Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 76 of 133
Found at i:15008632 original size:12 final size:12
Alignment explanation
Indices: 15008617--15008646 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15008607 TATTTTAATT
15008617 TTTTTAGTTTAA
1 TTTTTAGTTTAA
*
15008629 TTTTTGGTTTAA
1 TTTTTAGTTTAA
15008641 TTTTTA
1 TTTTTA
15008647 TTTTTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (12 bp):
TTTTTAGTTTAA
Found at i:15008703 original size:20 final size:21
Alignment explanation
Indices: 15008678--15008717 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
15008668 ATGTCAATTC
15008678 GTAAAAA-AAAGAAA-AAAAAG
1 GTAAAAATAAA-AAAGAAAAAG
15008698 GTAAAAATAAAAAAGAAAAA
1 GTAAAAATAAAAAAGAAAAA
15008718 AAAGTGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
GTAAAAATAAAAAAGAAAAAG
Found at i:15009323 original size:17 final size:17
Alignment explanation
Indices: 15009282--15009329 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
15009272 TGCATGACTA
*
15009282 ATATTATATTTGCATGAT
1 ATATT-TATTTGCATAAT
*
15009300 A-ATTTATTTGCCTAAT
1 ATATTTATTTGCATAAT
15009316 ATATTTATTTGCAT
1 ATATTTATTTGCAT
15009330 GATTAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 11 0.42
17 14 0.54
18 1 0.04
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (17 bp):
ATATTTATTTGCATAAT
Found at i:15009341 original size:17 final size:16
Alignment explanation
Indices: 15009286--15009342 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
15009276 TGACTAATAT
15009286 TATATTTGCATGATAA
1 TATATTTGCATGATAA
* * *
15009302 TTTATTTGCCTAATATA
1 TATATTTGCATGATA-A
*
15009319 TTTATTTGCATGATTAA
1 TATATTTGCATGA-TAA
15009336 TATATTT
1 TATATTT
15009343 ATTTGTGTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 12 0.36
17 19 0.58
18 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.53
Consensus pattern (16 bp):
TATATTTGCATGATAA
Found at i:15009379 original size:20 final size:20
Alignment explanation
Indices: 15009321--15009387 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
15009311 CTAATATATT
* *
15009321 TATTTGCATGATTAATATATT
1 TATTTGCATGATTATTA-ATA
**
15009342 TATTTGTGTGATTTATTAATA
1 TATTTGCATGA-TTATTAATA
15009363 TATTTGCATGATTATTAATA
1 TATTTGCATGATTATTAATA
15009383 TATTT
1 TATTT
15009388 ATTTGCATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
20 14 0.36
21 20 0.51
22 5 0.13
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.55
Consensus pattern (20 bp):
TATTTGCATGATTATTAATA
Found at i:15009392 original size:24 final size:24
Alignment explanation
Indices: 15009312--15009472 Score: 162
Period size: 24 Copynumber: 7.0 Consensus size: 24
15009302 TTTATTTGCC
15009312 TAATATATTTATTTGCATG---AT
1 TAATATATTTATTTGCATGATTAT
**
15009333 TAATATATTTATTTGTGTGATTTAT
1 TAATATATTTATTTGCATGA-TTAT
15009358 T-A-ATA--TATTTGCATGATTAT
1 TAATATATTTATTTGCATGATTAT
15009378 TAATATATTTATTTGCATGATTA-
1 TAATATATTTATTTGCATGATTAT
* *
15009401 T-ATTTAATTCGA-TTGCATGATTAT
1 TAATAT-ATT-TATTTGCATGATTAT
* **
15009425 TAATATATTTAATTGTTTGATTAT
1 TAATATATTTATTTGCATGATTAT
15009449 TAATATATTTATTTGCATGATTAT
1 TAATATATTTATTTGCATGATTAT
15009473 ATATTTAATT
Statistics
Matches: 114, Mismatches: 13, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.04
21 27 0.24
22 6 0.05
23 19 0.17
24 51 0.45
25 6 0.05
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
TAATATATTTATTTGCATGATTAT
Found at i:15009403 original size:20 final size:20
Alignment explanation
Indices: 15009269--15009618 Score: 125
Period size: 20 Copynumber: 16.7 Consensus size: 20
15009259 TTTTGCATGA
*
15009269 ATTTGCATGACTA-ATATTAT
1 ATTTGCATGATTATATATT-T
15009289 ATTTGCATG---ATA-ATTT
1 ATTTGCATGATTATATATTT
*
15009305 ATTTGCCT-A--ATATATTT
1 ATTTGCATGATTATATATTT
15009322 ATTTGCATGATTAATATATTT
1 ATTTGCATGATT-ATATATTT
** *
15009343 ATTTGTGTGATT-TATTAATAT
1 ATTTGCATGATTATA-T-ATTT
15009364 ATTTGCATGATTATTAATATATTT
1 ATTTGCATG---ATT-ATATATTT
*
15009388 ATTTGCATGATTATAT-TTA
1 ATTTGCATGATTATATATTT
15009407 ATTCGATTGCATGATTATTAATATATTT
1 A-T---TTGCATG---ATT-ATATATTT
*
15009435 AATTGTTTG-ATTATTAATATATTT
1 -A---TTTGCATGATT-ATATATTT
15009459 ATTTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
* * *
15009479 AATTGCATGTTTATTTGCA-TT
1 ATTTGCATGATTATAT--ATTT
** * * *
15009500 ATTATATATTTAATTGTATGTTT
1 ATT-TGCA--TGATTATATATTT
15009523 ATTTGCATGATT-TATATTATT
1 ATTTGCATGATTATATA-T-TT
**
15009544 ATTTGCATGACCATATATTT
1 ATTTGCATGATTATATATTT
* * *
15009564 AATTGCATG-TTTTACATTGTT
1 ATTTGCATGATTATATA-T-TT
*
15009585 AATTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
* *
15009605 AATTGCATGTTTAT
1 ATTTGCATGATTAT
15009619 TTGCATGATT
Statistics
Matches: 253, Mismatches: 38, Indels: 78
0.69 0.10 0.21
Matches are distributed among these distances:
16 11 0.04
17 15 0.06
18 2 0.01
19 11 0.04
20 71 0.28
21 65 0.26
22 14 0.06
23 13 0.05
24 32 0.13
25 1 0.00
26 5 0.02
27 6 0.02
28 5 0.02
29 1 0.00
31 1 0.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTTGCATGATTATATATTT
Found at i:15009426 original size:47 final size:45
Alignment explanation
Indices: 15009331--15009493 Score: 156
Period size: 47 Copynumber: 3.6 Consensus size: 45
15009321 TATTTGCATG
**
15009331 ATTAATATATTTATTTGTGTGATTTATTAATATATTTGCATGATT
1 ATTAATATATTTATTTGCATGATTTATTAATATATTTGCATGATT
15009376 ATTAATATATTTATTTGCATGATTATATTTAAT-TCGA-TTGCATGATT
1 ATTAATATATTTATTTGCATGATT-TA-TTAATAT--ATTTGCATGATT
* ** *** *
15009423 ATTAATATATTTAATTGTTTGA-TTATTAATATATTTATTTGCATG
1 ATTAATATATTTATTTGCATGATTTATTAATATATTTGCATG-ATT
*
15009468 ATT-ATATATTTAATTGCATG-TTTATT
1 ATTAATATATTTATTTGCATGATTTATT
15009494 TGCATTATTA
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 29 0.29
45 30 0.30
46 4 0.04
47 34 0.34
48 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.55
Consensus pattern (45 bp):
ATTAATATATTTATTTGCATGATTTATTAATATATTTGCATGATT
Found at i:15009570 original size:41 final size:40
Alignment explanation
Indices: 15009520--15009618 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 40
15009510 TAATTGTATG
* *
15009520 TTTATTTGCATGATTTATATTATTATTTGCATGACCATATA
1 TTTAATTGCATG-TTTATATTATTAATTGCATGACCATATA
* * **
15009561 TTTAATTGCATGTTTTACATTGTTAATTGCATGATTATATA
1 TTTAATTGCATG-TTTATATTATTAATTGCATGACCATATA
15009602 TTTAATTGCATGTTTAT
1 TTTAATTGCATGTTTAT
15009619 TTGCATGATT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 4 0.08
41 46 0.92
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (40 bp):
TTTAATTGCATGTTTATATTATTAATTGCATGACCATATA
Found at i:15009637 original size:32 final size:32
Alignment explanation
Indices: 15009456--15009540 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
15009446 TATTAATATA
15009456 TTTATTTGCATGATTATATATTTAATTGCATG
1 TTTATTTGCATGATTATATATTTAATTGCATG
* *
15009488 TTTATTTGCATTATTATATATTTAATTGTATG
1 TTTATTTGCATGATTATATATTTAATTGCATG
15009520 TTTATTTGCATGATT-TATATT
1 TTTATTTGCATGATTATATATT
15009541 ATTATTTGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
31 6 0.12
32 44 0.88
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (32 bp):
TTTATTTGCATGATTATATATTTAATTGCATG
Found at i:15009737 original size:19 final size:19
Alignment explanation
Indices: 15009700--15009738 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15009690 TTTATTATTA
***
15009700 TTATTGCATGATTTTATAT
1 TTATTGCATGATAGGATAT
15009719 TTATTGCATGATAGGATAT
1 TTATTGCATGATAGGATAT
15009738 T
1 T
15009739 ATATGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (19 bp):
TTATTGCATGATAGGATAT
Found at i:15009740 original size:24 final size:23
Alignment explanation
Indices: 15009713--15009768 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 23
15009703 TTGCATGATT
15009713 TTATATTTATTGCATGA-TAGGATA
1 TTATATTTATTGCATGATTA--ATA
15009737 TTATATGTTATTGCATGATTAATA
1 TTATAT-TTATTGCATGATTAATA
15009761 TTATATTT
1 TTATATTT
15009769 GAATGATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 2 0.07
24 15 0.50
25 11 0.37
26 2 0.07
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (23 bp):
TTATATTTATTGCATGATTAATA
Found at i:15009935 original size:18 final size:17
Alignment explanation
Indices: 15009914--15009979 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 17
15009904 CATCTTATTT
15009914 TATATTATTGCATGATAA
1 TATA-TATTGCATGATAA
* *
15009932 TATAT-TTGCATAATAT
1 TATATATTGCATGATAA
* *
15009948 TATATATTTACATGATTA
1 TATATA-TTGCATGATAA
15009966 T-TATTATTGCATGA
1 TATA-TATTGCATGA
15009980 CAATTAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
16 14 0.37
17 10 0.26
18 14 0.37
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (17 bp):
TATATATTGCATGATAA
Found at i:15009940 original size:16 final size:17
Alignment explanation
Indices: 15009921--15009963 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15009911 TTTTATATTA
15009921 TTGCATGATA-ATATAT
1 TTGCATGATATATATAT
*
15009937 TTGCATAATATTATATAT
1 TTGCATGATA-TATATAT
*
15009955 TTACATGAT
1 TTGCATGAT
15009964 TATTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (17 bp):
TTGCATGATATATATAT
Found at i:15009995 original size:20 final size:18
Alignment explanation
Indices: 15009931--15009997 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
15009921 TTGCATGATA
15009931 ATATATTTGCAT-AATATT
1 ATATATTTGCATGAA-ATT
* *
15009949 ATATATTTACATGATTATT
1 ATATATTTGCATGA-AATT
15009968 AT-TA-TTGCATGACAATT
1 ATATATTTGCATGA-AATT
15009985 AATATATTTGCAT
1 -ATATATTTGCAT
15009998 CACATTCTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 10 0.26
18 15 0.38
19 8 0.21
20 6 0.15
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (18 bp):
ATATATTTGCATGAAATT
Found at i:15010086 original size:28 final size:24
Alignment explanation
Indices: 15010054--15010107 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 24
15010044 ACATGATATT
15010054 TGGTATGATTTATAGTATTATATTTGCA
1 TGGTATGATTTA-A-TATT-TA-TTGCA
15010082 TGGTATGATTTAATATTTATTGCA
1 TGGTATGATTTAATATTTATTGCA
15010106 TG
1 TG
15010108 ATTATTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 7 0.27
25 2 0.08
26 4 0.15
27 1 0.04
28 12 0.46
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.50
Consensus pattern (24 bp):
TGGTATGATTTAATATTTATTGCA
Found at i:15010658 original size:32 final size:32
Alignment explanation
Indices: 15010622--15010688 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
15010612 TTGCCCAAGT
* * * *
15010622 TTTAAGCTTAGTTTAGCTGGCATCTAATGAAA
1 TTTAAGCTCAGATTAGCTAGCACCTAATGAAA
15010654 TTTAAGCTCAGATTAGCTAGCACCTAATGAAA
1 TTTAAGCTCAGATTAGCTAGCACCTAATGAAA
15010686 TTT
1 TTT
15010689 TAAACCCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (32 bp):
TTTAAGCTCAGATTAGCTAGCACCTAATGAAA
Found at i:15010836 original size:33 final size:34
Alignment explanation
Indices: 15010634--15010888 Score: 151
Period size: 33 Copynumber: 7.9 Consensus size: 34
15010624 TAAGCTTAGT
* * *
15010634 TTAGC-TGGCATCTAATG-AAATTTAAGCTCAGA
1 TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
* * * * *
15010666 TTAGC-TAGCACCTAATGAAATTTTAAACCCAAA
1 TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
* * * *
15010699 TTA-TTTGGCATCAAATGAAAATTTAAACCCA-A
1 TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
* * * *
15010731 TTTAGC-TAGCA-CCAATGAAAATTTAAACCTATA
1 -TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
* * **
15010764 TTATC-TGGCA-CCACT-AAAGA-TTAAGCCCATT
1 TTAGCTTGGCACCCAATGAAA-ATTTAAGCCCAGA
* *
15010795 TTAG-TTGGCACCCAATGAAAATTTAAGTCTAGA
1 TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
* * * *
15010828 TTA-TTTGGCACCAAATAAAAATTTAAGCCCAGT
1 TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
*
15010861 TTAGCTT-ACACCCAATGAAAATTTAAGC
1 TTAGCTTGGCACCCAATGAAAATTTAAGC
15010889 TTGTCTAGCT
Statistics
Matches: 175, Mismatches: 36, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
31 19 0.11
32 52 0.30
33 102 0.58
34 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (34 bp):
TTAGCTTGGCACCCAATGAAAATTTAAGCCCAGA
Found at i:15010887 original size:66 final size:66
Alignment explanation
Indices: 15010651--15010886 Score: 264
Period size: 66 Copynumber: 3.6 Consensus size: 66
15010641 GCATCTAATG
* * * * * * *
15010651 AAATTTAAGCTCAGATTAGCTAGCACCTAATGAAATTTTAAACCCAAATTATTTGGCATCAAATG
1 AAATTTAAGCCCAGTTTAGCTAGCACCCAATGAAAATTTAAACCTAAATTATTTGGCACCAAATA
15010716 A
66 A
* * * * *
15010717 AAATTTAAACCCAATTTAGCTAGCA-CCAATGAAAATTTAAACCTATATTATCTGGCACC-ACTA
1 AAATTTAAGCCCAGTTTAGCTAGCACCCAATGAAAATTTAAACCTAAATTATTTGGCACCAAATA
15010780 A
66 A
* * * * ** *
15010781 AGA-TTAAGCCCATTTTAGTTGGCACCCAATGAAAATTTAAGTCTAGATTATTTGGCACCAAATA
1 AAATTTAAGCCCAGTTTAGCTAGCACCCAATGAAAATTTAAACCTAAATTATTTGGCACCAAATA
15010845 A
66 A
15010846 AAATTTAAGCCCAGTTTAGCTTA-CACCCAATGAAAATTTAA
1 AAATTTAAGCCCAGTTTAGC-TAGCACCCAATGAAAATTTAA
15010887 GCTTGTCTAG
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 17 0.12
64 35 0.25
65 34 0.24
66 53 0.38
67 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (66 bp):
AAATTTAAGCCCAGTTTAGCTAGCACCCAATGAAAATTTAAACCTAAATTATTTGGCACCAAATA
A
Found at i:15011663 original size:7 final size:7
Alignment explanation
Indices: 15011651--15011685 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
15011641 CAAAGCTAAG
15011651 TAAAAAA
1 TAAAAAA
15011658 TAAAAAA
1 TAAAAAA
*
15011665 TAAACAA
1 TAAAAAA
*
15011672 TAAACAA
1 TAAAAAA
15011679 TAAAAAA
1 TAAAAAA
15011686 ACAACAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:15011673 original size:14 final size:14
Alignment explanation
Indices: 15011651--15011703 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
15011641 CAAAGCTAAG
*
15011651 TAAAAAATAAAAAA
1 TAAAAAATAAACAA
*
15011665 TAAACAATAAACAA
1 TAAAAAATAAACAA
15011679 TAAAAAA-ACAACAA
1 TAAAAAATA-AACAA
15011693 -AACAAAATAAA
1 TAA-AAAATAAA
15011704 ATAAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 29 0.88
15 1 0.03
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.11
Consensus pattern (14 bp):
TAAAAAATAAACAA
Found at i:15011675 original size:21 final size:21
Alignment explanation
Indices: 15011651--15011704 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
15011641 CAAAGCTAAG
15011651 TAAAAAATAAAAAATA-AACAA
1 TAAAAAATAAAAAA-ACAACAA
*
15011672 TAAACAATAAAAAAACAACAA
1 TAAAAAATAAAAAAACAACAA
15011693 -AACAAAATAAAA
1 TAA-AAAATAAAA
15011705 TAAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (21 bp):
TAAAAAATAAAAAAACAACAA
Found at i:15012059 original size:17 final size:18
Alignment explanation
Indices: 15012036--15012081 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15012026 TTTTGGCCAT
15012036 TAAATATAAAAAAAATAA
1 TAAATATAAAAAAAATAA
*
15012054 -AAATATATAAATAAATAA
1 TAAATATA-AAAAAAATAA
*
15012072 TATATATAAA
1 TAAATATAAA
15012082 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 11 0.46
19 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAATATAAAAAAAATAA
Found at i:15012073 original size:15 final size:14
Alignment explanation
Indices: 15012048--15012077 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15012038 AATATAAAAA
15012048 AAATAAAAATATAT
1 AAATAAAAATATAT
15012062 AAATAAATAATATAT
1 AAATAAA-AATATAT
15012077 A
1 A
15012078 TAAATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAAAATATAT
Found at i:15014255 original size:45 final size:43
Alignment explanation
Indices: 15014192--15014292 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
15014182 TAATAAAAGT
* * *
15014192 AATAAATAAGAAT-AAT-AAATTGTTTATGAAAATGAGAAAATAAA
1 AATAAATAATAATAAATAAAATT-TTAATAAAAATG-GAAAA-AAA
*
15014236 AATAAATAATAATAAATAAAATTTTAATAAAAATGGAAAAAAG
1 AATAAATAATAATAAATAAAATTTTAATAAAAATGGAAAAAAA
*
15014279 TAT-AATAATAATAA
1 AATAAATAATAATAA
15014293 TTTTAATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 11 0.22
43 4 0.08
44 17 0.34
45 13 0.26
46 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (43 bp):
AATAAATAATAATAAATAAAATTTTAATAAAAATGGAAAAAAA
Found at i:15014442 original size:20 final size:20
Alignment explanation
Indices: 15014417--15014481 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
15014407 ATTCCTAAAT
15014417 TAAAACACTAAATGAAACCC
1 TAAAACACTAAATGAAACCC
* * *
15014437 TAAAACCCTATGTAT-AAATCC
1 TAAAACACTA--AATGAAACCC
**
15014458 T-AAATTCTAAATGAAACCC
1 TAAAACACTAAATGAAACCC
15014477 TAAAA
1 TAAAA
15014482 TCCCAAGTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 18 0.53
21 6 0.18
22 2 0.06
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAACACTAAATGAAACCC
Found at i:15014499 original size:27 final size:27
Alignment explanation
Indices: 15014469--15014535 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
15014459 AAATTCTAAA
15014469 TGAAACCCTAAAATCCCAA-GTGAAAC
1 TGAAACCCTAAAATCCCAATGTGAAAC
* * * *
15014495 TTGAAACTC-GAAATCCTAATTTGAAAC
1 -TGAAACCCTAAAATCCCAATGTGAAAC
15014522 TGAAAACCCTAAAA
1 TG-AAACCCTAAAA
15014536 AACCCCTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 10 0.32
27 18 0.58
28 3 0.10
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.21
Consensus pattern (27 bp):
TGAAACCCTAAAATCCCAATGTGAAAC
Found at i:15014532 original size:20 final size:20
Alignment explanation
Indices: 15014495--15014533 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15014485 CAAGTGAAAC
*
15014495 TTGAAACTCGAAATCCTAAT
1 TTGAAACTCGAAACCCTAAT
15014515 TTGAAACT-GAAAACCCTAA
1 TTGAAACTCG-AAACCCTAA
15014534 AAAACCCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (20 bp):
TTGAAACTCGAAACCCTAAT
Found at i:15014600 original size:19 final size:19
Alignment explanation
Indices: 15014543--15014603 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
15014533 AAAAACCCCT
15014543 AAAC-TAAAGCCTTAGGTG
1 AAACTTAAAGCCTTAGGTG
*
15014561 AAACTTAAAAGCCTTAAGTG
1 AAACTT-AAAGCCTTAGGTG
15014581 AAATCTTAAA-CCTTAGGTG
1 AAA-CTTAAAGCCTTAGGTG
15014600 AAAC
1 AAAC
15014604 CCAAAATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 5 0.13
19 12 0.32
20 18 0.47
21 3 0.08
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (19 bp):
AAACTTAAAGCCTTAGGTG
Found at i:15042896 original size:13 final size:13
Alignment explanation
Indices: 15042878--15042903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15042868 AAGATTCATC
15042878 TTCTGATAAAGGA
1 TTCTGATAAAGGA
15042891 TTCTGATAAAGGA
1 TTCTGATAAAGGA
15042904 AACTCTGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
TTCTGATAAAGGA
Found at i:15048850 original size:30 final size:30
Alignment explanation
Indices: 15048814--15048876 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15048804 CTATCAGCGC
* *
15048814 CTTAGATAGGGTGAAAGGAATGAACGAATT
1 CTTAGATAGAGTGAAAGGAAAGAACGAATT
15048844 CTTAGATAGAGTGAAAGGAAAGAACGAATT
1 CTTAGATAGAGTGAAAGGAAAGAACGAATT
15048874 CTT
1 CTT
15048877 TTTAGAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (30 bp):
CTTAGATAGAGTGAAAGGAAAGAACGAATT
Found at i:15049622 original size:52 final size:51
Alignment explanation
Indices: 15049467--15049623 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
15049457 TATAACCAAA
* * * *
15049467 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCT-TTCTCTTAGAATTCTTCTCTTGCAAGT
* * * *
15049519 TAAACTTGCATATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTCTTGCAAGT
* * *
15049571 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCTCTTAGAATTCTTCTCTTGCAAGT
15049623 C
1 C
15049624 TTTTTGTCCA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 83 0.94
53 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:15049664 original size:11 final size:11
Alignment explanation
Indices: 15049648--15049689 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
15049638 GCAATATCTG
15049648 ACAAATCTCAA
1 ACAAATCTCAA
*
15049659 ACAAATCTCTA
1 ACAAATCTCAA
15049670 ACAAATCTCAA
1 ACAAATCTCAA
15049681 ACAAATCTC
1 ACAAATCTC
15049690 TTATGGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:15049673 original size:22 final size:22
Alignment explanation
Indices: 15049648--15049690 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
15049638 GCAATATCTG
15049648 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
15049670 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
15049691 TATGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:15050712 original size:52 final size:51
Alignment explanation
Indices: 15050557--15050713 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 51
15050547 TATAACCAAA
* * * *
15050557 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCT-TTCTCTTAGAATTCTTCTCTTGCAAGT
* * * *
15050609 TAAACTTGCATATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTCTTGCAAGT
* * *
15050661 CAAACTTACCTATTAAGAATCCTCTTTCTCTTATAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTCTTAGAATTCTTCTCTTGCAAGT
15050713 C
1 C
15050714 TTTTTGTCCA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 83 0.94
53 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:15050769 original size:11 final size:11
Alignment explanation
Indices: 15050740--15050769 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15050730 AATATCTGAT
*
15050740 AAATCTCAAAC
1 AAATCTCTAAC
15050751 AAATCTCTAAC
1 AAATCTCTAAC
15050762 AAATCTCT
1 AAATCTCT
15050770 TATGGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATCTCTAAC
Found at i:15052478 original size:13 final size:13
Alignment explanation
Indices: 15052460--15052485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15052450 AAGACATGGG
15052460 CTATTACTACTAT
1 CTATTACTACTAT
15052473 CTATTACTACTAT
1 CTATTACTACTAT
15052486 GGTGACACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CTATTACTACTAT
Found at i:15055104 original size:14 final size:14
Alignment explanation
Indices: 15055082--15055116 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15055072 GGCGCAGTAT
* *
15055082 CCCTCCGGACGGAC
1 CCCTTCGGACAGAC
15055096 CCCTTCGGACAGAC
1 CCCTTCGGACAGAC
15055110 CCCTTCG
1 CCCTTCG
15055117 TTCACCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.49, G:0.23, T:0.14
Consensus pattern (14 bp):
CCCTTCGGACAGAC
Found at i:15058073 original size:164 final size:164
Alignment explanation
Indices: 15057802--15058129 Score: 543
Period size: 164 Copynumber: 2.0 Consensus size: 164
15057792 TTTTGGTACA
* * * *
15057802 GTAGTCATGGATAGGGGTACACGTACTGGAAGGCAATGGCCTTAGTTCCGATTAAAAGGAACTGC
1 GTAGTCATAGATAGGGGTACACGTACTGGAAGGCAATGGCCTTACTCCCGATTAAAAGCAACTGC
*
15057867 CCTTAGGACTGACACTACCTAGATGGAACCTAGCAGATAGCCTGTCTCCCAAAAAAGCTACTTCA
66 CCTTAGGACTGACACTACCTAGATGGAACCTAGCAGATAGCCTATCTCCCAAAAAAGCTACTTCA
15057932 ACAGGGAAGAGAAAGAGGCTTATTCATCTAAAGC
131 ACAGGGAAGAGAAAGAGGCTTATTCATCTAAAGC
*
15057966 GTAGTCATAGATAGGGTTACA-GATACTGGAAGGCAATGGCCTTACTCCCGATTAAAAGCAACTG
1 GTAGTCATAGATAGGGGTACACG-TACTGGAAGGCAATGGCCTTACTCCCGATTAAAAGCAACTG
*
15058030 CCCTTAGGACTGACACTACCTAGATGGAACCTAATC-GATAGCCTATCTCCCAAAAAAGCTACTT
65 CCCTTAGGACTGACACTACCTAGATGGAACCT-AGCAGATAGCCTATCTCCCAAAAAAGCTACTT
* *
15058094 CAACAGGGGAGAGAAAGAGGCTTGTTCATCTAAAGC
129 CAACAGGGAAGAGAAAGAGGCTTATTCATCTAAAGC
15058130 TTGAAAACTG
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
163 1 0.01
164 150 0.98
165 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (164 bp):
GTAGTCATAGATAGGGGTACACGTACTGGAAGGCAATGGCCTTACTCCCGATTAAAAGCAACTGC
CCTTAGGACTGACACTACCTAGATGGAACCTAGCAGATAGCCTATCTCCCAAAAAAGCTACTTCA
ACAGGGAAGAGAAAGAGGCTTATTCATCTAAAGC
Found at i:15074518 original size:56 final size:55
Alignment explanation
Indices: 15074451--15074556 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 55
15074441 AGGAAGATAT
* * *
15074451 AAAAAAATTTCTAAGCAGGTCAAAATGGTAAAAAATTTAGAAATAAAAAAAATTA
1 AAAAAAATTTCTAAACAGGCCAAAATGATAAAAAATTTAGAAATAAAAAAAATTA
* * *
15074506 AAAAAGAATTTCTAAATAGGCCCAAATGATAAAAAATTTAGAAATTAAAAA
1 AAAAA-AATTTCTAAACAGGCCAAAATGATAAAAAATTTAGAAATAAAAAA
15074557 GAAAAGATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 5 0.11
56 39 0.89
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (55 bp):
AAAAAAATTTCTAAACAGGCCAAAATGATAAAAAATTTAGAAATAAAAAAAATTA
Found at i:15079127 original size:15 final size:16
Alignment explanation
Indices: 15079107--15079139 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15079097 CCTCACTTTA
15079107 CCTATA-TCAGCCTAC
1 CCTATAGTCAGCCTAC
*
15079122 CCTATAGTCATCCTAC
1 CCTATAGTCAGCCTAC
15079138 CC
1 CC
15079140 ATTAACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.42, G:0.06, T:0.27
Consensus pattern (16 bp):
CCTATAGTCAGCCTAC
Found at i:15080683 original size:9 final size:9
Alignment explanation
Indices: 15080659--15080772 Score: 72
Period size: 7 Copynumber: 13.7 Consensus size: 9
15080649 ATAATGGATA
15080659 GAAAAAAAT
1 GAAAAAAAT
*
15080668 GAGAAAAGAT
1 GA-AAAAAAT
15080678 -AAAAAAAT
1 GAAAAAAAT
15080686 GAAAAAAA-
1 GAAAAAAAT
*
15080694 -AAAGAAAAA
1 GAAA-AAAAT
**
15080703 GGGAAAAAT
1 GAAAAAAAT
15080712 G--AAAAAT
1 GAAAAAAAT
15080719 G--AAAAAT
1 GAAAAAAAT
15080726 GAAAAAAAT
1 GAAAAAAAT
15080735 -AAAAAAAT
1 GAAAAAAAT
15080743 --AAAAAAT
1 GAAAAAAAT
*
15080750 --AAGAAAT
1 GAAAAAAAT
15080757 GAAAAAAAT
1 GAAAAAAAT
15080766 GTAAAAA
1 G-AAAAA
15080773 GAGAGAAAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
7 30 0.34
8 18 0.20
9 28 0.32
10 12 0.14
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:15080692 original size:11 final size:11
Alignment explanation
Indices: 15080671--15080748 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
15080661 AAAAAATGAG
*
15080671 AAAAGATAAAA
1 AAAAGAAAAAA
*
15080682 AAATGAAAAAA
1 AAAAGAAAAAA
15080693 AAAAGAAAAAGGGA
1 AAAAGAAAAA---A
15080707 AAAATGAAAAATGA
1 AAAA-GAAAAA--A
15080721 AAAATGAAAAAA
1 AAAA-GAAAAAA
15080733 ATAAA-AAAATAA
1 A-AAAGAAAA-AA
15080745 AAAA
1 AAAA
15080749 TAAGAAATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
11 25 0.44
12 5 0.09
13 3 0.05
14 18 0.32
15 6 0.11
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:15080772 original size:31 final size:31
Alignment explanation
Indices: 15080706--15080765 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
15080696 AGAAAAAGGG
*
15080706 AAAAATGAAAAATGAAAAATGAAAAAAATAA
1 AAAAATAAAAAATGAAAAATGAAAAAAATAA
15080737 AAAAATAAAAAAT-AAGAAATGAAAAAAAT
1 AAAAATAAAAAATGAA-AAATGAAAAAAAT
15080766 GTAAAAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.13
Consensus pattern (31 bp):
AAAAATAAAAAATGAAAAATGAAAAAAATAA
Found at i:15082184 original size:44 final size:43
Alignment explanation
Indices: 15082136--15082231 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 43
15082126 TCAAAAGTCA
15082136 TTGAGCCTCTACTTAAAGGAG-CTTAATTTATTTTTTCAAAGTGG
1 TTGAGCCTCTACTTAAAGGAGCCTT-ATTTA-TTTTTCAAAGTGG
* * *
15082180 TTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTTCAAAGTTG
1 TTGAGCCTCTACTTAAAGGAGCCTTATTTATTTTTCAAAGTGG
*
15082223 TTAAGCCTC
1 TTGAGCCTC
15082232 AAAAGTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 20 0.43
44 24 0.51
45 3 0.06
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (43 bp):
TTGAGCCTCTACTTAAAGGAGCCTTATTTATTTTTCAAAGTGG
Found at i:15082353 original size:44 final size:44
Alignment explanation
Indices: 15082240--15082510 Score: 246
Period size: 44 Copynumber: 6.2 Consensus size: 44
15082230 TCAAAAGTTA
* * * * *
15082240 TTGAGCCTCTGTTTAGAGGAGCCTTATTTA-TTTTACAAAGTTG
1 TTGAGCCTCTATTTAGAAGAGTCTTATTTATTTTTCCAAAGTCG
* * * *
15082283 TTGAACCTTTATTTAGAAGAGCCTTATTTATTTTTCCAAAGTCA
1 TTGAGCCTCTATTTAGAAGAGTCTTATTTATTTTTCCAAAGTCG
* * * *
15082327 TTGAGTCTCTACTTATAAGAGTCTTATTTATTTTTTCAAAGTCG
1 TTGAGCCTCTATTTAGAAGAGTCTTATTTATTTTTCCAAAGTCG
* * * * ** *
15082371 TTGAGCTTCTGTTTAGAGGGGAT-TTATTTATTTTTTTAAAGTTG
1 TTGAGCCTCTATTTAGAAGAG-TCTTATTTATTTTTCCAAAGTCG
*
15082415 TTGAGCCTCTATTTAG-AGAAG-CATTATTTATTTTTCCAAAGTTG
1 TTGAGCCTCTATTTAGAAG-AGTC-TTATTTATTTTTCCAAAGTCG
* * * *
15082459 TTGAACCTCTATTTAGATGAGTCTTATTTAAGTTTT-CAAAGTCA
1 TTGAGCCTCTATTTAGAAGAGTCTTATTT-ATTTTTCCAAAGTCG
15082503 TTGAGCCT
1 TTGAGCCT
15082511 TTGTTTAAAG
Statistics
Matches: 184, Mismatches: 36, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
43 27 0.15
44 149 0.81
45 8 0.04
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (44 bp):
TTGAGCCTCTATTTAGAAGAGTCTTATTTATTTTTCCAAAGTCG
Found at i:15082469 original size:132 final size:131
Alignment explanation
Indices: 15082233--15082517 Score: 349
Period size: 132 Copynumber: 2.2 Consensus size: 131
15082223 TTAAGCCTCA
* * * *
15082233 AAAGTTATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTACAAAGTTGTTGAACCTTTATTTA
1 AAAGTCATTGAGCTTCTGTTTAGAGGAGACTTATTTATTTTACAAAGTTGTTGAACCTCTATTTA
* ** * **
15082298 GAAGAGCCTTATTTATTTTTCCAAAGTCATTGAGTCTCTACTTATAAGAGTCTTATTTATTTTTT
66 GAAGAGCATTATTTATTTTTCCAAAGTCATTGAACCTCTACTTAGAAGAGTCTTATTTAAGTTTT
15082363 C
131 C
* * * ** *
15082364 AAAGTCGTTGAGCTTCTGTTTAGAGGGGATTTATTTATTTTTTTAAAGTTGTTGAGCCTCTATTT
1 AAAGTCATTGAGCTTCTGTTTAGAGGAGACTTATTTA-TTTTACAAAGTTGTTGAACCTCTATTT
** * *
15082429 AG-AGAAGCATTATTTATTTTTCCAAAGTTGTTGAACCTCTATTTAGATGAGTCTTATTTAAGTT
65 AGAAG-AGCATTATTTATTTTTCCAAAGTCATTGAACCTCTACTTAGAAGAGTCTTATTTAAGTT
15082493 TTC
129 TTC
15082496 AAAGTCATTGAGCCTT-TGTTTA
1 AAAGTCATTGAG-CTTCTGTTTA
15082518 AAGTAGGTTT
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
131 33 0.25
132 94 0.72
133 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.45
Consensus pattern (131 bp):
AAAGTCATTGAGCTTCTGTTTAGAGGAGACTTATTTATTTTACAAAGTTGTTGAACCTCTATTTA
GAAGAGCATTATTTATTTTTCCAAAGTCATTGAACCTCTACTTAGAAGAGTCTTATTTAAGTTTT
C
Found at i:15085007 original size:27 final size:27
Alignment explanation
Indices: 15084977--15085031 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
15084967 AACAAAATGG
15084977 AAAAATAAAAAAAATGAT-AATGAAAAA
1 AAAAAT-AAAAAAATGATGAATGAAAAA
* **
15085004 AAAAATGATGAAATGATGAATGAAAAA
1 AAAAATAAAAAAATGATGAATGAAAAA
15085031 A
1 A
15085032 TAAGGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (27 bp):
AAAAATAAAAAAATGATGAATGAAAAA
Found at i:15085729 original size:99 final size:97
Alignment explanation
Indices: 15085616--15085953 Score: 290
Period size: 99 Copynumber: 3.4 Consensus size: 97
15085606 TATAACAGCC
* *
15085616 TTTTAGCCTATCTTTATAAAAGTTTTTTCCAAATTGAGATTTTTAAAGTTTTATAGCCTATCTTT
1 TTTTAGCCTATCTTTATAAGAG-TTTTTCCAAATTGAGA-TTTTAAAGTTTCATAGCCTATCTTT
15085681 ATAAGAGTATTTTCAAAA-TGAGATTTTTA-ATGTT
64 A-AAGAGTATTTTCAAAATTGAGATTTTTACA-GTT
* * * * * * *
15085715 TTTTGGCCTATCTTTATATGAGCTTTTTCAAAATACGAGATTTTAAAGTTTCCTAGCCTTTTTTT
1 TTTTAGCCTATCTTTATAAGAG-TTTTTCCAAAT-TGAGATTTTAAAGTTTCATAGCCTATCTTT
*
15085780 AAATGAGCA-TTTCAAAATTGAGATTTTTACAGTT
64 AAA-GAGTATTTTCAAAATTGAGATTTTTACAGTT
** * * * * * * *
15085814 TCATAGCCTCTATTTAGAGGAGTTTTTCCAAATTGAGATTTTAAAGTTTCATAACCTCTGTTTAG
1 TTTTAGCCTATCTTTATAAGAGTTTTTCCAAATTGAGATTTTAAAGTTTCATAGCCTATCTTTA-
* * *
15085879 AAGAGT-TTTTCAAAAGTTTATA-TTTTAAAGTT
65 AAGAGTATTTTCAAAA-TTGAGATTTTTACAGTT
** * * * * *
15085911 TTGAAGCCTATATTTAGAGGAGTTTTTCAAAATTTATGATTTT
1 TTTTAGCCTATCTTTATAAGAGTTTTTCCAAATTGA-GATTTT
15085954 TTCAAGTTTT
Statistics
Matches: 197, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
97 76 0.39
98 32 0.16
99 84 0.43
100 5 0.03
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (97 bp):
TTTTAGCCTATCTTTATAAGAGTTTTTCCAAATTGAGATTTTAAAGTTTCATAGCCTATCTTTAA
AGAGTATTTTCAAAATTGAGATTTTTACAGTT
Found at i:15085872 original size:48 final size:48
Alignment explanation
Indices: 15085619--15085953 Score: 262
Period size: 49 Copynumber: 6.8 Consensus size: 48
15085609 AACAGCCTTT
* * * * *
15085619 TAGCCTATCTTTATAAAAGTTTTTTCCAAATTGAGATTTTTAAAGTTTTA
1 TAGCCTATATTTAGAAGAG-TTTTTCAAAATTGAGA-TTTTAAAGTTTCA
* * * **
15085669 TAGCCTATCTTTATAAGAGTATTTTCAAAA-TGAGATTTTTAATGTTTTT
1 TAGCCTATATTTAGAAGAGT-TTTTCAAAATTGAGA-TTTTAAAGTTTCA
* * * * * *
15085718 TGGCCTATCTTTATATGAGCTTTTTCAAAATACGAGATTTTAAAGTTTCC
1 TAGCCTATATTTAGAAGAG-TTTTTCAAAAT-TGAGATTTTAAAGTTTCA
* * ** *
15085768 TAGCCTTTTTTTA-AATGAGCATTTCAAAATTGAGATTTTTACAGTTTCA
1 TAGCCTATATTTAGAA-GAGTTTTTCAAAATTGAGA-TTTTAAAGTTTCA
* * *
15085817 TAGCCTCTATTTAGAGGAGTTTTTCCAAATTGAGATTTTAAAGTTTCA
1 TAGCCTATATTTAGAAGAGTTTTTCAAAATTGAGATTTTAAAGTTTCA
* * * * * *
15085865 TAACCTCTGTTTAGAAGAGTTTTTCAAAAGTTTATATTTTAAAGTTTTGA
1 TAGCCTATATTTAGAAGAGTTTTTCAAAA-TTGAGATTTTAAAG-TTTCA
* *
15085915 -AGCCTATATTTAGAGGAGTTTTTCAAAATTTATGATTTT
1 TAGCCTATATTTAGAAGAGTTTTTCAAAATTGA-GATTTT
15085954 TTCAAGTTTT
Statistics
Matches: 237, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
48 45 0.19
49 133 0.56
50 55 0.23
51 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (48 bp):
TAGCCTATATTTAGAAGAGTTTTTCAAAATTGAGATTTTAAAGTTTCA
Found at i:15085890 original size:97 final size:95
Alignment explanation
Indices: 15085639--15085953 Score: 292
Period size: 97 Copynumber: 3.2 Consensus size: 95
15085629 TTATAAAAGT
* *
15085639 TTTTTCCAAATTGAGATTTTTAAAGTTTTATAGCCTATCTTTATAAGAGTATTTTCAAAA-TGAG
1 TTTTTCAAAATTGAGA-TTTTAAAGTTTCATAGCCTATCTTTA-AAGAGT-TTTTCAAAATTGAG
** * * * *
15085703 ATTTTTAATGTTTTTTGGCCTATCTTTATATGAG
63 ATTTTTAA-GTTTCATAGCCTATATTTAGAGGAG
* * * * **
15085737 CTTTTTCAAAATACGAGATTTTAAAGTTTCCTAGCCTTTTTTTAAATGAGCATTTCAAAATTGAG
1 -TTTTTCAAAAT-TGAGATTTTAAAGTTTCATAGCCTATCTTTAAA-GAGTTTTTCAAAATTGAG
*
15085802 ATTTTTACAGTTTCATAGCCTCTATTTAGAGGAG
63 ATTTTTA-AGTTTCATAGCCTATATTTAGAGGAG
* * * * * *
15085836 TTTTTCCAAATTGAGATTTTAAAGTTTCATAACCTCTGTTTAGAAGAGTTTTTCAAAAGTTTATA
1 TTTTTCAAAATTGAGATTTTAAAGTTTCATAGCCTATCTTTA-AAGAGTTTTTCAAAA-TTGAGA
* *
15085901 TTTTAAAGTTTTGA-AGCCTATATTTAGAGGAG
64 TTTTTAAG-TTTCATAGCCTATATTTAGAGGAG
*
15085933 TTTTTCAAAATTTATGATTTT
1 TTTTTCAAAATTGA-GATTTT
15085954 TTCAAGTTTT
Statistics
Matches: 178, Mismatches: 30, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
97 68 0.38
98 41 0.23
99 64 0.36
100 5 0.03
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (95 bp):
TTTTTCAAAATTGAGATTTTAAAGTTTCATAGCCTATCTTTAAAGAGTTTTTCAAAATTGAGATT
TTTAAGTTTCATAGCCTATATTTAGAGGAG
Found at i:15087002 original size:384 final size:384
Alignment explanation
Indices: 15086293--15087061 Score: 1520
Period size: 384 Copynumber: 2.0 Consensus size: 384
15086283 TCAAACAAAG
15086293 TCAATTTTGGTCAAGATTATCCAAATCAATAAAATCAAATAAAACTCAGGTCAATTTTAAAAATT
1 TCAATTTTGGTCAAGATTATCCAAATCAATAAAATCAAATAAAACTCAGGTCAATTTTAAAAATT
15086358 CTAAACCAAATGGTTTTAATAAGGCTTGGAATCAAAATTAGTGATTTTAATGCACCGAAAACTTT
66 CTAAACCAAATGGTTTTAATAAGGCTTGGAATCAAAATTAGTGATTTTAATGCACCGAAAACTTT
15086423 GATTGCACTTTAAGAGGGGTAAAATTATCAAAATGCCCTTAAAAGGTATTTTGTACTTGGACCTT
131 GATTGCACTTTAAGAGGGGTAAAATTATCAAAATGCCCTTAAAAGGTATTTTGTACTTGGACCTT
15086488 CTTAAAGTTGGATTTTTGTGAAAAAGCTTTGATCATATTTAAATATTATTTTATGATTTTTGATT
196 CTTAAAGTTGGATTTTTGTGAAAAAGCTTTGATCATATTTAAATATTATTTTATGATTTTTGATT
15086553 CATCAAAAACCCCAATTGCATCTTAAGAGGTGTTAAATTACCAAAATACCCATCGGGGTATTTTT
261 CATCAAAAACCCCAATTGCATCTTAAGAGGTGTTAAATTACCAAAATACCCATCGGGGTATTTTT
15086618 CTAATTTGACTTTCCTAGGATCAATTTTTTGCGAAACGTTTTAGATCATGGTTTTATAT
326 CTAATTTGACTTTCCTAGGATCAATTTTTTGCGAAACGTTTTAGATCATGGTTTTATAT
*
15086677 TCAATTTTGGTCAAGATTGTCCAAATCAATAAAATCAAATAAAACTCAGGTCAATTTTAAAAATT
1 TCAATTTTGGTCAAGATTATCCAAATCAATAAAATCAAATAAAACTCAGGTCAATTTTAAAAATT
15086742 CTAAACCAAATGGTTTTAATAAGGCTTGGAATCAAAATTAGTGATTTTAATGCACCGAAAACTTT
66 CTAAACCAAATGGTTTTAATAAGGCTTGGAATCAAAATTAGTGATTTTAATGCACCGAAAACTTT
15086807 GATTGCACTTTAAGAGGGGTAAAATTATCAAAATGCCCTTAAAAGGTATTTTGTACTTGGACCTT
131 GATTGCACTTTAAGAGGGGTAAAATTATCAAAATGCCCTTAAAAGGTATTTTGTACTTGGACCTT
15086872 CTTAAAGTTGGATTTTTGTGAAAAAGCTTTGATCATATTTAAATATTATTTTATGATTTTTGATT
196 CTTAAAGTTGGATTTTTGTGAAAAAGCTTTGATCATATTTAAATATTATTTTATGATTTTTGATT
15086937 CATCAAAAACCCCAATTGCATCTTAAGAGGTGTTAAATTACCAAAATACCCATCGGGGTATTTTT
261 CATCAAAAACCCCAATTGCATCTTAAGAGGTGTTAAATTACCAAAATACCCATCGGGGTATTTTT
*
15087002 CTAATTTGACTTTCTTAGGATCAATTTTTTGCGAAACGTTTTAGATCATGGTTTTATAT
326 CTAATTTGACTTTCCTAGGATCAATTTTTTGCGAAACGTTTTAGATCATGGTTTTATAT
15087061 T
1 T
15087062 GTTTCATGAT
Statistics
Matches: 383, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
384 383 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (384 bp):
TCAATTTTGGTCAAGATTATCCAAATCAATAAAATCAAATAAAACTCAGGTCAATTTTAAAAATT
CTAAACCAAATGGTTTTAATAAGGCTTGGAATCAAAATTAGTGATTTTAATGCACCGAAAACTTT
GATTGCACTTTAAGAGGGGTAAAATTATCAAAATGCCCTTAAAAGGTATTTTGTACTTGGACCTT
CTTAAAGTTGGATTTTTGTGAAAAAGCTTTGATCATATTTAAATATTATTTTATGATTTTTGATT
CATCAAAAACCCCAATTGCATCTTAAGAGGTGTTAAATTACCAAAATACCCATCGGGGTATTTTT
CTAATTTGACTTTCCTAGGATCAATTTTTTGCGAAACGTTTTAGATCATGGTTTTATAT
Found at i:15088774 original size:7 final size:7
Alignment explanation
Indices: 15088764--15089082 Score: 130
Period size: 7 Copynumber: 48.4 Consensus size: 7
15088754 CTTTAAATCT
15088764 TAAACCC
1 TAAACCC
*
15088771 TAAATCC
1 TAAACCC
*
15088778 -AAA-TC
1 TAAACCC
*
15088783 TAAACCT
1 TAAACCC
15088790 TAAACCC
1 TAAACCC
*
15088797 -AAATCC
1 TAAACCC
**
15088803 TAAATTC
1 TAAACCC
*
15088810 TAAACCT
1 TAAACCC
15088817 TAAACCC
1 TAAACCC
*
15088824 T-AA-CA
1 TAAACCC
* *
15088829 TTAACCT
1 TAAACCC
15088836 TAAACCC
1 TAAACCC
*
15088843 TAATCCC
1 TAAACCC
15088850 -AAACCC
1 TAAACCC
*
15088856 TAAACCA
1 TAAACCC
*
15088863 TAAA-TC
1 TAAACCC
*
15088869 TAAATCC
1 TAAACCC
15088876 TAAACCC
1 TAAACCC
* *
15088883 T-GA-CA
1 TAAACCC
*
15088888 TTAACCC
1 TAAACCC
15088895 TAAACCC
1 TAAACCC
15088902 TAAA-CC
1 TAAACCC
15088908 TAAACCC
1 TAAACCC
15088915 T-AACCC
1 TAAACCC
*
15088921 TAAAACC
1 TAAACCC
* *
15088928 -AAATCA
1 TAAACCC
**
15088934 TAAACTG
1 TAAACCC
15088941 TAAACCC
1 TAAACCC
15088948 T-AACCC
1 TAAACCC
15088954 TAAA-CC
1 TAAACCC
*
15088960 TAACTAACC
1 TAA--ACCC
*
15088969 T-CACCC
1 TAAACCC
*
15088975 TAAAATCC
1 T-AAACCC
15088983 TAAACCC
1 TAAACCC
15088990 TAAA-CC
1 TAAACCC
*
15088996 TCAAACTC
1 T-AAACCC
*
15089004 AAAACCC
1 TAAACCC
15089011 T-AACCC
1 TAAACCC
*
15089017 GT-AACCA
1 -TAAACCC
*
15089024 AAAACCC
1 TAAACCC
*
15089031 TAAA-TC
1 TAAACCC
15089037 -AAACCC
1 TAAACCC
15089043 T-AACCC
1 TAAACCC
15089049 -AAACCC
1 TAAACCC
*
15089055 CAAA-CC
1 TAAACCC
15089061 TAAA-CC
1 TAAACCC
*
15089067 TAAA-TC
1 TAAACCC
15089073 TAAACCC
1 TAAACCC
15089080 TAA
1 TAA
15089083 TCTTATACCT
Statistics
Matches: 232, Mismatches: 53, Indels: 54
0.68 0.16 0.16
Matches are distributed among these distances:
5 8 0.03
6 93 0.40
7 122 0.53
8 6 0.03
9 3 0.01
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:15088788 original size:19 final size:19
Alignment explanation
Indices: 15088758--15088917 Score: 67
Period size: 20 Copynumber: 7.8 Consensus size: 19
15088748 CTGAAACTTT
*
15088758 AAATCTTAAACCCTAAATCC
1 AAATC-TAAACCCTAAACCC
*
15088778 AAATCTAAACCTTAAACCC
1 AAATCTAAACCCTAAACCC
15088797 AAATCCTAAATTCTAAACCTTAAACCC
1 AAAT-CTAAA--C----CC-TAAACCC
*
15088824 TAACAT-T-AACCTTAAACCC
1 -AA-ATCTAAACCCTAAACCC
* * *
15088843 TAATCCCAAACCCTAAACCAT
1 AAAT-CTAAACCCTAAACC-C
*
15088864 AAATCTAAATCCTAAACCC
1 AAATCTAAACCCTAAACCC
*
15088883 TGACAT-T-AACCCTAAACCC
1 --AAATCTAAACCCTAAACCC
*
15088902 TAAACCTAAACCCTAA
1 -AAATCTAAACCCTAA
15088918 CCCTAAAACC
Statistics
Matches: 105, Mismatches: 17, Indels: 36
0.66 0.11 0.23
Matches are distributed among these distances:
17 2 0.02
18 3 0.03
19 35 0.33
20 42 0.40
21 6 0.06
22 1 0.01
24 1 0.01
26 3 0.03
27 8 0.08
28 2 0.02
29 2 0.02
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (19 bp):
AAATCTAAACCCTAAACCC
Found at i:15088814 original size:46 final size:46
Alignment explanation
Indices: 15088764--15088881 Score: 123
Period size: 46 Copynumber: 2.5 Consensus size: 46
15088754 CTTTAAATCT
* * **
15088764 TAAACCCTAAATCCAAATCTAAACCTTAAACCCAAATCCTAAATTC
1 TAAACCATAAATCCAAATCTAAACCTTAAACCCAAATCCCAAACCC
* * *
15088810 TAAACCTTAAACCCTAACAT-T-AACCTTAAACCCTAATCCCAAACCC
1 TAAACCATAAATCC-AA-ATCTAAACCTTAAACCCAAATCCCAAACCC
*
15088856 TAAACCATAAATCTAAATCCTAAACC
1 TAAACCATAAATCCAAAT-CTAAACC
15088882 CTGACATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
44 2 0.03
45 2 0.03
46 45 0.78
47 7 0.12
48 2 0.03
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (46 bp):
TAAACCATAAATCCAAATCTAAACCTTAAACCCAAATCCCAAACCC
Found at i:15088854 original size:59 final size:57
Alignment explanation
Indices: 15088782--15088938 Score: 163
Period size: 59 Copynumber: 2.6 Consensus size: 57
15088772 AAATCCAAAT
* *
15088782 CTAAACCTTAAACCCAAATCCTAAATTCTAAA-CCTTAAACCCTAACATTAACCTTAAACC
1 CTAAACC-CAAACCCAAA-CCTAAA-TCTAAATCC-TAAACCCTAACATTAACCCTAAACC
* *
15088842 CTAATCCCAAACCCTAAACCATAAATCTAAATCCTAAACCCTGACATTAACCCTAAACC
1 CTAAACCCAAACCC-AAACC-TAAATCTAAATCCTAAACCCTAACATTAACCCTAAACC
* * * * *
15088901 CTAAACCTAAACCCTAACCCTAAAACCAAATCATAAAC
1 CTAAACCCAAACCC-AAACCTAAATCTAAATCCTAAAC
15088939 TGTAAACCCT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
58 15 0.18
59 54 0.64
60 15 0.18
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.21
Consensus pattern (57 bp):
CTAAACCCAAACCCAAACCTAAATCTAAATCCTAAACCCTAACATTAACCCTAAACC
Found at i:15088911 original size:13 final size:13
Alignment explanation
Indices: 15088764--15089082 Score: 134
Period size: 13 Copynumber: 24.8 Consensus size: 13
15088754 CTTTAAATCT
15088764 TAAACCCTAAATCC
1 TAAACCCTAAA-CC
*
15088778 -AAA-TCTAAACC
1 TAAACCCTAAACC
15088789 TTAAACCC-AAATCC
1 -TAAACCCTAAA-CC
**
15088803 TAAATTCTAAACC
1 TAAACCCTAAACC
*
15088816 TTAAACCCT-AACA
1 -TAAACCCTAAACC
* *
15088829 TTAACCTTAAACCC
1 TAAACCCTAAA-CC
*
15088843 TAATCCC-AAACCC
1 TAAACCCTAAA-CC
* *
15088856 TAAACCATAAATC
1 TAAACCCTAAACC
*
15088869 TAAATCCTAAACCC
1 TAAACCCTAAA-CC
* ** *
15088883 T-GACATTAACCC
1 TAAACCCTAAACC
15088895 TAAACCCTAAACC
1 TAAACCCTAAACC
*
15088908 TAAACCCTAACCC
1 TAAACCCTAAACC
* *
15088921 TAAAACC-AAATCA
1 TAAACCCTAAA-CC
**
15088934 TAAACTGTAAACCC
1 TAAACCCTAAA-CC
15088948 T-AACCCTAAACC
1 TAAACCCTAAACC
15088960 T-AA--CT-AACC
1 TAAACCCTAAACC
*
15088969 T-CACCCTAAAATCC
1 TAAACCCT-AAA-CC
15088983 TAAACCCTAAACC
1 TAAACCCTAAACC
* *
15088996 TCAAACTCAAAACCC
1 T-AAACCCTAAA-CC
15089011 T-AACCCGT-AACC
1 TAAACCC-TAAACC
* *
15089023 AAAAACCCTAAATC
1 -TAAACCCTAAACC
15089037 -AAACCCT-AACC
1 TAAACCCTAAACC
* *
15089048 CAAACCCCAAACC
1 TAAACCCTAAACC
*
15089061 TAAA-CCTAAATC
1 TAAACCCTAAACC
15089073 TAAACCCTAA
1 TAAACCCTAA
15089083 TCTTATACCT
Statistics
Matches: 225, Mismatches: 52, Indels: 57
0.67 0.16 0.17
Matches are distributed among these distances:
9 6 0.03
10 2 0.01
11 7 0.03
12 46 0.20
13 107 0.48
14 49 0.22
15 8 0.04
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:15097087 original size:31 final size:32
Alignment explanation
Indices: 15097017--15097104 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 32
15097007 ATTTTGCATA
15097017 TCATTTTCTTTTATTTTCTTT-TT-AACCACTT
1 TCATTTT-TTTTATTTTCTTTCTTCAACCACTT
* **
15097048 TACTTTTTTTTTATTTTCTTTCTTCATTC-CTT
1 T-CATTTTTTTTATTTTCTTTCTTCAACCACTT
15097080 TCATTTTTTTCT-TTTTCTTTTCTTC
1 TCATTTTTTT-TATTTTC-TTTCTTC
15097105 CTTTTGGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
31 27 0.56
32 19 0.40
33 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.70
Consensus pattern (32 bp):
TCATTTTTTTTATTTTCTTTCTTCAACCACTT
Found at i:15115592 original size:13 final size:13
Alignment explanation
Indices: 15115574--15115599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15115564 TATTAAATTC
15115574 AAAATAATTATAT
1 AAAATAATTATAT
15115587 AAAATAATTATAT
1 AAAATAATTATAT
15115600 TGTACAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATAATTATAT
Found at i:15115735 original size:25 final size:26
Alignment explanation
Indices: 15115707--15115758 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
15115697 ATACTAATCT
*
15115707 AATAAAAACAA-AAGTAAAAAAATAA
1 AATAAAAACAATAACTAAAAAAATAA
* * *
15115732 AATAGAAATAATAACTAAAAAGATAA
1 AATAAAAACAATAACTAAAAAAATAA
15115758 A
1 A
15115759 GCAAACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (26 bp):
AATAAAAACAATAACTAAAAAAATAA
Found at i:15116771 original size:21 final size:21
Alignment explanation
Indices: 15116725--15116773 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15116715 GTTGAAGTGT
* *
15116725 TGCAAGAAAAAATGGAAGCAA
1 TGCATGAAAAAATGGAAACAA
15116746 TGCATGAAAAAATGGAAACAA
1 TGCATGAAAAAATGGAAACAA
15116767 TGCATGA
1 TGCATGA
15116774 CATTGTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.22, T:0.14
Consensus pattern (21 bp):
TGCATGAAAAAATGGAAACAA
Found at i:15117948 original size:40 final size:41
Alignment explanation
Indices: 15117884--15117964 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
15117874 AAGACTTTGT
* * *
15117884 TAAGTAATTTAGGGATAAATAAGTTGTCAATT-AGTTATGC
1 TAAGTAATTTAGGAACAAAGAAGTTGTCAATTAAGTTATGC
* *
15117924 TAAGTAATTTAGGAACAAGGAAGTTGTCGATTAAGTTATGC
1 TAAGTAATTTAGGAACAAAGAAGTTGTCAATTAAGTTATGC
15117965 ATAATTGTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (41 bp):
TAAGTAATTTAGGAACAAAGAAGTTGTCAATTAAGTTATGC
Found at i:15120978 original size:15 final size:15
Alignment explanation
Indices: 15120954--15121019 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
15120944 AATAAAAAAA
*
15120954 AAAGAAAAAAGAAAG
1 AAAGAGAAAAGAAAG
15120969 AAAGAGAAAAGTGGAAAG
1 AAAGAGAAAA---GAAAG
* *
15120987 AAA-AGGAAAGGAAG
1 AAAGAGAAAAGAAAG
15121001 AAA-ACGAAAAGAAAG
1 AAAGA-GAAAAGAAAG
15121016 AAAG
1 AAAG
15121020 TGAATAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.20
15 20 0.49
17 5 0.12
18 8 0.20
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (15 bp):
AAAGAGAAAAGAAAG
Found at i:15125110 original size:250 final size:250
Alignment explanation
Indices: 15124664--15125165 Score: 959
Period size: 250 Copynumber: 2.0 Consensus size: 250
15124654 TGCTATTTAC
* * * *
15124664 AATGTTCTTAGTAATTACATCATTAGAGATCCGAAATCAATTTTCATAAAGTAAAACTTACATAC
1 AATGCTCTTAGTAATTACATCATTAGAGAGCCAAAATCAATTTTCATAAAGTAAAACTCACATAC
15124729 ATAATTATTCATTTTTATAAATTTTTTTGGTATGTTGTTAAGATTTTCTGTCCAAATATATCTTT
66 ATAATTATTCATTTTTATAAATTTTTTTGGTATGTTGTTAAGATTTTCTGTCCAAATATATCTTT
15124794 CAATATGTTGTAGGATTTCATGAAAATTATTCTTTATCCAAAACGTATATTTTTTAAAATTAATA
131 CAATATGTTGTAGGATTTCATGAAAATTATTCTTTATCCAAAACGTATATTTTTTAAAATTAATA
15124859 AAATTTTCTAATATGTTGGTAAAACTTTACTTTTAGACTATTTAAAATAAAAAAA
196 AAATTTTCTAATATGTTGGTAAAACTTTACTTTTAGACTATTTAAAATAAAAAAA
15124914 AATGCTCTTAGTAATTACATCATTAGAGAGCCAAAATCAATTTTCATAAAGTAAAACTCACATAC
1 AATGCTCTTAGTAATTACATCATTAGAGAGCCAAAATCAATTTTCATAAAGTAAAACTCACATAC
15124979 ATAATTATTCATTTTTATAAATTTTTTTGGTATGTTGTTAAGATTTTCTGTCCAAATATATCTTT
66 ATAATTATTCATTTTTATAAATTTTTTTGGTATGTTGTTAAGATTTTCTGTCCAAATATATCTTT
15125044 CAATATGTTGTAGGATTTCATGAAAATTATTCTTTATCCAAAACGTATATTTTTTAAAATTAATA
131 CAATATGTTGTAGGATTTCATGAAAATTATTCTTTATCCAAAACGTATATTTTTTAAAATTAATA
*
15125109 AAATTTTCTAATATGTTGGTAAAACTTTACTTTTAGACTATTTAAATTAAAAAAA
196 AAATTTTCTAATATGTTGGTAAAACTTTACTTTTAGACTATTTAAAATAAAAAAA
15125164 AA
1 AA
15125166 AACCCTCTAC
Statistics
Matches: 247, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
250 247 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (250 bp):
AATGCTCTTAGTAATTACATCATTAGAGAGCCAAAATCAATTTTCATAAAGTAAAACTCACATAC
ATAATTATTCATTTTTATAAATTTTTTTGGTATGTTGTTAAGATTTTCTGTCCAAATATATCTTT
CAATATGTTGTAGGATTTCATGAAAATTATTCTTTATCCAAAACGTATATTTTTTAAAATTAATA
AAATTTTCTAATATGTTGGTAAAACTTTACTTTTAGACTATTTAAAATAAAAAAA
Found at i:15127153 original size:5 final size:5
Alignment explanation
Indices: 15127143--15127206 Score: 69
Period size: 5 Copynumber: 13.2 Consensus size: 5
15127133 TGAAAAAAAG
* * * *
15127143 AAATA AAAT- AAAT- AAACA AAACA AAACA AAACA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
*
15127191 AAATA AAACA AAATA A
1 AAATA AAATA AAATA A
15127207 GAAAAATGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
4 7 0.13
5 47 0.87
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (5 bp):
AAATA
Found at i:15127528 original size:22 final size:20
Alignment explanation
Indices: 15127502--15127572 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 20
15127492 ATACACAAAT
15127502 TTCAAAGTTTAACAATTTGAAA
1 TTCAAAGTTT-ACAATTT-AAA
* *
15127524 TTCAAAGGTTCACAATTTCATA
1 TTCAAA-GTTTACAATTT-AAA
*
15127546 TTCAAATGTTTGCAA-TTAAA
1 TTCAAA-GTTTACAATTTAAA
15127566 TTCAAAG
1 TTCAAAG
15127573 GTTCACAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 1 0.02
20 8 0.20
21 2 0.05
22 27 0.66
23 3 0.07
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (20 bp):
TTCAAAGTTTACAATTTAAA
Found at i:15127776 original size:18 final size:18
Alignment explanation
Indices: 15127749--15127817 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
15127739 TTGTAAGAAA
*
15127749 ATCAAGGATTCACAAAAG
1 ATCAAAGATTCACAAAAG
* * *
15127767 GTCAAAGATTCATAAGAG
1 ATCAAAGATTCACAAAAG
*
15127785 ATAAAAGATTCACAAAAG
1 ATCAAAGATTCACAAAAG
*
15127803 ATTCAAAAATTCACA
1 A-TCAAAGATTCACA
15127818 GCAGTTTTCG
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (18 bp):
ATCAAAGATTCACAAAAG
Found at i:15127926 original size:19 final size:19
Alignment explanation
Indices: 15127904--15127954 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
15127894 AAAGGTTATT
15127904 AAAATATTCAAAGGTTTGCA
1 AAAAT-TTCAAAGGTTTGCA
*
15127924 AAAATTTCCAAGGTTTGCA
1 AAAATTTCAAAGGTTTGCA
* *
15127943 ACAAGTTCAAAG
1 AAAATTTCAAAG
15127955 ACTTGTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (19 bp):
AAAATTTCAAAGGTTTGCA
Found at i:15128280 original size:22 final size:21
Alignment explanation
Indices: 15128249--15128291 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15128239 TAAAATTTTT
*
15128249 TTAAAGATTCACAACTAAAAAA
1 TTAAAAATTCAC-ACTAAAAAA
*
15128271 TTAAAAATTCACATTAAAAAA
1 TTAAAAATTCACACTAAAAAA
15128292 ATCCTAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAAAAATTCACACTAAAAAA
Found at i:15131608 original size:17 final size:17
Alignment explanation
Indices: 15131551--15131618 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
15131541 TATTCCTTTT
* *
15131551 TTCTCATTTCTTTTTTTT
1 TTCTCATTT-TTTTCTTC
* * *
15131569 TTTTCATTTTTTCACATC
1 TTCTCATTTTTT-TCTTC
15131587 TTTCTCATTTTTTTCTTC
1 -TTCTCATTTTTTTCTTC
15131605 TTCTCATTTTTTTC
1 TTCTCATTTTTTTC
15131619 ACTTCATTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
17 17 0.43
18 12 0.30
19 11 0.28
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTCATTTTTTTCTTC
Found at i:15131623 original size:19 final size:20
Alignment explanation
Indices: 15131575--15131623 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 20
15131565 TTTTTTTTCA
*
15131575 TTTTTTCACATCTTTCTCAT
1 TTTTTTCACTTCTTTCTCAT
15131595 TTTTTT--CTTC-TTCTCAT
1 TTTTTTCACTTCTTTCTCAT
15131612 TTTTTTCACTTC
1 TTTTTTCACTTC
15131624 ATTTATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.50
18 3 0.12
19 4 0.15
20 6 0.23
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTCACTTCTTTCTCAT
Found at i:15131929 original size:19 final size:19
Alignment explanation
Indices: 15131899--15131936 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
15131889 TTTGTCCCCA
15131899 TTCTTCTTCATTTTTACATT
1 TTCTTCTTCATTTTT-CATT
15131919 TTCTT-TTCATTTTTCATT
1 TTCTTCTTCATTTTTCATT
15131937 CTTACTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTCTTCATTTTTCATT
Found at i:15136543 original size:22 final size:21
Alignment explanation
Indices: 15136502--15136557 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
15136492 CAAGAAAATA
15136502 TTTTTTTGTTTC-TAGTTTTC
1 TTTTTTTGTTTCTTAGTTTTC
*
15136522 TTTTTTTGTTTCTTATTATTTC
1 TTTTTTTGTTTCTTAGT-TTTC
* *
15136544 TTTCTTTCTTTCTT
1 TTTTTTTGTTTCTT
15136558 GGACTTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 12 0.39
21 3 0.10
22 16 0.52
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTTTGTTTCTTAGTTTTC
Found at i:15138518 original size:17 final size:18
Alignment explanation
Indices: 15138490--15138523 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15138480 CATCAAGAAT
15138490 AGGTCTAAAACCACAAAG
1 AGGTCTAAAACCACAAAG
15138508 AGGTC-AAAACCACAAA
1 AGGTCTAAAACCACAAA
15138524 TTTCAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.53, C:0.24, G:0.15, T:0.09
Consensus pattern (18 bp):
AGGTCTAAAACCACAAAG
Found at i:15141093 original size:12 final size:11
Alignment explanation
Indices: 15141063--15141114 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
15141053 AGTTTTTAAA
15141063 TTTTAAT-T-T
1 TTTTAATATAT
15141072 TTTT-AT-TAT
1 TTTTAATATAT
15141081 TTTTAATAGTA-
1 TTTTAATA-TAT
15141092 TTTTAATATAAT
1 TTTTAATAT-AT
15141104 TTTTAATATAT
1 TTTTAATATAT
15141115 CTAAATACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.08
9 9 0.24
10 3 0.08
11 11 0.30
12 11 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:15141121 original size:22 final size:21
Alignment explanation
Indices: 15141079--15141133 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
15141069 TTTTTTTATT
* *
15141079 ATTTTTAATAGTATTTTAATATA
1 ATTTTTAATA-TATCTAAATA-A
*
15141102 ATTTTTAATATATCTAAATAC
1 ATTTTTAATATATCTAAATAA
15141123 ATTTTT-ATATA
1 ATTTTTAATATA
15141134 AATTATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.17
21 6 0.21
22 8 0.28
23 10 0.34
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTTTAATATATCTAAATAA
Found at i:15142014 original size:22 final size:22
Alignment explanation
Indices: 15141967--15142015 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
15141957 TCAGTTCATC
* *
15141967 TATTTTTAAATTTTATTTATTT
1 TATTTTTAAATTTTATTTAATA
*
15141989 TATTTTTATATATTT-TTTAATA
1 TATTTTTAAAT-TTTATTTAATA
15142011 TATTT
1 TATTT
15142016 AAATAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTTAAATTTTATTTAATA
Found at i:15142093 original size:20 final size:19
Alignment explanation
Indices: 15142050--15142093 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15142040 ATTTTTATTT
15142050 TATAAAAATTTAAAATATA
1 TATAAAAATTTAAAATATA
*
15142069 CATAAAAATTAATAAAA-ATA
1 TATAAAAATT--TAAAATATA
15142089 TATAA
1 TATAA
15142094 TTTAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 9 0.43
20 7 0.33
21 5 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATTTAAAATATA
Found at i:15142589 original size:18 final size:18
Alignment explanation
Indices: 15142546--15142592 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15142536 TAAACCGAAC
*
15142546 TAAATTATATATTTTTAT
1 TAAATTTTATATTTTTAT
**
15142564 TAGTTTTTATATATTTT-T
1 TAAATTTTATAT-TTTTAT
15142582 TAAATTTTATA
1 TAAATTTTATA
15142593 AAATAAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TAAATTTTATATTTTTAT
Found at i:15143255 original size:2 final size:2
Alignment explanation
Indices: 15143248--15143277 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15143238 TTTTCTCCTT
15143248 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
15143278 AAGAGGTCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15148390 original size:25 final size:25
Alignment explanation
Indices: 15148319--15148390 Score: 58
Period size: 27 Copynumber: 2.8 Consensus size: 25
15148309 AGAAGATTTG
* *
15148319 AATTTGGTTACCTATTTT-TGATGA
1 AATTTGGTTGCCTATTTTATGATAA
* *
15148343 AATTTGGATGCTTGATTGATTATGA-AA
1 AATTTGGTTGCCT-ATT--TTATGATAA
15148370 AATTTGGTTGCCTATTCTTAT
1 AATTTGGTTGCCTATT-TTAT
15148391 TGGACATAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
24 10 0.27
25 7 0.19
26 3 0.08
27 14 0.38
28 3 0.08
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (25 bp):
AATTTGGTTGCCTATTTTATGATAA
Found at i:15150386 original size:18 final size:18
Alignment explanation
Indices: 15150344--15150386 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15150334 TTAAATAAAT
* *
15150344 ATATGTTTGATTACTTGC
1 ATATGTTTGATTAATTAC
15150362 ATATGTTTAGATTAATTAC
1 ATATGTTT-GATTAATTAC
15150381 AT-TGTT
1 ATATGTT
15150387 ATGCATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (18 bp):
ATATGTTTGATTAATTAC
Found at i:15152636 original size:23 final size:23
Alignment explanation
Indices: 15152610--15152658 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
15152600 AAAATCACTC
*
15152610 CAATGGCTATTTTATCAAGGATT
1 CAATGGCTATTTTATCAAAGATT
15152633 CAATGGCTATTTTATCAAAGATT
1 CAATGGCTATTTTATCAAAGATT
15152656 CAA
1 CAA
15152659 CGGATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (23 bp):
CAATGGCTATTTTATCAAAGATT
Found at i:15159302 original size:21 final size:23
Alignment explanation
Indices: 15159260--15159303 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
15159250 CTGCAAAATG
15159260 GATTGATTTATTCTTAGAATAGATC
1 GATTGATTTATTCTT--AATAGATC
15159285 GATTGATTT-TTCTT-ATAGA
1 GATTGATTTATTCTTAATAGA
15159304 AACTTCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
24 5 0.26
25 9 0.47
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (23 bp):
GATTGATTTATTCTTAATAGATC
Found at i:15166437 original size:22 final size:22
Alignment explanation
Indices: 15166409--15166452 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15166399 CTAAATCTTC
*
15166409 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15166431 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15166453 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15170167 original size:23 final size:24
Alignment explanation
Indices: 15170101--15170161 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
15170091 TTGAAAGGGT
* *
15170101 TCGGCAATGAAGGCCTAAACAGGA
1 TCGGCAATGAAGGCCTAAAAAAGA
15170125 TCGGCAATGAAGGCCTAAAAAAG-
1 TCGGCAATGAAGGCCTAAAAAAGA
15170148 TCGGCAATGAAGGC
1 TCGGCAATGAAGGC
15170162 TGAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 14 0.40
24 21 0.60
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.13
Consensus pattern (24 bp):
TCGGCAATGAAGGCCTAAAAAAGA
Found at i:15170336 original size:22 final size:22
Alignment explanation
Indices: 15170308--15170351 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15170298 CTAAATCTTC
*
15170308 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15170330 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15170352 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15178738 original size:104 final size:104
Alignment explanation
Indices: 15178558--15178765 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
15178548 GTGAGGAAAT
15178558 GCTAACCATTGTATTATCAGTCTTGACAACAAATTAAGAACCAAACAAATAATGCCACCATGCCT
1 GCTAACCATTGTATTATCAGTCTTGACAACAAATTAAGAACCAAACAAATAATGCCACCATGCCT
15178623 TTAAATAATGGATCACAGCTAAAAGTTCTTTCTCTTAAG
66 TTAAATAATGGATCACAGCTAAAAGTTCTTTCTCTTAAG
*
15178662 GCTAACCATTGTATTATCAGTCTTGACAACAAATTAAGAGCCAAACAAATAATGCCACCATGCCT
1 GCTAACCATTGTATTATCAGTCTTGACAACAAATTAAGAACCAAACAAATAATGCCACCATGCCT
15178727 TTAAATAATGGATCACAGCTAAAAGTTCTTTCTCTTAAG
66 TTAAATAATGGATCACAGCTAAAAGTTCTTTCTCTTAAG
15178766 ATGTATATCT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (104 bp):
GCTAACCATTGTATTATCAGTCTTGACAACAAATTAAGAACCAAACAAATAATGCCACCATGCCT
TTAAATAATGGATCACAGCTAAAAGTTCTTTCTCTTAAG
Found at i:15184554 original size:7 final size:7
Alignment explanation
Indices: 15184544--15184573 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15184534 ATTTTTTTTC
15184544 CTTATTT
1 CTTATTT
15184551 CTTATTT
1 CTTATTT
15184558 CTTATTT
1 CTTATTT
15184565 CTT-TTT
1 CTTATTT
15184571 CTT
1 CTT
15184574 CTTCCCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (7 bp):
CTTATTT
Found at i:15184563 original size:14 final size:13
Alignment explanation
Indices: 15184534--15184573 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
15184524 CAAACTTTTC
15184534 ATTT-TTTTTCCTT
1 ATTTCTTTTT-CTT
15184547 ATTTCTTATTTCTT
1 ATTTCTT-TTTCTT
15184561 ATTTCTTTTTCTT
1 ATTTCTTTTTCTT
15184574 CTTCCCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.40
14 12 0.48
15 3 0.12
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTCTTTTTCTT
Found at i:15184619 original size:36 final size:36
Alignment explanation
Indices: 15184540--15184620 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
15184530 TTTCATTTTT
* **
15184540 TTTCC-TTATTTCTTATTTCTTATTTCTTTTTCTTC
1 TTTCCTTTTTTTCTTATTTCTTATTTCTACTTCTTC
* *
15184575 TTCCCCTTTTTTTCTT-TTTCTTCTTTCTACTTCTTCC
1 TT-TCCTTTTTTTCTTATTTCTTATTTCTACTTCTT-C
15184612 TTTCCTTTT
1 TTTCCTTTT
15184621 CCTTGTCGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
35 2 0.05
36 24 0.65
37 11 0.30
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (36 bp):
TTTCCTTTTTTTCTTATTTCTTATTTCTACTTCTTC
Found at i:15184697 original size:17 final size:17
Alignment explanation
Indices: 15184638--15184698 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
15184628 GATGCCGAGA
15184638 TTTTCTTTTTTTT-TTC
1 TTTTCTTTTTTTTCTTC
*
15184654 TTTTCTTCTTATTTCTTC
1 TTTTCTT-TTTTTTCTTC
15184672 -TTTCTTTTTTTTTCTTC
1 TTTTC-TTTTTTTTCTTC
15184689 TTTTCTTTTT
1 TTTTCTTTTT
15184699 GCCAGTCCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.18
17 23 0.59
18 9 0.23
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTTC
Found at i:15186373 original size:3 final size:3
Alignment explanation
Indices: 15186365--15186394 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15186355 ATTAATGGCC
15186365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15186395 TTATTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15186399 original size:3 final size:3
Alignment explanation
Indices: 15186393--15186435 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
15186383 ATAATAATAA
15186393 TAT TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15186436 ATAAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:15186470 original size:14 final size:15
Alignment explanation
Indices: 15186438--15186481 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15186428 ATTATTATAT
*
15186438 AAAAATGTAAAAATTTA
1 AAAAATG-AAAAA-ATA
15186455 AAAAAT-AAAAAATA
1 AAAAATGAAAAAATA
15186469 AAAAATGAAAAAA
1 AAAAATGAAAAAA
15186482 AATAAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 8 0.32
15 11 0.44
17 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAAAATGAAAAAATA
Found at i:15186492 original size:22 final size:22
Alignment explanation
Indices: 15186436--15186493 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15186426 TTATTATTAT
* *
15186436 ATAAAAATGTAAAAATTTAAAAA
1 ATAAAAA-GTAAAAAATGAAAAA
*
15186459 ATAAAAAATAAAAAATGAAAAA
1 ATAAAAAGTAAAAAATGAAAAA
15186481 A-AATAAAGTAAAA
1 ATAA-AAAGTAAAA
15186494 TTTTGGCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 21 0.70
23 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (22 bp):
ATAAAAAGTAAAAAATGAAAAA
Found at i:15190246 original size:143 final size:141
Alignment explanation
Indices: 15189891--15190370 Score: 414
Period size: 143 Copynumber: 3.4 Consensus size: 141
15189881 TTAAAGCACC
* * * * * * * *
15189891 AAAATCCTGAAATAATATGAAATTATGATATGAAAGTTTTCGTAGCAAA-CCAACATCGGAAAGA
1 AAAATCATGAAATAATATTAAATTATGATTTGAAAGTTTTCAT-GAAAATCCAACTTCGAAAATA
* * * * *
15189955 TCAAATTATAAAAATACCCTTAAGATGGTATTTTGGTAATTTCAATCTTTCAAGATGCGATTAAT
65 TCAAATTATAAAAATACCCCTAA-AGGGTA-TTTGGTAATTTCAACCTTT-AAGATGCGATAAAA
*
15190020 GTTTTTAATGCACCA
127 GTTTTTAATGCACAA
* * * * * * ** * **
15190035 AAAATCATGAAATATTATAAAATCATAATCTAAAAGTTTTCATGAAAAATTGATCTT--AGGATG
1 AAAATCATGAAATAATATTAAATTATGATTTGAAAGTTTTCATG-AAAATCCAACTTCGAAAAT-
* * * * * * *
15190098 GTCAAATGACAAAAACACCCCTAAAGGGTAGTTTGGTAATTTCAACCTTCTAAGATGCAATCAAG
64 ATCAAATTATAAAAATACCCCTAAAGGGTA-TTTGGTAATTTCAACCTT-TAAGATGCGATAAAA
15190163 GTTTTTAATGCACAA
127 GTTTTTAATGCACAA
15190178 AAAATCATGAAATAATATTAAATTATGATTTG-AAGCTTTTCATGAAAATCCAACTTCGAAAATA
1 AAAATCATGAAATAATATTAAATTATGATTTGAAAG-TTTTCATGAAAATCCAACTTCGAAAATA
* * * * *
15190242 TCAAATTATGAAAATA-TCCTAAAGGGTATTATAGTAATTTTTC-ACCTTTTATGGTGCGATAAA
65 TCAAATTATAAAAATACCCCTAAAGGGTATT-TGGTAA--TTTCAACC-TTTAAGATGCGATAAA
* * *
15190305 AATGTTTAATGCATAA
126 AGTTTTTAATGCACAA
* * *
15190321 AAAATCATGAAATATTATTAAATTATTATTTGAAAGTTTCCATGAAAATC
1 AAAATCATGAAATAATATTAAATTATGATTTGAAAGTTTTCATGAAAATC
15190371 TAAATTTGAG
Statistics
Matches: 266, Mismatches: 58, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
141 2 0.01
142 28 0.11
143 163 0.61
144 70 0.26
145 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (141 bp):
AAAATCATGAAATAATATTAAATTATGATTTGAAAGTTTTCATGAAAATCCAACTTCGAAAATAT
CAAATTATAAAAATACCCCTAAAGGGTATTTGGTAATTTCAACCTTTAAGATGCGATAAAAGTTT
TTAATGCACAA
Found at i:15190566 original size:10 final size:10
Alignment explanation
Indices: 15190553--15190590 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15190543 TTTGATTGGT
15190553 TTTGACCAAG
1 TTTGACCAAG
*
15190563 TTTGACTATA-
1 TTTGACCA-AG
15190573 TTTGACCAAG
1 TTTGACCAAG
15190583 TTTGACCA
1 TTTGACCA
15190591 TGGAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (10 bp):
TTTGACCAAG
Found at i:15196246 original size:21 final size:21
Alignment explanation
Indices: 15196216--15196257 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15196206 AAATATGAAG
15196216 AAAATAAATAAA-AAAAGGAT
1 AAAATAAATAAATAAAAGGAT
*
15196236 AAAATCAAATAAATTAAAGGAT
1 AAAAT-AAATAAATAAAAGGAT
15196258 TAATATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (21 bp):
AAAATAAATAAATAAAAGGAT
Found at i:15197567 original size:18 final size:18
Alignment explanation
Indices: 15197533--15197570 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15197523 AAAATAGAAT
*
15197533 AAAAGAAATAAGGAAAAG
1 AAAAGAAATAAGAAAAAG
15197551 AAAAGAAA-AATGAAAAAG
1 AAAAGAAATAA-GAAAAAG
15197569 AA
1 AA
15197571 GAAGCAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAGAAATAAGAAAAAG
Found at i:15211191 original size:139 final size:139
Alignment explanation
Indices: 15210977--15211238 Score: 307
Period size: 139 Copynumber: 1.9 Consensus size: 139
15210967 TTACATATAT
* * * ** * *
15210977 ATACATTTCCTTTTCACTAATTATTTTTATCATGTTATTGAACAATTAATCATTTTTATTAGTGT
1 ATACATTTCCTTTTCACTAATAATTTCTATCATGATATCAAACAATTAAACATTTTTATTAATGT
*
15211042 TCATGCAAATACAGATTTATTTC-CTCTTTTATTAATTTTACATATT-TT-TTATTAATAAATAA
66 TCATGCAAATACAGA--CATTTCACTCTTTTATTAATTTTACATATTATTATT-TTAATAAATAA
15211104 TAATTTTTCTTA
128 TAATTTTTCTTA
* * *
15211116 ATACATTTTCTTTTTACTAATAATTTACTATCATGATATCAAACAATTAAACA-TTTTATTAATT
1 ATACATTTCCTTTTCACTAATAATTT-CTATCATGATATCAAACAATTAAACATTTTTATTAATG
** * * * *
15211180 TTCATTTAAATATAGACATTTCATTTTTTTATTAATTTTATATATTATTATTTTAATAA
65 TTCATGCAAATACAGACATTTCACTCTTTTATTAATTTTACATATTATTATTTTAATAA
15211239 TTATTTCTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
137 5 0.05
138 20 0.20
139 54 0.53
140 23 0.23
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (139 bp):
ATACATTTCCTTTTCACTAATAATTTCTATCATGATATCAAACAATTAAACATTTTTATTAATGT
TCATGCAAATACAGACATTTCACTCTTTTATTAATTTTACATATTATTATTTTAATAAATAATAA
TTTTTCTTA
Found at i:15214510 original size:20 final size:20
Alignment explanation
Indices: 15214487--15214525 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15214477 ACCAAAAATT
15214487 AAATTAAAAAAACCTAGAAA
1 AAATTAAAAAAACCTAGAAA
***
15214507 AAATTTTCAAAACCTAGAA
1 AAATTAAAAAAACCTAGAA
15214526 TTCAATTCCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATTAAAAAAACCTAGAAA
Found at i:15215286 original size:232 final size:229
Alignment explanation
Indices: 15214828--15215286 Score: 595
Period size: 232 Copynumber: 2.0 Consensus size: 229
15214818 ACCTTTAAAG
* * * *
15214828 GCCCTATGAAACAACTATCCTAGATTAAAAGAAATTTCATCCCATAAAATCTTTAGTAATTTCAA
1 GCCCTATGAAACAACTATCCTAGATCAAAAGAAATTTCACCCCATAAAAACTTTAGCAATTTCAA
* * * *
15214893 TCTCGACAAAACATTCTGCAAATTTCAAATTCTTTTTTTTTCTAAAAATTAATAAAAAAAGATTA
66 TCTCGACAAAACATTCTGCAAAATTCAAATTCTTTTTTTCTATAAAAATCAATAAAAAAAGATTA
* * * *
15214958 AAAATAACATAAAGTTAAATCCAATTAAACTTATAATGAATAAGAATAAAAACTCAGATAAATAT
131 AAAAGAACATAAAGTTAAATCCAATTAAACTTATAATGAACAAGAATAAAAACTCAAACAAATAT
* * *
15215023 TGTATCTACAGTTGTCCCTTTTTAGGCATTATGT
196 TGTATCTACAATTGTCCCTCTTTACGCATTATGT
* *
15215057 GCCCTATGAAACAACTATCCTAGATCAAAAGGAATTTGACCCCA-AAAAACTTTAGCAATTTCAA
1 GCCCTATGAAACAACTATCCTAGATCAAAAGAAATTTCACCCCATAAAAACTTTAGCAATTTCAA
* *
15215121 TCTTGACTAAACATTCTGCAAAATTCAAATTCTCCTATTTCTTACTATAAAAATCAATAAAATAA
66 TCTCGACAAAACATTCTGCAAAATTCAAATTCT--T-TTT-TT-CTATAAAAATCAATAAAA-AA
* * * *
15215186 A-ATTAAAAAGAACAT-AAGTTAAATCTAATTAAACTTTTAATGGACAAGAATAAAACCTCAAAC
125 AGATTAAAAAGAACATAAAGTTAAATCCAATTAAACTTATAATGAACAAGAATAAAAACTCAAAC
*
15215249 AAATA-TGATGTCTACAATTG-CCTCTCTTTACGCATTAT
190 AAATATTG-TATCTACAATTGTCC-CTCTTTACGCATTAT
15215287 TTGTGAAATA
Statistics
Matches: 198, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
228 48 0.24
229 40 0.20
230 1 0.01
231 7 0.04
232 71 0.36
233 28 0.14
234 3 0.02
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (229 bp):
GCCCTATGAAACAACTATCCTAGATCAAAAGAAATTTCACCCCATAAAAACTTTAGCAATTTCAA
TCTCGACAAAACATTCTGCAAAATTCAAATTCTTTTTTTCTATAAAAATCAATAAAAAAAGATTA
AAAAGAACATAAAGTTAAATCCAATTAAACTTATAATGAACAAGAATAAAAACTCAAACAAATAT
TGTATCTACAATTGTCCCTCTTTACGCATTATGT
Found at i:15215548 original size:42 final size:43
Alignment explanation
Indices: 15215496--15215620 Score: 112
Period size: 42 Copynumber: 2.9 Consensus size: 43
15215486 AAAAATATAC
* *
15215496 CTTATCAGAGGTTATAAAACTTTAAAAATTTAAAATGCTCT-T
1 CTTATTAGAGGTTATAAAACTTTAAAAATTTAAAAAGCTCTAT
* * * *
15215538 CTTATTAGAGGCTCA-ACAACATTGAAAAATATAAAAAGCT-TAT
1 CTTATTAGAGG-TTATAAAAC-TTTAAAAATTTAAAAAGCTCTAT
* * * * *
15215581 CTCATTAAAGGCTATAAAAATTTAAAAATTTAAAAGGCTC
1 CTTATTAGAGGTTATAAAACTTTAAAAATTTAAAAAGCTC
15215621 CTCTAGCAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (43 bp):
CTTATTAGAGGTTATAAAACTTTAAAAATTTAAAAAGCTCTAT
Found at i:15216069 original size:55 final size:55
Alignment explanation
Indices: 15216010--15216167 Score: 147
Period size: 55 Copynumber: 2.9 Consensus size: 55
15216000 TATAAACTTG
* * * * *
15216010 TAATTTTTTTACCTATACTGAC-ACTTAAAGCCCGTTAGTATAGATTTGTATGTTT
1 TAATTTTTTTACCTATACCGACGAC-TAAAGCCCGTCAATATAGACTTATATGTTT
** * ** *
15216065 TAATTTAATTACCTATACCGACGGCTAGTGCTCGTCAATATAGACTTATATGTTT
1 TAATTTTTTTACCTATACCGACGACTAAAGCCCGTCAATATAGACTTATATGTTT
* * * * *
15216120 TAATTTTTTTTACCTATACCAACGATTAACGCCTGTCAGTATAGACTT
1 TAA-TTTTTTTACCTATACCGACGACTAAAGCCCGTCAATATAGACTT
15216168 GTAATTTTTC
Statistics
Matches: 80, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
55 45 0.56
56 35 0.44
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (55 bp):
TAATTTTTTTACCTATACCGACGACTAAAGCCCGTCAATATAGACTTATATGTTT
Found at i:15216263 original size:55 final size:55
Alignment explanation
Indices: 15216204--15216351 Score: 179
Period size: 55 Copynumber: 2.7 Consensus size: 55
15216194 TTAGCATCCA
* ***
15216204 TCAGTATAGACTTGTATTTTTTAATTTTCTTATATATACCGGTGGTTAGAGACTG
1 TCAGTATAGACTTGTATGTTTTAATTTTCTTATATATACCAACGGTTAGAGACTG
* * ** * *
15216259 TCAGTATAGAATTGTATGTTTTAATATTCTTACCTATACTAACGGTTAGAGATTG
1 TCAGTATAGACTTGTATGTTTTAATTTTCTTATATATACCAACGGTTAGAGACTG
* *
15216314 TCAGTATAGACTTATATGTTTTAATTTTTTTATTATAT
1 TCAGTATAGACTTGTATGTTTTAATTTTCTTA-TATAT
15216352 TTTATTGAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
55 73 0.96
56 3 0.04
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (55 bp):
TCAGTATAGACTTGTATGTTTTAATTTTCTTATATATACCAACGGTTAGAGACTG
Found at i:15216648 original size:15 final size:15
Alignment explanation
Indices: 15216628--15216657 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15216618 GTACCAAGTC
15216628 TGATAAAACAAACAT
1 TGATAAAACAAACAT
15216643 TGATAAAACAAACAT
1 TGATAAAACAAACAT
15216658 AAATAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (15 bp):
TGATAAAACAAACAT
Found at i:15216663 original size:15 final size:15
Alignment explanation
Indices: 15216630--15216664 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15216620 ACCAAGTCTG
**
15216630 ATAAAACAAACATTG
1 ATAAAACAAACATAA
15216645 ATAAAACAAACATAA
1 ATAAAACAAACATAA
15216660 ATAAA
1 ATAAA
15216665 TAGTTACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.11, G:0.03, T:0.17
Consensus pattern (15 bp):
ATAAAACAAACATAA
Found at i:15220470 original size:62 final size:61
Alignment explanation
Indices: 15220395--15220527 Score: 151
Period size: 62 Copynumber: 2.2 Consensus size: 61
15220385 TGGCATATGG
* **** *
15220395 TTATTCAAGGCATTTATGCCCAAATATACCTTGAATAATCC-CTTTCAATTTTTATAGGGAGA
1 TTATTGAAGGCATTTATGCCCAAA-ATACCTTGAATAATCCTCAAAAAAATTTTATA-GGAGA
* * * *
15220457 TTATTGAAGGCATTTTTGGCCAAAATGCCTTTAATAATCCTCAAAAAAATTTTATAGGAGA
1 TTATTGAAGGCATTTATGCCCAAAATACCTTGAATAATCCTCAAAAAAATTTTATAGGAGA
15220518 TTATTGAAGG
1 TTATTGAAGG
15220528 TGTTTTCTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 29 0.48
62 31 0.52
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (61 bp):
TTATTGAAGGCATTTATGCCCAAAATACCTTGAATAATCCTCAAAAAAATTTTATAGGAGA
Found at i:15220542 original size:61 final size:63
Alignment explanation
Indices: 15220444--15220560 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 63
15220434 CCCTTTCAAT
** *
15220444 TTTTATAGGGAGATTATTGAAGGCATTTTTGGCC-AAAATGCCTTTAATAATCCTCAAAAAAA
1 TTTTATAGGGAGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAATAATCCTCAAAAAAA
** *
15220506 TTTTATA-GGAGATTATTGAAGGTGTTTTCT-GTCAAAAACACCTTCAATAATCCTC
1 TTTTATAGGGAGATTATTGAAGGCATTTT-TGGCCAAAAACACCTTCAATAATCCTC
15220561 TAGTTTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 21 0.45
62 26 0.55
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (63 bp):
TTTTATAGGGAGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAATAATCCTCAAAAAAA
Found at i:15220816 original size:59 final size:59
Alignment explanation
Indices: 15220702--15220816 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
15220692 TTTTATGAGG
**
15220702 GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTCAATAATCTCCTCCCTTTTTTTTT
1 GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTCAATAATCTCCTCCAATTTTTTTT
* * * * *
15220761 GGATTATTCAAGGCATTTTTGGCCAAAAATGCCTTGAATAATCTCTTTCAATTTTT
1 GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTCAATAATCTCCTCCAATTTTT
15220817 ATGAGATAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (59 bp):
GGATTATTCAAGGCATTTTTGACAAAAAATGCCTTCAATAATCTCCTCCAATTTTTTTT
Found at i:15223001 original size:27 final size:27
Alignment explanation
Indices: 15222950--15223001 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15222940 CTTTCAGCTT
** **
15222950 TCATTTTTCTTTTTCTCATTTTTTTCA
1 TCATTTTTCTTTCGCTCATCATTTTCA
15222977 TCATTTTTCTTTCGCTCATCATTTT
1 TCATTTTTCTTTCGCTCATCATTTT
15223002 GGCTTCATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.65
Consensus pattern (27 bp):
TCATTTTTCTTTCGCTCATCATTTTCA
Found at i:15226794 original size:27 final size:27
Alignment explanation
Indices: 15226756--15226811 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15226746 TTACCAGAAA
15226756 CACCTTGAATAACCTCAAAAAAAATGG
1 CACCTTGAATAACCTCAAAAAAAATGG
*
15226783 CACCTTGAATAATCTCAAAAAAAATGG
1 CACCTTGAATAACCTCAAAAAAAATGG
15226810 CA
1 CA
15226812 GGGGATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.20
Consensus pattern (27 bp):
CACCTTGAATAACCTCAAAAAAAATGG
Found at i:15232888 original size:145 final size:142
Alignment explanation
Indices: 15232604--15233015 Score: 459
Period size: 145 Copynumber: 2.9 Consensus size: 142
15232594 TCGAGAAGGC
* * * * * * **
15232604 AAAATTACTAAAACACCCTTATGGGGGTATTTTCATAAATTGACCTTTTTGAGCTTGAATTTTTG
1 AAAATTACAAAAATACCCTTATAGGGGTATTTTCATAAATTGGCCTTTTCGAGCTTGAAATTTCA
* * * **
15232669 TGAAACATTCTAGATCTTAATTTTTTTAATATTTCATGATTTTTGGTGCATTTGAAATCATAGCA
66 TGAAACTTTC-AAATCTTAA--TTTATAATATTTCATGATTTTTGGTGCATTCAAAATCATAGCA
15232734 GTACTCAAGAAGTGT
128 GTACTCAAGAAGTGT
* * * *
15232749 AAAATTACCAAAATACCCTTATAGGGGTATTTTCATAAGTTGGCCTTCTCAAGCTTGAAATTTCA
1 AAAATTACAAAAATACCCTTATAGGGGTATTTTCATAAATTGGCCTTTTCGAGCTTGAAATTTCA
* * *
15232814 TGAAACTTTTCAAATCTCAATTCTATAATATTTCAAGATTTTTGGTGTATTCAAAATCATAGCAG
66 TGAAAC-TTTCAAATCTTAATT-TATAATATTTCATGATTTTTGGTGCATTCAAAATCATAGCAG
*
15232879 TATTCCAAGAAGTGT
129 TACT-CAAGAAGTGT
* * * * * *
15232894 GAAATTACAAAAATACCCTTATAAGGATATTTTCAGAATTTGGCCTTTTCGAGC-TCAGAATTTC
1 AAAATTACAAAAATACCCTTATAGGGGTATTTTCATAAATTGGCCTTTTCGAGCTTGA-AATTTC
* * *
15232958 ACGAAACCTTTCAAATCTTAATTTCATAATATTTCATGATTTTTAGTGC-TTTAAAATC
65 ATGAAA-CTTTCAAATCTTAATTT-ATAATATTTCATGATTTTTGGTGCATTCAAAATC
15233016 CTAAAACTGA
Statistics
Matches: 226, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
143 2 0.01
144 51 0.23
145 169 0.75
146 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (142 bp):
AAAATTACAAAAATACCCTTATAGGGGTATTTTCATAAATTGGCCTTTTCGAGCTTGAAATTTCA
TGAAACTTTCAAATCTTAATTTATAATATTTCATGATTTTTGGTGCATTCAAAATCATAGCAGTA
CTCAAGAAGTGT
Found at i:15238720 original size:4 final size:4
Alignment explanation
Indices: 15238711--15238764 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
15238701 TTGTTATGTG
* * *
15238711 TTCA TTCA TTCA TTCA TTTA TTCA TCCA TTCA TTCA TTCA TCCA TTCA
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA
*
15238759 TCCA TT
1 TTCA TT
15238765 TATACAATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (4 bp):
TTCA
Found at i:15238735 original size:16 final size:16
Alignment explanation
Indices: 15238711--15238764 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
15238701 TTGTTATGTG
*
15238711 TTCATTCATTCATTCA
1 TTCATTCATCCATTCA
*
15238727 TTTATTCATCCATTCA
1 TTCATTCATCCATTCA
15238743 TTCATTCATCCATTCA
1 TTCATTCATCCATTCA
*
15238759 TCCATT
1 TTCATT
15238765 TATACAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCATTCATCCATTCA
Found at i:15243317 original size:22 final size:22
Alignment explanation
Indices: 15243268--15243347 Score: 92
Period size: 22 Copynumber: 3.6 Consensus size: 22
15243258 AGATTAAACT
*
15243268 TAAGTCCAGATTAGCT-G-ACA
1 TAAGCCCAGATTAGCTAGCACA
15243288 TATGAGCCCAGATTAGCTAGCACA
1 TA--AGCCCAGATTAGCTAGCACA
*
15243312 TAAGCCTAAGATTAGCTAGCACA
1 TAAGCC-CAGATTAGCTAGCACA
*
15243335 TAAACCCAGATTA
1 TAAGCCCAGATTA
15243348 ACAGTCATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.04
22 23 0.45
23 21 0.41
24 5 0.10
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (22 bp):
TAAGCCCAGATTAGCTAGCACA
Found at i:15243769 original size:67 final size:67
Alignment explanation
Indices: 15243657--15243856 Score: 294
Period size: 67 Copynumber: 3.0 Consensus size: 67
15243647 TTAAGGTTAG
* * *
15243657 ATTAGTTGGTCCCCAATGAAATATTAAACCCAATTTAGCTGGCCTTCAAAGAAAGATTTAAGCCT
1 ATTAGTTGGCCCCCAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCT
15243722 AA
66 AA
* * * *
15243724 ATTAGTTAGCCCCCAATGAAATATTAAGCCCAGTTTAACTAGCCTTCAAAGAAATATTTAAGACC
1 ATTAGTTGGCCCCCAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAG-CC
15243789 -AA
65 TAA
* * *
15243791 ATTAGCTGGCCCCTAATGAAATATTAAGCCTAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCT
1 ATTAGTTGGCCCCCAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCT
15243856 A
66 A
15243857 GTTTAGCTAA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
66 2 0.02
67 113 0.97
68 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (67 bp):
ATTAGTTGGCCCCCAATGAAATATTAAGCCCAATTTAGCTAGCCTTCAAAGAAAGATTTAAGCCT
AA
Found at i:15243812 original size:34 final size:34
Alignment explanation
Indices: 15243657--15243815 Score: 89
Period size: 34 Copynumber: 4.7 Consensus size: 34
15243647 TTAAGGTTAG
*
15243657 ATTAGTTGGTCCCC-AATGAAATA-TTAA-ACCCAA
1 ATTAGCTGG-CCCCTAATGAAATATTTAAGA-CCAA
* * * *
15243690 TTTAGCTGG-CCTTCAAAGAAAGATTTAAG-CCTAA
1 ATTAGCTGGCCCCT-AATGAAATATTTAAGACC-AA
* * * * *
15243724 ATTAGTTAGCCCCCAATGAAATA-TTAAGCCCAG
1 ATTAGCTGGCCCCTAATGAAATATTTAAGACCAA
* * * * *
15243757 TTTAACTAG-CCTTCAAAGAAATATTTAAGACCAA
1 ATTAGCTGGCCCCT-AATGAAATATTTAAGACCAA
15243791 ATTAGCTGGCCCCTAATGAAATATT
1 ATTAGCTGGCCCCTAATGAAATATT
15243816 AAGCCTAATT
Statistics
Matches: 90, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
31 2 0.02
32 2 0.02
33 36 0.40
34 45 0.50
35 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (34 bp):
ATTAGCTGGCCCCTAATGAAATATTTAAGACCAA
Found at i:15243853 original size:34 final size:34
Alignment explanation
Indices: 15243674--15243865 Score: 169
Period size: 34 Copynumber: 5.7 Consensus size: 34
15243664 GGTCCCCAAT
* * *
15243674 GAAATA-TTAAACCCAATTTAGCTGGCCTTCAAA
1 GAAATATTTAAGCCTAATTTAGCTAGCCTTCAAA
* * * ** *
15243707 GAAAGATTTAAGCCTAAATTAGTTAGCCCCCAAT
1 GAAATATTTAAGCCTAATTTAGCTAGCCTTCAAA
* * *
15243741 GAAATA-TTAAGCCCAGTTTAACTAGCCTTCAAA
1 GAAATATTTAAGCCTAATTTAGCTAGCCTTCAAA
* * * *
15243774 GAAATATTTAAGACC-AAATTAGCTGGCC-CCTAAT
1 GAAATATTTAAG-CCTAATTTAGCTAGCCTTC-AAA
15243808 GAAATA-TTAAGCCTAATTTAGCTAGCCTTCAAA
1 GAAATATTTAAGCCTAATTTAGCTAGCCTTCAAA
* *
15243841 GAAAGATTTAAGCCTAGTTTAGCTA
1 GAAATATTTAAGCCTAATTTAGCTA
15243866 ACCTCTAATG
Statistics
Matches: 122, Mismatches: 30, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
32 2 0.02
33 54 0.44
34 64 0.52
35 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (34 bp):
GAAATATTTAAGCCTAATTTAGCTAGCCTTCAAA
Done.