Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 72 of 444
Found at i:17070995 original size:21 final size:21
Alignment explanation
Indices: 17070971--17071024 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
17070961 AGTGTACGTA
*
17070971 ATAATAATAAATAAATAA-AAT
1 ATAATAATAAATAAA-AATAAC
17070992 ATAAT-ATATAATAAAAATAAC
1 ATAATAATA-AATAAAAATAAC
17071013 ATAATGAATAAA
1 ATAAT-AATAAA
17071025 ATATATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.18
21 18 0.64
22 2 0.07
23 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAATAATAAATAAAAATAAC
Found at i:17070997 original size:14 final size:14
Alignment explanation
Indices: 17070970--17071024 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
17070960 AAGTGTACGT
17070970 AATAATAATAAATA
1 AATAATAATAAATA
17070984 AATAA-AATATAATA
1 AATAATAATA-AATA
*
17070998 TATAATAA-AAATA
1 AATAATAATAAATA
17071011 ACATAATGAATAAA
1 A-ATAAT-AATAAA
17071025 ATATATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 8 0.24
14 19 0.56
15 4 0.12
16 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:17070997 original size:18 final size:17
Alignment explanation
Indices: 17070974--17071029 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
17070964 GTACGTAATA
17070974 ATAATAAATAAATAAAAT
1 ATAATAAAT-AATAAAAT
*
17070992 ATAATATATAATAAAA-
1 ATAATAAATAATAAAAT
*
17071008 ATAACATAATGAATAAAAT
1 ATAATA-AAT-AATAAAAT
17071027 ATA
1 ATA
17071030 TATTAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.16
17 9 0.28
18 15 0.47
19 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAATAAATAATAAAAT
Found at i:17071058 original size:32 final size:30
Alignment explanation
Indices: 17070971--17071046 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
17070961 AGTGTACGTA
*
17070971 ATAATAATAAATAA-ATAA--AATATAATAT
1 ATAATAA-AAATAACATAATGAATAAAATAT
17070999 ATAATAAAAATAACATAATGAATAAAATAT
1 ATAATAAAAATAACATAATGAATAAAATAT
*
17071029 AT-ATTAAAATAACATAAT
1 ATAATAAAAATAACATAAT
17071047 ATATGATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 6 0.14
28 11 0.26
29 15 0.35
30 11 0.26
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (30 bp):
ATAATAAAAATAACATAATGAATAAAATAT
Found at i:17071115 original size:14 final size:16
Alignment explanation
Indices: 17071094--17071126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17071084 AGATAAAAAA
17071094 TATATATAATAAT-TTT
1 TATATA-AATAATGTTT
17071110 TATATAAATAATGTTT
1 TATATAAATAATGTTT
17071126 T
1 T
17071127 TAGTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATAAATAATGTTT
Found at i:17071150 original size:15 final size:15
Alignment explanation
Indices: 17071130--17071179 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
17071120 ATGTTTTTAG
17071130 TAAAAATAAATAATA
1 TAAAAATAAATAATA
**
17071145 TAAAAATATTTAA-A
1 TAAAAATAAATAATA
* *
17071159 -ATAAATAAATTATA
1 TAAAAATAAATAATA
17071173 TAAAAAT
1 TAAAAAT
17071180 TTTAAAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
15 16 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAATAAATAATA
Found at i:17071187 original size:28 final size:28
Alignment explanation
Indices: 17071133--17071186 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
17071123 TTTTTAGTAA
17071133 AAATAAATAATATAAAAATATTTAAAAT
1 AAATAAATAATATAAAAATATTTAAAAT
*
17071161 AAATAAATTATATAAAAAT-TTTAAAA
1 AAATAAATAATATAAAAATATTTAAAA
17071187 AAGGACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATAAATAATATAAAAATATTTAAAAT
Found at i:17072798 original size:88 final size:88
Alignment explanation
Indices: 17072648--17073367 Score: 829
Period size: 88 Copynumber: 8.2 Consensus size: 88
17072638 CACCCCACCT
* * * * * * * *
17072648 AATACAGAGACGCCAAATCAACTATCTTCGATATGCTTTCTGTTAATATAGAAATGCTAGATGTG
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
*
17072713 CTTTCTTCGATCTGCTCTCTGTC
66 CTTTCTTCGATCTGCTCTCCGTC
* * * *
17072736 AATACAGAAATGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAAAGATGCCAGATGTG
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
17072801 CTTTCTTCGATCTGCTC-CCTGTC
66 CTTTCTTCGATCTGCTCTCC-GTC
*
17072824 TAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGAGGCCAGATGT
1 -AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGT
*
17072889 GCTTTCTTCGATTTGCTCTCCGTC
65 GCTTTCTTCGATCTGCTCTCCGTC
* * * * * *
17072913 AATACAGAGACGCCAAATCTGCT-TCTTCGATCTGCTTTCTGTTAATACAGAAATGCTAGATGTG
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
*
17072977 CTTTCTTCGATCTACTCTCCGTC
66 CTTTCTTCGATCTGCTCTCCGTC
*
17073000 AATACAGAAACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
*
17073065 CTTTCTTCGATCTGTTC-CCGTC
66 CTTTCTTCGATCTGCTCTCCGTC
* * ** * * *
17073087 AATACGGAGACGCCAGATGTGCTTTCTTCGATCTGCT-TCCCGTCTAATACAGAGACGCCAAAT-
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCT-CTGTC-AATACAGAGACGCCAGATG
* * *
17073150 TAGCTATCTTTGATCTGCTCTCTGTC
64 T-GCTTTCTTCGATCTGCTCTCCGTC
* ** * * * * * * **
17073176 AATACAGAGACGCCAGATGTGCTTTCTTCGATCTGCTCCCCGTCTAATACAGAGACACTAAATCA
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAGATGT
* *
17073241 ACTATCTTCGATCTGCTCTCCGTC
65 GCTTTCTTCGATCTGCTCTCCGTC
* * * **
17073265 AATACAGAGACGCCAAATCAGCTATCTTCGATCTACTTTCTGTCAATACAGAGACGCTAGATCAG
1 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
* * ** *
17073330 CTATCTTCGACCTGCTCTCTATA
66 CTTTCTTCGATCTGCTCTCCGTC
*
17073353 AATACAGAGATGCCA
1 AATACAGAGACGCCA
17073368 GATCTGTCAC
Statistics
Matches: 553, Mismatches: 69, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.00
87 120 0.22
88 231 0.42
89 199 0.36
90 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (88 bp):
AATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAGATGTG
CTTTCTTCGATCTGCTCTCCGTC
Found at i:17073371 original size:44 final size:44
Alignment explanation
Indices: 17072648--17073371 Score: 734
Period size: 44 Copynumber: 16.4 Consensus size: 44
17072638 CACCCCACCT
* * * * *
17072648 AATACAGAGACGCCAAATCAACTATCTTCGATATGCTTTCTGTT
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * * * ** *
17072692 AATATAGAAATGCTAGATGTGCTTTCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * *
17072736 AATACAGAAATGCCAAATCAGCTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * ** * *
17072780 AATACAAAGATGCCAGATGTGCTTTCTTCGATCTGCTCCCTGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
*
17072824 TAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTC
1 -AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* ** * * *
17072869 AATACAGAGAGGCCAGATGTGCTTTCTTCGATTTGCTCTCCGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * * *
17072913 AATACAGAGACGCCAAATCTGCT-TCTTCGATCTGCTTTCTGTT
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * * ** * * *
17072956 AATACAGAAATGCTAGATGTGCTTTCTTCGATCTACTCTCCGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* *
17073000 AATACAGAAACGCCAAATCAGCTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
** * * *
17073044 AATACAGAGACGCCAGATGTGCTTTCTTCGATCTGTTC-CCGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* ** * *
17073087 AATACGGAGACGCCAGATGTGCTTTCTTCGATCTGCT-TCCCGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCT-CTGTC
* * *
17073131 TAATACAGAGACGCCAAATTAGCTATCTTTGATCTGCTCTCTGTC
1 -AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
** * * *
17073176 AATACAGAGACGCCAGATGTGCTTTCTTCGATCTGCTCCCCGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * * * *
17073220 TAATACAGAGACACTAAATCAACTATCTTCGATCTGCTCTCCGTC
1 -AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * *
17073265 AATACAGAGACGCCAAATCAGCTATCTTCGATCTACTTTCTGTC
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
* * * *
17073309 AATACAGAGACGCTAGATCAGCTATCTTCGACCTGCTCTCTATA
1 AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
*
17073353 AATACAGAGATGCCAGATC
1 AATACAGAGACGCCAGATC
17073372 TGTCACCGGT
Statistics
Matches: 564, Mismatches: 109, Indels: 14
0.82 0.16 0.02
Matches are distributed among these distances:
43 73 0.13
44 382 0.68
45 108 0.19
46 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (44 bp):
AATACAGAGACGCCAGATCAGCTATCTTCGATCTGCTCTCTGTC
Found at i:17083987 original size:32 final size:32
Alignment explanation
Indices: 17083951--17084047 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
17083941 TGTATGCATT
17083951 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
17083983 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
17084015 TTAACATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
17084047 T
1 T
17084048 GATAAGCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:17088479 original size:14 final size:14
Alignment explanation
Indices: 17088460--17088539 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 14
17088450 AAAAGTGTAC
17088460 ATAATAATAAATAA
1 ATAATAATAAATAA
*
17088474 ATAATAATATAT-A
1 ATAATAATAAATAA
*
17088487 ATATATAATAAAAATA
1 ATA-ATAATAAATA-A
*
17088503 AT-ATAATGAATAAA
1 ATAATAATAAAT-AA
*
17088517 ATATATATTAAAATAA
1 ATA-ATAAT-AAATAA
17088533 CATAATA
1 -ATAATA
17088540 TATGATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 4 0.08
14 28 0.55
15 1 0.02
16 12 0.24
17 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (14 bp):
ATAATAATAAATAA
Found at i:17088482 original size:17 final size:17
Alignment explanation
Indices: 17088460--17088519 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
17088450 AAAAGTGTAC
17088460 ATAATAATAAATAAATA
1 ATAATAATAAATAAATA
17088477 ATAATATATAATATATAATA
1 ATAATA-ATAA-ATA-AATA
* *
17088497 AAAATAATATAATGAATA
1 ATAATAATA-AATAAATA
17088515 A-AATA
1 ATAATA
17088520 TATATTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 10 0.27
18 9 0.24
19 8 0.22
20 10 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAATAATAAATAAATA
Found at i:17088489 original size:21 final size:21
Alignment explanation
Indices: 17088463--17088547 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
17088453 AGTGTACATA
17088463 ATAATAAATAAATAATAATAT
1 ATAATAAATAAATAATAATAT
* *
17088484 ATAATATAT-AATAAAAATA-
1 ATAATAAATAAATAATAATAT
*
17088503 AT-AT-AATGAATAA-AATAT
1 ATAATAAATAAATAATAATAT
*
17088521 ATATTAAAATAACATAAT-ATAT
1 ATAAT-AAATAA-ATAATAATAT
17088543 GATAA
1 -ATAA
17088548 AATGTCTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
17 6 0.12
18 9 0.18
19 3 0.06
20 9 0.18
21 12 0.24
22 8 0.16
23 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATAAATAAATAATAATAT
Found at i:17088516 original size:18 final size:16
Alignment explanation
Indices: 17088469--17088549 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 16
17088459 CATAATAATA
* *
17088469 AATAAATAATAATATAT
1 AATATATAATAA-AAAT
17088486 AATATATAATAAAAAT
1 AATATATAATAAAAAT
17088502 AATATAATGAAT-AAAAT
1 AATAT-AT-AATAAAAAT
17088519 -ATATATTAA-AATAACAT
1 AATATA-TAATAA-AA-AT
*
17088536 AATATATGATAAAA
1 AATATATAATAAAA
17088550 TGTCTAATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
15 4 0.08
16 15 0.28
17 24 0.45
18 10 0.19
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (16 bp):
AATATATAATAAAAAT
Found at i:17088642 original size:15 final size:15
Alignment explanation
Indices: 17088622--17088671 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
17088612 ATGTTTTTAG
17088622 TAAAAATAAATAATA
1 TAAAAATAAATAATA
**
17088637 TAAAAATATTTAA-A
1 TAAAAATAAATAATA
* *
17088651 -ATAAATAAATTATA
1 TAAAAATAAATAATA
17088665 TAAAAAT
1 TAAAAAT
17088672 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
15 16 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAATAAATAATA
Found at i:17088657 original size:28 final size:28
Alignment explanation
Indices: 17088625--17088679 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
17088615 TTTTTAGTAA
17088625 AAATAAATAATATAAAAATATTTAAAAT
1 AAATAAATAATATAAAAATATTTAAAAT
* *
17088653 AAATAAATTATATAAAAATTTTTAAAA
1 AAATAAATAATATAAAAATATTTAAAA
17088680 AAGGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATAAATAATATAAAAATATTTAAAAT
Found at i:17090377 original size:29 final size:30
Alignment explanation
Indices: 17090319--17090378 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
17090309 ATCATCTCAT
*
17090319 ACATATATATCAAAATTATAATATAATATA
1 ACATATATATCAAAATTATAATACAATATA
17090349 ACATA-ATAT-AAATATTATAA-ACAATTATA
1 ACATATATATCAAA-ATTATAATACAA-TATA
17090378 A
1 A
17090379 AACAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.22
29 16 0.59
30 5 0.19
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (30 bp):
ACATATATATCAAAATTATAATACAATATA
Found at i:17090521 original size:39 final size:40
Alignment explanation
Indices: 17090463--17090553 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 40
17090453 TAAATGAAAT
* ** *
17090463 GCAAAATTACATATTTTTTCACCACAAGACATTTC-TTAG
1 GCAAAAATACATAGCTTTTCACCACAAGACATTACTTTAG
*
17090502 GCAAAAATACATAGCTTTTCGCCACAAGACATTACTTTAG
1 GCAAAAATACATAGCTTTTCACCACAAGACATTACTTTAG
17090542 G-AAAAATTACAT
1 GCAAAAA-TACAT
17090554 TTAGTTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 35 0.78
40 10 0.22
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (40 bp):
GCAAAAATACATAGCTTTTCACCACAAGACATTACTTTAG
Found at i:17093522 original size:27 final size:27
Alignment explanation
Indices: 17093472--17093630 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
17093462 GAGAGGCTGC
* * *
17093472 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGAGA
* *
17093499 AAGATATTGTGGCAGAGCCTCCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGAGA
17093525 CAGATATATGTGGCAGAGCCACCAG-GA
1 CAGATAT-TGTGGCAGAGCCACCAGAGA
*
17093552 CAGATAGTTGTGGCATAGCCACCAG-GA
1 CAGATA-TTGTGGCAGAGCCACCAGAGA
* *
17093579 CAGATATATGTGGCAGAGCCACTAGA-T
1 CAGATAT-TGTGGCAGAGCCACCAGAGA
*
17093606 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
17093631 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.07
27 101 0.89
28 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAGA
Found at i:17093631 original size:54 final size:54
Alignment explanation
Indices: 17093500--17093633 Score: 200
Period size: 54 Copynumber: 2.5 Consensus size: 54
17093490 CACCAGATAA
* * *
17093500 AGAT-ATTGTGGCAGAGCCTCCAGAACAGATATATGTGGCAGAGCCACCAGGAC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGGAC
* *
17093553 AGATAGTTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACTA-GATC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGGA-C
17093607 AGATAATTGTGGCATAGCCACCAGGAC
1 AGATAATTGTGGCATAGCCACCAGGAC
17093634 GCTTCCTCCA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
53 6 0.08
54 67 0.92
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (54 bp):
AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGGAC
Found at i:17096066 original size:68 final size:69
Alignment explanation
Indices: 17095949--17096077 Score: 201
Period size: 68 Copynumber: 1.9 Consensus size: 69
17095939 ACTTAATCAT
*
17095949 TTTAATATTAAATTAATATAATATTTATCACGATAAATATTAAATTAAATTTAATATTAAAATAA
1 TTTAATATTAAATTAATAAAATATTTATCACGATAAATATTAAATTAAATTTAATATTAAAATAA
17096014 TTAC
66 TTAC
*
17096018 TTTAATATTAAATTAATAAAATACTATT-T-A-GATAAGTATTAAATTAAATTTAATATTAAA
1 TTTAATATTAAATTAATAAAATA-T-TTATCACGATAAATATTAAATTAAATTTAATATTAAA
17096078 CTATTAAGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
68 29 0.52
69 23 0.41
70 2 0.04
71 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (69 bp):
TTTAATATTAAATTAATAAAATATTTATCACGATAAATATTAAATTAAATTTAATATTAAAATAA
TTAC
Found at i:17096081 original size:37 final size:36
Alignment explanation
Indices: 17095984--17096094 Score: 108
Period size: 37 Copynumber: 3.2 Consensus size: 36
17095974 TATCACGATA
* * **
17095984 AATATTAAATTAAATTTAATATTAAAATAATTACTTT
1 AATATTAAATTAAATTTAATATTAAACTATTTA-GAT
*
17096021 AATATTAAATT-AA--TAA-A--ATACTATTTAGAT
1 AATATTAAATTAAATTTAATATTAAACTATTTAGAT
*
17096051 AAGTATTAAATTAAATTTAATATTAAACTATTAAGAT
1 AA-TATTAAATTAAATTTAATATTAAACTATTTAGAT
17096088 AATATTA
1 AATATTA
17096095 TTTTTGGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
30 3 0.05
31 16 0.27
32 2 0.03
33 1 0.02
34 6 0.10
35 1 0.02
36 7 0.12
37 24 0.40
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (36 bp):
AATATTAAATTAAATTTAATATTAAACTATTTAGAT
Found at i:17098374 original size:23 final size:23
Alignment explanation
Indices: 17098342--17098394 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
17098332 TGTCTTGCGT
*
17098342 ACGGCCTGACCTTCGTCGATCAC
1 ACGGCCTGACCTTCATCGATCAC
* *
17098365 ACGGCTTGACCTTCATTGATCAC
1 ACGGCCTGACCTTCATCGATCAC
17098388 ACGGCCT
1 ACGGCCT
17098395 ACGACACGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.36, G:0.21, T:0.25
Consensus pattern (23 bp):
ACGGCCTGACCTTCATCGATCAC
Found at i:17099860 original size:15 final size:15
Alignment explanation
Indices: 17099836--17099866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17099826 TATGCATGTA
*
17099836 AAATATAAAAGACAT
1 AAATACAAAAGACAT
17099851 AAATACAAAAGACAT
1 AAATACAAAAGACAT
17099866 A
1 A
17099867 CTAATGAAAT
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:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:17102525 original size:2 final size:2
Alignment explanation
Indices: 17102518--17102542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17102508 TCAATTACAA
17102518 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17102543 ACTTCAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17104005 original size:22 final size:20
Alignment explanation
Indices: 17103956--17104005 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
17103946 GTTTCAATTC
*
17103956 ATTAATTATTTCAATTTGCA
1 ATTAATTGTTTCAATTTGCA
* *
17103976 ATTCATTGTGTTCAATTTATCA
1 ATTAATTGT-TTCAATTT-GCA
17103998 ATTAATTG
1 ATTAATTG
17104006 ATCAATTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 8 0.33
22 9 0.38
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (20 bp):
ATTAATTGTTTCAATTTGCA
Found at i:17106719 original size:26 final size:26
Alignment explanation
Indices: 17106690--17106761 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
17106680 TTTCATCCCT
* *
17106690 ATTTTACCCCAAGTAAAATTTTAATA
1 ATTTTACCCCTAGTAAAATTTTAACA
* *
17106716 ATTTTA-CCCTACTAAAATTTTAACG
1 ATTTTACCCCTAGTAAAATTTTAACA
* *
17106741 ATTTTTCTCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
17106762 CGAGAAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 20 0.53
26 18 0.47
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTAACA
Found at i:17107155 original size:30 final size:30
Alignment explanation
Indices: 17107121--17107182 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
17107111 ACTTATTTTC
17107121 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
17107151 TTGTTAATTTTTTTATTATTTTATAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
17107181 TT
1 TT
17107183 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:17110305 original size:13 final size:13
Alignment explanation
Indices: 17110287--17110313 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17110277 CTAGATTAAG
17110287 TAAAATTTGACAT
1 TAAAATTTGACAT
17110300 TAAAATTTGACAT
1 TAAAATTTGACAT
17110313 T
1 T
17110314 GTTCCCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TAAAATTTGACAT
Found at i:17110551 original size:11 final size:11
Alignment explanation
Indices: 17110535--17110559 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17110525 GAATGTTTTT
17110535 AAGCTAACTCA
1 AAGCTAACTCA
17110546 AAGCTAACTCA
1 AAGCTAACTCA
17110557 AAG
1 AAG
17110560 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (11 bp):
AAGCTAACTCA
Found at i:17114977 original size:28 final size:28
Alignment explanation
Indices: 17114935--17114999 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
17114925 TCAGTGTACG
*
17114935 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
17114963 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
17114991 AAATATTGA
1 AAATATTGA
17115000 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:17115116 original size:39 final size:39
Alignment explanation
Indices: 17115072--17115323 Score: 398
Period size: 39 Copynumber: 6.5 Consensus size: 39
17115062 GACTTTATAA
*
17115072 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
17115111 TGGTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
17115150 TGGTGTTATATCTGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
17115189 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
17115228 TGGTGTTATATCCAGGCTAAGCCCCGAAGGTATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
17115267 TGGTGTTATATTCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
17115306 TGGTATTATATCCGGGCT
1 TGGTGTTATATCCGGGCT
17115324 TAAAGTCCTG
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 186 0.95
40 10 0.05
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:17119344 original size:136 final size:137
Alignment explanation
Indices: 17119001--17119423 Score: 803
Period size: 137 Copynumber: 3.1 Consensus size: 137
17118991 TATTGGGCCT
** *
17119001 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
17119066 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
17119131 CATATGC
131 CATATGC
17119138 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
17119203 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
17119267 CATATGC
131 CATATGC
17119274 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
17119339 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
17119404 CATATGC
131 CATATGC
17119411 AAGCCCATTTGGG
1 AAGCCCATTTGGG
17119424 GAGACTACTC
Statistics
Matches: 280, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
136 135 0.48
137 145 0.52
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:17119717 original size:26 final size:26
Alignment explanation
Indices: 17119671--17119723 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
17119661 TCAAACATGC
*
17119671 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
17119697 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
17119723 A
1 A
17119724 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:17121245 original size:26 final size:26
Alignment explanation
Indices: 17121209--17121344 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
17121199 CATGAAATTC
*
17121209 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
17121235 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
17121261 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
17121287 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17121313 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
17121339 TTATCA
1 TTATCA
17121345 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:17136219 original size:38 final size:38
Alignment explanation
Indices: 17136127--17136222 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 38
17136117 GCGGTACCTT
* * *
17136127 ATGGTGTGTAGGGTTGGATGGGTCGATATTATCCCCAT
1 ATGGTGTGTAGGGATGGATAGGTCGATATTATCCCCAC
* *
17136165 ATTTGGTGTGTAGGGATGGGTAGGTCGATTTTATCCCCAC
1 A--TGGTGTGTAGGGATGGATAGGTCGATATTATCCCCAC
*
17136205 ATGGTGTGTTGGGATGGA
1 ATGGTGTGTAGGGATGGA
17136223 CAGAGTTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
38 16 0.33
40 33 0.67
ACGTcount: A:0.18, C:0.11, G:0.36, T:0.34
Consensus pattern (38 bp):
ATGGTGTGTAGGGATGGATAGGTCGATATTATCCCCAC
Found at i:17140067 original size:33 final size:33
Alignment explanation
Indices: 17140028--17140097 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
17140018 ACAAACATAC
* *
17140028 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATACATGACATACAAA
17140061 AAAGTAATAATTAAATAATACATGACATACAAA
1 AAAGTAATAATTAAATAATACATGACATACAAA
17140094 AAAG
1 AAAG
17140098 AGTAATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATACATGACATACAAA
Found at i:17140539 original size:14 final size:13
Alignment explanation
Indices: 17140506--17140554 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
17140496 TTTAAAATTT
17140506 TAAATAATAT-AA
1 TAAATAATATAAA
*
17140518 TGAATAATATAACA
1 TAAATAATATAA-A
17140532 TAAATAATAT-AA
1 TAAATAATATAAA
*
17140544 TAGATAATATA
1 TAAATAATATA
17140555 TGATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 19 0.61
13 2 0.06
14 10 0.32
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (13 bp):
TAAATAATATAAA
Found at i:17140708 original size:38 final size:42
Alignment explanation
Indices: 17140666--17140766 Score: 106
Period size: 38 Copynumber: 2.5 Consensus size: 42
17140656 AATATAATAG
* *
17140666 ATATAATATAAAATAATGA-AAATATAT-ATGTAAG-AACA-
1 ATATAATATAAAATAATGATAAATATATAATGCAAGTAAAAT
*
17140704 ATAT-ATAT-AAATAATTAATAAATATATAATGCAAGTAAAAT
1 ATATAATATAAAATAA-TGATAAATATATAATGCAAGTAAAAT
17140745 ATAATAATATAAAAATAATGAT
1 AT-ATAATAT-AAAATAATGAT
17140767 GTAAAATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
36 6 0.12
37 6 0.12
38 12 0.24
39 6 0.12
40 3 0.06
41 2 0.04
42 2 0.04
43 4 0.08
44 3 0.06
45 6 0.12
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (42 bp):
ATATAATATAAAATAATGATAAATATATAATGCAAGTAAAAT
Found at i:17140771 original size:14 final size:14
Alignment explanation
Indices: 17140738--17140779 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
17140728 TATAATGCAA
17140738 GTAAAATATAATAAT
1 GTAAAA-ATAATAAT
* *
17140753 ATAAAAATAATGAT
1 GTAAAAATAATAAT
17140767 GT-AAAATAATAAT
1 GTAAAAATAATAAT
17140780 AATAATTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 8 0.35
15 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
GTAAAAATAATAAT
Found at i:17140783 original size:22 final size:21
Alignment explanation
Indices: 17140753--17140808 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
17140743 ATATAATAAT
*
17140753 ATAAAAATAATGATGT-AAAATA
1 ATAATAATAAT-ATGTGAAAA-A
*
17140775 ATAATAATAATTTGTGAAAAA
1 ATAATAATAATATGTGAAAAA
17140796 ATAATATATAATA
1 ATAATA-ATAATA
17140809 AATAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (21 bp):
ATAATAATAATATGTGAAAAA
Found at i:17140823 original size:19 final size:19
Alignment explanation
Indices: 17140703--17140829 Score: 72
Period size: 19 Copynumber: 6.8 Consensus size: 19
17140693 ATGTAAGAAC
*
17140703 AATATATATAAATAATTAAT
1 AATATATAT-AATAAATAAT
*
17140723 AA-ATATATAATGCAAGTAA-
1 AATATATATAAT--AAATAAT
*
17140742 AATATA-ATAATATAAAAAT
1 AATATATATAATA-AATAAT
* *
17140761 AATGATGTAAAAT-AATAAT
1 AAT-ATATATAATAAATAAT
** *
17140780 AATA-AT-TTGTGAA-AA-
1 AATATATATAATAAATAAT
17140795 AATAATATATAATAAATAAT
1 AAT-ATATATAATAAATAAT
17140815 AATATATATAATAAA
1 AATATATATAATAAA
17140830 ATAAACTTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
15 3 0.04
16 4 0.05
17 6 0.07
18 11 0.14
19 38 0.47
20 15 0.19
21 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (19 bp):
AATATATATAATAAATAAT
Found at i:17147532 original size:28 final size:26
Alignment explanation
Indices: 17147439--17147550 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
17147429 AGGAAGCGTC
* *
17147439 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
17147466 CTGGTGGCTCTGCCATATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
17147493 CTGGTGGCTCTGCCACGATTATCAGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
17147521 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
17147547 CTGG
1 CTGG
17147551 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.67
28 17 0.24
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:17147545 original size:54 final size:54
Alignment explanation
Indices: 17147439--17147550 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
17147429 AGGAAGCGTC
* * * *
17147439 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCAGATCTGGTGACTCTGCCACATATATCTGTT
* * *
17147493 CTGGTGGCTCTGCCACGATTATCAGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCAG-ATCTGGTGACTCTGCCACATATATCTGTT
17147547 CTGG
1 CTGG
17147551 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCAGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:17148522 original size:16 final size:17
Alignment explanation
Indices: 17148492--17148527 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17148482 GTGGAATGGG
*
17148492 TTTACAAAAACAAAAAT
1 TTTACAAAAAAAAAAAT
17148509 TTTA-AAAAAAAAAAAT
1 TTTACAAAAAAAAAAAT
17148525 TTT
1 TTT
17148528 GAAAGAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TTTACAAAAAAAAAAAT
Found at i:17154141 original size:27 final size:27
Alignment explanation
Indices: 17154103--17154211 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
17154093 AAGCGTCCTA
* *
17154103 GTGGCTATGCCATAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
17154130 GTGGCTCTGCCACATATT-TCTGTTCTG
1 GTGGCTCTGCCACA-ATTATCTGATCTG
* *
17154157 GTGGCTCTGCCACGATTGTCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
* * *
17154185 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
17154211 G
1 G
17154212 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 44 0.63
28 18 0.26
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:17154206 original size:54 final size:54
Alignment explanation
Indices: 17154103--17154211 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
17154093 AAGCGTCCTA
* * *
17154103 GTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * * *
17154157 GTGGCTCTGCCACGATTGTCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
17154211 G
1 G
17154212 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.39
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:17159502 original size:14 final size:15
Alignment explanation
Indices: 17159483--17159515 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17159473 ATTGGATCAC
*
17159483 TTTTAAAA-CATTTG
1 TTTTAAAATCATTAG
17159497 TTTTAAAATCATTAG
1 TTTTAAAATCATTAG
17159512 TTTT
1 TTTT
17159516 GGCCTACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTTAAAATCATTAG
Found at i:17160239 original size:30 final size:30
Alignment explanation
Indices: 17160203--17160274 Score: 108
Period size: 33 Copynumber: 2.3 Consensus size: 30
17160193 AAACGTACAA
17160203 ACATACAAAGTAATAATTAAATAATGCATG
1 ACATACAAAGTAATAATTAAATAATGCATG
*
17160233 ATATACAAAAGAGTAATAATTAAATAATGCATG
1 ACATAC--AA-AGTAATAATTAAATAATGCATG
17160266 ACATACAAA
1 ACATACAAA
17160275 AAAGAGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 6 0.16
31 2 0.05
32 2 0.05
33 27 0.73
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.25
Consensus pattern (30 bp):
ACATACAAAGTAATAATTAAATAATGCATG
Found at i:17160250 original size:33 final size:34
Alignment explanation
Indices: 17160211--17160285 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
17160201 AAACATACAA
*
17160211 AGTAATAATTAAATAATGCATGATATAC-AAAAG
1 AGTAATAATTAAATAATGCATGACATACAAAAAG
17160244 AGTAATAATTAAATAATGCATGACATACAAAAAAG
1 AGTAATAATTAAATAATGCATGACATAC-AAAAAG
17160279 AGTAATA
1 AGTAATA
17160286 CAATATCAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 27 0.69
35 12 0.31
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (34 bp):
AGTAATAATTAAATAATGCATGACATACAAAAAG
Found at i:17160888 original size:48 final size:48
Alignment explanation
Indices: 17160799--17160914 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 48
17160789 AATAAATGTT
** * *
17160799 ATATAATAAAATATAATTTAAATATATAGGAAATAAGAAATATAATAG
1 ATATAATAAAATATAATGAAAATATATAGGAAAGAACAAATATAATAG
* * *
17160847 ATATAATATAAA-ATAATGAAAATATATATGTAAGAACAAATAT-ATAA
1 ATATAATA-AAATATAATGAAAATATATAGGAAAGAACAAATATAATAG
17160894 ATAATTAATAAATATATAATG
1 AT-A-TAATAAA-ATATAATG
17160915 TAAGTAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
47 5 0.09
48 36 0.64
49 9 0.16
50 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (48 bp):
ATATAATAAAATATAATGAAAATATATAGGAAAGAACAAATATAATAG
Found at i:17160925 original size:37 final size:35
Alignment explanation
Indices: 17160851--17160944 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 35
17160841 TAATAGATAT
*
17160851 AATATAAAATAA-TGAAAATATATATGTAAGAACA
1 AATATAAAATAATTAAAAATATATATGTAAGAACA
*
17160885 AATATATAAATAATTAATAAATATATAATGTAAGTA-A
1 AATATA-AAATAATTAA-AAATATAT-ATGTAAGAACA
17160922 AATATAATAATAATATAAAAATA
1 AATATAA-AATAAT-TAAAAATA
17160945 ATGATGCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
34 6 0.12
35 6 0.12
36 3 0.06
37 26 0.50
38 11 0.21
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (35 bp):
AATATAAAATAATTAAAAATATATATGTAAGAACA
Found at i:17160926 original size:18 final size:19
Alignment explanation
Indices: 17160866--17160932 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
17160856 AAAATAATGA
*
17160866 AAATATAT-ATGTAAGAAC
1 AAATATATAATGTAAGTAC
* * *
17160884 AAATATATAA-ATAATTAAT
1 AAATATATAATGTAAGT-AC
17160903 AAATATATAATGTAAGTA-
1 AAATATATAATGTAAGTAC
17160921 AAATATAATAAT
1 AAATAT-ATAAT
17160933 AATATAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 17 0.44
19 18 0.46
20 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AAATATATAATGTAAGTAC
Found at i:17160928 original size:16 final size:15
Alignment explanation
Indices: 17160894--17160938 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
17160884 AAATATATAA
17160894 ATAATTAATAAATAT
1 ATAATTAATAAATAT
17160909 ATAATGTAAGTAAA-AT
1 ATAAT-TAA-TAAATAT
17160925 ATAA-TAAT-AATAT
1 ATAATTAATAAATAT
17160938 A
1 A
17160939 AAAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 2 0.07
13 4 0.15
14 3 0.11
15 5 0.19
16 9 0.33
17 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (15 bp):
ATAATTAATAAATAT
Found at i:17161015 original size:17 final size:17
Alignment explanation
Indices: 17160974--17161017 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
17160964 ATAATTTGTG
17160974 AAAAAATAATATATAAT
1 AAAAAATAATATATAAT
*
17160991 AAATAATAATATAT-AT
1 AAAAAATAATATATAAT
17161007 AATAAAATAAT
1 AA-AAAATAAT
17161018 CTTATAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAAATAATATATAAT
Found at i:17163531 original size:24 final size:24
Alignment explanation
Indices: 17163501--17163550 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
17163491 TTCCTACTTA
17163501 TTCTGAATTTAATCCTAACTAAGT
1 TTCTGAATTTAATCCTAACTAAGT
17163525 TTCTGAATTTAATCCTAACTAAGT
1 TTCTGAATTTAATCCTAACTAAGT
17163549 TT
1 TT
17163551 GCTTACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (24 bp):
TTCTGAATTTAATCCTAACTAAGT
Found at i:17163932 original size:11 final size:12
Alignment explanation
Indices: 17163918--17163949 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
17163908 TTAGTTTCTC
17163918 CTTT-TTCTTTT
1 CTTTCTTCTTTT
17163929 CTTTCTTC-TTT
1 CTTTCTTCTTTT
17163940 CTTTCTTCTT
1 CTTTCTTCTT
17163950 ATTTCCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
CTTTCTTCTTTT
Found at i:17168364 original size:137 final size:136
Alignment explanation
Indices: 17168118--17168403 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
17168108 CATTGGGCCT
** * *
17168118 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
* *
17168183 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
17168248 CATATGC
130 CATATGC
17168255 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
17168320 AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
17168385 ATATGC
131 ATATGC
17168391 AAGCCCATTTGGG
1 AAGCCCATTTGGG
17168404 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 22 0.15
137 121 0.85
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:17168680 original size:26 final size:26
Alignment explanation
Indices: 17168651--17168703 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
17168641 TCAAACATGC
17168651 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
17168677 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
17168703 A
1 A
17168704 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:17170221 original size:26 final size:26
Alignment explanation
Indices: 17170190--17170297 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
17170180 TGAAATGCCC
*
17170190 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17170216 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
17170242 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17170268 ATCATGTAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17170294 ATCA
1 ATCA
17170298 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17172513 original size:55 final size:55
Alignment explanation
Indices: 17172423--17172526 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
17172413 TCGTCTTATT
* * *
17172423 TGTTGGGATACTACTTCTTTTGAATATATTTTTTATATGTTTAAATCGAGTGTCA
1 TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCGAGTGTCA
* *
17172478 TGTTGGAATACTTCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGA
1 TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCGA
17172527 TTATTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (55 bp):
TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCGAGTGTCA
Found at i:17174604 original size:22 final size:21
Alignment explanation
Indices: 17174574--17174639 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
17174564 TACAAATTAA
17174574 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
17174596 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
17174617 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
17174636 ATCT
1 ATCT
17174640 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:17174626 original size:19 final size:19
Alignment explanation
Indices: 17174591--17174652 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
17174581 AGATTACAAG
17174591 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
17174612 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
17174631 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
17174650 ATC
1 ATC
17174653 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:17175099 original size:45 final size:45
Alignment explanation
Indices: 17175008--17175119 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
17174998 GGAAGGCGAT
* * * * *
17175008 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAAAGAAGCCAA
*
17175053 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAAAGAAGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAAAGAAGCCAA
* *
17175098 ATTTGCT-TCTTCAATCTGCTCC
1 ATCTGCTATCTTCGATCTGCTCC
17175120 TTGCAAACTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 14 0.24
45 44 0.76
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAAAGAAGCCAA
Found at i:17175665 original size:204 final size:205
Alignment explanation
Indices: 17175174--17175881 Score: 1229
Period size: 205 Copynumber: 3.5 Consensus size: 205
17175164 AAATCTGCTT
* * *
17175174 CTTCGATCTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
17175239 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAATGATGCCAAACCATCTG
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
17175304 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
17175369 AGATGCCAAA
196 AGATGCCAGA
* * *
17175379 CTTCGGTTTGTTCTCTGACAATAAAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
17175444 GTGAAAGTCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
17175509 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTG-CTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
17175573 AGATGCCAGA
196 AGATGCCAGA
* * *
17175583 CTTCGATTTGTTCTCTTACAAGACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
17175648 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
17175713 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
17175778 AGATGCAAGA
196 AGATGCCAGA
* * *
17175788 CTTCAATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
17175853 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
17175882 CTTCTCTCTG
Statistics
Matches: 475, Mismatches: 27, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
204 195 0.41
205 280 0.59
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:17175925 original size:44 final size:44
Alignment explanation
Indices: 17175859--17175966 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
17175849 ACACGTGAAA
* * *
17175859 GCCAAATCAGCTATGTCTTCGATCTTCTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGAT
*
17175905 GCCAAATCTGGTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
17175949 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
17175967 AACTTGTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 46 0.81
46 11 0.19
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:17175993 original size:87 final size:87
Alignment explanation
Indices: 17175897--17176097 Score: 189
Period size: 87 Copynumber: 2.3 Consensus size: 87
17175887 CTCTGCCAAT
* *
17175897 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTC-TG-ACAATACA-GAGATGCCAAATCTG
1 ACAG-GATGCCAAATCTGATATCTTCGATCTGCT-TCGTGTA-AACACAGGAG-TGCCAAATCTG
17175959 CTATCTTCAA-CTTGTTCCCTATAAAC
62 CTATCTTCAATC-TGTTCCCTATAAAC
* * * * * *
17175985 ACAGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGCACAGGAGTGTCAGATCTGTT
1 ACAGGATGCCAAAT-CTGATATCTTCGATCTGCTTCG-TGTAAACACAGGAGTGCCAAATCTGCT
*
17176048 ATCTTCGATCTGTTCCCTATAAAC
64 ATCTTCAATCTGTTCCCTATAAAC
**
17176072 ACAGGGATGCCAAATCTTCTATCTTC
1 ACA-GGATGCCAAATCTGATATCTTC
17176098 AACTTGTTCC
Statistics
Matches: 91, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
85 4 0.04
86 16 0.18
87 46 0.51
88 16 0.18
89 7 0.08
90 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (87 bp):
ACAGGATGCCAAATCTGATATCTTCGATCTGCTTCGTGTAAACACAGGAGTGCCAAATCTGCTAT
CTTCAATCTGTTCCCTATAAAC
Found at i:17176095 original size:44 final size:44
Alignment explanation
Indices: 17175897--17176220 Score: 252
Period size: 44 Copynumber: 7.4 Consensus size: 44
17175887 CTCTGCCAAT
* * * * * *
17175897 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGA-CAAT
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
* *
17175941 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * ** * *
17175985 ACA-GGATGCC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
17176028 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
17176072 ACAGGGATGCCAAATCTTCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * *
17176116 ACAGGGATGCC--ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
17176160 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
*
17176204 ACAAGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
17176221 TGTTTCTTTG
Statistics
Matches: 219, Mismatches: 46, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.01
42 12 0.05
43 37 0.17
44 132 0.60
45 32 0.15
46 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:17176183 original size:132 final size:131
Alignment explanation
Indices: 17175910--17176221 Score: 491
Period size: 132 Copynumber: 2.4 Consensus size: 131
17175900 GAGATGCCAA
* * * * * * *
17175910 ATCTGGTATCTTCGATCTGCTCTCTGA-CAATACAGAGATGCCAAATCTGCTATCTTCAACTTGT
1 ATCTGCTATCTTCGATCTGTTCCCT-ATAAACACAGGGATGCCAAATCTTCTATCTTCAACTTGT
* *
17175974 TCCCTATAAACACAGGATGCCATGCTGAAATCCTCGATCTGCTTCGTTGTAAGCACAGGAGTGTC
65 TCCCTATAAACACAGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
17176039 AG
130 AG
*
17176041 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTTCTATCTTCAACTTGTT
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTTCTATCTTCAACTTGTT
*
17176106 CCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
66 CCCTATAAACACA-GGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
17176171 AG
130 AG
*
17176173 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAAATCTT
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTT
17176222 GTTTCTTTGA
Statistics
Matches: 167, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
130 1 0.01
131 69 0.41
132 97 0.58
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (131 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTTCTATCTTCAACTTGTT
CCCTATAAACACAGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCA
G
Found at i:17177122 original size:1 final size:1
Alignment explanation
Indices: 17177112--17177187 Score: 62
Period size: 1 Copynumber: 76.0 Consensus size: 1
17177102 GGCCTCTCCA
* * * * * * * *
17177112 TTTTTCTTTTTTCTTTTTTTCTTTTTTTCTCTTTTTTATTTTTATTTTTTTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**
17177177 TCCTTTTTTTT
1 TTTTTTTTTTT
17177188 GAAATAGAAG
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:17177129 original size:8 final size:8
Alignment explanation
Indices: 17177112--17177186 Score: 93
Period size: 8 Copynumber: 9.6 Consensus size: 8
17177102 GGCCTCTCCA
17177112 TTTTTC-T
1 TTTTTCTT
17177119 TTTTTCTT
1 TTTTTCTT
17177127 TTTTTCTT
1 TTTTTCTT
17177135 TTTTTCTCT
1 TTTTTCT-T
*
17177144 TTTTTATT
1 TTTTTCTT
*
17177152 TTTAT-TT
1 TTTTTCTT
17177159 TTTTTCTT
1 TTTTTCTT
17177167 TTTTT-TT
1 TTTTTCTT
*
17177174 TTTTCCTT
1 TTTTTCTT
17177182 TTTTT
1 TTTTT
17177187 TGAAATAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
7 18 0.31
8 34 0.58
9 7 0.12
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTCTT
Found at i:17177132 original size:15 final size:14
Alignment explanation
Indices: 17177112--17177187 Score: 89
Period size: 15 Copynumber: 5.0 Consensus size: 14
17177102 GGCCTCTCCA
17177112 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTT-TT
17177127 TTTTTCTTTTTTTCTCT
1 TTTTTC-TTTTTT-T-T
*
17177144 TTTTTATTTTTATTT
1 TTTTTCTTTTT-TTT
17177159 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
17177173 TTTTTCCTTTTTTTT
1 TTTTT-CTTTTTTTT
17177188 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.15
15 26 0.47
16 14 0.25
17 7 0.13
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:17182824 original size:22 final size:21
Alignment explanation
Indices: 17182794--17182840 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
17182784 TACAAATTAA
17182794 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
17182816 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
17182837 ATCT
1 ATCT
17182841 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:17182834 original size:16 final size:16
Alignment explanation
Indices: 17182813--17182863 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
17182803 ATTACAAGAT
17182813 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
17182829 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
17182848 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
17182864 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:17182846 original size:19 final size:21
Alignment explanation
Indices: 17182811--17182853 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
17182801 AGATTACAAG
17182811 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
17182832 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
17182851 ATC
1 ATC
17182854 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:17196853 original size:18 final size:18
Alignment explanation
Indices: 17196832--17196866 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17196822 AATCAGTAAT
* *
17196832 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
17196850 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
17196867 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:17196900 original size:45 final size:45
Alignment explanation
Indices: 17196850--17196956 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
17196840 GTAGCAGTAG
* *
17196850 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGATTCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
*
17196895 CAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
*
17196940 CAGTAACGGTAACAGTA
1 CAGTAACAGTAACAGTA
17196957 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:17196951 original size:12 final size:12
Alignment explanation
Indices: 17196934--17196958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17196924 AGTGTCGAAT
17196934 CGGTAACAGTAA
1 CGGTAACAGTAA
17196946 CGGTAACAGTAA
1 CGGTAACAGTAA
17196958 C
1 C
17196959 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:17196957 original size:51 final size:49
Alignment explanation
Indices: 17196838--17196984 Score: 144
Period size: 45 Copynumber: 3.0 Consensus size: 49
17196828 TAATCAGTAA
* *
17196838 CGGTAGCAGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAT
1 CGGTA-CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAT
*
17196888 ---T-CTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-TCGAAT
1 CGGTACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-G-AT
* * * *
17196934 CGGTAACAGTAACGGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGAT
1 CGGT-ACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-CTGAT
17196984 C
1 C
17196985 AATAAGCTGG
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
44 1 0.01
45 37 0.46
46 2 0.03
47 1 0.01
49 1 0.01
50 8 0.10
51 29 0.36
52 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (49 bp):
CGGTACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAT
Found at i:17197245 original size:40 final size:40
Alignment explanation
Indices: 17197169--17197246 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
17197159 CTTCATTAGA
* ** *
17197169 AATTTTACAGTTCAATGCAATATACGTAACATTATTCAGT
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
* * *
17197209 AATTTCACAGTTCAATTCGATATTCAAAACAATATTCA
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCA
17197247 ATATCCCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGT
Found at i:17198564 original size:20 final size:19
Alignment explanation
Indices: 17198527--17198578 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
17198517 ACTAGTAATA
* *
17198527 ATATAAAATCATAACAATT
1 ATATAATATAATAACAATT
17198546 A-ATAATTATAATAATCAATT
1 ATATAA-TATAATAA-CAATT
17198566 ATATAATATAATA
1 ATATAATATAATA
17198579 TATATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 7 0.25
20 13 0.46
21 4 0.14
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATAATATAATAACAATT
Found at i:17200219 original size:89 final size:89
Alignment explanation
Indices: 17200061--17200237 Score: 293
Period size: 89 Copynumber: 2.0 Consensus size: 89
17200051 TTTGCTGATG
*
17200061 AAGAGTTTGAGTTATATTGGATAACTAAAAAGTGGGTGGTTGAATGGATTGAGTGAATCTATTTC
1 AAGAGTTTGAATTATATTGGATAACTAAAAAGTGGGTGGTTGAATGGATTGAGTGAATCTATTTC
17200126 CCCCAAAAATCCTCTCTGTAACCA
66 CCCCAAAAATCCTCTCTGTAACCA
* **
17200150 AAGAGTTTGAATTATATTGGATAACTGAGTAGTGGGTGGTTGAATGGATTGAGTGAATC-AGTTT
1 AAGAGTTTGAATTATATTGGATAACTAAAAAGTGGGTGGTTGAATGGATTGAGTGAATCTA-TTT
*
17200214 TCCCCAAAAATCCTCTCTGTAACC
65 CCCCCAAAAATCCTCTCTGTAACC
17200238 GACGCCTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 1 0.01
89 81 0.99
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (89 bp):
AAGAGTTTGAATTATATTGGATAACTAAAAAGTGGGTGGTTGAATGGATTGAGTGAATCTATTTC
CCCCAAAAATCCTCTCTGTAACCA
Found at i:17207467 original size:26 final size:26
Alignment explanation
Indices: 17207438--17207547 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
17207428 TGGTACAAAT
17207438 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
* *
17207464 TGATAATAGGCTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
17207490 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
17207516 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
17207542 TGATAA
1 TGATAA
17207548 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:17209029 original size:28 final size:26
Alignment explanation
Indices: 17208987--17209057 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
17208977 GAAAGTAGCT
* * *
17208987 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
17209015 AAATTACTGTTATACTCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
17209041 AAATTACCGTTATACCC
1 AAATTACTGTTATACCC
17209058 GTAGGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 18 0.50
27 1 0.03
28 17 0.47
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:17209205 original size:27 final size:27
Alignment explanation
Indices: 17209164--17209276 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
17209154 GAGGAAGCGT
*
17209164 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
17209191 TCTGGTGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
17209217 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
17209246 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
17209272 TCTGG
1 TCTGG
17209277 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 15 0.20
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:17209269 original size:54 final size:54
Alignment explanation
Indices: 17209163--17209276 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
17209153 GGAGGAAGCG
*
17209163 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTA
1 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTA
* * * * *
17209217 TTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTG
1 TTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTA
17209271 TTCTGG
1 TTCTGG
17209277 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTA
Found at i:17209362 original size:19 final size:22
Alignment explanation
Indices: 17209338--17209377 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
17209328 CTCCCCACAC
17209338 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
17209357 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
17209378 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:17212769 original size:44 final size:45
Alignment explanation
Indices: 17212703--17212789 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 45
17212693 ATGTTTTCAA
* *
17212703 TCTTGATCTTCTTCTTCAATCTATCTTCCTCTTCATCATCTTCTT
1 TCTTGATCTTCTTCTTCAATCTATCATCCTCATCATCATCTTCTT
* * *
17212748 TCTTGATGTT-TTCTTCAATCTATCATCGTCATCGTCATCTTC
1 TCTTGATCTTCTTCTTCAATCTATCATCCTCATCATCATCTTC
17212790 AATCAAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 28 0.76
45 9 0.24
ACGTcount: A:0.15, C:0.29, G:0.06, T:0.51
Consensus pattern (45 bp):
TCTTGATCTTCTTCTTCAATCTATCATCCTCATCATCATCTTCTT
Found at i:17213608 original size:8 final size:8
Alignment explanation
Indices: 17213595--17213624 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
17213585 CATCCGCTCT
17213595 TATTTTAA
1 TATTTTAA
17213603 TATTTTAA
1 TATTTTAA
17213611 TATTTTAA
1 TATTTTAA
17213619 TATTTT
1 TATTTT
17213625 TTGATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TATTTTAA
Found at i:17221356 original size:7 final size:7
Alignment explanation
Indices: 17221346--17221387 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
17221336 AGTTTTTAAG
17221346 TTTTTTA
1 TTTTTTA
17221353 TTTTTTA
1 TTTTTTA
17221360 TTTTTTA
1 TTTTTTA
*
17221367 TTTTTAAA
1 TTTTT-TA
*
17221375 TTTTATA
1 TTTTTTA
17221382 TTTTTT
1 TTTTTT
17221388 TGAAGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:17221356 original size:15 final size:14
Alignment explanation
Indices: 17221338--17221386 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
17221328 AAATATTAAG
17221338 TTTTTAAGTTTTTTA
1 TTTTTAA-TTTTTTA
*
17221353 TTTTTTATTTTTTA
1 TTTTTAATTTTTTA
*
17221367 TTTTTAAATTTTATA
1 TTTTT-AATTTTTTA
17221382 TTTTT
1 TTTTT
17221387 TTGAAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTAATTTTTTA
Found at i:17221694 original size:21 final size:21
Alignment explanation
Indices: 17221670--17221712 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17221660 ACCCTAAAAA
17221670 CCTAACACTT-AACCCCTAACC
1 CCTAACACTTAAACCCC-AACC
* *
17221691 CCTACCCCTTAAACCCCAACC
1 CCTAACACTTAAACCCCAACC
17221712 C
1 C
17221713 TTAAATCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAACACTTAAACCCCAACC
Found at i:17221777 original size:7 final size:7
Alignment explanation
Indices: 17221766--17221810 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
17221756 TCATACACTT
*
17221766 TAAACCT
1 TAAACCA
17221773 TAAACCA
1 TAAACCA
* *
17221780 TATACCT
1 TAAACCA
17221787 TAAACCA
1 TAAACCA
17221794 TAAACCA
1 TAAACCA
*
17221801 TAAACTA
1 TAAACCA
17221808 TAA
1 TAA
17221811 TGATAATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:17221788 original size:14 final size:14
Alignment explanation
Indices: 17221766--17221810 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
17221756 TCATACACTT
17221766 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
17221780 TATACCTTAAACCA
1 TAAACCTTAAACCA
* *
17221794 TAAACCATAAACTA
1 TAAACCTTAAACCA
17221808 TAA
1 TAA
17221811 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:17221916 original size:7 final size:7
Alignment explanation
Indices: 17221904--17222008 Score: 54
Period size: 7 Copynumber: 14.9 Consensus size: 7
17221894 ACTAATTAAT
17221904 CTAAACC
1 CTAAACC
17221911 CTAAACTC
1 CTAAAC-C
* *
17221919 TTAATCC
1 CTAAACC
17221926 CT-AACC
1 CTAAACC
*
17221932 CTAAACT
1 CTAAACC
* *
17221939 ATAAATC
1 CTAAACC
*
17221946 CTAAAAC
1 CTAAACC
*
17221953 ATAAACC
1 CTAAACC
*
17221960 CTGAACC
1 CTAAACC
*
17221967 CTGAACC
1 CTAAACC
17221974 ACT-AACC
1 -CTAAACC
*
17221981 CTTAACC
1 CTAAACC
*
17221988 CTTAACCC
1 C-TAAACC
17221996 CT-AACAC
1 CTAAAC-C
17222003 CTAAAC
1 CTAAAC
17222009 GACCATAAAC
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
6 9 0.12
7 50 0.68
8 15 0.20
ACGTcount: A:0.40, C:0.37, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:17221945 original size:21 final size:21
Alignment explanation
Indices: 17221907--17221946 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17221897 AATTAATCTA
* *
17221907 AACCCTAAACTCTTAATCCCT
1 AACCCTAAACTATAAATCCCT
17221928 AACCCTAAACTATAAATCC
1 AACCCTAAACTATAAATCC
17221947 TAAAACATAA
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:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTAAACTATAAATCCCT
Found at i:17221982 original size:21 final size:21
Alignment explanation
Indices: 17221956--17222000 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17221946 CTAAAACATA
17221956 AACCCTGAACCCTGAACCACT
1 AACCCTGAACCCTGAACCACT
* * *
17221977 AACCCTTAACCCTTAACCCCT
1 AACCCTGAACCCTGAACCACT
17221998 AAC
1 AAC
17222001 ACCTAAACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.44, G:0.04, T:0.18
Consensus pattern (21 bp):
AACCCTGAACCCTGAACCACT
Found at i:17222618 original size:152 final size:153
Alignment explanation
Indices: 17222275--17222641 Score: 377
Period size: 152 Copynumber: 2.4 Consensus size: 153
17222265 TTTGTGGTGT
* * *
17222275 TTTTCAAAAAACGTCGCTAAAGATCGAGCATTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGCCA
1 TTTTCAAAAAACATCGCTAAAGAT-GAACCTTAGCGGCGTTTTT-AAAAA-CGCCGCTAAAGCCA
* *
17222340 CTAAAAGCTCAATACAAAATGACGACGTTTTGCAAAATTCTTTTGCGGCATTTTTCAAAAAACGC
63 CTAAAAGCTCAATACAAAATGACGACGTTGTGCAAAATTCTTTTGCGGCATTTTTCAAAAAACCC
*
17222405 AGCTAAAGGTGTACATATAGCAGCGC
128 AGCTAAAGATGTACATATAGCAGCGC
* * ** * * *
17222431 TTTT-ATAAAA-TTGCCGCTAATACTTGATCTTTAGCGGCGTTTTTAAAAACGCCACTAAAGCCA
1 TTTTCAAAAAACAT--CGCTAA-AGATGAACCTTAGCGGCGTTTTTAAAAACGCCGCTAAAGCCA
* * ** * ** *
17222494 CTAAAGGCTCAATACAAAATGACGGCGTTGTG-TTAATT-TTTTGCGGCGTTTTTTGAAAAGCCC
63 CTAAAAGCTCAATACAAAATGACGACGTTGTGCAAAATTCTTTTGCGGCATTTTTCAAAAAACCC
* *
17222557 AGCTAAAGATCG-AGC-TTTAGCGGCGC
128 AGCTAAAGAT-GTA-CATATAGCAGCGC
* *
17222583 TTTTCAAAAAACATCGCTAAAGGTGAACCTATAGCGGCGTTTTTTAAAAGCGCCGCTAA
1 TTTTCAAAAAACATCGCTAAAGATGAACCT-TAGCGGCG-TTTTTAAAAACGCCGCTAA
17222642 TGCTCGACCT
Statistics
Matches: 174, Mismatches: 28, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
151 6 0.03
152 57 0.33
153 28 0.16
154 44 0.25
155 10 0.06
156 27 0.16
157 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (153 bp):
TTTTCAAAAAACATCGCTAAAGATGAACCTTAGCGGCGTTTTTAAAAACGCCGCTAAAGCCACTA
AAAGCTCAATACAAAATGACGACGTTGTGCAAAATTCTTTTGCGGCATTTTTCAAAAAACCCAGC
TAAAGATGTACATATAGCAGCGC
Found at i:17236131 original size:18 final size:18
Alignment explanation
Indices: 17236108--17236155 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
17236098 GAAGTGCCCG
*
17236108 TGTGGGCTCACACCCCTA
1 TGTGGGCCCACACCCCTA
* *
17236126 TGTGGGCCCATACCCCTG
1 TGTGGGCCCACACCCCTA
17236144 TGT-GGCCCACAC
1 TGTGGGCCCACAC
17236156 GGCCACACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.21
Consensus pattern (18 bp):
TGTGGGCCCACACCCCTA
Found at i:17238687 original size:11 final size:11
Alignment explanation
Indices: 17238671--17238695 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17238661 ATATGATATT
17238671 TTATTATTTTA
1 TTATTATTTTA
17238682 TTATTATTTTA
1 TTATTATTTTA
17238693 TTA
1 TTA
17238696 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:17247405 original size:34 final size:34
Alignment explanation
Indices: 17247362--17247430 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
17247352 GAAGTTGGAT
*
17247362 TTTTAGCTCTTATAGCTCTTTTGGTGTCATGCGG
1 TTTTAGCTCTTATAGCTCTTTTGATGTCATGCGG
17247396 TTTTAGCTCTTATAGCTCTTTTGATGTCATGCGG
1 TTTTAGCTCTTATAGCTCTTTTGATGTCATGCGG
17247430 T
1 T
17247431 ACGAAGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (34 bp):
TTTTAGCTCTTATAGCTCTTTTGATGTCATGCGG
Found at i:17250585 original size:21 final size:21
Alignment explanation
Indices: 17250561--17250629 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
17250551 GCATGGTTTG
17250561 GCTACACGACCATGTCCCTAA
1 GCTACACGACCATGTCCCTAA
* * ** *
17250582 GCTACACAAGC-TG-GGCTAT
1 GCTACACGACCATGTCCCTAA
17250601 GTCTACACGACCATGTCCCTAA
1 G-CTACACGACCATGTCCCTAA
*
17250623 GCCACAC
1 GCTACAC
17250630 AAGCTGGGCT
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
19 4 0.12
20 10 0.29
21 16 0.47
22 4 0.12
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (21 bp):
GCTACACGACCATGTCCCTAA
Found at i:17250619 original size:41 final size:41
Alignment explanation
Indices: 17250562--17250644 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
17250552 CATGGTTTGG
*
17250562 CTACACGACCATGTCCCTAAGCTACACAAGCTGGGCTATGT
1 CTACACGACCATGTCCCTAAGCCACACAAGCTGGGCTATGT
17250603 CTACACGACCATGTCCCTAAGCCACACAAGCTGGGCTATGT
1 CTACACGACCATGTCCCTAAGCCACACAAGCTGGGCTATGT
17250644 C
1 C
17250645 ACATGGCCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (41 bp):
CTACACGACCATGTCCCTAAGCCACACAAGCTGGGCTATGT
Found at i:17251426 original size:2 final size:2
Alignment explanation
Indices: 17251421--17251448 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17251411 TATATATATA
17251421 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17251449 AACAAGTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17253486 original size:27 final size:27
Alignment explanation
Indices: 17253452--17253513 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
17253442 TAAAAACTAG
17253452 ATTA-TTAGACTGTTCTTTTAAAAAAA
1 ATTATTTAGACTGTTCTTTTAAAAAAA
*
17253478 ATTATTTAGATTGTTCTTTTAAAAAAA
1 ATTATTTAGACTGTTCTTTTAAAAAAA
*
17253505 AATATTTAG
1 ATTATTTAG
17253514 TTTCAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (27 bp):
ATTATTTAGACTGTTCTTTTAAAAAAA
Found at i:17254089 original size:49 final size:50
Alignment explanation
Indices: 17253999--17254093 Score: 158
Period size: 49 Copynumber: 1.9 Consensus size: 50
17253989 TTAACATTTC
17253999 ATATTTAAAATATATTTTTTAATACAGAATAACAAAATTAATTAAATTAA
1 ATATTTAAAATATATTTTTTAATACAGAATAACAAAATTAATTAAATTAA
*
17254049 ATATTTAAAATATA-TTTTTAATATAGAATAA-AAAATTTAATTAAA
1 ATATTTAAAATATATTTTTTAATACAGAATAACAAAA-TTAATTAAA
17254094 GACAAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
48 4 0.09
49 25 0.58
50 14 0.33
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (50 bp):
ATATTTAAAATATATTTTTTAATACAGAATAACAAAATTAATTAAATTAA
Found at i:17255966 original size:15 final size:14
Alignment explanation
Indices: 17255946--17255987 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
17255936 CGAGATAATG
17255946 AAAAATAATAAATTT
1 AAAAATAA-AAATTT
17255961 AAAAATAAAAA-TT
1 AAAAATAAAAATTT
17255974 AATTAAATAAAAAT
1 AA--AAATAAAAAT
17255988 AATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 3 0.12
15 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATAAAAATTT
Found at i:17255991 original size:18 final size:18
Alignment explanation
Indices: 17255946--17256007 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
17255936 CGAGATAATG
*
17255946 AAAAATAATAAATTTAAA-
1 AAAAATAATTAA-TTAAAT
17255964 AATAAA-AATTAATTAAAT
1 AA-AAATAATTAATTAAAT
17255982 AAAAATAATTTAA-TAAAT
1 AAAAATAA-TTAATTAAAT
*
17256000 AAATATAA
1 AAAAATAA
17256008 ACTAGAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 8 0.21
18 23 0.61
19 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATAATTAATTAAAT
Found at i:17255994 original size:15 final size:15
Alignment explanation
Indices: 17255963--17255998 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
17255953 ATAAATTTAA
17255963 AAATAAAAATTAATT
1 AAATAAAAATTAATT
17255978 AAATAAAAA-TAATT
1 AAATAAAAATTAATT
*
17255992 TAATAAA
1 AAATAAA
17255999 TAAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAAAAATTAATT
Found at i:17259791 original size:40 final size:41
Alignment explanation
Indices: 17259730--17259806 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
17259720 TACTGAATAC
* * *
17259730 TGCATATCTGTTACTGCTACTGTGATGGGCTAAGGCCCTTG
1 TGCATATCTGATACTGATACTGGGATGGGCTAAGGCCCTTG
*
17259771 TGCATAT-TGATACTGATACTGGGTTGGGCTAAGGCC
1 TGCATATCTGATACTGATACTGGGATGGGCTAAGGCC
17259807 AAACTGTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 25 0.78
41 7 0.22
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (41 bp):
TGCATATCTGATACTGATACTGGGATGGGCTAAGGCCCTTG
Found at i:17272684 original size:17 final size:17
Alignment explanation
Indices: 17272662--17272696 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17272652 TTAATTGGCA
17272662 CCCTACTATAGGTAAGT
1 CCCTACTATAGGTAAGT
17272679 CCCTACTATAGGTAAGT
1 CCCTACTATAGGTAAGT
17272696 C
1 C
17272697 TTTTTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (17 bp):
CCCTACTATAGGTAAGT
Found at i:17274153 original size:87 final size:86
Alignment explanation
Indices: 17274007--17274179 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 86
17273997 AAGAGGTATT
17274007 GATTCCTAAGCTTGAGGTTCCAATACTTACACCTAAAAATGCAATTTTCAATTATTAACACATTC
1 GATTCCTAAGCTTGAGGTTCCAATACTTACACCTAAAAATGCAATTTTCAATTATTAACACATTC
*
17274072 TAACACCTTTTTGTTACCTATA
66 CAACACC-TTTTGTTACCTATA
* * *
17274094 GATTCCTAAGCTTGAGGTTTCAATACTTATACCTGAAAATGCAATTTTCAATTATTAACACATTC
1 GATTCCTAAGCTTGAGGTTCCAATACTTACACCTAAAAATGCAATTTTCAATTATTAACACATTC
*
17274159 CAACACCTTTTGTTACGTATA
66 CAACACCTTTTGTTACCTATA
17274180 CCATACGTAC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 13 0.16
87 68 0.84
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (86 bp):
GATTCCTAAGCTTGAGGTTCCAATACTTACACCTAAAAATGCAATTTTCAATTATTAACACATTC
CAACACCTTTTGTTACCTATA
Found at i:17278681 original size:23 final size:23
Alignment explanation
Indices: 17278634--17278681 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
17278624 TTTATGCGCA
* * * *
17278634 CAAATGAAAGTGGCACTTTGGTG
1 CAAATAAAAGTGACACTTCGATG
17278657 CAAATAAAAGTGACACTTCGATG
1 CAAATAAAAGTGACACTTCGATG
17278680 CA
1 CA
17278682 CTACAGTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (23 bp):
CAAATAAAAGTGACACTTCGATG
Found at i:17279539 original size:18 final size:20
Alignment explanation
Indices: 17279518--17279562 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
17279508 TATGTTTTAA
17279518 ATTTTATAG-T-TTAATTTT
1 ATTTTATAGTTATTAATTTT
17279536 ATTTTATAGTTATTAATTTT
1 ATTTTATAGTTATTAATTTT
*
17279556 TTTTTAT
1 ATTTTAT
17279563 CTTTTAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 1 0.04
20 14 0.58
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTATAGTTATTAATTTT
Found at i:17281773 original size:71 final size:71
Alignment explanation
Indices: 17281657--17281799 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
17281647 TCAACAAGAG
* * *
17281657 AAAGAACCTCTCCCATATGAGTTGAAGCATTATGAACTTGATGTATATAAGCATCTTAATTTGAG
1 AAAGAACCTCTCCCATATGAGTTGAAGCATTATGAACTTCATGTATATAAACATCCTAATTTGAG
17281722 AAAAAT
66 AAAAAT
* * *
17281728 AAAGAACGTCTCCCATATGAGTTGAAGTATTATGAACTTCATGTATGTAAACATCCTAATTTGAG
1 AAAGAACCTCTCCCATATGAGTTGAAGCATTATGAACTTCATGTATATAAACATCCTAATTTGAG
17281793 AAAAAT
66 AAAAAT
17281799 A
1 A
17281800 TCAACACTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (71 bp):
AAAGAACCTCTCCCATATGAGTTGAAGCATTATGAACTTCATGTATATAAACATCCTAATTTGAG
AAAAAT
Found at i:17283618 original size:28 final size:26
Alignment explanation
Indices: 17283563--17283675 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
17283553 AGCATGGCTG
* *
17283563 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17283589 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
17283617 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
17283644 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
17283672 CCAG
1 CCAG
17283676 GATGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.50
28 33 0.42
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17283646 original size:55 final size:54
Alignment explanation
Indices: 17283563--17283675 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
17283553 AGCATGGCTG
*
17283563 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
17283617 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
17283672 CCAG
1 CCAG
17283676 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.36
55 34 0.64
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:17283968 original size:19 final size:19
Alignment explanation
Indices: 17283944--17283996 Score: 97
Period size: 19 Copynumber: 2.7 Consensus size: 19
17283934 TGGGCTTATG
17283944 GGCCCATTAGCCCAGTTTA
1 GGCCCATTAGCCCAGTTTA
17283963 GGCCCATTAGCCCAGTTTA
1 GGCCCATTAGCCCAGTTTA
17283982 GGCCCATTAAGCCCA
1 GGCCCATT-AGCCCA
17283997 AAACGTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 27 0.82
20 6 0.18
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (19 bp):
GGCCCATTAGCCCAGTTTA
Found at i:17284901 original size:15 final size:16
Alignment explanation
Indices: 17284881--17284910 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17284871 AAGAATAAGG
17284881 AAGTGGT-GAAGAATA
1 AAGTGGTAGAAGAATA
17284896 AAGTGGTAGAAGAAT
1 AAGTGGTAGAAGAAT
17284911 TTAGCTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (16 bp):
AAGTGGTAGAAGAATA
Found at i:17297716 original size:27 final size:26
Alignment explanation
Indices: 17297436--17297715 Score: 262
Period size: 27 Copynumber: 10.4 Consensus size: 26
17297426 TACCCCCAGC
* * *
17297436 TGTAAAATTACCAAAGTACCCCCAATT
1 TGTAAAATTACGAAA-TACCCTCGATT
* *
17297463 TATAAAATTACCCAAATACCCTCGATT
1 TGTAAAATTA-CGAAATACCCTCGATT
* * *
17297490 TATAAAATTATCGAAATACCGTTGA-T
1 TGTAAAATTA-CGAAATACCCTCGATT
17297516 TGTAAAATTACTGAAATACCCTCGATT
1 TGTAAAATTAC-GAAATACCCTCGATT
17297543 TGTAAAATTATCGAAATACCCTC-ACTT
1 TGTAAAATTA-CGAAATACCCTCGA-TT
*
17297570 TGCAAAATTACTGAAATACCCTCGATT
1 TGTAAAATTAC-GAAATACCCTCGATT
17297597 TGTAAAATTACTGAAATACCCTC-AGTT
1 TGTAAAATTAC-GAAATACCCTCGA-TT
*
17297624 T-TCAAAATTACTAAAATACCCTCGATT
1 TGT-AAAATTAC-GAAATACCCTCGATT
* * *
17297651 TGTAAAATTACTAAAATACCCTTGACT
1 TGTAAAATTAC-GAAATACCCTCGATT
* *
17297678 TGTAAAATTACCAAAGTACCCCCGATT
1 TGTAAAATTACGAAA-TACCCTCGATT
**
17297705 TACAAAATTAC
1 TGTAAAATTAC
17297716 CGTTTTACCA
Statistics
Matches: 220, Mismatches: 21, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
25 1 0.00
26 28 0.13
27 182 0.83
28 9 0.04
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
TGTAAAATTACGAAATACCCTCGATT
Done.