Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 26 of 141
Found at i:8616116 original size:14 final size:14
Alignment explanation
Indices: 8616084--8616126 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
8616074 GTTCTTCCAA
8616084 ATTGGG-CTAGGGT
1 ATTGGGCCTAGGGT
*
8616097 -TTGGGCCTAGTGT
1 ATTGGGCCTAGGGT
*
8616110 ATTGGGCCAAGGGT
1 ATTGGGCCTAGGGT
8616124 ATT
1 ATT
8616127 TGGGTAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 14 0.56
ACGTcount: A:0.16, C:0.12, G:0.40, T:0.33
Consensus pattern (14 bp):
ATTGGGCCTAGGGT
Found at i:8618316 original size:22 final size:22
Alignment explanation
Indices: 8618288--8618337 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
8618278 TTAATTTTTT
8618288 TAAAAAAATTAAATTAAAAA-AA
1 TAAAAAAA-TAAATTAAAAAGAA
* *
8618310 TAAAAAAATAATTTAAAAAGTA
1 TAAAAAAATAAATTAAAAAGAA
8618332 TAAAAA
1 TAAAAA
8618338 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAAAAATAAATTAAAAAGAA
Found at i:8618322 original size:20 final size:20
Alignment explanation
Indices: 8618288--8618350 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
8618278 TTAATTTTTT
8618288 TAAAAAAATTAAATTAAAAAAA
1 TAAAAAAA-T-AATTAAAAAAA
* *
8618310 TAAAAAAATAATTTAAAAAG
1 TAAAAAAATAATTAAAAAAA
* *
8618330 TATAAAAATTA-TAAAAAAA
1 TAAAAAAATAATTAAAAAAA
8618349 TA
1 TA
8618351 TTTTTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
19 8 0.23
20 18 0.51
21 1 0.03
22 8 0.23
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
TAAAAAAATAATTAAAAAAA
Found at i:8621033 original size:1 final size:1
Alignment explanation
Indices: 8621027--8621081 Score: 110
Period size: 1 Copynumber: 55.0 Consensus size: 1
8621017 AAAGAAATGC
8621027 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8621082 GAGCAAAGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8629214 original size:19 final size:20
Alignment explanation
Indices: 8629190--8629228 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8629180 TAAATCAGTT
8629190 TATTATCTACA-TTA-AATTC
1 TATTAT-TACAGTTAGAATTC
8629209 TATTATTACAGTTAGAATTC
1 TATTATTACAGTTAGAATTC
8629229 GAATCGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTATTACAGTTAGAATTC
Found at i:8629556 original size:24 final size:24
Alignment explanation
Indices: 8629524--8629572 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8629514 ATAATGTCTT
8629524 AAACTCGTATTCTTAATTCGTTAA
1 AAACTCGTATTCTTAATTCGTTAA
8629548 AAACTCGTATTCTTAATTCGTTAA
1 AAACTCGTATTCTTAATTCGTTAA
8629572 A
1 A
8629573 CTGATGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (24 bp):
AAACTCGTATTCTTAATTCGTTAA
Found at i:8630194 original size:46 final size:47
Alignment explanation
Indices: 8630118--8630210 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
8630108 TTCTTTCAAC
8630118 GTCTATTTTATTTATTTATTTATAATTTTGTAAAAATATATTTTCAG
1 GTCTATTTTATTTATTTATTTATAATTTTGTAAAAATATATTTTCAG
8630165 GTCTATTTTATTTA-TTATTTATAATTTTGTAAAAATATATTTTCAG
1 GTCTATTTTATTTATTTATTTATAATTTTGTAAAAATATATTTTCAG
8630211 TTAAATTGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 32 0.70
47 14 0.30
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (47 bp):
GTCTATTTTATTTATTTATTTATAATTTTGTAAAAATATATTTTCAG
Found at i:8645496 original size:11 final size:11
Alignment explanation
Indices: 8645480--8645512 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8645470 CCACTTTTTT
*
8645480 GGCCCGGGCCG
1 GGCCCGGGCCC
8645491 GGCCCGGGCCC
1 GGCCCGGGCCC
8645502 GGCCC-GGCCC
1 GGCCCGGGCCC
8645512 G
1 G
8645513 ATATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.00, C:0.52, G:0.48, T:0.00
Consensus pattern (11 bp):
GGCCCGGGCCC
Found at i:8645553 original size:19 final size:19
Alignment explanation
Indices: 8645529--8645599 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
8645519 TAAATATATT
8645529 TATTTTTTAAATTTTAAAA
1 TATTTTTTAAATTTTAAAA
**
8645548 TATTTTTTACATACTTTTTTAA
1 TATTTTTTA-A-A-TTTTAAAA
8645570 T-TTTTTTAAATTTTAAAA
1 TATTTTTTAAATTTTAAAA
*
8645588 TATTTTTAAAAT
1 TATTTTTTAAAT
8645600 ACTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 19 0.44
20 2 0.05
21 8 0.19
22 7 0.16
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTTTAAATTTTAAAA
Found at i:8645624 original size:42 final size:42
Alignment explanation
Indices: 8645531--8645646 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
8645521 AATATATTTA
* *
8645531 TTTTTTAAATTTTAAAATATTTTTTACATAC--TTTTTTAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
8645571 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
* *
8645613 TTTTTTTAATTTTAAAATATTTTAAAAATA-TTTT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTT
8645647 AAAAATACTT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
40 29 0.41
41 4 0.06
42 37 0.53
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (42 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
Found at i:8645634 original size:10 final size:10
Alignment explanation
Indices: 8645621--8645684 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
8645611 ATTTTTTTTA
8645621 ATTTTAAAAT
1 ATTTTAAAAT
8645631 ATTTTAAAAAT
1 ATTTT-AAAAT
8645642 ATTTTAAAAAT
1 ATTTT-AAAAT
**
8645653 ACTTTTTTTAAT
1 A--TTTTAAAAT
*
8645665 TTTTTAAAAT
1 ATTTTAAAAT
8645675 -TTTTAAAAT
1 ATTTTAAAAT
8645684 A
1 A
8645685 AAAATGNNNN
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 9 0.20
10 12 0.27
11 17 0.38
12 3 0.07
13 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:8645635 original size:52 final size:53
Alignment explanation
Indices: 8645562--8645684 Score: 171
Period size: 52 Copynumber: 2.4 Consensus size: 53
8645552 TTTTACATAC
** *
8645562 TTTTTTAATTTTTTTAA-ATTTT-AAAATATTTTTAAAATACTTTTTTTTAATT
1 TTTTTTAATTTTTAAAATATTTTAAAAATATTTTAAAAATAC-TTTTTTTAATT
8645614 TTTTTTAA-TTTTAAAATATTTTAAAAATATTTTAAAAATACTTTTTTTAATT
1 TTTTTTAATTTTTAAAATATTTTAAAAATATTTTAAAAATACTTTTTTTAATT
**
8645666 TTTTAAAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
8645685 AAAATGNNNN
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 6 0.10
52 30 0.48
53 27 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (53 bp):
TTTTTTAATTTTTAAAATATTTTAAAAATATTTTAAAAATACTTTTTTTAATT
Found at i:8645659 original size:42 final size:41
Alignment explanation
Indices: 8645531--8645682 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 41
8645521 AATATATTTA
* ** * **
8645531 TTTTTTAAATTTTAAAATATTTTTTACATACTTTT-TTAAT
1 TTTTTTTAATTTTAAAATATTTTAAAAATACTTTTAAAAAT
* * ***
8645571 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTAAAAATAC-TTTTAAAAAT
8645613 TTTTTTTAATTTTAAAATATTTTAAAAATA-TTTTAAAAAT
1 TTTTTTTAATTTTAAAATATTTTAAAAATACTTTTAAAAAT
8645653 ACTTTTTTTAATTTTTTAAAAT-TTTTAAAA
1 --TTTTTTTAA--TTTTAAAATATTTTAAAA
8645683 TAAAAATGNN
Statistics
Matches: 99, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
40 36 0.36
41 4 0.04
42 42 0.42
43 8 0.08
44 9 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTAAAAATACTTTTAAAAAT
Found at i:8647358 original size:17 final size:14
Alignment explanation
Indices: 8647324--8647351 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8647314 GTTTGGAGGC
8647324 AGTTTGCTTGATGA
1 AGTTTGCTTGATGA
8647338 AGTTTGCTTGATGA
1 AGTTTGCTTGATGA
8647352 TAAAGTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
AGTTTGCTTGATGA
Found at i:8653807 original size:30 final size:30
Alignment explanation
Indices: 8653773--8653914 Score: 124
Period size: 30 Copynumber: 4.7 Consensus size: 30
8653763 TTCCTCAATT
* *
8653773 GTCGGCTCTTTTGTGGCTTCTGCATGGACA
1 GTCGGCGCTTCTGTGGCTTCTGCATGGACA
* *
8653803 GTCGGCGCTTCTGCGGCTT-TGGCATGGGCA
1 GTCGGCGCTTCTGTGGCTTCT-GCATGGACA
* * * * * *
8653833 GTCGCCACTTTTGCGACTTCTCCATGGACA
1 GTCGGCGCTTCTGTGGCTTCTGCATGGACA
* * * * * *
8653863 GTCGACGTTTCTGTGGCTTTTGCATAGTCC
1 GTCGGCGCTTCTGTGGCTTCTGCATGGACA
8653893 GTCGGCGCTTCTGTGGCTTCTG
1 GTCGGCGCTTCTGTGGCTTCTG
8653915 TATAAACCGT
Statistics
Matches: 86, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
29 1 0.01
30 84 0.98
31 1 0.01
ACGTcount: A:0.09, C:0.27, G:0.30, T:0.34
Consensus pattern (30 bp):
GTCGGCGCTTCTGTGGCTTCTGCATGGACA
Found at i:8653913 original size:60 final size:60
Alignment explanation
Indices: 8653773--8653913 Score: 156
Period size: 60 Copynumber: 2.4 Consensus size: 60
8653763 TTCCTCAATT
* * * *
8653773 GTCGGCTCTTTTGTGGCTTCTGCATGGACAGTCGGCGCTTCTGCGGCTTTGGCATGGGCA
1 GTCGGCACTTTTGTGGCTTCTCCATGGACAGTCGACGCTTCTGCGGCTTTGGCATAGGCA
* * * * * * * *
8653833 GTCGCCACTTTTGCGACTTCTCCATGGACAGTCGACGTTTCTGTGGCTTTTGCATAGTCC
1 GTCGGCACTTTTGTGGCTTCTCCATGGACAGTCGACGCTTCTGCGGCTTTGGCATAGGCA
* *
8653893 GTCGGCGCTTCTGTGGCTTCT
1 GTCGGCACTTTTGTGGCTTCT
8653914 GTATAAACCG
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.09, C:0.27, G:0.30, T:0.34
Consensus pattern (60 bp):
GTCGGCACTTTTGTGGCTTCTCCATGGACAGTCGACGCTTCTGCGGCTTTGGCATAGGCA
Found at i:8654815 original size:105 final size:102
Alignment explanation
Indices: 8654613--8655077 Score: 357
Period size: 105 Copynumber: 4.5 Consensus size: 102
8654603 CTTTTTATTG
** ** *
8654613 TGTATAAAGTCGGTGCCGGCCATTGTCAGGCCACCCTTAATTTTTTTTACTTTTTTCGTATATTG
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
** **
8654678 GTGCCGGTCATTGTTACACCAAAAGTAAAAAAAAAATTAT
66 GTGCCGCCCATTGACACACCAAAAGT-AAAAAAAAA--AT
* * *
8654718 TGTATAAAGGGGGTGCCTGCCATTTTCAGGCCACCCCAAATTTTGTTTTTACTTTTTTCGTATAC
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAA-TTT-TTTTTACTTTTTTCGTATAC
* * *
8654783 TAGTGCCGCCCATTGACAGAGCAAAAGTAAAAAAAAAAT
64 TGGTGCCGCCCATTGACACACCAAAAGTAAAAAAAAAAT
* * * * * *
8654822 TGTATAAATAGGGTGTCGGCCATTGCCAGGCCA-CTCGAATTTTTTTTACTTTTTTCGTATGCTG
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
* *
8654886 GTGTCGGCCAATT-ACACACCAAAAGTAAAAAAAAAAATTAT
66 GTG-CCGCCCATTGACACACCAAAAGT--AAAAAAAAA--AT
** * * * * * * *
8654927 TGTAGGAAGTGGGTGTCGACCATTGCCAGG-C-CGCCAATTTTTTTTTACTTTTTTCGTATTCTG
1 TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
* * * * * * *
8654990 GTGCTGGCAATTGACAAAACAACA-TCCAAAAAAAAATT
66 GTGCCGCCCATTGACACACCAAAAGT--AAAAAAAAAAT
* * * * *
8655028 TCCGTATAAAG-GGGTGCCGTCCATTGACAGGCTAGCACCTAATTTTTTTT
1 T--GTATAAAGAGGGTGCCGGCCATTGTCAGGCCA-CCCCAAATTTTTTTT
8655078 TTCCTTTTTT
Statistics
Matches: 291, Mismatches: 55, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
101 36 0.12
102 27 0.09
103 36 0.12
104 67 0.23
105 73 0.25
106 12 0.04
107 40 0.14
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (102 bp):
TGTATAAAGAGGGTGCCGGCCATTGTCAGGCCACCCCAAATTTTTTTTACTTTTTTCGTATACTG
GTGCCGCCCATTGACACACCAAAAGTAAAAAAAAAAT
Found at i:8654919 original size:104 final size:102
Alignment explanation
Indices: 8654613--8655087 Score: 374
Period size: 104 Copynumber: 4.5 Consensus size: 102
8654603 CTTTTTATTG
* * *
8654613 TGTATAAAGTCGGTGCCGGCCATTGTCAGGCCACCCTTAA-TTTTTTTTACTTTTTTCGTATATT
1 TGTATAAA-TGGGTGCCGGCCATTGCCAGGCCACCC--AATTTTTTTTTACTTTTTTCGTATACT
* ** *
8654677 GGTGCCGGTCATTGTTACACCAAAAGTAAAAAAAAAATTAT
63 GGTG-CGGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
* * **
8654718 TGTATAAAGGGGGTGCCTGCCATTTTCAGGCCACCCCAAATTTTGTTTTTACTTTTTTCGTATAC
1 TGTATAAA-TGGGTGCCGGCCATTGCCAGGCCA-CCC-AATTTT-TTTTTACTTTTTTCGTATAC
* * * *
8654783 TAGTGCCGCCCATTGACAGAGCAAAAGT--AAAAAAAAA-AT
62 TGGTG-CGGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
* * *
8654822 TGTATAAATAGGGTGTCGGCCATTGCCAGGCCACTCGAA-TTTTTTTTACTTTTTTCGTATGCTG
1 TGTATAAAT-GGGTGCCGGCCATTGCCAGGCCAC-CCAATTTTTTTTTACTTTTTTCGTATACTG
8654886 GTGTCGGCCAATT-ACACACCAAAAGTAAAAAAAAAAATTAT
64 GTG-CGGCC-ATTGACACACCAAAAGTAAAAAAAAAAA-TAT
* * * * * *
8654927 TGTAGGAAGTGGGTGTCGACCATTGCCAGGCC-GCCAATTTTTTTTTACTTTTTTCGTATTCTGG
1 TGTA-TAAATGGGTGCCGGCCATTGCCAGGCCACCCAATTTTTTTTTACTTTTTTCGTATACTGG
* * * * **
8654991 TGCTGGCAATTGACAAAACAACA-TCCAAAAAAAAAT-T
65 TGC-GGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
* * * * *
8655028 TCCGTATAAAGGGGTGCCGTCCATTGACAGGCTAGCACCTAATTTTTTTTTTCCTTTTTT
1 T--GTATAAATGGGTGCCGGCCATTGCCAGGC---CACCCAA-TTTTTTTTTACTTTTTT
8655088 TCTTGTTTTC
Statistics
Matches: 302, Mismatches: 47, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
101 40 0.13
102 27 0.09
103 32 0.11
104 68 0.23
105 67 0.22
106 12 0.04
107 56 0.19
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (102 bp):
TGTATAAATGGGTGCCGGCCATTGCCAGGCCACCCAATTTTTTTTTACTTTTTTCGTATACTGGT
GCGGCCATTGACACACCAAAAGTAAAAAAAAAAATAT
Found at i:8656863 original size:24 final size:25
Alignment explanation
Indices: 8656836--8656903 Score: 122
Period size: 24 Copynumber: 2.8 Consensus size: 25
8656826 TAGAGGGTTA
8656836 GCGGGAGGGATATTATCCTCT-GTT
1 GCGGGAGGGATATTATCCTCTCGTT
8656860 GCGGGAGGGATATTATCCT-TCGTT
1 GCGGGAGGGATATTATCCTCTCGTT
8656884 GCGGGAGGGATATTATCCTC
1 GCGGGAGGGATATTATCCTC
8656904 ATCATTCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.31
Consensus pattern (25 bp):
GCGGGAGGGATATTATCCTCTCGTT
Found at i:8657205 original size:30 final size:30
Alignment explanation
Indices: 8657171--8657255 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
8657161 ATTGTCGGCT
* *
8657171 CTTCTGTGGCTTTTGCATGGACAGTCGACG
1 CTTCTGTGGCTTCTGCATGGACAGTCGACA
* * *
8657201 CTTCTGCGGCTTCGGCATGGACAGTCGGCA
1 CTTCTGTGGCTTCTGCATGGACAGTCGACA
* *
8657231 CTTCTGTAGCTTCTACATGGACAGT
1 CTTCTGTGGCTTCTGCATGGACAGT
8657256 GGGCGTTTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (30 bp):
CTTCTGTGGCTTCTGCATGGACAGTCGACA
Found at i:8657273 original size:30 final size:30
Alignment explanation
Indices: 8657216--8657293 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
8657206 GCGGCTTCGG
* ** *
8657216 CATGGACAGTCGGCACTTCTGTAGCTTCTA
1 CATGGACAGTGGGCGTTTCTATAGCTTCTA
*
8657246 CATGGACAGTGGGCGTTTCTATGGCTTCTA
1 CATGGACAGTGGGCGTTTCTATAGCTTCTA
** *
8657276 CATAAACCGTGGGCGTTT
1 CATGGACAGTGGGCGTTT
8657294 TTGAGGCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (30 bp):
CATGGACAGTGGGCGTTTCTATAGCTTCTA
Found at i:8661880 original size:65 final size:60
Alignment explanation
Indices: 8661798--8661919 Score: 172
Period size: 65 Copynumber: 1.9 Consensus size: 60
8661788 CAAAATTAAA
* *
8661798 ATAAAATTTATAAAAACTATTTAAAATAAAAAATTAGAATGAGTTTTAATTAAAGGTCTAAAATT
1 ATAAAATTTATAAAAACTATTGAAAAT-AAAAA-TACAAT-A--TTTAATTAAAGGTCTAAAATT
*
8661863 ATAAAATTTATAAAAACTATTGCAAATAAAAATACAATATTTAATTAAAGGTCTAAA
1 ATAAAATTTATAAAAACTATTGAAAATAAAAATACAATATTTAATTAAAGGTCTAAA
8661920 TTCAAATGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
60 18 0.33
62 1 0.02
63 5 0.09
64 5 0.09
65 25 0.46
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (60 bp):
ATAAAATTTATAAAAACTATTGAAAATAAAAATACAATATTTAATTAAAGGTCTAAAATT
Found at i:8662522 original size:18 final size:18
Alignment explanation
Indices: 8662499--8662539 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
8662489 CTACCTTCTT
8662499 CTTCCGCCTCCACCCCTA
1 CTTCCGCCTCCACCCCTA
8662517 CTTCCGCCTCCACCCCTA
1 CTTCCGCCTCCACCCCTA
8662535 CTTCC
1 CTTCC
8662540 CTCTTGCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.61, G:0.05, T:0.24
Consensus pattern (18 bp):
CTTCCGCCTCCACCCCTA
Found at i:8697361 original size:15 final size:15
Alignment explanation
Indices: 8697338--8697367 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8697328 TTCTCTTTGA
*
8697338 TGCGTAAGAGTGTTC
1 TGCGCAAGAGTGTTC
8697353 TGCGCAAGAGTGTTC
1 TGCGCAAGAGTGTTC
8697368 CCTTCGTCTG
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:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (15 bp):
TGCGCAAGAGTGTTC
Found at i:8702568 original size:19 final size:18
Alignment explanation
Indices: 8702544--8702590 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
8702534 TCTGTAATTT
*
8702544 CTGTATTTGTATTTTGTAC
1 CTGTATTTGTA-TCTGTAC
*
8702563 CTGTATTCTGTATCTGTAT
1 CTGTATT-TGTATCTGTAC
8702582 CTGTATTTG
1 CTGTATTTG
8702591 GGGTGGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.76
20 4 0.16
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.55
Consensus pattern (18 bp):
CTGTATTTGTATCTGTAC
Found at i:8708374 original size:2 final size:2
Alignment explanation
Indices: 8708367--8708409 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8708357 GTCAATTTGC
8708367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8708409 A
1 A
8708410 ACACCTTGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8713332 original size:2 final size:2
Alignment explanation
Indices: 8713325--8713355 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8713315 TACCTCAATC
8713325 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8713356 TTCGTGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8714627 original size:6 final size:6
Alignment explanation
Indices: 8714613--8714662 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
8714603 TTCGGGGGGC
* * * *
8714613 TTGACT TTGATT TTGATT TTGATT TTGACT TTGACTT TTAATT TTTATT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGA-TT TTGATT TTGATT
8714662 T
1 T
8714663 ATTTGTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.64
Consensus pattern (6 bp):
TTGATT
Found at i:8716194 original size:9 final size:9
Alignment explanation
Indices: 8716173--8716230 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
8716163 TTTGGTTAAA
8716173 AATTAACCG
1 AATTAACCG
* *
8716182 AATTACCCA
1 AATTAACCG
8716191 AATTAACCG
1 AATTAACCG
8716200 AATTAACCG
1 AATTAACCG
*
8716209 AATTACCCG
1 AATTAACCG
8716218 AATTAACCG
1 AATTAACCG
8716227 AATT
1 AATT
8716231 GAATCACTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:8716207 original size:27 final size:27
Alignment explanation
Indices: 8716173--8716230 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
8716163 TTTGGTTAAA
8716173 AATTAACCGAATTACCCAAATTAACCG
1 AATTAACCGAATTACCCAAATTAACCG
*
8716200 AATTAACCGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCAAATTAACCG
8716227 AATT
1 AATT
8716231 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTACCCAAATTAACCG
Found at i:8716349 original size:13 final size:13
Alignment explanation
Indices: 8716333--8716370 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
8716323 AATTTTTATG
8716333 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
8716346 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
8716359 ATTGGGTTGGGT
1 ATTGGGTTGGGT
8716371 TGAATACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:8716935 original size:27 final size:27
Alignment explanation
Indices: 8716897--8716956 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
8716887 AATTGTTATT
*
8716897 TAACTTGTTTATGATTTTGATAAAAAA
1 TAACTTGTTTATGATTGTGATAAAAAA
*
8716924 TAACTTGTTTATTATTGTGATAAAAAA
1 TAACTTGTTTATGATTGTGATAAAAAA
*
8716951 AAACTT
1 TAACTT
8716957 TCTTTGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (27 bp):
TAACTTGTTTATGATTGTGATAAAAAA
Found at i:8719398 original size:30 final size:29
Alignment explanation
Indices: 8719342--8719399 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
8719332 TCCATGGACC
* *
8719342 AAAATGAAAATAAAAGGAAATTAAATAGA
1 AAAATGAAAATAAAAGAAAATAAAATAGA
8719371 AAAATAGAAAATATAAA-AAAATAAAATAG
1 AAAAT-GAAAATA-AAAGAAAATAAAATAG
8719400 GACAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 17 0.68
31 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (29 bp):
AAAATGAAAATAAAAGAAAATAAAATAGA
Found at i:8720887 original size:44 final size:44
Alignment explanation
Indices: 8720824--8721187 Score: 194
Period size: 44 Copynumber: 7.9 Consensus size: 44
8720814 ATTTAGTCTC
* * * * *
8720824 AATCTACTCCGCTGTAACTTCAAGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTT
* * * **
8720868 AATTTGCTCCACTGCAACTTTAAGTAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAG--ACTTGTAGCTTT
* * * * *
8720914 AACCTGTTCCACTACAACTTC-AGGAAAATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTGTAGCTTT
* *
8720958 AATCTGCTTCACTGCAATTTCAAGGAGATAAAGTTTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGAT-AAG------ACTTGTAGCTTT
** * * *
8721009 AATCTATTCCACTACAACTTC-AGGAAAATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTGTAGCTTT
* *
8721053 AATCTGCTTCACTGCAATTTCAAGGAGATAAAGTTTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGAT-AAG------ACTTGTAGCTTT
** * * * * * * *
8721104 AATCTATTCCACTACAACTTCAGGGAAATATGA-TTAACTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTT--GTAGCTTT
* * * *
8721149 AATCTGATCTACTGCAACTTCAGGGAGATAAGATTTGTA
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA
8721188 TCTGGTAGCT
Statistics
Matches: 238, Mismatches: 59, Indels: 46
0.69 0.17 0.13
Matches are distributed among these distances:
43 2 0.01
44 87 0.37
45 46 0.19
46 32 0.13
50 8 0.03
51 63 0.26
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTT
Found at i:8721024 original size:95 final size:95
Alignment explanation
Indices: 8720900--8721138 Score: 442
Period size: 95 Copynumber: 2.5 Consensus size: 95
8720890 AGTAGATTTG
* *
8720900 TAACTTGTAGCTTTAACCTGTTCCACTACAACTTCAGGAAAATAAGATTTGTAGCTTTAATCTGC
1 TAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGTAGCTTTAATCTGC
8720965 TTCACTGCAATTTCAAGGAGATAAAGTTTA
66 TTCACTGCAATTTCAAGGAGATAAAGTTTA
8720995 TAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGTAGCTTTAATCTGC
1 TAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGTAGCTTTAATCTGC
8721060 TTCACTGCAATTTCAAGGAGATAAAGTTTA
66 TTCACTGCAATTTCAAGGAGATAAAGTTTA
* *
8721090 TAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAATATGATT
1 TAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGAAAATAAGATT
8721139 AACTATCTTC
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 140 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (95 bp):
TAACTTGTAGCTTTAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGTAGCTTTAATCTGC
TTCACTGCAATTTCAAGGAGATAAAGTTTA
Found at i:8730485 original size:3 final size:3
Alignment explanation
Indices: 8730477--8730517 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8730467 AACATGAAAT
8730477 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8730518 TGGGGGGGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8734470 original size:9 final size:9
Alignment explanation
Indices: 8734446--8734506 Score: 61
Period size: 9 Copynumber: 6.8 Consensus size: 9
8734436 TAATATTATC
*
8734446 AATAATAGC
1 AATAATAGT
*
8734455 AACAATAGT
1 AATAATAGT
*
8734464 AATAATATT
1 AATAATAGT
*
8734473 AATAATAAT
1 AATAATAGT
8734482 AA-AAGTAGT
1 AATAA-TAGT
*
8734491 AATAGTAGT
1 AATAATAGT
8734500 AATAATA
1 AATAATA
8734507 ATAGTGATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 2 0.05
9 39 0.93
10 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (9 bp):
AATAATAGT
Found at i:8734490 original size:27 final size:29
Alignment explanation
Indices: 8734434--8734509 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
8734424 TATATAAGCG
8734434 AATAATATT-ATCAATAATAGCAACAATAGT
1 AATAATATTAAT-AATAATA-CAACAATAGT
*
8734464 AATAATATTAATAATAATA-AA-AGTAGT
1 AATAATATTAATAATAATACAACAATAGT
* *
8734491 AATAGTAGTAATAATAATA
1 AATAATATTAATAATAATA
8734510 GTGATAATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 22 0.52
28 2 0.05
30 16 0.38
31 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (29 bp):
AATAATATTAATAATAATACAACAATAGT
Found at i:8734500 original size:12 final size:12
Alignment explanation
Indices: 8734458--8734518 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 12
8734448 TAATAGCAAC
8734458 AATAGTAATAAT
1 AATAGTAATAAT
* *
8734470 ATTAATAATAAT
1 AATAGTAATAAT
* *
8734482 AAAAGTAGTAAT
1 AATAGTAATAAT
*
8734494 AGTAGTAATAAT
1 AATAGTAATAAT
*
8734506 AATAGTGATAAT
1 AATAGTAATAAT
8734518 A
1 A
8734519 CCAACACAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:8735909 original size:21 final size:21
Alignment explanation
Indices: 8735885--8735955 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
8735875 AACAGAAACC
8735885 CATAAGGGTTGAATGGAAGCT
1 CATAAGGGTTGAATGGAAGCT
* * * *
8735906 CATAAGAGCTGAATGGAAACC
1 CATAAGGGTTGAATGGAAGCT
*
8735927 CATAAGGGTTAAACT-GAAGCT
1 CATAAGGGTTGAA-TGGAAGCT
*
8735948 CAAAAGGG
1 CATAAGGG
8735956 CTAAACGGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.18
Consensus pattern (21 bp):
CATAAGGGTTGAATGGAAGCT
Found at i:8735910 original size:42 final size:42
Alignment explanation
Indices: 8735858--8735982 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
8735848 ATGATGTACA
* * * *
8735858 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAA-T
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* *
8735899 GGAAGCTCATAAGAGCTGAATGGAAACCCATAAGGGTTAAACT
1 -GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* * *
8735942 GAAGCTCAAAAGGGCTAAACGGAAACTCATTAA-GGTTAAAC
1 GAAGCTCATAAGAGCTAAACGGAAACCCA-TAAGGGTTAAAC
8735983 AAAAACTCCT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 66 0.94
43 4 0.06
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
Found at i:8735960 original size:21 final size:21
Alignment explanation
Indices: 8735920--8735970 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
8735910 AGAGCTGAAT
* * *
8735920 GGAAACCCATAAGGGTTAAAC
1 GGAAACTCAAAAGGGCTAAAC
* *
8735941 TGAAGCTCAAAAGGGCTAAAC
1 GGAAACTCAAAAGGGCTAAAC
8735962 GGAAACTCA
1 GGAAACTCA
8735971 TTAAGGTTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (21 bp):
GGAAACTCAAAAGGGCTAAAC
Found at i:8740435 original size:41 final size:41
Alignment explanation
Indices: 8740318--8740436 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
8740308 TGATTTGGTA
* * *
8740318 CACCGGC-ATGAAGCCTGCTAGACATAAAG-TCTGAAATAACT
1 CACCGGCAAT-AAGCCTGCTAGGCACAAAGCT-TGAATTAACT
* *
8740359 CACCGGCAATAAGCCTGCTAGGCACAAAGCCTGAATTAATT
1 CACCGGCAATAAGCCTGCTAGGCACAAAGCTTGAATTAACT
*
8740400 CACCTGCAATAAGCCTGCTAGGCACAAAGCTTGAATT
1 CACCGGCAATAAGCCTGCTAGGCACAAAGCTTGAATT
8740437 TCAGTGATAC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 67 0.97
42 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGGCACAAAGCTTGAATTAACT
Found at i:8747527 original size:37 final size:41
Alignment explanation
Indices: 8747430--8747527 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 41
8747420 ACACATCAGT
* *
8747430 TTGGCACCCAGTGCCTCAAC-GAAAAATTCGAAGTAATAAG
1 TTGGCACCCAGTGCCTCATCGGAAAAACTCGAAGTAATAAG
* * * **
8747470 TTGACACCTAGTGTCTCATCGGCTAAACT-GAAGT-A-AA-
1 TTGGCACCCAGTGCCTCATCGGAAAAACTCGAAGTAATAAG
8747507 TTGGCACCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
8747528 ACTCGAAGTC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
37 18 0.38
38 2 0.04
39 1 0.02
40 21 0.45
41 5 0.11
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
TTGGCACCCAGTGCCTCATCGGAAAAACTCGAAGTAATAAG
Found at i:8748896 original size:42 final size:42
Alignment explanation
Indices: 8748850--8748931 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
8748840 GGGTTGAACA
* * *
8748850 GAAGCTCATAGGAGCTAAACGGAAATCCA-TAAGGGTTAAATT
1 GAAGCTCAAAAGAGCTAAACGGAAACCCATTAA-GGTTAAATT
*
8748892 GAAGCTTAAAAGAGCTAAACGGAAACCCATTAAGGTTAAA
1 GAAGCTCAAAAGAGCTAAACGGAAACCCATTAAGGTTAAA
8748932 CAGAAACTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTAAACGGAAACCCATTAAGGTTAAATT
Found at i:8756392 original size:6 final size:6
Alignment explanation
Indices: 8756381--8756406 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8756371 CTGTGTGTTC
8756381 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
8756407 CTTTGCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:8767230 original size:58 final size:58
Alignment explanation
Indices: 8767140--8767256 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
8767130 ATGGAGAAAG
8767140 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
1 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
8767198 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
1 TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
8767256 T
1 T
8767257 TCCTCCATAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (58 bp):
TATGTCAATTATTCTTTTGAGGTCAAACAGTTCCCTCTAAAGAGCCTTCATTAGCTCT
Found at i:8771578 original size:15 final size:15
Alignment explanation
Indices: 8771543--8771590 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
8771533 TAATAGTACA
*
8771543 CAACCAAACACAAACC
1 CAACCAAAC-CCAACC
*
8771559 AAACCAAACCCAACC
1 CAACCAAACCCAACC
*
8771574 CAACCCAACCCAACC
1 CAACCAAACCCAACC
8771589 CA
1 CA
8771591 GTGACGGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (15 bp):
CAACCAAACCCAACC
Found at i:8771589 original size:5 final size:5
Alignment explanation
Indices: 8771555--8771590 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
8771545 ACCAAACACA
* *
8771555 AACCA AACCA AACCC AACCC AACCC AACCC AACCC A
1 AACCC AACCC AACCC AACCC AACCC AACCC AACCC A
8771591 GTGACGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCC
Found at i:8772211 original size:144 final size:144
Alignment explanation
Indices: 8772041--8772338 Score: 569
Period size: 144 Copynumber: 2.1 Consensus size: 144
8772031 AAAATATTAA
* *
8772041 AATTCAAAAAAAGAAAGTGTCAATTATGATACAAACTCTAAAAGGATTAAAATATTTTTAAATTA
1 AATTCAATATAAGAAAGTGTCAATTATGATACAAACTCTAAAAGGATTAAAATATTTTTAAATTA
8772106 TGTTAATATGATATTTTATATAATTTATAATTAATTTTATAATTTATCCAAATTAAATTTAAAAA
66 TGTTAATATGATATTTTATATAATTTATAATTAATTTTATAATTTATCCAAATTAAATTTAAAAA
8772171 ATTTGCTTAAATTC
131 ATTTGCTTAAATTC
*
8772185 AATTCGATATAAGAAAGTGTCAATTATGATACAAACTCTAAAAGGATTAAAATATTTTTAAATTA
1 AATTCAATATAAGAAAGTGTCAATTATGATACAAACTCTAAAAGGATTAAAATATTTTTAAATTA
8772250 TGTTAATATGATATTTTATATAATTTATAATTAATTTTATAATTTATCCAAATTAAATTTAAAAA
66 TGTTAATATGATATTTTATATAATTTATAATTAATTTTATAATTTATCCAAATTAAATTTAAAAA
8772315 ATTTGCTTAAATTC
131 ATTTGCTTAAATTC
8772329 AATTCAATAT
1 AATTCAATAT
8772339 GCACTTAACG
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 150 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (144 bp):
AATTCAATATAAGAAAGTGTCAATTATGATACAAACTCTAAAAGGATTAAAATATTTTTAAATTA
TGTTAATATGATATTTTATATAATTTATAATTAATTTTATAATTTATCCAAATTAAATTTAAAAA
ATTTGCTTAAATTC
Found at i:8774472 original size:2 final size:2
Alignment explanation
Indices: 8774465--8774491 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8774455 ATGTAGGATG
8774465 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
8774492 TATAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8779034 original size:69 final size:70
Alignment explanation
Indices: 8778904--8779046 Score: 252
Period size: 69 Copynumber: 2.1 Consensus size: 70
8778894 CTATTTCCTT
*
8778904 TAATATGAGTGCAGTATTACGAGTCTTAATTTTTTTTTGTTACAATACTTAAAACTATCCATAAC
1 TAATATGAGTGCAGTATTACGAGTCTTAAGTTTTTTTTGTTACAATACTTAAAACTATCCATAAC
8778969 CCCTC
66 CCCTC
* *
8778974 TAATATGAGTGCAGTATTATGATTCTT-AGTTTTTTTTGTTACAATACTTAAAACTATCCATAAC
1 TAATATGAGTGCAGTATTACGAGTCTTAAGTTTTTTTTGTTACAATACTTAAAACTATCCATAAC
8779038 CCCTC
66 CCCTC
8779043 TAAT
1 TAAT
8779047 TAGTAAAAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 45 0.64
70 25 0.36
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (70 bp):
TAATATGAGTGCAGTATTACGAGTCTTAAGTTTTTTTTGTTACAATACTTAAAACTATCCATAAC
CCCTC
Found at i:8780598 original size:17 final size:17
Alignment explanation
Indices: 8780569--8780610 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
8780559 GCATAAATAA
*
8780569 AAAATTAAATAAATT-G
1 AAAATAAAATAAATTAG
8780585 AAAATAAAATTAAATTAG
1 AAAATAAAA-TAAATTAG
*
8780603 GAAATAAA
1 AAAATAAA
8780611 TTCATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (17 bp):
AAAATAAAATAAATTAG
Found at i:8782423 original size:58 final size:58
Alignment explanation
Indices: 8782299--8782423 Score: 128
Period size: 58 Copynumber: 2.2 Consensus size: 58
8782289 CAAATCGAAC
*
8782299 AAAAAAAAAGATTAGATACCAAATTAGAAAAACGAGTCAAGTTCAGGTACCAAATTAG
1 AAAAAAAAAGATTAGATACCAAATTAGAAAAACGAGTCAAATTCAGGTACCAAATTAG
*** * * * * **
8782357 ACCCAAAAAGTTTA-AGTACCAACTTAAGAAAAA-GTGTCAAATTTAGGTATTAAATTAG
1 AAAAAAAAAGATTAGA-TACCAAATT-AGAAAAACGAGTCAAATTCAGGTACCAAATTAG
8782415 AAAAAAAAA
1 AAAAAAAAA
8782424 TGTCAAGTCC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
57 1 0.02
58 44 0.85
59 7 0.13
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.22
Consensus pattern (58 bp):
AAAAAAAAAGATTAGATACCAAATTAGAAAAACGAGTCAAATTCAGGTACCAAATTAG
Found at i:8783986 original size:20 final size:20
Alignment explanation
Indices: 8783934--8783989 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
8783924 TACTTCAAGT
* ** *
8783934 TCATTCAGCTCAACCATAGT
1 TCATTCAGCTCATCTTTAGC
*
8783954 TCATTGAGCTCATCTTTAGC
1 TCATTCAGCTCATCTTTAGC
8783974 TCATTCAGCTCATCTT
1 TCATTCAGCTCATCTT
8783990 CATTTTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (20 bp):
TCATTCAGCTCATCTTTAGC
Found at i:8785541 original size:21 final size:22
Alignment explanation
Indices: 8785515--8785559 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8785505 ATTTTGTTTG
8785515 ATAAATT-A-AATGCAAAACTAA
1 ATAAATTCACAAT-CAAAACTAA
8785536 ATAAATTCACAATCAAAACTAA
1 ATAAATTCACAATCAAAACTAA
8785558 AT
1 AT
8785560 TTATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 12 0.55
23 3 0.14
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAATTCACAATCAAAACTAA
Found at i:8793586 original size:22 final size:22
Alignment explanation
Indices: 8793538--8793586 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
8793528 AAAAATGAAA
*
8793538 AATATATTTTTATATTAATATT
1 AATATATTTTTATATAAATATT
* *
8793560 GATATATTTTTACT-TAAATTTT
1 AATATATTTTTA-TATAAATATT
8793582 AATAT
1 AATAT
8793587 TTTAACAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AATATATTTTTATATAAATATT
Found at i:8793667 original size:72 final size:73
Alignment explanation
Indices: 8793569--8793713 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
8793559 TGATATATTT
8793569 TTACTTAAATTTTAATATTTTAACAAATTATTTAATATGAATTCAAGTAGAGAGCTGCTATTAAT
1 TTACTTAAATTTTAATATTTTAACAAATTATTTAATATGAATTCAAGTAGAGAGCTGCTATTAAT
8793634 GTGATTGA
66 GTGATTGA
8793642 TTACTTAAA-TTTAATATTTTAACAAATTATTTAATATGAATTCAAGTAGAGAGCTGCTATTAAT
1 TTACTTAAATTTTAATATTTTAACAAATTATTTAATATGAATTCAAGTAGAGAGCTGCTATTAAT
8793706 GTGATTGA
66 GTGATTGA
8793714 GTTAAGAATG
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 63 0.88
73 9 0.12
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (73 bp):
TTACTTAAATTTTAATATTTTAACAAATTATTTAATATGAATTCAAGTAGAGAGCTGCTATTAAT
GTGATTGA
Found at i:8795577 original size:15 final size:16
Alignment explanation
Indices: 8795559--8795592 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
8795549 TAATATTTTA
8795559 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
8795574 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
8795590 AAA
1 AAA
8795593 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:8795609 original size:16 final size:16
Alignment explanation
Indices: 8795590--8795620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8795580 TTAAAATAAT
8795590 AAAATTACATTTTGAG
1 AAAATTACATTTTGAG
*
8795606 AAAATTATATTTTGA
1 AAAATTACATTTTGA
8795621 CAATATTTTA
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:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (16 bp):
AAAATTACATTTTGAG
Found at i:8801272 original size:6 final size:6
Alignment explanation
Indices: 8801258--8801291 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8801248 AATATAATAT
* *
8801258 ATATAG ATATCG ATATCG ATATCG ATATAG ATAT
1 ATATCG ATATCG ATATCG ATATCG ATATCG ATAT
8801292 ATGTTATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (6 bp):
ATATCG
Found at i:8801278 original size:12 final size:12
Alignment explanation
Indices: 8801258--8801291 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8801248 AATATAATAT
8801258 ATATAGATATCG
1 ATATAGATATCG
*
8801270 ATATCGATATCG
1 ATATAGATATCG
8801282 ATATAGATAT
1 ATATAGATAT
8801292 ATGTTATGCT
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:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (12 bp):
ATATAGATATCG
Found at i:8807610 original size:18 final size:18
Alignment explanation
Indices: 8807566--8807612 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
8807556 TAAAAAATTG
*
8807566 TATTTAATTATAAATATAA
1 TATTTAA-TATAAATAAAA
*
8807585 T-TAATAATATAAATAAAA
1 TAT-TTAATATAAATAAAA
8807603 TATTTAATAT
1 TATTTAATAT
8807613 CGGAAACAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAATATAAATAAAA
Found at i:8809277 original size:193 final size:194
Alignment explanation
Indices: 8808942--8809328 Score: 767
Period size: 193 Copynumber: 2.0 Consensus size: 194
8808932 TATGTATTAG
8808942 GCTATTATTAGTTCGGTTAATTCGGTCAAATGAACATTATAAATTTATTTATTTTATATGTTTTA
1 GCTATTATTAGTTCGGTTAATTCGGTCAAATGAACATTATAAATTTATTTATTTTATATGTTTTA
8809007 TACTTGTTTAGCAAAATATATATATAAATTTCAATTAATTGGTTAACCGACCAAATTAACCGAAA
66 TACTTGTTTAGCAAAATATATATATAAATTTCAATTAATTGGTTAACCGACCAAATTAACCGAAA
8809072 TATTTCGGTTTGATTAATTTTTTTAAAATTCTGCGATTAATACTAGTTTAATTTGGTTAACCGT
131 TATTTCGGTTTGATTAATTTTTTTAAAATTCTGCGATTAATACTAGTTTAATTTGGTTAACCGT
8809136 GCTATTATTA-TTCGGTTAATTCGGTCAAATGAACATTATAAATTTATTTATTTTATATGTTTTA
1 GCTATTATTAGTTCGGTTAATTCGGTCAAATGAACATTATAAATTTATTTATTTTATATGTTTTA
8809200 TACTTGTTTAGCAAAATATATATATAAATTTCAATTAATTGGTTAACCGACCAAATTAACCGAAA
66 TACTTGTTTAGCAAAATATATATATAAATTTCAATTAATTGGTTAACCGACCAAATTAACCGAAA
8809265 TATTTCGGTTTGATTAATTTTTTTAAAATTCTGCGATTAATACTAGTTTAATTTGGTTAACCGT
131 TATTTCGGTTTGATTAATTTTTTTAAAATTCTGCGATTAATACTAGTTTAATTTGGTTAACCGT
8809329 TTAAACACCC
Statistics
Matches: 193, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
193 183 0.95
194 10 0.05
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (194 bp):
GCTATTATTAGTTCGGTTAATTCGGTCAAATGAACATTATAAATTTATTTATTTTATATGTTTTA
TACTTGTTTAGCAAAATATATATATAAATTTCAATTAATTGGTTAACCGACCAAATTAACCGAAA
TATTTCGGTTTGATTAATTTTTTTAAAATTCTGCGATTAATACTAGTTTAATTTGGTTAACCGT
Found at i:8817780 original size:75 final size:76
Alignment explanation
Indices: 8817690--8817841 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
8817680 TACATAGCAT
* *
8817690 ACCTAAGCTAGTCATTGATTTAAC-TTTTTTCCATTTTAGTTTTATGATATTTGTTATACATAAT
1 ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGACATAAT
8817754 AACTCTTTTTA
66 AACTCTTTTTA
*
8817765 ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGGCATAAT
1 ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGACATAAT
8817830 AACTCTTTTTA
66 AACTCTTTTTA
8817841 A
1 A
8817842 ATATTTAATA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 23 0.32
76 50 0.68
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.50
Consensus pattern (76 bp):
ACCTAAGCTACTCATTGATTTAACTTTTTTTCCATTTTAGTTTTATGATATTTGTTAGACATAAT
AACTCTTTTTA
Found at i:8824002 original size:16 final size:17
Alignment explanation
Indices: 8823981--8824021 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
8823971 AATTTTTTTG
8823981 TTTTTATAAAAAATA-A
1 TTTTTATAAAAAATATA
*
8823997 TTTTTAAAAAAAATATA
1 TTTTTATAAAAAATATA
*
8824014 TATTTATA
1 TTTTTATA
8824022 TGAGTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTTATAAAAAATATA
Found at i:8824583 original size:12 final size:12
Alignment explanation
Indices: 8824566--8824599 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8824556 ATTAATGTAA
8824566 AATTATTTTGTT
1 AATTATTTTGTT
8824578 AATTATTTTGTT
1 AATTATTTTGTT
*
8824590 -AGTATTTTGT
1 AATTATTTTGT
8824600 GCTTTGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:8824713 original size:165 final size:165
Alignment explanation
Indices: 8824516--8824891 Score: 727
Period size: 165 Copynumber: 2.3 Consensus size: 165
8824506 AGGATTATGT
* *
8824516 TATAAATTGTT-GTGTTTAGTTTAATATTTTGTGATTTTTTATTAATGTAAAATTATTTTGTTAA
1 TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAAATTATTTTGTTAA
8824580 TTATTTTGTTAGTATTTTGTGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTT
66 TTATTTTGTTAGTATTTTGTGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTT
8824645 TATAGTTATTATTTTAGTAATTTATGATTAGGTTA
131 TATAGTTATTATTTTAGTAATTTATGATTAGGTTA
8824680 TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAAATTATTTTGTTAA
1 TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAAATTATTTTGTTAA
8824745 TTATTTTGTTAGTATTTTGTGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTT
66 TTATTTTGTTAGTATTTTGTGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTT
8824810 TATAGTTATTATTTTAGTAATTTATGATTAGGTTA
131 TATAGTTATTATTTTAGTAATTTATGATTAGGTTA
8824845 TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAAT
1 TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAAT
8824892 TTAATTTTTT
Statistics
Matches: 209, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
164 11 0.05
165 198 0.95
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.57
Consensus pattern (165 bp):
TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAAATTATTTTGTTAA
TTATTTTGTTAGTATTTTGTGCTTTGTGATTTTTTAGTAATGTAAATTTAAAAAATATATATTTT
TATAGTTATTATTTTAGTAATTTATGATTAGGTTA
Found at i:8824748 original size:12 final size:12
Alignment explanation
Indices: 8824731--8824764 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8824721 ATTAATGTAA
8824731 AATTATTTTGTT
1 AATTATTTTGTT
8824743 AATTATTTTGTT
1 AATTATTTTGTT
*
8824755 -AGTATTTTGT
1 AATTATTTTGT
8824765 GCTTTGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:8824900 original size:16 final size:16
Alignment explanation
Indices: 8824879--8824943 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
8824869 GTGTTTTGTG
8824879 ATTTTTTATTAATTTA
1 ATTTTTTATTAATTTA
8824895 ATTTTTT-TATAATTTA
1 ATTTTTTAT-TAATTTA
*
8824911 A-TTTTTATTTATTTTA
1 ATTTTTTA-TTAATTTA
* *
8824927 CAATTTTTATTGATTTA
1 -ATTTTTTATTAATTTA
8824944 TTGAAGTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.15
16 21 0.51
17 8 0.20
18 6 0.15
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTTTATTAATTTA
Found at i:8824902 original size:17 final size:16
Alignment explanation
Indices: 8824880--8824916 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 16
8824870 TGTTTTGTGA
8824880 TTTTTTATTAATTTAAT
1 TTTTTTA-TAATTTAAT
8824897 TTTTTTATAATTTAAT
1 TTTTTTATAATTTAAT
8824913 TTTT
1 TTTT
8824917 ATTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTATAATTTAAT
Found at i:8824925 original size:23 final size:21
Alignment explanation
Indices: 8824887--8824932 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
8824877 TGATTTTTTA
*
8824887 TTAATTTAATTTTTTTATAAT
1 TTAATTTAATTTTTTTACAAT
*
8824908 TTAATTTTTATTTATTTTACAAT
1 TTAA-TTTAATTT-TTTTACAAT
8824931 TT
1 TT
8824933 TTATTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTAATTTAATTTTTTTACAAT
Found at i:8827387 original size:76 final size:76
Alignment explanation
Indices: 8827172--8827467 Score: 411
Period size: 76 Copynumber: 3.9 Consensus size: 76
8827162 ATATTTAAAA
* * *
8827172 AATGACTTTTT-GCCATTTTAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCT
1 AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
8827236 TGTATTTATGT
66 TGTATTTATGT
* * * * *
8827247 AATGAC-TTTTCACTAATTCAGTAATTAATTTTA-GGGTTTTTTTGCAATTTAAATAGTCAGCTT
1 AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
*
8827310 TGTATTTAGGT
66 TGTATTTATGT
* *
8827321 AATGACTTTTTCAG-CATTTCATTTATTAATTTTAGGGTTTTTTTTGCAATTTAAATAGTCAACT
1 AATGACTTTTTC-GCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACT
8827385 TTGTATTTATGT
65 TTGTATTTATGT
* * * * *
8827397 AATGACTTTTTCGTCATTTCAGTTATTAATTTTTGGGGTTTTTTTGTAATTTAAATAATAAACTT
1 AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
8827462 TGTATT
66 TGTATT
8827468 ATTTACGTAA
Statistics
Matches: 193, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
74 48 0.25
75 44 0.23
76 101 0.52
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (76 bp):
AATGACTTTTTCGCCATTTCAGTTATTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACTT
TGTATTTATGT
Found at i:8827439 original size:150 final size:150
Alignment explanation
Indices: 8827172--8827467 Score: 404
Period size: 150 Copynumber: 2.0 Consensus size: 150
8827162 ATATTTAAAA
*
8827172 AATGACTTTTTGCCATTTTAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCTT
1 AATGACTTTTTGCCATTTCAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCTT
8827237 GTATTTATGTAATGACTTTTCACTAATTCAGTAATTAATTTTAGGGT-TTTTTTGCAATTTAAAT
66 GTATTTATGTAATGACTTTTCACTAATTCAGTAATTAATTTTAGGGTGTTTTTTGCAATTTAAAT
* * *
8827301 AGTCAGCTTTGTATTTAGGT
131 AATAAACTTTGTATTTAGGT
*
8827321 AATGACTTTTT-CAGCATTTCA-TTTATTAATTTTAGGGTTTTTTTTGCAATTTAAATAGTCAAC
1 AATGACTTTTTGC--CATTTCAGTTT-TTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAAC
* * * * * *
8827384 TTTGTATTTATGTAATGACTTTTTC-GTCATTTCAGTTATTAATTTTTGGG-GTTTTTTTGTAAT
63 CTTGTATTTATGTAATGAC-TTTTCACT-AATTCAGTAATTAATTTTAGGGTG-TTTTTTGCAAT
8827447 TTAAATAATAAACTTTGTATT
125 TTAAATAATAAACTTTGTATT
8827468 ATTTACGTAA
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
148 1 0.01
149 14 0.11
150 62 0.48
151 24 0.19
152 28 0.22
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (150 bp):
AATGACTTTTTGCCATTTCAGTTTTTAATTTTAGGGGTTTTTTTGCAATTTAAATAGTCAACCTT
GTATTTATGTAATGACTTTTCACTAATTCAGTAATTAATTTTAGGGTGTTTTTTGCAATTTAAAT
AATAAACTTTGTATTTAGGT
Found at i:8828742 original size:38 final size:38
Alignment explanation
Indices: 8828673--8828745 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
8828663 CGGATCTCCA
* * *
8828673 TGGCACACCGAAACTCCTAATGGTGATAATTAATCCTT
1 TGGCACACCGAAACGCCTAATGGCGACAATTAATCCTT
*
8828711 TGGCACACCGAAACGCCTAATGGCGGCAATTAATC
1 TGGCACACCGAAACGCCTAATGGCGACAATTAATC
8828746 ATTTCCCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (38 bp):
TGGCACACCGAAACGCCTAATGGCGACAATTAATCCTT
Found at i:8830539 original size:19 final size:19
Alignment explanation
Indices: 8830485--8830539 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
8830475 AATCAGAAGC
* *
8830485 TAACAAAATTAATAAC--C
1 TAACAAAATTACTAACAAA
* **
8830502 TAACAAAATAACTTTCAAA
1 TAACAAAATTACTAACAAA
8830521 TAACAAAATTACTAACAAA
1 TAACAAAATTACTAACAAA
8830540 ACTCTCCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (19 bp):
TAACAAAATTACTAACAAA
Found at i:8846985 original size:6 final size:6
Alignment explanation
Indices: 8846976--8847011 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8846966 CATGAACAAT
8846976 CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA
8847012 TCAAGGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:8849604 original size:21 final size:21
Alignment explanation
Indices: 8849570--8849632 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
8849560 TAGAAATTAT
*
8849570 AAAAGATCATTAAAAATATTTA
1 AAAAAATCA-TAAAAATATTTA
* *
8849592 AAAAAATCATAAAAAAAGTTA
1 AAAAAATCATAAAAATATTTA
* *
8849613 TAAAAATCATAAGAAT-TTTA
1 AAAAAATCATAAAAATATTTA
8849633 TCAAGATGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.09
21 23 0.68
22 8 0.24
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAAATCATAAAAATATTTA
Found at i:8849671 original size:105 final size:106
Alignment explanation
Indices: 8849539--8849752 Score: 421
Period size: 105 Copynumber: 2.0 Consensus size: 106
8849529 ATATATAGTA
8849539 GATTATAAAATCTATAATTTTTAGAAATTATAAAAGATCATTAAAAATATTTAAAAAAATCATAA
1 GATTATAAAATCTATAATTTTTAGAAATTATAAAAGATCATTAAAAATATTTAAAAAAATCATAA
8849604 AAAAAGTTATAAAAATCATAAGAATTTTATCAAGATGCTAT
66 AAAAAGTTATAAAAATCATAAGAATTTTATCAAGATGCTAT
8849645 GATTATAAAA-CTATAATTTTTAGAAATTATAAAAGATCATTAAAAATATTTAAAAAAATCATAA
1 GATTATAAAATCTATAATTTTTAGAAATTATAAAAGATCATTAAAAATATTTAAAAAAATCATAA
8849709 AAAAAGTTATAAAAATCATAAGAATTTTATCAAGATGCTAT
66 AAAAAGTTATAAAAATCATAAGAATTTTATCAAGATGCTAT
8849750 GAT
1 GAT
8849753 GACAACATGG
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 98 0.91
106 10 0.09
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.34
Consensus pattern (106 bp):
GATTATAAAATCTATAATTTTTAGAAATTATAAAAGATCATTAAAAATATTTAAAAAAATCATAA
AAAAAGTTATAAAAATCATAAGAATTTTATCAAGATGCTAT
Found at i:8849709 original size:21 final size:21
Alignment explanation
Indices: 8849675--8849737 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
8849665 TAGAAATTAT
*
8849675 AAAAGATCATTAAAAATATTTA
1 AAAAAATCA-TAAAAATATTTA
* *
8849697 AAAAAATCATAAAAAAAGTTA
1 AAAAAATCATAAAAATATTTA
* *
8849718 TAAAAATCATAAGAAT-TTTA
1 AAAAAATCATAAAAATATTTA
8849738 TCAAGATGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.09
21 23 0.68
22 8 0.24
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAAATCATAAAAATATTTA
Found at i:8849940 original size:23 final size:21
Alignment explanation
Indices: 8849890--8849941 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
8849880 GAAATAGATC
*
8849890 TAATATCTATTGTTTAAAAAA
1 TAATATTTATTGTTTAAAAAA
*
8849911 TACTATTTATTGTTTAACAAAA
1 TAATATTTATTGTTTAA-AAAA
8849933 TTAATATTT
1 -TAATATTT
8849942 TTGAAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
22 4 0.15
23 7 0.27
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (21 bp):
TAATATTTATTGTTTAAAAAA
Found at i:8851197 original size:24 final size:24
Alignment explanation
Indices: 8851135--8851202 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
8851125 CCAAAATGTC
8851135 ATTAAATTTCTTTAATTATAAAAA
1 ATTAAATTTCTTTAATTATAAAAA
*
8851159 A-GAAATTTAAC-TTAATCTA-AAAAA
1 ATTAAATTT--CTTTAAT-TATAAAAA
8851183 ATTAAATTTCTTTAATTATA
1 ATTAAATTTCTTTAATTATA
8851203 TCAATTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
23 9 0.25
24 18 0.50
25 9 0.25
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (24 bp):
ATTAAATTTCTTTAATTATAAAAA
Found at i:8854015 original size:4 final size:4
Alignment explanation
Indices: 8854006--8854037 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
8853996 AATGATAATG
8854006 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
8854038 GCGAATGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:8854306 original size:3 final size:3
Alignment explanation
Indices: 8854288--8854333 Score: 74
Period size: 3 Copynumber: 14.7 Consensus size: 3
8854278 AAAAGGCATA
8854288 AAT ATAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8854334 AGATTAATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8854873 original size:11 final size:13
Alignment explanation
Indices: 8854857--8854890 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
8854847 AATTTTATGG
8854857 AAAAATTTCG-T-
1 AAAAATTTCGTTC
8854868 AAAAATTTCGTTC
1 AAAAATTTCGTTC
8854881 AAAAATTTCG
1 AAAAATTTCG
8854891 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:8865166 original size:275 final size:275
Alignment explanation
Indices: 8864670--8865221 Score: 1086
Period size: 275 Copynumber: 2.0 Consensus size: 275
8864660 GTGGCTCTCA
*
8864670 ACCCGCTTTCCACTAGAATTTTCATTAATTAATATGTCACCTAAAATTAATGGCATGAGAATAAA
1 ACCCGCTTTCCACTAAAATTTTCATTAATTAATATGTCACCTAAAATTAATGGCATGAGAATAAA
8864735 TCAAGAAAATTAAATCACAACTATCTTTTTTAGTTTTTAAAGCTATTTCAATTATTAAACCATTA
66 TCAAGAAAATTAAATCACAACTATCTTTTTTAGTTTTTAAAGCTATTTCAATTATTAAACCATTA
8864800 ACCTACATATCTCCCAACTACATAATCAATTTAGTTTATTGTAGATTTGCAAGTAACATAAAAGA
131 ACCTACATATCTCCCAACTACATAATCAATTTAGTTTATTGTAGATTTGCAAGTAACATAAAAGA
8864865 TATAAAAATAAAGCATAATGAAAGTGAAATAAATAAAACTAAGTAAAAATTACTATTGAATAAAT
196 TATAAAAATAAAGCATAATGAAAGTGAAATAAATAAAACTAAGTAAAAATTACTATTGAATAAAT
8864930 CTCAATCGAGTTACC
261 CTCAATCGAGTTACC
*
8864945 ACCCTCTTTCCACTAAAATTTTCATTAATTAATATGTCACCTAAAATTAATGGCATGAGAATAAA
1 ACCCGCTTTCCACTAAAATTTTCATTAATTAATATGTCACCTAAAATTAATGGCATGAGAATAAA
8865010 TCAAGAAAATTAAATCACAACTATCTTTTTTAGTTTTTAAAGCTATTTCAATTATTAAACCATTA
66 TCAAGAAAATTAAATCACAACTATCTTTTTTAGTTTTTAAAGCTATTTCAATTATTAAACCATTA
8865075 ACCTACATATCTCCCAACTACATAATCAATTTAGTTTATTGTAGATTTGCAAGTAACATAAAAGA
131 ACCTACATATCTCCCAACTACATAATCAATTTAGTTTATTGTAGATTTGCAAGTAACATAAAAGA
8865140 TATAAAAATAAAGCATAATGAAAGTGAAATAAATAAAACTAAGTAAAAATTACTATTGAATAAAT
196 TATAAAAATAAAGCATAATGAAAGTGAAATAAATAAAACTAAGTAAAAATTACTATTGAATAAAT
8865205 CTCAATCGAGTTACC
261 CTCAATCGAGTTACC
8865220 AC
1 AC
8865222 AATTCAAAAA
Statistics
Matches: 275, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 275 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (275 bp):
ACCCGCTTTCCACTAAAATTTTCATTAATTAATATGTCACCTAAAATTAATGGCATGAGAATAAA
TCAAGAAAATTAAATCACAACTATCTTTTTTAGTTTTTAAAGCTATTTCAATTATTAAACCATTA
ACCTACATATCTCCCAACTACATAATCAATTTAGTTTATTGTAGATTTGCAAGTAACATAAAAGA
TATAAAAATAAAGCATAATGAAAGTGAAATAAATAAAACTAAGTAAAAATTACTATTGAATAAAT
CTCAATCGAGTTACC
Found at i:8877425 original size:3 final size:3
Alignment explanation
Indices: 8877417--8877442 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8877407 CTTCCCCATC
8877417 CTG CTG CTG CTG CTG CTG CTG CTG CT
1 CTG CTG CTG CTG CTG CTG CTG CTG CT
8877443 TCAAATTTCC
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:0.00, C:0.35, G:0.31, T:0.35
Consensus pattern (3 bp):
CTG
Found at i:8906190 original size:172 final size:173
Alignment explanation
Indices: 8905904--8906251 Score: 599
Period size: 172 Copynumber: 2.0 Consensus size: 173
8905894 CATATATATG
8905904 TACGAAAGCGTGGTATGAACTTCGAACCTTTTTCTTTTACATAGTTTTAAACATAATCATTTAGC
1 TACGAAAGCGTGGTATGAACTTCGAACCTTTTTCTTTTACATAGTTTTAAACATAATCATTTAGC
8905969 TGTTTAAACATTTTTATTTTATTGGATTTATTAGTCGCATATTTATTAGTGTTCAAGTTTATATG
66 TGTTTAAACATTTTTATTTTATTGGATTTATTAGTCGCATATTTATTAGTGTTCAAGTTTATATG
*
8906034 A-TGTTAAATTCAATGATGGTATTTGTATAACACTTATTTAAT
131 ATTGTTAAATTCAATGATGGTATTTGTATAACACTTATGTAAT
** * * * *
8906076 TACGAAATTGTGGTATTAACTTCGAACCTTTTTCTTTTACGTAGTTTTGAACATAATCATTTAGT
1 TACGAAAGCGTGGTATGAACTTCGAACCTTTTTCTTTTACATAGTTTTAAACATAATCATTTAGC
8906141 TGTTTAAACATTTTTATTTTATTGGATTTATTAGTCGCATATTTATTAGTGTTCAAGTTTATATG
66 TGTTTAAACATTTTTATTTTATTGGATTTATTAGTCGCATATTTATTAGTGTTCAAGTTTATATG
*
8906206 ATGTTGTTAAATTCAATGTTGGTATTTGTATAACACTTATGTAAT
131 A--TTGTTAAATTCAATGATGGTATTTGTATAACACTTATGTAAT
8906251 T
1 T
8906252 GTTTCTTAGT
Statistics
Matches: 165, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
172 125 0.76
175 40 0.24
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (173 bp):
TACGAAAGCGTGGTATGAACTTCGAACCTTTTTCTTTTACATAGTTTTAAACATAATCATTTAGC
TGTTTAAACATTTTTATTTTATTGGATTTATTAGTCGCATATTTATTAGTGTTCAAGTTTATATG
ATTGTTAAATTCAATGATGGTATTTGTATAACACTTATGTAAT
Found at i:8914717 original size:22 final size:22
Alignment explanation
Indices: 8914685--8914726 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8914675 TATACATGTA
* *
8914685 ATATTACTTGAATAGTTATGAG
1 ATATTAATTGAATAATTATGAG
*
8914707 ATATTAATTGAGTAATTATG
1 ATATTAATTGAATAATTATG
8914727 TCTCCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTAATTGAATAATTATGAG
Found at i:8917362 original size:16 final size:17
Alignment explanation
Indices: 8917341--8917381 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
8917331 TGATAGTAAG
8917341 AAAACAATACATATA-T
1 AAAACAATACATATATT
8917357 AAAAC-ATAACATATATT
1 AAAACAAT-ACATATATT
8917374 AAAA-AATA
1 AAAACAATA
8917382 GATTCCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 13 0.59
17 7 0.32
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAACAATACATATATT
Found at i:8919905 original size:108 final size:107
Alignment explanation
Indices: 8919717--8919994 Score: 327
Period size: 108 Copynumber: 2.6 Consensus size: 107
8919707 CCATCAGAGT
* * * * ** *
8919717 CTTTGTCTCGTTGAGTATATAATACCCAACCAAACTCATAGAGGAGCACGCGCTTTGGGACATAT
1 CTTTGTCTCATTGAGTACATAATACCCAACCGAACTCACAGAGGAGCACGTACTTTGAGACATAT
* * *
8919782 CACATTAGCTCATATACAGAGCT-GGTTTCACTCAGGAGAAAA
66 CACATTAGCTCATATACAGAGCTGGGCTT-ACTAAAGAGAAAA
* *
8919824 CTTTGTCTTATTGAGTACATAATTACCCATCCGAACTCACAGAGGAGCACGTACTTTGAGACATA
1 CTTTGTCTCATTGAGTACATAA-TACCCAACCGAACTCACAGAGGAGCACGTACTTTGAGACATA
* *
8919889 TCACTTTAGCTCATATACAGAGCTGGGCTTACTAAAGAGCAAA
65 TCACATTAGCTCATATACAGAGCTGGGCTTACTAAAGAGAAAA
* *
8919932 CTTTGTCTCATTGAG--CAT-AT-CCCAACCGAACTCACAAAAGAGCA--TACGTTTTGAGACAT
1 CTTTGTCTCATTGAGTACATAATACCCAACCGAACTCACAGAGGAGCACGTAC--TTTGAGACAT
8919991 ATCA
64 ATCA
8919995 TGAGTGAGTA
Statistics
Matches: 149, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
101 3 0.02
103 35 0.23
104 1 0.01
105 1 0.01
106 3 0.02
107 19 0.13
108 83 0.56
109 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (107 bp):
CTTTGTCTCATTGAGTACATAATACCCAACCGAACTCACAGAGGAGCACGTACTTTGAGACATAT
CACATTAGCTCATATACAGAGCTGGGCTTACTAAAGAGAAAA
Found at i:8921913 original size:17 final size:16
Alignment explanation
Indices: 8921888--8921923 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
8921878 AATTTGATTG
8921888 GAAAATGAATTAAAAT
1 GAAAATGAATTAAAAT
*
8921904 GAAAATTGAATTAAAGT
1 GAAAA-TGAATTAAAAT
8921921 GAA
1 GAA
8921924 TTAAATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (16 bp):
GAAAATGAATTAAAAT
Found at i:8922279 original size:41 final size:37
Alignment explanation
Indices: 8922231--8922330 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 37
8922221 TCGACCTTGA
8922231 GTCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-AC--TTACTTCGGATAG
* ** ** * *
8922271 ATTCGATGAGGTACTGGGTACCAACTTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
*
8922309 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
8922331 CTATATTGCT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 16 0.35
38 11 0.24
40 2 0.04
41 17 0.37
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
Found at i:8923832 original size:76 final size:76
Alignment explanation
Indices: 8923672--8923823 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
8923662 TCTCGTAGCT
8923672 CGAGTTATAATTAATTTAGTAACTACTGCACAATTGGACAGATTTGCTATAAATAGTGAAATAAA
1 CGAGTTATAATTAATTTAGTAACTACTGCACAATTGGACAGATTTGCTATAAATAGTGAAATAAA
8923737 TTTTCAAACAA
66 TTTTCAAACAA
*
8923748 CGAGTTATAATTAATTTAGTAACTGCTGCACAATTGGACAGATTTGCTATAAATAGTGAAATAAA
1 CGAGTTATAATTAATTTAGTAACTACTGCACAATTGGACAGATTTGCTATAAATAGTGAAATAAA
8923813 TTTTCAAACAA
66 TTTTCAAACAA
8923824 GTTTTTATAC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (76 bp):
CGAGTTATAATTAATTTAGTAACTACTGCACAATTGGACAGATTTGCTATAAATAGTGAAATAAA
TTTTCAAACAA
Found at i:8924384 original size:67 final size:67
Alignment explanation
Indices: 8924274--8924580 Score: 337
Period size: 67 Copynumber: 4.6 Consensus size: 67
8924264 CACGTCAAGA
* * * * * * *
8924274 CATTAAACATGGGGTATGATGTATAAAATCAGAGCTCAACTATAACAACATAGAGAGCCCGCTTG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCCCGCTAG
8924339 GG
66 GG
* *
8924341 CATTAAACATGGGGTATGATGCGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCTCGCTAG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCCCGCTAG
*
8924406 GA
66 GG
* * * * *
8924408 CATTAAACATGTGGTATGATGTGTAAGGCCATAGCTCAGCTATGACAACATAAAGAGTCCG-TCG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCCCGCTAG
8924472 GG
66 GG
* * * * * *
8924474 ACATTAAACATGGGGTATGATGTGTAAGACCATAACTCGGCTATGACAACATAAAAAGTCCACTA
1 -CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCCCGCTA
**
8924539 GAA
65 GGG
** ** * *
8924542 CATTAAATGTAAGGTATGATGTGTAAGATCATAACTCAG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCAG
8924581 TTTTATGATG
Statistics
Matches: 205, Mismatches: 33, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
66 3 0.01
67 200 0.98
68 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (67 bp):
CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCCCGCTAG
GG
Found at i:8924580 original size:134 final size:134
Alignment explanation
Indices: 8924273--8924580 Score: 381
Period size: 134 Copynumber: 2.3 Consensus size: 134
8924263 ACACGTCAAG
* * * * * * *
8924273 ACATTAAACATGGGGTATGATGTATAAAATCAGAGCTCAACTATAACAACATAGAGAGCCCGCTT
1 ACATTAAACATGTGGTATGATGTGTAAGATCATAGCTCAGCTATAACAACATAAAGAGCCCGCTC
* * *
8924338 GGGCATTAAACATGGGGTATGATGCGTAAGACCATAGCTCAGCTATAACAACATAAAGAGCTCGC
66 GGGCATTAAACATGGGGTATGATGCGTAAGACCATAACTCAGCTATAACAACATAAAAAGCTCAC
*
8924403 TAGG
131 TAGA
** * *
8924407 ACATTAAACATGTGGTATGATGTGTAAGGCCATAGCTCAGCTATGACAACATAAAGAGTCCG-TC
1 ACATTAAACATGTGGTATGATGTGTAAGATCATAGCTCAGCTATAACAACATAAAGAGCCCGCTC
* * *
8924471 GGGACATTAAACATGGGGTATGATGTGTAAGACCATAACTCGGCTATGACAACATAAAAAG-TCC
66 GGG-CATTAAACATGGGGTATGATGCGTAAGACCATAACTCAGCTATAACAACATAAAAAGCT-C
8924535 ACTAGA
129 ACTAGA
*
8924541 ACATT-AA-ATGTAAGGTATGATGTGTAAGATCATAACTCAG
1 ACATTAAACATGT--GGTATGATGTGTAAGATCATAGCTCAG
8924581 TTTTATGATG
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
132 4 0.03
133 7 0.05
134 138 0.93
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (134 bp):
ACATTAAACATGTGGTATGATGTGTAAGATCATAGCTCAGCTATAACAACATAAAGAGCCCGCTC
GGGCATTAAACATGGGGTATGATGCGTAAGACCATAACTCAGCTATAACAACATAAAAAGCTCAC
TAGA
Found at i:8925450 original size:9 final size:9
Alignment explanation
Indices: 8925428--8925460 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8925418 GGCCTATTTG
8925428 TTTATTTA-
1 TTTATTTAT
8925436 TTTATTTAT
1 TTTATTTAT
*
8925445 TTTATTTCT
1 TTTATTTAT
8925454 TTTATTT
1 TTTATTT
8925461 TGAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTAT
Found at i:8926426 original size:25 final size:26
Alignment explanation
Indices: 8926388--8926441 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
8926378 TTATTTATAC
8926388 ATTTGTTTTAAAATCTATTATGTATT
1 ATTTGTTTTAAAATCTATTATGTATT
* *
8926414 ATTT-TTTTGAAATTTATTATGTATT
1 ATTTGTTTTAAAATCTATTATGTATT
8926439 ATT
1 ATT
8926442 CACTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (26 bp):
ATTTGTTTTAAAATCTATTATGTATT
Found at i:8930799 original size:30 final size:29
Alignment explanation
Indices: 8930737--8930799 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
8930727 CCATTTTGGC
*
8930737 AAAATACAAAGGCAATAAAATTTCCTTCA
1 AAAATACAAAGGCAATAAAATTTCCTTAA
**
8930766 AAAATACAAAGGCAATAAGTTATTCCTTAA
1 AAAATACAAAGGCAATAAAAT-TTCCTTAA
8930796 AAAA
1 AAAA
8930800 GCCAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (29 bp):
AAAATACAAAGGCAATAAAATTTCCTTAA
Found at i:8931451 original size:12 final size:12
Alignment explanation
Indices: 8931373--8931451 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
8931363 TGAATGAAGT
8931373 GAAAAAGTAAAAG
1 GAAAAAG-AAAAG
**
8931386 GAAATAGAGGGAAG
1 GAAA-A-AGAAAAG
8931400 GAAGAAAGAAAAG
1 GAA-AAAGAAAAG
*
8931413 GCAAAAGAAAAG
1 GAAAAAGAAAAG
8931425 AGAAAAA-AAAA-
1 -GAAAAAGAAAAG
*
8931436 -AAAAAGAAGAG
1 GAAAAAGAAAAG
8931447 GAAAA
1 GAAAA
8931452 TCTCCCATAC
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
12 17 0.33
13 16 0.31
14 8 0.15
15 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.03
Consensus pattern (12 bp):
GAAAAAGAAAAG
Found at i:8932030 original size:18 final size:18
Alignment explanation
Indices: 8932007--8932042 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8931997 TAGTTAAATA
*
8932007 AATATGTTTTATGAAAGT
1 AATATGTTATATGAAAGT
8932025 AATATGTTATATGAAAGT
1 AATATGTTATATGAAAGT
8932043 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
AATATGTTATATGAAAGT
Found at i:8935088 original size:22 final size:21
Alignment explanation
Indices: 8935062--8935102 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8935052 ACCCTAATTT
8935062 CCAAACGCACACGCCCGTGTAA
1 CCAAA-GCACACGCCCGTGTAA
* *
8935084 CCAAAGGACACGGCCGTGT
1 CCAAAGCACACGCCCGTGT
8935103 GAAAATCGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.37, G:0.24, T:0.10
Consensus pattern (21 bp):
CCAAAGCACACGCCCGTGTAA
Found at i:8937555 original size:16 final size:16
Alignment explanation
Indices: 8937534--8937565 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8937524 AGATAATAAG
8937534 CAAAGTGCGAGCCTGT
1 CAAAGTGCGAGCCTGT
*
8937550 CAAAGTGTGAGCCTGT
1 CAAAGTGCGAGCCTGT
8937566 TGAATTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (16 bp):
CAAAGTGCGAGCCTGT
Found at i:8937619 original size:44 final size:44
Alignment explanation
Indices: 8937571--8937665 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
8937561 CCTGTTGAAT
**
8937571 TGCAAGCCAAAGTGGTGGACA-GTCTAAATGCAAACCCGAATGGG
1 TGCAAGCCAAAGTGACGGA-AGGTCTAAATGCAAACCCGAATGGG
* * * *
8937615 TGCAAGCCAAAGTGACGGAAGGTTTAAATGCAAGCTCGAGTGGG
1 TGCAAGCCAAAGTGACGGAAGGTCTAAATGCAAACCCGAATGGG
8937659 TGCAAGC
1 TGCAAGC
8937666 TAAAATGGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.33, C:0.19, G:0.32, T:0.17
Consensus pattern (44 bp):
TGCAAGCCAAAGTGACGGAAGGTCTAAATGCAAACCCGAATGGG
Found at i:8939872 original size:34 final size:34
Alignment explanation
Indices: 8939829--8939895 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
8939819 TTTAAGCCCC
8939829 CTTACTTACTATAAGTTTGGAAAACTACTCAACA
1 CTTACTTACTATAAGTTTGGAAAACTACTCAACA
*
8939863 CTTATTTACTATAAGTTTGGAAAACTACTCAAC
1 CTTACTTACTATAAGTTTGGAAAACTACTCAAC
8939896 TGGAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (34 bp):
CTTACTTACTATAAGTTTGGAAAACTACTCAACA
Found at i:8943311 original size:35 final size:37
Alignment explanation
Indices: 8943253--8943324 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
8943243 GGAACTATAC
8943253 TTACCATACTTATACATCCATCATTTAATAACACAAG
1 TTACCATACTTATACATCCATCATTTAATAACACAAG
8943290 TTACCATAC-T-TACATCCATCATTTAATAACACAAG
1 TTACCATACTTATACATCCATCATTTAATAACACAAG
8943325 CACACATCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 25 0.71
36 1 0.03
37 9 0.26
ACGTcount: A:0.40, C:0.25, G:0.03, T:0.32
Consensus pattern (37 bp):
TTACCATACTTATACATCCATCATTTAATAACACAAG
Found at i:8952174 original size:17 final size:17
Alignment explanation
Indices: 8952152--8952204 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
8952142 AATGCCTTAT
8952152 TTTCAAGTTAATGATAA
1 TTTCAAGTTAATGATAA
* **
8952169 TTTC-A---AATCATTC
1 TTTCAAGTTAATGATAA
8952182 TTTCAAGTTAATGATAA
1 TTTCAAGTTAATGATAA
8952199 TTTCAA
1 TTTCAA
8952205 ATCATTCTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
16 1 0.04
17 15 0.58
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (17 bp):
TTTCAAGTTAATGATAA
Found at i:8952186 original size:30 final size:30
Alignment explanation
Indices: 8952152--8952213 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
8952142 AATGCCTTAT
8952152 TTTCAAGTTAATGATAATTTCAAATCATTC
1 TTTCAAGTTAATGATAATTTCAAATCATTC
8952182 TTTCAAGTTAATGATAATTTCAAATCATTC
1 TTTCAAGTTAATGATAATTTCAAATCATTC
8952212 TT
1 TT
8952214 GATTAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTCAAGTTAATGATAATTTCAAATCATTC
Found at i:8957510 original size:29 final size:29
Alignment explanation
Indices: 8957460--8957538 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
8957450 TGCGAGTTGT
* * *
8957460 AAAGTTGCAAGCTTATTAAAGACAGTGAGC
1 AAAG-TGCAAGCCTGTTAAAGACAGTAAGC
*
8957490 AAAGTGCAAGCCTGTTGAAGACAGTAAGC
1 AAAGTGCAAGCCTGTTAAAGACAGTAAGC
* * *
8957519 AAGGTGCAAGTCTGTCAAAG
1 AAAGTGCAAGCCTGTTAAAG
8957539 TGTGAGCCTG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 37 0.90
30 4 0.10
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (29 bp):
AAAGTGCAAGCCTGTTAAAGACAGTAAGC
Found at i:8957605 original size:44 final size:44
Alignment explanation
Indices: 8957555--8957650 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
8957545 CCTGTCAAAT
* *
8957555 TGCAAGCCGAAGTGGTGGACAGTCTAAATGCAAACCCGAATGGG
1 TGCAAGCCGAAGTGGAGAACAGTCTAAATGCAAACCCGAATGGG
* * * *
8957599 TGCAAGCCGAAGTGGAGAACGGTCTAAATGCAAGCTCGAGTGGG
1 TGCAAGCCGAAGTGGAGAACAGTCTAAATGCAAACCCGAATGGG
8957643 TGCAAGCC
1 TGCAAGCC
8957651 AAAATGGTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (44 bp):
TGCAAGCCGAAGTGGAGAACAGTCTAAATGCAAACCCGAATGGG
Found at i:8960055 original size:24 final size:23
Alignment explanation
Indices: 8959999--8960055 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
8959989 AAGAACTTCT
*
8959999 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
8960022 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
8960047 ACTTTTATT
1 A-TTTTATT
8960056 TTATTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:8960481 original size:18 final size:18
Alignment explanation
Indices: 8960458--8960495 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8960448 GGAAAATGAA
*
8960458 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
8960476 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
8960494 AC
1 AC
8960496 GCACCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:8962282 original size:30 final size:30
Alignment explanation
Indices: 8962248--8962316 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
8962238 ATTAATTAAA
8962248 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
**
8962278 GAGAGTTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
* *
8962308 AAGATTTTT
1 GAGAGTTTT
8962317 TGCTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (30 bp):
GAGAGTTTTGAGAAATTTAAAGAGAAATTT
Found at i:8971986 original size:30 final size:30
Alignment explanation
Indices: 8971952--8972020 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
8971942 ATTAATTAAA
8971952 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
**
8971982 GAGAGTTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
* *
8972012 AAGATTTTT
1 GAGAGTTTT
8972021 TGCTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (30 bp):
GAGAGTTTTGAGAAATTTAAAGAGAAATTT
Found at i:8974995 original size:26 final size:25
Alignment explanation
Indices: 8974966--8975078 Score: 95
Period size: 26 Copynumber: 4.4 Consensus size: 25
8974956 AAATGAAACA
*
8974966 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATA-AACAATTTAAAGT
*
8974992 AAATAGA-ATA-AAATAATTTAAAGT
1 AAATA-ATATATAAACAATTTAAAGT
* * *
8975016 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATAT-AAACAATTTAAAGT
* * *
8975042 AAATAATACACAAAGCAATTTAAAAT
1 AAATAATATATAAA-CAATTTAAAGT
*
8975068 AAATAACATAT
1 AAATAATATAT
8975079 CAGACAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.01
24 18 0.26
25 4 0.06
26 45 0.65
27 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.27
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAGT
Found at i:8975143 original size:28 final size:27
Alignment explanation
Indices: 8975008--8975228 Score: 96
Period size: 26 Copynumber: 7.9 Consensus size: 27
8974998 AATAAAATAA
* **
8975008 TTTAAAGTAAATAATATGTAAAACAAA-
1 TTTAAAATAAATAATATACAAAA-AAAG
* **
8975035 -TTAAAATAAATAATACACAAAGCAA-
1 TTTAAAATAAATAATATACAAAAAAAG
8975060 TTTAAAATAAATAACATATCAGACAATAAAAAG
1 TTTAAAATAAAT-A-ATAT---ACAA-AAAAAG
* **
8975093 TTTAAAATAAATTATATGTAAAAAGAAG
1 TTTAAAATAAATAATATACAAAAA-AAG
* *
8975121 TTTCAAATAAATAATATAC-AAAATAG
1 TTTAAAATAAATAATATACAAAAAAAG
* * *
8975147 TTTACAAAATAAATGATGTATATATAAATAA-
1 TTT--AAAATAAAT-A-ATATACA-AAAAAAG
* * * *
8975178 TTCAAAATAAATAATATA-TATAACAG
1 TTTAAAATAAATAATATACAAAAAAAG
*
8975204 TTTTAAAA-AAATAATATATAAAAAA
1 -TTTAAAATAAATAATATACAAAAAA
8975229 TGGATAATAG
Statistics
Matches: 144, Mismatches: 32, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
25 5 0.03
26 43 0.30
27 21 0.15
28 32 0.22
29 10 0.07
30 4 0.03
31 10 0.07
32 7 0.05
33 12 0.08
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (27 bp):
TTTAAAATAAATAATATACAAAAAAAG
Found at i:8975328 original size:27 final size:25
Alignment explanation
Indices: 8975277--8975361 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 25
8975267 TGGAAACTTG
*
8975277 AAATAAATAATAATAAAACAATTTA
1 AAATAAATAATAATAAAAAAATTTA
8975302 AAATAAATAAT-ATAAGAAAAAGGTTTA
1 AAATAAATAATAATAA-AAAAA--TTTA
* *
8975329 AAATATA-AATGAAT-AAAAAATTCGA
1 AAATAAATAAT-AATAAAAAAATT-TA
8975354 AAATAAAT
1 AAATAAAT
8975362 TGAAATCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
24 6 0.12
25 22 0.45
26 8 0.16
27 11 0.22
28 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (25 bp):
AAATAAATAATAATAAAAAAATTTA
Found at i:8975902 original size:12 final size:12
Alignment explanation
Indices: 8975887--8975917 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8975877 ATCCAGCCAT
8975887 CAGCCACTGCAC
1 CAGCCACTGCAC
8975899 CAGCCACTGCAC
1 CAGCCACTGCAC
8975911 CAGCCAC
1 CAGCCAC
8975918 CGGTCACCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.52, G:0.16, T:0.06
Consensus pattern (12 bp):
CAGCCACTGCAC
Found at i:8976947 original size:19 final size:19
Alignment explanation
Indices: 8976923--8976961 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8976913 TAATAACATA
8976923 AAAATAA-AATAAGTTAATC
1 AAAATAATAATAA-TTAATC
*
8976942 AAAATAATTATAATTAATC
1 AAAATAATAATAATTAATC
8976961 A
1 A
8976962 TGAATTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATAATAATAATTAATC
Found at i:8979164 original size:11 final size:11
Alignment explanation
Indices: 8979148--8979174 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8979138 TAAGATAATG
8979148 ATGAAGAATAA
1 ATGAAGAATAA
8979159 ATGAAGAATAA
1 ATGAAGAATAA
8979170 ATGAA
1 ATGAA
8979175 AAAACAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (11 bp):
ATGAAGAATAA
Done.