Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 58 of 316
Found at i:17216277 original size:30 final size:31
Alignment explanation
Indices: 17216207--17216279 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
17216197 GGAAACTGTT
*
17216207 AGTCAGTGACTGTTTTGTAACTTTTTTATAA
1 AGTCAGTGACTGTTTTGTAACTTTTTCATAA
* *
17216238 CGTCAGTGACTGTTTTGTTA-TTTTTCA-AA
1 AGTCAGTGACTGTTTTGTAACTTTTTCATAA
*
17216267 AGTTAGGTGACTG
1 AGTCA-GTGACTG
17216280 AAATGAAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.14
30 13 0.36
31 18 0.50
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (31 bp):
AGTCAGTGACTGTTTTGTAACTTTTTCATAA
Found at i:17226408 original size:25 final size:25
Alignment explanation
Indices: 17226349--17226412 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
17226339 GAAGCTCATA
*
17226349 CGAGCCAATATGGGGAAGGTTCAAG
1 CGAGCCAATATCGGGAAGGTTCAAG
* * * * *
17226374 CTAACGAATATCGGGAGGGTTTAAG
1 CGAGCCAATATCGGGAAGGTTCAAG
17226399 CGAGCCAATATCGG
1 CGAGCCAATATCGG
17226413 AAAGTTCCAG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (25 bp):
CGAGCCAATATCGGGAAGGTTCAAG
Found at i:17228648 original size:49 final size:49
Alignment explanation
Indices: 17228547--17228648 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
17228537 TATGCATTTC
* *
17228547 TAAACTTGGTCTTCCACTATCTACACTCTTATCACTATTTATACATTGT
1 TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACATTCT
* * *
17228596 TAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATCCCTTCT
1 TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACATTCT
17228645 TAAA
1 TAAA
17228649 TGTCAGAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (49 bp):
TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACATTCT
Found at i:17229852 original size:15 final size:16
Alignment explanation
Indices: 17229824--17229866 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
17229814 ATCTCAAAAT
17229824 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
17229840 CATTTCT-ATATTTT-
1 CATTTCTCATATTTTC
17229854 C-TTATCTCATATT
1 CATT-TCTCATATT
17229867 CATTTATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 4 0.16
15 12 0.48
16 7 0.28
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:17233213 original size:21 final size:21
Alignment explanation
Indices: 17233176--17233215 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17233166 TGAACCCCTG
*
17233176 ACTTCAACCATACAATAGAAC
1 ACTTCAACCATAAAATAGAAC
17233197 ACTT-AACCATTAAAATAGA
1 ACTTCAACCA-TAAAATAGA
17233216 TTCATAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (21 bp):
ACTTCAACCATAAAATAGAAC
Found at i:17237259 original size:18 final size:18
Alignment explanation
Indices: 17237238--17237273 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17237228 AAACCAAAAA
17237238 AATTCGGTTAACCGGTCG
1 AATTCGGTTAACCGGTCG
* *
17237256 AATTTGGTTAATCGGTCG
1 AATTCGGTTAACCGGTCG
17237274 GTTAACCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (18 bp):
AATTCGGTTAACCGGTCG
Found at i:17237581 original size:9 final size:9
Alignment explanation
Indices: 17237563--17237690 Score: 138
Period size: 9 Copynumber: 14.6 Consensus size: 9
17237553 TTTATACAAA
17237563 TAATTCGGT
1 TAATTCGGT
*
17237572 TAATTTGGT
1 TAATTCGGT
* *
17237581 TAATTTGGG
1 TAATTCGGT
17237590 TAATTCGGT
1 TAATTCGGT
*
17237599 TAATTCGGG
1 TAATTCGGT
*
17237608 TAATTCAGT
1 TAATTCGGT
*
17237617 TAATTCGAT
1 TAATTCGGT
*
17237626 TAATTCGAT
1 TAATTCGGT
17237635 TAATTCGAG-
1 TAATTCG-GT
17237644 TAATTCGGT
1 TAATTCGGT
*
17237653 TAATTCGAT
1 TAATTCGGT
*
17237662 TAATTCGAT
1 TAATTCGGT
17237671 TAATT---T
1 TAATTCGGT
17237677 TAATTCGGT
1 TAATTCGGT
17237686 TAATT
1 TAATT
17237691 TTATACTTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
6 6 0.06
8 1 0.01
9 96 0.93
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17237681 original size:15 final size:15
Alignment explanation
Indices: 17237661--17237693 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17237651 GTTAATTCGA
17237661 TTAATTCGATTAATT
1 TTAATTCGATTAATT
*
17237676 TTAATTCGGTTAATT
1 TTAATTCGATTAATT
17237691 TTA
1 TTA
17237694 TACTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (15 bp):
TTAATTCGATTAATT
Found at i:17238076 original size:21 final size:21
Alignment explanation
Indices: 17238047--17238088 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17238037 GTTGATTTCT
* *
17238047 ATTGGCCTCTTTTAGAATGTC
1 ATTGACCTCTTCTAGAATGTC
17238068 ATTGACCTCTTCTAGAATGTC
1 ATTGACCTCTTCTAGAATGTC
17238089 CACTTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTGACCTCTTCTAGAATGTC
Found at i:17240696 original size:15 final size:15
Alignment explanation
Indices: 17240678--17240709 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17240668 TTGGACTTAA
*
17240678 TTATTATTTTTTGGT
1 TTATTATTATTTGGT
17240693 TTATTATTATTTGGT
1 TTATTATTATTTGGT
17240708 TT
1 TT
17240710 CATTTCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (15 bp):
TTATTATTATTTGGT
Found at i:17241343 original size:44 final size:45
Alignment explanation
Indices: 17241287--17241407 Score: 174
Period size: 44 Copynumber: 2.7 Consensus size: 45
17241277 CTATATTTAG
* *
17241287 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTT-GTGGTTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTGGCTTCAA
* * *
17241331 TCTGCTTCACTGCAACTTCAGAGAGATAAG-GTTAGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTGGCTTCAA
*
17241375 TCTGCTCCACTACAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
17241408 CGCCATGGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
43 2 0.03
44 63 0.95
45 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTGGCTTCAA
Found at i:17242310 original size:18 final size:18
Alignment explanation
Indices: 17242289--17242399 Score: 97
Period size: 18 Copynumber: 6.4 Consensus size: 18
17242279 AAGTTTTTTT
*
17242289 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
17242307 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
17242323 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
17242340 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
17242357 AACACGACATTTTTTTG-A
1 AACACGAGA-ATTTTTGAA
*
17242375 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
17242393 AACACGA
1 AACACGA
17242400 ATTTTTTTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
16 14 0.19
17 28 0.38
18 32 0.43
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:17242320 original size:16 final size:16
Alignment explanation
Indices: 17242301--17242363 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
17242291 CACGGGAATT
*
17242301 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
17242317 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
17242333 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
17242350 TTTTTAAAACACGA
1 -TTTGAAAACACGA
17242364 CATTTTTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:17242359 original size:17 final size:17
Alignment explanation
Indices: 17242266--17242400 Score: 87
Period size: 18 Copynumber: 7.9 Consensus size: 17
17242256 GTATTTCTTT
* *
17242266 TTTTTTAAA-ACGAAAG
1 TTTTTAAAACACGAAAA
** **
17242282 TTTTTTTAACACGGGAA
1 TTTTTAAAACACGAAAA
*
17242299 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
17242317 TTTGT-AAACACGAAAA
1 TTTTTAAAACACGAAAA
*
17242333 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
**
17242350 TTTTTAAAACACGACATT
1 TTTTTAAAACACGA-AAA
* **
17242368 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
17242385 TTTTTGAAAACACGAA
1 TTTTT-AAAACACGAA
17242401 TTTTTTTTAT
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
15 3 0.03
16 18 0.20
17 31 0.34
18 38 0.42
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:17242387 original size:19 final size:18
Alignment explanation
Indices: 17242350--17242434 Score: 70
Period size: 18 Copynumber: 4.7 Consensus size: 18
17242340 AACATGAAAA
*
17242350 TTTTTAAAACAC-GACATT
1 TTTTTGAAACACGGA-ATT
17242368 TTTTTGAAACACGGGAA--
1 TTTTTGAAACAC-GGAATT
17242385 TTTTTGAAAACAC-GAATT
1 TTTTTG-AAACACGGAATT
* **
17242403 TTTTTTATTCACGAGAATT
1 TTTTTGAAACACG-GAATT
17242422 TTTTTGAAACACG
1 TTTTTGAAACACG
17242435 ATTTTTCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
16 3 0.06
17 10 0.19
18 22 0.42
19 16 0.30
20 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (18 bp):
TTTTTGAAACACGGAATT
Found at i:17242421 original size:35 final size:35
Alignment explanation
Indices: 17242306--17242446 Score: 112
Period size: 35 Copynumber: 4.1 Consensus size: 35
17242296 GAATTTTTGA
* ** **
17242306 AAACACGAGAA--TTTGTAAACACGAAAATTTTAG
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
* * *
17242339 AAACATGAAAATTTTT-AAAACACGACATTTTTTTG
1 AAACACGAGAATTTTTGAAAACACGA-ATTTTTTTT
*
17242374 AAACACGGGAATTTTTGAAAACACGAATTTTTTTT
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
**
17242409 ATTCACGAGAATTTTTTTG-AAACACG-ATTTTTCTTT
1 AAACACGAGAA--TTTTTGAAAACACGAATTTTT-TTT
17242445 AA
1 AA
17242447 CAAATACCGT
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
33 9 0.10
34 8 0.09
35 44 0.51
36 20 0.23
37 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (35 bp):
AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
Found at i:17242435 original size:19 final size:19
Alignment explanation
Indices: 17242350--17242435 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
17242340 AACATGAAAA
* *
17242350 TTTTTAAAACACGA-CATT
1 TTTTTGAAACACGAGAATT
*
17242368 TTTTTGAAACACGGGAA--
1 TTTTTGAAACACGAGAATT
17242385 TTTTTGAAA-AC-ACGAATT
1 TTTTTGAAACACGA-GAATT
* **
17242403 TTTTTTATTCACGAGAATT
1 TTTTTGAAACACGAGAATT
17242422 TTTTTGAAACACGA
1 TTTTTGAAACACGA
17242436 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
16 5 0.10
17 9 0.17
18 18 0.35
19 19 0.37
20 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTTTGAAACACGAGAATT
Found at i:17243036 original size:12 final size:11
Alignment explanation
Indices: 17243005--17243035 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17242995 GCTGCTGTTT
17243005 TTATTTTTTAA
1 TTATTTTTTAA
*
17243016 TTACTTTTTAA
1 TTATTTTTTAA
17243027 TTATTTTTT
1 TTATTTTTT
17243036 TTCTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:17243046 original size:10 final size:10
Alignment explanation
Indices: 17243033--17243086 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
17243023 TTAATTATTT
17243033 TTTTTCTTTC
1 TTTTTCTTTC
17243043 TTTTTCTTTC
1 TTTTTCTTTC
17243053 TCTTTT-TTTC
1 T-TTTTCTTTC
*
17243063 TTTCTTTTTTC
1 TTT-TTCTTTC
*
17243074 TTCTTCTCTTC
1 TTTTTCT-TTC
17243085 TT
1 TT
17243087 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 21 0.55
11 15 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:17243047 original size:14 final size:14
Alignment explanation
Indices: 17243030--17243083 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
17243020 TTTTTAATTA
*
17243030 TTTTT-TTTCTTTC
1 TTTTTCTTTCTTTT
*
17243043 TTTTTCTTTCTCTT
1 TTTTTCTTTCTTTT
17243057 TTTTTCTTTCTTTT
1 TTTTTCTTTCTTTT
*
17243071 TTCTTCTTCTCTT
1 TTTTTCTT-TCTT
17243084 CTTCTTGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.14
14 26 0.74
15 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTCTTTT
Found at i:17243047 original size:24 final size:23
Alignment explanation
Indices: 17243027--17243072 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
17243017 TACTTTTTAA
17243027 TTAT-TTTTTTTCTTTCTTTTTCT
1 TTATCTTTTTTTCTTTCTTTTT-T
*
17243050 TTCTCTTTTTTTCTTTCTTTTTT
1 TTATCTTTTTTTCTTTCTTTTTT
17243073 CTTCTTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (23 bp):
TTATCTTTTTTTCTTTCTTTTTT
Found at i:17243670 original size:29 final size:29
Alignment explanation
Indices: 17243637--17243737 Score: 80
Period size: 30 Copynumber: 3.4 Consensus size: 29
17243627 TGTAATTTTT
17243637 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGATTAAAATGAAATTTAA
* * * *
17243666 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGAT-TAAAATGAAATTTAA
* * *
17243696 AGAAAGTTTAAGAGTCAAAATGAAATTT-A
1 AGAAAATTTAGGA-TTAAAATGAAATTTAA
*
17243725 GGAAAAGTTTAGG
1 AGAAAA-TTTAGG
17243738 GGTCAAAATG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
29 14 0.25
30 40 0.73
31 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGATTAAAATGAAATTTAA
Found at i:17243692 original size:30 final size:30
Alignment explanation
Indices: 17243652--17243753 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
17243642 ATTTAGGATT
*
17243652 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * * *
17243682 TAAGTGAAATTTAAAGAAAGTTTAAGAGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
17243712 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
17243742 AAAATGCAATTT
1 AAAATGAAATTT
17243754 TTATTTTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:17243774 original size:14 final size:15
Alignment explanation
Indices: 17243749--17243783 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
17243739 GTCAAAATGC
17243749 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
17243764 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
17243778 AATTTT
1 AATTTT
17243784 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:17244292 original size:54 final size:54
Alignment explanation
Indices: 17244025--17244339 Score: 482
Period size: 53 Copynumber: 5.9 Consensus size: 54
17244015 CACGTGAGCC
* * *
17244025 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
17244080 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
17244130 AAGGCTCAACTCACCTCTCGCAATATGAGTTG-GTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
17244183 AAGGCTCAACTCACCTCTCGCAATATG-GTTGATTTTTGAAAAACAAAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
17244236 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
17244290 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
17244340 CTGAAAAGTA
Statistics
Matches: 242, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
49 13 0.05
50 33 0.14
51 1 0.00
52 4 0.02
53 74 0.31
54 73 0.30
55 38 0.16
56 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:17244453 original size:13 final size:14
Alignment explanation
Indices: 17244425--17244457 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
17244415 TTTTTGAAAC
17244425 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
17244439 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
17244452 ACAGAA
1 ACAGAA
17244458 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:17244465 original size:14 final size:14
Alignment explanation
Indices: 17244418--17244465 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
17244408 GATTTTTTTT
*
17244418 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
17244432 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
17244446 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
17244459 TTGAAAA
1 TTGAAAA
17244466 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:17244597 original size:85 final size:87
Alignment explanation
Indices: 17244453--17244617 Score: 210
Period size: 87 Copynumber: 1.9 Consensus size: 87
17244443 AAATTAAAAA
* *
17244453 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTACAATATGAGTT-GA
1 CAGAAATTGAAAAGACCTCAGCG-GTGGCCTGAGACTCAACTCACCTCTCACAATATGAGTTAGA
*
17244517 TTTGAAAAGTAGAATTAGTAAAG
65 TTTGAAAAGCAGAATTAGTAAAG
* * * *
17244540 CAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAG
1 CAGAAATTGAAAAGACCTCAGCGGTGGCC-TGAGACTCAACTCACCTCTCACAATATGAGTT-AG
*
17244603 TTTTGAAAAGCAGAA
64 ATTTGAAAAGCAGAA
17244618 ATTGAAAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 3 0.04
85 30 0.45
87 34 0.51
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (87 bp):
CAGAAATTGAAAAGACCTCAGCGGTGGCCTGAGACTCAACTCACCTCTCACAATATGAGTTAGAT
TTGAAAAGCAGAATTAGTAAAG
Found at i:17244655 original size:73 final size:73
Alignment explanation
Indices: 17244536--17244913 Score: 606
Period size: 73 Copynumber: 5.2 Consensus size: 73
17244526 TAGAATTAGT
* * *
17244536 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
17244600 AAGTTTTGA
66 AA-TTTTGA
*
17244609 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
17244674 AATTTTGA
66 AATTTTGA
*
17244682 AAA-CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGCAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
17244745 GAATTTTGA
65 GAATTTTGA
* *
17244754 GAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
17244819 AATTTTGA
66 AATTTTGA
*
17244827 AAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
17244891 -ATTTTGA
66 AATTTTGA
* *
17244898 AAAACAAAAATT-AAAA
1 AAAGCAGAAATTGAAAA
17244914 GGCTTAACTC
Statistics
Matches: 286, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
71 15 0.05
72 132 0.46
73 135 0.47
74 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGA
Found at i:17244728 original size:72 final size:72
Alignment explanation
Indices: 17244540--17244913 Score: 594
Period size: 72 Copynumber: 5.2 Consensus size: 72
17244530 ATTAGTAAAG
* * *
17244540 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
17244604 TTTGAAAA
65 TTTGAAAA
*
17244612 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
17244677 TTTGAAAA
65 TTTGAAAA
*
17244685 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
17244749 TTTGAGAAG
65 TTTGA-AAA
*
17244758 CAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
17244823 TTGAAAA
66 TTGAAAA
*
17244830 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
17244894 TTGAAAAA
66 TTG-AAAA
*
17244902 CAAAAATT-AAAA
1 CAGAAATTGAAAA
17244914 GGCTTAACTC
Statistics
Matches: 282, Mismatches: 14, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
71 11 0.04
72 136 0.48
73 131 0.46
74 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:17244791 original size:145 final size:145
Alignment explanation
Indices: 17244540--17244913 Score: 621
Period size: 145 Copynumber: 2.6 Consensus size: 145
17244530 ATTAGTAAAG
* * * *
17244540 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
17244604 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
17244669 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
17244685 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
17244749 TTTGAGAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
17244814 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
17244830 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
17244894 TTGAAAAACAAAAATT-AAAA
66 TTGAAAAGCAGAAATTGAAAA
17244914 GGCTTAACTC
Statistics
Matches: 216, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
143 4 0.02
144 18 0.08
145 190 0.88
146 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (145 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAA
Found at i:17245008 original size:122 final size:125
Alignment explanation
Indices: 17244788--17245588 Score: 441
Period size: 145 Copynumber: 6.0 Consensus size: 125
17244778 ACGTGTCTTG
** * * * *
17244788 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
17244853 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
17244913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
17244975 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT-AAA
* * * * * * * * * **
17245036 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
1 --AGGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA-CAGA
* * *
17245100 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
47 AACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
* *
17245165 GAAGCAGAAATTGAAA
112 -AAACAAAAATT-AAA
** * * * * * * * * **
17245181 ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
1 A-GGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA-CAGAA
* * *
17245246 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
48 ACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
*
17245311 AACAAAGATTGAAA
113 AACAAAAATT-AAA
* * * * * * * * * **
17245325 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAG
1 --AGGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA--CAG
* *
17245389 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
46 AAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
17245454 AAAAACAAAAATTAAA
111 -AAAACAAAAATTAAA
* * *
17245470 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
17245532 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
17245589 GAAATTACCT
Statistics
Matches: 597, Mismatches: 47, Indels: 67
0.84 0.07 0.09
Matches are distributed among these distances:
122 82 0.14
123 76 0.13
124 8 0.01
125 29 0.05
126 3 0.01
127 3 0.01
130 1 0.00
131 5 0.01
132 3 0.01
133 3 0.01
134 2 0.00
135 3 0.01
136 3 0.01
137 5 0.01
138 1 0.00
141 3 0.01
142 3 0.01
143 5 0.01
144 137 0.23
145 210 0.35
146 12 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:17245055 original size:72 final size:72
Alignment explanation
Indices: 17244913--17245466 Score: 927
Period size: 72 Copynumber: 7.7 Consensus size: 72
17244903 AAAAATTAAA
* ** * * * * * *
17244913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17244975 TGTCTTG
66 TGTCTTG
17244982 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17245047 TGTCTTG
66 TGTCTTG
17245054 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17245119 TGTCTTG
66 TGTCTTG
* *
17245126 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
17245191 GTGTCTTG
65 GTGTCTTG
17245199 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17245264 TGTCTTG
66 TGTCTTG
17245271 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
17245335 GTGTCTTG
65 GTGTCTTG
*
17245343 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
17245408 GTGTCTTG
65 GTGTCTTG
*
17245416 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17245467 AAAAGGCTTA
Statistics
Matches: 462, Mismatches: 15, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 5 0.01
72 282 0.61
73 141 0.31
74 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:17245230 original size:145 final size:144
Alignment explanation
Indices: 17244913--17245466 Score: 927
Period size: 145 Copynumber: 3.8 Consensus size: 144
17244903 AAAAATTAAA
* ** * * * * *
17244913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17244975 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
17245040 CTCAACGTGTCTTG
131 CTCAACGTGTCTTG
*
17245054 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
* *
17245119 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTA
17245184 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
*
17245199 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245264 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTA
17245328 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
17245343 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
*
17245408 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17245467 AAAAGGCTTA
Statistics
Matches: 391, Mismatches: 14, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
141 25 0.06
142 3 0.01
143 5 0.01
144 138 0.35
145 209 0.53
146 9 0.02
147 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (144 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTG
Found at i:17245336 original size:217 final size:217
Alignment explanation
Indices: 17244913--17245466 Score: 965
Period size: 217 Copynumber: 2.6 Consensus size: 217
17244903 AAAAATTAAA
* ** * * * * *
17244913 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
17244974 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
17245039 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
131 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
17245104 GAAATTACCTCAACGTGTCTTG
196 GAAATTACCTCAACGTGTCTTG
*
17245126 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
17245191 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
17245256 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGAT
131 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-AT
17245320 TGAAATTACCTCAACGTGTCTTG
195 TGAAATTACCTCAACGTGTCTTG
17245343 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
*
17245408 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17245467 AAAAGGCTTA
Statistics
Matches: 324, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
213 25 0.08
214 3 0.01
215 3 0.01
216 5 0.02
217 277 0.85
218 11 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (217 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
GAAATTACCTCAACGTGTCTTG
Found at i:17245566 original size:123 final size:126
Alignment explanation
Indices: 17245343--17245588 Score: 374
Period size: 123 Copynumber: 2.0 Consensus size: 126
17245333 ACGTGTCTTG
** * * *
17245343 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
17245408 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
17245470 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
17245531 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
17245589 GAAATTACCT
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
122 11 0.10
123 64 0.58
124 4 0.04
125 3 0.03
126 3 0.03
127 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:17245612 original size:72 final size:72
Alignment explanation
Indices: 17245470--17246027 Score: 919
Period size: 72 Copynumber: 7.8 Consensus size: 72
17245460 AAAAATTAAA
* ** * * * * *
17245470 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245532 TGTCTTG
66 TGTCTTG
*
17245539 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245604 TGTCTTG
66 TGTCTTG
*
17245611 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAAC
17245676 GTGTCTTG
65 GTGTCTTG
17245684 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245749 TGTCTTG
66 TGTCTTG
* *
17245756 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245821 TGTCTTG
66 TGTCTTG
*
17245828 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAAATACCTCAAC
17245892 GTGTCTTG
65 GTGTCTTG
17245900 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
17245965 GTGTCTTG
65 GTGTCTTG
*
17245973 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
17246028 GGCTTAACTC
Statistics
Matches: 464, Mismatches: 17, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 5 0.01
72 284 0.61
73 141 0.30
74 6 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTG
Found at i:17245648 original size:485 final size:491
Alignment explanation
Indices: 17244549--17246925 Score: 3558
Period size: 485 Copynumber: 4.9 Consensus size: 491
17244539 GCAGAAATTG
* * *
17244549 AAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGTTTTGAAAAG
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAA-
* *
17244613 CAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
64 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
17244678 TTGA-AAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
129 TTGAGAAGCAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
17244741 AGTTGAATTTTGAGAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCATTTCTC
193 AGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
17244806 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
257 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
* * *
17244871 ATTTCTCGCAATATGAGTTG-ATTTTGAAAA-ACAA---AAATTA----AAAG-G-CTT-A-ACT
322 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
* ** * *
17244923 C-AC-C---TCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTG
387 CAACTCATTTCTCGCAATATGAGTTGAATTT-TGA-A-AAAC-AAAAAT---TAAAAGTGTCTTG
* * * * *
17244982 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
445 AGACTCAACTC--TTCTCGCAATATGAGTTCAA-TTT-AAAACATAAACTA
*
17245033 AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
17245098 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
17245163 GAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
131 GAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
17245228 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
196 TGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
17245293 TATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
261 TATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
*
17245357 TCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
325 TCTCGCAATATGAGTTGAATTTTGAAAA-CA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTC
17245422 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAG-G-CTT-A-ACTC-A
388 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGTGTCTTGAGACTCAA
17245482 C-C-TCTCGCAATATGAG-TCAATTTAAAACATAAACTA
453 CTCTTCTCGCAATATGAGTTCAATTTAAAACATAAACTA
*
17245518 AAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
17245583 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
17245648 GAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
131 GAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
17245713 TGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
196 TGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
*
17245778 TATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
261 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
17245843 CTCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
326 CTCGCAATATGAGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
* *
17245908 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTG
390 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT----A-A----AA-GTGTCTTG
* * **
17245973 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT-TGA-A-AAAC-A
445 AGACTCAACTC--TTCTCGCAATATGAGTTCAATTTAAAACATAAACTA
* * * *
17246018 AAAAT---TAAAAG-G-CTT-A-ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-AAAACA
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
* * * * *
17246068 TAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
* *
17246133 GA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
131 GAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
17246197 TGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
196 TGAATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
*
17246262 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCATT
260 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
17246327 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
325 TCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
17246392 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAG-G-CTT-A-ACTC-AC
389 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGTGTCTTGAGACTCAAC
*
17246452 -C-TCTCGAAATATGAG-TCAATTTAAAACATAAACTA
454 TCTTCTCGCAATATGAGTTCAATTTAAAACATAAACTA
*
17246487 AAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAAC
1 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-AATTTTGAAAAC
17246552 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
65 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
17246617 TGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
130 TGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
17246682 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
195 TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
17246747 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
260 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
17246812 TCTCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCA
325 TCTCGCAATATGAGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCA
* *
17246877 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA
389 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT-AAAA
17246926 TACCTCAACG
Statistics
Matches: 1748, Mismatches: 73, Indels: 142
0.89 0.04 0.07
Matches are distributed among these distances:
465 6 0.00
466 14 0.01
467 1 0.00
468 4 0.00
469 7 0.00
470 2 0.00
471 3 0.00
472 5 0.00
473 4 0.00
474 4 0.00
475 2 0.00
476 5 0.00
477 2 0.00
478 1 0.00
480 1 0.00
481 15 0.01
482 3 0.00
483 201 0.11
484 283 0.16
485 935 0.53
486 85 0.05
487 8 0.00
488 29 0.02
489 1 0.00
490 5 0.00
491 2 0.00
492 4 0.00
493 8 0.00
494 6 0.00
495 8 0.00
496 8 0.00
497 10 0.01
498 6 0.00
499 4 0.00
500 14 0.01
501 8 0.00
502 2 0.00
503 30 0.02
504 12 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (491 bp):
AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
GAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
TGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
CTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
TCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGTGTCTTGAGACTCAACTC
TTCTCGCAATATGAGTTCAATTTAAAACATAAACTA
Found at i:17245732 original size:557 final size:553
Alignment explanation
Indices: 17244536--17247634 Score: 4278
Period size: 557 Copynumber: 5.7 Consensus size: 553
17244526 TAGAATTAGT
* * *
17244536 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
17244600 AAGTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 AA-TTTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
17244665 TATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
129 TATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
* * *
17244729 TCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACATCAACGTGTCTTGAGGCTC
193 TCTCGCAATATGAGTTGAATTTTGA-AAACA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTC
* *
17244794 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTT
256 AACTCATTTCTCGCAATATGAGTTGAATTTT-AAAACAGAAATTAAAAATACCTCAACGTGTCTT
17244859 GAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAAAGGCTTAACT
320 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACT
17244923 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTC
385 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTC
17244988 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTT
450 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTT
17245053 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
515 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* *
17245092 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
17245157 AATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 AATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
17245222 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
17245287 TCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
195 TCGCAATATGAGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
*
17245352 TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGA
259 TCATTTCTCGCAATATGAGTTGAATTTT-AAAA-CAGAAATTAAAAATACCTCAACGTGTCTTGA
17245417 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCA
322 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCA
17245482 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAA
387 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAA
17245547 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGA
452 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGA
17245612 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
517 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
17245649 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
17245714 GAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
17245779 ATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
17245844 TCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
195 TCGCAATATGAGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
*
17245909 TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGA
259 TCATTTCTCGCAATATGAGTTGAATTTT-AAAA-CAGAAATTAAAAATACCTCAACGTGTCTTGA
17245974 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCA
322 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCA
17246039 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAA
387 CCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAA
17246104 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGA
452 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGA
17246169 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
517 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
17246206 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* *
17246271 GAATTTTGAAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
17246336 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
* * *
17246401 TCGCAATATGAGTTGAATTTTGAAAA-ACAA---AAATTA----AAAG-G-CTT-A-ACTC-AC-
195 TCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
* * * * *
17246452 C---TCTCGAAATATGAG-TCAA-TTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGC
260 CATTTCTCGCAATATGAGTTGAATTTTAAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGGC
* *
17246512 TCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
325 TCAACTCATTTCTCGCAATATGAGTTG-AATTTTGAAAA-A-CAA---AAATTA----AAAG-G-
* * * * * *
17246577 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCT
378 CTT-A-ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-A-AAACATAAACTAAAAATACCT
*
17246642 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
432 CAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
17246707 ATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
497 ATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* *
17246764 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
17246829 AATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 AATTTTGAAAACAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
17246893 ATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
130 ATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
* * * *
17246958 CTCGCAATATGAGTTGAGTTTTGAAAA-ACAA---AAATTA----AAAG-G-CTT-A-ACTC-AC
194 CTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
* * * *
17247010 -C---TCTCGCAATATGAG-TCAA-TTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGG
259 TCATTTCTCGCAATATGAGTTGAATTTTAAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGG
*
17247069 CTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
324 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
*** * **
17247134 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
389 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACT
* * *
17247199 CACTTCTCGCAATATGAGTTG-ATTTTG-AAA-A-AAGTAGAAATTA----AA---------AGG
454 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
* * ** *
17247247 TTCAACCCACCTCTCGCAATATGAGTTGATTTTTG
519 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
* **
17247282 AAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
1 --------AAA--G--CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
* * * **
17247347 CAATATGAGTTGATTTTCTTGAAAATAGAAATT-AAAATTACCTCAGCGTGTCCCGAGGCTCAAC
54 CAATATGAGTTGA-ATT-TTGAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAAC
** * * *
17247411 TCACCTCTCGCAATATGAATTG-ATTTTGAAAA-ACAAA-T---ATTA----AAAG-G-CTT-A-
116 TCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAG
* * * * * **
17247462 ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCGGCGTG
181 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACGTG
* ** * ***** *
17247519 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTTTTTTA-AATTTAAAAATACCTC
245 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAACAGAAATTAAAAATACCTC
17247582 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAA
310 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAA
17247635 CAGAAATAAA
Statistics
Matches: 2372, Mismatches: 102, Indels: 166
0.90 0.04 0.06
Matches are distributed among these distances:
509 4 0.00
510 4 0.00
511 4 0.00
512 14 0.01
514 5 0.00
515 1 0.00
516 2 0.00
517 3 0.00
518 35 0.01
519 4 0.00
520 2 0.00
521 4 0.00
522 3 0.00
523 2 0.00
524 1 0.00
525 3 0.00
526 3 0.00
527 73 0.03
528 14 0.01
529 4 0.00
530 58 0.02
531 25 0.01
532 54 0.02
533 5 0.00
534 6 0.00
535 111 0.05
536 16 0.01
537 7 0.00
538 8 0.00
539 27 0.01
541 6 0.00
542 2 0.00
543 4 0.00
544 6 0.00
545 5 0.00
546 7 0.00
547 5 0.00
548 7 0.00
549 3 0.00
550 2 0.00
551 1 0.00
552 12 0.01
554 16 0.01
555 75 0.03
556 270 0.11
557 1059 0.45
558 390 0.16
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (553 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
CGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
ATTTCTCGCAATATGAGTTGAATTTTAAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCT
CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
TCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCA
TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
CAACTCATTTCTCGCAATATGAGTTGAATTTTG
Found at i:17245949 original size:217 final size:217
Alignment explanation
Indices: 17245470--17246023 Score: 938
Period size: 217 Copynumber: 2.6 Consensus size: 217
17245460 AAAAATTAAA
* ** * * * * *
17245470 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245532 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
*
17245597 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATT
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAACAGAAATT
17245662 GAAAATACCTCAACGTGTCTTG
196 GAAAATACCTCAACGTGTCTTG
17245684 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
*
17245749 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
17245814 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACA-AAGAT
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAACAGAA-AT
*
17245877 TGAAATTACCTCAACGTGTCTTG
195 TGAAAATACCTCAACGTGTCTTG
17245900 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
*
17245965 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17246024 AAAAGGCTTA
Statistics
Matches: 321, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
214 25 0.08
215 5 0.02
216 73 0.23
217 208 0.65
218 10 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (217 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAACAGAAATT
GAAAATACCTCAACGTGTCTTG
Found at i:17246123 original size:123 final size:126
Alignment explanation
Indices: 17245900--17246558 Score: 474
Period size: 123 Copynumber: 5.0 Consensus size: 126
17245890 ACGTGTCTTG
** * * *
17245900 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
17245965 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
17246027 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
17246088 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT-AAA
* ** * ** * *** * *
17246150 TTA-CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAG
1 --AGGCTCAAC-TCACCT--CTCGCAA-T-ATGAGT-TCAAT-T---TTGAA-----A-AG-CAG
* *
17246214 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
47 AAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
*
17246279 AAAACAGAAATTGAAA
112 AAAACAAAAATT-AAA
* * * * * * * * * ** *
17246295 TTA-CCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
1 --AGGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAAGCAGA
* * *
17246359 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
48 AACTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-
17246424 AAAACAAAAATTAAA
112 AAAACAAAAATTAAA
* * * *
17246439 AGGCTTAACTCACCTCTCGAAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
17246500 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-AATTTTGAAAACAAAAATT
17246559 GAAATTACCT
Statistics
Matches: 430, Mismatches: 61, Indels: 86
0.75 0.11 0.15
Matches are distributed among these distances:
122 11 0.03
123 134 0.31
124 19 0.04
125 10 0.02
126 4 0.01
127 29 0.07
128 1 0.00
129 2 0.00
130 2 0.00
131 3 0.01
132 1 0.00
133 2 0.00
134 2 0.00
135 2 0.00
136 5 0.01
137 3 0.01
140 2 0.00
142 2 0.00
143 6 0.01
144 70 0.16
145 103 0.24
146 1 0.00
147 2 0.00
149 1 0.00
150 5 0.01
151 6 0.01
154 1 0.00
155 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:17246169 original size:72 final size:72
Alignment explanation
Indices: 17246027--17246435 Score: 662
Period size: 72 Copynumber: 5.7 Consensus size: 72
17246017 AAAAATTAAA
* ** * * * * * *
17246027 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246089 TGTCTTG
66 TGTCTTG
17246096 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246161 TGTCTTG
66 TGTCTTG
* *
17246168 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
17246233 GTGTCTTG
65 GTGTCTTG
*
17246241 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246306 TGTCTTG
66 TGTCTTG
17246313 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246378 TGTCTTG
66 TGTCTTG
*
17246385 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17246436 AAAAGGCTTA
Statistics
Matches: 319, Mismatches: 16, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
69 25 0.08
70 3 0.01
71 3 0.01
72 207 0.65
73 81 0.25
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:17246286 original size:145 final size:144
Alignment explanation
Indices: 17246027--17246435 Score: 671
Period size: 145 Copynumber: 2.8 Consensus size: 144
17246017 AAAAATTAAA
* ** * * * * *
17246027 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17246089 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
*
17246154 CTCAACGTGTCTTG
131 CTCAACATGTCTTG
*
17246168 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAAC
17246233 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
17246298 CCTCAACATGTCTTG
130 CCTCAACATGTCTTG
*
17246313 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
*
17246378 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17246436 AAAAGGCTTA
Statistics
Matches: 250, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 25 0.10
142 3 0.01
143 3 0.01
144 70 0.28
145 149 0.60
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (144 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACATGTCTTG
Found at i:17246741 original size:72 final size:72
Alignment explanation
Indices: 17246439--17246993 Score: 902
Period size: 72 Copynumber: 7.7 Consensus size: 72
17246429 AAAAATTAAA
* ** * * * * * * *
17246439 AGGCTTAACTCACCTCTCGAAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246501 TGTCTTG
66 TGTCTTG
17246508 AGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTG-AATTTTGAAAACAGAAATTGAAATTACCTCAAC
17246573 GTGTCTTG
65 GTGTCTTG
* *
17246581 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
17246646 GTGTCTTG
65 GTGTCTTG
17246654 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246719 TGTCTTG
66 TGTCTTG
17246726 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
17246791 TGTCTTG
66 TGTCTTG
17246798 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
17246862 GTGTCTTG
65 GTGTCTTG
*
17246870 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
17246935 GTGTCTTG
65 GTGTCTTG
* *
17246943 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
17246994 AAAAGGCTTA
Statistics
Matches: 460, Mismatches: 17, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
69 24 0.05
70 1 0.00
71 4 0.01
72 225 0.49
73 200 0.43
74 6 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:17247055 original size:485 final size:483
Alignment explanation
Indices: 17245539--17247641 Score: 2587
Period size: 485 Copynumber: 4.4 Consensus size: 483
17245529 ATGTGTCTTG
* ** * *
17245539 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTTGAAAACAGAAATTGAAAATACCTCAACG
17245604 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAGCAGAAATTGAAAATA
17245669 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
129 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
*
17245734 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAT
194 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
17245799 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
259 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
17245864 TGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
324 TGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
17245929 TGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
388 TGAATTTTGAAAA-CAGAAATT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
17245994 ATATGAGTTGAATTTTGAAAAACAAAAATTAAA
451 ATATGAGTTGAATTTTGAAAAACAAAAATTAAA
* * * *
17246027 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTT-AAAACATAAACTAAAAATACCTCAATGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
* *
17246090 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACC
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACC
*
17246155 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTG
131 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTG
17246220 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
195 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
*
17246285 GAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
260 GAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
17246350 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
325 GAAAACA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * *
17246415 GAATTTTGAAAAACAAAAATT---A-A----AA-G-G-CTT-A-ACTC-AC-C---TCTCGAAAT
389 GAATTTTG-AAAACAGAAATTAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
* ** *
17246462 ATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAA
453 ATGAGTTGAATTT-TGA-A-AAAC-AAAAAT---TAAA
* * * *
17246499 TGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAACAGAAATTGAAAT
1 AG-G-CTT-A-ACTC-AC-C---TCTCGCAATATGAG-T-CAATTTTGAAAACAGAAATTGAAAA
17246564 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAA
55 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAGCAGAA
17246629 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
119 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
*
17246694 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
184 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
17246759 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
249 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
17246824 AGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
314 AGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
17246889 CAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
378 CAATATGAGTTGAATTTTGAAAA-CAGAAATT-AAAATACCTCAACGTGTCTTGAGGCTCAACTC
*
17246954 ATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
441 ATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAA
* * * *
17246997 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTT-AAAACATAAACTAAAAATACCTCAATGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
* *
17247060 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAA--A-ACA---AAAAT---
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACC
* * * * * * *
17247116 TAAAAG-G-CTT-A-ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAA
131 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
** * ** *
17247169 AAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTG-AAA-A-
196 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
* * * * ** *
17247230 AAGTAGAAATTA----AA---------AGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTG
261 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
**
17247282 AAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
326 -AAAACA-AAATTG---A--AA-T-----TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
* * * **
17247347 CAATATGAGTTGATTTTCTTGAAAATAGAAATTAAAATTACCTCAGCGTGTCCCGAGGCTCAACT
378 CAATATGAGTTGA-ATT-TTGAAAACAGAAATTAAAA-TACCTCAACGTGTCTTGAGGCTCAACT
** * *
17247412 CACCTCTCGCAATATGAATTG-ATTTTGAAAAACAAATATTAAA
440 CATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAA
* * * **
17247455 AGGCTTAACTCACCTCTCGCAATATGAGTCAA-TTT-AAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
* ** * ***** * *
17247518 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG-ATTTT-TTTTTA-AATTTAAAAATACC
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACC
17247580 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
131 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAGAAAT
17247642 AAAAGCATCA
Statistics
Matches: 1428, Mismatches: 104, Indels: 178
0.84 0.06 0.10
Matches are distributed among these distances:
446 33 0.02
447 10 0.01
448 2 0.00
450 1 0.00
452 2 0.00
453 1 0.00
455 2 0.00
457 4 0.00
458 166 0.12
459 61 0.04
460 8 0.01
461 8 0.01
462 6 0.00
463 55 0.04
464 7 0.00
465 10 0.01
466 31 0.02
467 2 0.00
468 7 0.00
469 10 0.01
470 5 0.00
471 6 0.00
472 6 0.00
473 21 0.01
474 8 0.01
475 6 0.00
476 16 0.01
477 2 0.00
478 6 0.00
480 1 0.00
481 17 0.01
482 2 0.00
483 2 0.00
484 81 0.06
485 635 0.44
486 82 0.06
487 5 0.00
488 26 0.02
489 15 0.01
490 1 0.00
492 1 0.00
493 2 0.00
494 5 0.00
495 2 0.00
496 4 0.00
497 4 0.00
498 5 0.00
499 3 0.00
500 2 0.00
501 7 0.00
502 4 0.00
503 1 0.00
504 14 0.01
505 5 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (483 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
AAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAAACAGAAATTAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAATTTTGAAAAACAAAAATTAAA
Found at i:17247093 original size:123 final size:123
Alignment explanation
Indices: 17246870--17247272 Score: 578
Period size: 123 Copynumber: 3.2 Consensus size: 123
17246860 ACGTGTCTTG
* ** * * * *
17246870 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAC
17246935 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
62 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
*
17246997 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGT
17247062 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
** *
17247120 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGT
** *
17247185 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAAA-AGTAGAAATTAAA
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACA--A-AAATTAAA
*
17247244 AGG-TTCAACCCACCTCTCGCAATATGAGT
1 AGGCTT-AACTCACCTCTCGCAATATGAGT
17247273 TGATTTTTGA
Statistics
Matches: 256, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
121 1 0.00
122 10 0.04
123 177 0.69
124 37 0.14
125 3 0.01
126 3 0.01
127 25 0.10
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (123 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAAACAAAAATTAAA
Found at i:17247550 original size:122 final size:126
Alignment explanation
Indices: 17247328--17247559 Score: 328
Period size: 122 Copynumber: 1.9 Consensus size: 126
17247318 ACGTGTCTTG
* * * * *
17247328 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAATAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCA-TATCTTGAAAACAGAAACTAAAAATACCTCAG
*
17247393 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
65 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
* * *
17247455 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-AT-TT-AAAACATAAACTAAAAATACCTCGGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTGAAAACAGAAACTAAAAATACCTCAGC
* *
17247516 GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
17247560 TTTTTAAATT
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
122 62 0.66
123 2 0.02
124 1 0.01
126 2 0.02
127 27 0.29
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCATATCTTGAAAACAGAAACTAAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTGAAAAACAAATATTAAA
Found at i:17247574 original size:69 final size:69
Alignment explanation
Indices: 17247501--17247630 Score: 197
Period size: 69 Copynumber: 1.9 Consensus size: 69
17247491 AAACATAAAC
** *
17247501 TAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTA
1 TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTTA
17247566 AATT
66 AATT
* ** *
17247570 TAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTT
1 TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTT
17247631 GAAACAGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (69 bp):
TAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTTA
AATT
Found at i:17253597 original size:18 final size:18
Alignment explanation
Indices: 17253576--17253687 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 18
17253566 AAGTTTTTTT
*
17253576 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
17253594 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
17253610 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
17253627 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
17253644 AACACGACATTTTTTTTG-A
1 AACACGAGA--ATTTTTGAA
*
17253663 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
17253681 AACACGA
1 AACACGA
17253688 ATTTTTTTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
16 14 0.19
17 28 0.38
18 19 0.26
19 13 0.18
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:17253607 original size:16 final size:16
Alignment explanation
Indices: 17253588--17253650 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
17253578 CACGGGAATT
*
17253588 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
17253604 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
17253620 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
17253637 TTTTTAAAACACGA
1 -TTTGAAAACACGA
17253651 CATTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:17253646 original size:17 final size:17
Alignment explanation
Indices: 17253553--17253688 Score: 80
Period size: 17 Copynumber: 7.9 Consensus size: 17
17253543 GTATTTCTTT
* *
17253553 TTTTTTAAA-ACGAAAG
1 TTTTTAAAACACGAAAA
** **
17253569 TTTTTTTAACACGGGAA
1 TTTTTAAAACACGAAAA
*
17253586 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
17253604 TTTGT-AAACACGAAAA
1 TTTTTAAAACACGAAAA
*
17253620 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
**
17253637 TTTTTAAAACACGACATTT
1 TTTTTAAAACACGA-A-AA
* **
17253656 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
17253673 TTTTTGAAAACACGAA
1 TTTTT-AAAACACGAA
17253689 TTTTTTTTAT
Statistics
Matches: 90, Mismatches: 22, Indels: 14
0.71 0.17 0.11
Matches are distributed among these distances:
15 3 0.03
16 18 0.20
17 31 0.34
18 26 0.29
19 12 0.13
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:17253657 original size:16 final size:16
Alignment explanation
Indices: 17253553--17253693 Score: 72
Period size: 18 Copynumber: 8.3 Consensus size: 16
17253543 GTATTTCTTT
*
17253553 TTTTTTAAA-ACGAAA
1 TTTTTAAAACACGAAA
** *
17253568 GTTTTTTTAACACGGGAA
1 -TTTTTAAAACAC-GAAA
17253586 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGA-AA
*
17253604 TTTGT-AAACACGAAA
1 TTTTTAAAACACGAAA
* *
17253619 ATTTTAGAAACATGAAAA
1 TTTTTA-AAACACG-AAA
*
17253637 TTTTTAAAACACGACATTT
1 TTTTTAAAACACGA-A--A
* *
17253656 TTTTTGAAACACGGGAA
1 TTTTTAAAACAC-GAAA
17253673 TTTTTGAAAACACG-AA
1 TTTTT-AAAACACGAAA
17253689 TTTTT
1 TTTTT
17253694 TTTATTCACG
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
15 5 0.05
16 24 0.25
17 27 0.28
18 28 0.29
19 12 0.12
20 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (16 bp):
TTTTTAAAACACGAAA
Found at i:17253665 original size:19 final size:19
Alignment explanation
Indices: 17253637--17253723 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
17253627 AACATGAAAA
* *
17253637 TTTTTAAAACACGACATTT
1 TTTTTGAAACACGAGATTT
* *
17253656 TTTTTGAAACACGGGA--A
1 TTTTTGAAACACGAGATTT
17253673 TTTTTGAAAACACGA-ATTT
1 TTTTTG-AAACACGAGATTT
** *
17253692 TTTTT-ATTCACGAGAATT
1 TTTTTGAAACACGAGATTT
17253710 TTTTTGAAACACGA
1 TTTTTGAAACACGA
17253724 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
17 13 0.25
18 15 0.29
19 24 0.46
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTTTGAAACACGAGATTT
Found at i:17253714 original size:37 final size:35
Alignment explanation
Indices: 17253593--17253734 Score: 114
Period size: 36 Copynumber: 4.1 Consensus size: 35
17253583 GAATTTTTGA
* ** **
17253593 AAACACGAGAA--TTTGTAAACACGAAAATTTTAG
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
* *
17253626 AAACATGAAAATTTTT-AAAACACGACATTTTTTTT
1 AAACACGAGAATTTTTGAAAACACGA-ATTTTTTTT
*
17253661 GAAACACGGGAATTTTTGAAAACACGAATTTTTTTT
1 -AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
**
17253697 ATTCACGAGAATTTTTTTG-AAACACG-ATTTTTCTTT
1 AAACACGAGAA--TTTTTGAAAACACGAATTTTT-TTT
17253733 AA
1 AA
17253735 CAAATACCGT
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
33 9 0.10
34 8 0.09
35 22 0.25
36 33 0.38
37 15 0.17
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (35 bp):
AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
Found at i:17254316 original size:11 final size:11
Alignment explanation
Indices: 17254300--17254326 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17254290 GTTTTTATTT
17254300 TTTTTAATTAC
1 TTTTTAATTAC
17254311 TTTTTAATTAC
1 TTTTTAATTAC
17254322 TTTTT
1 TTTTT
17254327 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:17254337 original size:10 final size:10
Alignment explanation
Indices: 17254324--17254376 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
17254314 TTAATTACTT
17254324 TTTTTCTTTC
1 TTTTTCTTTC
17254334 TTTTTCTTTC
1 TTTTTCTTTC
17254344 TCTTTT-TTTC
1 T-TTTTCTTTC
17254354 TTTCTT-TTTC
1 TTT-TTCTTTC
*
17254364 TTCTTCTCTTC
1 TTTTTCT-TTC
17254375 TT
1 TT
17254377 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 4 0.11
10 25 0.66
11 9 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:17254338 original size:24 final size:24
Alignment explanation
Indices: 17254320--17254365 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
17254310 CTTTTTAATT
17254320 ACTTTTTTTCTTTCTTTTTCTTTC
1 ACTTTTTTTCTTTCTTTTTCTTTC
*
17254344 TCTTTTTTTCTTTCTTTTTCTT
1 ACTTTTTTTCTTTCTTTTTCTT
17254366 CTTCTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (24 bp):
ACTTTTTTTCTTTCTTTTTCTTTC
Found at i:17254343 original size:14 final size:13
Alignment explanation
Indices: 17254322--17254373 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 13
17254312 TTTTAATTAC
17254322 TTTT-TTTCTTTCT
1 TTTTCTTTCTTT-T
17254335 TTTTCTTTCTCTTT
1 TTTTCTTTCT-TTT
17254349 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
*
17254362 TCTTCTTCTCTT
1 TTTTCTT-TCTT
17254374 CTTCTTGTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
13 13 0.37
14 20 0.57
15 2 0.06
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:17254378 original size:24 final size:24
Alignment explanation
Indices: 17254327--17254379 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
17254317 ATTACTTTTT
* *
17254327 TTCTTTCTTTTTCTTTCTCTTTTT
1 TTCTTTCTTTTTCTTTCTCTCTTC
17254351 TTCTTTCTTTTTC-TTCTTCTCTTC
1 TTCTTTCTTTTTCTTTC-TCTCTTC
17254375 TTCTT
1 TTCTT
17254380 GTCTCAAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTCTTTTTCTTTCTCTCTTC
Found at i:17254981 original size:30 final size:30
Alignment explanation
Indices: 17254942--17255043 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
17254932 ATTTAGGATT
*
17254942 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * * *
17254972 TAAGTGAAATTTAAAGAAAGTTTAAGAGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
17255002 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
17255032 AAAATGCAATTT
1 AAAATGAAATTT
17255044 TTATTTTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:17267787 original size:55 final size:55
Alignment explanation
Indices: 17267727--17267832 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
17267717 CAAAGTTGTA
* * *
17267727 CACGGGTAGGCCA-CACGGGTGTGCGTCATGGCCTTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGG-CAGCACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
* * *
17267782 CACGGGCAGGCAGCACGGGTGTGTGCCATGGCCGTGTTAATAAGTCAGTGT
1 CACGGGCAGGCAGCACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGT
17267833 TGCCCAAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 2 0.05
55 42 0.95
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.22
Consensus pattern (55 bp):
CACGGGCAGGCAGCACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
Found at i:17270041 original size:27 final size:28
Alignment explanation
Indices: 17270011--17270063 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
17270001 TTTTAAAATG
*
17270011 TCATAAAGAG-AATTTAGAATAAATATT
1 TCATAAAAAGTAATTTAGAATAAATATT
*
17270038 TCATAAAAAGTAATTTGGAATAAATA
1 TCATAAAAAGTAATTTAGAATAAATA
17270064 ATACATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (28 bp):
TCATAAAAAGTAATTTAGAATAAATATT
Found at i:17270070 original size:28 final size:27
Alignment explanation
Indices: 17270012--17270070 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
17270002 TTTAAAATGT
* * *
17270012 CATAAAGAGAATTTAGAATAAATATTT
1 CATAAAAAGAATTTAGAATAAATAATA
*
17270039 CATAAAAAGTAATTTGGAATAAATAATA
1 CATAAAAAG-AATTTAGAATAAATAATA
17270067 CATA
1 CATA
17270071 TATAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (27 bp):
CATAAAAAGAATTTAGAATAAATAATA
Found at i:17276457 original size:18 final size:18
Alignment explanation
Indices: 17276434--17276473 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17276424 ATATTTAATT
* *
17276434 AATTTAAAAAAATTATAA
1 AATTTAAAAAAAATAAAA
17276452 AATTTAAAAAAAATAAAA
1 AATTTAAAAAAAATAAAA
17276470 AATT
1 AATT
17276474 AAGAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTTAAAAAAAATAAAA
Found at i:17276514 original size:20 final size:20
Alignment explanation
Indices: 17276489--17276529 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17276479 TCATTATCAT
17276489 TATTTTAAAAGTATAAAAAA
1 TATTTTAAAAGTATAAAAAA
* * *
17276509 TATTTTTAAATTTTAAAAAA
1 TATTTTAAAAGTATAAAAAA
17276529 T
1 T
17276530 TAATTAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTTTAAAAGTATAAAAAA
Found at i:17280371 original size:27 final size:27
Alignment explanation
Indices: 17280333--17280387 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17280323 TTTGTCAAAG
17280333 TCCATTTTTCTGGCTTATATTTTCACC
1 TCCATTTTTCTGGCTTATATTTTCACC
17280360 TCCATTTTTCTGGCTTATATTTTCACC
1 TCCATTTTTCTGGCTTATATTTTCACC
17280387 T
1 T
17280388 AAACTCTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.25, G:0.07, T:0.53
Consensus pattern (27 bp):
TCCATTTTTCTGGCTTATATTTTCACC
Found at i:17286407 original size:3 final size:3
Alignment explanation
Indices: 17286399--17286426 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17286389 AAAGGTATTG
17286399 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17286427 GATATTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17286538 original size:30 final size:30
Alignment explanation
Indices: 17286502--17286564 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
17286492 ATGAACAACA
17286502 ATTGAATTTTATGTGACTTTAATTTAACTC
1 ATTGAATTTTATGTGACTTTAATTTAACTC
17286532 ATTGAATTTTATGTGACTTTAATTTAACTC
1 ATTGAATTTTATGTGACTTTAATTTAACTC
17286562 ATT
1 ATT
17286565 TAAATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (30 bp):
ATTGAATTTTATGTGACTTTAATTTAACTC
Found at i:17291477 original size:137 final size:136
Alignment explanation
Indices: 17291231--17291516 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
17291221 CATTGGGCCT
** *
17291231 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAACCCTTTTCAGATTACAATAAACTGGGCCTT
* *
17291296 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGT-AA
17291361 CATATGC
130 CATATGC
17291368 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAACCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAACCCTTTTCAGATTACAATAAACTGGGCCTT
*
17291433 AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCTATTTCAAAATACATGCAACATCAGTAAC
66 AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
17291498 ATATGC
131 ATATGC
17291504 AAGCCCATTTGGG
1 AAGCCCATTTGGG
17291517 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:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAACCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
ATATGC
Found at i:17291801 original size:25 final size:26
Alignment explanation
Indices: 17291764--17291816 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
17291754 TCAAACATGC
17291764 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
17291790 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
17291816 A
1 A
17291817 AAACTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:17293345 original size:26 final size:26
Alignment explanation
Indices: 17293306--17293413 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
17293296 TGAAATTCTG
17293306 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
17293332 ATTATGAAACATTTACTTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
17293358 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
* * *
17293384 ATCAAGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
17293410 ATCA
1 ATCA
17293414 ATTTGTATCA
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:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:17295540 original size:26 final size:27
Alignment explanation
Indices: 17295504--17295556 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
17295494 CCCCCTCCCA
17295504 AAAAACCTAA-CCCCCCAAAAAAAAAG
1 AAAAACCTAACCCCCCCAAAAAAAAAG
17295530 AAAAACCTAACCCCCCCCAAAAAAAAA
1 AAAAACCTAA-CCCCCCCAAAAAAAAA
17295557 CCAAGAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 10 0.40
28 15 0.60
ACGTcount: A:0.60, C:0.34, G:0.02, T:0.04
Consensus pattern (27 bp):
AAAAACCTAACCCCCCCAAAAAAAAAG
Found at i:17296576 original size:15 final size:17
Alignment explanation
Indices: 17296548--17296579 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17296538 TTGTATATAT
17296548 TATATTTATATTATGTA
1 TATATTTATATTATGTA
17296565 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
17296580 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:17298397 original size:12 final size:12
Alignment explanation
Indices: 17298380--17298415 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
17298370 ATTCATTTGA
17298380 CATTCATGCATT
1 CATTCATGCATT
*
17298392 CATTCATGCATC
1 CATTCATGCATT
*
17298404 CATTCATTCATT
1 CATTCATGCATT
17298416 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:17298409 original size:16 final size:17
Alignment explanation
Indices: 17298388--17298419 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17298378 GACATTCATG
17298388 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
17298404 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
17298420 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:17305250 original size:53 final size:53
Alignment explanation
Indices: 17305190--17305387 Score: 159
Period size: 53 Copynumber: 3.5 Consensus size: 53
17305180 TTTTAAATTG
*
17305190 ACTCATATTACGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* * * * *
17305243 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG-TTTT--AAATT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTTTTCAAAATC
*
17305305 G
53 A
* *
17305306 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
17305359 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
17305388 CGAGGCACAC
Statistics
Matches: 112, Mismatches: 17, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
50 1 0.01
51 9 0.08
53 57 0.51
54 1 0.01
62 2 0.02
63 31 0.28
65 10 0.09
66 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:17305320 original size:116 final size:116
Alignment explanation
Indices: 17305103--17305408 Score: 533
Period size: 116 Copynumber: 2.6 Consensus size: 116
17305093 GTTGAGGTAT
* * *
17305103 TTTTAATTGTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
17305167 GAGGTATTTTTAGTTTTAAATTGACTCATATTACGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTACGAGAGGTGAGTTAAGCC
17305218 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
17305283 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTACGAGAGGTGAGTTAAGCC
* * * *
17305334 TTTTTATTTTGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGGCACACT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
17305399 GAGGTATTTT
66 GAGGTATTTT
17305409 CAATTTTTGT
Statistics
Matches: 182, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 11 0.06
116 171 0.94
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (116 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTTAGTTTTAAATTGACTCATATTACGAGAGGTGAGTTAAGCC
Found at i:17305449 original size:188 final size:196
Alignment explanation
Indices: 17305218--17305620 Score: 488
Period size: 199 Copynumber: 2.1 Consensus size: 196
17305208 GAGTTAAGCC
* ** * *
17305218 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGA
** *
17305282 TGAGGT-A-TT-TTT-AGTTT-T-A-AATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTT
66 TGAGGTAATTTATTTCAGTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTA
*** * *
17305339 ATTT-TGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGG-CACACTGAG
130 ATTTCTACCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACACCGAG
17305402 GTA
194 GTA
**
17305405 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
* *
17305469 ATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
65 ATGAGGTAATTT--ATTTCAGTTTGT-AAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTT
* *
17305534 TTAATTTCTACCTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCG
127 TTAATTTCTACCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCG
17305599 AGGTA
192 AGGTA
*
17305604 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
17305621 CATTATTATG
Statistics
Matches: 181, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
187 4 0.02
188 54 0.30
189 5 0.03
190 2 0.01
193 3 0.02
194 4 0.02
195 1 0.01
197 1 0.01
198 41 0.23
199 66 0.36
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (196 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGA
TGAGGTAATTTATTTCAGTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAA
TTTCTACCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGT
A
Found at i:17305456 original size:72 final size:73
Alignment explanation
Indices: 17305345--17305528 Score: 232
Period size: 72 Copynumber: 2.5 Consensus size: 73
17305335 TTTTATTTTG
* * * * *
17305345 GTTTTTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGGCAC-ACTGAGGTATTT
1 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGA-TGAGGTAATT
*
17305408 TCAATTTTT
65 TCAATTTCT
* **
17305417 GTGTT-TTAA-TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATT
1 GT-TTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATT
17305480 TCAATTTCT
65 TCAATTTCT
*
17305489 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
17305529 ACCTTTTAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
71 2 0.02
72 64 0.67
73 30 0.31
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (73 bp):
GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTT
CAATTTCT
Found at i:17305828 original size:55 final size:56
Alignment explanation
Indices: 17305768--17305889 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 56
17305758 TGAGGTATTC
* *
17305768 TTAATTTTTGTTGTTTC-AAAAA-TCAACTCATGTTGCGAGAGGTGAGTTAAGCCTT
1 TTAATTTCTGTT-TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
* *
17305823 TTAATTTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTAATTTCTGTTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
17305880 TTAATTTCTG
1 TTAATTTCTG
17305890 CGAGAGTCGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 4 0.07
55 11 0.18
56 5 0.08
57 40 0.67
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (56 bp):
TTAATTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
Found at i:17305894 original size:30 final size:30
Alignment explanation
Indices: 17305858--17305919 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
17305848 CAACTCATAT
17305858 TGCGAGAGGT-GAGTTGAG-CTTTTTAATTTC
1 TGCGAGA-GTCGAGTTGAGTC-TTTTAATTTC
17305888 TGCGAGAGTCGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGTCGAGTTGAGTCTTTTAATTTC
17305918 TG
1 TG
17305920 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 2 0.07
30 27 0.90
31 1 0.03
ACGTcount: A:0.19, C:0.11, G:0.29, T:0.40
Consensus pattern (30 bp):
TGCGAGAGTCGAGTTGAGTCTTTTAATTTC
Found at i:17306811 original size:28 final size:28
Alignment explanation
Indices: 17306744--17306811 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
17306734 AAGCCCCCTC
*
17306744 CCAA-AAAACCTAACCCTCAAAAAAAAA
1 CCAAGAAAACCTAACCCCCAAAAAAAAA
* *
17306771 -AAAGAAAAACCTAACCCCCCAAAAAAAA
1 CCAAG-AAAACCTAACCCCCAAAAAAAAA
*
17306799 CCAAGAAACCCTA
1 CCAAGAAAACCTA
17306812 GCCACCTAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 2 0.06
28 28 0.85
29 3 0.09
ACGTcount: A:0.60, C:0.31, G:0.03, T:0.06
Consensus pattern (28 bp):
CCAAGAAAACCTAACCCCCAAAAAAAAA
Found at i:17307818 original size:15 final size:17
Alignment explanation
Indices: 17307790--17307821 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
17307780 TTGTATATAT
17307790 TATATTTATATTATGTA
1 TATATTTATATTATGTA
17307807 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
17307822 CGTTTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:17309010 original size:27 final size:27
Alignment explanation
Indices: 17308954--17309066 Score: 97
Period size: 27 Copynumber: 4.2 Consensus size: 27
17308944 GAAATCTGTC
* **
17308954 AGGACTATCTTAA-GTGAGAAGTCCTTT
1 AGGACAATCTTAATGTG-GAAGTCCGCT
*
17308981 AGGACAATCATAATGTGGAAGTCCGCT
1 AGGACAATCTTAATGTGGAAGTCCGCT
*
17309008 AGGAAAAT-TGTAATGTGGAAGTCCG-T
1 AGGACAATCT-TAATGTGGAAGTCCGCT
* * * *
17309034 CAAGACAATCTTAATGTAGAAGTCTGCC
1 -AGGACAATCTTAATGTGGAAGTCCGCT
17309062 AGGAC
1 AGGAC
17309067 GATTGTATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.01
27 64 0.93
28 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (27 bp):
AGGACAATCTTAATGTGGAAGTCCGCT
Found at i:17309072 original size:54 final size:54
Alignment explanation
Indices: 17308901--17309073 Score: 145
Period size: 54 Copynumber: 3.2 Consensus size: 54
17308891 AGTCCGTTAA
* * * * * *
17308901 GACAATTGCAATATGGAAGTCCGTC-AGAATAATCTTAACGTAAGAAATCTGTCAG
1 GACAATTGTAATGTGGAAGTCCGTCAAG-ACAATCTTAATGT-AGAAGTCTGCCAG
* * * * * * * *
17308956 GACTATCT-TAA-GTGAGAAGTCCTTTAGGACAATCATAATGTGGAAGTCCGCTAG
1 GACAAT-TGTAATGTG-GAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
*
17309010 GAAAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
1 GACAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
*
17309064 GACGATTGTA
1 GACAATTGTA
17309074 TTTGGGAAGT
Statistics
Matches: 88, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
53 1 0.01
54 57 0.65
55 28 0.32
56 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (54 bp):
GACAATTGTAATGTGGAAGTCCGTCAAGACAATCTTAATGTAGAAGTCTGCCAG
Found at i:17328496 original size:24 final size:27
Alignment explanation
Indices: 17328469--17328523 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
17328459 CAGATTTTAT
*
17328469 AAAATAT-ATTTGT-CCAAATATATA-
1 AAAATATAATTTATACCAAATATATAG
*
17328493 AAAATATAATTTATATCAAATATATAG
1 AAAATATAATTTATACCAAATATATAG
17328520 AAAA
1 AAAA
17328524 GGTATAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 10 0.38
27 4 0.15
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATATAATTTATACCAAATATATAG
Found at i:17331045 original size:22 final size:22
Alignment explanation
Indices: 17331003--17331045 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17330993 AATATACATT
*
17331003 CTTAATGATATAGGAAAGGTTG
1 CTTAATGATATAAGAAAGGTTG
* *
17331025 CTTAATGATGTAAGAAGGGTT
1 CTTAATGATATAAGAAAGGTT
17331046 ACTAGAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (22 bp):
CTTAATGATATAAGAAAGGTTG
Found at i:17337272 original size:57 final size:57
Alignment explanation
Indices: 17337193--17337420 Score: 282
Period size: 56 Copynumber: 4.0 Consensus size: 57
17337183 ATTTTTCAGA
* * * * *
17337193 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAGTGA-TTCCATTTCCCCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCA-TT
* * * * * *
17337250 TCATTTTCATTCTGGACAAAACCATAATAATTTCCAAGT-ATTTCAACTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
*
17337306 TCATTTTCATTTTGGAGAAATCCATAATCATTTCCAAATG-TTTCCATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
* * *
17337362 TCGTTTTCATTTTGGAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCC-ATTTCTCCATT
17337420 T
1 T
17337421 TCACCAATTC
Statistics
Matches: 147, Mismatches: 20, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
56 87 0.59
57 48 0.33
58 12 0.08
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.43
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTCCATT
Found at i:17337406 original size:113 final size:114
Alignment explanation
Indices: 17337193--17337420 Score: 289
Period size: 113 Copynumber: 2.0 Consensus size: 114
17337183 ATTTTTCAGA
* * *
17337193 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAGTGATTCCATTTCCCCATTTTCATTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
*
17337258 ATTCTGGACAAAACCATAATAATTTCCAAGTATTT-CAACTTCTCCATT
66 ATTCTGGACAAAACCATAATAATTTCCAAATATTTCCAACTTCTCCATT
* * * * *
17337306 TCATTTTCATTTTGGAGAAATCCATAATCATTTCCAAATGTTTCCATTTCTCCA-TTTCGTTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
* * * * * * *
17337370 ATTTTGGAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
66 ATTCTGGACAAAACCATAATAATTTCCAAAT-ATTTCCAACTTCTCCATT
17337420 T
1 T
17337421 TCACCAATTC
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
112 34 0.35
113 51 0.53
114 12 0.12
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.43
Consensus pattern (114 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCCCCATTTTCATTTTC
ATTCTGGACAAAACCATAATAATTTCCAAATATTTCCAACTTCTCCATT
Found at i:17339166 original size:19 final size:19
Alignment explanation
Indices: 17339129--17339166 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17339119 ATCTGGATTC
*
17339129 AAGAACACTTTCTTTTTCT
1 AAGAACACTTTCTTCTTCT
17339148 AAGAACA-TTTCTCTCTTCT
1 AAGAACACTTTCT-TCTTCT
17339167 TGTTTTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (19 bp):
AAGAACACTTTCTTCTTCT
Found at i:17344872 original size:3 final size:3
Alignment explanation
Indices: 17344817--17344911 Score: 79
Period size: 3 Copynumber: 32.0 Consensus size: 3
17344807 TATTTACTTA
* * * * *
17344817 TAT TAT TACT TA- TAT TGT TAT TAC TAT TAT CAT TAT GATT TAT TAG
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
17344863 T-T TAT TAT TAT CAT TAT TAC TAC TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17344909 TAT
1 TAT
17344912 ATTTTTGCCC
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
2 5 0.07
3 63 0.86
4 5 0.07
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17355624 original size:30 final size:31
Alignment explanation
Indices: 17355590--17355691 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
17355580 TTAAAAATAA
*
17355590 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
17355620 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
17355650 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
17355680 AAATTTCATTTT
1 AAATTTCATTTT
17355692 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:17356084 original size:3 final size:3
Alignment explanation
Indices: 17356076--17356121 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
17356066 GCTAGACTTT
*
17356076 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA
17356122 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17356094 original size:10 final size:10
Alignment explanation
Indices: 17356079--17356107 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17356069 AGACTTTGAA
17356079 GAAGAAGAAG
1 GAAGAAGAAG
17356089 GAAGAAGAAG
1 GAAGAAGAAG
17356099 GAAGAAGAA
1 GAAGAAGAA
17356108 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:17356094 original size:13 final size:13
Alignment explanation
Indices: 17356076--17356121 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
17356066 GCTAGACTTT
17356076 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
17356089 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
17356102 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
17356113 GAAGAAGAA
1 GAAGAAGAA
17356122 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:17356119 original size:24 final size:24
Alignment explanation
Indices: 17356076--17356135 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
17356066 GCTAGACTTT
* *
17356076 GAAGAAGAAGA-AGGAAGAAGAAG
1 GAAGAAGAAAAGAGGAAGAAGAAA
17356099 GAAGAAGAAAAGAGGAAGAAGAAA
1 GAAGAAGAAAAGAGGAAGAAGAAA
* *
17356123 GAAAAAAAAAAGA
1 GAAGAAGAAAAGA
17356136 AAAATCCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAGAAGAAAAGAGGAAGAAGAAA
Found at i:17356245 original size:14 final size:14
Alignment explanation
Indices: 17356217--17356255 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
17356207 GCAGCCCAAG
17356217 AAAAAAACAACAAA
1 AAAAAAACAACAAA
17356231 AATAAAAACAA-AAA
1 AA-AAAAACAACAAA
17356245 AAAAGAAACAA
1 AAAA-AAACAA
17356256 GCCCAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAAAACAACAAA
Found at i:17356411 original size:14 final size:14
Alignment explanation
Indices: 17356392--17356461 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
17356382 GGCCCAGCAG
17356392 AGAAAAAAAAGAAA
1 AGAAAAAAAAGAAA
*
17356406 AGAAAAAGAAGAAAA
1 AGAAAAAAAAG-AAA
* **
17356421 AGAGAAGGAA-AAA
1 AGAAAAAAAAGAAA
17356434 AGAAGGAAAAAAGAAA
1 AGAA--AAAAAAGAAA
17356450 A-AAGAAAAAAGA
1 AGAA-AAAAAAGA
17356462 GGTTCAATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.13
14 19 0.41
15 17 0.37
16 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAGAAA
Found at i:17356426 original size:22 final size:22
Alignment explanation
Indices: 17356392--17356458 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 22
17356382 GGCCCAGCAG
17356392 AGAA-AAAAA-AGAAAAGAAAA
1 AGAAGAAAAAGAGAAAAGAAAA
*
17356412 AGAAGAAAAAGAG-AAGGAAAAA
1 AGAAGAAAAAGAGAAAAG-AAAA
*
17356434 AGAAGGAAAAAAGAAAAAAGAAAA
1 AGAA-G-AAAAAGAGAAAAGAAAA
17356458 A
1 A
17356459 AGAGGTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.11
21 8 0.21
22 10 0.26
23 1 0.03
24 12 0.32
25 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AGAAGAAAAAGAGAAAAGAAAA
Found at i:17356437 original size:11 final size:11
Alignment explanation
Indices: 17356408--17356448 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
17356398 AAAAGAAAAG
17356408 AAAAAGAA-GA
1 AAAAAGAAGGA
17356418 AAAAGAGAAGGA
1 AAAA-AGAAGGA
17356430 AAAAAGAAGGA
1 AAAAAGAAGGA
17356441 AAAAAGAA
1 AAAAAGAA
17356449 AAAAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.14
11 19 0.66
12 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAAGAAGGA
Found at i:17356842 original size:21 final size:20
Alignment explanation
Indices: 17356809--17356852 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
17356799 CTCGGGTTTC
17356809 AAAATTTTCGTG-TCTTCAA
1 AAAATTTTCGTGTTCTTCAA
*
17356828 AAAATTTTCTCGTGTTTTTCAA
1 AAAA-TTT-TCGTGTTCTTCAA
17356850 AAA
1 AAA
17356853 TAAGGTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 5 0.24
22 9 0.43
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (20 bp):
AAAATTTTCGTGTTCTTCAA
Found at i:17356987 original size:18 final size:18
Alignment explanation
Indices: 17356966--17357032 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
17356956 AAAATTTTTC
17356966 GTGTTTTCAAAAATTCCT
1 GTGTTTTCAAAAATTCCT
* *
17356984 GTG-TTGCAAAAATTTTCAT
1 GTGTTTTCAAAAA--TTCCT
17357003 GT-TTTTCAAAAATT-CT
1 GTGTTTTCAAAAATTCCT
17357019 CGTGTTTTCAAAAA
1 -GTGTTTTCAAAAA
17357033 AATTCCAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.30
18 13 0.32
19 14 0.35
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (18 bp):
GTGTTTTCAAAAATTCCT
Found at i:17357024 original size:36 final size:37
Alignment explanation
Indices: 17356956--17357171 Score: 141
Period size: 36 Copynumber: 6.1 Consensus size: 37
17356946 TAAAAATCGG
* *
17356956 AAAATTTTTC-GTGTTTTCAAAAATTC-C-TGTGTTGC-
1 AAAAATTTTCTGT-TTTTCAAAAATTCTCGTGT-TTTCA
17356991 AAAAATTTTCATGTTTTTCAAAAATTCTCGTGTTTTCA
1 AAAAATTTTC-TGTTTTTCAAAAATTCTCGTGTTTTCA
* *** * * *
17357029 AAAAA-ATTCCAATTTTCAAAATTTTTCGTGTTTTCT
1 AAAAATTTTCTGTTTTTCAAAAATTCTCGTGTTTTCA
* * *
17357065 AAAAA-CTTCTGTGTTTCAAAAATTTTCGTG-TTTC-
1 AAAAATTTTCTGTTTTTCAAAAATTCTCGTGTTTTCA
* * * *
17357099 TAAAATTTTC-GTATTTCAAAAATTTTCTTGTTTTC-
1 AAAAATTTTCTGTTTTTCAAAAATTCTCGTGTTTTCA
* * * *
17357134 -AAATTTTTC-GTATTTAAAAAATCCTCGTGTTTTCA
1 AAAAATTTTCTGTTTTTCAAAAATTCTCGTGTTTTCA
17357169 AAA
1 AAA
17357172 TTCCAGTGTT
Statistics
Matches: 148, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
34 51 0.34
35 20 0.14
36 60 0.41
37 9 0.06
38 8 0.05
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (37 bp):
AAAAATTTTCTGTTTTTCAAAAATTCTCGTGTTTTCA
Found at i:17357062 original size:18 final size:18
Alignment explanation
Indices: 17356956--17357308 Score: 182
Period size: 17 Copynumber: 19.9 Consensus size: 18
17356946 TAAAAATCGG
*
17356956 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
17356974 AAAAA--TTCCTGTGTTGC
1 AAAAATTTTCGTGT-TTTC
*
17356991 AAAAATTTTCATGTTTTTC
1 AAAAATTTTCGTG-TTTTC
*
17357010 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** ***
17357028 AAAAAAATTCCAATTTTC
1 AAAAATTTTCGTGTTTTC
*
17357046 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
17357064 TAAAAA-CTTC-TGTGTTTC
1 -AAAAATTTTCGTGT-TTTC
17357082 AAAAATTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
17357099 TAAAATTTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
17357116 AAAAATTTTCTTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
17357134 -AAATTTTTCGT-ATTTA
1 AAAAATTTTCGTGTTTTC
**
17357150 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
17357168 -AAAA-TTCCAGTG-TTTC
1 AAAAATTTTC-GTGTTTTC
*
17357184 AAAATTTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
** **
17357201 AAAAAAAAATTCCCGTTTTCC
1 --AAAAATTTTCGTGTTTT-C
* *
17357222 AAAAACTTTCGCGTTTT-
1 AAAAATTTTCGTGTTTTC
**
17357239 AAGAAATTGACCGTG-TTTC
1 AA-AAATT-TTCGTGTTTTC
*
17357258 ATAAATTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
17357275 AAAGAAATCTCGT-ATTTC
1 AAA-AATTTTCGTGTTTTC
17357293 -AAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTT
17357309 TTTAAAAAAT
Statistics
Matches: 249, Mismatches: 61, Indels: 51
0.69 0.17 0.14
Matches are distributed among these distances:
16 21 0.08
17 96 0.39
18 76 0.31
19 51 0.20
20 4 0.02
21 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:17357349 original size:17 final size:16
Alignment explanation
Indices: 17357308--17357365 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
17357298 TTTCGTGTTT
17357308 TTTTAAAAAATTTGTA
1 TTTTAAAAAATTTGTA
*
17357324 TTTCT-AAAATTCTTGTA
1 TTT-TAAAAAAT-TTGTA
*
17357341 TTTTAAAAAATTCGT-
1 TTTTAAAAAATTTGTA
*
17357356 GTTTAAAAAA
1 TTTTAAAAAA
17357366 AAAGGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.26
16 12 0.34
17 14 0.40
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (16 bp):
TTTTAAAAAATTTGTA
Found at i:17358387 original size:21 final size:22
Alignment explanation
Indices: 17358356--17358396 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17358346 AGACCATACT
* *
17358356 CTCTACCACCATCTTCCAAAGA
1 CTCTACCACCACCATCCAAAGA
17358378 CTCT-CCACCACCATCCAAA
1 CTCTACCACCACCATCCAAA
17358397 CACCCTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.46, G:0.02, T:0.20
Consensus pattern (22 bp):
CTCTACCACCACCATCCAAAGA
Found at i:17361047 original size:22 final size:22
Alignment explanation
Indices: 17361022--17361063 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17361012 TTTCTCATAT
*
17361022 AATCATAAAAATTTATAAAAAA
1 AATCATAAAAATATATAAAAAA
17361044 AATCATAAAAATATATAAAA
1 AATCATAAAAATATATAAAA
17361064 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AATCATAAAAATATATAAAAAA
Found at i:17361053 original size:10 final size:9
Alignment explanation
Indices: 17361040--17361180 Score: 60
Period size: 9 Copynumber: 15.0 Consensus size: 9
17361030 AAATTTATAA
17361040 AAAAAATCAT
1 AAAAAAT-AT
17361050 -AAAAATAT
1 AAAAAATAT
*
17361058 ATAAAATAT
1 AAAAAATAT
*
17361067 TAAAAATA-
1 AAAAAATAT
*
17361075 AATAAACTTAT
1 AA-AAA-ATAT
17361086 AAAAAATAT
1 AAAAAATAT
17361095 AGAAAAATGAT
1 A-AAAAAT-AT
17361106 AAAAAAATATTT
1 -AAAAAATA--T
*
17361118 AAAGAATCCAT
1 AAAAAAT--AT
*
17361129 AAAAACT-T
1 AAAAAATAT
17361137 -AAAAATAT
1 AAAAAATAT
*
17361145 AGAAAA-A-
1 AAAAAATAT
*
17361152 AAAAACTAAT
1 AAAAAAT-AT
*
17361162 AAAACATAT
1 AAAAAATAT
17361171 AAAAACATAT
1 AAAAA-ATAT
17361181 TTAAAGTATA
Statistics
Matches: 98, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
7 9 0.09
8 6 0.06
9 37 0.38
10 21 0.21
11 22 0.22
12 2 0.02
13 1 0.01
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:17361070 original size:18 final size:18
Alignment explanation
Indices: 17361049--17361100 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
17361039 AAAAAAATCA
17361049 TAAAAATATATAAAATAT
1 TAAAAATATATAAAATAT
* *
17361067 TAAAAATAAATAAACTTAT
1 TAAAAATATATAAA-ATAT
* *
17361086 AAAAAATATAGAAAA
1 TAAAAATATATAAAA
17361101 ATGATAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAATATATAAAATAT
Found at i:17361071 original size:28 final size:27
Alignment explanation
Indices: 17361040--17361115 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
17361030 AAATTTATAA
*
17361040 AAAAAATCATAAAAATATATAAAATAT
1 AAAAAATAATAAAAATATATAAAATAT
* ** *
17361067 TAAAAATAAATAAACTTATAAAAAATAT
1 AAAAAAT-AATAAAAATATATAAAATAT
* *
17361095 AGAAAAATGATAAAAAAATAT
1 A-AAAAATAATAAAAATATAT
17361116 TTAAAGAATC
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
27 6 0.17
28 24 0.67
29 6 0.17
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAAAATAATAAAAATATATAAAATAT
Found at i:17361155 original size:23 final size:24
Alignment explanation
Indices: 17361129--17361175 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
17361119 AAGAATCCAT
17361129 AAAAACT-TAAAA-ATATAGAAAAA
1 AAAAACTATAAAACATATA-AAAAA
17361152 AAAAACTAATAAAACATATAAAAA
1 AAAAACT-ATAAAACATATAAAAA
17361176 CATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAAACTATAAAACATATAAAAAA
Found at i:17361165 original size:24 final size:23
Alignment explanation
Indices: 17361129--17361175 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
17361119 AAGAATCCAT
* *
17361129 AAAAACTTAAAAATATAGAAAAA
1 AAAAACTAAAAAACATAGAAAAA
*
17361152 AAAAACTAATAAAACATATAAAAA
1 AAAAACTAA-AAAACATAGAAAAA
17361176 CATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAAACTAAAAAACATAGAAAAA
Found at i:17362225 original size:25 final size:24
Alignment explanation
Indices: 17362197--17362251 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
17362187 ACATGAAATA
17362197 ATAAAAGAAATATATAACAAATAAC
1 ATAAAAG-AATATATAACAAATAAC
* * **
17362222 ATAAAAGTATATGTATGAAATAAC
1 ATAAAAGAATATATAACAAATAAC
17362246 ATAAAA
1 ATAAAA
17362252 ATATATGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAAAAGAATATATAACAAATAAC
Found at i:17362665 original size:9 final size:9
Alignment explanation
Indices: 17362647--17362689 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
17362637 TATTATACAT
*
17362647 TAATACATA
1 TAATAAATA
17362656 TAATAAATA
1 TAATAAATA
* *
17362665 TATTTAATA
1 TAATAAATA
17362674 TAATAAATA
1 TAATAAATA
17362683 TAA-AAAT
1 TAATAAAT
17362690 TAAAATTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATAAATA
Found at i:17363320 original size:14 final size:15
Alignment explanation
Indices: 17363295--17363323 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17363285 TCTACTTTTT
17363295 TTCTTATTTTTTGTA
1 TTCTTATTTTTTGTA
17363310 TTCTT-TTTTTTGTA
1 TTCTTATTTTTTGTA
17363324 CTATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (15 bp):
TTCTTATTTTTTGTA
Found at i:17364694 original size:107 final size:108
Alignment explanation
Indices: 17364487--17364808 Score: 538
Period size: 107 Copynumber: 3.0 Consensus size: 108
17364477 GATCCGAGGC
* *
17364487 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
* * *
17364552 CTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATGT
66 CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
17364595 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
17364659 CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
66 CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
*
17364702 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTAAAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
* * * *
17364767 CTCGCAATATGAGTTGGTTTTTTAAAAAATATAAATTGAAAG
66 CTCGCAATATGAGTT-GATTTTTGAAAAACATAAATTAAAAG
17364809 AATAGAAATT
Statistics
Matches: 202, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
107 102 0.50
108 78 0.39
109 22 0.11
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (108 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
Found at i:17364752 original size:161 final size:161
Alignment explanation
Indices: 17364487--17364794 Score: 544
Period size: 161 Copynumber: 1.9 Consensus size: 161
17364477 GATCCGAGGC
*
17364487 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
* * *
17364552 CTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATGTTCAACTCACCTCTCGCAATATG
66 CTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
17364617 AGTTGATTTTTGAAAAACAGAAATTAAAGGT
131 AGTTGATTTTTGAAAAACAGAAATTAAAGGT
* *
17364648 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
17364713 CTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
66 CTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
* *
17364778 AGTTGGTTTTTTAAAAA
131 AGTTGATTTTTGAAAAA
17364795 ATATAAATTG
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 139 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (161 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAAACAGAAATTAAAGGT
Found at i:17364795 original size:54 final size:54
Alignment explanation
Indices: 17364487--17364794 Score: 537
Period size: 54 Copynumber: 5.7 Consensus size: 54
17364477 GATCCGAGGC
* *
17364487 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* *
17364541 TCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
17364595 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
17364648 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
17364702 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* *
17364756 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
17364795 ATATAAATTG
Statistics
Matches: 244, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
53 51 0.21
54 193 0.79
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:17365063 original size:75 final size:74
Alignment explanation
Indices: 17364910--17365068 Score: 214
Period size: 75 Copynumber: 2.1 Consensus size: 74
17364900 GAATTTGAAA
* * * * *
17364910 AAAACAGAATTTGAAAATCCCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
17364975 ATTTTCTTG
66 ATTTTCTTG
* * *
17364984 -AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAATTCACCTCTCGCAATATGAAT
1 AAAACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAAT
17365048 TGATTTT-TTG
64 TGATTTTCTTG
17365058 AAAACAGAAAT
1 AAAACAGAAAT
17365069 AAAAACATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
73 21 0.29
74 3 0.04
75 49 0.67
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
ATTTTCTTG
Found at i:17377376 original size:25 final size:24
Alignment explanation
Indices: 17377348--17377402 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
17377338 ACATGAAATA
17377348 ATAAAAGAAATATATAACAAATAAC
1 ATAAAAG-AATATATAACAAATAAC
* * **
17377373 ATAAAAGTATATGTATGAAATAAC
1 ATAAAAGAATATATAACAAATAAC
17377397 ATAAAA
1 ATAAAA
17377403 ATATATGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAAAAGAATATATAACAAATAAC
Done.