Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 355 of 425
Found at i:109683596 original size:49 final size:48
Alignment explanation
Indices: 109683513--109683627 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 48
109683503 GTGGCATGAA
* * *
109683513 ACTTGAACTCGTGATCGCATAACTATCGTCAACTA-GAGGCCTAAGTTAT
1 ACTTGAACT-GTGACCGCATAACGATCGTCAACTAGGAGCCCTAA-TTAT
109683562 ACTTGAATCTGTGACCGCATAACGATCG-CAAACTAGGAGCCCTAATTAT
1 ACTTGAA-CTGTGACCGCATAACGATCGTC-AACTAGGAGCCCTAATTAT
*
109683611 ACTTCAACATGTGACCG
1 ACTTGAAC-TGTGACCG
109683628 TATGACCATC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
48 2 0.03
49 46 0.79
50 10 0.17
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (48 bp):
ACTTGAACTGTGACCGCATAACGATCGTCAACTAGGAGCCCTAATTAT
Found at i:109694815 original size:24 final size:24
Alignment explanation
Indices: 109694783--109694830 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
109694773 CGAAGGTATT
109694783 TAATGTTCGACCTTTACTTGTTGA
1 TAATGTTCGACCTTTACTTGTTGA
*
109694807 TAATGTTCGGCCTTTACTTGTTGA
1 TAATGTTCGACCTTTACTTGTTGA
109694831 CAAATCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.46
Consensus pattern (24 bp):
TAATGTTCGACCTTTACTTGTTGA
Found at i:109704296 original size:40 final size:39
Alignment explanation
Indices: 109704251--109704380 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
109704241 CGGAATATAA
109704251 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
109704291 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
109704331 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
109704371 CCGGATATAA
1 CCGGATATAA
109704381 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:109704395 original size:40 final size:40
Alignment explanation
Indices: 109704267--109704418 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
109704257 ATAACCATGT
* * *
109704267 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
109704307 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
109704347 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
109704387 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
109704419 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:109704401 original size:80 final size:80
Alignment explanation
Indices: 109704267--109704416 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
109704257 ATAACCATGT
*
109704267 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
109704331 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
109704347 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
109704410 CCCGGAT
64 CCCGGAT
109704417 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:109708197 original size:26 final size:26
Alignment explanation
Indices: 109708167--109708218 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
109708157 GGGATCAAGA
109708167 GGCGTCGGAGACAGTGATCACACTAT
1 GGCGTCGGAGACAGTGATCACACTAT
109708193 GGCGTCGGAGACAGTGATCACACTAT
1 GGCGTCGGAGACAGTGATCACACTAT
109708219 CACCTGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (26 bp):
GGCGTCGGAGACAGTGATCACACTAT
Found at i:109708756 original size:13 final size:13
Alignment explanation
Indices: 109708738--109708762 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109708728 AATTTAATTC
109708738 ACACGGGCGTGAG
1 ACACGGGCGTGAG
109708751 ACACGGGCGTGA
1 ACACGGGCGTGA
109708763 CCCTGGAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.44, T:0.08
Consensus pattern (13 bp):
ACACGGGCGTGAG
Found at i:109717656 original size:8 final size:8
Alignment explanation
Indices: 109717643--109717675 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
109717633 CAGCACCCAG
109717643 ATCACATA
1 ATCACATA
109717651 ATCACATA
1 ATCACATA
109717659 ATCACATA
1 ATCACATA
109717667 A-CACATA
1 ATCACATA
109717674 AT
1 AT
109717676 GACCCTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (8 bp):
ATCACATA
Found at i:109718971 original size:15 final size:15
Alignment explanation
Indices: 109718948--109718999 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
109718938 TATTAAAAAA
109718948 ATTTAATAAAATATT
1 ATTTAATAAAATATT
*
109718963 ATTTTAT-AAA-A--
1 ATTTAATAAAATATT
109718974 ATTTAATAAAATATT
1 ATTTAATAAAATATT
*
109718989 ATTTTATAAAA
1 ATTTAATAAAA
109719000 ATTTAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 6 0.20
12 3 0.10
13 2 0.07
14 3 0.10
15 16 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAATAAAATATT
Found at i:109718979 original size:26 final size:26
Alignment explanation
Indices: 109718944--109719030 Score: 138
Period size: 26 Copynumber: 3.3 Consensus size: 26
109718934 TTTTTATTAA
109718944 AAAAATTTAATAAAATATTATTTTAT
1 AAAAATTTAATAAAATATTATTTTAT
109718970 AAAAATTTAATAAAATATTATTTTAT
1 AAAAATTTAATAAAATATTATTTTAT
* * *
109718996 AAAAATTTAATGAAATACTATTTTAG
1 AAAAATTTAATAAAATATTATTTTAT
*
109719022 ATAAATTTA
1 AAAAATTTA
109719031 CATTCTGTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAAATTTAATAAAATATTATTTTAT
Found at i:109719000 original size:16 final size:16
Alignment explanation
Indices: 109718955--109719001 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
109718945 AAAATTTAAT
109718955 AAAATATTATTTTATA
1 AAAATATTATTTTATA
109718971 AAAAT-TTA----AT-
1 AAAATATTATTTTATA
109718981 AAAATATTATTTTATA
1 AAAATATTATTTTATA
109718997 AAAAT
1 AAAAT
109719002 TTAATGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
10 5 0.20
11 5 0.20
15 5 0.20
16 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATTATTTTATA
Found at i:109720935 original size:13 final size:13
Alignment explanation
Indices: 109720917--109720941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109720907 ATTTCCCAGA
109720917 TTACATAATCAAT
1 TTACATAATCAAT
109720930 TTACATAATCAA
1 TTACATAATCAA
109720942 ATCAAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:109722354 original size:10 final size:10
Alignment explanation
Indices: 109722341--109722394 Score: 81
Period size: 10 Copynumber: 5.4 Consensus size: 10
109722331 TAGCTTTTAA
*
109722341 CTTTATTTAT
1 CTTTAATTAT
109722351 CTTTAATTAT
1 CTTTAATTAT
109722361 CTTTAATTAT
1 CTTTAATTAT
109722371 CTTTAATTAT
1 CTTTAATTAT
* *
109722381 CTGTATTTAT
1 CTTTAATTAT
109722391 CTTT
1 CTTT
109722395 TAGAATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (10 bp):
CTTTAATTAT
Found at i:109722370 original size:20 final size:20
Alignment explanation
Indices: 109722341--109722394 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
109722331 TAGCTTTTAA
109722341 CTTTATTTATCTTTAATTAT
1 CTTTATTTATCTTTAATTAT
*
109722361 CTTTAATTATCTTTAATTAT
1 CTTTATTTATCTTTAATTAT
*
109722381 CTGTATTTATCTTT
1 CTTTATTTATCTTT
109722395 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (20 bp):
CTTTATTTATCTTTAATTAT
Found at i:109723182 original size:14 final size:15
Alignment explanation
Indices: 109723156--109723194 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
109723146 TTCAATCAAC
*
109723156 TTTTA-ATTCTGTCT
1 TTTTATATTTTGTCT
109723170 TTTT-TATTTTGTCT
1 TTTTATATTTTGTCT
109723184 TTTTATATTTT
1 TTTTATATTTT
109723195 TCCCTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTATATTTTGTCT
Found at i:109724483 original size:28 final size:29
Alignment explanation
Indices: 109724452--109724511 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
109724442 AAAGTGATTT
*
109724452 TTGACAAAAATGTCAATT-AGG-GATTAAA
1 TTGACAAAAATGTAAATTGAGGAG-TTAAA
* *
109724480 TTGAGAAAAGTGTAAATTGAGGAGTTAAA
1 TTGACAAAAATGTAAATTGAGGAGTTAAA
109724509 TTG
1 TTG
109724512 TGAAACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 11 0.41
30 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGAGTTAAA
Found at i:109728069 original size:20 final size:19
Alignment explanation
Indices: 109728040--109728079 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
109728030 TTTATTGCAA
*
109728040 TTTAAATTTTTATTTTATTT
1 TTTAAATTTTCA-TTTATTT
*
109728060 TTTAATTTTTCATTTATTT
1 TTTAAATTTTCATTTATTT
109728079 T
1 T
109728080 CTTCTGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTAAATTTTCATTTATTT
Found at i:109734684 original size:32 final size:32
Alignment explanation
Indices: 109734643--109734707 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
109734633 TGTCTGAAAC
109734643 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
1 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
109734675 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
1 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
109734707 T
1 T
109734708 AAATACTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (32 bp):
TTTGATGTACTTTTAGTTGAATTTTCAATGTA
Found at i:109735179 original size:13 final size:13
Alignment explanation
Indices: 109735161--109735191 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
109735151 GTACATGAGC
109735161 GTGTCACACGGAT
1 GTGTCACACGGAT
*
109735174 GTGTCACACGGGT
1 GTGTCACACGGAT
109735187 GTGTC
1 GTGTC
109735192 CCTACCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.23, G:0.35, T:0.26
Consensus pattern (13 bp):
GTGTCACACGGAT
Found at i:109738379 original size:12 final size:12
Alignment explanation
Indices: 109738362--109738431 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
109738352 AGCAACCTAA
109738362 TTTTTATTTATT
1 TTTTTATTTATT
*
109738374 TTTTTATTTTTAT
1 TTTTTATTTAT-T
109738387 TTTTTA-TTATCCT
1 TTTTTATTTAT--T
*
109738400 TTCTT-TTTATT
1 TTTTTATTTATT
*
109738411 TTATTATTTATT
1 TTTTTATTTATT
*
109738423 ATTTTATTT
1 TTTTTATTT
109738432 TTTGGGTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.11
12 26 0.55
13 16 0.34
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:109738434 original size:28 final size:29
Alignment explanation
Indices: 109738361--109738434 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
109738351 AAGCAACCTA
109738361 ATTT-TTA-TTTATTTTTTTATTTTTATT
1 ATTTATTATTTTATTTTTTTATTTTTATT
* * *
109738388 TTTTATTATCCTT-TCTTTTTA-TTTTATT
1 ATTTATTAT-TTTATTTTTTTATTTTTATT
109738416 ATTTATTATTTTATTTTTT
1 ATTTATTATTTTATTTTTT
109738435 GGGTATTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
27 5 0.14
28 23 0.62
29 7 0.19
30 2 0.05
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (29 bp):
ATTTATTATTTTATTTTTTTATTTTTATT
Found at i:109740240 original size:10 final size:10
Alignment explanation
Indices: 109740225--109740283 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
109740215 TATTTTAGCT
109740225 TTTATCTTTA
1 TTTATCTTTA
109740235 TTTATCTTTA
1 TTTATCTTTA
*
109740245 ATTATCTTTA
1 TTTATCTTTA
*
109740255 ATTATCTTTA
1 TTTATCTTTA
109740265 TTTAT-TTGTA
1 TTTATCTT-TA
109740275 TTTATCTTT
1 TTTATCTTT
109740284 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:109746567 original size:24 final size:24
Alignment explanation
Indices: 109746540--109746585 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
109746530 TATTTGTAGC
* *
109746540 AATGCTGCGAATTGTATTTACAGA
1 AATGCTACGAACTGTATTTACAGA
*
109746564 AATGTTACGAACTGTATTTACA
1 AATGCTACGAACTGTATTTACA
109746586 AAAACGTCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (24 bp):
AATGCTACGAACTGTATTTACAGA
Found at i:109746651 original size:71 final size:70
Alignment explanation
Indices: 109746552--109746792 Score: 173
Period size: 71 Copynumber: 3.4 Consensus size: 70
109746542 TGCTGCGAAT
* ** * *
109746552 TGTATTTACAGAAATGTTACGAACTGTATTTACAAAAACGTCGTGAACTATTTTTTAGAATTACT
1 TGTATTTACATAAATGTCGCGAACTGTATTTACAAAAA-GTTGTGAACTATTTTATAGAATTACT
*
109746617 CTGAAT
65 CTGAAC
* * * * * * * * * * **
109746623 TGTATTTGCATAAATGTCGTGAATTGTATCGTA-GAATA-TTGTAAACTGTATTTGTAGAAATGT
1 TGTATTTACATAAATGTCGCGAACTGTAT-TTACAAAAAGTTGTGAACTAT-TTTATAGAATTAC
109746686 TGC-GAAC
64 T-CTGAAC
* * * * *
109746693 CGTATTTACAAAAATGTAGTGAACTGTATTTACAAAAATGTTGTGAACTATTCTATAGAATTACT
1 TGTATTTACATAAATGTCGCGAACTGTATTTACAAAAA-GTTGTGAACTATTTTATAGAATTACT
*
109746758 ATGAAC
65 CTGAAC
* * *
109746764 TGCATTTGCATAAATGTCGCGAATTGTAT
1 TGTATTTACATAAATGTCGCGAACTGTAT
109746793 CGTAGAATAT
Statistics
Matches: 123, Mismatches: 40, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
69 10 0.08
70 40 0.33
71 62 0.50
72 11 0.09
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (70 bp):
TGTATTTACATAAATGTCGCGAACTGTATTTACAAAAAGTTGTGAACTATTTTATAGAATTACTC
TGAAC
Found at i:109746741 original size:24 final size:24
Alignment explanation
Indices: 109746661--109746741 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
109746651 TCGTAGAATA
* ** *
109746661 TTGTAAACTGTATTTGTAGAAATG
1 TTGTGAACTGTATTTACAAAAATG
* *
109746685 TTGCGAACCGTATTTACAAAAATG
1 TTGTGAACTGTATTTACAAAAATG
*
109746709 TAGTGAACTGTATTTACAAAAATG
1 TTGTGAACTGTATTTACAAAAATG
109746733 TTGTGAACT
1 TTGTGAACT
109746742 ATTCTATAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (24 bp):
TTGTGAACTGTATTTACAAAAATG
Found at i:109746788 original size:141 final size:141
Alignment explanation
Indices: 109746525--109746816 Score: 424
Period size: 141 Copynumber: 2.1 Consensus size: 141
109746515 AAATACTATG
* * ** *
109746525 AACTATATTTGTAGCAATGCTGCGAATTGTATTTACAGAAATGTTACGAACTGTATTTACAAAAA
1 AACTGTATTTGTAGAAATGCTGCGAACCGTATTTACAAAAATGTTACGAACTGTATTTACAAAAA
* * * * * *
109746590 CGTCGTGAACTATTTTTTAGAATTACTCTGAATTGTATTTGCATAAATGTCGTGAATTGTATCGT
66 CGTCGTGAACTATTCTATAGAATTACTATGAACTGCATTTGCATAAATGTCGCGAATTGTATCGT
*
109746655 AGAATATTGTA
131 AGAATATTGCA
* *
109746666 AACTGTATTTGTAGAAATGTTGCGAACCGTATTTACAAAAATG-TAGTGAACTGTATTTACAAAA
1 AACTGTATTTGTAGAAATGCTGCGAACCGTATTTACAAAAATGTTA-CGAACTGTATTTACAAAA
* *
109746730 ATGTTGTGAACTATTCTATAGAATTACTATGAACTGCATTTGCATAAATGTCGCGAATTGTATCG
65 ACGTCGTGAACTATTCTATAGAATTACTATGAACTGCATTTGCATAAATGTCGCGAATTGTATCG
109746795 TAGAATATTGCA
130 TAGAATATTGCA
109746807 AACTGTATTT
1 AACTGTATTT
109746817 AGAAAAACAC
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
140 2 0.01
141 132 0.99
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (141 bp):
AACTGTATTTGTAGAAATGCTGCGAACCGTATTTACAAAAATGTTACGAACTGTATTTACAAAAA
CGTCGTGAACTATTCTATAGAATTACTATGAACTGCATTTGCATAAATGTCGCGAATTGTATCGT
AGAATATTGCA
Found at i:109746886 original size:24 final size:24
Alignment explanation
Indices: 109746853--109746954 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 24
109746843 GAATTATTGT
*
109746853 GAACTATATTTGCATAAATGTTGC
1 GAACTGTATTTGCATAAATGTTGC
* * *
109746877 GAATTGTA-TTG--TAGAATATTGT
1 GAACTGTATTTGCATA-AATGTTGC
* * * *
109746899 GAATTATTTTTGCATAAATGCTGC
1 GAACTGTATTTGCATAAATGTTGC
* * *
109746923 AAACTGTATTTACAGAAATGTTGC
1 GAACTGTATTTGCATAAATGTTGC
109746947 GAACTGTA
1 GAACTGTA
109746955 GTCCATAAGA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
21 2 0.04
22 12 0.21
23 6 0.11
24 35 0.61
25 2 0.04
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (24 bp):
GAACTGTATTTGCATAAATGTTGC
Found at i:109746911 original size:46 final size:47
Alignment explanation
Indices: 109746831--109746932 Score: 143
Period size: 46 Copynumber: 2.2 Consensus size: 47
109746821 AAACACCGCT
* * *
109746831 AACTGTTTTGTAGAATTATTGTGAACTATATTTGCATAAATGTTGCG
1 AACTGTATTGTAGAATTATTGTGAACTATATTTGCATAAATGCTGCA
* * *
109746878 AATTGTATTGTAGAA-TATTGTGAATTATTTTTGCATAAATGCTGCA
1 AACTGTATTGTAGAATTATTGTGAACTATATTTGCATAAATGCTGCA
109746924 AACTGTATT
1 AACTGTATT
109746933 TACAGAAATG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 35 0.73
47 13 0.27
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (47 bp):
AACTGTATTGTAGAATTATTGTGAACTATATTTGCATAAATGCTGCA
Found at i:109747051 original size:54 final size:54
Alignment explanation
Indices: 109746991--109747490 Score: 390
Period size: 54 Copynumber: 9.3 Consensus size: 54
109746981 TACAAAAGAC
* * * *
109746991 CGTGATCGTAAATCAGCGGGCTGTGAGATTTGTAAAATCT-AGAAAGTAGAAGGT
1 CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCA-AAAGTAGAAGGT
* * * *
109747045 CATGATCATAAATCAACGAGTA--GTAAGATTCATAAAATCTCAAAAGTA-AATGGT
1 CGTGATCATAAATCAGCG-G-ACCGTGAGATTCGTAAAATCTCAAAAGTAGAA-GGT
** * * **
109747099 TAT-AGTCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGT
1 CGTGA-TCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * * *
109747153 CGTGATCATGAATCAGCGAACCGTAAGATTCGTAAAATCTCAAAA-T--TAGGT
1 CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTAGAAGGT
** * ** * * ** * *
109747204 CGTGATTGTATATCAAAGGACAGGGAGATTCGTAAAATCTTGAAAGTAGAAAGA
1 CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTAGAAGGT
* ** * *
109747258 CGTGATCTTAAATCAGCAAACCGTGAGATTCGTAAAATCTCGAAAGTAGAAAGT
1 CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTAGAAGGT
*
109747312 CGTGATCATAAATTAGCGGACCGTGAGATTCGTAAAATCTCAAAAG-ATGAAGGT
1 CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTA-GAAGGT
* *** * *
109747366 TGTGATCATAAATCAATAGACCATAAGATTCGTAAAATCTCAAAAGTAGAAGGT
1 CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * * * * * * * *
109747420 CATGATCGTAAATCAGCGAATCGTAAGA-TCTATAAAATTTCGAAAGTAGAAAGT
1 CGTGATCATAAATCAGCGGACCGTGAGATTC-GTAAAATCTCAAAAGTAGAAGGT
* **
109747474 AGTGATTGTAAATCAGC
1 CGTGATCATAAATCAGC
109747491 ATGACAACCC
Statistics
Matches: 351, Mismatches: 80, Indels: 30
0.76 0.17 0.07
Matches are distributed among these distances:
51 37 0.11
52 2 0.01
53 8 0.02
54 298 0.85
55 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (54 bp):
CGTGATCATAAATCAGCGGACCGTGAGATTCGTAAAATCTCAAAAGTAGAAGGT
Found at i:109747149 original size:108 final size:108
Alignment explanation
Indices: 109746993--109747488 Score: 468
Period size: 108 Copynumber: 4.6 Consensus size: 108
109746983 CAAAAGACCG
* * * *
109746993 TGATCGTAAATCAGCGGGCTGTGAGATTTGTAAAATCTAGAAAGTAGAAGGTCATGATCATAAAT
1 TGATCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
** * *
109747058 CAACGAGTAGTAAGATTCATAAAATCTCAAAAGTA-AATGGTTA
66 CAACGAACAGTAAGATTCGTAAAATCTCAAAAGTAGAA-GGTCA
*
109747101 T-AGTCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGTCGTGATCATGAA
1 TGA-TCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAA
* * * *
109747165 TCAGCGAACCGTAAGATTCGTAAAATCTCAAAA-T--TAGGTCG
65 TCAACGAACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
* * ** * * * * * *
109747206 TGATTGTATATCAAAGGACAGGGAGATTCGTAAAATCTTGAAAGTAGAAAGACGTGATCTTAAAT
1 TGATCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
* * * * * * *
109747271 CAGCAAACCGTGAGATTCGTAAAATCTCGAAAGTAGAAAGTCG
66 CAACGAACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
* * * ** *
109747314 TGATCATAAATTAGCGGACCGTGAGATTCGTAAAATCTCAAAAG-ATGAAGGTTGTGATCATAAA
1 TGATCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTA-GAAGGTCGTGATCATAAA
* *
109747378 TCAATAGACCA-TAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
65 TCAA-CGAACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
* * * * * * * **
109747422 TGATCGTAAATCAGCGAATCGTAAGATCTATAAAAT-TTCGAAAGTAGAAAGTAGTGATTGTAAA
1 TGATCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTT-GAAAGTAGAAGGTCGTGATCATAAA
109747486 TCA
65 TCA
109747489 GCATGACAAC
Statistics
Matches: 313, Mismatches: 66, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
105 84 0.27
106 3 0.01
107 4 0.01
108 219 0.70
109 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.26
Consensus pattern (108 bp):
TGATCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
CAACGAACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
Found at i:109752503 original size:16 final size:17
Alignment explanation
Indices: 109752474--109752508 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
109752464 AATCAAACAA
109752474 ATATTTTAAGTAATTTT
1 ATATTTTAAGTAATTTT
109752491 ATATTTT-AGTAATTTT
1 ATATTTTAAGTAATTTT
109752507 AT
1 AT
109752509 TATCAAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
ATATTTTAAGTAATTTT
Found at i:109752866 original size:18 final size:17
Alignment explanation
Indices: 109752826--109752874 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
109752816 ATTTAATTAA
* *
109752826 ATAAATAATTAACAATTT
1 ATAAATAA-TAAAAATAT
109752844 ATAAATAATAAAAATAT
1 ATAAATAATAAAAATAT
109752861 ATTAAA-AATAAAAA
1 A-TAAATAATAAAAA
109752875 ATCAATTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATAATAAAAATAT
Found at i:109754856 original size:22 final size:21
Alignment explanation
Indices: 109754822--109754862 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
109754812 ATTTTCCCAC
*
109754822 AATTGATAGAAAATGAAAAAAA
1 AATTGAAAGAAAA-GAAAAAAA
*
109754844 AATTGAAATAAAAGAAAAA
1 AATTGAAAGAAAAGAAAAA
109754863 CAGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (21 bp):
AATTGAAAGAAAAGAAAAAAA
Found at i:109761409 original size:10 final size:10
Alignment explanation
Indices: 109761390--109761439 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
109761380 TTAAATTTTA
109761390 AAAGATAAAT
1 AAAGATAAAT
109761400 ACAA-ATAAAT
1 A-AAGATAAAT
*
109761410 AAAGATAATT
1 AAAGATAAAT
109761420 AAAGATAAAT
1 AAAGATAAAT
109761430 GAAA-ATAAAT
1 -AAAGATAAAT
109761440 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:109763447 original size:40 final size:39
Alignment explanation
Indices: 109763320--109763486 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 39
109763310 TGGAATATAA
109763320 CCGGATATAATC-ACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * *
109763360 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
109763400 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
109763440 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
109763479 CCGGATAT
1 CCGGATAT
109763487 TATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 16 0.15
40 91 0.85
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:109763470 original size:80 final size:79
Alignment explanation
Indices: 109763336--109763486 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
109763326 ATAATCACGT
*
109763336 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
109763401 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
109763416 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
109763479 CCGGATAT
64 CCGGATAT
109763487 TATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:109765485 original size:97 final size:97
Alignment explanation
Indices: 109765314--109765496 Score: 260
Period size: 97 Copynumber: 1.9 Consensus size: 97
109765304 TATTTATTTA
* ** *
109765314 TTTATTTTTACTTAGGATTATATTGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
* *
109765379 TCCTGGTTACTTAGCCCAACATACTTCTAATT
66 TCCTAGTTACTCAGCCCAACATACTTCTAATT
* * *
109765411 TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
*
109765476 -CCTTAGTTACTCAGGCCAACA
66 TCC-TAGTTACTCAGCCCAACA
109765497 CATTTTTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
96 2 0.03
97 73 0.97
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
TCCTAGTTACTCAGCCCAACATACTTCTAATT
Found at i:109766362 original size:15 final size:14
Alignment explanation
Indices: 109766338--109766419 Score: 51
Period size: 15 Copynumber: 5.8 Consensus size: 14
109766328 TATCAGCATC
109766338 TAAAAATAAAATAA
1 TAAAAATAAAATAA
109766352 TAAATAATAAAATAAA
1 TAAA-AATAAAAT-AA
* * *
109766368 TTAAATTAAATTAAA
1 TAAAAATAAAAT-AA
* * *
109766383 TTAAATTAAATTAA
1 TAAAAATAAAATAA
* *
109766397 T-TAAATAATA-AA
1 TAAAAATAAAATAA
109766409 TAAAAATAAAA
1 TAAAAATAAAA
109766420 ATTGGGTTGC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 3 0.05
13 12 0.21
14 7 0.12
15 29 0.52
16 5 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAATAAAATAA
Found at i:109766372 original size:10 final size:10
Alignment explanation
Indices: 109766359--109766418 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
109766349 TAATAAATAA
109766359 TAAAATAAAT
1 TAAAATAAAT
*
109766369 TAAATTAAAT
1 TAAAATAAAT
*
109766379 TAAATTAAAT
1 TAAAATAAAT
*
109766389 T-AAATTAAT
1 TAAAATAAAT
109766398 TAAATAATAAAT
1 T-AA-AATAAAT
*
109766410 AAAAATAAA
1 TAAAATAAA
109766419 AATTGGGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
9 7 0.17
10 26 0.62
11 3 0.07
12 6 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAAATAAAT
Found at i:109766393 original size:5 final size:5
Alignment explanation
Indices: 109766359--109766402 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
109766349 TAATAAATAA
*
109766359 TAAAA TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T-AAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
109766403 AATAAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:109772099 original size:39 final size:39
Alignment explanation
Indices: 109772055--109772179 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
109772045 TTTGAGATTG
109772055 AAAATATCCGGACATGAGGTCCGCAGGCTATATACTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATACTGGA
* *
109772094 AAAATATCCGGACATGAGATCCGCAGGCTATATACTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATACTGGA
* * ** *
109772133 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATACTGGA
109772172 AAAATATC
1 AAAATATC
109772180 TGGGTTAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATACTGGA
Found at i:109772196 original size:78 final size:76
Alignment explanation
Indices: 109772054--109772208 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
109772044 GTTTGAGATT
* * *
109772054 GAAAATATCCGGACATGAGGTCCGCAGGCTATATACTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATACTGGAAAAATATCCGGACATAAGACCCGCA
109772119 GGCTATATACTA
66 GGCT-TATACTA
* * * * **
109772131 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCTGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATACTGGAAAAATATCCGGACAT-AAGACCCG
*
109772195 CAGGCTTATGCTA
64 CAGGCTTATACTA
109772208 G
1 G
109772209 TAATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 12 0.18
78 54 0.82
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATACTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTATACTA
Found at i:109772414 original size:2 final size:2
Alignment explanation
Indices: 109772409--109772436 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109772399 TATATATATA
109772409 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
109772437 AATGAATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:109780130 original size:39 final size:39
Alignment explanation
Indices: 109780086--109780210 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
109780076 TTTGAGATTG
*
109780086 AAAATATCCGGACATGAGGTCCACAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
109780125 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
109780164 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
109780203 AAAATATC
1 AAAATATC
109780211 TGGGTTAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:109780227 original size:78 final size:76
Alignment explanation
Indices: 109780085--109780239 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
109780075 GTTTGAGATT
* * *
109780085 GAAAATATCCGGACATGAGGTCCACAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCACAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
109780150 GGCTATATGCTA
66 GGCT-TACGCTA
* * * * **
109780162 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCTGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCACAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
109780226 CAGGCTTACGCTA
64 CAGGCTTACGCTA
109780239 G
1 G
109780240 TAATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 12 0.18
78 54 0.82
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCACAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:109783801 original size:38 final size:38
Alignment explanation
Indices: 109783758--109783850 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
109783748 TAAAGACCCT
* * *
109783758 CAGGCTTTGTGCTGGTAAAATATCCGAGTTAAATCCCG
1 CAGGCTTAGTGCTGGTAAAATATCAGAGATAAATCCCG
* ** *
109783796 CAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCCG
1 CAGGCTTAGTGCTGGTAAAATATCAGAGATAAATCCCG
*
109783834 CAGGCCTAGTGCTGGTA
1 CAGGCTTAGTGCTGGTA
109783851 TTATATTTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (38 bp):
CAGGCTTAGTGCTGGTAAAATATCAGAGATAAATCCCG
Found at i:109783907 original size:43 final size:43
Alignment explanation
Indices: 109783854--109784064 Score: 307
Period size: 43 Copynumber: 4.9 Consensus size: 43
109783844 GCTGGTATTA
* ** *
109783854 TATTTGGGCCTTCGTGCCTAGCAGGCTTTGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
109783897 TATTCGGGCCTTCGTGCCTAGTAGGCTTCATGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
109783940 TATTCGGGTCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
*
109783983 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
*
109784026 TATTCGGGCCTTCGTGCCTAGCAGG-TGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCT-TCATGCCGGTGA
109784065 AATGATATGT
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 1 0.01
43 149 0.99
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:109784490 original size:43 final size:43
Alignment explanation
Indices: 109784377--109784504 Score: 136
Period size: 45 Copynumber: 3.0 Consensus size: 43
109784367 TTGACTTGAT
* * * **
109784377 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTAAGATAC
1 TATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGT--GATAC
*
109784422 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-AC
1 TATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGATAC
*
109784464 TGATATCGGGCC-TCGAGCCTAACAGGCGA-AATGCCGGTGAT
1 T-AT-TCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGAT
109784505 TTGAGAAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
42 14 0.19
43 19 0.26
44 7 0.09
45 34 0.46
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (43 bp):
TATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGATAC
Found at i:109788090 original size:19 final size:20
Alignment explanation
Indices: 109788066--109788113 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
109788056 TAAATTCTAA
109788066 AAGATAAATACAA-ATAAAT-
1 AAGATAAATA-AAGATAAATG
*
109788085 AAGATAATTAAAGATAAATG
1 AAGATAAATAAAGATAAATG
*
109788105 AAAATAAAT
1 AAGATAAAT
109788114 CCTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (20 bp):
AAGATAAATAAAGATAAATG
Found at i:109788562 original size:18 final size:19
Alignment explanation
Indices: 109788520--109788562 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
109788510 TATTCTTTAG
109788520 AATTTTTTTAAAATATATA
1 AATTTTTTTAAAATATATA
**
109788539 CTTTTTTTTAAAA-ATATA
1 AATTTTTTTAAAATATATA
109788557 AATTTT
1 AATTTT
109788563 AGAATTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTTTTTAAAATATATA
Found at i:109788595 original size:27 final size:26
Alignment explanation
Indices: 109788557--109788611 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
109788547 TAAAAATATA
* *
109788557 AATTTTAGAATT-TTTCTAATATTTTG
1 AATTTTAAAATTATTT-TAAAATTTTG
109788583 AATTTTAAAAATTATTTTAAAATTTTG
1 AATTTT-AAAATTATTTTAAAATTTTG
109788610 AA
1 AA
109788612 AATAATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 16 0.64
28 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (26 bp):
AATTTTAAAATTATTTTAAAATTTTG
Found at i:109788608 original size:20 final size:20
Alignment explanation
Indices: 109788583--109788620 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109788573 TAATATTTTG
*
109788583 AATTTTAAAAATTATTTTAA
1 AATTTTAAAAATAATTTTAA
*
109788603 AATTTTGAAAATAATTTT
1 AATTTTAAAAATAATTTT
109788621 GATTCTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTTAAAAATAATTTTAA
Found at i:109790744 original size:3 final size:3
Alignment explanation
Indices: 109790738--109790779 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
109790728 CTAATAACAA
* * *
109790738 AAG AAG AAG AAG AAA AAG AAG AAG ACG AAG AAA AAG AA- AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
109790780 GACTGTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:109790754 original size:15 final size:15
Alignment explanation
Indices: 109790736--109790779 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
109790726 ACCTAATAAC
109790736 AAAAGAAGAAGAAGA
1 AAAAGAAGAAGAAGA
*
109790751 AAAAGAAGAAGACGA
1 AAAAGAAGAAGAAGA
109790766 AGAAA-AAGAA-AAGA
1 A-AAAGAAGAAGAAGA
109790780 GACTGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAGAAGA
Found at i:109790761 original size:18 final size:18
Alignment explanation
Indices: 109790738--109790779 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
109790728 CTAATAACAA
109790738 AAGAAGAAGAAGAAAAAG
1 AAGAAGAAGAAGAAAAAG
*
109790756 AAGAAGACGAAGAAAAAG
1 AAGAAGAAGAAGAAAAAG
109790774 AA-AAGA
1 AAGAAGA
109790780 GACTGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.71, C:0.02, G:0.26, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAGAAAAAG
Found at i:109792226 original size:20 final size:20
Alignment explanation
Indices: 109792201--109792238 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
109792191 TTGTTATTTT
109792201 TTGAAAGTT-GAGTGACTGAA
1 TTGAAA-TTAGAGTGACTGAA
109792221 TTGAAATTAGAGTGACTG
1 TTGAAATTAGAGTGACTG
109792239 TTTTGTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (20 bp):
TTGAAATTAGAGTGACTGAA
Found at i:109795089 original size:33 final size:32
Alignment explanation
Indices: 109795051--109795155 Score: 129
Period size: 33 Copynumber: 3.2 Consensus size: 32
109795041 CTTTTTTAGT
* *
109795051 TGTACACTCGAGGTGCACATTCCCTTTTCAAG
1 TGTACACTCGAAGTGCACATACCCTTTTCAAG
* * *
109795083 TGGTACACACGAAGTGTACATACCCTTTTCAATT
1 T-GTACACTCGAAGTGCACATACCCTTTTCAA-G
* *
109795117 TGTACACTCAAAGTGCACATAACCTTTTCAAG
1 TGTACACTCGAAGTGCACATACCCTTTTCAAG
109795149 TGTACAC
1 TGTACAC
109795156 ATATAGTGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
32 8 0.13
33 52 0.85
34 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (32 bp):
TGTACACTCGAAGTGCACATACCCTTTTCAAG
Found at i:109795175 original size:32 final size:32
Alignment explanation
Indices: 109795067--109795284 Score: 168
Period size: 33 Copynumber: 6.7 Consensus size: 32
109795057 CTCGAGGTGC
* * *
109795067 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTAT
** * * **
109795100 ACATACCCTTTTCAATTTGTACACTCAAAGTGC
1 ACATTTCCTTTTCAA-GTGTACACACAAAGTAT
** * * *
109795133 ACATAACCTTTTCAAGTGTACACATATAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTAT
* * *
109795165 ACCTTTCCTTTTCAAGCAGTATACACAAAGTAT
1 ACATTTCCTTTTCAAG-TGTACACACAAAGTAT
* *
109795198 ACCTTTCCTTTTCATA-TGGTATACACAAAGTAT
1 ACATTTCCTTTTCA-AGT-GTACACACAAAGTAT
* *
109795231 ACATTTCCTTTCCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTAT
**
109795263 ACATAACCTTTTCAAGTTGTAC
1 ACATTTCCTTTTCAAG-TGTAC
109795285 CATTTGGGTA
Statistics
Matches: 152, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
32 52 0.34
33 98 0.64
34 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTAT
Found at i:109795194 original size:65 final size:62
Alignment explanation
Indices: 109795063--109795284 Score: 183
Period size: 65 Copynumber: 3.4 Consensus size: 62
109795053 TACACTCGAG
** ** * *
109795063 GTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACTCAA
1 GTGCACATAACCTTTTCAAGT-GTACACA--AAGTGTACATTTCCTTTTCAA-GTGTACACACAA
109795128 A
62 A
* * *
109795129 GTGCACATAACCTTTTCAAGTGTACACATATAGTGTACCTTTCCTTTTCAAGCAGTATACACAAA
1 GTGCACATAACCTTTTCAAGTGTACACA-A-AGTGTACATTTCCTTTTCAAG-TGTACACACAAA
** * ** * * *
109795194 GTATACCTTTCCTTTTCATATGGTATACACAAAGTATACATTTCCTTTCCAAGTGTACACACAAA
1 GTGCACATAACCTTTTCA-A--GTGTACACAAAGTGTACATTTCCTTTTCAAGTGTACACACAAA
*
109795259 GTGTACATAACCTTTTCAAGTTGTAC
1 GTGCACATAACCTTTTCAAG-TGTAC
109795285 CATTTGGGTA
Statistics
Matches: 124, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 2 0.02
65 70 0.56
66 38 0.31
67 1 0.01
68 8 0.06
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (62 bp):
GTGCACATAACCTTTTCAAGTGTACACAAAGTGTACATTTCCTTTTCAAGTGTACACACAAA
Found at i:109796011 original size:20 final size:22
Alignment explanation
Indices: 109795969--109796016 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
109795959 TGTAAAAGTG
*
109795969 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
109795991 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
109796011 AATTTA
1 -ATTTA
109796017 AAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:109799804 original size:20 final size:21
Alignment explanation
Indices: 109799779--109799818 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
109799769 CAATGCAACT
* *
109799779 AAGGGC-ACATGCCCGTGTGG
1 AAGGGCGACACGCCCATGTGG
109799799 AAGGGCGACACGCCCATGTG
1 AAGGGCGACACGCCCATGTG
109799819 TTCTCTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AAGGGCGACACGCCCATGTGG
Found at i:109801872 original size:27 final size:26
Alignment explanation
Indices: 109801842--109801937 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 26
109801832 GGAAATATTG
* * *
109801842 TACTAGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
*
109801869 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
109801896 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
* **
109801923 TTCTGGCAGCTATGC
1 TACTGGTGGCTATGC
109801938 TGCATTATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:109803667 original size:16 final size:17
Alignment explanation
Indices: 109803646--109803682 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
109803636 GGAAATTTCG
109803646 AGGACAAAA-TTCTTTA
1 AGGACAAAACTTCTTTA
109803662 AGGACAAAACTTCTTTA
1 AGGACAAAACTTCTTTA
109803679 AGGA
1 AGGA
109803683 GGGGTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (17 bp):
AGGACAAAACTTCTTTA
Found at i:109805488 original size:27 final size:27
Alignment explanation
Indices: 109805450--109805571 Score: 181
Period size: 27 Copynumber: 4.5 Consensus size: 27
109805440 GGTCGTTATC
109805450 TGACCATAATGCCCCTGTAGGGTAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
*
109805477 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
* *
109805504 TAACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
* *
109805531 TAACCATAATGCCCCTGTAGGATAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
* *
109805558 TGACGATTATGCCC
1 TGACCATAATGCCC
109805572 TTATGTTCCG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (27 bp):
TGACCATAATGCCCCTGTAGGGTAAAA
Found at i:109805754 original size:27 final size:27
Alignment explanation
Indices: 109805724--109805783 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
109805714 TGTCATATTC
*
109805724 ACTGTTATTGGTGGCTATGCCACAACT
1 ACTGTTATCGGTGGCTATGCCACAACT
* * **
109805751 ACTGATATCGGTGGCTTTGCCACATTT
1 ACTGTTATCGGTGGCTATGCCACAACT
109805778 ACTGTT
1 ACTGTT
109805784 TATGGCAACT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
ACTGTTATCGGTGGCTATGCCACAACT
Found at i:109807695 original size:48 final size:47
Alignment explanation
Indices: 109807620--109807854 Score: 308
Period size: 48 Copynumber: 4.9 Consensus size: 47
109807610 AAGGTAAGAT
* * *
109807620 GCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAA
* **
109807667 CGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGA
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAA
* * * *
109807715 GCCCGATACCATGTTCCAAACACGGTCTTACACTGGCTCACATATTGAG
1 G-CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA-TAAA
* * *
109807764 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAA
*
109807811 TACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
109807855 ACCCTAGTAT
Statistics
Matches: 161, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
47 3 0.02
48 156 0.97
49 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAAA
Found at i:109809286 original size:24 final size:23
Alignment explanation
Indices: 109809240--109809326 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
109809230 ATTTGGGCTG
109809240 CATAACAGGAAGCTCATAAGAGC
1 CATAACAGGAAGCTCATAAGAGC
* **
109809263 CATAATCAGGATGCTCATGTGAGC
1 CATAA-CAGGAAGCTCATAAGAGC
*
109809287 CAATAAC-GAGTAGCTCCA-AAGAGC
1 C-ATAACAG-GAAGCT-CATAAGAGC
*
109809311 CATTAACGGGAAGCTC
1 CA-TAACAGGAAGCTC
109809327 TGGATAGCTA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
23 8 0.16
24 35 0.70
25 7 0.14
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (23 bp):
CATAACAGGAAGCTCATAAGAGC
Found at i:109811893 original size:21 final size:21
Alignment explanation
Indices: 109811868--109811907 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
109811858 AATGAGAAGA
109811868 AAACAAAGTTGGGTGCTTTGG
1 AAACAAAGTTGGGTGCTTTGG
109811889 AAACAAAGTTGGGTGCTTT
1 AAACAAAGTTGGGTGCTTT
109811908 CTTTTTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (21 bp):
AAACAAAGTTGGGTGCTTTGG
Found at i:109829173 original size:2 final size:2
Alignment explanation
Indices: 109829168--109829199 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
109829158 AATGTGTGTG
109829168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109829200 AAGAAACCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:109832268 original size:62 final size:60
Alignment explanation
Indices: 109832154--109832268 Score: 149
Period size: 62 Copynumber: 1.9 Consensus size: 60
109832144 GTACAAACTG
* * ****
109832154 TTTTTATATTATTTTATTTAATAAAATAAAAGTTGTATTGAATATTTTAATAGTCAATTA
1 TTTTTATATTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAGTCAATTA
*
109832214 TTTTTATATTTTATCTTATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
1 TTTTTATA--TTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAG
109832269 AAATAATACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 8 0.17
62 38 0.83
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (60 bp):
TTTTTATATTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAGTCAATTA
Found at i:109842521 original size:20 final size:18
Alignment explanation
Indices: 109842487--109842526 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
109842477 TTTTCCTTTT
109842487 CTTTTTCTTTTTCTTTCC
1 CTTTTTCTTTTTCTTTCC
109842505 CTTTTTCCTTCTTTCTTTCC
1 CTTTTT-CTT-TTTCTTTCC
109842525 CT
1 CT
109842527 GCTATTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCTTTTTCTTTCC
Found at i:109842622 original size:18 final size:17
Alignment explanation
Indices: 109842595--109842631 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
109842585 ATTCTTTATT
*
109842595 TTATTAATATATTATAA
1 TTATTAATATAATATAA
109842612 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
109842630 TT
1 TT
109842632 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:109845512 original size:130 final size:126
Alignment explanation
Indices: 109845053--109845593 Score: 695
Period size: 126 Copynumber: 4.3 Consensus size: 126
109845043 TTTGACACTA
* * * * ** * **
109845053 AAAATTACTTTTTCAGGAACAACTGTAGAAAAAGAGTATCTACGTAAGAGCTTTTTTCAGTAATT
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATT
* * *
109845118 TTGCTAACAGTGCATCCTGCTTAAAACGTTTTTGACCCTATTTTTTCAGAACCGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * * * * *
109845179 AAAATTATTTTTTCAGGAACTAATGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTAAGTAATT
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATT
* * * * * *
109845244 TTGTTGACAGTGCATTCTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
*
109845305 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATT
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATT
* * * * *
109845370 TTGCTGACAGTGCATCCTGTTTGAAGCGTTTTTGACATTATTTTTTTAGAACTGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* *
109845431 AAAATTATTTTTTTTTCCAAAAACTACTATAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCAGT
1 AAAATTA---TTTTTT-CAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT
* * * * *
109845496 ACTTTTGCTAATAGTGCATCTTGCTTGAAGCGTTTTTGTCACTATTTTTTTAGAACCGTCTTCTC
62 AATTTTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* *
109845561 AAAATTAATTTTTCAGAAACTACTATAAAAAAA
1 AAAATTATTTTTTCAGAAACTACTATAGAAAAA
109845594 ACAAAATCCA
Statistics
Matches: 366, Mismatches: 45, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
126 246 0.67
127 5 0.01
129 6 0.02
130 109 0.30
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATT
TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
Found at i:109845583 original size:256 final size:252
Alignment explanation
Indices: 109845053--109845593 Score: 697
Period size: 256 Copynumber: 2.1 Consensus size: 252
109845043 TTTGACACTA
* * * * * *
109845053 AAAATTACTTTTTCAGGAACAACTGTAGAAAAAGAGTATCTACGTAAGAGCTTTTTTCAGTAATT
1 AAAATTAATTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCAGTAATT
*
109845118 TTGCTAACAGTGCATCCTGCTTAAAACGTTTTTGACCCTATTTTTTCAGAACCGTCTTCTCAAAA
66 TTGCTAACAGTGCATCCTGCTTAAAACGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAA
** * *
109845183 TTATTTTTTCAGGAACTAATGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTAAGTAATTTTGT
131 TTATTTTTTCAAAAACTAATATAGAAAAAGAGCATCCACATGGGAGCTTTTTTAAGTAATTTTGC
* * *
109845248 TGACAGTGCATTCTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTC
196 TAACAGTGCATTCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTC
* * ** *
109845305 AAAATTATTTTTTCAGAAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATT
1 AAAATTAATTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCAGTAATT
* * * * * * *
109845370 TTGCTGACAGTGCATCCTGTTTGAAGCGTTTTTGACATTATTTTTTTAGAACTGTCTTCTCAAAA
66 TTGCTAACAGTGCATCCTGCTTAAAACGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAA
* * * * * *
109845435 TTATTTTTTTTTCCAAAAACTACTATAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCAGTACTT
131 TTA---TTTTTT-CAAAAACTAATATAGAAAAAGAGCATCCACATGGGAGCTTTTTTAAGTAATT
* * * *
109845500 TTGCTAATAGTGCA-TCTTGCTTGAAGCGTTTTTGTCACTATTTTTTTAGAACCGTCTTCTC
192 TTGCTAACAGTGCATTC-TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTC
*
109845561 AAAATTAATTTTTCAGAAACTACTATAAAAAAA
1 AAAATTAATTTTTCAGAAACTACTATAGAAAAA
109845594 ACAAAATCCA
Statistics
Matches: 247, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
252 115 0.47
255 8 0.03
256 124 0.50
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (252 bp):
AAAATTAATTTTTCAGAAACTACTATAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCAGTAATT
TTGCTAACAGTGCATCCTGCTTAAAACGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAA
TTATTTTTTCAAAAACTAATATAGAAAAAGAGCATCCACATGGGAGCTTTTTTAAGTAATTTTGC
TAACAGTGCATTCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTC
Found at i:109845768 original size:31 final size:33
Alignment explanation
Indices: 109845691--109845772 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
109845681 TTAAAAAGTT
*
109845691 CTAAACCCTAATTTAATTAATTTTCTAAAAAACC
1 CTAAACCCTAATTT-ATTTATTTTCTAAAAAACC
* **
109845725 CTAAA-CCTAATTTATTTATTTT-T-TAAATTC
1 CTAAACCCTAATTTATTTATTTTCTAAAAAACC
109845755 CTAAACCCTAATTTATTT
1 CTAAACCCTAATTTATTT
109845773 TTTAAAATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 9 0.21
31 13 0.30
32 8 0.19
33 8 0.19
34 5 0.12
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (33 bp):
CTAAACCCTAATTTATTTATTTTCTAAAAAACC
Found at i:109845772 original size:27 final size:28
Alignment explanation
Indices: 109845738--109845793 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
109845728 AACCTAATTT
*
109845738 ATTTATTTTTTAAATTCC-TAAACCCTA
1 ATTTATTTTTTAAAATCCTTAAACCCTA
109845765 ATTTATTTTTTAAAATCCTTAAACCCTA
1 ATTTATTTTTTAAAATCCTTAAACCCTA
109845793 A
1 A
109845794 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTATTTTTTAAAATCCTTAAACCCTA
Found at i:109848184 original size:8 final size:8
Alignment explanation
Indices: 109848127--109848190 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
109848117 AATTTTATCG
109848127 ATTTATAT
1 ATTTATAT
*
109848135 ATATATAT
1 ATTTATAT
*
109848143 ATATATAT
1 ATTTATAT
*
109848151 A-TTATAA
1 ATTTATAT
*
109848158 ATTTCTA-
1 ATTTATAT
*
109848165 ATTTTTTAT
1 A-TTTATAT
109848174 ATTTATAT
1 ATTTATAT
*
109848182 ATTTTTAT
1 ATTTATAT
109848190 A
1 A
109848191 AATTTATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.13
8 39 0.85
9 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTATAT
Found at i:109848187 original size:18 final size:19
Alignment explanation
Indices: 109848167--109848226 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 19
109848157 AATTTCTAAT
*
109848167 TTTTTATATTTATATATT-
1 TTTTTAAATTTATATATTA
* *
109848185 TTTATAAATTTATA-ATTG
1 TTTTTAAATTTATATATTA
* *
109848203 GTTTTAGATTTATATATTA
1 TTTTTAAATTTATATATTA
109848222 TTTTT
1 TTTTT
109848227 TGAATAAAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 3 0.09
18 23 0.70
19 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTAAATTTATATATTA
Found at i:109848905 original size:15 final size:16
Alignment explanation
Indices: 109848885--109848915 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
109848875 CAAAATTTGA
109848885 ATTTAAT-AATAAATT
1 ATTTAATAAATAAATT
109848900 ATTTAATAAATAAATT
1 ATTTAATAAATAAATT
109848916 TGAACAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAATAAATAAATT
Found at i:109849331 original size:69 final size:69
Alignment explanation
Indices: 109849249--109849381 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 69
109849239 TATAGAATCT
* * *
109849249 TAGTATTAGTATTGCATTATAATCACCGCCATTCAGATTTATAAATAGTAAAGAAGTGAACTATG
1 TAGTATTAATATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTATG
109849314 TGAG
66 TGAG
* * * ** * *
109849318 TAGTATTAATATTGTATTATAATTACCACTACTCTTATTTATAAATAGTGAAGAAGTGAGCTAT
1 TAGTATTAATATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTAT
109849382 CTAGTCAATG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (69 bp):
TAGTATTAATATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTATG
TGAG
Found at i:109850514 original size:30 final size:30
Alignment explanation
Indices: 109850452--109850514 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
109850442 ACTTATTTTA
**
109850452 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
109850482 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
109850512 TTG
1 TTG
109850515 CTTGTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:109856082 original size:4 final size:4
Alignment explanation
Indices: 109856073--109856105 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
109856063 ATGAGGTGCA
*
109856073 AAAG AAAG AAAG AAAA AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
109856106 GAGCTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:109856093 original size:16 final size:16
Alignment explanation
Indices: 109856072--109856103 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
109856062 AATGAGGTGC
109856072 AAAAGAAAGAAAGAAA
1 AAAAGAAAGAAAGAAA
109856088 AAAAGAAAGAAAGAAA
1 AAAAGAAAGAAAGAAA
109856104 GAGAGCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAGAAA
Found at i:109856600 original size:7 final size:7
Alignment explanation
Indices: 109856588--109856651 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
109856578 ATTTCAACAA
109856588 AAAAATT
1 AAAAATT
109856595 AAAAATT
1 AAAAATT
109856602 AAAAATT
1 AAAAATT
109856609 AAAAATT
1 AAAAATT
*
109856616 AAAAATC
1 AAAAATT
*
109856623 GAAAATCT
1 AAAAAT-T
*
109856631 AAAATATA
1 AAAA-ATT
109856639 AAAAATT
1 AAAAATT
109856646 ATAAAA
1 A-AAAA
109856652 ATATTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
7 35 0.73
8 11 0.23
9 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:109868434 original size:25 final size:23
Alignment explanation
Indices: 109868406--109868468 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
109868396 TTATTGTTCT
* *
109868406 TTTTCTTTTCTTTTTAGTTCTTTAA
1 TTTTCTTTTCTTTTT-CTTC-TCAA
*
109868431 TTTTTTTTTGCTTTTTCTTCTCAA
1 TTTTCTTTT-CTTTTTCTTCTCAA
*
109868455 ATTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
109868469 CTTTTCCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 5 0.16
24 10 0.31
25 11 0.34
26 6 0.19
ACGTcount: A:0.10, C:0.14, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTCTTCTCAA
Found at i:109869204 original size:62 final size:62
Alignment explanation
Indices: 109869124--109869284 Score: 250
Period size: 62 Copynumber: 2.6 Consensus size: 62
109869114 GGATACAGGT
* * * *
109869124 GTGTGCCCAGGCTGTGTAACTCACTGTTTGTATTTAAGAACCATATGGCCAGGGACACGAGC
1 GTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAACCATACGGCCAGGGACACAAGC
* *
109869186 GTGTGCCCAAGCCCTGTAACTCACTGTTTGTACTTAAGAACCATACGGCCAGGGACACAAGC
1 GTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAACCATACGGCCAGGGACACAAGC
* *
109869248 GTGTGCCCAGGCCGTGTAACTCACTATTTGTGCTTAA
1 GTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAA
109869285 AAAACCACAC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 89 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (62 bp):
GTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAACCATACGGCCAGGGACACAAGC
Found at i:109878508 original size:31 final size:31
Alignment explanation
Indices: 109878467--109878530 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
109878457 CCTTTTCATA
*
109878467 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
109878498 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
109878529 TT
1 TT
109878531 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:109878776 original size:24 final size:23
Alignment explanation
Indices: 109878722--109878864 Score: 171
Period size: 23 Copynumber: 6.0 Consensus size: 23
109878712 TGCTTTATCA
*
109878722 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
109878746 TAATAACTGGGGCAAAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCC-TTT
*
109878771 TGTAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
* *
109878794 AATAACTGGGGCGTAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
109878817 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
* *
109878841 AATAACTCGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
109878864 T
1 T
109878865 TCACTTCCTC
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
23 44 0.43
24 43 0.42
25 16 0.16
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:109878797 original size:47 final size:48
Alignment explanation
Indices: 109878744--109878865 Score: 203
Period size: 47 Copynumber: 2.6 Consensus size: 48
109878734 CCTAGCCTCT
*
109878744 TTTAATAACTGGGGCAAAAGCCCTTTTTG-TAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTGATAACTGGGGCATAAGCCC
*
109878791 TTTAATAACTGGGGCGTAAGCCC-TTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTGATAACTGGGGCATAAGCCC
*
109878838 TTTAATAACTCGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
109878866 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 5 0.07
47 60 0.87
48 4 0.06
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTGATAACTGGGGCATAAGCCC
Found at i:109878937 original size:9 final size:9
Alignment explanation
Indices: 109878923--109878979 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
109878913 ATTTCGTGTG
109878923 CATATCATA
1 CATATCATA
*
109878932 CATATCATGTG
1 CATATCA--TA
109878943 CATATCATA
1 CATATCATA
* *
109878952 CATGTCATGTG
1 CATATCA--TA
109878963 CATATCATA
1 CATATCATA
109878972 CATATCAT
1 CATATCAT
109878980 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:109878942 original size:20 final size:20
Alignment explanation
Indices: 109878919--109878981 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
109878909 GAACATTTCG
109878919 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
109878939 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
109878959 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
109878979 TGT
1 TGT
109878982 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:109879064 original size:25 final size:25
Alignment explanation
Indices: 109879018--109879065 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
109879008 ATATATAAAC
* * * *
109879018 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
109879043 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
109879066 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:109880316 original size:27 final size:27
Alignment explanation
Indices: 109880216--109880299 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
109880206 GGGCATATTC
* *
109880216 GTCATTTTACCATACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
109880243 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
109880270 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
109880297 GTC
1 GTC
109880300 TTTTTACCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:109880587 original size:27 final size:27
Alignment explanation
Indices: 109880367--109880849 Score: 163
Period size: 27 Copynumber: 17.9 Consensus size: 27
109880357 CTACAAACCA
* * *
109880367 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTCTGTAATTTTGTAAATCG
* * *
109880394 ATGGTATTTCTATAATTTT-TAGAAAGTCA
1 AGGGTATTTCTGTAATTTTGT--AAA-TCG
*
109880423 AGGGTATTTCTGTAACTTTGTAAATC-
1 AGGGTATTTCTGTAATTTTGTAAATCG
** *
109880449 AGGGGTATTT-TGGTAATTTTACAAATTG
1 A-GGGTATTTCT-GTAATTTTGTAAATCG
* *** *
109880477 AGGGTATTTCGGTAATTTCACAAA-CT
1 AGGGTATTTCTGTAATTTTGTAAATCG
** *
109880503 AGTGGTATTT-TGGTAATTTTACAAA-CT
1 AG-GGTATTTCT-GTAATTTTGTAAATCG
**
109880530 AGGGGTATTT-TGGTAATTTTACAAAAT-G
1 A-GGGTATTTCT-GTAATTTT-GTAAATCG
109880558 AGGGTATTTCTGTAATTTTGTAAATCG
1 AGGGTATTTCTGTAATTTTGTAAATCG
** * * *
109880585 AGGGTAAAAT-AGTAATTCTGTAAATCA
1 AGGGT-ATTTCTGTAATTTTGTAAATCG
*** * *
109880612 AGGGTAAAACGGTAA-TTTATAAATCG
1 AGGGTATTTCTGTAATTTTGTAAATCG
*** * *
109880638 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTATTTCTGTAATTTTGTAAATCG
*** *
109880665 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTATTTCTGTAATTTTGTAAATCG
*** * *
109880692 AGGGTAAAACGGTAATTATGTAAATCG
1 AGGGTATTTCTGTAATTTTGTAAATCG
*** *
109880719 -GGGTAAAAC-GATAATTCTGTAAATCG
1 AGGGTATTTCTG-TAATTTTGTAAATCG
* ** *
109880745 -GGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCTGTAATTTTGTAAATCG
* * **
109880771 AAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCTGTAATTTTGTAAATCG
* * *
109880798 AGGGTATTTCAGT-ATTTT-TACAAACTA
1 AGGGTATTTCTGTAATTTTGTA-AATC-G
109880825 AGGGTATTTC-GATAATTTTAGTAAA
1 AGGGTATTTCTG-TAATTTT-GTAAA
109880850 CTAAAGTATT
Statistics
Matches: 374, Mismatches: 53, Indels: 56
0.77 0.11 0.12
Matches are distributed among these distances:
25 2 0.01
26 85 0.23
27 244 0.65
28 20 0.05
29 20 0.05
30 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCTGTAATTTTGTAAATCG
Found at i:109880617 original size:81 final size:80
Alignment explanation
Indices: 109880434--109880697 Score: 212
Period size: 81 Copynumber: 3.3 Consensus size: 80
109880424 GGGTATTTCT
* * * ***
109880434 GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACA
1 GTAA-TTTGTAAATCAAGGGTATTTTGGTAATTTTACAAAATGAGGGTATTTCAGTAATTTTGTA
* ***
109880499 AA-CTAGTGGTATTTTG
65 AATCGAG-GGTAAAATG
* * *
109880515 GTAATTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAAATGAGGGTATTTCTGTAATTTTGT
1 GTAATTTGTA-AATC-AAGGGTATTTTGGTAATTTTACAAAATGAGGGTATTTCAGTAATTTTGT
*
109880579 AAATCGAGGGTAAAATA
64 AAATCGAGGGTAAAATG
**** * *** *
109880596 GTAATTCTGTAAATCAAGGGTAAAACGGTAA-TTTA-TAAATCGAGGGTAAAACAGTAATTCTGT
1 GTAATT-TGTAAATCAAGGGTATTTTGGTAATTTTACAAAAT-GAGGGTATTTCAGTAATTTTGT
*
109880659 AAATCGAGGGTAAAACG
64 AAATCGAGGGTAAAATG
*
109880676 GTAATTTTGTAAATCGAGGGTA
1 GTAA-TTTGTAAATCAAGGGTA
109880698 AAACGGTAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
79 6 0.04
80 60 0.40
81 75 0.50
82 7 0.05
83 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (80 bp):
GTAATTTGTAAATCAAGGGTATTTTGGTAATTTTACAAAATGAGGGTATTTCAGTAATTTTGTAA
ATCGAGGGTAAAATG
Found at i:109880652 original size:53 final size:53
Alignment explanation
Indices: 109880569--109880749 Score: 267
Period size: 53 Copynumber: 3.4 Consensus size: 53
109880559 GGGTATTTCT
*
109880569 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AGGGTAAAACG
*
109880623 GTAA-TTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AGGGTAAAACG
* * *
109880676 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAGGGTAAAACG
* *
109880729 ATAATTCTGTAAATCG-GGGTA
1 GTAATTTTGTAAATCGAGGGTA
109880750 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
52 5 0.04
53 74 0.63
54 38 0.32
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (53 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAGGGTAAAACG
Found at i:109880661 original size:80 final size:79
Alignment explanation
Indices: 109880569--109880749 Score: 267
Period size: 80 Copynumber: 2.3 Consensus size: 79
109880559 GGGTATTTCT
* *
109880569 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATT-TATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATA
109880633 AATCGAGGGTAAAAC
66 AATCG-GGGTAAAAC
* * * *
109880648 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGT
1 -GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATAT
109880713 AAATCGGGGTAAAAC
65 AAATCGGGGTAAAAC
109880728 GATAATTCTGTAAATCG-GGGTA
1 G-TAATTCTGTAAATCGAGGGTA
109880750 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
79 6 0.06
80 79 0.85
81 8 0.09
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (79 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATA
AATCGGGGTAAAAC
Found at i:109880760 original size:26 final size:27
Alignment explanation
Indices: 109880569--109880749 Score: 260
Period size: 27 Copynumber: 6.8 Consensus size: 27
109880559 GGGTATTTCT
* **
109880569 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
109880596 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
109880623 GTAATT-TATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
109880649 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
109880676 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
109880703 GTAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
109880729 ATAATTCTGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
109880750 CTTTGGTAAT
Statistics
Matches: 140, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 52 0.37
27 88 0.63
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:109892742 original size:22 final size:22
Alignment explanation
Indices: 109892714--109892787 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
109892704 CACTAAGTCA
* *
109892714 ACAGGACGGCTCAACGCCGTAG
1 ACAGGACGACTCAACGCCATAG
*
109892736 ACAGGACGACTCAACGTCATAG
1 ACAGGACGACTCAACGCCATAG
* * *
109892758 ACAGGACGACTCAATGTCATAA
1 ACAGGACGACTCAACGCCATAG
109892780 ACAGGACG
1 ACAGGACG
109892788 GCTAAAGGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.35, C:0.27, G:0.26, T:0.12
Consensus pattern (22 bp):
ACAGGACGACTCAACGCCATAG
Found at i:109896827 original size:19 final size:19
Alignment explanation
Indices: 109896791--109896828 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
109896781 ATATGGGGCC
*
109896791 CACGAGCCCATTAGGCCCA
1 CACGAGCCCATTAAGCCCA
109896810 CACG-GCCCATCTAAGCCCA
1 CACGAGCCCAT-TAAGCCCA
109896829 ACGTGGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.26, C:0.45, G:0.18, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAAGCCCA
Found at i:109898131 original size:35 final size:35
Alignment explanation
Indices: 109898091--109898181 Score: 130
Period size: 35 Copynumber: 2.6 Consensus size: 35
109898081 TTTCTAGTAG
* *
109898091 GCATGCTTAACATGCGAATTAGAATTAGAATAAT-
1 GCATGCTTAACATGCGAATCAGAATCAGAATAATA
*
109898125 GACATGCTTAACATGCGAATCATAATCAGAATAATA
1 G-CATGCTTAACATGCGAATCAGAATCAGAATAATA
*
109898161 GTATGCTTAACATGCGAATCA
1 GCATGCTTAACATGCGAATCA
109898182 AAAAATCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 1 0.02
35 49 0.96
36 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATCAGAATCAGAATAATA
Found at i:109898718 original size:4 final size:4
Alignment explanation
Indices: 109898709--109898746 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
109898699 CAAATTAAAC
109898709 AAAG AAAG AAAG AAAG AAA- AGAA- AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAA
109898747 AAGAAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:109898735 original size:23 final size:23
Alignment explanation
Indices: 109898709--109898754 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
109898699 CAAATTAAAC
109898709 AAAGAAAGAAAGAAAGAA-AAGAA
1 AAAGAAAGAAAGAAA-AAGAAGAA
109898732 AAAGAAAGAAAGAAAAAGAAGAA
1 AAAGAAAGAAAGAAAAAGAAGAA
109898755 GAGAACGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAAAGAAGAA
Found at i:109898759 original size:14 final size:14
Alignment explanation
Indices: 109898709--109898751 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
109898699 CAAATTAAAC
109898709 AAAGAAAG--AAAG
1 AAAGAAAGAAAAAG
109898721 AAAGAAAAGAAAAAG
1 AAAG-AAAGAAAAAG
109898736 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
109898750 AA
1 AA
109898752 GAAGAGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 12 0.43
15 8 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:109899874 original size:43 final size:43
Alignment explanation
Indices: 109899826--109899908 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
109899816 GTGATTGAAT
* *
109899826 TTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAAACA
1 TTGAAATGGAAAAGATGAGAAAAGAATATGAAATGAGAAAACA
* *
109899869 TTGAAATGGTAAAGATGAGAAAAGAATATGAAATGGGAAA
1 TTGAAATGGAAAAGATGAGAAAAGAATATGAAATGAGAAA
109899909 TGAAATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.53, C:0.01, G:0.27, T:0.19
Consensus pattern (43 bp):
TTGAAATGGAAAAGATGAGAAAAGAATATGAAATGAGAAAACA
Found at i:109902451 original size:17 final size:17
Alignment explanation
Indices: 109902429--109902462 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109902419 CATTGACATG
* *
109902429 AAAATGTAATGACAATA
1 AAAATGCAATGAAAATA
109902446 AAAATGCAATGAAAATA
1 AAAATGCAATGAAAATA
109902463 TATAGTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGAAAATA
Found at i:109903228 original size:42 final size:43
Alignment explanation
Indices: 109903163--109903326 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 43
109903153 AGCTCGTACA
* *
109903163 ATGCCAAC-GTCCCAGA-AGTGGTCTTACATG-TATCAAATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
109903205 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
* * * * *
109903247 ATGCCGA-TGTCCCAGACATGGTCTTTCACGTAGATCTCAAAT-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACACG-A-A-ATCAAATATG
* *
109903291 ATGCCAAC-GTCCCAAAC-GTGGTTTTACACGAAATCA
1 ATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCA
109903327 CATTTCGAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
41 5 0.05
42 51 0.50
43 14 0.14
44 25 0.25
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:109904860 original size:42 final size:42
Alignment explanation
Indices: 109904766--109904871 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
109904756 TTGTGTGTCA
* *
109904766 CACACGGGCAACACACATGGATGTGTGACCCAAGTTAGTGAGT
1 CACACGGGCAA-AGACATGGGTGTGTGACCCAAGTTAGTGAGT
* * * * *
109904809 CATATGGGCAAAGACACGGGTGTGTGTCTCAAGTTAGTGAGT
1 CACACGGGCAAAGACATGGGTGTGTGACCCAAGTTAGTGAGT
* *
109904851 TACACGGGCAAGGACATGGGT
1 CACACGGGCAAAGACATGGGT
109904872 TAGGACATGG
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 42 0.82
43 9 0.18
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (42 bp):
CACACGGGCAAAGACATGGGTGTGTGACCCAAGTTAGTGAGT
Found at i:109907391 original size:25 final size:25
Alignment explanation
Indices: 109907363--109907410 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
109907353 TGATCACACA
* * *
109907363 AGCTGTAATTATAATTGCTCACATG
1 AGCTATAACTATAAATGCTCACATG
109907388 AGCTATAACTATAAATGCTCACA
1 AGCTATAACTATAAATGCTCACA
109907411 CAGGCTGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (25 bp):
AGCTATAACTATAAATGCTCACATG
Found at i:109911811 original size:19 final size:19
Alignment explanation
Indices: 109911787--109911826 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
109911777 CTAGCCTATA
109911787 CATGCCATACTTGAATGTT
1 CATGCCATACTTGAATGTT
109911806 CATGCCATACTTGAATGTT
1 CATGCCATACTTGAATGTT
109911825 CA
1 CA
109911827 CATTTTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (19 bp):
CATGCCATACTTGAATGTT
Found at i:109913565 original size:42 final size:42
Alignment explanation
Indices: 109913462--109913612 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 42
109913452 CAAAAAGCTC
* * * ** *
109913462 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAA
* * * *
109913504 ATATTGATGCCACTGTCCCAGACAAGGTTTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAA
109913547 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCATA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACATG-AAATCA-A
109913591 AGT-CGATGCCAATGTCCCAGAC
1 A-TACGATGCCAATGTCCCAGAC
109913613 GTAGTCTTAC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 31 0.34
43 38 0.42
44 21 0.23
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAA
Found at i:109913623 original size:86 final size:85
Alignment explanation
Indices: 109913462--109913628 Score: 203
Period size: 86 Copynumber: 2.0 Consensus size: 85
109913452 CAAAAAGCTC
* ** * *
109913462 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACAAGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGAC
*
109913527 AAGGTTTTACACGAAATCAA
66 AAGGTCTTACACGAAATCAA
* * *
109913547 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCATAA-GTCGATGCCAATGTCCCAG
1 ATACAATGCCAACGTCCCAGACAAGGTCTTACATGT-AATCA-AATATCGATGCCAATGTCCCAG
*
109913611 ACGTA-GTCTTACACGAAA
64 AC-AAGGTCTTACACGAAA
109913629 ACACATATCG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 31 0.45
86 35 0.51
87 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACAAGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGAC
AAGGTCTTACACGAAATCAA
Found at i:109914909 original size:2 final size:2
Alignment explanation
Indices: 109914902--109914967 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
109914892 GATTCGCACG
*
109914902 CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
109914944 CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA
109914968 TATATATATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:109915233 original size:43 final size:43
Alignment explanation
Indices: 109915185--109915356 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
109915175 AGCTCATACA
* * *
109915185 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
109915228 ATGCC-ACTGTCCCAGACAGGGTCTTACTCGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
109915270 ATG-CGATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
* ** *
109915313 ATGCCAACGTCCCAAATGTGGTCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
109915356 A
1 A
109915357 AAATCCTATG
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
41 21 0.20
42 15 0.14
43 49 0.46
44 21 0.20
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:109915336 original size:85 final size:84
Alignment explanation
Indices: 109915193--109915348 Score: 203
Period size: 85 Copynumber: 1.8 Consensus size: 84
109915183 CAATGCCAAC
* * *
109915193 GTCCCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACTCG
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG
109915258 AAATCAAATACGATGCGAT
66 AAATCAAATACGATGCGAT
*
109915277 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCA-A-ATGTGGTCTT
1 GTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGACA-G-GGTCTT
109915338 ACACGAAATCA
61 ACACGAAATCA
109915349 CATATCGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
83 1 0.02
84 23 0.37
85 35 0.56
86 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG
AAATCAAATACGATGCGAT
Found at i:109917006 original size:20 final size:20
Alignment explanation
Indices: 109916981--109917019 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
109916971 ATATGGACTA
109916981 ATATGA-AACAAAATAGAAAT
1 ATATGACAA-AAAATAGAAAT
*
109917001 ATATGACAAAAATTAGAAA
1 ATATGACAAAAAATAGAAA
109917020 CAAGAGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (20 bp):
ATATGACAAAAAATAGAAAT
Found at i:109921899 original size:79 final size:80
Alignment explanation
Indices: 109921739--109921961 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 80
109921729 TCGAATGATG
* * * *
109921739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
109921803 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
*
109921819 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
109921881 TGGTGCGAGTTACTAAA
64 TCGTGCGAGTTACTAAA
* * * *
109921898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
109921962 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 70 0.55
80 48 0.38
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:109921962 original size:119 final size:120
Alignment explanation
Indices: 109921739--109921963 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
109921729 TCGAATGATG
* *
109921739 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
109921804 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
109921859 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
109921921 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
109921964 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 71 0.77
120 19 0.21
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:109921970 original size:40 final size:39
Alignment explanation
Indices: 109921740--109921963 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 39
109921730 CGAATGATGT
* * *
109921740 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
109921780 CCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
109921819 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
109921860 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109921898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109921939 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
109921964 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109921985 original size:79 final size:78
Alignment explanation
Indices: 109921746--109921995 Score: 276
Period size: 79 Copynumber: 3.2 Consensus size: 78
109921736 ATGTCCGGGC
* * *
109921746 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTCGTGCG
1 TAAGT-CCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTCGTGCG
*
109921809 AGTTACTAAATCCGGAC
63 AGTTACTAAATCCGG-T
*
109921826 TAAGATCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGA
1 TAAG-TCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTCGTGCGA
109921889 GTTACTAAATCCGGGT
64 GTTACTAAATCC-GGT
* * * **
109921905 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAG
*
109921970 -TAGCTATATCCGGT
65 TTA-CTAAATCCGGT
*
109921984 TAAATCCGAAGG
1 TAAGTCCGAAGG
109921996 TACGTGATTC
Statistics
Matches: 149, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
78 8 0.05
79 77 0.52
80 56 0.38
81 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
TACTAAATCCGGT
Done.