Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 83 of 228
Found at i:24611450 original size:16 final size:18
Alignment explanation
Indices: 24611421--24611456 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
24611411 CAATTAATTT
24611421 AAATAAATTAA-TTTCTC
1 AAATAAATTAATTTTCTC
24611438 AAATAAA-TAATTTTCTC
1 AAATAAATTAATTTTCTC
24611455 AA
1 AA
24611457 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATAAATTAATTTTCTC
Found at i:24611723 original size:16 final size:18
Alignment explanation
Indices: 24611694--24611729 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
24611684 CAATTAATTT
24611694 AAATAAATTAA-TTTCTC
1 AAATAAATTAATTTTCTC
24611711 AAATAAA-TAATTTTCTC
1 AAATAAATTAATTTTCTC
24611728 AA
1 AA
24611730 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATAAATTAATTTTCTC
Found at i:24612276 original size:17 final size:17
Alignment explanation
Indices: 24612254--24612286 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24612244 AGGATATCAT
*
24612254 TAATCTCTTTGGGATAA
1 TAATCTCTTTAGGATAA
24612271 TAATCTCTTTAGGATA
1 TAATCTCTTTAGGATA
24612287 TCATTATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (17 bp):
TAATCTCTTTAGGATAA
Found at i:24613497 original size:20 final size:20
Alignment explanation
Indices: 24613470--24613522 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
24613460 ATACCAATCA
*
24613470 TAAA-GTATCGATACCTTTT
1 TAAAGGTATCGATACCCTTT
* *
24613489 TCAAGGTATCAATACCCTTT
1 TAAAGGTATCGATACCCTTT
24613509 TAAAGGTATCGATA
1 TAAAGGTATCGATA
24613523 GCTTACCTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (20 bp):
TAAAGGTATCGATACCCTTT
Found at i:24615065 original size:15 final size:15
Alignment explanation
Indices: 24615045--24615075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24615035 ATTTCACTAC
*
24615045 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
24615060 TATGTCTTTTATATT
1 TATGTCTTTTATATT
24615075 T
1 T
24615076 TGCATGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:24616744 original size:37 final size:36
Alignment explanation
Indices: 24616669--24616741 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
24616659 ATTCCAGAAA
24616669 TAATATTATTTTAATAGTTTAATATTAAGTTTAATT
1 TAATATTATTTTAATAGTTTAATATTAAGTTTAATT
* *
24616705 TAATAATTATTTTATTAGTATT-TTATTAA-TTTAATT
1 TAAT-ATTATTTTAATAGT-TTAATATTAAGTTTAATT
24616741 T
1 T
24616742 TAAAGTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.36
37 19 0.58
38 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAATATTAAGTTTAATT
Found at i:24616752 original size:20 final size:18
Alignment explanation
Indices: 24616728--24616781 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
24616718 ATTAGTATTT
24616728 TATTAATTTAATTTTAAA
1 TATTAATTTAATTTTAAA
24616746 GTGATT-ATATTAATTTTAAA
1 -T-ATTAAT-TTAATTTTAAA
24616766 T-TTAATTTAAGTTTTA
1 TATTAATTTAA-TTTTA
24616782 TACAAGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
17 6 0.19
18 7 0.23
19 4 0.13
20 14 0.45
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTAATTTAATTTTAAA
Found at i:24616924 original size:29 final size:29
Alignment explanation
Indices: 24616882--24616994 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
24616872 AAAAAATAAA
24616882 AAATTACATTTTAACCCCTAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* * *
24616911 AAATTGCATTTTAACCCCTAAA-TTTCATA
1 AAATTACATTTTAACCCCTAAACTTT-TTG
* * *
24616940 AAATTACATTTTGACCCATAAACCTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
** * *
24616969 AAATTATGTTTTGACCTCTAAACTTT
1 AAATTACATTTTAACCCCTAAACTTT
24616995 CTCAAAATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.04
29 63 0.93
30 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAAACTTTTTG
Found at i:24616990 original size:58 final size:59
Alignment explanation
Indices: 24616881--24617003 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 59
24616871 CAAAAAATAA
* * *
24616881 AAAATTACATTTTAACCCCTAAACTTTTTGAAATTGCATTTTAACCCCTAAA-TTTCAT-
1 AAAATTACATTTTAACCCATAAACCTTTTGAAATTACATTTTAACCCCTAAACTTTC-TC
* ** * *
24616939 AAAATTACATTTTGACCCATAAACCTTTTGAAATTATGTTTTGACCTCTAAACTTTCTC
1 AAAATTACATTTTAACCCATAAACCTTTTGAAATTACATTTTAACCCCTAAACTTTCTC
24616998 AAAATT
1 AAAATT
24617004 TTGTTTCGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 45 0.82
59 10 0.18
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACCTTTTGAAATTACATTTTAACCCCTAAACTTTCTC
Found at i:24617355 original size:3 final size:3
Alignment explanation
Indices: 24617347--24617416 Score: 56
Period size: 3 Copynumber: 23.0 Consensus size: 3
24617337 GAGGCCGAAC
* *
24617347 GAA GAA GAA GAA GGA GAA -AA -AA GAA GAA AAA G-A GAAA GAA GGAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA -GAA
*
24617391 GGAA GAA GAA GAA GGAA GAA AAA GAA
1 -GAA GAA GAA GAA -GAA GAA GAA GAA
24617417 AAAAGAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 38 0.68
4 12 0.21
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24617664 original size:15 final size:15
Alignment explanation
Indices: 24617643--24617678 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
24617633 GGCCTAGCAG
24617643 GCCAGCCAGCCCAAC
1 GCCAGCCAGCCCAAC
*
24617658 TCCAGCCAGCCCAAC
1 GCCAGCCAGCCCAAC
24617673 GCCAGC
1 GCCAGC
24617679 AGCAGGCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.25, C:0.53, G:0.19, T:0.03
Consensus pattern (15 bp):
GCCAGCCAGCCCAAC
Found at i:24617721 original size:16 final size:15
Alignment explanation
Indices: 24617676--24617720 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
24617666 GCCCAACGCC
*
24617676 AGCAGCAGGCCCAAT
1 AGCAGCAGGCCCAAA
24617691 AGC-GCAGGCCCAAA
1 AGCAGCAGGCCCAAA
24617705 AGGCAGCAGG-CCAAA
1 A-GCAGCAGGCCCAAA
24617720 A
1 A
24617721 AAAAAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 11 0.41
15 11 0.41
16 5 0.19
ACGTcount: A:0.38, C:0.31, G:0.29, T:0.02
Consensus pattern (15 bp):
AGCAGCAGGCCCAAA
Found at i:24617741 original size:9 final size:9
Alignment explanation
Indices: 24617722--24617790 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
24617712 AGGCCAAAAA
24617722 AAAAGAAGAG
1 AAAA-AAGAG
24617732 AAAAAAGAG
1 AAAAAAGAG
*
24617741 AAAAAAAAAG
1 -AAAAAAGAG
*
24617751 GAAAAAGA-
1 AAAAAAGAG
*
24617759 AAAAGA-AG
1 AAAAAAGAG
*
24617767 AAAAAAGAA
1 AAAAAAGAG
24617776 AAAAAAG-G
1 AAAAAAGAG
24617784 AAAAAAG
1 AAAAAAG
24617791 GGTTCAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
7 1 0.02
8 16 0.33
9 19 0.40
10 12 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:24617756 original size:32 final size:33
Alignment explanation
Indices: 24617720--24617790 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
24617710 GCAGGCCAAA
* *
24617720 AAAAAAG-AAGAGAA-AAAAGAGAAAAAAAAAGG
1 AAAAAAGAAAAAGAAGAAAAAAG-AAAAAAAAGG
24617752 -AAAAAGAAAAAGAAGAAAAAAGAAAAAAAAGG
1 AAAAAAGAAAAAGAAGAAAAAAGAAAAAAAAGG
24617784 AAAAAAG
1 AAAAAAG
24617791 GGTTCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 6 0.18
32 16 0.47
33 12 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (33 bp):
AAAAAAGAAAAAGAAGAAAAAAGAAAAAAAAGG
Found at i:24617759 original size:26 final size:26
Alignment explanation
Indices: 24617717--24617790 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
24617707 GCAGCAGGCC
*
24617717 AAAAAAAAAG-AAGAGAAAAAAG-AG
1 AAAAAAAAAGAAAAAGAAAAAAGAAG
24617741 AAAAAAAAAGGAAAAAG-AAAAAGAAG
1 AAAAAAAAA-GAAAAAGAAAAAAGAAG
24617767 AAAAAAGAAA-AAAAAGGAAAAAAG
1 AAAAAA-AAAGAAAAA-GAAAAAAG
24617791 GGTTCAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
24 9 0.21
25 12 0.28
26 13 0.30
27 9 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAGAAAAAAGAAG
Found at i:24618143 original size:16 final size:16
Alignment explanation
Indices: 24618111--24618145 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24618101 GAAAATATTC
*
24618111 TAAAATTCTCATTTTT
1 TAAAATTCTCATGTTT
*
24618127 TAAAATTCTCGTGTTT
1 TAAAATTCTCATGTTT
24618143 TAA
1 TAA
24618146 TAGAATCACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (16 bp):
TAAAATTCTCATGTTT
Found at i:24618287 original size:18 final size:18
Alignment explanation
Indices: 24618266--24618561 Score: 148
Period size: 17 Copynumber: 16.2 Consensus size: 18
24618256 AAAAATCGGG
24618266 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
24618284 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTTTCGTGT
*
24618301 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
24618319 TTT-AAAAA-TTCCAGTG-
1 TTTCAAAAATTTTC-GTGT
24618335 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
24618353 TTTCAAAAAAATTTCCCGTGT
1 TTTC--AAAAATTT-TCGTGT
* ** *
24618374 TTTTAAAAATTCCCGT-A
1 TTTCAAAAATTTTCGTGT
* *
24618391 TATCAAAAATTTTCTTGT
1 TTTCAAAAATTTTCGTGT
* *
24618409 TTTCAAAAAAAAAAATTTCCATG-
1 TTTC------AAAAATTTTCGTGT
* *
24618432 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
*
24618450 TTTCAAAAAAAATTCTCGT-T
1 TTTC---AAAAATTTTCGTGT
24618470 TTTCAAAAATTTTCGT-T
1 TTTCAAAAATTTTCGTGT
* **
24618487 TTTAAAAAAAATTGACCGTG-
1 TTT--CAAAAATT-TTCGTGT
*
24618507 TTTCATAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
* *
24618524 TTTCAAAAAAATCTCGTG-
1 TTTC-AAAAATTTTCGTGT
*
24618542 TTTC-AAAATTTTCGGGT
1 TTTCAAAAATTTTCGTGT
24618559 TTT
1 TTT
24618562 TTAAAAAACA
Statistics
Matches: 213, Mismatches: 40, Indels: 51
0.70 0.13 0.17
Matches are distributed among these distances:
16 14 0.07
17 78 0.37
18 56 0.26
19 14 0.07
20 19 0.09
21 17 0.08
23 4 0.02
24 11 0.05
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:24618397 original size:56 final size:55
Alignment explanation
Indices: 24618314--24618419 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 55
24618304 CAAAAATCTT
* *
24618314 CGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCC
1 CGTGTTTTAAAAATTCCAGTATATCAAAAATTTTCGTGTTTTCAAAAAAATTTCC
* *
24618369 CGTGTTTTTAAAAATTCCCGTATATCAAAAATTTTCTTGTTTTCAAAAAAA
1 CGTG-TTTTAAAAATTCCAGTATATCAAAAATTTTCGTGTTTTCAAAAAAA
24618420 AAAATTTCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 4 0.09
56 42 0.91
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (55 bp):
CGTGTTTTAAAAATTCCAGTATATCAAAAATTTTCGTGTTTTCAAAAAAATTTCC
Found at i:24618419 original size:37 final size:38
Alignment explanation
Indices: 24618378--24618606 Score: 188
Period size: 37 Copynumber: 6.1 Consensus size: 38
24618368 CCGTGTTTTT
* * *
24618378 AAAAATTCCCGTATATCAAAAATTTTCTTGTTTTCAAAAAA
1 AAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTC---AAA
* * * *
24618419 AAAAATTTCCATGTTTCATAAATTTCCGTGTTTTCAAA
1 AAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* *
24618457 AAAAATTCTCGTTTTTCAAAAATTTTCGT-TTTT-AAA
1 AAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* *
24618493 AAAAATTGACCGTGTTTCATAAATTTTCGTG-TTTC-AA
1 AAAAATT-CCCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* * *
24618530 AAAAA-TCTCGTGTTTC-AAAATTTTCGGGTTTTTTAAA
1 AAAAATTCCCGTGTTTCAAAAATTTTCGTG-TTTTCAAA
* * *
24618567 AAACAATT--CGTGTTTCTAAAATTCTCGTATTTT-AAA
1 AAA-AATTCCCGTGTTTCAAAAATTTTCGTGTTTTCAAA
24618603 AAAA
1 AAAA
24618607 TCGTGTTTTC
Statistics
Matches: 154, Mismatches: 25, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
34 10 0.06
35 9 0.06
36 20 0.13
37 49 0.32
38 37 0.24
39 1 0.01
41 28 0.18
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (38 bp):
AAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCAAA
Found at i:24618548 original size:72 final size:72
Alignment explanation
Indices: 24618416--24618621 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 72
24618406 TGTTTTCAAA
* * *
24618416 AAAAAAAATTTCCATGTTTCATAAATTTCCGTGTTTTCAAAAAAAATTCTCGTTTTTCAAAAATT
1 AAAAAAAA-TTCCGTGTTTCATAAATTTTCGTG-TTTC-AAAAAAA-TCTCGTGTTTCAAAAATT
24618481 TTC-G-TTTTT
62 TTCGGTTTTTT
24618490 AAAAAAAATTGACCGTGTTTCATAAATTTTCGTGTTTCAAAAAAATCTCGTGTTTC-AAAATTTT
1 AAAAAAAATT--CCGTGTTTCATAAATTTTCGTGTTTCAAAAAAATCTCGTGTTTCAAAAATTTT
24618554 CGGGTTTTTT
64 C-GGTTTTTT
* * *
24618564 AAAAAACAATT-CGTGTTTC-TAAAATTCTCGTATTTTAAAAAAA--TCGTGTTTTCAAAAA
1 AAAAAA-AATTCCGTGTTTCAT-AAATTTTCGTGTTTCAAAAAAATCTCGTG-TTTCAAAAA
24618622 AAGAAAAAGT
Statistics
Matches: 117, Mismatches: 6, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
70 5 0.04
71 14 0.12
72 41 0.35
73 10 0.09
74 23 0.20
75 24 0.21
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (72 bp):
AAAAAAAATTCCGTGTTTCATAAATTTTCGTGTTTCAAAAAAATCTCGTGTTTCAAAAATTTTCG
GTTTTTT
Found at i:24618610 original size:16 final size:17
Alignment explanation
Indices: 24618591--24618623 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24618581 TCTAAAATTC
24618591 TCGTATTTT-AAAAAAA
1 TCGTATTTTCAAAAAAA
*
24618607 TCGTGTTTTCAAAAAAA
1 TCGTATTTTCAAAAAAA
24618624 GAAAAAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
TCGTATTTTCAAAAAAA
Found at i:24632671 original size:12 final size:12
Alignment explanation
Indices: 24632654--24632683 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
24632644 TATTCAAGAA
24632654 TTTTCTCTTGAG
1 TTTTCTCTTGAG
24632666 TTTTCTCTTGAG
1 TTTTCTCTTGAG
24632678 TTTTCT
1 TTTTCT
24632684 TTAGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.13, T:0.63
Consensus pattern (12 bp):
TTTTCTCTTGAG
Found at i:24634021 original size:23 final size:23
Alignment explanation
Indices: 24633995--24634049 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
24633985 TGCGGAACAA
*
24633995 TCACTTTCAAATGCACCGCAGTG
1 TCACTTTCAAATGCACCGAAGTG
* **
24634018 TCACTATCAGTTGCACCGAAGTG
1 TCACTTTCAAATGCACCGAAGTG
*
24634041 CCACTTTCA
1 TCACTTTCA
24634050 CTTGTTTGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (23 bp):
TCACTTTCAAATGCACCGAAGTG
Found at i:24634059 original size:27 final size:27
Alignment explanation
Indices: 24634028--24634101 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
24634018 TCACTATCAG
*
24634028 TTGCACCGAAGTGCCACTTTCACTTGT-
1 TTGCATCGAAGTGCCACTTTCACTT-TA
*
24634055 TTGCATCAAAGTGCCACTTTCACTTTA
1 TTGCATCGAAGTGCCACTTTCACTTTA
*
24634082 TTGCATCGAAGTACCACTTT
1 TTGCATCGAAGTGCCACTTT
24634102 TCATTCATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (27 bp):
TTGCATCGAAGTGCCACTTTCACTTTA
Found at i:24639385 original size:15 final size:15
Alignment explanation
Indices: 24639365--24639394 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24639355 TTAATACTAT
24639365 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
24639380 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
24639395 AAGGTAATTT
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:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (15 bp):
TGACAAGAAAGAAAA
Found at i:24650719 original size:12 final size:13
Alignment explanation
Indices: 24650693--24650724 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24650683 CTAAACCCAA
24650693 TTTA-CTATTGAC
1 TTTAGCTATTGAC
24650705 TTTAGCTATTG-C
1 TTTAGCTATTGAC
24650717 TTTAGCTA
1 TTTAGCTA
24650725 CTTTGGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (13 bp):
TTTAGCTATTGAC
Found at i:24652038 original size:20 final size:20
Alignment explanation
Indices: 24652013--24652052 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24652003 CGGAAAATAA
*
24652013 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
24652033 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24652053 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24652248 original size:22 final size:24
Alignment explanation
Indices: 24652223--24652273 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
24652213 TTATTTATAA
24652223 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
24652243 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
24652269 ATAAA
1 ATAAA
24652274 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:24661420 original size:4 final size:4
Alignment explanation
Indices: 24661411--24661443 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
24661401 TACTAATAAT
24661411 AATA AATA AA-A AA-A AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT
24661444 CATGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 6 0.21
4 22 0.79
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:24665803 original size:23 final size:23
Alignment explanation
Indices: 24665776--24665851 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
24665766 AGTGTTATTG
*
24665776 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
24665799 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24665822 ATCAGTGGTAGCTTCGGCTGCAT
1 ATCAGTGGTAGCTTCGGCTACAT
24665845 ATCAGTG
1 ATCAGTG
24665852 TGGCACTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24674393 original size:26 final size:27
Alignment explanation
Indices: 24674301--24674632 Score: 292
Period size: 27 Copynumber: 12.6 Consensus size: 27
24674291 ATTCGTGGGC
* *
24674301 AAATGACCAAAATACCC-CTGAAGAGTA
1 AAATTACCAAAATACCCTC-GAAGGGTA
* * *
24674328 AAATTACCAAAATACCC-CTAAAAGGCA
1 AAATTACCAAAATACCCTC-GAAGGGTA
* * * * *
24674355 AATTTATCGAAATACCCTTGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
24674382 AAATTA-CAAAATGCCC-CGAAGGGT-
1 AAATTACCAAAATACCCTCGAAGGGTA
*
24674406 AAATTACCAAAATACCCTCGATGGGT-
1 AAATTACCAAAATACCCTCGAAGGGTA
* * *
24674432 AAATTATCAAAATACCCTTGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* * *
24674459 AAATTATCGAAATACCCTCAAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
24674486 AAATTACC-AAATACCCTC-AATGGGTA
1 AAATTACCAAAATACCCTCGAA-GGGTA
*
24674512 AAATTACTAAAATACCC-CG-AGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* *
24674537 AAATTA-CTAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* **
24674563 AAATCA-TGAAATACCCTCGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* * * *
24674589 AAATGACTAAAATACCCCCAAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
24674616 AAATAACCAAAATACCC
1 AAATTACCAAAATACCC
24674633 CTGGGGTAAA
Statistics
Matches: 254, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
24 14 0.06
25 30 0.12
26 95 0.37
27 115 0.45
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGAAGGGTA
Found at i:24674487 original size:104 final size:103
Alignment explanation
Indices: 24674358--24674647 Score: 358
Period size: 104 Copynumber: 2.8 Consensus size: 103
24674348 AAAGGCAAAT
* * *
24674358 TTATCGAAATACCCTTGATGGGTAAAATTACAAAATGCCCCGAAGGGT-AAATTACCAAAATACC
1 TTATCGAAATACCCTCGAAGGGTAAAATTACAAAATACCCC-AAGGGTAAAATTACCAAAATACC
*
24674422 CTCGATGGGTAAATTATCAAAATACCCTTGATGGGTAAAA
65 C-CGATGGGTAAATTATCAAAATACCCTCGATGGGTAAAA
* * *
24674462 TTATCGAAATACCCTCAAAGGGTAAAATTACCAAATACCCTCAATGGGTAAAATTACTAAAATAC
1 TTATCGAAATACCCTCGAAGGGTAAAATTACAAAATACCC-CAA-GGGTAAAATTACCAAAATAC
*
24674527 CCCGA-GGGTAAAATTA-CTAAATACCCTCGATGGGTAAAA
64 CCCGATGGGT-AAATTATCAAAATACCCTCGATGGGTAAAA
* * *
24674566 TCAT-GAAATACCCTCGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTAAAATAACCAAAATA
1 TTATCGAAATACCCTCGAAGGGTAAAATTAC-AAAATA-CCCC-AAGGGTAAAATTACCAAAATA
24674630 CCCC--TGGGGTAAATTATC
63 CCCCGAT-GGGTAAATTATC
24674648 GTTTTACCCC
Statistics
Matches: 162, Mismatches: 14, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
103 30 0.19
104 97 0.60
105 19 0.12
106 16 0.10
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (103 bp):
TTATCGAAATACCCTCGAAGGGTAAAATTACAAAATACCCCAAGGGTAAAATTACCAAAATACCC
CGATGGGTAAATTATCAAAATACCCTCGATGGGTAAAA
Found at i:24674553 original size:130 final size:126
Alignment explanation
Indices: 24674308--24674632 Score: 375
Period size: 130 Copynumber: 2.5 Consensus size: 126
24674298 GGCAAATGAC
* * * * * *
24674308 CAAAATACCCCTGAAGAGTAAAATTACCAAAATACCCCTAAAAGGCAAATTTATCGAAATACCCT
1 CAAAATACCCTTGAAGGGTAAAATTA-CAAAATACCCC-AAAGGGTAAAATTA-CCAAATACCCT
** *
24674373 TGATGGGTAAAATTACAAAATGCCCCGAAGGGTAAATTACCAAAATACCCTCGATGGGTAAATTA
63 CAATGGGTAAAATTACAAAATACCCCGAAGGGTAAATTACCAAAATACCCTCGATGGGTAAA--A
24674438 T
126 T
* *
24674439 CAAAATACCCTTGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACCAAATACCCTC
1 CAAAATACCCTTGAAGGGTAAAATTA-CAAAATACCC-CAAAGGGTAAAATTACCAAATACCCTC
*
24674504 AATGGGTAAAATTACTAAAATACCCCG-AGGGTAAAATTA-CTAAATACCCTCGATGGGTAAAAT
64 AATGGGTAAAATTAC-AAAATACCCCGAAGGGT-AAATTACCAAAATACCCTCGATGGGTAAAAT
* * *
24674567 CATGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTAAAATAACCAAAATACC
1 CA--AAATACCCTTGAAGGGTAAAATTAC-AAAATA-CCCCAAAGGGTAAAATTACC-AAATACC
24674632 C
61 C
24674633 CTGGGGTAAA
Statistics
Matches: 168, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
128 4 0.02
129 1 0.01
130 92 0.55
131 70 0.42
132 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (126 bp):
CAAAATACCCTTGAAGGGTAAAATTACAAAATACCCCAAAGGGTAAAATTACCAAATACCCTCAA
TGGGTAAAATTACAAAATACCCCGAAGGGTAAATTACCAAAATACCCTCGATGGGTAAAAT
Found at i:24674591 original size:77 final size:76
Alignment explanation
Indices: 24674364--24674632 Score: 260
Period size: 77 Copynumber: 3.4 Consensus size: 76
24674354 AAATTTATCG
* * * *
24674364 AAATACCCTTGATGGGTAAAATTACAAAATGCCC-CGAAGGGTAAATTACCAAAATACCCTCGAT
1 AAATACCC-CGATGGGTAAAATTACAAAATACCCTCGAAGGGTAAA--ATCAAAATACCCTCGAA
24674428 GGGT-AAATTA-TCA
63 GGGTAAAATTACT-A
* * * *
24674441 AAATACCCTTGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACCAAATACCCTC-A
1 AAATACCC-CGATGGGTAAAATTA-CAAAATACCCTCGAAGGGTAAAA-T-CAAAATACCCTCGA
24674505 ATGGGTAAAATTACTA
62 A-GGGTAAAATTACTA
* *
24674521 AAATACCCCGA-GGGTAAAATTACTAAATACCCTCGATGGGTAAAATCATGAAATACCCTCGAAG
1 AAATACCCCGATGGGTAAAATTACAAAATACCCTCGAAGGGTAAAATCA--AAATACCCTCGAAG
*
24674585 GGTAAAATGACTA
64 GGTAAAATTACTA
* * *
24674598 AAATACCCCCAAAGGGTAAAATAACCAAAATACCC
1 AAATA-CCCCGATGGGTAAAATTA-CAAAATACCC
24674633 CTGGGGTAAA
Statistics
Matches: 164, Mismatches: 15, Indels: 23
0.81 0.07 0.11
Matches are distributed among these distances:
75 1 0.01
76 1 0.01
77 73 0.45
78 27 0.16
79 37 0.23
80 24 0.15
81 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (76 bp):
AAATACCCCGATGGGTAAAATTACAAAATACCCTCGAAGGGTAAAATCAAAATACCCTCGAAGGG
TAAAATTACTA
Found at i:24681872 original size:40 final size:40
Alignment explanation
Indices: 24681814--24682047 Score: 211
Period size: 40 Copynumber: 5.9 Consensus size: 40
24681804 AAACGCACCT
*
24681814 AACAGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* ** *
24681854 AAGAGAAGCTTGTAAGAGCTGATCCAACCGAAACATGCCA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* * * * * * ***
24681894 AAAAGAAGCTCGTAAGAGTTTATCCAGCTGAAACAATTCA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* * *
24681934 AACAGAAGCTCACAAGAGCT-AGTCCAACCGAAACATGCTA
1 AACAGAAGCTCATAAGAGCTGA-TCCAACCGAAACACGCCA
** * * *
24681974 AGTAGAAGCTCATAAGAGCTGGTCCACCCAAAACACGCC-
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* * * *
24682013 AACAGAAGCTCGTAAGAGTTGATCTACCCGAAACA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACA
24682048 ATCCAAAAAA
Statistics
Matches: 153, Mismatches: 39, Indels: 5
0.78 0.20 0.03
Matches are distributed among these distances:
39 29 0.19
40 124 0.81
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (40 bp):
AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
Found at i:24688418 original size:51 final size:50
Alignment explanation
Indices: 24688351--24688544 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 50
24688341 CAATGATGTT
* * * *
24688351 CGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-TTACCATC
* * * * *
24688402 CGATACACGTAGTAGCCTGTACATAGTACTACACACGTGATCTAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCT-TACCATC
* * * * * *
24688453 CGGTACGCATAATAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTTACCA-TC
24688503 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
24688545 ATCACTTTCA
Statistics
Matches: 116, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 74 0.64
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTTACCATC
Found at i:24688539 original size:101 final size:101
Alignment explanation
Indices: 24688358--24688542 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
24688348 GTTCGGTTCA
* * *
24688358 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGTA
1 CATAATAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
24688423 CATAGTACTACACACGTGATCTAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCTAAACTATCCGGTACG
* * *
24688460 CATAATAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAATAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
24688524 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
24688543 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 32 0.42
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAATAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCTAAACTATCCGGTACG
Found at i:24691052 original size:18 final size:18
Alignment explanation
Indices: 24691029--24691063 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24691019 ACAATATGCA
24691029 AAACTACTTTTG-TGCTTG
1 AAACTA-TTTTGATGCTTG
24691047 AAACTATTTTGATGCTT
1 AAACTATTTTGATGCTT
24691064 ATTGTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (18 bp):
AAACTATTTTGATGCTTG
Found at i:24699182 original size:16 final size:16
Alignment explanation
Indices: 24699161--24699191 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24699151 AATTAAATTA
*
24699161 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
24699177 AATTAAATAATTTTC
1 AATTAAATAATTTTC
24699192 TCAACTCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:24707851 original size:30 final size:30
Alignment explanation
Indices: 24707815--24707875 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
24707805 AAATCTTTTC
24707815 ATATAATAGATTATAGTTGGAAGTAAACCA
1 ATATAATAGATTATAGTTGGAAGTAAACCA
24707845 ATATAATAGATTATAGTTGGAAGTAAACCA
1 ATATAATAGATTATAGTTGGAAGTAAACCA
24707875 A
1 A
24707876 CATTGTGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (30 bp):
ATATAATAGATTATAGTTGGAAGTAAACCA
Found at i:24720852 original size:19 final size:18
Alignment explanation
Indices: 24720809--24720852 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24720799 ATATTGTTGA
*
24720809 ATTTTT-TTATTTTAAAT
1 ATTTTTATTATTTTAAAG
*
24720826 ATTTTTATTATTTTTAAG
1 ATTTTTATTATTTTAAAG
24720844 ATTTATTAT
1 ATTT-TTAT
24720853 ATGGGTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTATTATTTTAAAG
Found at i:24721003 original size:15 final size:16
Alignment explanation
Indices: 24720983--24721017 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
24720973 AAAAAATCCA
24720983 ATTTTATAT-TAAATT
1 ATTTTATATCTAAATT
*
24720998 ATTTTATATCTATATT
1 ATTTTATATCTAAATT
24721014 ATTT
1 ATTT
24721018 ATAATGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTATATCTAAATT
Found at i:24721475 original size:21 final size:20
Alignment explanation
Indices: 24721419--24721476 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
24721409 GCTTTTTTAC
*
24721419 TATTATCTATTA-TATTATA
1 TATTATCTATAATTATTATA
*
24721438 T-TTATGT-TAATTAATTATA
1 TATTATCTATAATT-ATTATA
24721457 TATTATCTATAACTTATTAT
1 TATTATCTATAA-TTATTAT
24721477 GGTTGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.06
18 6 0.19
19 8 0.26
20 5 0.16
21 8 0.26
22 2 0.06
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTATCTATAATTATTATA
Found at i:24727553 original size:45 final size:45
Alignment explanation
Indices: 24727503--24728288 Score: 210
Period size: 44 Copynumber: 18.1 Consensus size: 45
24727493 ATTTCAAAGG
* * * *
24727503 GATAAGACTTGCGTT-CTTCATTTTGTTTCACTGCAACTTCA-GGA
1 GATAAGACTTGCGTTACTT-AGTCTGCTCCACTGCAACTTCAGGGA
*
24727547 GAATAAGACTTGCTTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
1 G-ATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * * * * **
24727593 GATAAGAC-T-AGATGC-GA-TATGCT-CTCTGCAACTTCAAAGA
1 GATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * *
24727633 GATAAGA-TCTGAGGTT--TT-GATCCGCTCCACTGTAACTTCAAGGA
1 GATAAGACT-TG-CGTTACTTAG-TCTGCTCCACTGCAACTTCAGGGA
* * * *
24727677 GATAGGA-TTGTCG--GCTTTAATCTGCTCGACTGCAACTTCAGGGA
1 GATAAGACTTG-CGTTAC-TTAGTCTGCTCCACTGCAACTTCAGGGA
* * * * * * *
24727721 GATATGAC-T-AGATGC-GA-TCTGCT-CTCTGCAACTTCAGAGA
1 GATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * *
24727761 GATAAGA-TCTGAGGTT--TTAATCCGCTCCACTGCAACTTCAGGGA
1 GATAAGACT-TG-CGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * *
24727805 GATAGGA-TTATCG--GCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 GATAAGACTT-GCGTTAC-TTAGTCTGCTCCACTGCAACTTCAGGGA
* * *
24727849 GATGAGATTTGCCATT--TTCAGTCTGC-CTCACTGCAACTTCA-GGA
1 GATAAGACTTG-CGTTACTT-AGTCTGCTC-CACTGCAACTTCAGGGA
* * * *
24727893 GGATAAAACTTGC-TTACGTAGTCTGCTCCACTGCAACCTCAAGGA
1 -GATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * * * * *
24727938 GATATGAC-T-AGATGC-GA-TCTGCT-CTCTGCAACTTCAGAGA
1 GATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * *
24727978 GATAAGA-TCTGAGGTT--TTAATCCGCTCCACTGCAACTTCAGGAA
1 GATAAGACT-TG-CGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * *
24728022 GATAGGA-TTGTCG--GCTTTAATCTGCTCCACTACAACTTCAGGGA
1 GATAAGACTTG-CGTTAC-TTAGTCTGCTCCACTGCAACTTCAGGGA
* * ** *
24728066 GATAAAATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTTA-GGA
1 GATAAGACTTGCGTTACTT-AGTCTGCTC-CACTGCAACTTCAGGGA
* * *
24728110 GGATAAGACTTGC-TTA-TGTAATCTGCTCCACTGCAACCTCAAGGA
1 -GATAAGACTTGCGTTACT-TAGTCTGCTCCACTGCAACTTCAGGGA
* * * * * * *
24728155 GATATGAC-T-AGATGC-GA-TCTGCT-CTCTGCAACTTCAGAGA
1 GATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * *
24728195 GATAAGA-TCTGAGGTT--TTAATCCGCTCCACTGTAACTTCAGGGA
1 GATAAGACT-TG-CGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
* * *
24728239 GATAGGA-TTATCG--ACTTTTAATCTGCTCCACTGCAACTTCAGGGA
1 GATAAGACTT-GCGTTAC--TTAGTCTGCTCCACTGCAACTTCAGGGA
24728284 GATAA
1 GATAA
24728289 AACTCAATTT
Statistics
Matches: 551, Mismatches: 116, Indels: 149
0.68 0.14 0.18
Matches are distributed among these distances:
40 79 0.14
41 27 0.05
42 8 0.01
43 46 0.08
44 245 0.44
45 139 0.25
46 7 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (45 bp):
GATAAGACTTGCGTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
Found at i:24727714 original size:44 final size:44
Alignment explanation
Indices: 24727618--24728288 Score: 289
Period size: 44 Copynumber: 15.5 Consensus size: 44
24727608 GATATGCTCT
* * * * *
24727618 CTGCAACTTCAAAGAGATAAGATCTG-AGGTTTTGATCCGCTCCA
1 CTGCAACTTCAAGGAGATAAGAT-TGTCGGCTTTAATCTGCTCCA
* * *
24727662 CTGTAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTGCTCGA
1 CTGCAACTTCAAGGAGATAAGATTGTCGGCTTTAATCTGCTCCA
* * * * *
24727706 CTGCAACTTCAGGGAGATATGACTAGAT--GC---GATCTGCT-CT
1 CTGCAACTTCAAGGAGATAAGA-TTG-TCGGCTTTAATCTGCTCCA
* * *
24727746 CTGCAACTTC-AGAGAGATAAGATCTG-AGGTTTTAATCCGCTCCA
1 CTGCAACTTCAAG-GAGATAAGAT-TGTCGGCTTTAATCTGCTCCA
* * *
24727790 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAAGGAGATAAGATTGTCGGCTTTAATCTGCTCCA
* * * *
24727834 CTGCAACTTCAGGGAGATGAGATT-T-GCCATTTTCAGTCTGC-CTCA
1 CTGCAACTTCAAGGAGATAAGATTGTCGGC--TTT-AATCTGCTC-CA
* * *
24727879 CTGCAACTTC-AGGAGGATAAAACT-T--GCTTACGTAGTCTGCTCCA
1 CTGCAACTTCAAGGA-GATAAGATTGTCGGCTT---TAATCTGCTCCA
* * * * *
24727923 CTGCAACCTCAAGGAGATATGACTAGAT--GC---GATCTGCT-CT
1 CTGCAACTTCAAGGAGATAAGA-TTG-TCGGCTTTAATCTGCTCCA
* * *
24727963 CTGCAACTTC-AGAGAGATAAGATCTG-AGGTTTTAATCCGCTCCA
1 CTGCAACTTCAAG-GAGATAAGAT-TGTCGGCTTTAATCTGCTCCA
*
24728007 CTGCAACTTC-AGGAAGATAGGATTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAAGG-AGATAAGATTGTCGGCTTTAATCTGCTCCA
* * * * ** * *
24728051 CTACAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGC-CTCA
1 CTGCAACTTCAAGGAGATAAGA-TTGTCGGCTTTAATCTGCTC-CA
* *** *
24728096 CTGCAACTT-TAGGAGGATAAGACTTG-CTTATGTAATCTGCTCCA
1 CTGCAACTTCAAGGA-GATAAGA-TTGTCGGCTTTAATCTGCTCCA
* * * * *
24728140 CTGCAACCTCAAGGAGATATGACTAGAT--GC---GATCTGCT-CT
1 CTGCAACTTCAAGGAGATAAGA-TTG-TCGGCTTTAATCTGCTCCA
* * *
24728180 CTGCAACTTC-AGAGAGATAAGATCTG-AGGTTTTAATCCGCTCCA
1 CTGCAACTTCAAG-GAGATAAGAT-TGTCGGCTTTAATCTGCTCCA
* * * * *
24728224 CTGTAACTTCAGGGAGATAGGATTATCGACTTTTAATCTGCTCCA
1 CTGCAACTTCAAGGAGATAAGATTGTCGGC-TTTAATCTGCTCCA
*
24728269 CTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAAGGAGATAA
24728289 AACTCAATTT
Statistics
Matches: 472, Mismatches: 100, Indels: 109
0.69 0.15 0.16
Matches are distributed among these distances:
39 8 0.02
40 60 0.13
41 20 0.04
42 4 0.01
43 26 0.06
44 245 0.52
45 105 0.22
46 1 0.00
47 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAAGGAGATAAGATTGTCGGCTTTAATCTGCTCCA
Found at i:24727730 original size:128 final size:128
Alignment explanation
Indices: 24727569--24727851 Score: 494
Period size: 128 Copynumber: 2.2 Consensus size: 128
24727559 CTTTACTTAG
24727569 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAAAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAAAGAG
* * *
24727634 ATAAGATCTGAGGTTTTGATCCGCTCCACTGTAACTTCAAGGAGATAGGATTGTCGGCTTTAA
66 ATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAA
* * * *
24727697 TCTGCTCGACTGCAACTTCAGGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAAAGAG
*
24727762 ATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 ATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAA
24727825 TCTGCTCCACTGCAACTTCAGGGAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGAT
24727852 GAGATTTGCC
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 146 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (128 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAAAGAG
ATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAA
Found at i:24727941 original size:217 final size:217
Alignment explanation
Indices: 24727694--24728290 Score: 1050
Period size: 217 Copynumber: 2.7 Consensus size: 217
24727684 TTGTCGGCTT
* * *
24727694 TAATCTGCTCGACTGCAACTTCAGGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
1 TAATCTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
24727759 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
66 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
* * *
24727824 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCATTTTCAGTCTGCCTCACTGCAACTTC
131 ATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
24727889 AGGAGGATAAAACTTGCTTACG
196 AGGAGGATAAAACTTGCTTACG
*
24727911 TAGTCTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
1 TAATCTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* *
24727976 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGTCGGCTTTA
66 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
* *
24728041 ATCTGCTCCACTACAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCACTGCAACTTT
131 ATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
* *
24728106 AGGAGGATAAGACTTGCTTATG
196 AGGAGGATAAAACTTGCTTACG
24728128 TAATCTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
1 TAATCTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* *
24728193 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGACTTTT
66 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC-TTT
24728258 AATCTGCTCCACTGCAACTTCAGGGAGATAAAA
130 AATCTGCTCCACTGCAACTTCAGGGAGATAAAA
24728291 CTCAATTTGT
Statistics
Matches: 360, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
217 325 0.90
218 35 0.10
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (217 bp):
TAATCTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
ATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
AGGAGGATAAAACTTGCTTACG
Found at i:24739738 original size:66 final size:66
Alignment explanation
Indices: 24739594--24739727 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
24739584 CTCGTATAAT
24739594 AAAAAAATTAAAAGAATATCCATTTATCCAAGATTTAAGAAATCGCGGCGCAATACGTTAGGGCA
1 AAAAAAATTAAAAGAATATCCATTTATCCAAGATTTAAGAAATCGCGGCGCAATACGTTAGGGCA
24739659 C
66 C
24739660 AAAAAAATTAAAAGAATATCCATTTATCCAAGATTTAAGAAATCGCGGCGCAATACGTTAGGGCA
1 AAAAAAATTAAAAGAATATCCATTTATCCAAGATTTAAGAAATCGCGGCGCAATACGTTAGGGCA
24739725 C
66 C
24739726 AA
1 AA
24739728 TTCCTTTAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (66 bp):
AAAAAAATTAAAAGAATATCCATTTATCCAAGATTTAAGAAATCGCGGCGCAATACGTTAGGGCA
C
Found at i:24747666 original size:50 final size:50
Alignment explanation
Indices: 24747602--24748166 Score: 404
Period size: 50 Copynumber: 11.3 Consensus size: 50
24747592 AGATTCGCCA
* * ***
24747602 TTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTTGTTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
* * ** * * * *
24747652 TTGTGGCTTTAATCTATTCCACTACACTGCCTGGGAAGTAAGATTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
* * * * * * **
24747702 TTGTAGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCATGATTCGCCA
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
* * * * ** * **** *
24747752 TTCTGGCTTCAATCTGTTCCACTACACCACCTGGGAAGTAAGATTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
* *
24747802 TTGTAGCTTTAATCTTTTTAACTGCAATGT-TGGGGAAGCAAGATTCGCCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCT-GGGAAGCAAGATTCACTG
* * ** * ** * * *
24747852 TTGTGGCTTTAATCTGTTCCACCGCACCGCCTGGGAAGTAAGATTCACTA
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
*
24747902 TTGTAGCTTTAATCTTTTTAACTGCAATGTC-GAGGAAGCAATATTCA-TCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTG-GGAAGCAAGATTCACT-G
* * ** * ** *
24747952 TTGTGGCTTTAATCTGTTCCACTACACCG-CTTGGGAAGTAAGATTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTC-TGGGAAGCAAGATTCACTG
* *
24748002 TTGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
* * ** * ** *
24748052 TTGTGGCTTTAATCTATTCCACTGC-ATCGCCTGGGAAATAAGATTCGCTG
1 TTGTAGCTTTAATCTTTTTAACTGCAAT-GTCTGGGAAGCAAGATTCACTG
* * * *
24748102 TTGTAGCTTTAATCTTTTTAGCTACAAT-TTTGGGGAAGCAAGATTCGCTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCT-GGGAAGCAAGATTCACTG
* *
24748152 TTGTGGCTTCAATCT
1 TTGTAGCTTTAATCT
24748167 GTTCCACTGC
Statistics
Matches: 379, Mismatches: 125, Indels: 22
0.72 0.24 0.04
Matches are distributed among these distances:
49 7 0.02
50 366 0.97
51 6 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (50 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTCTGGGAAGCAAGATTCACTG
Found at i:24748195 original size:100 final size:100
Alignment explanation
Indices: 24747587--24748184 Score: 820
Period size: 100 Copynumber: 6.0 Consensus size: 100
24747577 AACTTTTGGA
* ** * * * *
24747587 AAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTTGTTG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTG
* *
24747652 TTGTGGCTTTAATCTATTCCACTACACTGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * * **
24747687 AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCATGATTCGCCA
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTG
* * *
24747752 TTCTGGCTTCAATCTGTTCCACTACACCACCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* *
24747787 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTG
**
24747852 TTGTGGCTTTAATCTGTTCCACCGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * *
24747887 AAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAATATTC-ATC
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCT-
*
24747951 GTTGTGGCTTTAATCTGTTCCACTACACCGCTTGGG
65 GTTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* *
24747987 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACTG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTG
* * *
24748052 TTGTGGCTTTAATCTATTCCACTGCATCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
* * * * * *
24748087 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAGCTACAATTTTGGGGAAGCAAGATTCGCTG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTG
* *
24748152 TTGTGGCTTCAATCTGTTCCACTGCACCGCCTG
66 TTGTGGCTTTAATCTGTTCCACTACACCGCCTG
24748185 TGAGATAAGA
Statistics
Matches: 441, Mismatches: 55, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
100 440 1.00
101 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (100 bp):
AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTG
TTGTGGCTTTAATCTGTTCCACTACACCGCCTGGG
Found at i:24748427 original size:44 final size:43
Alignment explanation
Indices: 24748379--24748502 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
24748369 ATCTATGATT
*
24748379 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTTACCATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCA-CATC
* * * * *
24748423 TTCAACCTATTCCACTGCTGACCAGGGAAATAGGACTCACATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACATC
* *
24748466 TTCAATCTATTCCACTGCTACCTAGGGAGATAGAATT
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
24748503 GGTATCTTCG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 34 0.51
44 33 0.49
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (43 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACATC
Found at i:24748480 original size:43 final size:44
Alignment explanation
Indices: 24748379--24748500 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
24748369 ATCTATGATT
* * *
24748379 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTTACCATC
1 TTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTCACCATC
* * *
24748423 TTCAACCTATTCCACTGCTGACCAGGGAAATAGGACTCA-CATC
1 TTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTCACCATC
24748466 TTCAATCTATTCCACTGCT-ACCTAGGGAGATAGAA
1 TTCAATCTATTCCACTGCTGACC-AGGGAGATAGAA
24748501 TTGGTATCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.04
43 32 0.47
44 33 0.49
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
TTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTCACCATC
Found at i:24748582 original size:88 final size:88
Alignment explanation
Indices: 24748502--24748692 Score: 222
Period size: 88 Copynumber: 2.2 Consensus size: 88
24748492 GAGATAGAAT
* * * * *
24748502 TGGTATCTTCGATCTGCTTCGCTGTCTA-TGCAAGAAGGCAAGATCTGTTATCTTCAACCTGCTC
1 TGGTACCTTCGATCTACTTCACTGT-TAGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
24748566 TGCTGCAACCCAGGGAGGCAAGGC
65 TACTGCAACCCAGGGAGGCAAGAC
* * *
24748590 TGGTGCCTTCGATCTACTTCACTGTTAGTACAAGAAGGCAAGATCTGCTGTTTTCAACCTGCTCT
1 TGGTACCTTCGATCTACTTCACTGTTAGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCT
* * * *
24748655 ACTGCAAACCAGAGAGGTAAGGC
66 ACTGCAACCCAGGGAGGCAAGAC
* *
24748678 TGGGATCTTCGATCT
1 TGGTACCTTCGATCT
24748693 GCTCTGCTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 2 0.02
88 85 0.98
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (88 bp):
TGGTACCTTCGATCTACTTCACTGTTAGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCT
ACTGCAACCCAGGGAGGCAAGAC
Found at i:24748874 original size:44 final size:43
Alignment explanation
Indices: 24748699--24749141 Score: 130
Period size: 44 Copynumber: 10.1 Consensus size: 43
24748689 ATCTGCTCTG
*
24748699 CTACTGCTTAGGGAGATAAGATCTGTAATTTTTAATCTATTCCA
1 CTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAATCTATTCCA
* ** * * *
24748743 CTGCTGCCCAGGGAGAT-AGAAC--TAATGGCTTAAATCTGCTTCC-
1 CTACTGCTTAGGGAGATAAGATCTGTAAT---TTCAATCT-ATTCCA
* * * * **
24748786 CTACT-CCTGGGGAAGATAAGATTCACTGT--CTTCGATCTGCTCCA
1 CTACTGCTTAGGG-AGATAAGA-T--CTGTAATTTCAATCTATTCCA
*
24748830 CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCA
1 CTACTGCTTAGGGAGATAAGATCTGTAATTT-CAATCTATTCCA
* * * * *** * *
24748874 CTGCTAAC-CAGGGAGATAGGA-CTTGTGGCTTAAATCTGCTTCC-
1 CTACT-GCTTAGGGAGATAAGATC-TGTAATTTCAATCT-ATTCCA
* ** * **
24748917 CTACT-CTTGGGGAAGATAAGAT-TCGTCGTCTTCATTCTGCTCCA
1 CTACTGCTTAGGG-AGATAAGATCT-GTAAT-TTCAATCTATTCCA
*
24748961 CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCA
1 CTACTGCTTAGGGAGATAAGATCTGTAATTT-CAATCTATTCCA
* * * * *** * *
24749005 CAATTGGC-CAGGGAGATAGGA-CTTGTGGCTTAAATCTGCTTCC-
1 CTACT-GCTTAGGGAGATAAGATC-TGTAATTTCAATCT-ATTCCA
* * * **
24749048 CTACT-CCTAGGGAAGATAAGATTCGCTGT--CTTCGATCTGCTCCA
1 CTACTGCTTAGGG-AGATAAGA-T--CTGTAATTTCAATCTATTCCA
*
24749092 CTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCA
1 CTACTGCTTAGGGAGATAAGATCTGTAATTT-CAATCTATTCCA
24749136 CTACTG
1 CTACTG
24749142 ACCAGGGAGA
Statistics
Matches: 284, Mismatches: 73, Indels: 84
0.64 0.17 0.19
Matches are distributed among these distances:
40 1 0.00
41 13 0.05
42 13 0.05
43 70 0.25
44 160 0.56
45 21 0.07
46 3 0.01
47 2 0.01
49 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTCAATCTATTCCA
Found at i:24749176 original size:131 final size:131
Alignment explanation
Indices: 24748683--24749160 Score: 753
Period size: 131 Copynumber: 3.6 Consensus size: 131
24748673 AAGGCTGGGA
** ** * *
24748683 TCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTGTAATTTTTAATCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACT
* * * *
24748748 GCCCAGGGAGATAGAACTAATGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACT
66 GACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCT
24748813 G
131 G
*
24748814 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACT
* * *
24748879 AACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCG-T
66 GACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCT
24748943 CG
131 -G
* *
24748945 TCTTC-ATTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACAAT
1 TCTTCGA-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTAC
* * *
24749009 TGGCCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGC
65 TGACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGC
24749074 TG
130 TG
24749076 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACT
24749141 GACCAGGGAGATAGGACTAG
66 GACCAGGGAGATAGGACTAG
24749161 GGTTGTCGAT
Statistics
Matches: 320, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
130 2 0.01
131 316 0.99
132 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACT
GACCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCT
G
Found at i:24751501 original size:7 final size:7
Alignment explanation
Indices: 24751484--24751513 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
24751474 TGGCCTCTCA
24751484 TTTTC-T
1 TTTTCTT
24751490 TTTTCTT
1 TTTTCTT
24751497 TTTTCTT
1 TTTTCTT
24751504 TTTTCTT
1 TTTTCTT
24751511 TTT
1 TTT
24751514 ATCATTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:24751558 original size:22 final size:22
Alignment explanation
Indices: 24751526--24751581 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
24751516 CATTTTCATA
24751526 TTTTTTA-TTTTGACTT-TAATT
1 TTTTTTATTTTTG-CTTCTAATT
*
24751547 TTTTTTATTTTTGCTTCTGATT
1 TTTTTTATTTTTGCTTCTAATT
*
24751569 TTGTTTTTTTTTT
1 TT-TTTTATTTTT
24751582 CGTTTTTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 10 0.33
22 11 0.37
23 9 0.30
ACGTcount: A:0.11, C:0.05, G:0.07, T:0.77
Consensus pattern (22 bp):
TTTTTTATTTTTGCTTCTAATT
Found at i:24752671 original size:25 final size:25
Alignment explanation
Indices: 24752621--24752671 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
24752611 AGAAAATCCC
* *
24752621 AAAAGAATGAAAGAATAATTATTGA
1 AAAAGAATGAAAGAATAATAAATGA
24752646 AAAAGAATGAAAGAAT-ATAAAATGA
1 AAAAGAATGAAAGAATAAT-AAATGA
24752671 A
1 A
24752672 TGCAAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATAAATGA
Found at i:24755916 original size:11 final size:11
Alignment explanation
Indices: 24755866--24755918 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
24755856 ATGAAAGTTC
24755866 TAAAATA-AAT
1 TAAAATAGAAT
24755876 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
24755889 TCAAAATAGACT
1 T-AAAATAGAAT
*
24755901 CAAAATAGAAT
1 TAAAATAGAAT
24755912 TAAAATA
1 TAAAATA
24755919 ACCATTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:24759803 original size:20 final size:18
Alignment explanation
Indices: 24759762--24759807 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
24759752 CTCTTTCGCG
24759762 TTTCTTTTTTTTCTTCCC
1 TTTCTTTTTTTTCTTCCC
* *
24759780 TTTCTATTTTTCTTCTTTCT
1 TTTCT-TTTTT-TTCTTCCC
24759800 TTTCTTTT
1 TTTCTTTT
24759808 ACTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 8 0.33
20 11 0.46
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTTTTCTTCCC
Found at i:24762781 original size:18 final size:17
Alignment explanation
Indices: 24762747--24762821 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 17
24762737 AAAGACTTTT
*
24762747 AAATTTAAAATCA-ATAA
1 AAATTTAAAA-AATATAA
24762764 AAATTATAAAAAATATAA
1 AAATT-TAAAAAATATAA
*
24762782 TAATGTTAAAAAATATCATA
1 AAAT-TTAAAAAATAT-A-A
**
24762802 AAATTTTTAAAA-ATAA
1 AAATTTAAAAAATATAA
24762818 AAAT
1 AAAT
24762822 ATATCATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.10
17 7 0.15
18 24 0.50
19 8 0.17
20 4 0.08
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAATATAA
Found at i:24762813 original size:20 final size:19
Alignment explanation
Indices: 24762760--24762816 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
24762750 TTTAAAATCA
* *
24762760 ATAAAAATTATAAAAA-AT
1 ATAAAATTTTTAAAAATAT
* *
24762778 ATAATAATGTTAAAAAATAT
1 ATAA-AATTTTTAAAAATAT
24762798 CATAAAATTTTTAAAAATA
1 -ATAAAATTTTTAAAAATA
24762817 AAAATATATC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.13
19 8 0.27
20 14 0.47
21 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAAAATTTTTAAAAATAT
Found at i:24762820 original size:28 final size:28
Alignment explanation
Indices: 24762788--24762853 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
24762778 ATAATAATGT
24762788 TAAAAA-ATATCATAAAATTTTTAAAAA
1 TAAAAATATATCATAAAATTTTTAAAAA
24762815 TAAAAATATATCATAAAATTTTTAAAAA
1 TAAAAATATATCATAAAATTTTTAAAAA
24762843 TAAAAATATAT
1 TAAAAATATAT
24762854 ATATAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 6 0.16
28 32 0.84
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAAAATATATCATAAAATTTTTAAAAA
Found at i:24762960 original size:33 final size:32
Alignment explanation
Indices: 24762880--24762960 Score: 74
Period size: 33 Copynumber: 2.4 Consensus size: 32
24762870 AAAAAATTAT
* * *
24762880 AAAATATAGAAAATTATAAATATTATTATAGATG
1 AAAA-ATA-AAAATTATAAATAATATTAAAAATG
24762914 AAAAATAATAAATTATAAA-AATATTAAAAATTG
1 AAAAATAA-AAATTATAAATAATATTAAAAA-TG
*
24762947 AAAAAGTTAAAATT
1 AAAAA-TAAAAATT
24762961 CTTAAGATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 9 0.22
33 25 0.62
34 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (32 bp):
AAAAATAAAAATTATAAATAATATTAAAAATG
Found at i:24763107 original size:18 final size:19
Alignment explanation
Indices: 24763056--24763110 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
24763046 TGAAAAAAAT
*
24763056 AAAAATTATTAAAA-TAATG
1 AAAAA-TATAAAAATTAATG
* *
24763075 AAAATTATATAAATTAA-G
1 AAAAATATAAAAATTAATG
24763093 AAAAATATAAAAATTAAT
1 AAAAATATAAAAATTAAT
24763111 ATTGATTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATATAAAAATTAATG
Found at i:24765342 original size:14 final size:14
Alignment explanation
Indices: 24765319--24765366 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
24765309 AAAAATGTGA
*
24765319 TTGTTAGAATATGG
1 TTGTTGGAATATGG
* *
24765333 TTGTTGGAATCTGA
1 TTGTTGGAATATGG
* *
24765347 TTGTTGCAATAGGG
1 TTGTTGGAATATGG
24765361 TTGTTG
1 TTGTTG
24765367 AATTTTTTGG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (14 bp):
TTGTTGGAATATGG
Found at i:24770479 original size:18 final size:18
Alignment explanation
Indices: 24770456--24770490 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24770446 AAATACAAAG
24770456 GACTTGATAAGTGATTTA
1 GACTTGATAAGTGATTTA
24770474 GACTTGATAAGTGATTT
1 GACTTGATAAGTGATTT
24770491 TGTTGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (18 bp):
GACTTGATAAGTGATTTA
Found at i:24780520 original size:16 final size:16
Alignment explanation
Indices: 24780499--24780530 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24780489 TAAGTATGTG
24780499 GATTGGGGTTTTGATA
1 GATTGGGGTTTTGATA
*
24780515 GATTGGTGTTTTGATA
1 GATTGGGGTTTTGATA
24780531 CTTGGAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (16 bp):
GATTGGGGTTTTGATA
Found at i:24787124 original size:45 final size:45
Alignment explanation
Indices: 24787004--24787127 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 45
24786994 ATTCAAACGT
* * * *
24787004 GTAAGACCATAGCTGAAAGATATTGTGGCACCATGTCAGAAATGA
1 GTAAGACCATAGCTGAAAGATACTATGGCATCATATCAGAAATGA
* * * *
24787049 ATAAGACCATCGTTGAAAGACACTATGGCATCATATCAGAAATGA
1 GTAAGACCATAGCTGAAAGATACTATGGCATCATATCAGAAATGA
* *
24787094 GTAAGACCATGGCTGAAAGATGCTATGGCATCAT
1 GTAAGACCATAGCTGAAAGATACTATGGCATCAT
24787128 GGTAAATGGG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (45 bp):
GTAAGACCATAGCTGAAAGATACTATGGCATCATATCAGAAATGA
Found at i:24792348 original size:28 final size:28
Alignment explanation
Indices: 24792317--24792370 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
24792307 TGGTCATTAA
24792317 AATCTAACCATTACAATATGACCGTTGG
1 AATCTAACCATTACAATATGACCGTTGG
* * * *
24792345 AATCTGACCGTTGCAATATGGCCGTT
1 AATCTAACCATTACAATATGACCGTT
24792371 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (28 bp):
AATCTAACCATTACAATATGACCGTTGG
Found at i:24792369 original size:14 final size:14
Alignment explanation
Indices: 24792330--24792370 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
24792320 CTAACCATTA
24792330 CAATATGACCGTTG
1 CAATATGACCGTTG
* *
24792344 GAATCTGACCGTTG
1 CAATATGACCGTTG
*
24792358 CAATATGGCCGTT
1 CAATATGACCGTT
24792371 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (14 bp):
CAATATGACCGTTG
Found at i:24805782 original size:11 final size:11
Alignment explanation
Indices: 24805766--24805795 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24805756 TCTTTATAGC
*
24805766 TTTTTAGAATT
1 TTTTTAAAATT
24805777 TTTTTAAAATT
1 TTTTTAAAATT
24805788 TTTTTAAA
1 TTTTTAAA
24805796 TATATAAATT
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:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:24805859 original size:20 final size:20
Alignment explanation
Indices: 24805788--24805874 Score: 88
Period size: 20 Copynumber: 4.2 Consensus size: 20
24805778 TTTTAAAATT
24805788 TTTTTAAATATATAAATTTTAGAA
1 TTTTTAAA-A-AT-AATTTT-GAA
* *
24805812 TTTTCACAAAT-ATTTT-AA
1 TTTTTAAAAATAATTTTGAA
*
24805830 ATTTTAAAAATAATTTTGAA
1 TTTTTAAAAATAATTTTGAA
*
24805850 TTTTTTAAAATAATTTTGAA
1 TTTTTAAAAATAATTTTGAA
24805870 TTTTT
1 TTTTT
24805875 CTTTTTGTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 10 0.19
19 5 0.09
20 30 0.56
22 2 0.04
23 1 0.02
24 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATAATTTTGAA
Found at i:24808640 original size:10 final size:10
Alignment explanation
Indices: 24808607--24808678 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
24808597 AATTATATTT
*
24808607 TTTTCTATACA
1 TTTT-TATATA
24808618 TTTTTATGA-A
1 TTTTTAT-ATA
24808628 TTTTTATATA
1 TTTTTATATA
*
24808638 TTTATT-TCTA
1 TTT-TTATATA
24808648 TTTTTATATA
1 TTTTTATATA
24808658 -TTTTA-ATA
1 TTTTTATATA
* *
24808666 TGTGTATATA
1 TTTTTATATA
24808676 TTT
1 TTT
24808679 AACAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 11 0.22
10 29 0.58
11 7 0.14
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTTATATA
Found at i:24809544 original size:16 final size:16
Alignment explanation
Indices: 24809520--24809552 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24809510 AATAATAAAC
*
24809520 AACTTATTTAAATATT
1 AACTAATTTAAATATT
24809536 AACTAATTTAAATATT
1 AACTAATTTAAATATT
24809552 A
1 A
24809553 TTCAAATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AACTAATTTAAATATT
Found at i:24815284 original size:23 final size:24
Alignment explanation
Indices: 24815233--24815287 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
24815223 TTGAGATAAT
* *
24815233 TATATTATATTTAAATTTTTAAAA
1 TATATTAAATTCAAATTTTTAAAA
* *
24815257 AATATTAAATTCAAA-TTTTAGAA
1 TATATTAAATTCAAATTTTTAAAA
24815280 TATATTAA
1 TATATTAA
24815288 TAATATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TATATTAAATTCAAATTTTTAAAA
Found at i:24816063 original size:17 final size:17
Alignment explanation
Indices: 24816051--24816089 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
24816041 ATAGAAATTT
24816051 AAAAATTAAAGAAAGTA
1 AAAAATTAAAGAAAGTA
24816068 AAAAATTAAATAGAAAGTA
1 AAAAATT-AA-AGAAAGTA
24816087 AAA
1 AAA
24816090 GTAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 11 0.55
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAAATTAAAGAAAGTA
Found at i:24816084 original size:19 final size:18
Alignment explanation
Indices: 24816039--24816089 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
24816029 ATTTGACAAA
* *
24816039 TAATAGAAATTTAAAAAT
1 TAATAGAAAGTAAAAAAT
24816057 TAA-AGAAAGTAAAAAAT
1 TAATAGAAAGTAAAAAAT
24816074 TAAATAGAAAGTAAAA
1 T-AATAGAAAGTAAAA
24816090 GTAATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.45
18 5 0.17
19 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (18 bp):
TAATAGAAAGTAAAAAAT
Found at i:24816766 original size:3 final size:3
Alignment explanation
Indices: 24816758--24816786 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24816748 TATAATATCC
24816758 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
24816787 GCTGATAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:24817550 original size:78 final size:74
Alignment explanation
Indices: 24817414--24817557 Score: 177
Period size: 78 Copynumber: 1.9 Consensus size: 74
24817404 GGTTTATTAA
*
24817414 ATTAGGGTTTTGGTGTTTTATTTAATTTTAAGTGTTTATTAATTGGTGTTTTAAGGTTTTAGAAA
1 ATTAGGGTTTTGGTGTTTTATTTAATTTTAAGTGTTTATAAATTGGTGTTTTAAGGTTTT-GAAA
24817479 AATGGTTATT
65 AATGGTTATT
* *
24817489 ATTAGGGTTTTGG-GTTTTATTGTTAGGATTTTTAGTGTTTATAAATTAGG-G-TTTAGGGGTTT
1 ATTAGGGTTTTGGTGTTTTA-T-TTA--ATTTTAAGTGTTTATAAATT-GGTGTTTTA-AGGTTT
24817551 TGAAAAA
60 TGAAAAA
24817558 AAATTGATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
74 6 0.10
75 14 0.23
76 3 0.05
77 10 0.17
78 25 0.42
79 2 0.03
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (74 bp):
ATTAGGGTTTTGGTGTTTTATTTAATTTTAAGTGTTTATAAATTGGTGTTTTAAGGTTTTGAAAA
ATGGTTATT
Found at i:24817575 original size:26 final size:27
Alignment explanation
Indices: 24817545--24817612 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
24817535 TAGGGTTTAG
**
24817545 GGGTTTTGAAAAAAA-ATTGATGAGAT
1 GGGTTTTGAAAAAAATATTGACAAGAT
* *
24817571 GGGTTCTGAAAAATAATTTTGACAAGAT
1 GGGTTTTGAAAAA-AATATTGACAAGAT
24817599 GGGTTTTGAAAAAA
1 GGGTTTTGAAAAAA
24817613 TATCCCTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 12 0.34
27 3 0.09
28 20 0.57
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (27 bp):
GGGTTTTGAAAAAAATATTGACAAGAT
Found at i:24833693 original size:16 final size:16
Alignment explanation
Indices: 24833672--24833702 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24833662 CCAAACCTTG
24833672 TCGGCATTAAGTTATA
1 TCGGCATTAAGTTATA
24833688 TCGGCATTAAGTTAT
1 TCGGCATTAAGTTAT
24833703 CTTAATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (16 bp):
TCGGCATTAAGTTATA
Found at i:24836777 original size:43 final size:43
Alignment explanation
Indices: 24836628--24836792 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 43
24836618 AACTTGTACA
* * * * * * *
24836628 ATGCCAACGTCCTAGACGTGTTCTTACATGTAATCATATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
* *
24836671 ATGCC-ACTGTCTCAGACAG-GGTCTTACACG--AA-TCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAAT-CG
* * ** *
24836712 ATGCCGATGTCCTTGACATGGTCTTACACGTAAACACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
*
24836755 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
24836793 TATCAAAAAT
Statistics
Matches: 93, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.03
41 24 0.26
42 3 0.03
43 57 0.61
44 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
Found at i:24850339 original size:3 final size:3
Alignment explanation
Indices: 24850331--24850376 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
24850321 GATTGTATCC
*
24850331 TTA TTA TTA -TA TTA TTTA TTA TT- TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24850375 TT
1 TT
24850377 TTTTTTATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24850437 original size:25 final size:23
Alignment explanation
Indices: 24850397--24850465 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
24850387 ATATACACAC
24850397 GCAT-TTTTTTAT-AATATATAT
1 GCATATTTTTTATAAATATATAT
* *
24850418 GCATACATTTTTTATAAATACATGT
1 GCAT--ATTTTTTATAAATATATAT
* *
24850443 GCATATTTTATATATATATATAT
1 GCATATTTTTTATAAATATATAT
24850466 TATTATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.11
23 15 0.39
24 8 0.21
25 11 0.29
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (23 bp):
GCATATTTTTTATAAATATATAT
Found at i:24850989 original size:35 final size:35
Alignment explanation
Indices: 24850948--24851017 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
24850938 AATAATCGAG
24850948 AATATTTTTTTTAAAACACATAAATAAAAAATCAT
1 AATATTTTTTTTAAAACACATAAATAAAAAATCAT
*
24850983 AATATTTTTTTTAAAACGCATAAATAAAAAATCAT
1 AATATTTTTTTTAAAACACATAAATAAAAAATCAT
24851018 TTTCGAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (35 bp):
AATATTTTTTTTAAAACACATAAATAAAAAATCAT
Found at i:24857984 original size:27 final size:26
Alignment explanation
Indices: 24857948--24858011 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
24857938 ACACTTTTCG
* *
24857948 TATTCATTTTTGAGCCAGTAGTCTTT
1 TATTCTTTTTTGAGCAAGTAGTCTTT
* * * *
24857974 TCATTCTTTTTCGAGTAATTATTCTTT
1 T-ATTCTTTTTTGAGCAAGTAGTCTTT
24858001 TATTCTTTTTT
1 TATTCTTTTTT
24858012 CCACATCATT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.59
Consensus pattern (26 bp):
TATTCTTTTTTGAGCAAGTAGTCTTT
Found at i:24862941 original size:50 final size:50
Alignment explanation
Indices: 24862873--24862990 Score: 112
Period size: 50 Copynumber: 2.4 Consensus size: 50
24862863 AAGACACCAG
* * * * * * *
24862873 TCTTATCGCCTTGACGTTGTAATGGAATAGATTGAAGCTACAACGGCGAA
1 TCTTATCTCCCTGGCGTTGCAACGGAACAGATTGAAGCCACAACGGCGAA
* * ** *
24862923 TCTTA-CTTCCCTGGCGTTGCAGCGGAGCAGATTGAAGCCACAATTGTGAA
1 TCTTATC-TCCCTGGCGTTGCAACGGAACAGATTGAAGCCACAACGGCGAA
24862973 TCTTATCTCCCTGGCGTT
1 TCTTATCTCCCTGGCGTT
24862991 AAGGCTTGGA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
49 1 0.02
50 52 0.96
51 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (50 bp):
TCTTATCTCCCTGGCGTTGCAACGGAACAGATTGAAGCCACAACGGCGAA
Found at i:24863116 original size:50 final size:50
Alignment explanation
Indices: 24863059--24863343 Score: 219
Period size: 50 Copynumber: 5.7 Consensus size: 50
24863049 TTTGGCATTA
* *
24863059 TAGTGGAATAGATTGAAGCCACAACGGCGAATTTTACCTCCCTGGCGGTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTG
* * * * * *** * ****
24863109 TAGTGGAACAGATTAAAGTCACGACGGTGAATTTTGTTTCCCCGATATTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTG
* ** * *
24863159 CAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGGTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTG
* * * *** * * **
24863209 TAGTGGAACAGATTGAAGTCACGACGGTGAATCTTGTTTCCCCGACATTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTG
* ** * * *
24863259 CAGTTAAATAGATTGAAGCCACAACGGCGAATCTTACCTTCCTGGAGGTG
1 TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTG
* * *
24863309 TAGTGGAACAGATTGAAGTCACGACGACGAATCTT
1 TAGTGGAACAGATTGAAGCCACAACGGCGAATCTT
24863344 GTTTCCCTAA
Statistics
Matches: 166, Mismatches: 69, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
50 166 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (50 bp):
TAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTG
Found at i:24863238 original size:100 final size:100
Alignment explanation
Indices: 24863065--24863376 Score: 507
Period size: 100 Copynumber: 3.1 Consensus size: 100
24863055 ATTATAGTGG
* *
24863065 AATAGATTGAAGCCACAACGGCGAATTTTACCTCCCTGGCGGTGTAGTGGAACAGATTAAAGTCA
1 AATAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
* *
24863130 CGACGGTGAATTTTGTTTCCCCGATATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
*
24863165 AATAGATTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGGTGTAGTGGAACAGATTGAAGTCA
1 AATAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
24863230 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
24863265 AATAGATTGAAGCCACAACGGCGAATCTTACCTTCCTGGAGGTGTAGTGGAACAGATTGAAGTCA
1 AATAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
** **
24863330 CGACGACGAATCTTGTTTCCCTAACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
24863365 AACAAATTGAAG
1 AATAGATTGAAG
24863377 AAAATAATCT
Statistics
Matches: 198, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 198 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:24863374 original size:50 final size:50
Alignment explanation
Indices: 24863115--24863376 Score: 197
Period size: 50 Copynumber: 5.2 Consensus size: 50
24863105 GGTGTAGTGG
* * * * *
24863115 AACAGATTAAAGTCACGACGGTGAATTTTGTTTCCCCGATATTGCAGTTA
1 AACAGATTGAAGTCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTA
* * * *** ** * **
24863165 AATAGATTGAAGCCACAACGGCGAATCTTACCTCCCT-AGCGGTGTAGTGG
1 AACAGATTGAAGTCACGACGGCGAATCTTGTTTCCCTGA-CATTGCAGTTA
* *
24863215 AACAGATTGAAGTCACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
1 AACAGATTGAAGTCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTA
* * * ** ** * **
24863265 AATAGATTGAAGCCACAACGGCGAATCTTACCTT-CCTGGA-GGTGTAGTGG
1 AACAGATTGAAGTCACGACGGCGAATCTT-GTTTCCCT-GACATTGCAGTTA
* *
24863315 AACAGATTGAAGTCACGACGACGAATCTTGTTTCCCTAACATTGCAGTTA
1 AACAGATTGAAGTCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTA
*
24863365 AACAAATTGAAG
1 AACAGATTGAAG
24863377 AAAATAATCT
Statistics
Matches: 152, Mismatches: 54, Indels: 12
0.70 0.25 0.06
Matches are distributed among these distances:
49 4 0.03
50 143 0.94
51 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
AACAGATTGAAGTCACGACGGCGAATCTTGTTTCCCTGACATTGCAGTTA
Found at i:24863601 original size:41 final size:41
Alignment explanation
Indices: 24863501--24863607 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
24863491 TAAAGAAAAT
* * ** *
24863501 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAACATC
1 AATCTTATCTCTCTGAAGTTGCAGAAGAGCAGATCAACATC
* *
24863542 AGATCTTATCTCTTTGAAGTTGCAGAAGAGCAGATCGA-ATCC
1 A-ATCTTATCTCTCTGAAGTTGCAGAAGAGCAGATCAACAT-C
24863584 AATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCTCTGAAGTTGCAG
24863608 TGGAGTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 25 0.45
42 31 0.55
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (41 bp):
AATCTTATCTCTCTGAAGTTGCAGAAGAGCAGATCAACATC
Found at i:24863639 original size:127 final size:121
Alignment explanation
Indices: 24863367--24863700 Score: 397
Period size: 127 Copynumber: 2.7 Consensus size: 121
24863357 TGCAGTTAAA
*
24863367 CAAATTGAAGAAAATAA-TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATCAGATCTTA
1 CAAATTGAAGAAAATAATTC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAGATCTTA
* * * ** *
24863431 TTTCTCTAAAGTTGCAGATTGC--ATTCAGTCTTATCTCCCTGAAGTTGAAGTGAAG
65 TCTCTATGAAGTTGCAGAGAGCAGATTCAATCTTATCTCCCTGAAGTTGAAGTGAAG
* * * *
24863486 CAGATTAAAGAAAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAACATCAGATCTTAT
1 CAAATTGAAGAAAATAATTCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAGATCTTAT
* * * *
24863551 CTCTTTGAAGTTGCAGAAGAGCAGATCGAATCCAATCTTATCTCTCTGAAGTTGCAGTGGAG
66 CTCTATGAAGTTGCAG-AGAGCAGAT----T-CAATCTTATCTCCCTGAAGTTGAAGTGAAG
* * * *
24863613 TAAATTGAAGAAAATAATTCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAAACGGATCTTAT
1 CAAATTGAAGAAAATAATTCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAGATCTTAT
24863678 CTCTATGAA-TTGCAGTAGAGCAG
66 CTCTATGAAGTTGCAG-AGAGCAG
24863701 GTCGCGTCAA
Statistics
Matches: 182, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
119 71 0.39
120 4 0.02
122 2 0.01
126 14 0.08
127 91 0.50
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (121 bp):
CAAATTGAAGAAAATAATTCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAGATCTTAT
CTCTATGAAGTTGCAGAGAGCAGATTCAATCTTATCTCCCTGAAGTTGAAGTGAAG
Found at i:24865009 original size:3 final size:3
Alignment explanation
Indices: 24865001--24865049 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
24864991 GATTGTATCC
* **
24865001 TTA TTA TTA -TA TTA TTTA TTA TTT TTA CCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24865046 TTA T
1 TTA T
24865050 ACATATATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:24865086 original size:21 final size:21
Alignment explanation
Indices: 24865062--24865126 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
24865052 ATATATACAC
24865062 GCATTTTTTTATAATATATAT
1 GCATTTTTTTATAATATATAT
* *
24865083 GCATACATTTTTTATAAATACATGT
1 GCAT---TTTTTTAT-AATATATAT
*
24865108 GCA-TATTTTAT-ATATATAT
1 GCATTTTTTTATAATATATAT
24865127 TTTATTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
19 6 0.17
21 11 0.31
24 8 0.23
25 10 0.29
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (21 bp):
GCATTTTTTTATAATATATAT
Found at i:24865102 original size:25 final size:24
Alignment explanation
Indices: 24865066--24865112 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
24865056 ATACACGCAT
*
24865066 TTTTTTATAATATATATGCATACA
1 TTTTTTATAATACATATGCATACA
*
24865090 TTTTTTATAAATACATGTGCATA
1 TTTTTTAT-AATACATATGCATA
24865113 TTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (24 bp):
TTTTTTATAATACATATGCATACA
Found at i:24865138 original size:11 final size:12
Alignment explanation
Indices: 24865110--24865143 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
24865100 ATACATGTGC
24865110 ATATTTTATATAT
1 ATATTTTAT-TAT
24865123 ATATTTTATTAT
1 ATATTTTATTAT
24865135 -TATTTTATT
1 ATATTTTATT
24865144 TTCATAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 3 0.14
13 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:24865457 original size:21 final size:21
Alignment explanation
Indices: 24865433--24865472 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24865423 CTGTTTTGTT
* *
24865433 CTGTTTTTTCTTTTCTTTTTA
1 CTGTTTTTTATTTTATTTTTA
24865454 CTGTTTTTTATTTTATTTT
1 CTGTTTTTTATTTTATTTT
24865473 CTTCCTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (21 bp):
CTGTTTTTTATTTTATTTTTA
Found at i:24866039 original size:20 final size:20
Alignment explanation
Indices: 24866011--24866050 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24866001 ATTTAAACTC
* *
24866011 CATTTATTTTTCAATTTAAT
1 CATTAATTTGTCAATTTAAT
*
24866031 CATTAATTTGTCATTTTAAT
1 CATTAATTTGTCAATTTAAT
24866051 TTTATAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (20 bp):
CATTAATTTGTCAATTTAAT
Found at i:24866104 original size:3 final size:3
Alignment explanation
Indices: 24866096--24866186 Score: 148
Period size: 3 Copynumber: 30.3 Consensus size: 3
24866086 GATTGTATCC
* *
24866096 TTA TTA TTA -TA TTA TTTA TTA TTT TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24866141 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24866187 ACATATACAC
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.02
3 77 0.94
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24869547 original size:24 final size:25
Alignment explanation
Indices: 24869490--24869548 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
24869480 ATGCATGCAT
* *
24869490 ATATATAAAAACAATGACAATAATA
1 ATATAGAAAAACAATGACAAAAATA
* *
24869515 ATA-AGAAAAATAATGATAAAAATA
1 ATATAGAAAAACAATGACAAAAATA
24869539 ATATA-AAAAA
1 ATATAGAAAAA
24869549 GACTAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (25 bp):
ATATAGAAAAACAATGACAAAAATA
Found at i:24877731 original size:3 final size:3
Alignment explanation
Indices: 24877725--24877819 Score: 77
Period size: 3 Copynumber: 30.7 Consensus size: 3
24877715 GTTAATTACT
* **
24877725 TTA TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA CCA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
24877771 TTA TTAA TCA TTA TTA GTT- TTA TTT TTC TT- TTA TTTA TTCA TTA TTA
1 TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA
24877818 TT
1 TT
24877820 GTGATAATAT
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.05
3 59 0.79
4 12 0.16
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:24877847 original size:15 final size:16
Alignment explanation
Indices: 24877827--24877860 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24877817 ATTGTGATAA
24877827 TATATTA-ATTAGTTT
1 TATATTATATTAGTTT
*
24877842 TATATTATTTTAGTTT
1 TATATTATATTAGTTT
24877858 TAT
1 TAT
24877861 TTTTATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATATTATATTAGTTT
Found at i:24880532 original size:20 final size:20
Alignment explanation
Indices: 24880503--24880546 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
24880493 GCCTAGGTCG
*
24880503 TGTGGAGGTCGACATGCCCA
1 TGTGGAGGTCGACACGCCCA
* *
24880523 TGTGGTGGTCTACACGCCCA
1 TGTGGAGGTCGACACGCCCA
24880543 TGTG
1 TGTG
24880547 CAAGCTGCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.25, G:0.34, T:0.25
Consensus pattern (20 bp):
TGTGGAGGTCGACACGCCCA
Found at i:24893776 original size:27 final size:27
Alignment explanation
Indices: 24893746--24893814 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
24893736 TTATTTTTTA
24893746 TTTTTTATTTTTTAATTTTAAAATACT
1 TTTTTTATTTTTTAATTTTAAAATACT
* *
24893773 TTTTTTA-TTTTTATTTTTAAAATATT
1 TTTTTTATTTTTTAATTTTAAAATACT
*
24893799 TTTTTGTATTTATTAA
1 TTTTT-TATTTTTTAA
24893815 AAAATAGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 22 0.61
27 9 0.25
28 5 0.14
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTTTTATTTTTTAATTTTAAAATACT
Found at i:24893783 original size:7 final size:7
Alignment explanation
Indices: 24893732--24893764 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
24893722 TAATAAATAT
24893732 TTTTTTA
1 TTTTTTA
24893739 TTTTTTA
1 TTTTTTA
24893746 TTTTTTA
1 TTTTTTA
24893753 TTTTTTA
1 TTTTTTA
*
24893760 ATTTT
1 TTTTT
24893765 AAAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:24895329 original size:19 final size:19
Alignment explanation
Indices: 24895301--24895347 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
24895291 CTTTTTTGAA
24895301 ATTTTAGAATTTTTATAAAT
1 ATTTT-GAATTTTTATAAAT
* *
24895321 ATTTTGAATTTTTTTAATT
1 ATTTTGAATTTTTATAAAT
*
24895340 TTTTTGAA
1 ATTTTGAA
24895348 GAGATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:24895334 original size:9 final size:9
Alignment explanation
Indices: 24895292--24895343 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
24895282 TTTATAATTC
24895292 TTTTTTGAA
1 TTTTTTGAA
* *
24895301 ATTTTAGAA
1 TTTTTTGAA
*
24895310 TTTTTATAAA
1 TTTTT-TGAA
*
24895320 TATTTTGAA
1 TTTTTTGAA
*
24895329 TTTTTTTAA
1 TTTTTTGAA
24895338 TTTTTT
1 TTTTTT
24895344 TGAAGAGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:24898812 original size:4 final size:4
Alignment explanation
Indices: 24898803--24898865 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
24898793 GAAGAGATAG
24898803 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
24898851 AGAT AGAT AGAT AGA
1 AGAT AGAT AGAT AGA
24898866 GAGAGAGAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:24898870 original size:2 final size:2
Alignment explanation
Indices: 24898863--24898917 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
24898853 ATAGATAGAT
24898863 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24898905 AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG
24898918 TTTTATATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24901990 original size:21 final size:21
Alignment explanation
Indices: 24901966--24902029 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
24901956 TTTTAGTAGC
24901966 TGAATTATGAATAGTTAGATT
1 TGAATTATGAATAGTTAGATT
* **
24901987 TGAA-AAT-TTTAG-TAG--T
1 TGAATTATGAATAGTTAGATT
24902003 TGAATTATGAATAGTTAGATT
1 TGAATTATGAATAGTTAGATT
24902024 TGAATT
1 TGAATT
24902030 CCAGTTTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 6 0.19
19 6 0.19
20 2 0.06
21 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (21 bp):
TGAATTATGAATAGTTAGATT
Found at i:24902025 original size:37 final size:37
Alignment explanation
Indices: 24901945--24902027 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
24901935 CTTCGATGGG
*
24901945 AGATTTAAAAATTTTAGTAGCTGAATTATGAATAGTT
1 AGATTTGAAAATTTTAGTAGCTGAATTATGAATAGTT
*
24901982 AGATTTGAAAATTTTAGTAGTTGAATTATGAATAGTT
1 AGATTTGAAAATTTTAGTAGCTGAATTATGAATAGTT
24902019 AGATTTGAA
1 AGATTTGAA
24902028 TTCCAGTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.41
Consensus pattern (37 bp):
AGATTTGAAAATTTTAGTAGCTGAATTATGAATAGTT
Found at i:24904531 original size:24 final size:24
Alignment explanation
Indices: 24904504--24904551 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24904494 TTATACTACA
24904504 CTTAATAACTTA-TGTAATAATTCT
1 CTTAATAACTTACT-TAATAATTCT
*
24904528 CTTAATAATTTACTTAATAATTCT
1 CTTAATAACTTACTTAATAATTCT
24904552 TTCTTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
CTTAATAACTTACTTAATAATTCT
Found at i:24904533 original size:12 final size:13
Alignment explanation
Indices: 24904518--24904551 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
24904508 ATAACTTATG
24904518 TAATAATTCT-CT
1 TAATAATTCTACT
24904530 TAATAATT-TACT
1 TAATAATTCTACT
24904542 TAATAATTCT
1 TAATAATTCT
24904552 TTCTTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAATTCTACT
Found at i:24906061 original size:108 final size:108
Alignment explanation
Indices: 24905872--24906080 Score: 400
Period size: 108 Copynumber: 1.9 Consensus size: 108
24905862 ACTGATTGAC
*
24905872 ATATCTAAATCAAGGTTACTAAGGTCTTTTAAATAGGCTTAGATTAGAGTTCTAATCATACTAAA
1 ATATCTAAATCAAGGTTACTAAGGCCTTTTAAATAGGCTTAGATTAGAGTTCTAATCATACTAAA
24905937 ATATCCATGAAATAATTAGAGTCCAACTGGGAGAATATCTAAA
66 ATATCCATGAAATAATTAGAGTCCAACTGGGAGAATATCTAAA
24905980 ATATCTAAATCAAGGTTACTAAGGCCTTTTAAATAGGCTTAGATTAGAGTTCTAATCATACTAAA
1 ATATCTAAATCAAGGTTACTAAGGCCTTTTAAATAGGCTTAGATTAGAGTTCTAATCATACTAAA
*
24906045 ATATCCATGAAATAATTAGAGTCCAATTGGGAGAAT
66 ATATCCATGAAATAATTAGAGTCCAACTGGGAGAAT
24906081 CAGTCTTGCT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 99 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (108 bp):
ATATCTAAATCAAGGTTACTAAGGCCTTTTAAATAGGCTTAGATTAGAGTTCTAATCATACTAAA
ATATCCATGAAATAATTAGAGTCCAACTGGGAGAATATCTAAA
Found at i:24910915 original size:3 final size:3
Alignment explanation
Indices: 24910907--24910938 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24910897 ATTTATCTTT
24910907 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
24910939 GTGCTCGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:24912509 original size:12 final size:13
Alignment explanation
Indices: 24912484--24912512 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24912474 ACGACAATTG
24912484 TAAATAAGATAAA
1 TAAATAAGATAAA
24912497 TAAATAA-ATAAA
1 TAAATAAGATAAA
24912509 TAAA
1 TAAA
24912513 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
TAAATAAGATAAA
Found at i:24912599 original size:16 final size:16
Alignment explanation
Indices: 24912573--24912624 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
24912563 AAAAAATACG
* *
24912573 AAAACATAAATCAACA
1 AAAAAATAAATAAACA
*
24912589 AACAAATAAATAAACA
1 AAAAAATAAATAAACA
*
24912605 AAAAAAT--ATAAAGA
1 AAAAAATAAATAAACA
24912619 AAAAAA
1 AAAAAA
24912625 AGTGCATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.39
16 19 0.61
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAAAATAAATAAACA
Found at i:24912853 original size:20 final size:20
Alignment explanation
Indices: 24912825--24912871 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
24912815 GATTGCATAT
*
24912825 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
24912845 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
24912865 ATATATA
1 ATATATA
24912872 CGTACATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:24912855 original size:102 final size:106
Alignment explanation
Indices: 24912720--24912933 Score: 319
Period size: 102 Copynumber: 2.0 Consensus size: 106
24912710 ATAAAGAAAA
*
24912720 ATATACATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACATATATATGT
1 ATATACATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACATATATATAT
* * * *
24912785 AA-GT-T-AATATATATAGACCATAAAGATAATGATTGCAT
66 AAGGTATAAATATATATAAACCATAAAAATAATAATTACAT
* *
24912823 ATATATATATAGAAATTAT-AAAATATGTATAGAAAGTATAATATATATACGTACATATATATAT
1 ATATACATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACATATATATAT
*
24912887 AAGGTAATAAATATATATAAATCATAAAAATAATAATTACAT
66 AAGGT-ATAAATATATATAAACCATAAAAATAATAATTACAT
24912929 ATATA
1 ATATA
24912934 AACTTAAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
102 45 0.45
103 20 0.20
105 1 0.01
106 33 0.33
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (106 bp):
ATATACATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATACGTACATATATATAT
AAGGTATAAATATATATAAACCATAAAAATAATAATTACAT
Done.