Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, 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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 54
Found at i:8909726 original size:55 final size:55
Alignment explanation
Indices: 8909292--8909717 Score: 514
Period size: 55 Copynumber: 7.8 Consensus size: 55
8909282 GTGTGCATTT
* *
8909292 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAGCACTTTGTGTGAAAATC
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
* * *
8909347 CACAGAATTCATCATGGGTTGATGAATCACCGTACAAACACTATGGGTGCAAATC
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
** * * ** *
8909402 CACATAATTCATCATGGGTTGATGAATAATCGTACATGCACTTTGTGTGCAAATA
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
* * * * * ** * * *
8909457 CACGGAATTCATCATGGATGGATGAATAACCGTTTC-AGCACTAAGTGTAC-ATTT
1 CACGGAATTCATCATGGGTTGATGAATCACCG-TACAAACACTTTGTGTGCAAATC
* **
8909511 CACGGAATTCATCATGGGTTGATGAATCACTGTACATGCACTTTGTGTGCAAATC
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
* * * * *
8909566 CACGTAATTTATCATGGGTTAATGAATCACCGTACAAACACTTTGAGTGTAAATC
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
*
8909621 CACGTAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
* * * *
8909676 CATGGAATTCATCATGAGTTAATGAATCACCATACAAACACT
1 CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACT
8909718 ACTTGTGCAT
Statistics
Matches: 315, Mismatches: 53, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.01
54 40 0.13
55 271 0.86
56 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (55 bp):
CACGGAATTCATCATGGGTTGATGAATCACCGTACAAACACTTTGTGTGCAAATC
Found at i:8913942 original size:17 final size:17
Alignment explanation
Indices: 8913920--8913956 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
8913910 CGATTTTGAG
8913920 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
8913937 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
8913954 CTC
1 CTC
8913957 AAACTCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (17 bp):
CTCGATTCAAGCTCGAA
Found at i:8916495 original size:21 final size:21
Alignment explanation
Indices: 8916478--8916524 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8916468 AGGGTTTGGT
*
8916478 GTTTAAGGTTTATAGTTTAGG
1 GTTTAAAGTTTATAGTTTAGG
* **
8916499 GTTTAAATTTTATAGAATAGG
1 GTTTAAAGTTTATAGTTTAGG
8916520 GTTTA
1 GTTTA
8916525 GGGTTCATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
GTTTAAAGTTTATAGTTTAGG
Found at i:8917138 original size:14 final size:15
Alignment explanation
Indices: 8917119--8917159 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
8917109 AATCTACAAA
8917119 AATATTAATATTA-T
1 AATATTAATATTATT
8917133 AATATTAATATTATT
1 AATATTAATATTATT
*
8917148 ATTATTAATATT
1 AATATTAATATT
8917160 TTTATTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATTAATATTATT
Found at i:8922417 original size:18 final size:20
Alignment explanation
Indices: 8922389--8922425 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
8922379 AACAAAGAGA
8922389 AAAGAAGCAAAGAA-AAAAC
1 AAAGAAGCAAAGAAGAAAAC
8922408 AAAG-AGCAAAGAAGAAAA
1 AAAGAAGCAAAGAAGAAAA
8922426 ATCAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAGAAGCAAAGAAGAAAAC
Found at i:8922438 original size:33 final size:32
Alignment explanation
Indices: 8922373--8922459 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
8922363 ACGAAGATCC
* * *
8922373 AATCAAA-ACAAAGAGAAAAGAAGCAAAGAAAA
1 AATCAAAGAAAAAGA-AAAAAAATCAAAGAAAA
* *
8922405 AA-CAAAGAGCAAAGAAGAAAAATCAAAGAAAAA
1 AATCAAAGA-AAAAGAAAAAAAATCAAAG-AAAA
8922438 AATCAAAGAAAAAGAAAAAAAA
1 AATCAAAGAAAAAGAAAAAAAA
8922460 AGAAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 4 0.09
32 13 0.28
33 23 0.50
34 6 0.13
ACGTcount: A:0.75, C:0.08, G:0.14, T:0.03
Consensus pattern (32 bp):
AATCAAAGAAAAAGAAAAAAAATCAAAGAAAA
Found at i:8922449 original size:12 final size:13
Alignment explanation
Indices: 8922414--8922450 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8922404 AAACAAAGAG
8922414 CAAAGAAGAAAAAT
1 CAAAGAA-AAAAAT
8922428 CAAAGAAAAAAAT
1 CAAAGAAAAAAAT
8922441 CAAAGAAAAA
1 CAAAGAAAAA
8922451 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.76, C:0.08, G:0.11, T:0.05
Consensus pattern (13 bp):
CAAAGAAAAAAAT
Found at i:8922459 original size:10 final size:10
Alignment explanation
Indices: 8922397--8922472 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
8922387 GAAAAGAAGC
8922397 AAAGAAAAAA
1 AAAGAAAAAA
**
8922407 CAAAGAGCAAA
1 -AAAGAAAAAA
* *
8922418 GAAGAAAAATC
1 AAAGAAAAA-A
8922429 AAAG-AAAAA
1 AAAGAAAAAA
** *
8922438 AATCAAAGAA
1 AAAGAAAAAA
8922448 AAAGAAAAAA
1 AAAGAAAAAA
8922458 AAAGAAAAAA
1 AAAGAAAAAA
8922468 AAAGA
1 AAAGA
8922473 CAAGAAACAC
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
9 2 0.04
10 36 0.73
11 11 0.22
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:8922470 original size:21 final size:20
Alignment explanation
Indices: 8922397--8922470 Score: 51
Period size: 21 Copynumber: 3.6 Consensus size: 20
8922387 GAAAAGAAGC
* *
8922397 AAAGAAAAAACAAAGAGCAAA
1 AAAGAAAAAAAAAAGA-AAAA
* **
8922418 GAAGAAAAATCAAAG-AAAA
1 AAAGAAAAAAAAAAGAAAAA
** *
8922437 AAATCAAAGAAAAAGAAAAAA
1 AAAGAAAAAAAAAAG-AAAAA
8922458 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
8922471 GACAAGAAAC
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
19 12 0.31
21 27 0.69
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAAAAAAGAAAAA
Found at i:8924465 original size:15 final size:16
Alignment explanation
Indices: 8924433--8924463 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8924423 TCCCCTTACT
8924433 TTAACACTTCTCCCCC
1 TTAACACTTCTCCCCC
8924449 TTAACACTTCTCCCC
1 TTAACACTTCTCCCC
8924464 TTTTTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAACACTTCTCCCCC
Found at i:8926748 original size:23 final size:23
Alignment explanation
Indices: 8926721--8926798 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
8926711 TGGCAGTGTA
8926721 CATCGATGCACATTCAAGGAGTG
1 CATCGATGCACATTCAAGGAGTG
* *
8926744 CATCGGTGCATC-TTC-ATGA-TG
1 CATCGATGCA-CATTCAAGGAGTG
* *
8926765 TATCGATGCACATTCAAAGG-GATA
1 CATCGATGCACATTC-AAGGAG-TG
8926789 CATCGATGCA
1 CATCGATGCA
8926799 TTATGCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.02
21 13 0.31
22 3 0.07
23 14 0.33
24 11 0.26
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
CATCGATGCACATTCAAGGAGTG
Found at i:8926780 original size:21 final size:22
Alignment explanation
Indices: 8926721--8926780 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
8926711 TGGCAGTGTA
8926721 CATCGATGCACATTCAAGGAGTG
1 CATCGATGCACATTC-AGGAGTG
* *
8926744 CATCGGTGCATC-TTCATGA-TG
1 CATCGATGCA-CATTCAGGAGTG
*
8926765 TATCGATGCACATTCA
1 CATCGATGCACATTCA
8926781 AAGGGATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.45
22 3 0.10
23 12 0.39
24 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (22 bp):
CATCGATGCACATTCAGGAGTG
Found at i:8935261 original size:22 final size:22
Alignment explanation
Indices: 8935235--8935316 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 22
8935225 TTAGTGCAGA
8935235 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
8935257 GGGAA-CTGATTTCCCCTTTGAAG
1 GGGAATC-GA-TACCCCCTTGAAG
* * *
8935280 GGGAACCGATTCACCCCAT--AG
1 GGGAATCGATAC-CCCCTTGAAG
8935301 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
8935317 ATGGGGTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 4 0.08
21 13 0.26
22 10 0.20
23 22 0.44
24 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:8935277 original size:23 final size:23
Alignment explanation
Indices: 8935246--8935290 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8935236 GGAATCGATA
*
8935246 CCCCCTTGAAGGGGAACTGATTT
1 CCCCCTTGAAGGGGAACCGATTT
*
8935269 CCCCTTTGAAGGGGAACCGATT
1 CCCCCTTGAAGGGGAACCGATT
8935291 CACCCCATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
CCCCCTTGAAGGGGAACCGATTT
Found at i:8935318 original size:20 final size:21
Alignment explanation
Indices: 8935278--8935322 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8935268 TCCCCTTTGA
*
8935278 AGGGGAACCGATTCACCCCAT
1 AGGGGAACCGATACACCCCAT
*
8935299 AGGGGAATCGATAC-CCCCAT
1 AGGGGAACCGATACACCCCAT
8935319 -GGGG
1 AGGGG
8935323 TTCTGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 6 0.27
21 12 0.55
ACGTcount: A:0.27, C:0.29, G:0.31, T:0.13
Consensus pattern (21 bp):
AGGGGAACCGATACACCCCAT
Found at i:8942904 original size:32 final size:32
Alignment explanation
Indices: 8942859--8942922 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
8942849 AAGAAACGAT
* *
8942859 GAATGATGTGGCATCTTTGGAGATTCAACATC
1 GAATGATGGGGCATCTTTGGAGATACAACATC
* *
8942891 GAATGTTGGGGCATCTTTGGGGATACAACATC
1 GAATGATGGGGCATCTTTGGAGATACAACATC
8942923 CTGATATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (32 bp):
GAATGATGGGGCATCTTTGGAGATACAACATC
Found at i:8943100 original size:37 final size:37
Alignment explanation
Indices: 8943052--8943146 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
8943042 TTTCTTAATT
8943052 TTTTGTCTCGCTTGAGAAAGTTTTCGCTAAAAACAAA
1 TTTTGTCTCGCTTGAGAAAGTTTTCGCTAAAAACAAA
* *
8943089 TTTTGTCTCGCTTGAGACAA--TTTCTCTTAAAACAAA
1 TTTTGTCTCGCTTGAGA-AAGTTTTCGCTAAAAACAAA
* *
8943125 -TTTGTCTCACTTGAGATAGTTT
1 TTTTGTCTCGCTTGAGAAAGTTT
8943147 CTCTCGGAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
34 1 0.02
35 15 0.29
36 16 0.31
37 17 0.33
38 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCGCTTGAGAAAGTTTTCGCTAAAAACAAA
Found at i:8943138 original size:35 final size:35
Alignment explanation
Indices: 8943052--8943150 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
8943042 TTTCTTAATT
*
8943052 TTTTGTCTCGCTTGAGAAAGTTTTCGCTAAAAACAAA
1 TTTTGTCTCGCTTGAGAAA--TTTCTCTAAAAACAAA
*
8943089 TTTTGTCTCGCTTGAGACAATTTCTCTTAAAACAAA
1 TTTTGTCTCGCTTGAGA-AATTTCTCTAAAAACAAA
* *
8943125 -TTTGTCTCACTTGAGATAGTTTCTCT
1 TTTTGTCTCGCTTGAGA-AATTTCTCT
8943151 CGGAATACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 23 0.41
36 14 0.25
37 17 0.30
38 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (35 bp):
TTTTGTCTCGCTTGAGAAATTTCTCTAAAAACAAA
Found at i:8944678 original size:21 final size:22
Alignment explanation
Indices: 8944652--8944693 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
8944642 TATTTACGGT
8944652 CATTTAAGGGTC-GGTCAAAGC
1 CATTTAAGGGTCTGGTCAAAGC
*
8944673 CATTTAAGGTTCTGGTCAAAG
1 CATTTAAGGGTCTGGTCAAAG
8944694 AAAGTCAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (22 bp):
CATTTAAGGGTCTGGTCAAAGC
Found at i:8952022 original size:19 final size:19
Alignment explanation
Indices: 8951995--8952039 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
8951985 GTCGGGTCAG
*
8951995 ACCGATTCAGACCGATCAA
1 ACCGGTTCAGACCGATCAA
*
8952014 ACCGGTTCAGACCGGTCAA
1 ACCGGTTCAGACCGATCAA
*
8952033 ATCGGTT
1 ACCGGTT
8952040 AAAACCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (19 bp):
ACCGGTTCAGACCGATCAA
Found at i:8952028 original size:10 final size:10
Alignment explanation
Indices: 8952010--8952069 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
8952000 TTCAGACCGA
8952010 TCAAACCGGT
1 TCAAACCGGT
*
8952020 TCAGACCGG-
1 TCAAACCGGT
*
8952029 TCAAATCGGT
1 TCAAACCGGT
*
8952039 TAAAACCGGT
1 TCAAACCGGT
8952049 TCAAAACCGG-
1 TC-AAACCGGT
*
8952059 TCAAACTGGT
1 TCAAACCGGT
8952069 T
1 T
8952070 TTCCAGCTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 13 0.32
10 20 0.50
11 7 0.17
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:8952046 original size:19 final size:19
Alignment explanation
Indices: 8952005--8952059 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
8951995 ACCGATTCAG
* * *
8952005 ACCGATCAAACCGGTTCAG
1 ACCGGTCAAACCGGTTAAA
*
8952024 ACCGGTCAAATCGGTTAAA
1 ACCGGTCAAACCGGTTAAA
8952043 ACCGGTTCAAAACCGGT
1 ACCGG-TC-AAACCGGT
8952060 CAAACTGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 20 0.69
20 2 0.07
21 7 0.24
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTAAA
Found at i:8962957 original size:12 final size:12
Alignment explanation
Indices: 8962940--8962983 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
8962930 ATCTTGTTAG
8962940 TCATCATGAACA
1 TCATCATGAACA
*
8962952 TCATCATGCACA
1 TCATCATGAACA
* * *
8962964 TCAACTTGAATA
1 TCATCATGAACA
8962976 TCATCATG
1 TCATCATG
8962984 TACCTAATCC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (12 bp):
TCATCATGAACA
Found at i:8966254 original size:28 final size:28
Alignment explanation
Indices: 8966222--8966275 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
8966212 CTAGTCAGCA
*
8966222 GAATTAATTTTTAAGA-TTACTTGTTTTG
1 GAATTAATTCTTAA-ATTTACTTGTTTTG
8966250 GAATTAATTCTTAAATTTACTTGTTT
1 GAATTAATTCTTAAATTTACTTGTTT
8966276 CAGAATCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.54
Consensus pattern (28 bp):
GAATTAATTCTTAAATTTACTTGTTTTG
Found at i:8966281 original size:28 final size:26
Alignment explanation
Indices: 8966220--8966291 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 26
8966210 TACTAGTCAG
8966220 CAGAATTAATTTTTAAGATTACTTGTTT
1 CAGAATTAA-TTTTAA-ATTACTTGTTT
**
8966248 TGGAATTAATTCTTAAATTTACTTGTTT
1 CAGAATTAATT-TTAAA-TTACTTGTTT
*
8966276 CAGAATCAATTTTAAA
1 CAGAATTAATTTTAAA
8966292 AAATACGTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 8 0.22
28 29 0.78
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (26 bp):
CAGAATTAATTTTAAATTACTTGTTT
Found at i:8972188 original size:240 final size:240
Alignment explanation
Indices: 8971765--8972243 Score: 771
Period size: 240 Copynumber: 2.0 Consensus size: 240
8971755 TTTGCAGACT
* * *
8971765 CTCGAATCGATAATCGAAAGGGTTTGCCAAGAGAGGTCGGGTCGGTTTTTGTGTTTAGGCAGTAA
1 CTCGAATCGACAACCGAAAGGGTTTGCCAAGAGAGGTCGGGTCGGTTTTTGTGTTGAGGCAGTAA
* * * * *
8971830 GGAGATTGAAAGATAGAGAATAACACAATGATTTAGAGTGGTTCGACTTCTCAACCCAGTCTACA
66 GAAGATTGAAAGATAAAGAATAACACAATAATTTAGAGTGGTTCAACTTCTCAACCAAGTCTACA
8971895 TCCACTACCTTAGCTCCTCACCAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTTCA
131 TCCACTACCTTAGCTCCTCACCAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTTCA
* *
8971960 AGGACAAAGAGATAACCTTTACAACTCCCTAGTTTTTCATGGGCG
196 AGGACAAAGAGATAACCTTTACAACTCCCTAGATTTTCACGGGCG
* * * *
8972005 CTCGAATCGACAACCTAAAGGGTTTGCCAAGAGGGGTCGGGTTGGTTTTTGTGTTGAGGGAGTAA
1 CTCGAATCGACAACCGAAAGGGTTTGCCAAGAGAGGTCGGGTCGGTTTTTGTGTTGAGGCAGTAA
*** *
8972070 GAAGATTGAAAGATAAAGAATTGTA-AAGTAATTTAGAGTGGTTCAACTTCTCAACCAAGTCTAT
66 GAAGATTGAAAGATAAAGAATAACACAA-TAATTTAGAGTGGTTCAACTTCTCAACCAAGTCTAC
8972134 ATCCACTACCTTAGCTCCTCACCAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTTC
130 ATCCACTACCTTAGCTCCTCACCAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTTC
*
8972199 AAGGATAAAGAGATAACCTTTACAACTCCCTAGATTTTCACGGGC
195 AAGGACAAAGAGATAACCTTTACAACTCCCTAGATTTTCACGGGC
8972244 TAAACTAGAA
Statistics
Matches: 219, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
239 2 0.01
240 217 0.99
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (240 bp):
CTCGAATCGACAACCGAAAGGGTTTGCCAAGAGAGGTCGGGTCGGTTTTTGTGTTGAGGCAGTAA
GAAGATTGAAAGATAAAGAATAACACAATAATTTAGAGTGGTTCAACTTCTCAACCAAGTCTACA
TCCACTACCTTAGCTCCTCACCAAGGATTTTCCAACAAATTCACTAATTTGTTCTTTCTTTTTCA
AGGACAAAGAGATAACCTTTACAACTCCCTAGATTTTCACGGGCG
Found at i:8972761 original size:18 final size:19
Alignment explanation
Indices: 8972712--8972771 Score: 86
Period size: 18 Copynumber: 3.1 Consensus size: 19
8972702 AAATGTTTAA
8972712 TAAAAAAGATATCAATTGT
1 TAAAAAAGATATCAATTGT
8972731 TAACAAAATGATATCAATT-T
1 TAA-AAAA-GATATCAATTGT
*
8972751 TTAAAAAGATATCAATTGT
1 TAAAAAAGATATCAATTGT
8972770 TA
1 TA
8972772 CCAATTGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 10 0.28
19 9 0.25
20 7 0.19
21 10 0.28
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (19 bp):
TAAAAAAGATATCAATTGT
Found at i:8975383 original size:20 final size:20
Alignment explanation
Indices: 8975355--8975410 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
8975345 TCGATACACC
*
8975355 AGTGCATGGATACACTGCAG
1 AGTGTATGGATACACTGCAG
*
8975375 AGTGTATGGATACACTGGAG
1 AGTGTATGGATACACTGCAG
*
8975395 GGTGTATGGATACACT
1 AGTGTATGGATACACT
8975411 TTGACACCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (20 bp):
AGTGTATGGATACACTGCAG
Found at i:8975387 original size:36 final size:37
Alignment explanation
Indices: 8975319--8975389 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
8975309 GCAGTCATAG
*
8975319 GTGCATGGATACACTTGCAGGGTGCATCGATACACCA
1 GTGCATGGATACACTTGCAGAGTGCATCGATACACCA
* *
8975356 GTGCATGGATACAC-TGCAGAGTGTATGGATACAC
1 GTGCATGGATACACTTGCAGAGTGCATCGATACAC
8975390 TGGAGGGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (37 bp):
GTGCATGGATACACTTGCAGAGTGCATCGATACACCA
Found at i:8975904 original size:36 final size:36
Alignment explanation
Indices: 8975847--8976272 Score: 394
Period size: 36 Copynumber: 11.8 Consensus size: 36
8975837 ATCAACATTG
* * *
8975847 ATCATCATTAACAAGCACATGTATATCAT-AAGTTTA
1 ATCATCAATAGCAAGCACATGTATATCATGAA-TATA
*
8975883 CTCATCAATAGCAAG-AGCATGTATATCATGAATATA
1 ATCATCAATAGCAAGCA-CATGTATATCATGAATATA
* *
8975919 ATCATCAATAGCAAGCACATGTATACCATGCATATA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* *
8975955 ATCATCAATAGCAAGCACATGTATATAATGCATATA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* * * *
8975991 ATCATCAGTAGCAAGCACATGCATATCATGCATAAA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* * *
8976027 ATCATCAGTAGCAAGCATATGTATATCATGCATATA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* * * ** *
8976063 ATCATTAGTAGTAAGCGTATGTATATCATGCATATA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* * * ** * *
8976099 ATCATTAGTAACAAGTGCATGTGTATCATGTATATA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* * * *
8976135 ATCATCAGTACCAAGCACATGTATATAATGTATATA
1 ATCATCAATAGCAAGCACATGTATATCATGAATATA
* * * **
8976171 ATCATTAGTATCAAG-AGCATGTATATCATGCTTATA
1 ATCATCAATAGCAAGCA-CATGTATATCATGAATATA
* ** *
8976207 ATCATCTATAAAAAGAACATGTATATCAT--ATGCATA
1 ATCATCAATAGCAAGCACATGTATATCATGAAT--ATA
*
8976243 ATCATCAGTAGCAAGCACATGTATATCATG
1 ATCATCAATAGCAAGCACATGTATATCATG
8976273 CATGAGGATA
Statistics
Matches: 335, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.00
35 2 0.01
36 328 0.98
37 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (36 bp):
ATCATCAATAGCAAGCACATGTATATCATGAATATA
Found at i:8975964 original size:72 final size:72
Alignment explanation
Indices: 8975847--8976275 Score: 465
Period size: 72 Copynumber: 6.0 Consensus size: 72
8975837 ATCAACATTG
* * * * * *
8975847 ATCATCATTAACAAGCACATGTATATCAT-AAGTTTACTCATCAATAGCAAG-AGCATGTATATC
1 ATCATCAGTAGCAAGCACATGTATATCATGCA-TATAATCATCAGTAGCAAGCA-CATGTATATC
*
8975910 ATGAATATA
64 ATGCATATA
* * * *
8975919 ATCATCAATAGCAAGCACATGTATACCATGCATATAATCATCAATAGCAAGCACATGTATATAAT
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAGCAAGCACATGTATATCAT
8975984 GCATATA
66 GCATATA
* * *
8975991 ATCATCAGTAGCAAGCACATGCATATCATGCATAAAATCATCAGTAGCAAGCATATGTATATCAT
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAGCAAGCACATGTATATCAT
8976056 GCATATA
66 GCATATA
* * ** * * ** *
8976063 ATCATTAGTAGTAAGCGTATGTATATCATGCATATAATCATTAGTAACAAGTGCATGTGTATCAT
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAGCAAGCACATGTATATCAT
*
8976128 GTATATA
66 GCATATA
* * * * *
8976135 ATCATCAGTACCAAGCACATGTATATAATGTATATAATCATTAGTATCAAG-AGCATGTATATCA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAGCAAGCA-CATGTATATCA
*
8976199 TGCTTATA
65 TGCATATA
** *
8976207 ATCATCTA-TAAAAAGAACATGTATATCAT--ATGCATAATCATCAGTAGCAAGCACATGTATAT
1 ATCATC-AGTAGCAAGCACATGTATATCATGCAT--ATAATCATCAGTAGCAAGCACATGTATAT
8976269 CATGCAT
63 CATGCAT
8976276 GAGGATATCA
Statistics
Matches: 303, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
70 2 0.01
72 297 0.98
73 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (72 bp):
ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAGCAAGCACATGTATATCAT
GCATATA
Found at i:8976039 original size:108 final size:107
Alignment explanation
Indices: 8975847--8976275 Score: 463
Period size: 108 Copynumber: 4.0 Consensus size: 107
8975837 ATCAACATTG
* * * * * * *
8975847 ATCATCATTAACAAGCACATGTATATCAT-AAGTTTACTCATCAATAGCAAGAGCATGTATATCA
1 ATCATCAGTAGCAAGCACATGTATATCATGCA-TATAATCATCAGTAACAAGA-CATGTATATCA
* * *
8975911 TGAATATAATCATCAATAGCAAGCACATGTATACCATGCATATA
64 TGCATATAATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * * *
8975955 ATCATCAATAGCAAGCACATGTATATAATGCATATAATCATCAGTAGCAAGCACATGCATATCAT
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAACAAG-ACATGTATATCAT
* *
8976020 GCATAAAATCATCAGTAGCAAGCATATGTATATCATGCATATA
65 GCATATAATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * ** * * *
8976063 ATCATTAGTAGTAAGCGTATGTATATCATGCATATAATCATTAGTAACAAGTGCATGTGTATCAT
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAACAAG-ACATGTATATCAT
* * * *
8976128 GTATATAATCATCAGTACCAAGCACATGTATATAATGTATATA
65 GCATATAATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * * *
8976171 ATCATTAGTATCAAG-AGCATGTATATCATGCTTATAATCATCTA-TAAAAAGAACATGTATATC
1 ATCATCAGTAGCAAGCA-CATGTATATCATGCATATAATCATC-AGTAACAAG-ACATGTATATC
8976234 AT--ATGCATAATCATCAGTAGCAAGCACATGTATATCATGCAT
63 ATGCAT--ATAATCATCAGTAGCAAGCACATGTATATCATGCAT
8976276 GAGGATATCA
Statistics
Matches: 271, Mismatches: 44, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
106 2 0.01
108 266 0.98
109 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (107 bp):
ATCATCAGTAGCAAGCACATGTATATCATGCATATAATCATCAGTAACAAGACATGTATATCATG
CATATAATCATCAGTAGCAAGCACATGTATATCATGCATATA
Found at i:8977208 original size:50 final size:51
Alignment explanation
Indices: 8977150--8977261 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
8977140 TGAGAGTAAT
* ***
8977150 ACATAATTCCAAAACTGAACT-TAAACAGACTTACACCAGTTAAATTTAAC
1 ACATAATTCCAAAACTGAACTCAAAACAGACTTACACCAACCAAATTTAAC
* * * *
8977200 ACATAATTCCAATATTGAACTCAAAATAGACTTACATCAACCAAATTTAAC
1 ACATAATTCCAAAACTGAACTCAAAACAGACTTACACCAACCAAATTTAAC
*
8977251 ATATAATTCCA
1 ACATAATTCCA
8977262 GCGGTGGTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
50 19 0.37
51 33 0.63
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.28
Consensus pattern (51 bp):
ACATAATTCCAAAACTGAACTCAAAACAGACTTACACCAACCAAATTTAAC
Found at i:8977330 original size:50 final size:51
Alignment explanation
Indices: 8977254--8977460 Score: 274
Period size: 51 Copynumber: 4.1 Consensus size: 51
8977244 ATTTAACATA
* * **
8977254 TAATTCCAGCGGTGGTACTTAACATAGACTTACACCAAAAAAATTAACTCT
1 TAATTCCAACAGTGGTACTTAACATAGACTTACACCAGTAAAATTAACTCT
*
8977305 TAATTCCAA-AGTGGTACTTAACATAGACTTACACCAGTAAAATTAACTTT
1 TAATTCCAACAGTGGTACTTAACATAGACTTACACCAGTAAAATTAACTCT
* * * *
8977355 TAATTCCAACTGTAGTACTTAAAATAGACTTACACCAGTGAAATTAACTCT
1 TAATTCCAACAGTGGTACTTAACATAGACTTACACCAGTAAAATTAACTCT
* * * *
8977406 TAATTCCAACGGTGGTACTTAA-AGTAGACTTACACTAGTGAAATTAACACT
1 TAATTCCAACAGTGGTACTTAACA-TAGACTTACACCAGTAAAATTAACTCT
8977457 TAAT
1 TAAT
8977461 ATATTCATGA
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.34
51 93 0.66
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (51 bp):
TAATTCCAACAGTGGTACTTAACATAGACTTACACCAGTAAAATTAACTCT
Found at i:8977386 original size:101 final size:102
Alignment explanation
Indices: 8977254--8977453 Score: 287
Period size: 101 Copynumber: 2.0 Consensus size: 102
8977244 ATTTAACATA
* * *
8977254 TAATTCCAGCGGTGGTACTTAACATAGACTTACACCAAAAAAATTAACTCTTAATTCCAA-AGTG
1 TAATTCCAACGGTAGTACTTAAAATAGACTTACACCAAAAAAATTAACTCTTAATTCCAACAGTG
8977318 GTACTTAACA-TAGACTTACACCAGTAAAATTAACTTT
66 GTACTTAA-AGTAGACTTACACCAGTAAAATTAACTTT
* *** *
8977355 TAATTCCAACTGTAGTACTTAAAATAGACTTACACCAGTGAAATTAACTCTTAATTCCAACGGTG
1 TAATTCCAACGGTAGTACTTAAAATAGACTTACACCAAAAAAATTAACTCTTAATTCCAACAGTG
* *
8977420 GTACTTAAAGTAGACTTACACTAGTGAAATTAAC
66 GTACTTAAAGTAGACTTACACCAGTAAAATTAAC
8977454 ACTTAATATA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 54 0.62
102 33 0.38
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (102 bp):
TAATTCCAACGGTAGTACTTAAAATAGACTTACACCAAAAAAATTAACTCTTAATTCCAACAGTG
GTACTTAAAGTAGACTTACACCAGTAAAATTAACTTT
Found at i:8979439 original size:22 final size:22
Alignment explanation
Indices: 8979380--8979440 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
8979370 CGAGGGTTAC
* *
8979380 ATAGGTCCTTCGGGAAAAATTT
1 ATAGGTCCTTTGGGACAAATTT
*
8979402 ATAGGTCATTTGGGACAAATTT
1 ATAGGTCCTTTGGGACAAATTT
8979424 ATAGGTCCTTTGGGACA
1 ATAGGTCCTTTGGGACA
8979441 TACACATGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (22 bp):
ATAGGTCCTTTGGGACAAATTT
Found at i:8986412 original size:3 final size:3
Alignment explanation
Indices: 8986399--8986432 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8986389 TAAATAAATC
*
8986399 AAT AA- AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8986433 CACAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:8987938 original size:31 final size:31
Alignment explanation
Indices: 8987903--8987974 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
8987893 AAAGCATAAT
* *
8987903 ATATGGTCACTTTCATTTTTATTTAATTATG
1 ATATGGTCACTATCATTTTTATTTAATTAAG
*
8987934 ATATGATCACTATCATTTTTATTTAATTAAG
1 ATATGGTCACTATCATTTTTATTTAATTAAG
*
8987965 ATGTGGTCAC
1 ATATGGTCAC
8987975 CACGAGTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (31 bp):
ATATGGTCACTATCATTTTTATTTAATTAAG
Found at i:8989643 original size:19 final size:19
Alignment explanation
Indices: 8989621--8989662 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8989611 AGTAGGACCG
8989621 AAAAAAAGAAAAAAACAAA
1 AAAAAAAGAAAAAAACAAA
** *
8989640 AAAACCAGATAAAAACAAA
1 AAAAAAAGAAAAAAACAAA
8989659 AAAA
1 AAAA
8989663 GATTCGAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAAAAAAACAAA
Found at i:9001400 original size:20 final size:21
Alignment explanation
Indices: 9001375--9001413 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9001365 TTTTGGTGCA
*
9001375 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
9001395 GAGGGAACCGATTCCCCCC
1 GAGGGAACCGATTCCCCCC
9001414 CACAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.13
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:9001420 original size:21 final size:23
Alignment explanation
Indices: 9001387--9001434 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
9001377 GGGAATCGAT
* *
9001387 CCCCCCATGA-GGGAACCGATTC
1 CCCCCCATCAGGGGAACCGATAC
*
9001409 CCCCCCA-CAGGGGAATCGATAC
1 CCCCCCATCAGGGGAACCGATAC
9001431 CCCC
1 CCCC
9001435 TGGGGTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.23, C:0.46, G:0.21, T:0.10
Consensus pattern (23 bp):
CCCCCCATCAGGGGAACCGATAC
Found at i:9005976 original size:37 final size:37
Alignment explanation
Indices: 9005935--9006085 Score: 114
Period size: 37 Copynumber: 4.1 Consensus size: 37
9005925 CTTTGAGATT
*
9005935 GTTTTTCTT-GAAACAAAGTGTCATCTCGCTAGAGACA
1 GTTTTTCTTAAAAACAAA-TGTCATCTCGCTAGAGACA
* ** *
9005972 GTTTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACA
1 GTTTTTCTTAAAAACAAATGTCATCTCGCTAGAGACA
* * * *
9006009 -TTTTTCTTTAAAAACAATTTTTATCTCGCTTGAGACA
1 GTTTTTC-TTAAAAACAAATGTCATCTCGCTAGAGACA
* * * * *
9006046 ATTTCTC-TCAAAACAAAT-TTAGTCTCGCTTGAGACA
1 GTTTTTCTTAAAAACAAATGTCA-TCTCGCTAGAGACA
9006082 -TTTT
1 GTTTT
9006086 CCCTTTGAGA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
35 6 0.06
36 29 0.29
37 52 0.53
38 12 0.12
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.40
Consensus pattern (37 bp):
GTTTTTCTTAAAAACAAATGTCATCTCGCTAGAGACA
Found at i:9006028 original size:36 final size:37
Alignment explanation
Indices: 9005958--9006085 Score: 170
Period size: 37 Copynumber: 3.5 Consensus size: 37
9005948 CAAAGTGTCA
*
9005958 TCTCGCTAGAGACAGTTTTTC-TTAAAAACAAATTTTG
1 TCTCGCTTGAGACA-TTTTTCTTTAAAAACAAATTTTG
* *
9005995 TCTCGCTTGAGACATTTTTCTTTAAAAACAATTTTTA
1 TCTCGCTTGAGACATTTTTCTTTAAAAACAAATTTTG
* * * *
9006032 TCTCGCTTGAGACA-ATTTCTCTCAAAACAAATTTAG
1 TCTCGCTTGAGACATTTTTCTTTAAAAACAAATTTTG
9006068 TCTCGCTTGAGACATTTT
1 TCTCGCTTGAGACATTTT
9006086 CCCTTTGAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
36 36 0.46
37 43 0.54
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (37 bp):
TCTCGCTTGAGACATTTTTCTTTAAAAACAAATTTTG
Found at i:9006669 original size:137 final size:134
Alignment explanation
Indices: 9006467--9006865 Score: 524
Period size: 137 Copynumber: 3.0 Consensus size: 134
9006457 CTTGAAACAA
* * *
9006467 ATTATTCCTAAAGATGGTCAACCGTCCTCATCACGTATGAACTGTGTCATCCGCCGACCAGATCT
1 ATTA-TCCTAAAGATGGCCAACCGTCCTCATCACGTACGAACTGTGTCATCCACCGACCAGATCT
* *
9006532 CCTCATCACGTAGGAGTTGCGTCATCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACTGTGT
65 CCTCATCACGTAGGAGTTGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGT
9006597 TATCT
130 TATCT
* * **
9006602 ACATTATCCCTAAAGATGGCCAAACGTCCTCATCACGTACAAACCATGTCATCCACCGACCAGAT
1 --ATTAT-CCTAAAGATGGCCAACCGTCCTCATCACGTACGAACTGTGTCATCCACCGACCAGAT
* *
9006667 CTCCTCATCACGTAGGAGTCGCGTTACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGT
63 CTCCTCATCACGTAGGAGTTGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGT
9006732 GTTATCT
128 GTTATCT
* *
9006739 -TCAT--T---GATGGCCAACCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATCTC
1 ATTATCCTAAAGATGGCCAACCGTCCTCATCACGTACGAACTGTGTCATCCACCGACCAGATCTC
* ** * * * *
9006798 CTCATCACGTAGGAATAT-AATCACCCTTAGATAACTAGATTTCCTTATCACGTAGGAACCGTGT
66 CTCATCACGTAGGAGT-TGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGT
9006862 TATC
130 TATC
9006866 CCCAAATTTA
Statistics
Matches: 234, Mismatches: 26, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
128 107 0.46
131 1 0.00
134 3 0.01
136 1 0.00
137 122 0.52
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (134 bp):
ATTATCCTAAAGATGGCCAACCGTCCTCATCACGTACGAACTGTGTCATCCACCGACCAGATCTC
CTCATCACGTAGGAGTTGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGTT
ATCT
Found at i:9006842 original size:128 final size:128
Alignment explanation
Indices: 9006616--9006865 Score: 365
Period size: 128 Copynumber: 2.0 Consensus size: 128
9006606 TATCCCTAAA
9006616 GATGGCCAAACGTCCTCATCACGTACAAACCATGTCATCCACCGACCAGATCTCCTCATCACGTA
1 GATGGCCAAACGTCCTCATCACGTACAAACCATGTCATCCACCGACCAGATCTCCTCATCACGTA
* * ** * *
9006681 GGAGTCGCGTTACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGTTATCTTCATT
66 GGAATAGAATCACCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTATCTTCATT
* ** **
9006744 GATGGCCAACCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACCAGATCTCCTCATCACGTA
1 GATGGCCAAACGTCCTCATCACGTACAAACCATGTCATCCACCGACCAGATCTCCTCATCACGTA
* * * *
9006809 GGAATATAATCACCCTTAGATAACTAGATTTCCTTATCACGTAGGAACCGTGTTATC
66 GGAATAGAATCACCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTATC
9006866 CCCAAATTTA
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
128 107 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (128 bp):
GATGGCCAAACGTCCTCATCACGTACAAACCATGTCATCCACCGACCAGATCTCCTCATCACGTA
GGAATAGAATCACCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTGTTATCTTCATT
Found at i:9028651 original size:161 final size:161
Alignment explanation
Indices: 9028350--9028670 Score: 635
Period size: 160 Copynumber: 2.0 Consensus size: 161
9028340 GTGAGAAGGA
9028350 CGACCTCTCACTCTCCTTGCGAGGTCCCCTGGAATCATTTTTTTTGGTGTTCGTGTCATTTTTTA
1 CGACCTCTCACTCTCCTTGCGAGGTCCCCTGGAATCATTTTTTTTGGTGTTCGTGTCATTTTTTA
9028415 GCCCTTGGTTGGGTTATTGTGACATGTTTTGCAATATTCTTTTAGTAGACACTTACATTATTAAC
66 GCCCTTGGTTGGGTTATTGTGACATGTTTTGCAATATTCTTTTAGTAGACACTTACATTATTAAC
9028480 ATTGTTTTTTTTTCGGTACACGGGTTTTTTT
131 ATTGTTTTTTTTTCGGTACACGGGTTTTTTT
9028511 CGACCTCTCACTCTCCTTGCGAGGTCCCCTGGAATCA-TTTTTTTGGTGTTCGTGTCATTTTTTA
1 CGACCTCTCACTCTCCTTGCGAGGTCCCCTGGAATCATTTTTTTTGGTGTTCGTGTCATTTTTTA
9028575 GCCCTTGGTTGGGTTATTGTGACATGTTTTGCAATATTCTTTTAGTAGACACTTACATTATTAAC
66 GCCCTTGGTTGGGTTATTGTGACATGTTTTGCAATATTCTTTTAGTAGACACTTACATTATTAAC
9028640 ATTGTTTTTTTTTCGGTACACGGGTTTTTTT
131 ATTGTTTTTTTTTCGGTACACGGGTTTTTTT
9028671 AACTAGACCC
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 123 0.77
161 37 0.23
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (161 bp):
CGACCTCTCACTCTCCTTGCGAGGTCCCCTGGAATCATTTTTTTTGGTGTTCGTGTCATTTTTTA
GCCCTTGGTTGGGTTATTGTGACATGTTTTGCAATATTCTTTTAGTAGACACTTACATTATTAAC
ATTGTTTTTTTTTCGGTACACGGGTTTTTTT
Found at i:9034508 original size:2 final size:2
Alignment explanation
Indices: 9034503--9034552 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
9034493 TACTAAAATC
9034503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9034545 TA TA TA TA
1 TA TA TA TA
9034553 CATGATATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9035729 original size:19 final size:19
Alignment explanation
Indices: 9035707--9035744 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9035697 GGGCTGCTGC
9035707 AACCAAGCATGGCTGATGG
1 AACCAAGCATGGCTGATGG
* *
9035726 AACCAGGCATGGTTGATGG
1 AACCAAGCATGGCTGATGG
9035745 CAGGGTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.34, T:0.18
Consensus pattern (19 bp):
AACCAAGCATGGCTGATGG
Found at i:9045627 original size:21 final size:20
Alignment explanation
Indices: 9045603--9045660 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 20
9045593 CCCCTCGCTA
9045603 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
*
9045624 TGTACCGATACATTCCTTGAATG
1 TGTATCGATACA---CTTGAATG
9045647 TGTATCGATACACT
1 TGTATCGATACACT
9045661 CAAGAGTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
23 17 0.53
24 2 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:9046177 original size:12 final size:12
Alignment explanation
Indices: 9046148--9046182 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9046138 GCATTATATT
*
9046148 TTTTCAAACATTG
1 TTTTCAAA-ATAG
9046161 TTTTCAAAATAG
1 TTTTCAAAATAG
9046173 TTTTCAAAAT
1 TTTTCAAAAT
9046183 TTCCCATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (12 bp):
TTTTCAAAATAG
Found at i:9052108 original size:19 final size:19
Alignment explanation
Indices: 9052084--9052132 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9052074 ATATAGTGAG
9052084 GAACAAGGCTAGACTTGTT
1 GAACAAGGCTAGACTTGTT
9052103 GAACAAGGCTAGACTTGTT
1 GAACAAGGCTAGACTTGTT
**
9052122 GCTCAAGGCTA
1 GAACAAGGCTA
9052133 TACTCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (19 bp):
GAACAAGGCTAGACTTGTT
Found at i:9053789 original size:21 final size:20
Alignment explanation
Indices: 9053765--9053824 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
9053755 ACCCCCTCTC
*
9053765 TATGTATTGATACACTATGAA
1 TATGTATCGATACACT-TGAA
*
9053786 TATGTACCGATACATTCCTTGAA
1 TATGTATCGATACA---CTTGAA
9053809 TATGTATCGATACACT
1 TATGTATCGATACACT
9053825 CAAGAGTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
23 17 0.52
24 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (20 bp):
TATGTATCGATACACTTGAA
Found at i:9054325 original size:13 final size:12
Alignment explanation
Indices: 9054303--9054343 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
9054293 TACGTATTAT
9054303 AATT-TTTTCAA
1 AATTGTTTTCAA
9054314 ATATTGTTTTCAA
1 A-ATTGTTTTCAA
*
9054327 AATAGTTTTCAA
1 AATTGTTTTCAA
9054339 AATTG
1 AATTG
9054344 CCCATTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 1 0.04
12 17 0.65
13 8 0.31
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (12 bp):
AATTGTTTTCAA
Found at i:9056526 original size:20 final size:20
Alignment explanation
Indices: 9056501--9056553 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
9056491 TGTAATTTAA
*
9056501 GTACCGACACACTCCTGAGT
1 GTACCGATACACTCCTGAGT
*
9056521 GTACCGATACACTCTTGAGT
1 GTACCGATACACTCCTGAGT
9056541 GTACCGATACACT
1 GTACCGATACACT
9056554 AGATCAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (20 bp):
GTACCGATACACTCCTGAGT
Found at i:9067813 original size:20 final size:19
Alignment explanation
Indices: 9067783--9067855 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
9067773 CTTGGACATA
*
9067783 AAGTTTTGAAACTTTAAGG
1 AAGTTTCGAAACTTTAAGG
*
9067802 AGAGTTTCGAAACTTTAATGC
1 A-AGTTTCGAAACTTTAA-GG
*
9067823 AAGTTTCGAAACTTTGAAGA
1 AAGTTTCGAAACTTT-AAGG
*
9067843 AAGTTTTGAAACT
1 AAGTTTCGAAACT
9067856 ATTACTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.02
20 42 0.89
21 4 0.09
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (19 bp):
AAGTTTCGAAACTTTAAGG
Found at i:9067945 original size:16 final size:17
Alignment explanation
Indices: 9067926--9067959 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9067916 TTTTGAAACT
9067926 TACT-ATTCATGAACAG
1 TACTCATTCATGAACAG
*
9067942 TACTCATTTATGAACAG
1 TACTCATTCATGAACAG
9067959 T
1 T
9067960 GTCGTGAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TACTCATTCATGAACAG
Found at i:9068027 original size:20 final size:20
Alignment explanation
Indices: 9068002--9068048 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9067992 TGTCTTTCAT
9068002 ATTTTAAAAGCTTTAAACAC
1 ATTTTAAAAGCTTTAAACAC
* *
9068022 ATTTTAAACGCTTTAAACAT
1 ATTTTAAAAGCTTTAAACAC
9068042 ATTTTAA
1 ATTTTAA
9068049 TTGACTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (20 bp):
ATTTTAAAAGCTTTAAACAC
Found at i:9073966 original size:13 final size:13
Alignment explanation
Indices: 9073948--9073976 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9073938 ATTGATTATC
9073948 TTTGTATTATAAA
1 TTTGTATTATAAA
9073961 TTTGTATTATAAA
1 TTTGTATTATAAA
9073974 TTT
1 TTT
9073977 ATCTTGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TTTGTATTATAAA
Found at i:9081898 original size:16 final size:17
Alignment explanation
Indices: 9081870--9081904 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
9081860 CGTATCGCCG
9081870 ACAAAATTTCACTATTC
1 ACAAAATTTCACTATTC
9081887 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
9081903 AC
1 AC
9081905 GTGAATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:9087926 original size:12 final size:12
Alignment explanation
Indices: 9087909--9087934 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9087899 CAGTGGTTCC
9087909 AACAATTGTTGA
1 AACAATTGTTGA
9087921 AACAATTGTTGA
1 AACAATTGTTGA
9087933 AA
1 AA
9087935 ATTAAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (12 bp):
AACAATTGTTGA
Found at i:9089432 original size:13 final size:13
Alignment explanation
Indices: 9089392--9089440 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
9089382 TGCGTCATAA
*
9089392 ATTTATGACGCAC
1 ATTTATGACGCGC
*
9089405 ATTTATGACACGC
1 ATTTATGACGCGC
*
9089418 ATTTATGACGTGC
1 ATTTATGACGCGC
*
9089431 ATTTAAGACG
1 ATTTATGACG
9089441 TTCATTGAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:9089610 original size:2 final size:2
Alignment explanation
Indices: 9089603--9089671 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
9089593 AAATTATTGT
9089603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9089645 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9089672 GTAGATTGAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9094143 original size:18 final size:20
Alignment explanation
Indices: 9094106--9094146 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9094096 ATATAAACGA
*
9094106 TAAAAAATTAAACTATAATT
1 TAAAAAAATAAACTATAATT
9094126 TAAAAAAATAAA-TA-AATT
1 TAAAAAAATAAACTATAATT
9094144 TAA
1 TAA
9094147 TTCTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
20 11 0.55
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAAATAAACTATAATT
Found at i:9100430 original size:17 final size:17
Alignment explanation
Indices: 9100408--9100458 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
9100398 TTAAAAGAGT
9100408 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
* *
9100425 TAGTTTAATGAGTGAAC
1 TAGTTTAATTAATGAAC
*
9100442 AAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
9100459 CAACTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:9102907 original size:50 final size:50
Alignment explanation
Indices: 9102848--9102951 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
9102838 GCCCTTTCTA
*
9102848 TTAT-ATTACTATGGTGATTATGATGTTACTCATATGATGGATATGATGC
1 TTATAATTACTATGGTGATTATAATGTTACTCATATGATGGATATGATGC
9102897 TTATAATTACTATGGTGATTATAATGTTACTCATATGATGGATATGATGC
1 TTATAATTACTATGGTGATTATAATGTTACTCATATGATGGATATGATGC
9102947 TTATA
1 TTATA
9102952 TGTTGAAAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (50 bp):
TTATAATTACTATGGTGATTATAATGTTACTCATATGATGGATATGATGC
Found at i:9104225 original size:21 final size:21
Alignment explanation
Indices: 9104200--9104257 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
9104190 TGGAGCGTGG
9104200 GGGGAATCGGTTCCCTCTCAT
1 GGGGAATCGGTTCCCTCTCAT
9104221 GGGGAATCGGTTCCCTCTCAT
1 GGGGAATCGGTTCCCTCTCAT
*
9104242 AGGGAATCGGTTCCCT
1 GGGGAATCGGTTCCCT
9104258 AAGTGTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.28
Consensus pattern (21 bp):
GGGGAATCGGTTCCCTCTCAT
Found at i:9106215 original size:40 final size:40
Alignment explanation
Indices: 9106161--9106239 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
9106151 TACCCCCTTA
*
9106161 GGGGGAATCGGTTCCCTCTGGACATACTGGAATTTTTGGG
1 GGGGGAATCAGTTCCCTCTGGACATACTGGAATTTTTGGG
9106201 GGGGGAATCAGTTCCCTCTGGACATACTGGAATTTTTGG
1 GGGGGAATCAGTTCCCTCTGGACATACTGGAATTTTTGG
9106240 CTTTGAAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (40 bp):
GGGGGAATCAGTTCCCTCTGGACATACTGGAATTTTTGGG
Found at i:9108757 original size:22 final size:23
Alignment explanation
Indices: 9108711--9108771 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
9108701 TTCCCCTGTG
*
9108711 GGGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
9108734 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
* *
9108756 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
9108772 TCTGCACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:9114585 original size:11 final size:11
Alignment explanation
Indices: 9114567--9114596 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9114557 AAATACATTG
9114567 TAAAATTATTT
1 TAAAATTATTT
*
9114578 TGAAATTATTT
1 TAAAATTATTT
9114589 TAAAATTA
1 TAAAATTA
9114597 AAACTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:9117124 original size:8 final size:8
Alignment explanation
Indices: 9117111--9117157 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
9117101 ACTATTACTA
9117111 TTTATTAT
1 TTTATTAT
9117119 TTTATTATT
1 TTTATTA-T
9117128 TTTATT-T
1 TTTATTAT
*
9117135 TTTATAAT
1 TTTATTAT
*
9117143 TAT-TTAT
1 TTTATTAT
9117150 TTTATTAT
1 TTTATTAT
9117158 ACCTTTTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 11 0.34
8 14 0.44
9 7 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTAT
Found at i:9117133 original size:17 final size:17
Alignment explanation
Indices: 9117109--9117158 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
9117099 TTACTATTAC
*
9117109 TATTTATTATTTTATTAT
1 TATTTATT-TTTTATAAT
9117127 T-TTTATTTTTTATAAT
1 TATTTATTTTTTATAAT
9117143 TATTTATTTTATTATA
1 TATTTATTTT-TTATA
9117159 CCTTTTAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.31
17 14 0.48
18 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTATTTTTTATAAT
Found at i:9120085 original size:14 final size:14
Alignment explanation
Indices: 9120061--9120104 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9120051 CCCATTTCGT
9120061 TTTATTTTCATTTTA
1 TTTA-TTTCATTTTA
**
9120076 TTTATTTCATTCCA
1 TTTATTTCATTTTA
*
9120090 TTTATTTTATTTTA
1 TTTATTTCATTTTA
9120104 T
1 T
9120105 CACATGCTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:9121852 original size:75 final size:73
Alignment explanation
Indices: 9121772--9121914 Score: 182
Period size: 75 Copynumber: 1.9 Consensus size: 73
9121762 TAAACTCAAG
*
9121772 TTTAGGATAATATTTTAAACA-TTATATTTTATCTTT-GTATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGAT-ATATTTT-AACATTTA-ACTTTAT-TTTAGTATTTTAGTTTAAATAGGTTTTAGTA
9121835 TTTTAATTAAGT
62 TTTTAATTAAGT
* * *
9121847 TTTAGGATATATTTTTATATTTCAACTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATT
1 TTTAGGATATATTTTAACATTT-AACTTTATTTTA-GTATTTTAGTTTAAATAGGTTTTAGTATT
9121912 TTA
64 TTA
9121915 GTTATGATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
73 5 0.08
74 14 0.23
75 41 0.68
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (73 bp):
TTTAGGATATATTTTAACATTTAACTTTATTTTAGTATTTTAGTTTAAATAGGTTTTAGTATTTT
AATTAAGT
Found at i:9122572 original size:4 final size:4
Alignment explanation
Indices: 9122522--9122554 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
9122512 CTCAATCTCT
9122522 TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
9122555 ATTGTTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:9122637 original size:15 final size:15
Alignment explanation
Indices: 9122617--9122665 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
9122607 TTACTATTAC
9122617 TATTTTTTATTTTAT
1 TATTTTTTATTTTAT
*
9122632 TATTTTTCTTTTTTAT
1 TATTTTT-TATTTTAT
* *
9122648 AATTATTTATTTTAT
1 TATTTTTTATTTTAT
9122663 TAT
1 TAT
9122666 ACCTTTTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTTATTTTAT
Found at i:9122638 original size:16 final size:16
Alignment explanation
Indices: 9122619--9122665 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9122609 ACTATTACTA
9122619 TTTTTTATTTTATTAT
1 TTTTTTATTTTATTAT
*
9122635 TTTTCTT-TTTTA-TAA
1 TTTT-TTATTTTATTAT
*
9122650 TTATTTATTTTATTAT
1 TTTTTTATTTTATTAT
9122666 ACCTTTTACC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 11 0.44
17 2 0.08
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTTATTAT
Found at i:9122653 original size:22 final size:22
Alignment explanation
Indices: 9122619--9122660 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
9122609 ACTATTACTA
*
9122619 TTTTTTATTTTA-TTATTTTTC
1 TTTTTTATATTATTTATTTTTC
9122640 TTTTTTATAATTATTTATTTT
1 TTTTTTAT-ATTATTTATTTT
9122661 ATTATACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTATATTATTTATTTTTC
Found at i:9124296 original size:12 final size:12
Alignment explanation
Indices: 9124239--9124307 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
9124229 CGGAGATATC
*
9124239 AGAAATCAAAAT
1 AGAAATCAGAAT
* *
9124251 AGAATTCAGAAC
1 AGAAATCAGAAT
* *
9124263 AGATATCAGAAC
1 AGAAATCAGAAT
* *
9124275 A-TAATCCAGATT
1 AGAAAT-CAGAAT
9124287 AGAAATCAGAAT
1 AGAAATCAGAAT
*
9124299 AGAATTCAG
1 AGAAATCAG
9124308 GTCATGTATC
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 38 0.88
13 3 0.07
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.20
Consensus pattern (12 bp):
AGAAATCAGAAT
Found at i:9124339 original size:48 final size:48
Alignment explanation
Indices: 9124236--9124344 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
9124226 AAACGGAGAT
* * *
9124236 ATCAGAAATCAAAATAGAATTCAGAACAGATATCAGAACATAATCCAG
1 ATCAGAAATCAGAATAGAATTCAGAACAGATATCAGAACAGAATCAAG
* **
9124284 ATTAGAAATCAGAATAGAATTCAGGTCATG-TATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAATAGAATTCAGAACA-GATATCAGAACAGAA-TCAAG
9124333 -TCAGAAATCAGA
1 ATCAGAAATCAGA
9124345 TAAAATATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 47 0.90
49 5 0.10
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAATAGAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:9124342 original size:24 final size:25
Alignment explanation
Indices: 9124236--9124344 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 25
9124226 AAACGGAGAT
* *
9124236 ATCAGAAATCAAAATAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * * *
9124260 AACAGATATCAGAACATAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
* *
9124284 ATTAGAAATCAGAATAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* *
9124308 GTCATG-TATCAGAACAGAATTCAAG
1 ATCA-GAAATCAGAACAGAATTCAAG
9124333 -TCAGAAATCAGA
1 ATCAGAAATCAGA
9124345 TAAAATATTT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
23 3 0.05
24 57 0.88
25 5 0.08
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.21
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:9126838 original size:13 final size:13
Alignment explanation
Indices: 9126820--9126860 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
9126810 CAACGATCAA
*
9126820 CGGGTCAACGGGT
1 CGGGTCAACGAGT
9126833 CGGGT---CGAGT
1 CGGGTCAACGAGT
9126843 CGGGTCAACGAGT
1 CGGGTCAACGAGT
9126856 CGGGT
1 CGGGT
9126861 TGGGTAAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
10 9 0.38
13 15 0.62
ACGTcount: A:0.15, C:0.22, G:0.46, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGAGT
Found at i:9126865 original size:18 final size:18
Alignment explanation
Indices: 9126844--9126878 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9126834 GGGTCGAGTC
*
9126844 GGGTCAACGAGTCGGGTT
1 GGGTAAACGAGTCGGGTT
*
9126862 GGGTAAACGTGTCGGGT
1 GGGTAAACGAGTCGGGT
9126879 CGGAACCGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.46, T:0.23
Consensus pattern (18 bp):
GGGTAAACGAGTCGGGTT
Found at i:9128833 original size:12 final size:12
Alignment explanation
Indices: 9128818--9128886 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
9128808 GAAATCAAAC
9128818 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
9128830 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
9128842 CAGAAATCATAA
1 CAGAATTCAGAA
* **
9128854 CAGTATTCAGGC
1 CAGAATTCAGAA
*
9128866 CATGTA-TCAGAA
1 CA-GAATTCAGAA
9128878 CAGAATTCA
1 CAGAATTCA
9128887 AGTCGGAAAT
Statistics
Matches: 41, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
11 2 0.05
12 36 0.88
13 3 0.07
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:9133525 original size:16 final size:17
Alignment explanation
Indices: 9133485--9133525 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9133475 ACACAGAGAG
9133485 AAAATTGAGATCTACGA
1 AAAATTGAGATCTACGA
*
9133502 ACAATTGAGA-CTCAC-A
1 AAAATTGAGATCT-ACGA
9133518 AAAATTGA
1 AAAATTGA
9133526 AAAGAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.22
Consensus pattern (17 bp):
AAAATTGAGATCTACGA
Found at i:9133998 original size:38 final size:38
Alignment explanation
Indices: 9133947--9134022 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
9133937 AAGACTTAGC
9133947 TTACTTGTCTTCTTTATAGTTTAGTAATAATCTTTGTT
1 TTACTTGTCTTCTTTATAGTTTAGTAATAATCTTTGTT
*
9133985 TTACTTGTCTTCTTTATAGTTTAGTAATCATCTTTGTT
1 TTACTTGTCTTCTTTATAGTTTAGTAATAATCTTTGTT
9134023 AAATGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.58
Consensus pattern (38 bp):
TTACTTGTCTTCTTTATAGTTTAGTAATAATCTTTGTT
Found at i:9134018 original size:20 final size:20
Alignment explanation
Indices: 9133957--9134019 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
9133947 TTACTTGTCT
*
9133957 TCTTTATAGTTTAGTAATAA
1 TCTTTATAGTTTAGTAATCA
* * ** *
9133977 TCTTTGT--TTTACTTGTCT
1 TCTTTATAGTTTAGTAATCA
9133995 TCTTTATAGTTTAGTAATCA
1 TCTTTATAGTTTAGTAATCA
9134015 TCTTT
1 TCTTT
9134020 GTTAAATGTT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
18 12 0.40
20 18 0.60
ACGTcount: A:0.22, C:0.11, G:0.10, T:0.57
Consensus pattern (20 bp):
TCTTTATAGTTTAGTAATCA
Found at i:9134324 original size:40 final size:40
Alignment explanation
Indices: 9134268--9134349 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
9134258 GATCAAAAAT
9134268 TAATTTTTTTTAAAAAACTATACAATATATATACTATTAA
1 TAATTTTTTTTAAAAAACTATACAATATATATACTATTAA
* *
9134308 TAATTTTTTTTTAAAAACTATATAATATATATACTATTAA
1 TAATTTTTTTTAAAAAACTATACAATATATATACTATTAA
9134348 TA
1 TA
9134350 TATAATGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (40 bp):
TAATTTTTTTTAAAAAACTATACAATATATATACTATTAA
Found at i:9134350 original size:15 final size:16
Alignment explanation
Indices: 9134324--9134353 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9134314 TTTTTTAAAA
9134324 ACTATATAATATATAT
1 ACTATATAATATATAT
9134340 ACTAT-TAATATATA
1 ACTATATAATATATA
9134354 ATGAATCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
ACTATATAATATATAT
Found at i:9135879 original size:22 final size:21
Alignment explanation
Indices: 9135840--9135891 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
9135830 CCGACCCGAC
9135840 TCGTTGACCGACCGTTGACCG
1 TCGTTGACCGACCGTTGACCG
* *
9135861 TCGTTGATCGGACCTTTGACCG
1 TCGTTGA-CCGACCGTTGACCG
9135883 TCGTTGACC
1 TCGTTGACC
9135892 TTTTCCGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.13, C:0.31, G:0.27, T:0.29
Consensus pattern (21 bp):
TCGTTGACCGACCGTTGACCG
Found at i:9138623 original size:43 final size:43
Alignment explanation
Indices: 9138540--9138926 Score: 447
Period size: 43 Copynumber: 8.9 Consensus size: 43
9138530 CTGTTTTCAT
* * * * *
9138540 CAGGCTCCTCTGCTATGTTCAATGGTAAGTCCTTACAGTTTCCT
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAGTTTCCC
*
9138584 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
*
9138627 CAGGCTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* *
9138670 CAGGCTCCTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCCC
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* *
9138713 CAGGCTTCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * * * *
9138756 CTAGGTTCATTTCCTATGTGCAATGGTAAGCCTTACAGTTTCCC
1 C-AGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * * *
9138800 CAGGTTCCTTTGTTGTGTGCAAGGGGAAGACCTTATAGTTT-CC
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAGTTTCCC
* * *
9138843 TAGGCTCCTTTGCTATGTGCAAGGGTAAGACCATACCA-TTTCCC
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAG-CCTTA-CAGTTTCCC
* * * * *
9138887 CAAGCTCTTTTGATAT-TGCAAGGGTAAGACCTTACTGTTT
1 CAGGCTCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAGTTT
9138927 TTATAGGCCC
Statistics
Matches: 300, Mismatches: 38, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.00
43 214 0.71
44 85 0.28
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (43 bp):
CAGGCTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
Found at i:9138909 original size:173 final size:173
Alignment explanation
Indices: 9138553--9138926 Score: 488
Period size: 173 Copynumber: 2.2 Consensus size: 173
9138543 GCTCCTCTGC
* * * * * * *
9138553 TATGTTCAATGGTAAGTCCTTACAGTTTCCTCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTA
1 TATGTGCAAGGGTAAGACCTTACAGTTTCCCCAGGTTCATTTCCTATGTGCAAGGGTAAGCCTTA
* *
9138618 CAGTTTCCCCAGGCTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGCTCCTTTGT
66 CAGTTTCCCCAGGCTCCTTTGTTGTGTGCAAGGGGAAGCCTTACAGTTTCCCCAGGCTCCTTTGC
* * * * *
9138683 TGTGTGCAAGGGTAAGCCTTATAGTTTCCCCAGGCTTCTTTGT
131 TATGTGCAAGGGTAAGCCATACAGTTTCCCCAAGCTTCTTTGA
* *
9138726 TGTGTGCAAGGGTAAG-CCTTACAGTTTCCCCTAGGTTCATTTCCTATGTGCAATGGTAAGCCTT
1 TATGTGCAAGGGTAAGACCTTACAGTTTCCCC-AGGTTCATTTCCTATGTGCAAGGGTAAGCCTT
* * *
9138790 ACAGTTTCCCCAGGTTCCTTTGTTGTGTGCAAGGGGAAGACCTTATAGTTT-CCTAGGCTCCTTT
65 ACAGTTTCCCCAGGCTCCTTTGTTGTGTGCAAGGGGAAG-CCTTACAGTTTCCCCAGGCTCCTTT
9138854 GCTATGTGCAAGGGTAAGACCATACCA-TTTCCCCAAGC-TCTTTTGA
129 GCTATGTGCAAGGGTAAG-CCATA-CAGTTTCCCCAAGCTTC-TTTGA
*
9138900 TAT-TGCAAGGGTAAGACCTTACTGTTT
1 TATGTGCAAGGGTAAGACCTTACAGTTT
9138927 TTATAGGCCC
Statistics
Matches: 175, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
172 14 0.08
173 120 0.69
174 40 0.23
175 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (173 bp):
TATGTGCAAGGGTAAGACCTTACAGTTTCCCCAGGTTCATTTCCTATGTGCAAGGGTAAGCCTTA
CAGTTTCCCCAGGCTCCTTTGTTGTGTGCAAGGGGAAGCCTTACAGTTTCCCCAGGCTCCTTTGC
TATGTGCAAGGGTAAGCCATACAGTTTCCCCAAGCTTCTTTGA
Found at i:9145153 original size:29 final size:29
Alignment explanation
Indices: 9145116--9145389 Score: 211
Period size: 29 Copynumber: 9.5 Consensus size: 29
9145106 GTCATAAGTC
***
9145116 AAAT-ATTACGAAAATATCATTTTTTTTA
1 AAATAATTACGAAAATATCACCATTTTTA
* ** *
9145144 AAATAATTACCAAAATATCACTGTTTTAA
1 AAATAATTACGAAAATATCACCATTTTTA
* *
9145173 AAATAATTACCG-AAATATCATCGTTTTT-
1 AAATAATTA-CGAAAATATCACCATTTTTA
* *
9145201 AAATAATTACCAAAATATCA-CACTTTTA
1 AAATAATTACGAAAATATCACCATTTTTA
* * * *
9145229 ATAATAATTACCAAGATATCACTATTTTTT
1 A-AATAATTACGAAAATATCACCATTTTTA
*
9145259 AAATAATTACCAAAATATCA-C-TGTTTTA
1 AAATAATTACGAAAATATCACCAT-TTTTA
* * *
9145287 ACAATAATTAAGAAAATAGCACCATTTTAA
1 A-AATAATTACGAAAATATCACCATTTTTA
** *
9145317 AAATAATTATAAAAATATCACTC-TTTTAA
1 AAATAATTACGAAAATATCAC-CATTTTTA
* * *
9145346 AAATAATTACGAAAATAGCACTATTTTAA
1 AAATAATTACGAAAATATCACCATTTTTA
*
9145375 AAATATTTATCGAAA
1 AAATAATTA-CGAAA
9145390 TAGCACCTAA
Statistics
Matches: 203, Mismatches: 30, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
27 7 0.03
28 27 0.13
29 149 0.73
30 19 0.09
31 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.36
Consensus pattern (29 bp):
AAATAATTACGAAAATATCACCATTTTTA
Found at i:9145286 original size:58 final size:58
Alignment explanation
Indices: 9145116--9145372 Score: 306
Period size: 58 Copynumber: 4.5 Consensus size: 58
9145106 GTCATAAGTC
* *
9145116 AAAT-ATTACGAAAATATCA-TTTTTTTTAAAATAATTACCAAAATATCACTGTTTTAA
1 AAATAATTACGAAAATATCACTATTTTTT-AAATAATTACCAAAATATCACTCTTTTAA
** *
9145173 AAATAATTACCG-AAATATCA-TCGTTTTTAAATAATTACCAAAATATCACACTTTTAA
1 AAATAATTA-CGAAAATATCACTATTTTTTAAATAATTACCAAAATATCACTCTTTTAA
* * * *
9145230 TAATAATTACCAAGATATCACTATTTTTTAAATAATTACCAAAATATCACTGTTTTAA
1 AAATAATTACGAAAATATCACTATTTTTTAAATAATTACCAAAATATCACTCTTTTAA
* * * * ** **
9145288 CAATAATTAAGAAAATAGCACCATTTTAAAAATAATTATAAAAATATCACTCTTTTAA
1 AAATAATTACGAAAATATCACTATTTTTTAAATAATTACCAAAATATCACTCTTTTAA
*
9145346 AAATAATTACGAAAATAGCACTATTTT
1 AAATAATTACGAAAATATCACTATTTT
9145373 AAAAATATTT
Statistics
Matches: 171, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
56 1 0.01
57 46 0.27
58 122 0.71
59 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.37
Consensus pattern (58 bp):
AAATAATTACGAAAATATCACTATTTTTTAAATAATTACCAAAATATCACTCTTTTAA
Found at i:9145335 original size:87 final size:87
Alignment explanation
Indices: 9145138--9145396 Score: 292
Period size: 87 Copynumber: 3.0 Consensus size: 87
9145128 AATATCATTT
* * * *
9145138 TTTTTAAAATAATTACCAAAATATCACTGTTTTAAAAATAATTACCGAAATATCA-TCGTTTTTA
1 TTTTAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCAAAATATCACT-GTTTTAA
* *
9145202 AATAATTACCAAAATATCA-CAC
65 AATAATTACGAAAATAGCACCAC
* * **
9145224 TTTTAATAATAATTACCAAGATATCACTATTTTTTAAATAATTACCAAAATATCACTGTTTTAAC
1 TTTTAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCAAAATATCACTGTTTTAA-
*
9145289 AATAATTAAGAAAATAGCACCA-
65 AATAATTACGAAAATAGCACCAC
** * * * *
9145311 TTTTAAAAATAATTATAAAAATATCACTCTTTTAAAAATAATTACGAAAATAGCACTATTTTAAA
1 TTTTAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCAAAATATCACTGTTTT-AA
*
9145376 AATATTTATCG-AAATAGCACC
65 AATAATTA-CGAAAATAGCACC
9145397 TAACATAAAT
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
86 54 0.37
87 86 0.59
88 5 0.03
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.36
Consensus pattern (87 bp):
TTTTAAAAATAATTACCAAAATATCACTATTTTAAAAATAATTACCAAAATATCACTGTTTTAAA
ATAATTACGAAAATAGCACCAC
Found at i:9145411 original size:58 final size:58
Alignment explanation
Indices: 9145289--9145417 Score: 152
Period size: 58 Copynumber: 2.2 Consensus size: 58
9145279 CTGTTTTAAC
* * ***
9145289 AATAATTAAGAAAATAGCACCATTTTAAAAATAATTATAAAAATATCACTCTTTTAAA
1 AATAATTACGAAAATAGCACCATTTTAAAAATAATTATAAAAATAGCACTCTAACAAA
* * **
9145347 AATAATTACGAAAATAGCACTATTTTAAAAATATTTATCGAAATAGCAC-CTAACATAA
1 AATAATTACGAAAATAGCACCATTTTAAAAATAATTATAAAAATAGCACTCTAACA-AA
*
9145405 ATTAATTACGAAA
1 AATAATTACGAAA
9145418 CTAACACCCG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.05
58 57 0.95
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (58 bp):
AATAATTACGAAAATAGCACCATTTTAAAAATAATTATAAAAATAGCACTCTAACAAA
Found at i:9152011 original size:31 final size:31
Alignment explanation
Indices: 9151985--9152096 Score: 197
Period size: 31 Copynumber: 3.6 Consensus size: 31
9151975 TCCATAGATT
*
9151985 CCGAAGAACCTACGTAAACAGTCCATATGTC
1 CCGAAGAACATACGTAAACAGTCCATATGTC
*
9152016 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATACGTAAACAGTCCATATGTC
*
9152047 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATACGTAAACAGTCCATATGTC
9152078 CCGAAGAACATACGTAAAC
1 CCGAAGAACATACGTAAAC
9152097 CCTCTACCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (31 bp):
CCGAAGAACATACGTAAACAGTCCATATGTC
Found at i:9156360 original size:31 final size:31
Alignment explanation
Indices: 9156312--9156529 Score: 357
Period size: 31 Copynumber: 7.0 Consensus size: 31
9156302 CCCGAAGGAC
* * *
9156312 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
9156343 CAGTCCTTATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
9156374 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
9156405 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
9156436 CAGTCCATATGTCTCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
9156467 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
9156498 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
9156529 C
1 C
9156530 CTTCGACCCT
Statistics
Matches: 175, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
31 174 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:9158675 original size:20 final size:20
Alignment explanation
Indices: 9158650--9158695 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
9158640 TATTAGTCCT
9158650 AAGCTATACTTAATTATTCA
1 AAGCTATACTTAATTATTCA
*
9158670 AAGCTATAGTTAATTATTCA
1 AAGCTATACTTAATTATTCA
9158690 AAGCTA
1 AAGCTA
9158696 AAACTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (20 bp):
AAGCTATACTTAATTATTCA
Found at i:9159091 original size:29 final size:28
Alignment explanation
Indices: 9159041--9159249 Score: 264
Period size: 28 Copynumber: 7.3 Consensus size: 28
9159031 AAATATTTCG
9159041 AAAATATCA-ATTTTTTAAATAATTACC
1 AAAATATCACATTTTTTAAATAATTACC
9159068 AAAATATCATCATTTTTTAAATAATTACC
1 AAAATATCA-CATTTTTTAAATAATTACC
*
9159097 AAGATATCACTATTTTTTAAATAATTACC
1 AAAATATCAC-ATTTTTTAAATAATTACC
**
9159126 AAAATATCATTGTTTTTTTAAAATAATTACC
1 AAAATATCA--CATTTTTT-AAATAATTACC
9159157 AAAATATCACTATTTTTT-AATAATTACC
1 AAAATATCAC-ATTTTTTAAATAATTACC
** *
9159185 AAAATATCAC-CGTTTAACAATAATTACC
1 AAAATATCACATTTTTTA-AATAATTACC
9159213 AAAATATCAC-TATTTTTAAATAATTACC
1 AAAATATCACAT-TTTTTAAATAATTACC
9159241 AAAATATCA
1 AAAATATCA
9159250 TTATTTAAAC
Statistics
Matches: 160, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.02
27 9 0.06
28 60 0.38
29 56 0.35
30 12 0.08
31 20 0.12
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAATATCACATTTTTTAAATAATTACC
Found at i:9159181 original size:28 final size:29
Alignment explanation
Indices: 9159041--9159361 Score: 291
Period size: 29 Copynumber: 11.2 Consensus size: 29
9159031 AAATATTTCG
9159041 AAAATATCA--ATTTTTTAAATAATTACC
1 AAAATATCACTATTTTTTAAATAATTACC
9159068 AAAATATCA-TCATTTTTTAAATAATTACC
1 AAAATATCACT-ATTTTTTAAATAATTACC
*
9159097 AAGATATCACTATTTTTTAAATAATTACC
1 AAAATATCACTATTTTTTAAATAATTACC
* *
9159126 AAAATATCATTGTTTTTTTAAAATAATTACC
1 AAAATATCACT-ATTTTTT-AAATAATTACC
9159157 AAAATATCACTATTTTTT-AATAATTACC
1 AAAATATCACTATTTTTTAAATAATTACC
** *
9159185 AAAATATCAC--CGTTTAACAATAATTACC
1 AAAATATCACTATTTTTTA-AATAATTACC
9159213 AAAATATCACTA-TTTTTAAATAATTACC
1 AAAATATCACTATTTTTTAAATAATTACC
* ** **
9159241 AAAATATCATTA-TTTAAACAATAATTAAA
1 AAAATATCACTATTTTTTA-AATAATTACC
** * ** **
9159270 AAAATAAAACCATTTTAAAAATAATTATG
1 AAAATATCACTATTTTTTAAATAATTACC
* **
9159299 AAAATAGCACTATTTTAAAAATAATTA-C
1 AAAATATCACTATTTTTTAAATAATTACC
* * ** *
9159327 AAAATAGCACTCTTTTAAAAATATTTACC
1 AAAATATCACTATTTTTTAAATAATTACC
*
9159356 GAAATA
1 AAAATA
9159362 ACACCTAACA
Statistics
Matches: 253, Mismatches: 29, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.01
27 9 0.04
28 90 0.36
29 111 0.44
30 19 0.08
31 21 0.08
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATATCACTATTTTTTAAATAATTACC
Found at i:9159273 original size:29 final size:29
Alignment explanation
Indices: 9159058--9159361 Score: 198
Period size: 28 Copynumber: 10.6 Consensus size: 29
9159048 CAATTTTTTA
**
9159058 AATAATTACCAAAATATCA-TCATTTTTTA-
1 AATAATTACCAAAATATCACT-A-TTTAAAC
* **
9159087 AATAATTACCAAGATATCACTATTTTTTA-
1 AATAATTACCAAAATATCACTA-TTTAAAC
* * *
9159116 AATAATTACCAAAATATCATTGTTTTTTTAA-
1 AATAATTACCAAAATATCA---CTATTTAAAC
***
9159147 AATAATTACCAAAATATCACTATTT-TTT
1 AATAATTACCAAAATATCACTATTTAAAC
**
9159175 AATAATTACCAAAATATCACCGTTT-AAC
1 AATAATTACCAAAATATCACTATTTAAAC
**
9159203 AATAATTACCAAAATATCACTATTTTTA-
1 AATAATTACCAAAATATCACTATTTAAAC
*
9159231 AATAATTACCAAAATATCATTATTTAAAC
1 AATAATTACCAAAATATCACTATTTAAAC
** ** *
9159260 AATAATTAAAAAAATAAAACCATTTTAAA-
1 AATAATTACCAAAATATCACTA-TTTAAAC
** *
9159289 AATAATTATGAAAATAGCACTATTTTAAA-
1 AATAATTACCAAAATATCACTA-TTTAAAC
* *
9159318 AATAATTA-CAAAATAGCACTCTTTTAAA-
1 AATAATTACCAAAATATCACT-ATTTAAAC
* *
9159346 AATATTTACCGAAATA
1 AATAATTACCAAAATA
9159362 ACACCTAACA
Statistics
Matches: 230, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
28 99 0.43
29 99 0.43
30 7 0.03
31 24 0.10
32 1 0.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (29 bp):
AATAATTACCAAAATATCACTATTTAAAC
Found at i:9161068 original size:20 final size:21
Alignment explanation
Indices: 9161045--9161084 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9161035 ATTAAAATTA
*
9161045 AAATAAT-AAATGATATATTT
1 AAATAATAAAATAATATATTT
9161065 AAATAATAAAATAATATATT
1 AAATAATAAAATAATATATT
9161085 ATCGATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
AAATAATAAAATAATATATTT
Found at i:9161114 original size:15 final size:15
Alignment explanation
Indices: 9161094--9161165 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
9161084 TATCGATGAC
9161094 TTTTATATAAATAAT
1 TTTTATATAAATAAT
*
9161109 TTTTATTTAAAT-A-
1 TTTTATATAAATAAT
* *
9161122 -TAT-TATAGATGAAT
1 TTTTATATAAAT-AAT
*
9161136 ATTTATATAAATAAT
1 TTTTATATAAATAAT
*
9161151 TTTTAT-TTAATAAT
1 TTTTATATAAATAAT
9161165 T
1 T
9161166 AGAATTTCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
11 5 0.11
12 2 0.05
13 1 0.02
14 9 0.20
15 21 0.48
16 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTTATATAAATAAT
Found at i:9161122 original size:41 final size:42
Alignment explanation
Indices: 9161077--9161160 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
9161067 ATAATAAAAT
* *
9161077 AATATATTATCGATGACT-TTTATATAAATAATTTTTATTTA
1 AATATATTATAGATGAATATTTATATAAATAATTTTTATTTA
9161118 AATATATTATAGATGAATATTTATATAAATAATTTTTATTTA
1 AATATATTATAGATGAATATTTATATAAATAATTTTTATTTA
9161160 A
1 A
9161161 TAATTAGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 16 0.40
42 24 0.60
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (42 bp):
AATATATTATAGATGAATATTTATATAAATAATTTTTATTTA
Found at i:9161157 original size:19 final size:19
Alignment explanation
Indices: 9161095--9161163 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
9161085 ATCGATGACT
9161095 TTTATATAAATAATTTTTA
1 TTTATATAAATAATTTTTA
* ***
9161114 TTTAAATATATTATAGATGAATA
1 TTT--ATATA-AATA-ATTTTTA
9161137 TTTATATAAATAATTTTTA
1 TTTATATAAATAATTTTTA
9161156 TTTA-ATAA
1 TTTATATAA
9161164 TTAGAATTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
18 4 0.11
19 11 0.29
20 3 0.08
21 10 0.26
22 3 0.08
23 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TTTATATAAATAATTTTTA
Found at i:9162072 original size:20 final size:20
Alignment explanation
Indices: 9162047--9162238 Score: 113
Period size: 20 Copynumber: 9.6 Consensus size: 20
9162037 GATTTTCCAT
9162047 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
9162067 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * *
9162087 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * ** *
9162107 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
* * *
9162127 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* * * *
9162147 AATCGCAATGCGTATCTGTA
1 AATCGCAACGCGAATATGAA
* * *
9162167 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* *
9162187 AATCGCAATGCG--TATCCATA
1 AATCGCAACGCGAATAT-GA-A
*
9162207 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
9162228 AATCGCAACGC
1 AATCGCAACGC
9162239 ATATCCGTAA
Statistics
Matches: 131, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 112 0.85
21 13 0.10
22 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:9162094 original size:40 final size:40
Alignment explanation
Indices: 9162042--9162260 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
9162032 ATTGCGATTT
*
9162042 TCCAT-AATCGCAACGCGAATATGAAAATCGCAACGCG-A
1 TCCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTA
* * * **
9162080 ACATATAAATCGCAACGCG-ATTCTGACTATCGCAACGCGTA
1 TC-CATAAATCGCAACGCGAATAC-GAAAATCGCAACGCGTA
* * * *
9162121 TCCGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTA
1 TCCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTA
** * * *
9162161 TCTGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTA
1 TCCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTA
*
9162201 TCCATAAATCGCAACGAC-AATACGTAAAATCGCAACGCATA
1 TCCATAAATCGCAACG-CGAATACG-AAAATCGCAACGCGTA
* *
9162242 TCCGTAAATCACAACGCGA
1 TCCATAAATCGCAACGCGA
9162261 TTTTTAAAGC
Statistics
Matches: 149, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 111 0.74
41 33 0.22
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (40 bp):
TCCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTA
Found at i:9162118 original size:60 final size:60
Alignment explanation
Indices: 9162047--9162260 Score: 179
Period size: 60 Copynumber: 3.5 Consensus size: 60
9162037 GATTTTCCAT
* * *
9162047 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTCTG-A
1 AATCGCAACGCGAATACGTAAATCGCAACGCGAACACATAAATCGCAACGCGTA-TCTGTA
* * * * * * *
9162106 CTATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCTGTA
1 -AATCGCAACGCGAATACGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCTGTA
* * * *
9162167 AATCGCAACGAGAATACGTAAATCGCAATGCGTATC-CATAAATCGCAACGAC-AATAC-GTAA
1 AATCGCAACGCGAATACGTAAATCGCAACGCG-AACACATAAATCGCAACG-CGTAT-CTGT-A
* *
9162228 AATCGCAACGC-ATATCCGTAAATCACAACGCGA
1 AATCGCAACGCGA-ATACGTAAATCGCAACGCGA
9162261 TTTTTAAAGC
Statistics
Matches: 122, Mismatches: 25, Indels: 14
0.76 0.16 0.09
Matches are distributed among these distances:
60 90 0.74
61 32 0.26
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGAATACGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCTGTA
Found at i:9162256 original size:20 final size:20
Alignment explanation
Indices: 9162108--9162258 Score: 128
Period size: 20 Copynumber: 7.5 Consensus size: 20
9162098 GATTCTGACT
*
9162108 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCATATCCGTAA
* *
9162128 ATCGCAACG-AGAATACGTAA
1 ATCGCAACGCA-TATCCGTAA
* * *
9162148 ATCGCAATGCGTATCTGTAA
1 ATCGCAACGCATATCCGTAA
* *
9162168 ATCGCAACG-AGAATACGTAA
1 ATCGCAACGCA-TATCCGTAA
* * *
9162188 ATCGCAATGCGTATCCATAA
1 ATCGCAACGCATATCCGTAA
*
9162208 ATCGCAACGACA-ATACGTAAA
1 ATCGCAACG-CATATCCGT-AA
9162229 ATCGCAACGCATATCCGTAA
1 ATCGCAACGCATATCCGTAA
*
9162249 ATCACAACGC
1 ATCGCAACGC
9162259 GATTTTTAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
20 83 0.83
21 17 0.17
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCATATCCGTAA
Found at i:9162882 original size:21 final size:21
Alignment explanation
Indices: 9162821--9162899 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
9162811 TTCTAAACTT
9162821 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
9162841 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
9162861 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
9162882 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
9162900 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:9162922 original size:19 final size:19
Alignment explanation
Indices: 9162898--9162942 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9162888 GCAACGAGAG
**
9162898 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAACCAA
*
9162917 AATCGCAATGCGAAACCAA
1 AATCGCAACGCGAAACCAA
9162936 AATCGCA
1 AATCGCA
9162943 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:9162981 original size:14 final size:14
Alignment explanation
Indices: 9162962--9163025 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 14
9162952 TCATTTCGCT
9162962 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
9162976 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
9162990 TTGCGATTTTCATTTCACG
1 TTGCGA--TTC---TCTCG
9163009 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
9163023 TTG
1 TTG
9163026 TGATAGTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
14 27 0.63
16 3 0.07
17 3 0.07
19 10 0.23
ACGTcount: A:0.09, C:0.25, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:9163011 original size:33 final size:33
Alignment explanation
Indices: 9162974--9163079 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 33
9162964 GCGATTCTCT
9162974 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
* ** *
9163007 CGTTGCGATTCTCTCGTTGTGATAGTCATTTCCG
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTT-CA
9163041 CGTTGCGATTTTCATTCTCTCGTTGCGATTTTCATTTCA
1 CGTTGCG------ATTCTCTCGTTGCGATTTTCATTTCA
9163080 ACCAAAAGAC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
33 28 0.48
34 8 0.14
39 1 0.02
40 21 0.36
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTCTCTCGTTGCGATTTTCATTTCA
Found at i:9163013 original size:47 final size:50
Alignment explanation
Indices: 9162943--9163070 Score: 154
Period size: 47 Copynumber: 2.5 Consensus size: 50
9162933 CAAAATCGCA
* * *
9162943 TTGCGATTTTCATTTCGCTTTGCGATTCTCTCGTTGCGAT-TC-T-CTCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATATCTTCCGCG
*
9162990 TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGTGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATA-TC--TTCCGCG
*
9163043 TTGCGATTTTCATTCTCTCGTTGCGATT
1 TTGCGATTTTCATT-TCACGTTGCGATT
9163071 TTCATTTCAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
47 37 0.54
49 2 0.03
52 1 0.01
53 17 0.25
54 12 0.17
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (50 bp):
TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATATCTTCCGCG
Found at i:9163055 original size:20 final size:21
Alignment explanation
Indices: 9163032--9163078 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
9163022 GTTGTGATAG
9163032 TCATTTC-CGCGTTGCGATTT
1 TCATTTCTCGCGTTGCGATTT
*
9163052 TCA-TTCTCTCGTTGCGATTT
1 TCATTTCTCGCGTTGCGATTT
9163072 TCATTTC
1 TCATTTC
9163079 AACCAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.49
Consensus pattern (21 bp):
TCATTTCTCGCGTTGCGATTT
Found at i:9164928 original size:94 final size:94
Alignment explanation
Indices: 9164767--9165145 Score: 640
Period size: 94 Copynumber: 4.1 Consensus size: 94
9164757 TAGATTGCTT
* *
9164767 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
9164832 ATTTTTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
9164861 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9164926 ATTTGTC-TTGTGTTTGTC-TTTGGTTGAA
66 ATTTGTCTTTGT-TTTGTCTTTTGGTTGAA
*
9164954 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
9165019 ATTTGTCTTTGTTTTGTTTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
9165048 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9165113 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
9165141 AGTAA
1 AGTAA
9165146 TGCAATCCAT
Statistics
Matches: 273, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
92 12 0.04
93 89 0.33
94 172 0.63
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:9165082 original size:187 final size:187
Alignment explanation
Indices: 9164767--9165145 Score: 638
Period size: 187 Copynumber: 2.0 Consensus size: 187
9164757 TAGATTGCTT
*
9164767 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
9164832 ATTTTTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC
66 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC
*
9164897 TGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTC-TTGTGTTTGTC-TTTGGTTGAA
131 TGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGT-TTTGTCTTTTGGTTG-A
* *
9164954 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
9165019 ATTTGTC-TTTGTTTTGTTTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAA
66 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA
*
9165083 CTGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
130 CTGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
9165141 AGTAA
1 AGTAA
9165146 TGCAATCCAT
Statistics
Matches: 181, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
186 19 0.10
187 150 0.83
188 12 0.07
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.47
Consensus pattern (187 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC
TGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:9165280 original size:33 final size:33
Alignment explanation
Indices: 9165237--9165326 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
9165227 ATGACTATCG
* * * *
9165237 CAACGTGAAATGAAATTCGCAACGAGAGAATCA
1 CAACGCGAAATGAAAATCGCAACGACAAAATCA
*
9165270 CAACGCGAAATGAAAATCGCAACGACAAAATCG
1 CAACGCGAAATGAAAATCGCAACGACAAAATCA
**
9165303 CAACGCGAAACCAAAATCGCAACG
1 CAACGCGAAATGAAAATCGCAACG
9165327 CGAAACTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
CAACGCGAAATGAAAATCGCAACGACAAAATCA
Found at i:9165292 original size:19 final size:19
Alignment explanation
Indices: 9165193--9165331 Score: 73
Period size: 19 Copynumber: 7.7 Consensus size: 19
9165183 TAGTTTACTT
* *
9165193 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
9165213 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
* *
9165234 TCGCAACGTGAAATGAAAT
1 TCGCAACGCGAAATGAAAA
*
9165253 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
9165267 TCACAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9165286 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
**
9165300 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
9165319 TCGCAACGCGAAA
1 TCGCAACGCGAAA
9165332 CTATAATCGT
Statistics
Matches: 92, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.04
17 3 0.03
18 2 0.02
19 39 0.42
20 8 0.09
21 13 0.14
22 3 0.03
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:9165340 original size:19 final size:19
Alignment explanation
Indices: 9165295--9165332 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9165285 ATCGCAACGA
9165295 CAAAATCGCAACGCGAAAC
1 CAAAATCGCAACGCGAAAC
9165314 CAAAATCGCAACGCGAAAC
1 CAAAATCGCAACGCGAAAC
9165333 TATAATCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.32, G:0.16, T:0.05
Consensus pattern (19 bp):
CAAAATCGCAACGCGAAAC
Done.