 AATTATTTTT
87828475 ACTAGTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 6 0.25
17 3 0.12
18 5 0.21
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTATTTTTTTACAA
Found at i:87830299 original size:30 final size:31
Alignment explanation
Indices: 87830260--87830330 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
87830250 ATTTTTATTT
* **
87830260 GAGTTAAATTTGGCC-TCAACCTTTTTAAAA
1 GAGTTAAATTTGACCATCAACCTTTCAAAAA
* *
87830290 GAGTCAAATTTGACCATCAATCTTTCAAAAA
1 GAGTTAAATTTGACCATCAACCTTTCAAAAA
87830321 GAGTTAAATT
1 GAGTTAAATT
87830331 GTTGTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (31 bp):
GAGTTAAATTTGACCATCAACCTTTCAAAAA
Found at i:87838814 original size:23 final size:24
Alignment explanation
Indices: 87838769--87838821 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
87838759 TTAAATAATC
* *
87838769 AAAACTTATAATAAAACTGTTAAA
1 AAAAATTATAATAAAAATGTTAAA
* *
87838793 AGAAATTAT-ATAAAAATTTTAAA
1 AAAAATTATAATAAAAATGTTAAA
87838816 AAAAAT
1 AAAAAT
87838822 CTTAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAATTATAATAAAAATGTTAAA
Found at i:87842287 original size:17 final size:17
Alignment explanation
Indices: 87842265--87842298 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87842255 ATCCACTAAT
*
87842265 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
87842282 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
87842299 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:87846925 original size:17 final size:17
Alignment explanation
Indices: 87846903--87846936 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87846893 ATCCACTAAT
*
87846903 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
87846920 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
87846937 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:87848838 original size:23 final size:23
Alignment explanation
Indices: 87848811--87848856 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
87848801 ATTTCAAGTA
*
87848811 AATAGATCCACTTTT-TTTTTAGT
1 AATAGATCCA-TTTTATTATTAGT
*
87848834 AATAGTTCCATTTTATTATTAGT
1 AATAGATCCATTTTATTATTAGT
87848857 TGTTGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (23 bp):
AATAGATCCATTTTATTATTAGT
Found at i:87849067 original size:19 final size:18
Alignment explanation
Indices: 87849045--87849100 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
87849035 AGTTAGATTG
87849045 TTAGTTGTTAGTCTGTTAA
1 TTAGTTGTTAG-CTGTTAA
*
87849064 TTAGCTGTTTAGCTGTTGAA
1 TTAGTTG-TTAGCTGTT-AA
87849084 -TA-TTGTTAAGCTGTTAA
1 TTAGTTGTT-AGCTGTTAA
87849101 GAGCAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 13 0.41
20 6 0.19
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.48
Consensus pattern (18 bp):
TTAGTTGTTAGCTGTTAA
Found at i:87853018 original size:203 final size:203
Alignment explanation
Indices: 87852669--87853057 Score: 742
Period size: 203 Copynumber: 1.9 Consensus size: 203
87852659 CGTCGTTAAA
87852669 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
1 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
* *
87852734 TGTGAACAATGCCTTCTTGAATGGAGATATAGACATTGAGGTGTTTATGCATCAACCTCTAGGAT
66 TGTGAACAATGCCTTCTTGAATGGAGATATAGACACTGAGGTGTTTATGCATCAACCTCCAGGAT
87852799 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
131 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
87852864 AAACTAGG
196 AAACTAGG
87852872 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
1 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
*
87852937 TGTGAATAATGCCTTCTTGAATGGAGATATAGACACTGAGGTGTTTATGCATCAACCTCCAGGAT
66 TGTGAACAATGCCTTCTTGAATGGAGATATAGACACTGAGGTGTTTATGCATCAACCTCCAGGAT
*
87853002 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAGCACTT
131 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTT
87853058 TATGGCCTTC
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (203 bp):
CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
TGTGAACAATGCCTTCTTGAATGGAGATATAGACACTGAGGTGTTTATGCATCAACCTCCAGGAT
ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
AAACTAGG
Found at i:87856413 original size:14 final size:14
Alignment explanation
Indices: 87856394--87856422 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87856384 ATGACTTGGC
87856394 TGCCCTTCAGTTTA
1 TGCCCTTCAGTTTA
87856408 TGCCCTTCAGTTTA
1 TGCCCTTCAGTTTA
87856422 T
1 T
87856423 ACCCATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (14 bp):
TGCCCTTCAGTTTA
Found at i:87866116 original size:15 final size:15
Alignment explanation
Indices: 87866096--87866125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87866086 CAATAAATCT
*
87866096 TAATATTTTTTTTAA
1 TAATATTTATTTTAA
87866111 TAATATTTATTTTAA
1 TAATATTTATTTTAA
87866126 AATTTAAAAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATATTTATTTTAA
Found at i:87866131 original size:22 final size:23
Alignment explanation
Indices: 87866106--87866148 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
87866096 TAATATTTTT
* *
87866106 TTTAATAATATTTAT-TTTAAAA
1 TTTAAAAATATTAATATTTAAAA
87866128 TTTAAAAATATTAATATTTAA
1 TTTAAAAATATTAATATTTAA
87866149 TATTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAAAAATATTAATATTTAAAA
Found at i:87866399 original size:22 final size:20
Alignment explanation
Indices: 87866374--87866418 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
87866364 TTAAGTTTAT
87866374 ATATGATATTAATTATTATAAA
1 ATATGATATTAATTA-TA-AAA
* *
87866396 ATATTATATTATTTATAAAA
1 ATATGATATTAATTATAAAA
87866416 ATA
1 ATA
87866419 AAATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATTAATTATAAAA
Found at i:87866411 original size:19 final size:17
Alignment explanation
Indices: 87866379--87866415 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
87866369 TTTATATATG
87866379 ATATTAATTATTATAAA
1 ATATTAATTATTATAAA
87866396 ATATTATATTATTTATAAA
1 ATATTA-ATTA-TTATAAA
87866415 A
1 A
87866416 ATAAAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTAATTATTATAAA
Found at i:87878040 original size:27 final size:28
Alignment explanation
Indices: 87877972--87878040 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
87877962 TTCATAATAT
* *
87877972 TTTATGTAAATATTTTCTTTTAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
87878000 -TTATGTATATATTTTCTTTAAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
87878027 TTTATGTATA-ATTT
1 TTTATGTATATATTT
87878041 GGCTTTCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTAAAATTTA
Found at i:87882544 original size:131 final size:131
Alignment explanation
Indices: 87882392--87882652 Score: 324
Period size: 131 Copynumber: 2.0 Consensus size: 131
87882382 TAATTATTCA
*** * * **
87882392 TTTAAAAATTCTTTAAAACGAATGCAATGTTCGATGTTTAACAATTTAGGAAATCGTGCCCAATC
1 TTTAAAAATTCTTTAAAACGAAAAAAATATTCGATGTTTAACAATTCAAAAAATCGTGCCCAATC
* * * ** *
87882457 GTGTTAAATTGCAATATCCCGTTTGTTCAAAATAATCGAATATTTCTTTAAAATTTCACTCATGT
66 GTGCTAAATTGCAATATCCCGTTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATGT
87882522 C
131 C
* * * *
87882523 TTTAAAAATTCTTTAAGACGAAAAAAATATTCGATGTTTGACAATTCAAAAAATCTTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAAAAAATATTCGATGTTTAACAATTCAAAAAATCGTGCCCAATC
** * * *
87882588 GTGCTAGGTTGCAATTTCCCGTTTATTTAAAATAATCAAATATCCCTTTAGAACTTCACTCATGT
66 GTGCTAAATTGCAATATCCCGTTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATGT
87882653 TTTCTAAATT
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
131 108 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAAAAAATATTCGATGTTTAACAATTCAAAAAATCGTGCCCAATC
GTGCTAAATTGCAATATCCCGTTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATGT
C
Found at i:87886119 original size:29 final size:29
Alignment explanation
Indices: 87886078--87886133 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
87886068 TTTTCGTAGA
*
87886078 TTTAGAATTTAATCCCTCTA-TTTTTATT
1 TTTAGAAGTTAATCCCTCTACTTTTTATT
87886106 TTTAGGAAGTTAATCCCTCTACTTTTTA
1 TTTA-GAAGTTAATCCCTCTACTTTTTA
87886134 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (29 bp):
TTTAGAAGTTAATCCCTCTACTTTTTATT
Found at i:87887909 original size:15 final size:15
Alignment explanation
Indices: 87887889--87887917 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
87887879 TTCTTTTTTT
87887889 TTTGGGGGGGGGGGG
1 TTTGGGGGGGGGGGG
87887904 TTTGGGGGGGGGGG
1 TTTGGGGGGGGGGG
87887918 TGAGGGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.79, T:0.21
Consensus pattern (15 bp):
TTTGGGGGGGGGGGG
Found at i:87892127 original size:4 final size:4
Alignment explanation
Indices: 87892118--87892143 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
87892108 TGAGTTTCAC
87892118 CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CA
87892144 ACCCTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:87895229 original size:24 final size:24
Alignment explanation
Indices: 87895198--87895242 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
87895188 TTGGTTTGGT
*
87895198 TTTTAAAAAT-ATTTTCTATTTTA
1 TTTTAAAAATAATTTTATATTTTA
87895221 TTTTAAAAATAATTTTATATTT
1 TTTTAAAAATAATTTTATATTT
87895243 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTAAAAATAATTTTATATTTTA
Found at i:87895237 original size:17 final size:17
Alignment explanation
Indices: 87895215--87895252 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
87895205 AATATTTTCT
87895215 ATTTTAT-TTTAAAAATA
1 ATTTTATATTTAAAAA-A
*
87895232 ATTTTATATTTCAAAAA
1 ATTTTATATTTAAAAAA
87895249 ATTT
1 ATTT
87895253 AAAAAACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATATTTAAAAAA
Found at i:87903552 original size:20 final size:20
Alignment explanation
Indices: 87903527--87903569 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
87903517 AATAGCTACT
87903527 AAAAATTAAAGAAAAA-CATA
1 AAAAATTAAA-AAAAATCATA
87903547 AAAAATTAAAAAAAATCATA
1 AAAAATTAAAAAAAATCATA
87903567 AAA
1 AAA
87903570 GTTTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAATTAAAAAAAATCATA
Found at i:87903749 original size:112 final size:112
Alignment explanation
Indices: 87903624--87903856 Score: 328
Period size: 112 Copynumber: 2.1 Consensus size: 112
87903614 AAAGCAAAAG
*
87903624 AGTTTTATATTTTAAAATAAATAATAATAA-TTTTTG-AAAAAAAATCTTCAAAATCAAAACTAT
1 AGTTTTATATTTTAAAATAAA-AA-AATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTAT
* * * *
87903687 AAACTTTTTAATATTAGATCTGGAATATA-TAAAAATAGAAAATCCAATT
64 AAACTTCTAAATATTAGATCCGAAATATATTAAAAA-AGAAAATCCAATT
* *
87903736 AGTTTTGTATTTTAAAATAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATGA
1 AGTTTTATATTTTAAAATAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATAA
*
87903801 ACTTCTAAATATTAGATCCGAAATATATTAAAAAGGAAAATCCAATT
66 ACTTCTAAATATTAGATCCGAAATATATTAAAAAAGAAAATCCAATT
87903848 GCAGTTTTA
1 --AGTTTTA
87903857 GGAAAATTGG
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
110 5 0.05
111 8 0.07
112 82 0.77
113 6 0.06
114 6 0.06
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (112 bp):
AGTTTTATATTTTAAAATAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATAA
ACTTCTAAATATTAGATCCGAAATATATTAAAAAAGAAAATCCAATT
Found at i:87907296 original size:183 final size:174
Alignment explanation
Indices: 87906996--87907347 Score: 456
Period size: 183 Copynumber: 2.0 Consensus size: 174
87906986 AGGGGCATCA
* * **
87906996 TCTTCCAATTCCGCAACATGTATCAAGCTATCTTCGGTGAAAATATGGAGCATGGACAAGGTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
* * *
87907061 TGAAAGTTTGGGAATCGTATTAGGAGTGATGTCATCATCACTTTCAGCATTGAGAGGGAACTGAA
66 TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
* * * *
87907126 GTGCCTCCAAAAAATCAGAGGCATTAAGAAGTAATGCAGCCTTG
131 GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
* *
87907170 TCTTCCAATTCCTCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATTGACAAGTTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAG----G
*
87907235 ATGATCGTGTGAAAG-TTGGAGAATCGTAGTAGGGGT-ATTATCAACATCACTTTCAGCATTGAG
62 -T-A---TGTGAAAGTTTGG-GAATCGTAGTAGGAGTGA-TATCAACATCACTTTCAGCATTGAG
*
87907298 AGGGAACTGAAGAGCCTCCAGAAAATCAAAGGCATTAAAAAGTAAAGCAG
120 AGGGAACTGAAGAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAG
87907348 AGTCGTCTTC
Statistics
Matches: 152, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
174 54 0.36
178 1 0.01
179 1 0.01
180 1 0.01
182 5 0.03
183 90 0.59
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (174 bp):
TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
Found at i:87909038 original size:9 final size:9
Alignment explanation
Indices: 87908999--87909066 Score: 64
Period size: 9 Copynumber: 7.6 Consensus size: 9
87908989 ATAAGTATAA
*
87908999 AATTAATCG
1 AATTAACCG
**
87909008 AATTAATTG
1 AATTAACCG
**
87909017 AATTAACTT
1 AATTAACCG
*
87909026 AATTACCCG
1 AATTAACCG
* *
87909035 AATTACCCA
1 AATTAACCG
87909044 AATTAACCG
1 AATTAACCG
87909053 AATTAACCG
1 AATTAACCG
87909062 AATTA
1 AATTA
87909067 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:87909100 original size:5 final size:6
Alignment explanation
Indices: 87909085--87909125 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
87909075 AAATTATATT
*
87909085 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
87909126 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:87920867 original size:3 final size:3
Alignment explanation
Indices: 87920859--87920884 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
87920849 AGATTGAGTT
87920859 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
87920885 GTCCTCTCAT
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:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87922401 original size:20 final size:18
Alignment explanation
Indices: 87922375--87922421 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
87922365 TTTTTAATGA
87922375 TTAAAAAATGT-TAAAATT
1 TTAAAAAAT-TCTAAAATT
87922393 ATATAAAAAATTCTAAAATT
1 -T-TAAAAAATTCTAAAATT
87922413 TTAAAAAAT
1 TTAAAAAAT
87922422 AATTAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAAAAATTCTAAAATT
Found at i:87924188 original size:26 final size:24
Alignment explanation
Indices: 87924147--87924195 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
87924137 TCAAAGCCTC
87924147 ATTTAAATTTTGTATA-AATTTTT
1 ATTTAAATTTTGTATATAATTTTT
87924170 ATTTAATATATTTGTTATATAATTTT
1 ATTTAA-AT-TTTG-TATATAATTTT
87924196 GTTTTCACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.27
24 2 0.09
25 4 0.18
26 4 0.18
27 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTTAAATTTTGTATATAATTTTT
Found at i:87929154 original size:6 final size:7
Alignment explanation
Indices: 87929126--87929153 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
87929116 TAAAAAGTGT
87929126 ATTAAAA
1 ATTAAAA
87929133 ATTAAAA
1 ATTAAAA
87929140 ATTAAAA
1 ATTAAAA
87929147 ATTAAAA
1 ATTAAAA
87929154 TGGGGATGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:87929487 original size:27 final size:30
Alignment explanation
Indices: 87929432--87929490 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
87929422 GAGTTTGAAT
87929432 ACTGTAGTAGTGAATAAAATTTATGATGAG
1 ACTGTAGTAGTGAATAAAATTTATGATGAG
87929462 ACTGTAGTAGTGAATAAAATTTATGATGA
1 ACTGTAGTAGTGAATAAAATTTATGATGA
87929491 CATTTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (30 bp):
ACTGTAGTAGTGAATAAAATTTATGATGAG
Found at i:87931533 original size:23 final size:23
Alignment explanation
Indices: 87931467--87931533 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
87931457 TATAAGAAAA
*
87931467 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
87931487 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
87931510 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
87931533 A
1 A
87931534 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:87931533 original size:29 final size:28
Alignment explanation
Indices: 87931448--87931563 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 28
87931438 TAACAAAAGT
* *
87931448 AAAAATATATATAAGAAAAATAATAAT-G
1 AAAAATATAAAT-AGATAAATAATAATAG
* * *
87931476 AAAATAATATTAGTATATAAATAGA-AATA-
1 -AAA-AATATAAATAGATAAATA-ATAATAG
87931505 AAAATATAATAAATAGA-AATATAATAATAG
1 AAAA-AT-ATAAATAGATAA-ATAATAATAG
*
87931535 TAGAAATATAAATAGATAAATAATAATAG
1 -AAAAATATAAATAGATAAATAATAATAG
87931564 TATTAGAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
27 1 0.01
28 8 0.12
29 45 0.66
30 11 0.16
31 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAAATATAAATAGATAAATAATAATAG
Found at i:87931540 original size:17 final size:15
Alignment explanation
Indices: 87931500--87931545 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
87931490 ATATAAATAG
*
87931500 AAATAAAAATATAAT
1 AAATAGAAATATAAT
87931515 AAATAGAAATATAAT
1 AAATAGAAATATAAT
87931530 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
87931546 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:87931545 original size:14 final size:15
Alignment explanation
Indices: 87931525--87931565 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
87931515 AAATAGAAAT
87931525 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
87931540 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
87931554 ATAATAATAGTA
1 ATAATAATAGTA
87931566 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:87931560 original size:15 final size:14
Alignment explanation
Indices: 87931500--87931560 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
87931490 ATATAAATAG
*
87931500 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
87931515 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
87931530 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
87931544 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
87931559 AA
1 AA
87931561 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:87935428 original size:2 final size:2
Alignment explanation
Indices: 87935421--87935450 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
87935411 TCTCACATGG
*
87935421 AT AT AT AT 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
87935451 CCGATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87943672 original size:12 final size:12
Alignment explanation
Indices: 87943651--87943684 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
87943641 TATATATATT
*
87943651 AAAATTATATAA
1 AAAATAATATAA
87943663 AAAATAATATAA
1 AAAATAATATAA
*
87943675 AAATTAATAT
1 AAAATAATAT
87943685 GGGCGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:87944345 original size:26 final size:26
Alignment explanation
Indices: 87944316--87944369 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
87944306 CATTTGCTTG
*
87944316 TTAAGT-TACAT-TTATTTTAGTGTTAT
1 TTAAGTATACATATT-TTTTAAT-TTAT
87944342 TTAAGTATACATATTTTTTAATTTAT
1 TTAAGTATACATATTTTTTAATTTAT
87944368 TT
1 TT
87944370 TTAATTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 12 0.48
27 11 0.44
28 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
TTAAGTATACATATTTTTTAATTTAT
Found at i:87948624 original size:18 final size:19
Alignment explanation
Indices: 87948601--87948692 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 19
87948591 AAAATAAAAT
87948601 ATAATTTAATT-TTTTATA
1 ATAATTTAATTATTTTATA
87948619 ATAATTTAATGTAGTTTTAAATTA
1 ATAATTTAAT-TA-TTTT--A-TA
* *
87948643 ATTAAATTTTCATTATTTTTTA
1 A-T-AA-TTTAATTATTTTATA
*
87948665 GTAATTTAATT-TTTTATA
1 ATAATTTAATTATTTTATA
87948683 ATAATTTAAT
1 ATAATTTAAT
87948693 GCAGCTTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
18 25 0.42
19 7 0.12
20 2 0.03
21 5 0.08
22 2 0.03
23 1 0.02
24 3 0.05
25 5 0.08
26 4 0.07
27 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (19 bp):
ATAATTTAATTATTTTATA
Found at i:87948676 original size:64 final size:64
Alignment explanation
Indices: 87948602--87948725 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
87948592 AAATAAAATA
* *
87948602 TAATTTAATTTTTTATAATAATTTAATGTAGTTTTAAATTAATTAAATTTTCATTATTTTTTAG
1 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTTTTAG
*
87948666 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAGTTTTCATTATTTT
1 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTT
87948726 GTAATTAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (64 bp):
TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTTTTAG
Found at i:87955917 original size:26 final size:25
Alignment explanation
Indices: 87955870--87955949 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 25
87955860 TTTAAAAAAT
87955870 ATTATTTTAAATAATTAAAAAAAGATTAAA
1 ATTATTTT-AA-AATT--AAAAA-ATTAAA
*
87955900 ATTATTTTAAAATTAAAAAAGTTAAT
1 ATTATTTTAAAATTAAAAAA-TTAAA
* * *
87955926 CTTTTTTTAAACTTAAAAAATTAA
1 ATTATTTTAAAATTAAAAAATTAA
87955950 TTAAAAGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
25 5 0.11
26 26 0.58
28 4 0.09
29 2 0.04
30 8 0.18
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTTTAAAATTAAAAAATTAAA
Found at i:87956536 original size:6 final size:6
Alignment explanation
Indices: 87956525--87956566 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
87956515 AATTGATTAT
* *
87956525 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
87956567 AAAAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:87956548 original size:18 final size:17
Alignment explanation
Indices: 87956525--87956572 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
87956515 AATTGATTAT
87956525 ATTAAAATTAAAATTAAA
1 ATTAAAA-TAAAATTAAA
*
87956543 ATTAAAATATAATTAAA
1 ATTAAAATAAAATTAAA
* *
87956560 AATAAAAAAAAAT
1 ATTAAAATAAAAT
87956573 ATATTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAATAAAATTAAA
Found at i:87975248 original size:30 final size:30
Alignment explanation
Indices: 87975203--87975264 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
87975193 TTTAATAAGA
* * *
87975203 AAATTCCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAACAACAAAAGTAAC
* *
87975233 AAATACCTTTAAAATAACAATAAAAGTAAC
1 AAATACCTCTAAAATAACAACAAAAGTAAC
87975263 AA
1 AA
87975265 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.24
Consensus pattern (30 bp):
AAATACCTCTAAAATAACAACAAAAGTAAC
Found at i:87975264 original size:12 final size:11
Alignment explanation
Indices: 87975242--87975272 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
87975232 CAAATACCTT
87975242 TAAAATAACAA
1 TAAAATAACAA
87975253 TAAAAGTAACAA
1 TAAAA-TAACAA
87975265 TAAAATAA
1 TAAAATAA
87975273 GTTTTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (11 bp):
TAAAATAACAA
Found at i:87977008 original size:19 final size:21
Alignment explanation
Indices: 87976952--87977013 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
87976942 ATTGAGTGGA
* *
87976952 TCAGCACTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
*
87976973 TCAGCTCTTAGGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
87976994 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
87977013 T
1 T
87977014 GGTGTATTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.30
20 2 0.05
21 24 0.65
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:87981429 original size:22 final size:23
Alignment explanation
Indices: 87981404--87981449 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
87981394 CAACCAAACC
87981404 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
87981426 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
87981449 A
1 A
87981450 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:87981455 original size:23 final size:23
Alignment explanation
Indices: 87981411--87981455 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87981401 ACCAATTCAA
*
87981411 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
87981434 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
87981456 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:87992675 original size:12 final size:11
Alignment explanation
Indices: 87992654--87992702 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
87992644 ATTGAGTCTA
87992654 TTTATTTTATT
1 TTTATTTTATT
87992665 TTTAGTTTTATT
1 TTTA-TTTTATT
* *
87992677 TCTATTTTTATG
1 TTTA-TTTTATT
87992689 TTTATTGTTATT
1 TTTATT-TTATT
87992701 TT
1 TT
87992703 CTTAGACTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 6 0.19
12 25 0.81
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:87992684 original size:18 final size:18
Alignment explanation
Indices: 87992654--87992702 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
87992644 ATTGAGTCTA
87992654 TTTATTTTATTTTTA-GT
1 TTTATTTTATTTTTATGT
87992671 TTTATTTCTATTTTTATG-
1 TTTATTT-TATTTTTATGT
87992689 TTTATTGTTATTTT
1 TTTATT-TTATTTT
87992703 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.24
18 20 0.69
19 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTATTTTATTTTTATGT
Found at i:88004845 original size:23 final size:22
Alignment explanation
Indices: 88004800--88004882 Score: 66
Period size: 23 Copynumber: 3.8 Consensus size: 22
88004790 TGGTGATATT
* *
88004800 TTATAATTATTTAAT-TATATAA
1 TTATATTTATTTAATAT-TTTAA
88004822 TTATTATTTATTTAATATTTTAA
1 TTA-TATTTATTTAATATTTTAA
* *
88004845 TAAGATATTTA-TTATTATTTT-A
1 T--TATATTTATTTAATATTTTAA
88004867 TTAT-TTTATTTAATAT
1 TTATATTTATTTAATAT
88004883 ATATATGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
19 4 0.08
20 8 0.16
22 5 0.10
23 25 0.50
24 7 0.14
25 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTATATTTATTTAATATTTTAA
Found at i:88010159 original size:20 final size:20
Alignment explanation
Indices: 88010134--88010174 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
88010124 TTGAATACAT
88010134 GAAATTTGATTAGATACTGG
1 GAAATTTGATTAGATACTGG
*
88010154 GAAATTTGATTGGATACTGG
1 GAAATTTGATTAGATACTGG
88010174 G
1 G
88010175 CTACTGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (20 bp):
GAAATTTGATTAGATACTGG
Found at i:88013867 original size:16 final size:17
Alignment explanation
Indices: 88013831--88013867 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
88013821 TTTTAAAAGG
88013831 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
88013848 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
88013865 AAA
1 AAA
88013868 TTTTAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:88024920 original size:44 final size:41
Alignment explanation
Indices: 88024841--88024922 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
88024831 GATCAGAATA
* * *
88024841 CGACACATAAGTGCCTGAAACGACACACGAGGTGTCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGTCTGCTG
*
88024882 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGTCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGTCTG
88024923 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGTCTGCTG
Found at i:88024923 original size:23 final size:22
Alignment explanation
Indices: 88024836--88024923 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 22
88024826 TACCTGATCA
*
88024836 GAATACGACACA-TAAGTGCCT
1 GAATACGACACACAAAGTGCCT
* * *
88024857 GAA-ACGACACACGAGGTGTCT
1 GAATACGACACACAAAGTGCCT
* * *
88024878 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAAGTGCCT
* *
88024899 GAAATACGACACATAAAGTGTCT
1 G-AATACGACACACAAAGTGCCT
88024922 GA
1 GA
88024924 TCAGTAAAGC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
20 8 0.16
21 26 0.51
22 1 0.02
23 16 0.31
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GAATACGACACACAAAGTGCCT
Found at i:88025209 original size:29 final size:28
Alignment explanation
Indices: 88025127--88025210 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
88025117 AACACACTAG
* *
88025127 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
88025155 TATAATCCTCCCAAACACATCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
88025183 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
88025211 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:88025894 original size:16 final size:16
Alignment explanation
Indices: 88025873--88025906 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88025863 GAGTTACCGA
*
88025873 TTCATTTATCAGATAT
1 TTCATTAATCAGATAT
*
88025889 TTCATTAATCCGATAT
1 TTCATTAATCAGATAT
88025905 TT
1 TT
88025907 TTTTTTCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (16 bp):
TTCATTAATCAGATAT
Found at i:88036198 original size:38 final size:38
Alignment explanation
Indices: 88036156--88036252 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 38
88036146 ACCATTTCCG
* * *
88036156 CCCAACCCAACACACCATGTGGGGATAGAATCGACCCA
1 CCCAACCCTACACACCATATGGGGATAGAATCAACCCA
* *
88036194 CCCAACCCTGCACACCAAGTATGGGGATATAATCAACCCA
1 CCCAACCCTACACACC-A-TATGGGGATAGAATCAACCCA
* *
88036234 TCCAACCCTACACGCCATA
1 CCCAACCCTACACACCATA
88036253 AGGTACCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 16 0.33
39 2 0.04
40 31 0.63
ACGTcount: A:0.34, C:0.38, G:0.14, T:0.13
Consensus pattern (38 bp):
CCCAACCCTACACACCATATGGGGATAGAATCAACCCA
Found at i:88036605 original size:27 final size:27
Alignment explanation
Indices: 88036567--88036622 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
88036557 CCTGTGCAAC
88036567 CTTACAGAACATTTCAAACAAATTAGG
1 CTTACAGAACATTTCAAACAAATTAGG
*
88036594 CTTACAGAACATTTCAAACAAATTGGG
1 CTTACAGAACATTTCAAACAAATTAGG
88036621 CT
1 CT
88036623 CACACGCCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (27 bp):
CTTACAGAACATTTCAAACAAATTAGG
Found at i:88041143 original size:43 final size:44
Alignment explanation
Indices: 88041062--88041150 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
88041052 TCAGATTGAA
88041062 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
1 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
88041106 TTCCATCTTTCTGGTAATA-TTACTTTAAAATGGACCATGTTGG
1 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
88041149 TT
1 TT
88041151 GTCTGCAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 26 0.58
44 19 0.42
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (44 bp):
TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
Found at i:88047231 original size:66 final size:66
Alignment explanation
Indices: 88047125--88047255 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
88047115 CAAAAGGTTT
* *
88047125 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
88047190 G
66 G
* *
88047191 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
88047256 CACATTTGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:88047523 original size:16 final size:16
Alignment explanation
Indices: 88047496--88047529 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
88047486 ATTTTAGTAA
88047496 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
88047513 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
88047528 AT
1 AT
88047530 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:88047558 original size:47 final size:47
Alignment explanation
Indices: 88047507--88047651 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
88047497 TTATATAAGA
*
88047507 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
88047554 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
88047598 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
88047645 ATATTTA
1 ATATTTA
88047652 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:88047618 original size:44 final size:43
Alignment explanation
Indices: 88047493--88047619 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
88047483 ATGATTTTAG
88047493 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
88047539 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
88047583 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
88047620 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:88047824 original size:120 final size:118
Alignment explanation
Indices: 88047716--88048218 Score: 898
Period size: 120 Copynumber: 4.2 Consensus size: 118
88047706 TTTTCAAGTT
*
88047716 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
88047781 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
88047836 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
88047901 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
88047956 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
88048021 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
88048076 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
88048141 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATAAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT--TA
88048196 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
88048219 TAAATATGAT
Statistics
Matches: 376, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
120 376 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (118 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:88048075 original size:18 final size:17
Alignment explanation
Indices: 88048047--88048081 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88048037 ATTATTAAGA
*
88048047 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
88048064 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
88048082 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:88048201 original size:16 final size:16
Alignment explanation
Indices: 88048180--88048221 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
88048170 TTATTAAATT
88048180 ATATATTTTAATAAAA
1 ATATATTTTAATAAAA
*
88048196 ATATA-TTTAATAATA
1 ATATATTTTAATAAAA
88048211 AT-TATGTTTAA
1 ATATAT-TTTAA
88048222 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:88048431 original size:44 final size:45
Alignment explanation
Indices: 88048366--88048456 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
88048356 ACCTCTATTC
* * *
88048366 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
88048410 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
88048455 CA
1 CA
88048457 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:88048458 original size:16 final size:16
Alignment explanation
Indices: 88048437--88048505 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
88048427 GATTAGCTAT
88048437 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
88048453 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
88048470 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
88048486 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
88048502 TACA
1 TACA
88048506 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:88048479 original size:33 final size:32
Alignment explanation
Indices: 88048437--88048505 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
88048427 GATTAGCTAT
88048437 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
88048470 TACACCTCTAATCCAATACATCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
88048502 TACA
1 TACA
88048506 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:88050725 original size:20 final size:19
Alignment explanation
Indices: 88050659--88050732 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
88050649 CACATGTATT
*
88050659 TCAT-AAATTTTCAAAAAA
1 TCATAAAATTTTTAAAAAA
** * *
88050677 AAACTAAAATTATTAAAAAT
1 TCA-TAAAATTTTTAAAAAA
*
88050697 TCA-ATAATTTTTGAAAAAA
1 TCATAAAATTTTT-AAAAAA
88050716 TCATAAAATTTTTAAAA
1 TCATAAAATTTTTAAAA
88050733 GATTATCTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
18 8 0.20
19 13 0.32
20 20 0.49
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
TCATAAAATTTTTAAAAAA
Found at i:88053067 original size:13 final size:13
Alignment explanation
Indices: 88053051--88053103 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
88053041 TTTAAATTAA
88053051 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
88053064 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
88053077 ACTTTTCAACAGC
1 ACTTTTCAAAAGC
88053090 ACTTGTT-AAAAGC
1 ACTT-TTCAAAAGC
88053103 A
1 A
88053104 TTGCTAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 31 0.94
14 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:88054291 original size:3 final size:3
Alignment explanation
Indices: 88054283--88054311 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
88054273 TTATATTTAA
88054283 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
88054312 GTCAATTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:88056901 original size:29 final size:30
Alignment explanation
Indices: 88056838--88056903 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
88056828 ATTAAGCCCC
88056838 CCAA-AAAAACCTAACCCAAAAAAAAAAAA
1 CCAAGAAAAACCTAACCCAAAAAAAAAAAA
** *
88056867 AAAAGAAAAACCTAACCC-CAAAAAAAAAA
1 CCAAGAAAAACCTAACCCAAAAAAAAAAAA
88056896 CCAAGAAA
1 CCAAGAAA
88056904 CCCTAGCCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.71, C:0.23, G:0.03, T:0.03
Consensus pattern (30 bp):
CCAAGAAAAACCTAACCCAAAAAAAAAAAA
Found at i:88067616 original size:71 final size:69
Alignment explanation
Indices: 88067518--88067692 Score: 226
Period size: 71 Copynumber: 2.5 Consensus size: 69
88067508 TTTTCAAGGG
* *
88067518 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
88067582 GTTTT
65 GTTTT
** * *
88067587 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
88067652 TGTTTT
64 TGTTTT
** * *
88067658 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
88067693 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Done.