Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 72 of 109
Found at i:14339089 original size:18 final size:18
Alignment explanation
Indices: 14339066--14339110 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
14339056 AATTTTCTTC
14339066 AAAAATTTTGAAAA-TTTT
1 AAAAATTTT-AAAAGTTTT
*
14339084 AAAAATTCTAAAAGTTTT
1 AAAAATTTTAAAAGTTTT
*
14339102 TAAAATTTT
1 AAAAATTTT
14339111 CTGAAATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
AAAAATTTTAAAAGTTTT
Found at i:14339176 original size:15 final size:15
Alignment explanation
Indices: 14339141--14339190 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 15
14339131 AATCTTACAA
14339141 TTTTATTCTTTATACATT
1 TTTTATT-TTTA-A-ATT
14339159 TTTTATTTTTAAATT
1 TTTTATTTTTAAATT
14339174 TTTTATTTTT-AATT
1 TTTTATTTTTAAATT
14339188 TTT
1 TTT
14339191 AGTCAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.22
15 13 0.41
16 1 0.03
17 4 0.12
18 7 0.22
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTAAATT
Found at i:14339499 original size:21 final size:20
Alignment explanation
Indices: 14339475--14339512 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14339465 AAAAAAATTT
*
14339475 AAAATGTTTTAGAAATTTTCA
1 AAAATCTTTT-GAAATTTTCA
14339496 AAAATCTTTTG-AATTTT
1 AAAATCTTTTGAAATTTT
14339513 TTAGAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 1 0.06
21 9 0.56
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (20 bp):
AAAATCTTTTGAAATTTTCA
Found at i:14339515 original size:30 final size:29
Alignment explanation
Indices: 14339449--14339602 Score: 98
Period size: 30 Copynumber: 5.2 Consensus size: 29
14339439 ATTTTTAATT
* ** *
14339449 TTTTTTATAAATTTTTAAAAAAATTTAAAA
1 TTTTTTAGAAA-TTTTAAAAATCTTTTAAA
* *
14339479 TGTTTTAGAAATTTTCAAAAATCTTTTGAA
1 TTTTTTAGAAATTTT-AAAAATCTTTTAAA
** ** *
14339509 TTTTTTAG-AATTTTTTAGTTGTTTTAAAA
1 TTTTTTAGAAATTTTAAAAATCTTTT-AAA
14339538 TTTTTTAGAAATTTTAAAAA-CTTATTAGAA
1 TTTTTTAGAAATTTTAAAAATCTT-TTA-AA
* * *
14339568 TATTTTA-AATTTTTTAAAAATTCTTTTTAA
1 TTTTTTAGAA-ATTTTAAAAA-TCTTTTAAA
14339598 TTTTT
1 TTTTT
14339603 AAAATAAATT
Statistics
Matches: 94, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
28 6 0.06
29 25 0.27
30 58 0.62
31 2 0.02
32 3 0.03
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (29 bp):
TTTTTTAGAAATTTTAAAAATCTTTTAAA
Found at i:14339524 original size:10 final size:10
Alignment explanation
Indices: 14339502--14339583 Score: 64
Period size: 10 Copynumber: 8.5 Consensus size: 10
14339492 TTCAAAAATC
14339502 TTTT-GAATT
1 TTTTAGAATT
14339511 TTTTAGAATT
1 TTTTAGAATT
14339521 TTTTAG--TT
1 TTTTAGAATT
*
14339529 GTTTTAAAATT
1 -TTTTAGAATT
*
14339540 TTTTAGAAAT
1 TTTTAGAATT
* * *
14339550 TTTAAAAACT
1 TTTTAGAATT
* *
14339560 TATTAGAATA
1 TTTTAGAATT
14339570 TTTTA-AATT
1 TTTTAGAATT
14339579 TTTTA
1 TTTTA
14339584 AAAATTCTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
8 2 0.04
9 17 0.30
10 35 0.62
11 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.57
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:14339552 original size:19 final size:19
Alignment explanation
Indices: 14339451--14339589 Score: 93
Period size: 19 Copynumber: 7.1 Consensus size: 19
14339441 TTTTAATTTT
* *
14339451 TTTTATAAATTTTTAAAAAA
1 TTTTA-AAATTTTTTAGAAA
* *
14339471 ATTTAAAATGTTTTAGAAA
1 TTTTAAAATTTTTTAGAAA
* *
14339490 TTTTCAAAAATCTTTT-GAATT
1 TTTT--AAAATTTTTTAGAA-A
* ***
14339511 TTTTAGAATTTTTTAGTTG
1 TTTTAAAATTTTTTAGAAA
14339530 TTTTAAAATTTTTTAGAAA
1 TTTTAAAATTTTTTAGAAA
* *
14339549 TTTTAAAAACTTATTAGAATA
1 TTTT-AAAATTTTTTAGAA-A
*
14339570 TTTT-AAATTTTTTAAAAA
1 TTTTAAAATTTTTTAGAAA
14339588 TT
1 TT
14339590 CTTTTTAATT
Statistics
Matches: 92, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
18 3 0.03
19 51 0.55
20 20 0.22
21 18 0.20
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTTAAAATTTTTTAGAAA
Found at i:14339697 original size:11 final size:10
Alignment explanation
Indices: 14339678--14339730 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
14339668 GTTAAGAATT
14339678 TTTTTAAAAA
1 TTTTTAAAAA
14339688 TTTTTAAAAA
1 TTTTTAAAAA
*
14339698 -TTTTAGAAA
1 TTTTTAAAAA
14339707 TTTATTAGAATATA
1 TTT-TTA-AA-A-A
14339721 TTTTTAAAAA
1 TTTTTAAAAA
14339731 ATATAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
9 8 0.22
10 13 0.36
11 4 0.11
12 3 0.08
13 4 0.11
14 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:14339855 original size:30 final size:30
Alignment explanation
Indices: 14339819--14340039 Score: 91
Period size: 30 Copynumber: 7.2 Consensus size: 30
14339809 TTTAGATTTT
* *
14339819 TTTTTTAGAACTTTTTAAAAATTTTTAGAA
1 TTTTTTAAAACTTTTTAAAAATTTTTAAAA
* *
14339849 TTTTTTATAATA-TTTTT-GAAGTTTTTAAAA
1 TTTTTTA-AA-ACTTTTTAAAAATTTTTAAAA
*
14339879 TTTTTTAAAAAC-TTTTGAAAA-TTTTAAAA
1 TTTTTT-AAAACTTTTTAAAAATTTTTAAAA
** **
14339908 -TTTTTAAAAAATTAAAAAGCAATTTTTGGAAAA
1 TTTTTTAAAACTTTTTAAA--AATTTTT--AAAA
* *** * *
14339941 -TTTTAAAAACTTTTT-TGTATTTTTGAGAT
1 TTTTTTAAAACTTTTTAAAAATTTTT-AAAA
* *
14339970 TTTTTTATTTTTAA-TTTTTAAAAATTTGTTAGAA
1 TTTTTTA----AAACTTTTTAAAAATTT-TTAAAA
* *
14340004 TTTTTTAACA-TTTTTTAAAATTTTTAAAA
1 TTTTTTAAAACTTTTTAAAAATTTTTAAAA
14340033 TTTTTTA
1 TTTTTTA
14340040 GAATTAGTTT
Statistics
Matches: 143, Mismatches: 30, Indels: 37
0.68 0.14 0.18
Matches are distributed among these distances:
27 4 0.03
28 9 0.06
29 28 0.20
30 53 0.37
31 11 0.08
32 1 0.01
33 19 0.13
34 16 0.11
35 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (30 bp):
TTTTTTAAAACTTTTTAAAAATTTTTAAAA
Found at i:14339873 original size:29 final size:30
Alignment explanation
Indices: 14339831--14339918 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 30
14339821 TTTTAGAACT
* * * *
14339831 TTTTAAAAATTTTTAGAATTTTTTATAATAT
1 TTTTGAAAATTTTTAAAATTTTTTA-AAAAC
*
14339862 TTTTG-AAGTTTTTAAAATTTTTTAAAAAC
1 TTTTGAAAATTTTTAAAATTTTTTAAAAAC
*
14339891 TTTTGAAAA-TTTTAAAATTTTTAAAAAA
1 TTTTGAAAATTTTTAAAATTTTTTAAAAA
14339919 TTAAAAAGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 26 0.53
30 19 0.39
31 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTGAAAATTTTTAAAATTTTTTAAAAAC
Found at i:14339884 original size:11 final size:10
Alignment explanation
Indices: 14339819--14340044 Score: 80
Period size: 10 Copynumber: 23.2 Consensus size: 10
14339809 TTTAGATTTT
*
14339819 TTTTTTAGAA
1 TTTTTTAAAA
*
14339829 CTTTTTAAAA
1 TTTTTTAAAA
* *
14339839 ATTTTTAGAA
1 TTTTTTAAAA
*
14339849 TTTTTTATAA
1 TTTTTTAAAA
*
14339859 TATTTTT-GAA
1 T-TTTTTAAAA
*
14339869 GTTTTTAAAA
1 TTTTTTAAAA
14339879 TTTTTTAAAAA
1 TTTTTT-AAAA
* *
14339890 CTTTTGAAAA
1 TTTTTTAAAA
14339900 --TTTTAAAA
1 TTTTTTAAAA
*
14339908 TTTTTAAAAA
1 TTTTTTAAAA
* ***
14339918 ATTAAAAAGCAA
1 TTTTTTAA--AA
*
14339930 TTTTTGGAAAA
1 TTTTT-TAAAA
*
14339941 -TTTTAAAAA
1 TTTTTTAAAA
**
14339950 CTTTTTT-GTA
1 -TTTTTTAAAA
* *
14339960 -TTTTTGAGA
1 TTTTTTAAAA
*
14339969 TTTTTT--TA
1 TTTTTTAAAA
14339977 -TTTTT--AA
1 TTTTTTAAAA
*
14339984 TTTTTAAAAA
1 TTTTTTAAAA
* *
14339994 TTTGTTAGAA
1 TTTTTTAAAA
*
14340004 TTTTTTAACA
1 TTTTTTAAAA
14340014 TTTTTTAAAA
1 TTTTTTAAAA
14340024 -TTTTTAAAA
1 TTTTTTAAAA
*
14340033 TTTTTTAGAA
1 TTTTTTAAAA
14340043 TT
1 TT
14340045 AGTTTGTTAG
Statistics
Matches: 162, Mismatches: 38, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
7 6 0.04
8 17 0.10
9 19 0.12
10 95 0.59
11 19 0.12
12 4 0.02
13 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.54
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:14340007 original size:20 final size:19
Alignment explanation
Indices: 14339982--14340044 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
14339972 TTTTATTTTT
*
14339982 AATTTTTAAAAATTTGTTAG
1 AATTTTT-AAAATTTTTTAG
* *
14340002 AATTTTTTAACATTTTTTAA
1 AA-TTTTTAAAATTTTTTAG
14340022 AATTTTTAAAATTTTTTAG
1 AATTTTTAAAATTTTTTAG
14340041 AATT
1 AATT
14340045 AGTTTGTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 19 0.51
20 13 0.35
21 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTTTTAAAATTTTTTAG
Found at i:14340741 original size:17 final size:18
Alignment explanation
Indices: 14340714--14340747 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14340704 ATATGTTTAT
*
14340714 AAAAAATTTTTTAAATTG
1 AAAAAATTTTTAAAATTG
14340732 AAAAAA-TTTTAAAATT
1 AAAAAATTTTTAAAATT
14340748 TTTGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAAAATTTTTAAAATTG
Found at i:14340752 original size:20 final size:19
Alignment explanation
Indices: 14340729--14340782 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
14340719 ATTTTTTAAA
*
14340729 TTGAAAAAATTTTAAAATTT
1 TTGAAAAAA-TATAAAATTT
14340749 TTGAATAAAA-ATAAAATTT
1 TTGAA-AAAATATAAAATTT
*
14340768 TTTAAAAAATA-AAAA
1 TTGAAAAAATATAAAA
14340783 AAATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 8 0.27
19 13 0.43
20 5 0.17
21 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
TTGAAAAAATATAAAATTT
Found at i:14340777 original size:17 final size:19
Alignment explanation
Indices: 14340741--14340781 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
14340731 GAAAAAATTT
14340741 TAAAATTTTTGAATAAAAA
1 TAAAATTTTTGAATAAAAA
*
14340760 TAAAATTTTT-TA-AAAAA
1 TAAAATTTTTGAATAAAAA
14340777 TAAAA
1 TAAAA
14340782 AAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 1 0.05
19 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAATTTTTGAATAAAAA
Found at i:14341035 original size:21 final size:21
Alignment explanation
Indices: 14341005--14341056 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
14340995 AAATATTTAT
*
14341005 TAAAAACAAAAAGAAAA-AGA
1 TAAAAACAAAAAGAAAATAAA
*
14341025 TAAAAAGCAAATAGAAAATAAA
1 TAAAAA-CAAAAAGAAAATAAA
14341047 TAAAAA-AAAA
1 TAAAAACAAAA
14341057 GTTAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.33
21 10 0.37
22 8 0.30
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.10
Consensus pattern (21 bp):
TAAAAACAAAAAGAAAATAAA
Found at i:14341248 original size:17 final size:18
Alignment explanation
Indices: 14341220--14341253 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14341210 CAAATTAGTA
14341220 CTAAAAATTATTAAAATC
1 CTAAAAATTATTAAAATC
14341238 CTAAAAA-TATTAAAAT
1 CTAAAAATTATTAAAAT
14341254 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
CTAAAAATTATTAAAATC
Found at i:14345298 original size:14 final size:14
Alignment explanation
Indices: 14345268--14345314 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
14345258 CAAATATTAA
14345268 AAAAATCATACCATGC
1 AAAAATCAT--CATGC
* *
14345284 AATAATTATCATGC
1 AAAAATCATCATGC
14345298 AAAAATCATCATGC
1 AAAAATCATCATGC
14345312 AAA
1 AAA
14345315 TATATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 20 0.74
16 7 0.26
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.23
Consensus pattern (14 bp):
AAAAATCATCATGC
Found at i:14345381 original size:14 final size:14
Alignment explanation
Indices: 14345362--14345403 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
14345352 CATGCCTAGA
14345362 TCATGCTAAAATAT
1 TCATGCTAAAATAT
14345376 TCATGC-AAAAGTA-
1 TCATGCTAAAA-TAT
*
14345389 TCATGCTAATATAT
1 TCATGCTAAAATAT
14345403 T
1 T
14345404 AATTATCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (14 bp):
TCATGCTAAAATAT
Found at i:14345412 original size:20 final size:20
Alignment explanation
Indices: 14345387--14345432 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
14345377 CATGCAAAAG
*
14345387 TATCATGCTAAT-ATATTAAT
1 TATCATGC-AATAATAATAAT
14345407 TATCATGCAATAATAATAAT
1 TATCATGCAATAATAATAAT
*
14345427 AATCAT
1 TATCAT
14345433 ATAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (20 bp):
TATCATGCAATAATAATAAT
Found at i:14345644 original size:20 final size:22
Alignment explanation
Indices: 14345615--14345667 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14345605 ATAATCATGC
*
14345615 AAAT-ATGCAATTA-AATATAT
1 AAATCATGCAATAATAATATAT
*
14345635 -TATCATGCAAATAATAATATAT
1 AAATCATGC-AATAATAATATAT
14345657 AAATCATGCAA
1 AAATCATGCAA
14345668 AAAAACGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.08
20 4 0.15
21 4 0.15
22 9 0.35
23 7 0.27
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (22 bp):
AAATCATGCAATAATAATATAT
Found at i:14345681 original size:55 final size:55
Alignment explanation
Indices: 14345620--14345750 Score: 172
Period size: 55 Copynumber: 2.4 Consensus size: 55
14345610 CATGCAAATA
* *
14345620 TGCAATTAAATATATTATCATGCAAATAATAATATATAAATCATGCAAAAAAACG
1 TGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAAAAAACG
* * * **
14345675 TGCAATTAAATATATAATCATACAAATGATAATATATAAATCTTGCAAATAAATA
1 TGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAAAAAACG
* * *
14345730 TGTAGTCAAATATATAATCAT
1 TGCAATTAAATATATAATCAT
14345751 GTAAATAACA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (55 bp):
TGCAATTAAATATATAATCATACAAATAATAATATATAAATCATGCAAAAAAACG
Found at i:14345722 original size:43 final size:42
Alignment explanation
Indices: 14345675--14345821 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 42
14345665 CAAAAAAACG
* *
14345675 TGCAATTAAATATATAATCATACAAATGATAATATATAAATCT
1 TGCAAATAAATATATAATCATACAAAT-ATAATATATAAATCA
* * * *
14345718 TGCAAATAAATATGTAGTCA-A-ATATATAATCATGTAAATAACA
1 TGCAAATAAATATATAATCATACAAATATAAT-ATATAAAT--CA
* * *
14345761 TACAATTAAATATATAATCATACAAATAATAATATAGAAATCA
1 TGCAAATAAATATATAATCATACAAAT-ATAATATATAAATCA
*
14345804 TGCAAATAAATATGTAAT
1 TGCAAATAAATATATAAT
14345822 TAAATATATA
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
40 5 0.06
41 10 0.12
42 1 0.01
43 51 0.62
44 1 0.01
45 9 0.11
46 5 0.06
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (42 bp):
TGCAAATAAATATATAATCATACAAATATAATATATAAATCA
Found at i:14345788 original size:31 final size:29
Alignment explanation
Indices: 14345678--14345844 Score: 97
Period size: 31 Copynumber: 5.9 Consensus size: 29
14345668 AAAAACGTGC
*
14345678 AATTAAATATATAATCATACAAAT-GAT-
1 AATTAAATATATAATCATACAAATAAATA
* *
14345705 AA-T--ATATA-AATCTTGCAAATAAATA
1 AATTAAATATATAATCATACAAATAAATA
* * **
14345730 TGTAGTCAAATATATAATCATGTAAATAACATA
1 ---AATTAAATATATAATCATACAAATAA-ATA
14345763 CAATTAAATATATAATCATACAAAT-AAT-
1 -AATTAAATATATAATCATACAAATAAATA
* *
14345791 AA-T--ATAGA-AATCATGCAAATAAATA
1 AATTAAATATATAATCATACAAATAAATA
14345816 TGTAATTAAATATATAATCATACAAATAA
1 ---AATTAAATATATAATCATACAAATAA
14345845 TAATATATAA
Statistics
Matches: 105, Mismatches: 16, Indels: 33
0.68 0.10 0.21
Matches are distributed among these distances:
23 21 0.20
24 14 0.13
26 2 0.02
27 4 0.04
28 3 0.03
29 3 0.03
30 1 0.01
31 29 0.28
32 25 0.24
33 3 0.03
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (29 bp):
AATTAAATATATAATCATACAAATAAATA
Found at i:14345843 original size:86 final size:86
Alignment explanation
Indices: 14345650--14345844 Score: 282
Period size: 86 Copynumber: 2.2 Consensus size: 86
14345640 TGCAAATAAT
* * * * *
14345650 AATATATAAATCATGCAAAAAAACGTGCAATTAAATATATAATCATACAAATGATAATATATAAA
1 AATATAT-AATCATGC-AAATAACATACAATTAAATATATAATCATACAAATAATAATATAGAAA
* *
14345715 TCTTGCAAATAAATATGTAGTCA
64 TCATGCAAATAAATATGTAATCA
*
14345738 AATATATAATCATGTAAATAACATACAATTAAATATATAATCATACAAATAATAATATAGAAATC
1 AATATATAATCATGCAAATAACATACAATTAAATATATAATCATACAAATAATAATATAGAAATC
*
14345803 ATGCAAATAAATATGTAATTA
66 ATGCAAATAAATATGTAATCA
*
14345824 AATATATAATCATACAAATAA
1 AATATATAATCATGCAAATAA
14345845 TAATATATAA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 82 0.85
87 7 0.07
88 7 0.07
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (86 bp):
AATATATAATCATGCAAATAACATACAATTAAATATATAATCATACAAATAATAATATAGAAATC
ATGCAAATAAATATGTAATCA
Found at i:14345885 original size:141 final size:141
Alignment explanation
Indices: 14345622--14345899 Score: 405
Period size: 141 Copynumber: 2.0 Consensus size: 141
14345612 TGCAAATATG
* * * *
14345622 CAATTAAATATATTATCATGCAAATAATAATATATAAATCATGCAAAAAAACGTGCAATTAAATA
1 CAATTAAATATATAATCATACAAATAATAATATAGAAATCATGCAAAAAAACATGCAATTAAATA
* ** * *
14345687 TATAATCATACAAATGATAATATATAAATCTTGCAAATAAATATGTAGTCAAATATATAATCATG
66 TATAATCATACAAATAATAATATATAAATCTTGCAAATAAATATACAATCAAATATATAATCACG
*
14345752 TAAATAACATA
131 GAAATAACATA
* * *
14345763 CAATTAAATATATAATCATACAAATAATAATATAGAAATCATGCAAATAAATATGTAATTAAATA
1 CAATTAAATATATAATCATACAAATAATAATATAGAAATCATGCAAAAAAACATGCAATTAAATA
* *
14345828 TATAATCATACAAATAATAATATATAAAT-TATGCAAATAAATATACAATTAATTATATAATCAC
66 TATAATCATACAAATAATAATATATAAATCT-TGCAAATAAATATACAATCAAATATATAATCAC
14345892 GGAAATAA
130 GGAAATAA
14345900 GCATGCAAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
140 1 0.01
141 120 0.99
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.31
Consensus pattern (141 bp):
CAATTAAATATATAATCATACAAATAATAATATAGAAATCATGCAAAAAAACATGCAATTAAATA
TATAATCATACAAATAATAATATATAAATCTTGCAAATAAATATACAATCAAATATATAATCACG
GAAATAACATA
Found at i:14345899 original size:55 final size:55
Alignment explanation
Indices: 14345738--14345890 Score: 229
Period size: 55 Copynumber: 2.8 Consensus size: 55
14345728 TATGTAGTCA
* *
14345738 AATATAT-AATCATGTAAAT-AACATACAATTAAATATATAATCATACAAATAAT
1 AATATATAAATCATGCAAATAAATATACAATTAAATATATAATCATACAAATAAT
* **
14345791 AATATAGAAATCATGCAAATAAATATGTAATTAAATATATAATCATACAAATAAT
1 AATATATAAATCATGCAAATAAATATACAATTAAATATATAATCATACAAATAAT
* *
14345846 AATATATAAATTATGCAAATAAATATACAATTAATTATATAATCA
1 AATATATAAATCATGCAAATAAATATACAATTAAATATATAATCA
14345891 CGGAAATAAG
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 6 0.07
54 11 0.12
55 71 0.81
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (55 bp):
AATATATAAATCATGCAAATAAATATACAATTAAATATATAATCATACAAATAAT
Found at i:14345909 original size:12 final size:12
Alignment explanation
Indices: 14345894--14345928 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14345884 ATAATCACGG
* *
14345894 AAATAAGCATGC
1 AAATAAACATAC
14345906 AAATAAACATAC
1 AAATAAACATAC
14345918 AAATAAACATA
1 AAATAAACATA
14345929 TAATCATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.63, C:0.14, G:0.06, T:0.17
Consensus pattern (12 bp):
AAATAAACATAC
Found at i:14345918 original size:44 final size:44
Alignment explanation
Indices: 14345858--14345943 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
14345848 TATATAAATT
* * ** *
14345858 ATGCAAATAAATATACAATTAATTATATAATCACGGAAATAAGC
1 ATGCAAATAAACATACAAATAAACATATAATCACGCAAATAAGC
*
14345902 ATGCAAATAAACATACAAATAAACATATAATCATGCAAATAA
1 ATGCAAATAAACATACAAATAAACATATAATCACGCAAATAA
14345944 ATGTATTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (44 bp):
ATGCAAATAAACATACAAATAAACATATAATCACGCAAATAAGC
Found at i:14345945 original size:24 final size:23
Alignment explanation
Indices: 14345918--14346040 Score: 65
Period size: 24 Copynumber: 5.2 Consensus size: 23
14345908 ATAAACATAC
14345918 AAATAAACATATAATCATGCAAAT
1 AAATAAA-ATATAATCATGCAAAT
** *
14345942 AAATGTATTAATAATCATGC-AAT
1 AAATAAAAT-ATAATCATGCAAAT
* * *
14345965 CAAATTAAATGTAATCATACAAAT
1 -AAATAAAATATAATCATGCAAAT
* **
14345989 AAATATATTAATA-AATTACACAAAT
1 AAATA-A--AATATAATCATGCAAAT
*
14346014 AAAT-ATAT-TAATCATGCAAAT
1 AAATAAAATATAATCATGCAAAT
14346035 ATAATA
1 A-AATA
14346041 TTAATTATGT
Statistics
Matches: 74, Mismatches: 16, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
21 12 0.16
22 3 0.04
23 17 0.23
24 25 0.34
25 14 0.19
26 3 0.04
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATAAAATATAATCATGCAAAT
Found at i:14346041 original size:47 final size:45
Alignment explanation
Indices: 14345907--14346045 Score: 131
Period size: 47 Copynumber: 3.1 Consensus size: 45
14345897 TAAGCATGCA
* * * *
14345907 AATAAACATACAAATAAACATA-TAATCATGCAAATAAATGTATT
1 AATAATCACACAAATAAATATATTAATCATGCAAATAAATATATT
** * *
14345951 AATAATCATGC-AATCAAATTAAATGTAATCATACAAATAAATATATT
1 AATAATCACACAAAT-AAA-TATAT-TAATCATGCAAATAAATATATT
* *
14345998 AATAAATTACACAAATAAATATATTAATCATGCAAATATA-ATATT
1 AAT-AATCACACAAATAAATATATTAATCATGCAAATAAATATATT
14346043 AAT
1 AAT
14346046 TATGTAAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
43 3 0.04
44 12 0.16
45 10 0.13
46 14 0.18
47 27 0.35
48 8 0.10
49 3 0.04
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (45 bp):
AATAATCACACAAATAAATATATTAATCATGCAAATAAATATATT
Found at i:14349451 original size:493 final size:494
Alignment explanation
Indices: 14348475--14349471 Score: 1572
Period size: 493 Copynumber: 2.0 Consensus size: 494
14348465 GCTTGAAATC
14348475 TTATATCTCATATAAATATATAAAAACTAAAACTTTTGATAAAAAAAGAAAAAATTCAATGTGGA
1 TTATATCTCATATAAATATATAAAAACTAAAACTTTTGAT---AAAAGAAAAAATTCAATGTGGA
*
14348540 TAATCTATTTTTTTGACATGTGGATTATTTTAAACAATCACCACATATCTTACATTTAATTATTT
63 TAATCTATTTTTTTGACATGTGAATTATTTTAAACAATCACCACATATCTTACATTTAATTATTT
14348605 CAATTTAACTTCATATATATTTTATTAATTTAAAAAATATTTATTTGGCTAAATTAGGTTATTTA
128 CAATTTAACTTCATATATATTTTATTAATTTAAAAAATATTTATTTGGCTAAATTAGGTTATTTA
* *
14348670 TTTTCTTATAAATATTCAATAATCTTGCCTTTTATAAATTTGTTACAATTAAATTATCTTAAATC
193 TTTTCTTATAAATATACAATAATCTTGCCTTTTATAAATGTGTTACAATTAAATTATCTTAAATC
* * *
14348735 AATTTCAACTAAATTCAATTCTTAATTTTAAAAATCAAACATGTATAGTATCAATAAGAAATATG
258 AATTTCAACCAAATTCAATTCTTAATTTTAAAAATCAAACATGTATACTATAAATAAGAAATATG
* * *
14348800 TTTTGAAAATATTGACATTTAATGACCAAGATTTTAGTATTTAAAGAAATAATTTGTGTATTTAT
323 CTTTGAAAACATTGACATTTAATGACCAAGATTTTAGTATTTAAAGAAATAATTTCTGTATTTAT
* * *
14348865 TAATCTAATTGAATATATATGGCATATAATGCTAAAAATTCAAACCTAAAATAAAAGTCTAATTA
388 TAATCTAAATGAATATACAAGGCATATAATGCTAAAAATTCAAACCTAAAATAAAAGTCTAATTA
14348930 GTTGGAAACATATATTCATATT-TATTTT-TATATAAGTATTAA
453 GTTGGAAACATATATTCA-ATTAT-TTTTCTATATAAGTATTAA
* * *
14348972 TTATAATCTTATATAAATATATAAAAACTAAAACTTTTGGT-AAA-AAAAAATTTAATGTGGATA
1 TTAT-ATCTCATATAAATATATAAAAACTAAAACTTTTGATAAAAGAAAAAATTCAATGTGGATA
* * * *
14349035 TTTTATTTTTTTGACATGTGAATTATTTTGAACAATCACCACATATCTTGCATTTAATTATTTCA
65 ATCTATTTTTTTGACATGTGAATTATTTTAAACAATCACCACATATCTTACATTTAATTATTTCA
* *
14349100 ATTTGACTTCATATATATTTTATTAATTTAAAAGATATTTATTTGGCTAAATTAGGTTATTTATT
130 ATTTAACTTCATATATATTTTATTAATTTAAAAAATATTTATTTGGCTAAATTAGGTTATTTATT
* * *
14349165 TTCTTATAAATATACAATATTCTTGCCTTTTATAAATGTGTTACAATTAAATTATCTTAAATTAT
195 TTCTTATAAATATACAATAATCTTGCCTTTTATAAATGTGTTACAATTAAATTATCTTAAATCAA
* *
14349230 TTTCAACCAAATTCAATTTTTAATTTTAAACATCAAACATGTATACTATAAATAAGAAATATGCT
260 TTTCAACCAAATTCAATTCTTAATTTTAAAAATCAAACATGTATACTATAAATAAGAAATATGCT
* * * * *
14349295 TTGAAAGCATTGACTTTTTAATGACCATGATTTTTGTATTTAATTAAGAATTAATTTCTGTATTT
325 TTGAAAACATTGAC-ATTTAATGACCAAGATTTTAGTATTT-A--AAGAAATAATTTCTGTATTT
14349360 ATTAATCTAAATGAATATACAAGGCATATAATGCTAAAAATTCAAACCTAAAATAAAAGTCTAAT
386 ATTAATCTAAATGAATATACAAGGCATATAATGCTAAAAATTCAAACCTAAAATAAAAGTCTAAT
*
14349425 TAGTTGGAAACATATTTTCATATT-TTTTTCTATATAAGTATTAA
451 TAGTTGGAAACATATATTCA-ATTATTTTTCTATATAAGTATTAA
14349469 TTA
1 TTA
14349472 CAATTGGTAT
Statistics
Matches: 462, Mismatches: 32, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
493 272 0.59
494 26 0.06
495 1 0.00
496 4 0.01
497 125 0.27
498 34 0.07
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (494 bp):
TTATATCTCATATAAATATATAAAAACTAAAACTTTTGATAAAAGAAAAAATTCAATGTGGATAA
TCTATTTTTTTGACATGTGAATTATTTTAAACAATCACCACATATCTTACATTTAATTATTTCAA
TTTAACTTCATATATATTTTATTAATTTAAAAAATATTTATTTGGCTAAATTAGGTTATTTATTT
TCTTATAAATATACAATAATCTTGCCTTTTATAAATGTGTTACAATTAAATTATCTTAAATCAAT
TTCAACCAAATTCAATTCTTAATTTTAAAAATCAAACATGTATACTATAAATAAGAAATATGCTT
TGAAAACATTGACATTTAATGACCAAGATTTTAGTATTTAAAGAAATAATTTCTGTATTTATTAA
TCTAAATGAATATACAAGGCATATAATGCTAAAAATTCAAACCTAAAATAAAAGTCTAATTAGTT
GGAAACATATATTCAATTATTTTTCTATATAAGTATTAA
Found at i:14352754 original size:6 final size:7
Alignment explanation
Indices: 14352736--14352762 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14352726 ATAGCTGAAC
14352736 TAAAAAT
1 TAAAAAT
14352743 TAAAAAT
1 TAAAAAT
14352750 TAAAAAT
1 TAAAAAT
14352757 TAAAAA
1 TAAAAA
14352763 AGTACCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAAAAT
Found at i:14356108 original size:15 final size:16
Alignment explanation
Indices: 14356081--14356110 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14356071 TTTTACCCCT
14356081 AGAAAGATGAATTTAA
1 AGAAAGATGAATTTAA
14356097 AGAAAG-TGAATTTA
1 AGAAAGATGAATTTA
14356111 GATTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (16 bp):
AGAAAGATGAATTTAA
Found at i:14358859 original size:131 final size:135
Alignment explanation
Indices: 14358664--14358935 Score: 381
Period size: 131 Copynumber: 2.0 Consensus size: 135
14358654 CAAGGTTCTT
* *
14358664 GACATAATTTGATAGAACAGGTTGGATGTCAACACCCAAAAAGTAAAAAAGAAAAGAAAAG-A-A
1 GACATAATTTGATAGAACAGGCTGGATGCCAACACCCAAAAAGTAAAAAAGAAAAGAAAAGAAGA
* * *
14358727 AAAACAG-TTTTTTTTTTACATGAGATCATCA-GGATTATGAATTCAATATTCTATCAATAAATC
66 AAAACAGTTTTTTTTTTTACATGAGATCATCAGGGATTATGAATCCAATACTCTATCAACAAATC
14358790 ACTTG
131 ACTTG
*
14358795 GACATAATTTGATAGAACTGGCTGGATGCCAACACCCAAAAAGTAAAAAAGAAAAGAAAAGAAAA
1 GACATAATTTGATAGAACAGGCTGGATGCCAACACCCAAAAAGTAAAAAAGAAAAGAAAAG--AA
**
14358860 GAAAAACAGTTTTTTTTTTTTTTTTACATGAGATTGTCAGGGATTATGAATCCAATACTCTATCA
64 GAAAAACAG-----TTTTTTTTTTTACATGAGATCATCAGGGATTATGAATCCAATACTCTATCA
14358925 ACAAATCACTT
124 ACAAATCACTT
14358936 AATCATCGAC
Statistics
Matches: 122, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
131 58 0.48
134 1 0.01
135 8 0.07
141 22 0.18
142 33 0.27
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (135 bp):
GACATAATTTGATAGAACAGGCTGGATGCCAACACCCAAAAAGTAAAAAAGAAAAGAAAAGAAGA
AAAACAGTTTTTTTTTTTACATGAGATCATCAGGGATTATGAATCCAATACTCTATCAACAAATC
ACTTG
Found at i:14360790 original size:2 final size:2
Alignment explanation
Indices: 14360783--14360810 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14360773 ACATGGATGA
14360783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14360811 GTACATGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14362665 original size:18 final size:17
Alignment explanation
Indices: 14362630--14362678 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
14362620 TTGATAAATC
*
14362630 TTTTTAAAAATTATTTT
1 TTTTTAAAAATTAATTT
*
14362647 TTTTTCAAAATTTAA-TT
1 TTTTT-AAAAATTAATTT
*
14362664 TTATTAAAAATTAAT
1 TTTTTAAAAATTAAT
14362679 AAAATTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.31
17 11 0.42
18 7 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTAAAAATTAATTT
Found at i:14362792 original size:14 final size:15
Alignment explanation
Indices: 14362752--14362782 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14362742 TTAATAATGC
14362752 TTTA-TTTCTTAAAT
1 TTTATTTTCTTAAAT
14362766 TTTATTTTCTTAAAT
1 TTTATTTTCTTAAAT
14362781 TT
1 TT
14362783 CTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATTTTCTTAAAT
Found at i:14373073 original size:11 final size:11
Alignment explanation
Indices: 14373059--14373121 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
14373049 CACCATTTTA
14373059 TTTCTTTTGCT
1 TTTCTTTTGCT
14373070 TTTCTTTT-CTTT
1 TTTCTTTTGC--T
* *
14373082 TTTTTTTTGAT
1 TTTCTTTTGCT
14373093 TTT-TTTTG-T
1 TTTCTTTTGCT
14373102 TTTCATTTT-CT
1 TTTC-TTTTGCT
14373113 TTTCTTTTG
1 TTTCTTTTG
14373122 GAAGCTTGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
9 4 0.09
10 10 0.23
11 21 0.49
12 8 0.19
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTCTTTTGCT
Found at i:14373076 original size:5 final size:5
Alignment explanation
Indices: 14373059--14373120 Score: 58
Period size: 5 Copynumber: 12.6 Consensus size: 5
14373049 CACCATTTTA
** *
14373059 TTTCT TTTGCT TTTCT TTTCT TTT-T TTT-T TTGAT TTT-T TTTGT TTTCAT
1 TTTCT TTT-CT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC-T
14373108 TTTCT TTTCT TTT
1 TTTCT TTTCT TTT
14373121 GGAAGCTTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
4 11 0.22
5 29 0.58
6 10 0.20
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:14373111 original size:33 final size:32
Alignment explanation
Indices: 14373054--14373120 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
14373044 TTTTTCACCA
*
14373054 TTTTATTTCTTTTGCTTTTCTTTTCTTTTTTT
1 TTTTATTTCTTTTGCTTTTCTTTTCTTTTCTT
*
14373086 TTTTGATTTTTTTTG-TTTTCATTTTCTTTTCTT
1 TTTT-ATTTCTTTTGCTTTTC-TTTTCTTTTCTT
14373119 TT
1 TT
14373121 GGAAGCTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (32 bp):
TTTTATTTCTTTTGCTTTTCTTTTCTTTTCTT
Found at i:14380118 original size:16 final size:15
Alignment explanation
Indices: 14380093--14380124 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
14380083 CTCTAGATTG
14380093 AATGGATCATTTTGA
1 AATGGATCATTTTGA
14380108 AATGTGATCATTTTGA
1 AATG-GATCATTTTGA
14380124 A
1 A
14380125 TTTGAATAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGGATCATTTTGA
Found at i:14387560 original size:10 final size:9
Alignment explanation
Indices: 14387545--14387596 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
14387535 GCTAGCTTGT
14387545 AAAAGAATAA
1 AAAAGAA-AA
14387555 AAAAGAAAA
1 AAAAGAAAA
*
14387564 AAAATGAAAGG
1 AAAA-GAAA-A
14387575 AAAAGAAAA
1 AAAAGAAAA
14387584 AAACA-AAAA
1 AAA-AGAAAA
14387593 AAAA
1 AAAA
14387597 CAATAAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.03
9 16 0.43
10 16 0.43
11 4 0.11
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:14392168 original size:17 final size:17
Alignment explanation
Indices: 14392143--14392176 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14392133 ATTTTCAACA
*
14392143 GAATACCAATATCTTCT
1 GAATACCAATACCTTCT
*
14392160 GAATCCCAATACCTTCT
1 GAATACCAATACCTTCT
14392177 TTCTACCATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (17 bp):
GAATACCAATACCTTCT
Found at i:14401382 original size:23 final size:22
Alignment explanation
Indices: 14401352--14401402 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
14401342 ATTATTTTAT
*
14401352 CAAT-AAATATATTTAAACAAAG
1 CAATAAAATATAATTAAA-AAAG
*
14401374 CAATAAAATTTAATTAAAAAAG
1 CAATAAAATATAATTAAAAAAG
14401396 --ATAAAAT
1 CAATAAAAT
14401403 TCTTTTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 7 0.27
22 8 0.31
23 11 0.42
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (22 bp):
CAATAAAATATAATTAAAAAAG
Found at i:14405955 original size:10 final size:10
Alignment explanation
Indices: 14405929--14405981 Score: 70
Period size: 10 Copynumber: 5.2 Consensus size: 10
14405919 TAAGAAAAGA
14405929 ATGATTCTTG
1 ATGATTCTTG
* *
14405939 GTTATTCTTG
1 ATGATTCTTG
*
14405949 AAGATTCTTG
1 ATGATTCTTG
14405959 ATGATTCTTGG
1 ATGATTCTT-G
14405970 ATGATTCTTG
1 ATGATTCTTG
14405980 AT
1 AT
14405982 CATATTATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
10 26 0.72
11 10 0.28
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.49
Consensus pattern (10 bp):
ATGATTCTTG
Found at i:14406043 original size:18 final size:19
Alignment explanation
Indices: 14406004--14406043 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14405994 GATTGAGATG
* *
14406004 TTCTTGAAAGTTCTTGATT
1 TTCTTAAAAGTTCTTGAAT
14406023 TTCTTAAAAGTT-TTGAAT
1 TTCTTAAAAGTTCTTGAAT
14406041 TTC
1 TTC
14406044 AAAAATAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (19 bp):
TTCTTAAAAGTTCTTGAAT
Found at i:14411339 original size:18 final size:18
Alignment explanation
Indices: 14411316--14411351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14411306 CCTAAACTAT
14411316 CATGAAACCAAAGTAAAA
1 CATGAAACCAAAGTAAAA
* *
14411334 CATGAAACTAAATTAAAA
1 CATGAAACCAAAGTAAAA
14411352 TAACAAGCAA
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:0.61, C:0.14, G:0.08, T:0.17
Consensus pattern (18 bp):
CATGAAACCAAAGTAAAA
Found at i:14412627 original size:145 final size:144
Alignment explanation
Indices: 14412334--14412676 Score: 406
Period size: 145 Copynumber: 2.4 Consensus size: 144
14412324 CATTTTTTAG
* * * *
14412334 AATTTAAAATAC-C-AAAATCCATGAAATATTATAAAATTAAAATCTAAAAAGTTTTATGAAAAT
1 AATTTTAAATACACTAAAAT-CATGAAATATTATGAAATTAAAATTTAAAAAGTTTTATAAAAAT
* * * *
14412397 CTGATCTCGAAAATGGTAAATTACGAAAATACACTTATATGGGTGTTTTGATAATTTCACACTTT
65 CTGAGCTAGAAAATGGTAAATTACGAAAATACACTTATATGAGTATTTTGATAATTTCACACTTT
* *
14412462 TCAGGGTACTGCTAT
130 TCAGGATACTACTAT
* * * **
14412477 AATTTTAACTACACTAAAAATTATGAAATATTATGAAATTAAGATTTAAAATTTTTTATAAAAAT
1 AATTTTAAATACACT-AAAATCATGAAATATTATGAAATTAAAATTTAAAAAGTTTTATAAAAAT
* * * *
14412542 CTGAGCTAGAGAAT-GTCAAATTATGAAAATACTCTTATATGAGTATTTT-AGTAATTTCACATT
65 CTGAGCTAGAAAATGGT-AAATTACGAAAATACACTTATATGAGTATTTTGA-TAATTTCACACT
* *
14412605 TTTCAGGATATTACTGT
128 TTTCAGGATACTACTAT
* * *
14412622 GATTTTAAATGCACTAACATCATGAAATATTATGAAATTAAAATTTAAAAAGTTT
1 AATTTTAAATACACTAAAATCATGAAATATTATGAAATTAAAATTTAAAAAGTTT
14412677 CACGAACATT
Statistics
Matches: 166, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
143 10 0.06
144 39 0.23
145 112 0.67
146 5 0.03
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (144 bp):
AATTTTAAATACACTAAAATCATGAAATATTATGAAATTAAAATTTAAAAAGTTTTATAAAAATC
TGAGCTAGAAAATGGTAAATTACGAAAATACACTTATATGAGTATTTTGATAATTTCACACTTTT
CAGGATACTACTAT
Found at i:14412723 original size:144 final size:144
Alignment explanation
Indices: 14412347--14412742 Score: 397
Period size: 145 Copynumber: 2.7 Consensus size: 144
14412337 TTAAAATACC
* * * *
14412347 AAAATCCATGAAATATTATAAAATTAAAATCTAAAAAGTTTTATGAAAATCTGATCTCGAAAATG
1 AAAAT-CATGAAATATTATGAAATTAAAATTTAAAAAGTTTTA-GAAAATCTGAGCTC-AAAAAG
* * * *
14412412 GT-AAATTACGAAAATACACTTATATGGGTGTTTT-GATAATTTCACACTTTTCAGGGTACTGCT
63 GTCAAATTATGAAAATACACTTATATGGGTATTTTAG-TAATTTCACACTTTTCAGGATACTACT
*
14412475 ATAATTTTAACTACACTA
127 ATAATTTTAAATACACTA
* * ** * * *
14412493 AAAATTATGAAATATTATGAAATTAAGATTTAAAATTTTTTATAAAAATCTGAGCT-AGAGAATG
1 AAAATCATGAAATATTATGAAATTAAAATTTAAAAAGTTTTA-GAAAATCTGAGCTCA-AAAAGG
* * * * *
14412557 TCAAATTATGAAAATACTCTTATATGAGTATTTTAGTAATTTCACATTTTTCAGGATATTACTGT
64 TCAAATTATGAAAATACACTTATATGGGTATTTTAGTAATTTCACACTTTTCAGGATACTACTAT
* *
14412622 GATTTTAAATGCACT-
129 AATTTTAAATACACTA
* * * *
14412637 AACATCATGAAATATTATGAAATTAAAATTTAAAAAGTTTCACGAACAT-TCAAGCTCAAAAAGG
1 AAAATCATGAAATATTATGAAATTAAAATTTAAAAAGTTTTA-GAAAATCT-GAGCTCAAAAAGG
* * * * *
14412701 TCAAATTTTAAAAATTCCCTTATAAGGGTATTTTAGTAATTT
64 TCAAATTATGAAAATACACTTATATGGGTATTTTAGTAATTT
14412743 TTACTTTTTT
Statistics
Matches: 204, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
143 2 0.01
144 88 0.43
145 108 0.53
146 6 0.03
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (144 bp):
AAAATCATGAAATATTATGAAATTAAAATTTAAAAAGTTTTAGAAAATCTGAGCTCAAAAAGGTC
AAATTATGAAAATACACTTATATGGGTATTTTAGTAATTTCACACTTTTCAGGATACTACTATAA
TTTTAAATACACTA
Found at i:14414184 original size:85 final size:86
Alignment explanation
Indices: 14414077--14414278 Score: 307
Period size: 85 Copynumber: 2.4 Consensus size: 86
14414067 AATGCAAATG
* * * * *
14414077 TCTTGTGATGCAAGTGCTAGTGATGTAAATGCAAATGTCTTTTTCATGATGCAAATGCAAGCGAT
1 TCTTGTGATGCAGGTGCTAGTGATGCAAATACAAATGTCTTTTTCATGATACAAATGCAAACGAT
14414142 ACAAATGCAAATGTC-TTTTT
66 ACAAATGCAAATGTCTTTTTT
* * *
14414162 TCTTGTGATGCAGGTGCTAGTGATGCAAATACAAATGTCTTTTTCATGATACGAATGTAAATGAT
1 TCTTGTGATGCAGGTGCTAGTGATGCAAATACAAATGTCTTTTTCATGATACAAATGCAAACGAT
*
14414227 GCAAATGCAAATGTCTTTTTT
66 ACAAATGCAAATGTCTTTTTT
*
14414248 TCTTGTGATACAGGTGCTAGTGATGCAAATA
1 TCTTGTGATGCAGGTGCTAGTGATGCAAATA
14414279 TCTTTTTCAT
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
85 71 0.67
86 35 0.33
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (86 bp):
TCTTGTGATGCAGGTGCTAGTGATGCAAATACAAATGTCTTTTTCATGATACAAATGCAAACGAT
ACAAATGCAAATGTCTTTTTT
Found at i:14414238 original size:41 final size:41
Alignment explanation
Indices: 14414051--14414246 Score: 147
Period size: 41 Copynumber: 4.8 Consensus size: 41
14414041 AGGTAAATGT
* * *
14414051 GAATGCAAGTGATGCAAATGCAAATGTC---TT-GTGATGC
1 GAATGTAAGTGATGCAAATGCAAATGTCTTTTTCATGATAC
* *
14414088 -AAGTGCT-AGTGATGTAAATGCAAATGTCTTTTTCATGATGC
1 GAA-TG-TAAGTGATGCAAATGCAAATGTCTTTTTCATGATAC
* * * * * *
14414129 AAATGCAAGCGATACAAATGCAAATGTCTTTTTTCTTG-TGAT
1 GAATGTAAGTGATGCAAATGCAAATGTC-TTTTTCATGAT-AC
* *
14414171 GCAGGTGCT-AGTGATGCAAATACAAATGTCTTTTTCATGATAC
1 G-A-ATG-TAAGTGATGCAAATGCAAATGTCTTTTTCATGATAC
*
14414214 GAATGTAAATGATGCAAATGCAAATGTCTTTTT
1 GAATGTAAGTGATGCAAATGCAAATGTCTTTTT
14414247 TTCTTGTGAT
Statistics
Matches: 123, Mismatches: 21, Indels: 26
0.72 0.12 0.15
Matches are distributed among these distances:
36 2 0.02
37 22 0.18
40 3 0.02
41 53 0.43
42 11 0.09
43 11 0.09
44 21 0.17
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (41 bp):
GAATGTAAGTGATGCAAATGCAAATGTCTTTTTCATGATAC
Found at i:14414492 original size:87 final size:87
Alignment explanation
Indices: 14414214--14414542 Score: 331
Period size: 89 Copynumber: 3.7 Consensus size: 87
14414204 TTCATGATAC
*
14414214 GAATGTAAATGATGCAAATGCAAATGTCTTTTTTTCTTGTGATACAGGTGCTAGTGATGCAAATA
1 GAATGTAAATGATGCAAATGCAAATGTC--TTTTT-TTGTGATACAGATG-TAGTGATGCAAATA
*
14414279 TCTTTTTCATGATGCACATGCAAGTAT
62 T-TTTTTTATGATGCACATGCAAGTAT
* * * ** * * ** *
14414306 GAATATAAATGATACAAATACGGATGTC-CTTTTTATGATGTAGATGTAAGTGATGCAAATGTTT
1 GAATGTAAATGATGCAAATGCAAATGTCTTTTTTTGTGATACAGATGT-AGTGATGCAAAT-ATT
14414370 TTTTTCATGATGCACATGCAAGTAT
64 TTTTT-ATGATGCACATGCAAGTAT
** * *
14414395 GAATGCGAATGATGCAAATGCAAATGTCTTTTCTTTGTGATATAGATGT-G-AATGCAAATATTT
1 GAATGTAAATGATGCAAATGCAAATGTCTTTT-TTTGTGATACAGATGTAGTGATGCAAATATTT
*
14414458 TTCTTATGATGCAGATGCAAGTAT
65 TT-TTATGATGCACATGCAAGTAT
* ** * * *
14414482 GAATGTGAATGATGCAAATGTGAATATCCTTTTTTGTGATACAGATGCAAGTGATGCAAAT
1 GAATGTAAATGATGCAAATGCAAATGTCTTTTTTTGTGATACAGATG-TAGTGATGCAAAT
14414543 GCAAATATCT
Statistics
Matches: 195, Mismatches: 33, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
86 14 0.07
87 51 0.26
88 38 0.19
89 53 0.27
90 2 0.01
91 14 0.07
92 23 0.12
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (87 bp):
GAATGTAAATGATGCAAATGCAAATGTCTTTTTTTGTGATACAGATGTAGTGATGCAAATATTTT
TTTATGATGCACATGCAAGTAT
Found at i:14414597 original size:130 final size:130
Alignment explanation
Indices: 14414393--14414769 Score: 383
Period size: 130 Copynumber: 2.9 Consensus size: 130
14414383 ACATGCAAGT
* * *
14414393 ATGAATG-CGAATGATGCAAATGCAAATGTCTTTTCTTTGTGATATAGATGTGAATGCAAATAT-
1 ATGAATGTC-AATGATGCAAATGCAAATGTCTTTTTTTTGT-ATGTAGATGTGAATGTAAATATC
* *
14414456 TTTTCTTATGATGCAGATGCAAGTATGAATGTGAATGATGCAAATGTGAATATCCTTTTT-TG-T
64 TTTTC--ATGATGCACATGCAAGTATGAATGCGAATGATGCAAATGTGAATATCCTTTTTATGAT
14414519 GATA
127 GATA
* *
14414523 CA-G-ATG-CAAGTGATGCAAATGCAAATATCTTTTTTTTGGTAATGCAGATGTGAATGTAAATA
1 -ATGAATGTCAA-TGATGCAAATGCAAATGTCTTTTTTTT-GT-ATGTAGATGTGAATGTAAATA
* * * * * *
14414585 TCCTTTTCATGATGCATATGTAAGTACGAATGCAAATGATGCAAATGTGAATGTTCTTTTTATGA
62 T-CTTTTCATGATGCACATGCAAGTATGAATGCGAATGATGCAAATGTGAATATCCTTTTTATGA
*
14414650 TGCTA
126 TGATA
* *
14414655 ATGTGAATGTGAATGATGCAAATGCAAATGTCTTTTTTTATG-ATGTAGATGTGAATGTAAATGT
1 A--TGAATGTCAATGATGCAAATGCAAATGTCTTTTTTT-TGTATGTAGATGTGAATGTAAAT-A
* * * * * *
14414719 TCTTTTTAAGATGCACATACAAGTATGAATACGAGTGATGCAAATGCGAAT
62 TCTTTTCATGATGCACATGCAAGTATGAATGCGAATGATGCAAATGTGAAT
14414770 GTCTCTCTTT
Statistics
Matches: 205, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
128 2 0.01
129 29 0.14
130 68 0.33
131 4 0.02
132 9 0.04
133 59 0.29
134 2 0.01
135 29 0.14
136 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (130 bp):
ATGAATGTCAATGATGCAAATGCAAATGTCTTTTTTTTGTATGTAGATGTGAATGTAAATATCTT
TTCATGATGCACATGCAAGTATGAATGCGAATGATGCAAATGTGAATATCCTTTTTATGATGATA
Found at i:14414684 original size:21 final size:21
Alignment explanation
Indices: 14414646--14414685 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14414636 TGTTCTTTTT
* **
14414646 ATGATGCTAATGTGAATGTGA
1 ATGATGCAAATGCAAATGTGA
14414667 ATGATGCAAATGCAAATGT
1 ATGATGCAAATGCAAATGT
14414686 CTTTTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (21 bp):
ATGATGCAAATGCAAATGTGA
Found at i:14414685 original size:47 final size:48
Alignment explanation
Indices: 14414612--14414717 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
14414602 ATGTAAGTAC
* **
14414612 GAATGCAAATGATGCAAATGTGAATGT-TCTTTTTATGATGCTA-ATGT
1 GAATGTAAATGATGCAAATGCAAATGTCTCTTTTTATGATG-TAGATGT
* *
14414659 GAATGTGAATGATGCAAATGCAAATGTCTTTTTTTATGATGTAGATGT
1 GAATGTAAATGATGCAAATGCAAATGTCTCTTTTTATGATGTAGATGT
14414707 GAATGTAAATG
1 GAATGTAAATG
14414718 TTCTTTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 25 0.49
48 26 0.51
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (48 bp):
GAATGTAAATGATGCAAATGCAAATGTCTCTTTTTATGATGTAGATGT
Found at i:14414743 original size:133 final size:136
Alignment explanation
Indices: 14414533--14414780 Score: 324
Period size: 133 Copynumber: 1.8 Consensus size: 136
14414523 CAGATGCAAG
*
14414533 TGATGCAAATGCAAATATCTTTTTTTTGGTAATGCAGATGTGAATGTAAATATCCTTTTCATGAT
1 TGATGCAAATGCAAATATCTTTTTTTTGG-AATGCAGATGTGAATGTAAATATCCTTTTCAAGAT
* ** * *
14414598 GCATATGTAAGTACGAATGCAAATGATGCAAATGTGAATGT-TCT-TTTTATGATGCTAATGTGA
65 GCACATACAAGTACGAATACAAATGATGCAAATGCGAATGTCTCTCTTTTATGATGCTAATGTGA
14414661 ATGTGAA
130 ATGTGAA
* * * * *
14414668 TGATGCAAATGCAAATGTCTTTTTTTAT-G-ATGTAGATGTGAATGTAAATGTTCTTTTTAAGAT
1 TGATGCAAATGCAAATATCTTTTTTT-TGGAATGCAGATGTGAATGTAAATATCCTTTTCAAGAT
* * *
14414731 GCACATACAAGTATGAATACGAGTGATGCAAATGCGAATGTCTCTCTTTT
65 GCACATACAAGTACGAATACAAATGATGCAAATGCGAATGTCTCTCTTTT
14414781 GTTATGCCAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
133 62 0.65
134 3 0.03
135 30 0.31
136 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (136 bp):
TGATGCAAATGCAAATATCTTTTTTTTGGAATGCAGATGTGAATGTAAATATCCTTTTCAAGATG
CACATACAAGTACGAATACAAATGATGCAAATGCGAATGTCTCTCTTTTATGATGCTAATGTGAA
TGTGAA
Found at i:14415716 original size:24 final size:24
Alignment explanation
Indices: 14415689--14415735 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
14415679 TTTCCGTTTA
14415689 TTTCTCTCTTTTCTTTTCTTTTCT
1 TTTCTCTCTTTTCTTTTCTTTTCT
* * * *
14415713 TTTCTTTGTTTTTTTTTTTTTTC
1 TTTCTCTCTTTTCTTTTCTTTTC
14415736 ATCCTTTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTCTCTCTTTTCTTTTCTTTTCT
Found at i:14415734 original size:5 final size:5
Alignment explanation
Indices: 14415695--14415719 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14415685 TTTATTTCTC
14415695 TCTTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT
14415720 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:14421476 original size:27 final size:26
Alignment explanation
Indices: 14421446--14421503 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
14421436 TGGTTAGTAC
14421446 AAAAGAAAGAAAAATAAAAATAAAAGT
1 AAAAGAAAGAAAAATAAAAA-AAAAGT
* * *
14421473 AAAAGCATGAAAAATAATAAAAAAGT
1 AAAAGAAAGAAAAATAAAAAAAAAGT
*
14421499 GAAAG
1 AAAAG
14421504 GAAAAGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (26 bp):
AAAAGAAAGAAAAATAAAAAAAAAGT
Found at i:14424056 original size:21 final size:21
Alignment explanation
Indices: 14424040--14424083 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14424030 CCTAAACTAT
14424040 CATGAAACCAAAGTAAAATAA
1 CATGAAACCAAAGTAAAATAA
* *
14424061 CATGAAACTAAATTAAAATAA
1 CATGAAACCAAAGTAAAATAA
14424082 CA
1 CA
14424084 AGCCAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (21 bp):
CATGAAACCAAAGTAAAATAA
Found at i:14425402 original size:146 final size:145
Alignment explanation
Indices: 14425088--14425484 Score: 466
Period size: 146 Copynumber: 2.7 Consensus size: 145
14425078 TTAAAACATC
* *
14425088 AAAAATCATGAAATATTATGAAATTGAA-ATATGAAAAGTTTCATGAAAATCTAATA--TCGGGA
1 AAAAATCATGAAATATTATGAAATT-AAGATCTGAAAAGTTTCATGAAAATCTAA-AGCTC-GAA
* * * **
14425150 AGGGT-AAATTACAAAAATACCCTTATATGGGTATTTTGGTAGTTTTGCACTTCCCAAGGTATTG
63 AAGGTCAAATTA-AAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTCCCAAGGTATTG
* *
14425214 CTATGATTTCAAATATACT
127 CTACGATTTCAAATACACT
*
14425233 AAAAATTATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT-TAAAGCTCGAAAAG
1 AAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAAGCTCGAAAAG
* * ***** *
14425297 GTCAAATTATAAAAATACCCTTATAGGGGATATTTTGGTAATTTCATATTTTTTTGGGTATTGTT
66 GTCAAATTA-AAAAATACCCTTATAGGGG-TATTTTGGTAATTTCACACTTCCCAAGGTATTGCT
* *
14425362 GCGATTTCAACTACACT
129 ACGATTTCAAATACACT
* *
14425379 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCT-AAGCT-TAGAAA
1 AAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAAGCTCGA-AAA
* *
14425442 GGTCAAATTACAAAATACCCTTATAGGAGTATTTTGGTAATTT
65 GGTCAAATTAAAAAATACCCTTATAGGGGTATTTTGGTAATTT
14425485 GTACTTCTCT
Statistics
Matches: 219, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
143 1 0.00
144 25 0.11
145 89 0.41
146 103 0.47
147 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (145 bp):
AAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAAGCTCGAAAAG
GTCAAATTAAAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTCCCAAGGTATTGCTAC
GATTTCAAATACACT
Found at i:14432873 original size:19 final size:18
Alignment explanation
Indices: 14432830--14432873 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14432820 ACTTAAACAC
*
14432830 ACACAGCTTAAAATCCAA
1 ACACATCTTAAAATCCAA
14432848 A-ATCATCTTAAAATCACAA
1 ACA-CATCTTAAAATC-CAA
14432867 ACACATC
1 ACACATC
14432874 CAATCACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 12 0.55
19 8 0.36
20 1 0.05
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.20
Consensus pattern (18 bp):
ACACATCTTAAAATCCAA
Found at i:14433716 original size:17 final size:18
Alignment explanation
Indices: 14433672--14433723 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
14433662 TGAAAAGTTA
*
14433672 TAAAAATCACACTTTCTTT
1 TAAAGATCACACTTT-TTT
14433691 TAAAGATCACA-TTTTTT
1 TAAAGATCACACTTTTTT
* *
14433708 TAGATATCACACTTTT
1 TAAAGATCACACTTTT
14433724 CATTAGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.41
18 7 0.24
19 10 0.34
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (18 bp):
TAAAGATCACACTTTTTT
Found at i:14433749 original size:92 final size:92
Alignment explanation
Indices: 14433641--14433828 Score: 304
Period size: 92 Copynumber: 2.0 Consensus size: 92
14433631 TTTTTTTCAA
* *
14433641 TCAAACACAGAAATCTAAAAATGAAAAGTTATAAAAATCACACTTTCTTTTAAAGATCACATTTT
1 TCAAACACAAAAATCTAAAAATGAAAAGTTATAAAAATCACACTTTCTTTTAAAGATCACACTTT
14433706 TTTAGATATCACACTTTTCATTAGAAT
66 TTTAGATATCACACTTTTCATTAGAAT
* * * * * *
14433733 TCAAACATAAAAATCTAAAAATGAGAAGTTATGAAAATCACACTTTTTTTTAAGGATTACACTTT
1 TCAAACACAAAAATCTAAAAATGAAAAGTTATAAAAATCACACTTTCTTTTAAAGATCACACTTT
14433798 TTTAGATATCACACTTTTCATTAGAAT
66 TTTAGATATCACACTTTTCATTAGAAT
14433825 TCAA
1 TCAA
14433829 CATTTTACGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (92 bp):
TCAAACACAAAAATCTAAAAATGAAAAGTTATAAAAATCACACTTTCTTTTAAAGATCACACTTT
TTTAGATATCACACTTTTCATTAGAAT
Found at i:14439239 original size:21 final size:19
Alignment explanation
Indices: 14439205--14439276 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
14439195 AACTAAAATG
14439205 CTTGAAAAACTTAAATTAAA
1 CTTGAAAAACTTAAATT-AA
*
14439225 CTTGCAAAAATTTAAATTAA
1 CTTG-AAAAACTTAAATTAA
*
14439245 CTTGAAAGAAC-TGAATTGAA
1 CTTGAAA-AACTTAAATT-AA
14439265 -TTG-AAAACTTAA
1 CTTGAAAAACTTAA
14439277 GAAAACAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 11 0.25
20 14 0.32
21 12 0.27
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
CTTGAAAAACTTAAATTAA
Found at i:14440512 original size:532 final size:532
Alignment explanation
Indices: 14439508--14441105 Score: 3160
Period size: 532 Copynumber: 3.0 Consensus size: 532
14439498 AGTGTGATTC
14439508 GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
1 GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
14439573 TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
66 TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
*
14439638 TGATGACATGTCTCTTTTCAATTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
131 TGATGACATGTCTCTTTTCAGTTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
14439703 GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
196 GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
14439768 TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGACTTTGATAATTCTATGAA
261 TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGACTTTGATAATTCTATGAA
14439833 ATAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTCTTAGCTAAAT
326 ATAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTCTTAGCTAAAT
14439898 AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
391 AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
14439963 ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
456 ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
14440028 GAATGAATTTTG
521 GAATGAATTTTG
14440040 GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
1 GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
14440105 TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
66 TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
14440170 TGATGACATGTCTCTTTTCAGTTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
131 TGATGACATGTCTCTTTTCAGTTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
14440235 GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
196 GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
*
14440300 TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGAATTTGATAATTCTATGAA
261 TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGACTTTGATAATTCTATGAA
*
14440365 ATAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTATTAGCTAAAT
326 ATAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTCTTAGCTAAAT
14440430 AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
391 AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
14440495 ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
456 ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
14440560 GAATGAATTTTG
521 GAATGAATTTTG
14440572 GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
1 GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
14440637 TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
66 TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
14440702 TGATGACATGTCTCTTTTCAGTTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
131 TGATGACATGTCTCTTTTCAGTTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
14440767 GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
196 GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
14440832 TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGACTTTGATAATTCTATGAA
261 TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGACTTTGATAATTCTATGAA
*
14440897 ACAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTCTTAGCTAAAT
326 ATAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTCTTAGCTAAAT
14440962 AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
391 AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
14441027 ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
456 ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
14441092 GAATGAATTTTG
521 GAATGAATTTTG
14441104 GA
1 GA
14441106 GGGTTATTAA
Statistics
Matches: 1060, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
532 1060 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (532 bp):
GACCATGCTTAGTATCTTAAATTGAAAGAGTCTTTTTGAATTAGATTTTTAATGGATAAGTTGTC
TCATCTTCACATGAATGTATGTAAACTAAATTTTGGCTAAATTTATCACTGACTTGGAGTAATCT
TGATGACATGTCTCTTTTCAGTTGAAAAAAGAAAGTTCGACTACTTCTTTAAGAAATGAGAAGTT
GATTCTTTCTTAAACTCTTTCAAGTGGCTTTCAAAGTCCTAACTTTAAGCTACTTATAACCTTTT
TTTGGCAAAAAGTTTTATACGACTTTAAGCTTTTAGGAACTTAAAGACTTTGATAATTCTATGAA
ATAGAGTTATTTATACTTATTTTTAGTGCTTAAATGAGTTAATTTTGCTTAGTTCTTAGCTAAAT
AAGGTTATTTCTACTCCTAATGTGCTTAATTTGCTTTTTGTAGGAAATCTTGAAGAAAAGATTAA
ATCTTGGTGTATCTTGAAGAATCTTGGAAGGTTTTGATCAAATTTGGATGATTCTTGATGCATTT
GAATGAATTTTG
Found at i:14441824 original size:5 final size:5
Alignment explanation
Indices: 14441814--14441856 Score: 68
Period size: 5 Copynumber: 8.4 Consensus size: 5
14441804 AAAAAAATCA
*
14441814 AAAAT AAAAT AAAAT AAGAT AAAAT AAAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AA
14441857 GGGATACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:14441847 original size:26 final size:27
Alignment explanation
Indices: 14441807--14441857 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
14441797 TTATTTAAAA
14441807 AAAATCAAAAATAAAATAAAATAAGAT
1 AAAATCAAAAATAAAATAAAATAAGAT
14441834 AAAAT-AAAAATAAAATAAAATAAG
1 AAAATCAAAAATAAAATAAAATAAG
14441858 GGATACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (27 bp):
AAAATCAAAAATAAAATAAAATAAGAT
Found at i:14442739 original size:28 final size:26
Alignment explanation
Indices: 14442706--14442864 Score: 136
Period size: 24 Copynumber: 6.1 Consensus size: 26
14442696 AATAATAGAT
*
14442706 AAATATACATTGATAGATAAATAT-AA
1 AAATATA-ATTAATAGATAAATATAAA
*
14442732 AAACAT-ATTAATAGATAAATA-AAA
1 AAATATAATTAATAGATAAATATAAA
*
14442756 ATA-ATAA-TAATAGATAAATATAAA
1 AAATATAATTAATAGATAAATATAAA
14442780 AAATATACATTAATAGATAAATAATAAA
1 AAATATA-ATTAATAGATAAAT-ATAAA
* *
14442808 AAATAT-ATTAATAAAT-AATAAAAA
1 AAATATAATTAATAGATAAATATAAA
14442832 TGTATATATATATATTAATAGATAAATA-AAA
1 ---A-A-ATATA-ATTAATAGATAAATATAAA
14442863 AA
1 AA
14442865 GATTAATAGA
Statistics
Matches: 111, Mismatches: 7, Indels: 29
0.76 0.05 0.20
Matches are distributed among these distances:
23 15 0.14
24 28 0.25
25 6 0.05
26 15 0.14
27 14 0.13
28 13 0.12
29 4 0.04
31 12 0.11
32 4 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (26 bp):
AAATATAATTAATAGATAAATATAAA
Found at i:14442774 original size:47 final size:48
Alignment explanation
Indices: 14442718--14442831 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 48
14442708 ATATACATTG
*
14442718 ATAGATAAATATAAAAACAT-ATTAATAGATAAATAA-AAATAATAATA
1 ATAGATAAATATAAAAACATAATTAATAGATAAATAATAAAAAAT-ATA
*
14442765 ATAGATAAATATAAAAAATATACATTAATAGATAAATAATAAAAAATATA
1 ATAGATAAATAT-AAAAACATA-ATTAATAGATAAATAATAAAAAATATA
*
14442815 TTA-ATAAATAATAAAAA
1 ATAGATAAAT-ATAAAAA
14442832 TGTATATATA
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
47 12 0.20
48 7 0.12
49 11 0.19
50 23 0.39
51 6 0.10
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (48 bp):
ATAGATAAATATAAAAACATAATTAATAGATAAATAATAAAAAATATA
Found at i:14442779 original size:53 final size:50
Alignment explanation
Indices: 14442730--14442922 Score: 148
Period size: 50 Copynumber: 3.7 Consensus size: 50
14442720 AGATAAATAT
14442730 AAAAACATATTAATAGATAAATAAAAATAATAATAATAGATAAATATAAAA
1 AAAAACATATTAATAGATAAATAAAAA-AATAATAATAGATAAATATAAAA
* *
14442781 AATATAC--ATTAATAGATAAATAATAAAAA-ATATATTA-ATAAATAATAAAA
1 AA-AAACATATTAATAGATAAATAA-AAAAATA-ATAATAGATAAAT-ATAAAA
*
14442831 ATGTATATATATATATTAATAGATAAATAAAAAAGAT--TAATAGATAAATA-AGAAA
1 A---A-A-A-ACATATTAATAGATAAATAAAAAA-ATAATAATAGATAAATATA-AAA
* * * * *
14442886 AAAAATATATTTATAAATAAATAAATAAATAAAAATA
1 AAAAACATATTAATAGATAAATAAAAAAATAATAATA
14442923 AAAATGTAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 35
0.73 0.06 0.22
Matches are distributed among these distances:
48 2 0.02
49 28 0.24
50 35 0.30
51 6 0.05
52 4 0.03
53 3 0.03
54 1 0.01
55 10 0.09
56 10 0.09
57 17 0.15
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (50 bp):
AAAAACATATTAATAGATAAATAAAAAAATAATAATAGATAAATATAAAA
Found at i:14442812 original size:7 final size:7
Alignment explanation
Indices: 14442741--14442927 Score: 56
Period size: 8 Copynumber: 26.4 Consensus size: 7
14442731 AAAACATATT
14442741 AATAGATA
1 AATA-ATA
14442749 AATAA-A
1 AATAATA
14442755 AATAATAA
1 AATAAT-A
14442763 TAATAGATA
1 -AATA-ATA
14442772 AAT-ATA
1 AATAATA
14442778 AA-AA-A
1 AATAATA
* *
14442783 TATACATT
1 AATA-ATA
14442791 AATAGATA
1 AATA-ATA
14442799 AATAATA
1 AATAATA
*
14442806 AAAAATA
1 AATAATA
*
14442813 TATTAATA
1 -AATAATA
14442821 AATAATA
1 AATAATA
*
14442828 AA-AATG
1 AATAATA
*
14442834 TAT-ATA
1 AATAATA
* *
14442840 TATATATT
1 AATA-ATA
14442848 AATAGATA
1 AATA-ATA
14442856 AATAA-A
1 AATAATA
*
14442862 AA-AGATT
1 AATA-ATA
14442869 AATAGATA
1 AATA-ATA
*
14442877 AATAAGA
1 AATAATA
14442884 AA-AA-A
1 AATAATA
*
14442889 AATATATT
1 AATA-ATA
*
14442897 TATAAATA
1 AAT-AATA
14442905 AATAAATA
1 AAT-AATA
14442913 AATAA-A
1 AATAATA
14442919 AATAA-A
1 AATAATA
14442925 AAT
1 AAT
14442928 GTAAATGGGT
Statistics
Matches: 137, Mismatches: 23, Indels: 40
0.69 0.12 0.20
Matches are distributed among these distances:
5 6 0.04
6 39 0.28
7 29 0.21
8 55 0.40
9 6 0.04
10 2 0.01
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:14442852 original size:57 final size:54
Alignment explanation
Indices: 14442736--14442920 Score: 168
Period size: 53 Copynumber: 3.4 Consensus size: 54
14442726 ATATAAAAAC
* * *
14442736 ATATTAATAGATAAATAA-AAATAA-TAATA-ATAGATAA-ATATAAAAA-ATAT
1 ATATTAATAGATAAATAATAAAAAATTAATAGATAAATAAGA-AAAAAAATATAT
* * * *
14442786 ACATTAATAGATAAATAATAAAAAATATATTA-ATAAATAATAAAAATGTATATATAT
1 ATATTAATAGATAAATAATAAAAAAT-TAATAGATAAATAAGAAAAA---AAATATAT
*
14442843 ATATTAATAGATAAATAA-AAAAGATTAATAGATAAATAAGAAAAAAAATATAT
1 ATATTAATAGATAAATAATAAAAAATTAATAGATAAATAAGAAAAAAAATATAT
* * *
14442896 TTATAAATAAATAAATAAATAAAAA
1 ATATTAATAGATAAAT-AATAAAAA
14442921 TAAAAATGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
50 17 0.16
51 5 0.05
53 34 0.31
54 3 0.03
55 8 0.07
56 21 0.19
57 21 0.19
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (54 bp):
ATATTAATAGATAAATAATAAAAAATTAATAGATAAATAAGAAAAAAAATATAT
Found at i:14442870 original size:21 final size:22
Alignment explanation
Indices: 14442845--14442886 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
14442835 ATATATATAT
14442845 ATTAATAGATAAATAA-AAAAG
1 ATTAATAGATAAATAAGAAAAG
14442866 ATTAATAGATAAATAAGAAAA
1 ATTAATAGATAAATAAGAAAA
14442887 AAAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (22 bp):
ATTAATAGATAAATAAGAAAAG
Found at i:14444080 original size:23 final size:23
Alignment explanation
Indices: 14444049--14444093 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14444039 TCAATTTCAA
* *
14444049 TTTTCTTTTAAATTGAAGTTTTG
1 TTTTATTTTAAATTCAAGTTTTG
*
14444072 TTTTATTTTCAATTCAAGTTTT
1 TTTTATTTTAAATTCAAGTTTT
14444094 CTTAGATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (23 bp):
TTTTATTTTAAATTCAAGTTTTG
Found at i:14447990 original size:22 final size:24
Alignment explanation
Indices: 14447949--14447992 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14447939 TTTTAATGTA
14447949 TTTAATATATTAAAATATCATATT
1 TTTAATATATTAAAATATCATATT
*
14447973 TTTAATGT-TTAAAA-ATCATA
1 TTTAATATATTAAAATATCATA
14447993 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTAATATATTAAAATATCATATT
Found at i:14448081 original size:14 final size:14
Alignment explanation
Indices: 14448062--14448090 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14448052 AGGATATCTC
14448062 AAAAAAAT-AGATA
1 AAAAAAATAAGATA
14448075 AAAAAAATAAGATA
1 AAAAAAATAAGATA
14448089 AA
1 AA
14448091 GGGAGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAATAAGATA
Found at i:14453096 original size:12 final size:13
Alignment explanation
Indices: 14453079--14453107 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14453069 TTGATAGAAT
14453079 AAAAT-ATAATTA
1 AAAATAATAATTA
14453091 AAAATAATAATTA
1 AAAATAATAATTA
14453104 AAAA
1 AAAA
14453108 CATTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAATAATTA
Found at i:14455631 original size:19 final size:21
Alignment explanation
Indices: 14455604--14455643 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14455594 CTATGTATGA
14455604 ACATAACAA-T-AATATAAAT
1 ACATAACAATTGAATATAAAT
*
14455623 ACATGACAATTGAATATAAAT
1 ACATAACAATTGAATATAAAT
14455644 GACAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (21 bp):
ACATAACAATTGAATATAAAT
Found at i:14455674 original size:22 final size:22
Alignment explanation
Indices: 14455648--14455694 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 22
14455638 ATAAATGACA
14455648 AAGAATGAATGCATGATAATTT
1 AAGAATGAATGCATGATAATTT
14455670 ---AA-GAATGCATGATAATTT
1 AAGAATGAATGCATGATAATTT
14455688 AAGAATG
1 AAGAATG
14455695 CATGTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
18 16 0.76
19 2 0.10
21 2 0.10
22 1 0.05
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (22 bp):
AAGAATGAATGCATGATAATTT
Found at i:14455675 original size:18 final size:18
Alignment explanation
Indices: 14455654--14455698 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
14455644 GACAAAGAAT
14455654 GAATGCATGATAATTTAA
1 GAATGCATGATAATTTAA
14455672 GAATGCATGATAATTTAA
1 GAATGCATGATAATTTAA
14455690 GAATGCATG
1 GAATGCATG
14455699 TAACAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (18 bp):
GAATGCATGATAATTTAA
Found at i:14455764 original size:19 final size:19
Alignment explanation
Indices: 14455736--14455778 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14455726 TTATTTTAGG
*
14455736 GTTTAGGGTTTGGATAGCA
1 GTTTAAGGTTTGGATAGCA
* *
14455755 GTTTAAGGTTTTGATGGCA
1 GTTTAAGGTTTGGATAGCA
14455774 GTTTA
1 GTTTA
14455779 GGATTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.42
Consensus pattern (19 bp):
GTTTAAGGTTTGGATAGCA
Found at i:14455860 original size:19 final size:19
Alignment explanation
Indices: 14455755--14456009 Score: 142
Period size: 19 Copynumber: 13.2 Consensus size: 19
14455745 TTGGATAGCA
* * **
14455755 GTTTAAGGTTTTGATGGCA
1 GTTTATGGTTTAGATGGTG
*
14455774 GTTTA-GGATTTATATGGTG
1 GTTTATGG-TTTAGATGGTG
* * *
14455793 GTTTAGGGTTTATATGATG
1 GTTTATGGTTTAGATGGTG
** * *
14455812 ACTTAGGGTTTGGATGGTG
1 GTTTATGGTTTAGATGGTG
* * *
14455831 ATTTTAGGGCTTAGATGGTG
1 -GTTTATGGTTTAGATGGTG
*
14455851 GTTTATGGCTTAGATGGTG
1 GTTTATGGTTTAGATGGTG
*
14455870 GTTTGAT-GTTTAAATGGTG
1 GTTT-ATGGTTTAGATGGTG
*
14455889 GTTTAGTGTTTGTA-ATGGTG
1 GTTTA-TGGTT-TAGATGGTG
*
14455909 GTTT-TGGGTTTGGATGGTG
1 GTTTAT-GGTTTAGATGGTG
* * * *
14455928 GCTTAAGGCTAAGAATGGTG
1 GTTTATGGTTTAG-ATGGTG
* * *
14455948 ATTTAGGGTTTAGATAGTG
1 GTTTATGGTTTAGATGGTG
*
14455967 GTTTAGGGTTTAGATGGTG
1 GTTTATGGTTTAGATGGTG
*
14455986 GTTTA-GGATTAGGAATGGTG
1 GTTTATGGTTTA-G-ATGGTG
14456006 GTTT
1 GTTT
14456010 GGGGGTTTCA
Statistics
Matches: 188, Mismatches: 35, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
18 10 0.05
19 121 0.64
20 55 0.29
21 2 0.01
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.42
Consensus pattern (19 bp):
GTTTATGGTTTAGATGGTG
Found at i:14455867 original size:39 final size:39
Alignment explanation
Indices: 14455824--14455985 Score: 134
Period size: 39 Copynumber: 4.2 Consensus size: 39
14455814 TTAGGGTTTG
*
14455824 GATGGTGATTTTAGGGCTTAGATGGTGGTTTATGGCTTA
1 GATGGTGATTTTAGGGTTTAGATGGTGGTTTATGGCTTA
* * * * **
14455863 GATGGTGGTTTGA-TGTTTAAATGGTGGTTTAGTGTTTGTA
1 GATGGTGATTTTAGGGTTTAGATGGTGGTTTA-TGGCT-TA
* * * * *
14455903 -ATGGTGGTTTT-GGGTTTGGATGGTGGCTTAAGGCTAA
1 GATGGTGATTTTAGGGTTTAGATGGTGGTTTATGGCTTA
* * *
14455940 GAATGGTGA-TTTAGGGTTTAGATAGTGGTTTAGGGTTTA
1 G-ATGGTGATTTTAGGGTTTAGATGGTGGTTTATGGCTTA
14455979 GATGGTG
1 GATGGTG
14455986 GTTTAGGATT
Statistics
Matches: 94, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
37 1 0.01
38 26 0.28
39 65 0.69
40 2 0.02
ACGTcount: A:0.19, C:0.02, G:0.38, T:0.41
Consensus pattern (39 bp):
GATGGTGATTTTAGGGTTTAGATGGTGGTTTATGGCTTA
Found at i:14456002 original size:58 final size:57
Alignment explanation
Indices: 14455775--14456005 Score: 191
Period size: 58 Copynumber: 4.0 Consensus size: 57
14455765 TTGATGGCAG
* * * * ** *
14455775 TTTAGGATTTATATGGTGGTTTAGGGTTTATATGATGACTTAGGGTTTGG-ATGGTGA
1 TTTAGGGTTTAGATGGTGGTTTAGGGTTTAGATGGTGGTTTA-GGTTAGGAATGGTGA
* * * * *
14455832 TTTTAGGGCTTAGATGGTGGTTTATGGCTTAGATGGTGGTTTGATGTTTA--AATGGTGG
1 -TTTAGGGTTTAGATGGTGGTTTAGGGTTTAGATGGTGGTTT-A-GGTTAGGAATGGTGA
* * * * * *
14455890 TTTAGTGTTT-GTAATGGTGGTTTTGGGTTTGGATGGTGGCTTAAGGCTAAGAATGGTGA
1 TTTAGGGTTTAG--ATGGTGGTTTAGGGTTTAGATGGTGG-TTTAGGTTAGGAATGGTGA
*
14455949 TTTAGGGTTTAGATAGTGGTTTAGGGTTTAGATGGTGGTTTAGGATTAGGAATGGTG
1 TTTAGGGTTTAGATGGTGGTTTAGGGTTTAGATGGTGGTTTAGG-TTAGGAATGGTG
14456006 GTTTGGGGGT
Statistics
Matches: 134, Mismatches: 30, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
56 1 0.01
57 16 0.12
58 94 0.70
59 22 0.16
60 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.42
Consensus pattern (57 bp):
TTTAGGGTTTAGATGGTGGTTTAGGGTTTAGATGGTGGTTTAGGTTAGGAATGGTGA
Found at i:14466184 original size:96 final size:95
Alignment explanation
Indices: 14466072--14466742 Score: 428
Period size: 96 Copynumber: 6.8 Consensus size: 95
14466062 TAAAGGCCAA
* * *
14466072 GAAATTTAAAAAATCTCATTTTGAAAAGGCTCTTATAAACATAGGTAAGGAACTTTAAAAGTTTC
1 GAAATTT-AAAAATCTCATTTTGAAAAGGCTCCTATAAACATAGGTAAGGAACTTTAAAAATCTC
* * * * *
14466137 ACATTGAAAATGTTCCTATAAACATAAGAAGG
65 ACTTTGAAAAAGCTCATATAAATATAAGAA-G
* *
14466169 GAAATTTAAAAATCTCATTTTGAAAATAGCTCCTATAAACATAGGT-AGGAAACTTTTAAAAATT
1 GAAATTTAAAAATCTCATTTTGAAAA-GGCTCCTATAAACATAGGTAAGG-AAC-TTTAAAAATC
* ** * * *
14466233 TCACATT-AAAAATGGCTTTTATAAACATAGGCAGG
63 TCACTTTGAAAAA--GCTCATATAAATATAAG-AAG
* * *** * * * * *
14466268 GAACTTTTTTAAAAATTTTGCTTTGAAAATGGCTTCTATAAACATAAGCAAGCAATTTTAAAAAT
1 GAA---ATTTAAAAATCTCATTTTGAAAA-GGCTCCTATAAACATAGGTAAGGAACTTTAAAAAT
* * * * * * * *
14466333 ATC-TTTTGAAAAGGTTCTTATAAATGTAGGTAGG
62 CTCACTTTGAAAAAGCTCATATAAATATAAG-AAG
* * * * * * *
14466367 GAATTTTAAAAATCTCACTTTGAAAAAGACTCCTACAAACCTAGGCATGGAACTTTAAAAATCTC
1 GAAATTTAAAAATCTCATTTTG-AAAAGGCTCCTATAAACATAGGTAAGGAACTTTAAAAATCTC
* * *
14466432 ATTTTGAAAAAAAGCTCATGTAAATATAGGTAA-
65 ACTTTG--AAAAAGCTCATATAAATATAAG-AAG
* * *
14466465 -AAAGCTTTAAAAATCTTGCTTTATTTCACTTTAAAAAAGGCT-TTAATAAACATAGGTAGGGAA
1 GAAA--TTTAAAAATC-T-C---A--T---TTT-GAAAAGGCTCCT-ATAAACATAGGTAAGGAA
*
14466528 CTTTAAAAATCTCACTTTGAAAAAGACTCCTATAAATAT-AGACAG
52 CTTTAAAAATCTCACTTTGAAAAAG-CTCATATAAATATAAGA-AG
* *
14466573 GAAATTTAAAAATCTCATTTTGAAAAAGGTTCCTATAAACATA-G-ACAGG-GCTTTAAAAATCT
1 GAAATTTAAAAATCTCATTTTG-AAAAGGCTCCTATAAACATAGGTA-AGGAACTTTAAAAATCT
* *
14466635 CACTTTTAAAAAGGCTCATATAAATATAAGCCAG
64 CACTTTGAAAAA-GCTCATATAAATATAAG-AAG
* * *
14466669 GAACTTTAAAAATCTCATTTTGAAAAAGGCTCCTATAAACATAGGTAGGGAAGTTTAAAAATCTC
1 GAAATTTAAAAATCTCATTTTG-AAAAGGCTCCTATAAACATAGGTAAGGAACTTTAAAAATCTC
14466734 -CTTTGAAAA
65 ACTTTGAAAA
14466743 GGCTTTAAAA
Statistics
Matches: 458, Mismatches: 74, Indels: 84
0.74 0.12 0.14
Matches are distributed among these distances:
95 36 0.08
96 116 0.25
97 72 0.16
98 30 0.07
99 65 0.14
100 5 0.01
101 16 0.03
102 37 0.08
103 2 0.00
104 1 0.00
105 1 0.00
106 2 0.00
107 18 0.04
108 12 0.03
109 45 0.10
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (95 bp):
GAAATTTAAAAATCTCATTTTGAAAAGGCTCCTATAAACATAGGTAAGGAACTTTAAAAATCTCA
CTTTGAAAAAGCTCATATAAATATAAGAAG
Found at i:14466428 original size:49 final size:48
Alignment explanation
Indices: 14466080--14466746 Score: 445
Period size: 49 Copynumber: 13.5 Consensus size: 48
14466070 AAGAAATTTA
* * *
14466080 AAAAATCTCATTTTG-AAAAGGCTCTTATAAACATAGGTAAGGAACTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGG-CAGGAACTTT
* * * * * * * *
14466128 AAAAGTTTCACATTG-AAAATGTTCCTATAAACATAAGAAGGGAAATTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCA-GGAACTTT
* *
14466176 AAAAATCTCATTTTGAAAATA-GCTCCTATAAACATAGGTAGGAAACTTTT
1 AAAAATCTCACTTTGAAAA-AGGCTCCTATAAACATAGGCAGG-AAC-TTT
* * **
14466226 AAAAATTTCACATT-AAAAATGGCTTTTATAAACATAGGCAGGGAACTTTTTT
1 AAAAATCTCACTTTGAAAAA-GGCTCCTATAAACATAGGCA-GGAAC---TTT
* ** * * * * *
14466278 AAAAATTTTGCTTTGAAAATGGCTTCTATAAACATAAGCAAGCAATTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGC-AGGAACTTT
* * * * ** * *
14466327 AAAAATATC-TTTTG-AAAAGGTTCTTATAAATGTAGGTAGGGAATTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCA-GGAACTTT
* * *
14466374 AAAAATCTCACTTTGAAAAAGACTCCTACAAACCTAGGCATGGAACTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCA-GGAACTTT
* * * * * * **
14466423 AAAAATCTCATTTTGAAAAAAAGCTCATGTAAATATAGGTAAAAAGCTTT
1 AAAAATCTCACTTTG-AAAAAGGCTCCTATAAACATAGGCAGGAA-CTTT
* * *
14466473 AAAAATCTTGCTTTATTTCACTTTAAAAAAGGCT-TTAATAAACATAGGTAGGGAACTTT
1 AAAAA---T-C------TCACTTTGAAAAAGGCTCCT-ATAAACATAGGCA-GGAACTTT
* * * *
14466532 AAAAATCTCACTTTGAAAAAGACTCCTATAAATATAGACAGGAAATTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCAGGAACTTT
* * * *
14466580 AAAAATCTCATTTTGAAAAAGGTTCCTATAAACATAGACAGG-GCTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCAGGAACTTT
* * * *
14466627 AAAAATCTCACTTTTAAAAAGGCTCATATAAATATAAGCCAGGAACTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACAT-AGGCAGGAACTTT
* * *
14466676 AAAAATCTCATTTTGAAAAAGGCTCCTATAAACATAGGTAGGGAAGTTT
1 AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCA-GGAACTTT
14466725 AAAAATCTC-CTTTG-AAAAGGCT
1 AAAAATCTCACTTTGAAAAAGGCT
14466747 TTAAAAATTT
Statistics
Matches: 485, Mismatches: 101, Indels: 67
0.74 0.15 0.10
Matches are distributed among these distances:
46 1 0.00
47 73 0.15
48 116 0.24
49 151 0.31
50 61 0.13
51 2 0.00
52 35 0.07
53 6 0.01
54 1 0.00
55 1 0.00
56 1 0.00
58 1 0.00
59 28 0.06
60 8 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (48 bp):
AAAAATCTCACTTTGAAAAAGGCTCCTATAAACATAGGCAGGAACTTT
Found at i:14469479 original size:36 final size:36
Alignment explanation
Indices: 14469432--14469504 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
14469422 TTAATTACAA
14469432 GTACCAATAAGTCATCTAGTATTATAGTCCAAGATG
1 GTACCAATAAGTCATCTAGTATTATAGTCCAAGATG
* *
14469468 GTACCAATAAGTCATCTAGTATTGTAGTTCAAGATG
1 GTACCAATAAGTCATCTAGTATTATAGTCCAAGATG
14469504 G
1 G
14469505 CTCCTTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (36 bp):
GTACCAATAAGTCATCTAGTATTATAGTCCAAGATG
Found at i:14472141 original size:3 final size:3
Alignment explanation
Indices: 14472133--14472160 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14472123 ATTAAAGATA
14472133 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14472161 GTTTAATAAA
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:14473470 original size:26 final size:27
Alignment explanation
Indices: 14473434--14473484 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
14473424 AATCAAAAGT
*
14473434 TTTAGATTTAATTGGTTTTATTTTATA
1 TTTAGATTTAATTCGTTTTATTTTATA
*
14473461 TTTA-ATTTAATTCTTTTTATTTTA
1 TTTAGATTTAATTCGTTTTATTTTA
14473485 AGTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (27 bp):
TTTAGATTTAATTCGTTTTATTTTATA
Found at i:14481216 original size:85 final size:85
Alignment explanation
Indices: 14481100--14481273 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 85
14481090 GTAGATGTAC
*
14481100 CAAAAGTGGATGATGCGGGCACATGATAAAAAATTATGGCCTTAATATTTTCATGAAGGAGAAAT
1 CAAAAGTGGATGATGCGGGCACATGATAAAAAATTATGGCCTTAATATTTTCATGAAAGAGAAAT
14481165 GGTTCTGAAAAAGATCTTGA
66 GGTTCTGAAAAAGATCTTGA
14481185 CAAAAGTGGATGATGCGGGCACATGATAAAAAATTATGGCCTTAATATTTTCATGAAAGAGAAAT
1 CAAAAGTGGATGATGCGGGCACATGATAAAAAATTATGGCCTTAATATTTTCATGAAAGAGAAAT
14481250 GGTTCTGAAAAAGATCTTGA
66 GGTTCTGAAAAAGATCTTGA
14481270 CAAA
1 CAAA
14481274 TCAACAAGAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (85 bp):
CAAAAGTGGATGATGCGGGCACATGATAAAAAATTATGGCCTTAATATTTTCATGAAAGAGAAAT
GGTTCTGAAAAAGATCTTGA
Found at i:14482117 original size:11 final size:11
Alignment explanation
Indices: 14482101--14482130 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
14482091 AGGCATTTAG
14482101 AAAAAAGAAAA
1 AAAAAAGAAAA
14482112 AAAAAAGAAAA
1 AAAAAAGAAAA
14482123 AAAAAAGA
1 AAAAAAGA
14482131 GAAAGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:14482128 original size:17 final size:17
Alignment explanation
Indices: 14482099--14482143 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
14482089 GAAGGCATTT
14482099 AGAAAAAAGAAAAAAAAA
1 AGAAAAAA-AAAAAAAAA
* *
14482117 AGAAAAAAAAAAGAGAA
1 AGAAAAAAAAAAAAAAA
14482134 AGAAATAAAA
1 AGAAA-AAAA
14482144 TTGAAAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAAA
Found at i:14482555 original size:36 final size:36
Alignment explanation
Indices: 14482510--14482599 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
14482500 GTCCCAATTA
** *
14482510 TTTTTATTTTTTGACTTGTAGTTTAATCTCGAT-CT
1 TTTTTATTTTTTGACTTGTAGTTTAATCAAGATAAT
* * * *
14482545 TTCTTTATTTTCTAATTTGTGGTTTAATCAAGATAAT
1 TT-TTTATTTTTTGACTTGTAGTTTAATCAAGATAAT
14482582 TTTTTATTTTTTGACTTG
1 TTTTTATTTTTTGACTTG
14482600 CGGCTCAGTC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
35 2 0.05
36 38 0.88
37 3 0.07
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (36 bp):
TTTTTATTTTTTGACTTGTAGTTTAATCAAGATAAT
Found at i:14482868 original size:36 final size:36
Alignment explanation
Indices: 14482783--14482873 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
14482773 TTGTGGTTTC
* **
14482783 ATCTCGATTA-TCTTTATTTCCTAACTTATGGCTCA
1 ATCTCGATTATTTTTTATTTCCTAACTTACAGCTCA
* *
14482818 ATCTC-AGTCT-TTTTTTATTTCTTAACTTACAGTTCA
1 ATCTCGA-T-TATTTTTTATTTCCTAACTTACAGCTCA
14482854 ATCTCGATTATTTTTTATTT
1 ATCTCGATTATTTTTTATTT
14482874 TTTTACTTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
34 1 0.02
35 7 0.15
36 37 0.80
37 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.53
Consensus pattern (36 bp):
ATCTCGATTATTTTTTATTTCCTAACTTACAGCTCA
Found at i:14482962 original size:35 final size:35
Alignment explanation
Indices: 14482895--14482986 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
14482885 CACAGTCCTG
* *
14482895 ATCATCCTTATTTTCTGACTTATGACTTAGTCCCA
1 ATCATCCTTATTTCCTGACTTACGACTTAGTCCCA
* *
14482930 ATCATCCTTGTTTCCTGACTTACGA-TTCAGTCCTA
1 ATCATCCTTATTTCCTGACTTACGACTT-AGTCCCA
* * * *
14482965 GTTATCTTTATTTCTTGACTTA
1 ATCATCCTTATTTCCTGACTTA
14482987 TGATTTAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 2 0.04
35 45 0.96
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.46
Consensus pattern (35 bp):
ATCATCCTTATTTCCTGACTTACGACTTAGTCCCA
Found at i:14483091 original size:34 final size:34
Alignment explanation
Indices: 14483046--14483145 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
14483036 TCGTTGTTAT
* *
14483046 TTTTTTTACTTGCGACTTAGTCTCGATCATTTTA
1 TTTTTTAACTTGAGACTTAGTCTCGATCATTTTA
* ** *
14483080 TTTTTTAACTTGTGGTTTAGTCTCCATCATCTTTA
1 TTTTTTAACTTGAGACTTAGTCTCGATCAT-TTTA
* *
14483115 TTTTTTAA-TTGATAGCTTAGTCCCGATCATT
1 TTTTTTAACTTGAGA-CTTAGTCTCGATCATT
14483146 CTTTTTTCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
34 29 0.55
35 24 0.45
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (34 bp):
TTTTTTAACTTGAGACTTAGTCTCGATCATTTTA
Found at i:14483328 original size:36 final size:35
Alignment explanation
Indices: 14483244--14483365 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 35
14483234 CTTAGTTTCG
* * *
14483244 GTCATCTTTATTTTTTGAATTGTGACTTAGTCCTG
1 GTCATCTTTATTTTTTGACTTGTGACTTAGTCATA
* *
14483279 GTCGTCCTTTATTTTTTGACTTGT-AGTTCAGTCATA
1 GTCAT-CTTTATTTTTTGACTTGTGACTT-AGTCATA
* *
14483315 GTCATCTTATATTTTTTAACTTGTGATTTAGTC-TCA
1 GTCATCTT-TATTTTTTGACTTGTGACTTAGTCAT-A
*
14483351 ATCATCTTTATTTTT
1 GTCATCTTTATTTTT
14483366 AGTTCAAGGC
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
35 18 0.25
36 52 0.71
37 3 0.04
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (35 bp):
GTCATCTTTATTTTTTGACTTGTGACTTAGTCATA
Found at i:14483363 original size:35 final size:35
Alignment explanation
Indices: 14483046--14483365 Score: 135
Period size: 35 Copynumber: 9.1 Consensus size: 35
14483036 TCGTTGTTAT
* * * *
14483046 TTTTTTTACTTGCGACTTAGTCTCGATCAT-TTTA
1 TTTTTTAACTTGTGATTTAGTCTCGGTCATCTTTA
* **
14483080 TTTTTTAACTTGTGGTTTAGTCTCCATCATCTTTA
1 TTTTTTAACTTGTGATTTAGTCTCGGTCATCTTTA
* * *
14483115 TTTTTTAA-TTGAT-AGCTTAGTCCCGATCATTCTTT-
1 TTTTTTAACTTG-TGA-TTTAGTCTCGGTCA-TCTTTA
** * ** * * *
14483150 TTTCATGACTTACGATCTCA-TTTCAGTCATCTCTT-
1 TTTTTTAACTTGTGAT-TTAGTCTCGGTCATCT-TTA
** *
14483185 TTTCCTAACTTGTGATTTCA-TC-CTGGTCATCTATA
1 TTTTTTAACTTGTGATTT-AGTCTC-GGTCATCTTTA
* * ** *
14483220 -TTCTTAACTTATGGCTTAGTTTCGGTCATCTTTA
1 TTTTTTAACTTGTGATTTAGTCTCGGTCATCTTTA
* *
14483254 TTTTTTGAA-TTGTGACTTAGTC-CTGGTCGTCCTTTA
1 TTTTTT-AACTTGTGATTTAGTCTC-GGTCAT-CTTTA
* * *
14483290 TTTTTTGACTTGT-AGTTCAGTCAT-AGTCATCTTATA
1 TTTTTTAACTTGTGA-TTTAGTC-TCGGTCATCTT-TA
**
14483326 TTTTTTAACTTGTGATTTAGTCTCAATCATCTTTA
1 TTTTTTAACTTGTGATTTAGTCTCGGTCATCTTTA
14483361 TTTTT
1 TTTTT
14483366 AGTTCAAGGC
Statistics
Matches: 215, Mismatches: 47, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
33 1 0.00
34 59 0.27
35 90 0.42
36 64 0.30
37 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.51
Consensus pattern (35 bp):
TTTTTTAACTTGTGATTTAGTCTCGGTCATCTTTA
Found at i:14483476 original size:20 final size:20
Alignment explanation
Indices: 14483451--14483489 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14483441 ATTTTCAACT
14483451 TAAAAAA-AAAATACAAAAAA
1 TAAAAAACAAAA-ACAAAAAA
14483471 TAAAAAACAAAAACAAAAA
1 TAAAAAACAAAAACAAAAA
14483490 TTCATCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (20 bp):
TAAAAAACAAAAACAAAAAA
Found at i:14483820 original size:8 final size:8
Alignment explanation
Indices: 14483807--14483835 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14483797 AACGAAAAAC
14483807 AAAAATAT
1 AAAAATAT
14483815 AAAAATAT
1 AAAAATAT
14483823 AAAAATAT
1 AAAAATAT
14483831 AAAAA
1 AAAAA
14483836 ACATTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:14483906 original size:19 final size:19
Alignment explanation
Indices: 14483884--14483922 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14483874 AAAAATCTAA
*
14483884 AAAATAATTTAAA-ATATTT
1 AAAAT-ATTAAAAGATATTT
14483903 AAAATATTAAAAGATATTT
1 AAAATATTAAAAGATATTT
14483922 A
1 A
14483923 TAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATATTAAAAGATATTT
Found at i:14483914 original size:8 final size:9
Alignment explanation
Indices: 14483884--14483922 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
14483874 AAAAATCTAA
14483884 AAAATAATTT
1 AAAAT-ATTT
14483894 AAAATATTT
1 AAAATATTT
*
14483903 AAAATATTA
1 AAAATATTT
14483912 AAAGATATTT
1 AAA-ATATTT
14483922 A
1 A
14483923 TAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAATATTT
Found at i:14483934 original size:10 final size:10
Alignment explanation
Indices: 14483807--14483934 Score: 58
Period size: 10 Copynumber: 13.0 Consensus size: 10
14483797 AACGAAAAAC
14483807 AAAA-ATAT-
1 AAAATATATA
14483815 AAAA-ATATA
1 AAAATATATA
14483824 AAAATATA-A
1 AAAATATATA
*
14483833 AAAACATTATA
1 AAAATA-TATA
14483844 AAAAT-TAATA
1 AAAATAT-ATA
* * *
14483854 TATATATACA
1 AAAATATATA
*
14483864 AATAAGATATA
1 AA-AATATATA
*
14483875 AAAATCTA-A
1 AAAATATATA
*
14483884 AAAATA-ATTT
1 AAAATATA-TA
*
14483894 AAAATAT-TT
1 AAAATATATA
14483903 AAAATAT-TA
1 AAAATATATA
14483912 AAAGATATTTATA
1 AAA-ATA--TATA
14483925 AAAATATATA
1 AAAATATATA
14483935 TAATAAAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
8 9 0.10
9 30 0.33
10 31 0.34
11 13 0.14
12 4 0.04
13 5 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATATATA
Found at i:14495681 original size:13 final size:14
Alignment explanation
Indices: 14495663--14495691 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14495653 TATTTAATAT
14495663 TTTTAA-AAAAAAA
1 TTTTAAGAAAAAAA
14495676 TTTTAAGAAAAAAA
1 TTTTAAGAAAAAAA
14495690 TT
1 TT
14495692 AGTAAGGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
TTTTAAGAAAAAAA
Found at i:14514309 original size:29 final size:29
Alignment explanation
Indices: 14514260--14514330 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
14514250 TGAATAATTA
*
14514260 TTAAATTATAATAAATATTTAATAGAATAT
1 TTAAATTATAA-AAATATTTAATAGAATAC
* * *
14514290 TTAAATTTTAAAAATTTTTAATATAATAC
1 TTAAATTATAAAAATATTTAATAGAATAC
14514319 TTAAATTATAAA
1 TTAAATTATAAA
14514331 TTTATAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTAATAGAATAC
Found at i:14514331 original size:27 final size:28
Alignment explanation
Indices: 14514260--14514343 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
14514250 TGAATAATTA
* * *
14514260 TTAAATTATAATAAATATTTAATAGAATAT
1 TTAAATT-T-ATAAATTTTTAATATAATAC
*
14514290 TTAAATTTTAAAAATTTTTAATATAATAC
1 TTAAA-TTTATAAATTTTTAATATAATAC
*
14514319 TTAAA-TTATAAATTTATAAT-TAATA
1 TTAAATTTATAAATTTTTAATATAATA
14514344 TAATATTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.11
27 13 0.28
29 21 0.45
30 6 0.13
31 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TTAAATTTATAAATTTTTAATATAATAC
Found at i:14514424 original size:15 final size:15
Alignment explanation
Indices: 14514406--14514448 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14514396 ATAATTTTTA
14514406 AATATTATATTAATT
1 AATATTATATTAATT
*
14514421 AATA-TATTTATAATT
1 AATATTATAT-TAATT
*
14514436 AAAATTATATTAA
1 AATATTATATTAA
14514449 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTATATTAATT
Found at i:14514465 original size:17 final size:18
Alignment explanation
Indices: 14514445--14514479 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14514435 TAAAATTATA
*
14514445 TTAAA-ATTTTTTTAAAT
1 TTAAATATTATTTTAAAT
14514462 TTAAATATTATTTTAAAT
1 TTAAATATTATTTTAAAT
14514480 ATTTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATATTATTTTAAAT
Found at i:14514510 original size:47 final size:47
Alignment explanation
Indices: 14514458--14514550 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
14514448 AAATTTTTTT
14514458 AAATTTAAATATTATTTTAAATATTTTATTATAATTTAAAAATCATA
1 AAATTTAAATATTATTTTAAATATTTTATTATAATTTAAAAATCATA
14514505 AAATTTAAATATTATTTTAAATATTTTATTATAATTTAAAAATCAT
1 AAATTTAAATATTATTTTAAATATTTTATTATAATTTAAAAATCAT
14514551 TCGTATCAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (47 bp):
AAATTTAAATATTATTTTAAATATTTTATTATAATTTAAAAATCATA
Found at i:14516262 original size:33 final size:34
Alignment explanation
Indices: 14516206--14516296 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 34
14516196 AGGACCTGAC
* * * *
14516206 TAATAGGTTACAATTGTTAGCTTACAGCT-TTGT
1 TAATGGGTTACAATAGTTAGCTTACAGCTCCTAT
* *
14516239 TAATGGGTTACAATAGTTGGCTTAC-GGTCCTAT
1 TAATGGGTTACAATAGTTAGCTTACAGCTCCTAT
14516272 TAATGGGTT-CAATAGTTAGCTTACA
1 TAATGGGTTACAATAGTTAGCTTACA
14516297 ACACAATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
32 16 0.33
33 33 0.67
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (34 bp):
TAATGGGTTACAATAGTTAGCTTACAGCTCCTAT
Found at i:14516306 original size:32 final size:33
Alignment explanation
Indices: 14516238--14516306 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
14516228 TACAGCTTTG
* ** *
14516238 TTAATGGGTTACAATAGTTGGCTTACGGTCCTA
1 TTAATGGGTTACAATAGTTAGCTTACGAACCAA
14516271 TTAATGGGTT-CAATAGTTAGCTTAC-AACACAA
1 TTAATGGGTTACAATAGTTAGCTTACGAAC-CAA
14516303 TTAA
1 TTAA
14516307 AATAGTTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 1 0.03
32 20 0.65
33 10 0.32
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (33 bp):
TTAATGGGTTACAATAGTTAGCTTACGAACCAA
Found at i:14518986 original size:38 final size:38
Alignment explanation
Indices: 14518924--14518997 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
14518914 TGATAATGAG
* *
14518924 AATGTTTTCCCCAATTTCTGATTCATAACTTGAAACCT
1 AATGTTTTCCCCAATCTCTGATTCACAACTTGAAACCT
* *
14518962 AATGTTTTCCCTAATCTCTTATTCACAACTTGAAAC
1 AATGTTTTCCCCAATCTCTGATTCACAACTTGAAAC
14518998 TTTAAACACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (38 bp):
AATGTTTTCCCCAATCTCTGATTCACAACTTGAAACCT
Found at i:14520245 original size:27 final size:26
Alignment explanation
Indices: 14520215--14520297 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
14520205 ATGGAGTTAC
*
14520215 AAAAACTAAAACTAAAAATGGCTATGT
1 AAAAAC-AAAACCAAAAATGGCTATGT
* * *
14520242 AAAAAC--AGCCAAAAATGGTTATGCA
1 AAAAACAAAACCAAAAATGGCTATG-T
* *
14520267 AAAAAAAAAACCAAAAATGGCTATAT
1 AAAAACAAAACCAAAAATGGCTATGT
14520293 AAAAA
1 AAAAA
14520298 TGAAAAGCTC
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
24 14 0.32
25 5 0.11
26 5 0.11
27 20 0.45
ACGTcount: A:0.60, C:0.12, G:0.11, T:0.17
Consensus pattern (26 bp):
AAAAACAAAACCAAAAATGGCTATGT
Found at i:14523441 original size:12 final size:12
Alignment explanation
Indices: 14523424--14523448 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14523414 TCTTTATTGA
14523424 AAATATATATAT
1 AAATATATATAT
14523436 AAATATATATAT
1 AAATATATATAT
14523448 A
1 A
14523449 TTTATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATATATAT
Found at i:14524756 original size:15 final size:16
Alignment explanation
Indices: 14524736--14524765 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14524726 ACCTTATTGG
14524736 TGGTAGAA-AAAGAAA
1 TGGTAGAATAAAGAAA
14524751 TGGTAGAATAAAGAA
1 TGGTAGAATAAAGAA
14524766 TTGCTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (16 bp):
TGGTAGAATAAAGAAA
Found at i:14534547 original size:8 final size:8
Alignment explanation
Indices: 14534534--14534572 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
14534524 ATGTGGAGCT
14534534 TAAAAAAA
1 TAAAAAAA
14534542 TAAAAAAA
1 TAAAAAAA
14534550 TAAATAAAA
1 TAAA-AAAA
14534559 GTAAAAAAA
1 -TAAAAAAA
14534568 -AAAAA
1 TAAAAA
14534573 GTCAAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 12 0.41
9 8 0.28
10 4 0.14
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:14542657 original size:2 final size:2
Alignment explanation
Indices: 14542650--14542675 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14542640 AATAAGGTAG
14542650 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14542676 ATCAATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14545139 original size:8 final size:8
Alignment explanation
Indices: 14545128--14545156 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14545118 TTCAAAATAA
14545128 AAAAAAAT
1 AAAAAAAT
14545136 AAAAAAAT
1 AAAAAAAT
14545144 AAAAAAAT
1 AAAAAAAT
14545152 AAAAA
1 AAAAA
14545157 TTTTGGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:14548371 original size:15 final size:15
Alignment explanation
Indices: 14548351--14548388 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14548341 AAGTTTTATC
14548351 AATATTTTTATTAA-A
1 AATATTTTT-TTAATA
*
14548366 AATATTTATTTAATA
1 AATATTTTTTTAATA
14548381 AATATTTT
1 AATATTTT
14548389 AAAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATTTTTTTAATA
Done.