Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 170 of 185
Found at i:51931396 original size:38 final size:38
Alignment explanation
Indices: 51931297--51931402 Score: 158
Period size: 38 Copynumber: 2.7 Consensus size: 38
51931287 AAAATATTTT
*
51931297 AAAATATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTA
1 AAAATATTTTAAAATTAAAAAAA--TTAAAAAAGTATGTA
* *
51931337 AAAAAAATTTAAAATTAAAAAAATTAAAAAAGTATGTA
1 AAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTA
*
51931375 AAAATATTTTAAAATTAAAAAAAATAAA
1 AAAATATTTTAAAATTAAAAAAATTAAA
51931403 TATATTTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 39 0.65
40 21 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (38 bp):
AAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTA
Found at i:51940753 original size:29 final size:30
Alignment explanation
Indices: 51940719--51940797 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
51940709 TAACCACTGT
51940719 ACTTTTC-AAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
51940748 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCC-AA
51940779 AC-TTTCTAAAA-TTACATTT
1 ACTTTTCTAAAATTTACATTT
51940798 CAACCCTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
29 15 0.31
30 29 0.60
31 4 0.08
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAA
Found at i:51940803 original size:29 final size:29
Alignment explanation
Indices: 51940722--51940834 Score: 124
Period size: 30 Copynumber: 3.9 Consensus size: 29
51940712 CCACTGTACT
51940722 TTTC-AAAATTTACATTTTGACCCCAAAC
1 TTTCTAAAATTTACATTTTGACCCCAAAC
51940750 TTTTCTAAAATTTACATTTTGACCCCAAAAC
1 -TTTCTAAAATTTACATTTTGACCCC-AAAC
** * *
51940781 TTTCTAAAA-TTACATTTCAACCCTTAGAC
1 TTTCTAAAATTTACATTTTGACCC-CAAAC
*
51940810 TTTCTCAAAATTT-CACTTTGACCCC
1 TTTCT-AAAATTTACATTTTGACCCC
51940835 TAAAATCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
29 24 0.34
30 41 0.58
31 6 0.08
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (29 bp):
TTTCTAAAATTTACATTTTGACCCCAAAC
Found at i:51941448 original size:8 final size:8
Alignment explanation
Indices: 51941435--51941471 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
51941425 CTTTGAGACA
51941435 AGAAGAAG
1 AGAAGAAG
51941443 AGAAGAAG
1 AGAAGAAG
51941451 AGAAGAAG
1 AGAAGAAG
*
51941459 A-AAAAAG
1 AGAAGAAG
51941466 A-AAGAA
1 AGAAGAA
51941472 AAAAAGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 10 0.37
8 17 0.63
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (8 bp):
AGAAGAAG
Found at i:51941476 original size:12 final size:12
Alignment explanation
Indices: 51941459--51941510 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
51941449 AGAGAAGAAG
51941459 AAAAAAGAAAGA
1 AAAAAAGAAAGA
51941471 AAAAAAG--AGA
1 AAAAAAGAAAGA
*
51941481 AAGGAAAAGAGAGA
1 AA--AAAAGAAAGA
51941495 AAAAAAGAAAGA
1 AAAAAAGAAAGA
51941507 AAAA
1 AAAA
51941511 CAGTAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 5 0.14
12 25 0.71
14 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:51941482 original size:14 final size:14
Alignment explanation
Indices: 51941448--51941506 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
51941438 AGAAGAGAAG
51941448 AAGAG-AAGAAGAAA
1 AAGAGAAAGAA-AAA
51941462 AA-AGAAAGAAAAA
1 AAGAGAAAGAAAAA
*
51941475 AAGAGAAAGGAAAA
1 AAGAGAAAGAAAAA
*
51941489 GAGAGAAA-AAAAGA
1 AAGAGAAAGAAAA-A
51941503 AAGA
1 AAGA
51941507 AAAACAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
13 10 0.26
14 28 0.74
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAGAAAGAAAAA
Found at i:51941990 original size:20 final size:20
Alignment explanation
Indices: 51941965--51942002 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51941955 AAAAATATTC
51941965 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
51941985 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
51942003 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:51942167 original size:16 final size:16
Alignment explanation
Indices: 51942148--51942327 Score: 52
Period size: 16 Copynumber: 10.5 Consensus size: 16
51942138 CGTGAATAAA
51942148 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
51942164 AAAAATTCCCGTG-TTTC
1 AAAAATT--CGTGTTTTC
51942181 AAAAAAAATGTCGTGTTTT-
1 ---AAAAAT-TCGTGTTTTC
51942200 AAAAATTTTCGTG-TTTC
1 AAAAA--TTCGTGTTTTC
* * *
51942217 TGAAATTTCCCTGTTTT-
1 -AAAAATT-CGTGTTTTC
51942234 AAAAATTCCCGTG-TTTC
1 AAAAATT--CGTGTTTTC
*
51942251 AAAAAAATGTCATGTTTT-
1 --AAAAAT-TCGTGTTTTC
*
51942269 AAAAATTTTCATG-TTTC
1 AAAAA--TTCGTGTTTTC
* *
51942286 TAAAATTTTCGTGTTTAC
1 -AAAA-ATTCGTGTTTTC
*
51942304 -AAATTCTCGTGTTTTC
1 AAAAAT-TCGTGTTTTC
51942320 AAAAATTC
1 AAAAATTC
51942328 TCGTGTTAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 54
0.65 0.06 0.28
Matches are distributed among these distances:
15 2 0.02
16 47 0.38
17 30 0.24
18 22 0.18
19 13 0.10
20 10 0.08
21 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:51942167 original size:17 final size:17
Alignment explanation
Indices: 51942147--51942215 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 17
51942137 TCGTGAATAA
51942147 AAAAAATTCGTGTTTTC
1 AAAAAATTCGTGTTTTC
51942164 -AAAAATTCCCGTG-TTTC
1 AAAAAATT--CGTGTTTTC
51942181 AAAAAAAATGTCGTGTTTT-
1 --AAAAAAT-TCGTGTTTTC
*
51942200 AAAAATTTTCGTGTTT
1 AAAAA-ATTCGTGTTT
51942216 CTGAAATTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 16
0.72 0.02 0.27
Matches are distributed among these distances:
16 7 0.16
17 17 0.40
18 5 0.12
19 4 0.09
20 9 0.21
21 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (17 bp):
AAAAAATTCGTGTTTTC
Found at i:51942167 original size:19 final size:19
Alignment explanation
Indices: 51942145--51942204 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
51942135 TCTCGTGAAT
51942145 AAAAAAAATTCGTGTTTTC
1 AAAAAAAATTCGTGTTTTC
51942164 ---AAAAATTCCCGTG-TTTC
1 AAAAAAAATT--CGTGTTTTC
51942181 AAAAAAAATGTCGTGTTTT-
1 AAAAAAAAT-TCGTGTTTTC
51942200 AAAAA
1 AAAAA
51942205 TTTTCGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 4 0.12
19 9 0.26
20 9 0.26
21 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (19 bp):
AAAAAAAATTCGTGTTTTC
Found at i:51942167 original size:35 final size:35
Alignment explanation
Indices: 51942110--51942212 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 35
51942100 CGGTATTTGT
51942110 TAAAGAAAAA-TCGTG-TTTCAAAAATTCTCGTGAA
1 TAAA-AAAAATTCGTGTTTTCAAAAATTCTCGTGAA
* **
51942144 TAAAAAAAATTCGTGTTTTCAAAAATTCCCGTGTT
1 TAAAAAAAATTCGTGTTTTCAAAAATTCTCGTGAA
*
51942179 TCAAAAAAAATGTCGTGTTTT-AAAAATTTTCGTG
1 T-AAAAAAAAT-TCGTGTTTTCAAAAATTCTCGTG
51942213 TTTCTGAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
33 5 0.08
34 9 0.15
35 17 0.28
36 20 0.33
37 9 0.15
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (35 bp):
TAAAAAAAATTCGTGTTTTCAAAAATTCTCGTGAA
Found at i:51942231 original size:17 final size:18
Alignment explanation
Indices: 51942155--51942334 Score: 81
Period size: 17 Copynumber: 10.3 Consensus size: 18
51942145 AAAAAAAATT
51942155 CGTGTTT-TCAAAAATTCC
1 CGTGTTTCT-AAAAATTCC
* * **
51942173 CGTGTTTCAAAAAAAATGT
1 CGTGTTTC-TAAAAATTCC
**
51942192 CGTGTTT-TAAAAATTTT
1 CGTGTTTCTAAAAATTCC
* *
51942209 CGTGTTTCTGAAATTTCC
1 CGTGTTTCTAAAAATTCC
51942227 C-TGTTT-TAAAAATTCC
1 CGTGTTTCTAAAAATTCC
* * **
51942243 CGTGTTTCAAAAAAATGT
1 CGTGTTTCTAAAAATTCC
* **
51942261 CATGTTT-TAAAAATTTT
1 CGTGTTTCTAAAAATTCC
* **
51942278 CATGTTTCT-AAAATTTT
1 CGTGTTTCTAAAAATTCC
* *
51942295 CGTG-TT-TACAAATTCT
1 CGTGTTTCTAAAAATTCC
*
51942311 CGTGTTT-TCAAAAATTCT
1 CGTGTTTCT-AAAAATTCC
51942329 CGTGTT
1 CGTGTT
51942335 AAAAAAAACT
Statistics
Matches: 128, Mismatches: 25, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
15 1 0.01
16 21 0.16
17 52 0.41
18 41 0.32
19 13 0.10
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.44
Consensus pattern (18 bp):
CGTGTTTCTAAAAATTCC
Found at i:51942270 original size:69 final size:69
Alignment explanation
Indices: 51942157--51942324 Score: 239
Period size: 69 Copynumber: 2.4 Consensus size: 69
51942147 AAAAAATTCG
* * *
51942157 TGTTTTCAAAAATTCCCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTGAAA
1 TGTTTT-AAAAATTCCCGTGTTTC-AAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAA
51942222 TTTCCC
64 TTTCCC
51942228 TGTTTTAAAAATTCCCGTGTTTCAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAATT
1 TGTTTTAAAAATTCCCGTGTTTCAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAATT
* *
51942293 TTCG
66 TCCC
* *
51942297 TG-TTTACAAATTCTCGTGTTTTCAAAAA
1 TGTTTTAAAAATTCCCGTG-TTTCAAAAA
51942325 TTCTCGTGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
68 14 0.16
69 52 0.58
70 17 0.19
71 6 0.07
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (69 bp):
TGTTTTAAAAATTCCCGTGTTTCAAAAAAATGTCATGTTTTAAAAATTTTCATGTTTCTAAAATT
TCCC
Found at i:51942274 original size:35 final size:35
Alignment explanation
Indices: 51942120--51942324 Score: 159
Period size: 34 Copynumber: 5.9 Consensus size: 35
51942110 TAAAGAAAAA
* * ** *
51942120 TCGTGTTTCAAAAATTCTCGTGAATAAAAAAAAT-
1 TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAATG
51942154 TCGTGTTTTCAAAAATTCCCGTGTTTCAAAAAAAATG
1 TCGTGTTTT-AAAAATTCCCGTGTTTC-AAAAAAATG
** ** *
51942191 TCGTGTTTTAAAAATTTTCGTGTTTC--TGAAATT
1 TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAATG
*
51942224 TCCCTGTTTTAAAAATTCCCGTGTTTCAAAAAAATG
1 T-CGTGTTTTAAAAATTCCCGTGTTTCAAAAAAATG
* ** * * * *
51942260 TCATGTTTTAAAAATTTTCATGTTTC-TAAAATTT
1 TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAATG
* *
51942294 TCGTG-TTTACAAATTCTCGTGTTTTCAAAAA
1 TCGTGTTTTAAAAATTCCCGTG-TTTCAAAAA
51942325 TTCTCGTGTT
Statistics
Matches: 135, Mismatches: 28, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
33 18 0.13
34 43 0.32
35 37 0.27
36 28 0.21
37 9 0.07
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (35 bp):
TCGTGTTTTAAAAATTCCCGTGTTTCAAAAAAATG
Found at i:51942339 original size:16 final size:16
Alignment explanation
Indices: 51942287--51942340 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
51942277 TCATGTTTCT
* *
51942287 AAAATTTTCGTGTTTA
1 AAAATTCTCGTGTTAA
* *
51942303 CAAATTCTCGTGTTTTCA
1 AAAATTCTCGTG--TTAA
51942321 AAAATTCTCGTGTTAA
1 AAAATTCTCGTGTTAA
51942337 AAAA
1 AAAA
51942341 AACTTTCGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (16 bp):
AAAATTCTCGTGTTAA
Found at i:51942341 original size:18 final size:18
Alignment explanation
Indices: 51942304--51942359 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
51942294 TCGTGTTTAC
***
51942304 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTGTTAAAAA
51942322 AAATTCTCGTGTTAAAAA
1 AAATTCTCGTGTTAAAAA
51942340 AAACTT-TCGT-TTAAAAA
1 AAA-TTCTCGTGTTAAAAA
51942357 AAA
1 AAA
51942360 GAAATACTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.29
18 22 0.65
19 2 0.06
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (18 bp):
AAATTCTCGTGTTAAAAA
Found at i:51951520 original size:10 final size:9
Alignment explanation
Indices: 51951505--51951557 Score: 61
Period size: 10 Copynumber: 5.4 Consensus size: 9
51951495 TATTATGCCT
51951505 AAAAACAGAA
1 AAAAACA-AA
51951515 AAAAACAAA
1 AAAAACAAA
51951524 AAAAACAAAA
1 AAAAAC-AAA
*
51951534 ACAAAAAAAA
1 A-AAAACAAA
51951544 ACAAAACAAA
1 A-AAAACAAA
51951554 AAAA
1 AAAA
51951558 GAAGAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
9 11 0.28
10 24 0.62
11 4 0.10
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:51951541 original size:25 final size:25
Alignment explanation
Indices: 51951505--51951567 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
51951495 TATTATGCCT
*
51951505 AAAAACAGAAAAAAACAAAA-AAAA
1 AAAAACAAAAAAAAACAAAACAAAA
51951529 CAAAAACAAAAAAAAACAAAACAAAA
1 -AAAAACAAAAAAAAACAAAACAAAA
*
51951555 AAAGAAGAAAAAA
1 AAA-AACAAAAAA
51951568 TCAAATCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 22 0.65
26 12 0.35
ACGTcount: A:0.86, C:0.10, G:0.05, T:0.00
Consensus pattern (25 bp):
AAAAACAAAAAAAAACAAAACAAAA
Found at i:51951565 original size:16 final size:14
Alignment explanation
Indices: 51951513--51951557 Score: 72
Period size: 15 Copynumber: 3.1 Consensus size: 14
51951503 CTAAAAACAG
51951513 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
51951527 AACAAAAACAAAAAA
1 AA-AAAAACAAAAAA
51951542 AAACAAAACAAAAAA
1 AAA-AAAACAAAAAA
51951557 A
1 A
51951558 GAAGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.10
15 26 0.90
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAA
Found at i:51952554 original size:76 final size:76
Alignment explanation
Indices: 51952447--51954341 Score: 2437
Period size: 76 Copynumber: 24.7 Consensus size: 76
51952437 TTTATGTTTT
* *
51952447 TTTTTCAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGTTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51952512 TTAAATTTCCG
66 TTAAATTTCCG
51952523 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
51952588 TTAAATTTTCG
66 TTAAATTTCCG
51952599 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
51952664 TTAAATTTTCG
66 TTAAATTTCCG
*
51952675 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCAAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51952740 TTAAATTTCCG
66 TTAAATTTCCG
* * *
51952751 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-T
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
*
51952815 TTT-AATTTCTG
65 TTTAAATTTCCG
* * *
51952826 TTTTTTTTCAAAAAATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
1 ---TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
*
51952891 T-TTTTAAATTTCTGCTT
62 TCTTTTAAATTTC--C-G
51952908 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
51952973 TTTAAATTTCCG
65 TTTAAATTTCCG
*
51952985 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGACGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51953050 TTAAATTTCCG
66 TTAAATTTCCG
51953061 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
**
51953126 TTAAATTTTTG
66 TTAAATTTCCG
* * * *
51953137 TTTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCTTCGGGTCACGCTGAGGTA
1 TTTTTC-----AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA
*
51953202 -TT-TTTT-AATTTCTG
60 TTTCTTTTAAATTTCCG
* * *
51953216 TTTTTTTTTTTCAAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT
1 ------TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGT
*
51953281 A-TT-TTTTAAATTTCTGCTTT
59 ATTTCTTTTAAATTTC--C--G
* * *
51953301 TTTTTAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
51953365 TT-AATTTCTG
66 TTAAATTTCCG
* * *
51953375 TTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGGCTCGGGTCACGCTGAGGTATTT
1 --TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
*
51953440 -TTTTAAATTTCTGCT
63 CTTTTAAATTTC--CG
*
51953455 TTTTTCAAAAAAATCAACTCATAATACAGATGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
1 TTTTTC--AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
51953520 TTTTAAATTTCCG
64 TTTTAAATTTCCG
*
51953533 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51953598 TTAAATTTCCG
66 TTAAATTTCCG
*
51953609 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
51953674 TTAAATTTTCG
66 TTAAATTTCCG
**
51953685 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA-TT-AG
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
* * *
51953748 GT-GAGTT--G
66 TTAAATTTCCG
**** *** * ** **
51953756 AGCCTC--GGGTCATGC-CGA-GGTA-TTAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
1 TTTTTCAAAAATCA-ACTC-ATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
51953816 TTTTAAATTTCCG
64 TTTTAAATTTCCG
*
51953829 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51953894 TTAAATTTCCG
66 TTAAATTTCCG
*
51953905 TTTTTCAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
51953970 TTAAATTTCTG
66 TTAAATTTCCG
*
51953981 TTTTTCAAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
51954046 TTAAATTTCTG
66 TTAAATTTCCG
* * * * **
51954057 TTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
*
51954122 TTTAAATTTCTG
65 TTTAAATTTCCG
* * *
51954134 TTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCACGCCGAGGTA--T-T
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
* *
51954196 TTTCAA-TTCATG
65 TTTAAATTTC-CG
* ** * *
51954208 TTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTA-TT
**
51954273 TCGATT---TTT--G
62 TCTTTTAAATTTCCG
* * * *
51954283 TTTTTCGAAGATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTCGCATGCCGAG
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--CATGCCGAG
51954342 CTGTTCTCAA
Statistics
Matches: 1637, Mismatches: 121, Indels: 123
0.87 0.06 0.07
Matches are distributed among these distances:
68 32 0.02
69 8 0.00
70 3 0.00
71 6 0.00
73 9 0.01
74 52 0.03
75 65 0.04
76 833 0.51
77 199 0.12
78 126 0.08
79 156 0.10
80 67 0.04
81 44 0.03
82 31 0.02
85 6 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (76 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
TTAAATTTCCG
Found at i:51953492 original size:548 final size:536
Alignment explanation
Indices: 51952447--51954341 Score: 2626
Period size: 548 Copynumber: 3.5 Consensus size: 536
51952437 TTTATGTTTT
* *
51952447 TTTTTCAAAAATTAACTCATAATACAGAGGTGAGTTGAGCCTCGGTTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51952512 TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
66 TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
51952577 AGGTATTTCTTTTAAATTTTCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
131 AGGTATTTCTTTTAAATTTTCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
** * *
51952642 GGGTCATGCCGAGGTA-TTTCT-TTTAAATTTTCGTTTTTCAAAAATCAACTCATAATACAGAGG
196 GGGTCATGCCGAGGTATTTTCTATTT-TGTTTTCTTTTTTCAAAAATTAACTCATAATACAGAGG
*
51952705 TGAGTTGAGCCTCGGGTCATGCCAAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAACTCA
260 TGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAACTCA
*
51952770 TAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTCTGTTTTTTTTC
325 TAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTCTG-TTTTTTTC
*
51952835 AAAAAATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAAT
388 AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAAT
51952900 TTCTGCTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAG
453 TTCTGC-TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAG
51952965 GTATTTCTTTTAAATTTCCG
517 GTATTTCTTTTAAATTTCCG
*
51952985 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGACGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51953050 TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
66 TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
* *
51953115 AGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTG
131 AGGTATTTCTTTTAAATTTTCGTTTTTC-----AAAAATCAACTCATAATAC-AGAGGTGAGTTG
* * * * *
51953180 AGCTTCGGGTCACGCTGAGGTATTTTTTAATTTCTGTTTTTTTTTTTCAAAAAATTAACTCATAA
190 AGCCTCGGGTCATGCCGAGGTATTTTCT-ATTT-TGTTTTCTTTTTTC-AAAAATTAACTCATAA
* * * *
51953245 TACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT-TTTTAAATTTCTGCTTTTTTTTAA
252 TACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC--C--GTTTTTCA
51953308 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTC
313 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTC
*
51953373 TGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGGCTCGGGTCACGCTGAGGTAT
378 TGTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
*
51953438 TTTTTTAAATTTCTGCTTTTTTCAAAAAAATCAACTCATAATACAGATGTGAGTTGAGCCTCGGG
443 TTTTTTAAATTTCTGCTTTTTTC-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
51953503 TCATGCCGAGGTATTTCTTTTAAATTTCCG
507 TCATGCCGAGGTATTTCTTTTAAATTTCCG
*
51953533 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
51953598 TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
66 TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
*
51953663 AGTTATTTCTTTTAAATTTTCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
131 AGGTATTTCTTTTAAATTTTCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
*** * *** **** * ** **
51953728 GGGTCATGCCGAGGTATTAGGTGA-GTTG-AGCCTCGGGTC----A-T-GC-CGA-GGTA-TTAG
196 GGGTCATGCCGAGGTATTTTCT-ATTTTGTTTTCTTTTTTCAAAAATTAACTC-ATAATACAGAG
51953782 GTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAACTC
259 GTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAACTC
* * * *
51953847 ATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTTTTAAATTTCCG--TTTTT
324 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTT-AATTTCTGTTTTTTT
* * *
51953910 C-AAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAA
387 CAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAA
*
51953974 ATTTCTG--TTTTTC-AAAAATCAACTCATAATATAGAGGTGAGTTGAGCCTCGGGTCATGCCGA
451 ATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGA
*
51954036 GGTATTTCTTTTAAATTTCTG
516 GGTATTTCTTTTAAATTTCCG
* * * * **
51954057 TTTTTCAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCT
1 TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
* * * *
51954122 TTTAAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCACGC
65 TTTAAATTTCCGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGC
* * * ** *
51954187 CGAGGTA--T-TTTTCAATTCAT-GTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTAAG
129 CGAGGTATTTCTTTTAAATT-TTCGTTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAG
* * * * * * *
51954248 CCTCGGGGCACATGCCGAGGTATTTTCGA---T-TTTT-GTTTTTCGAAGATCAACTCATAATCC
192 CCTC-GGG-TCATGCCGAGGTATTTTCTATTTTGTTTTCTTTTTTCAAAAATTAACTCATAATAC
*
51954308 AAGAGGTGAGTTGAGTCTCGGGTCGCATGCCGAG
255 -AGAGGTGAGTTGAGCCTCGGGT--CATGCCGAG
51954342 CTGTTCTCAA
Statistics
Matches: 1215, Mismatches: 102, Indels: 85
0.87 0.07 0.06
Matches are distributed among these distances:
522 2 0.00
523 32 0.03
524 109 0.09
525 75 0.06
526 52 0.04
527 52 0.04
528 79 0.07
529 6 0.00
530 38 0.03
531 24 0.02
532 13 0.01
533 10 0.01
534 1 0.00
538 154 0.13
539 3 0.00
540 2 0.00
541 1 0.00
542 35 0.03
543 36 0.03
544 31 0.03
545 4 0.00
546 11 0.01
547 22 0.02
548 351 0.29
549 49 0.04
550 23 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (536 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
TTAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
AGGTATTTCTTTTAAATTTTCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
GGGTCATGCCGAGGTATTTTCTATTTTGTTTTCTTTTTTCAAAAATTAACTCATAATACAGAGGT
GAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAACTCAT
AATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTCTGTTTTTTTCAAA
AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTC
TGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTAT
TTCTTTTAAATTTCCG
Found at i:51953755 original size:34 final size:34
Alignment explanation
Indices: 51953712--51953813 Score: 204
Period size: 34 Copynumber: 3.0 Consensus size: 34
51953702 CATAATACAG
51953712 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
51953746 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
51953780 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
51953814 TCTTTTAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (34 bp):
AGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
Found at i:51954560 original size:30 final size:30
Alignment explanation
Indices: 51954526--51954681 Score: 151
Period size: 30 Copynumber: 5.2 Consensus size: 30
51954516 TTTTTTTTTG
* *
51954526 CATTTTAACCCCTATACTTTTCAAAATTTA
1 CATTTTGACCCCTAAACTTTTCAAAATTTA
51954556 CATTTTGACCCC-AAACTTTTCTAAAATTTA
1 CATTTTGACCCCTAAACTTTTC-AAAATTTA
*
51954586 CATTTTGACCCCAAAAC-TTTCTAAAA-TTA
1 CATTTTGACCCCTAAACTTTTC-AAAATTTA
** * *
51954615 CATTTCAACCCTTAGACTTTCTCAAAATTT-
1 CATTTTGACCCCTAAACTTT-TCAAAATTTA
* * *
51954645 CACTTTGACCCCTAAACTCTT-AAGAAATTA
1 CATTTTGACCCCTAAACTTTTCAA-AATTTA
51954675 CATTTTG
1 CATTTTG
51954682 GCCTATATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.02
29 28 0.27
30 66 0.63
31 8 0.08
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.38
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCAAAATTTA
Found at i:51955303 original size:19 final size:20
Alignment explanation
Indices: 51955271--51955321 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
51955261 AGAAGAGAAG
51955271 AAGAAAA-AAGAAAG-AAAAA
1 AAGAAAATAA-AAAGTAAAAA
**
51955290 AAGAAAATAAAAAGTAATTA
1 AAGAAAATAAAAAGTAAAAA
51955310 AA-AAAATAAAAA
1 AAGAAAATAAAAA
51955322 CAGCAGCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAGAAAATAAAAAGTAAAAA
Found at i:51955765 original size:20 final size:20
Alignment explanation
Indices: 51955740--51955777 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51955730 AAAAATATTC
51955740 AAAAATTCTCGTATTTTAAT
1 AAAAATTCTCGTATTTTAAT
*
51955760 AAAAATTCTCGTGTTTTA
1 AAAAATTCTCGTATTTTA
51955778 TTAGAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (20 bp):
AAAAATTCTCGTATTTTAAT
Found at i:51955935 original size:35 final size:35
Alignment explanation
Indices: 51955885--51955980 Score: 106
Period size: 36 Copynumber: 2.8 Consensus size: 35
51955875 CGGTATTTGT
* *
51955885 TAAAGAAAAATCGTG-TTTCAAAAATTCTCGTGAA
1 TAAAAAAAAATCGTGTTTTCAAAAATTCCCGTGAA
**
51955919 TAAAAAAAAATTCGTGTTTTCAAAAATTCCCGTGTT
1 TAAAAAAAAA-TCGTGTTTTCAAAAATTCCCGTGAA
* * *
51955955 TCAAAAAAAGTCATGTTTT-AAAAATT
1 TAAAAAAAAATCGTGTTTTCAAAAATT
51955981 TTCGTGTTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 16 0.30
35 13 0.25
36 24 0.45
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (35 bp):
TAAAAAAAAATCGTGTTTTCAAAAATTCCCGTGAA
Found at i:51955943 original size:16 final size:16
Alignment explanation
Indices: 51955924--51956100 Score: 64
Period size: 16 Copynumber: 10.4 Consensus size: 16
51955914 GTGAATAAAA
51955924 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
51955940 AAAAATTCCCGTG-TTTC
1 AAAAATT--CGTGTTTTC
* *
51955957 AAAAAAAGTCATGTTTT-
1 --AAAAATTCGTGTTTTC
51955974 AAAAATTTTCGTG-TTTC
1 AAAAA--TTCGTGTTTTC
* *
51955991 TAAAATTTCCCTGTTTT-
1 -AAAAATT-CGTGTTTTC
51956008 AAAAATTCCCGTG-TTTC
1 AAAAATT--CGTGTTTTC
51956025 AAAAAAAATGTCGTGTTTT-
1 ---AAAAAT-TCGTGTTTTC
51956044 AAAAATTTTCGTG-TTTC
1 AAAAA--TTCGTGTTTTC
* *
51956061 TAAAATTTTCGTGTTTAC
1 -AAAA-ATTCGTGTTTTC
*
51956079 -AAATTCTCGTGTTTTC
1 AAAAAT-TCGTGTTTTC
51956095 AAAAAT
1 AAAAAT
51956101 ACTCATGTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 51
0.66 0.06 0.27
Matches are distributed among these distances:
15 7 0.06
16 41 0.33
17 33 0.27
18 22 0.18
19 10 0.08
20 9 0.07
21 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:51955943 original size:17 final size:16
Alignment explanation
Indices: 51955923--51956099 Score: 72
Period size: 17 Copynumber: 10.3 Consensus size: 16
51955913 CGTGAATAAA
51955923 AAAAAATTCGTGTTTTC
1 AAAAAATTCGTG-TTTC
51955940 -AAAAATTCCCGTGTTTC
1 AAAAAATT--CGTGTTTC
* * *
51955957 AAAAAAAGTCATGTTTT
1 -AAAAAATTCGTGTTTC
*
51955974 AAAAATTTTCGTGTTTC
1 AAAAA-ATTCGTGTTTC
* * *
51955991 TAAAATTTCCCTGTTT-
1 AAAAAATT-CGTGTTTC
*
51956007 TAAAAATTCCCGTGTTTC
1 AAAAAATT--CGTGTTTC
*
51956025 AAAAAAAATGTCGTGTTTT
1 --AAAAAAT-TCGTGTTTC
*
51956044 AAAAATTTTCGTGTTTC
1 AAAAA-ATTCGTGTTTC
**
51956061 TAAAATTTTCGTGTTT-
1 -AAAAAATTCGTGTTTC
* *
51956077 ACAAATTCTCGTGTTTTC
1 AAAAAAT-TCGTG-TTTC
51956095 AAAAA
1 AAAAA
51956100 TACTCATGTT
Statistics
Matches: 125, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
15 5 0.04
16 27 0.22
17 60 0.48
18 13 0.10
19 13 0.10
20 6 0.05
21 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (16 bp):
AAAAAATTCGTGTTTC
Found at i:51955961 original size:34 final size:34
Alignment explanation
Indices: 51955890--51956099 Score: 192
Period size: 34 Copynumber: 6.1 Consensus size: 34
51955880 TTTGTTAAAG
* * **
51955890 AAAAA-TCGTGTTTCAAAAATTCTCGTGAATAAAA
1 AAAAATTCGTGTTTTAAAAATTCTCGTG-TTTCAA
*
51955924 AAAAATTCGTGTTTTCAAAAATTCCCGTGTTTCAA
1 AAAAATTCGTGTTTT-AAAAATTCTCGTGTTTCAA
* * * *
51955959 AAAAAGTCATGTTTTAAAAATTTTCGTGTTTC-T
1 AAAAATTCGTGTTTTAAAAATTCTCGTGTTTCAA
* * *
51955992 AAAATTTCCCTGTTTTAAAAATTCCCGTGTTTCAAA
1 AAAAATT-CGTGTTTTAAAAATTCTCGTGTTTC-AA
* *
51956028 AAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTA
1 AAAAAT-TCGTGTTTTAAAAATTCTCGTGTTTCAA
** *
51956063 AAATTTTCGTG-TTTACAAATTCTCGTGTTTTCAA
1 AAAAATTCGTGTTTTAAAAATTCTCGTG-TTTCAA
51956097 AAA
1 AAA
51956100 TACTCATGTT
Statistics
Matches: 143, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
33 19 0.13
34 55 0.38
35 29 0.20
36 39 0.27
37 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (34 bp):
AAAAATTCGTGTTTTAAAAATTCTCGTGTTTCAA
Found at i:51955972 original size:70 final size:69
Alignment explanation
Indices: 51955890--51956057 Score: 198
Period size: 70 Copynumber: 2.4 Consensus size: 69
51955880 TTTGTTAAAG
* * *
51955890 AAAAA-TCGTGTTTCAAAAATTCTCGTGAATAAAAAAAAATT-CGTGTTTTCAAAAATTCCCGTG
1 AAAAAGTCGTGTTTTAAAAATTTTCGTG--TAAAAAAAAATTCCCTGTTTT-AAAAATTCCCGTG
51955953 TTTC-AA
63 TTTCAAA
* **** *
51955959 AAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGTGTTT
1 AAAAAGTCGTGTTTTAAAAATTTTCGTGTAAAAAAAAATTCCCTGTTTTAAAAATTCCCGTGTTT
51956024 CAAA
66 CAAA
51956028 AAAAATGTCGTGTTTTAAAAATTTTCGTGT
1 AAAAA-GTCGTGTTTTAAAAATTTTCGTGT
51956058 TTCTAAAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
68 24 0.28
69 19 0.22
70 42 0.49
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (69 bp):
AAAAAGTCGTGTTTTAAAAATTTTCGTGTAAAAAAAAATTCCCTGTTTTAAAAATTCCCGTGTTT
CAAA
Found at i:51956058 original size:70 final size:69
Alignment explanation
Indices: 51955933--51956099 Score: 248
Period size: 70 Copynumber: 2.4 Consensus size: 69
51955923 AAAAAATTCG
51955933 TGTTTTCAAAAATTCCCGTGTTTC-AAAAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAAT
1 TGTTTT-AAAAATTCCCGTGTTTCAAAAAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAAT
51955997 TTCCC
65 TTCCC
*
51956002 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAAT
1 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAA-GTCATGTTTTAAAAATTTTCGTGTTTCTAAAAT
* *
51956067 TTTCG
65 TTCCC
* *
51956072 TG-TTTACAAATTCTCGTGTTTTCAAAAA
1 TGTTTTAAAAATTCCCGTG-TTTCAAAAA
51956100 TACTCATGTT
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
68 17 0.19
69 27 0.30
70 46 0.51
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (69 bp):
TGTTTTAAAAATTCCCGTGTTTCAAAAAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAATT
TCCC
Found at i:51956744 original size:15 final size:15
Alignment explanation
Indices: 51956724--51956755 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51956714 TTACTTCTTT
51956724 TCAAATCATCAATCA
1 TCAAATCATCAATCA
*
51956739 TCAAATCATTAATCA
1 TCAAATCATCAATCA
51956754 TC
1 TC
51956756 CTAACACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
TCAAATCATCAATCA
Found at i:51957342 original size:71 final size:71
Alignment explanation
Indices: 51957226--51957369 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
51957216 ACTATCCTCT
51957226 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
1 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
51957291 AAGTAG
66 AAGTAG
51957297 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
1 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
*
51957362 ATGTAG
66 AAGTAG
51957368 TT
1 TT
51957370 GTTTCCTTGA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (71 bp):
TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
AAGTAG
Found at i:51959422 original size:16 final size:18
Alignment explanation
Indices: 51959401--51959438 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
51959391 TTTTTTTTAG
51959401 ATTTTAAGA-TTA-TTTT
1 ATTTTAAGATTTATTTTT
*
51959417 ATTTTAATATTTATTTTT
1 ATTTTAAGATTTATTTTT
51959435 ATTT
1 ATTT
51959439 GGAAAGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTAAGATTTATTTTT
Found at i:51961640 original size:36 final size:36
Alignment explanation
Indices: 51961593--51961959 Score: 156
Period size: 36 Copynumber: 10.1 Consensus size: 36
51961583 ATATCGTCAG
* *
51961593 TTTATCTGACTAGTGCTGGGCGTAAATCTTTGTCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
* * * ** * *
51961629 TTTATTCGACTAGTGCAGGGCACATTTACTGT-TAG-
1 TTTATCCGACTAGTGCTGGGCGCAAAT-CTTTGTCGA
* * * * * *
51961664 TTTATCCAACTAGCGCTGGGAGCAAATCTACTATTGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* * *
51961701 TTTATCCGATTAGCGCTGGGCACAAATCTTTGTCTG-
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTC-GA
* * * * * * *
51961737 TTAATTCGACTAGTGCTAGGCACACATTTAATATCATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCT--T-T-GTCGA
* *
51961777 TTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
* * * * ** *
51961813 TTTATTCGACTAGTG-TAGG-ACACATCAACTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATC-TTTGTCGA
* * * * * *
51961848 TTTACCCGACTAGCGCTAGGCACAAATATTTATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
** * * * *
51961884 TTTATTTGACTAGTGC-AGG-GCACATCTACTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* *
51961919 TTTA-CCTGACTAGTGCTGGGCGCAAATTTTTATCGA
1 TTTATCC-GACTAGTGCTGGGCGCAAATCTTTGTCGA
51961955 TTTAT
1 TTTAT
51961960 TTAACTAGTG
Statistics
Matches: 235, Mismatches: 78, Indels: 35
0.68 0.22 0.10
Matches are distributed among these distances:
34 12 0.05
35 60 0.26
36 95 0.40
37 41 0.17
38 2 0.01
39 2 0.01
40 23 0.10
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (36 bp):
TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
Found at i:51961858 original size:35 final size:35
Alignment explanation
Indices: 51961819--51961933 Score: 88
Period size: 35 Copynumber: 3.3 Consensus size: 35
51961809 TCGATTTATT
51961819 CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
1 CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
* * ** * * **
51961854 CGACTAGCGCTAGGCACAAAT-ATTTATCGATTTATT
1 CGACTAGTG-TAGG-ACACATCAACTGTCGGTTTACC
* * * *
51961890 TGACTAGTGCAGGGCACATCTACTGTCGGTTTACC
1 CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
*
51961925 TGACTAGTG
1 CGACTAGTG
51961934 CTGGGCGCAA
Statistics
Matches: 57, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
34 4 0.07
35 28 0.49
36 20 0.35
37 5 0.09
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (35 bp):
CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
Found at i:51961886 original size:71 final size:72
Alignment explanation
Indices: 51961701--51962003 Score: 308
Period size: 71 Copynumber: 4.2 Consensus size: 72
51961691 CTACTATTGA
* * * *
51961701 TTTATCCGATTAGCGCTGGGCACAAATCTTTGTCTG-TTAATTCGACTAGTGCTAGGCACACATT
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATC-GATTTATTCGACTAGTGCTAGG-ACACA-T
* * * *
51961765 TAATATCATCGA
63 CAA-CT-GTCGG
* * * *
51961777 TTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGATTTATTCGACTAGTG-TAGGACACATCAA
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
51961841 CTGTCGG
66 CTGTCGG
* * * * *
51961848 TTTACCCGACTAGCGCTAGGCACAAATATTTATCGATTTATTTGACTAGTGC-AGGGCACATCTA
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
51961912 CTGTCGG
66 CTGTCGG
* * * * ** * *
51961919 TTTACCTGACTAGTGCTGGGCGCAAATTTTTATCGATTTATTTAACTAGTGCAAGG-CACATCTA
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
51961983 CTGTCGG
66 CTGTCGG
51961990 TTTACCCGACTAGC
1 TTTACCCGACTAGC
51962004 ACTAAGCACA
Statistics
Matches: 199, Mismatches: 25, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
71 137 0.69
72 4 0.02
73 3 0.02
74 5 0.03
75 5 0.03
76 45 0.23
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (72 bp):
TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
CTGTCGG
Found at i:51962874 original size:22 final size:21
Alignment explanation
Indices: 51962829--51962874 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
51962819 ATTGACATAT
*
51962829 TTTGAGTTGTTTTAAAGTGTA
1 TTTGAGTTGTTTTAAAATGTA
51962850 TTTGATGTTGTTTATAAAATG-A
1 TTTGA-GTTGTTT-TAAAATGTA
51962872 TTT
1 TTT
51962875 TAGGCTTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 11 0.50
23 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTGAGTTGTTTTAAAATGTA
Found at i:51966792 original size:19 final size:18
Alignment explanation
Indices: 51966787--51966832 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
51966777 ATATTTATTC
51966787 TTTTTATAAATTTTATATA
1 TTTTTA-AAATTTTATATA
*
51966806 TTTTTAAATAATTT-TA-A
1 TTTTTAAA-ATTTTATATA
51966823 TTTTTAAAAT
1 TTTTTAAAAT
51966833 GGTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 9 0.38
18 4 0.17
19 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAAAATTTTATATA
Found at i:51967234 original size:63 final size:63
Alignment explanation
Indices: 51967156--51967282 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
51967146 ATTAGATTCA
51967156 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
1 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
*
51967219 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATTTAAATACCTTT
1 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
51967282 T
1 T
51967283 ATTTAAGTCT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (63 bp):
TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
Found at i:51970196 original size:29 final size:28
Alignment explanation
Indices: 51970150--51970207 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
51970140 CTGAACATAT
51970150 TATGTTATAAAAATATTATATTAATTATA
1 TATGTTATAAAAATATTATA-TAATTATA
* *
51970179 TATGTTA-AATAATAATTATATATTTATA
1 TATGTTATAAAAAT-ATTATATAATTATA
51970207 T
1 T
51970208 TTATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TATGTTATAAAAATATTATATAATTATA
Found at i:51970406 original size:38 final size:38
Alignment explanation
Indices: 51970325--51970405 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
51970315 TATTTAATGC
* *
51970325 AATAAAATATTTATTATATTTATTTGTGTTTTTAATAT
1 AATAAAATATTTATTATATTTATTAGTATTTTTAATAT
51970363 AATAAAATATTTATTATATTTATGGTAGTATTTTTTAATAT
1 AATAAAATATTTATTATATTTAT--TAGTA-TTTTTAATAT
51970404 AA
1 AA
51970406 ATACTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 23 0.61
40 3 0.08
41 12 0.32
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (38 bp):
AATAAAATATTTATTATATTTATTAGTATTTTTAATAT
Found at i:51971903 original size:7 final size:7
Alignment explanation
Indices: 51971893--51971923 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
51971883 AAATTTATAA
51971893 AAATATT
1 AAATATT
51971900 AAATATT
1 AAATATT
51971907 AAATATT
1 AAATATT
51971914 AAATATT
1 AAATATT
51971921 AAA
1 AAA
51971924 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:51971917 original size:21 final size:20
Alignment explanation
Indices: 51971893--51971931 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
51971883 AAATTTATAA
*
51971893 AAATATTAAATATTAAATATT
1 AAATATTAAA-ATAAAATATT
51971914 AAATATTAAAATAAAATA
1 AAATATTAAAATAAAATA
51971932 AAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATTAAAATAAAATATT
Found at i:51972525 original size:21 final size:21
Alignment explanation
Indices: 51972499--51972541 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51972489 ACAACTCAAA
* *
51972499 ATTATTATTATTGTTGGTAAT
1 ATTATTACTATTGTTGATAAT
*
51972520 ATTATTACTGTTGTTGATAAT
1 ATTATTACTATTGTTGATAAT
51972541 A
1 A
51972542 ATAATATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.53
Consensus pattern (21 bp):
ATTATTACTATTGTTGATAAT
Found at i:51972552 original size:21 final size:21
Alignment explanation
Indices: 51972504--51972552 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
51972494 TCAAAATTAT
* * * *
51972504 TATTATTGTTGGTAATATTAT
1 TATTGTTGTTGATAATAATAA
*
51972525 TACTGTTGTTGATAATAATAA
1 TATTGTTGTTGATAATAATAA
51972546 TATTGTT
1 TATTGTT
51972553 ATTAGTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (21 bp):
TATTGTTGTTGATAATAATAA
Found at i:51973421 original size:33 final size:33
Alignment explanation
Indices: 51973359--51973427 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
51973349 ACAGCAAATT
* *
51973359 TAAACCATATTTATGAGTGTATATATATATATA
1 TAAACCATATTTATGAATGTATATATATATAAA
* *
51973392 TAAACCATATTTAT-AATTTATAATTTATATAAA
1 TAAACCATATTTATGAATGTAT-ATATATATAAA
51973425 TAA
1 TAA
51973428 GAGACAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (33 bp):
TAAACCATATTTATGAATGTATATATATATAAA
Found at i:51985582 original size:13 final size:13
Alignment explanation
Indices: 51985566--51985591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51985556 ACTCTAAAAA
51985566 TTAAAATATATAT
1 TTAAAATATATAT
51985579 TTAAAATATATAT
1 TTAAAATATATAT
51985592 ATTTTTAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAAATATATAT
Found at i:51992897 original size:18 final size:19
Alignment explanation
Indices: 51992858--51992897 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
51992848 TTCAACAATG
* *
51992858 ACAATATCTAAAATCTTGA
1 ACAATATCTAAAAACTTCA
51992877 ACAATA-CTAAAAACTTCA
1 ACAATATCTAAAAACTTCA
51992895 ACA
1 ACA
51992898 TGAGCCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.25
Consensus pattern (19 bp):
ACAATATCTAAAAACTTCA
Found at i:51995293 original size:3 final size:3
Alignment explanation
Indices: 51995285--51995319 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
51995275 TAAATCTTTA
* *
51995285 AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
51995320 AGAATCGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:51998378 original size:41 final size:41
Alignment explanation
Indices: 51998329--51998437 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
51998319 GACTTTAAGT
*
51998329 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
51998370 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
51998411 CTAGCAGGCCAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
51998438 TTTAAATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:51999964 original size:25 final size:25
Alignment explanation
Indices: 51999935--51999983 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
51999925 ATATAGTTTT
*
51999935 TATATTA-ATTATAAATGTTATAATA
1 TATATTATATTAT-AATATTATAATA
51999960 TATATTATATTATAATATTATAAT
1 TATATTATATTATAATATTATAAT
51999984 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTATATTATAATATTATAATA
Found at i:52001666 original size:41 final size:41
Alignment explanation
Indices: 52001603--52001727 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 41
52001593 ACTAATCTGA
* * *
52001603 TTTATTGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGC
1 TTTA-TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
*
52001645 TTTATGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
* * * * * *
52001686 TTAATGCCGGTGATACATTTCGGACTATAAGTCTAGCAGGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
52001727 T
1 T
52001728 AAAAGCCGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 68 0.94
42 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
Found at i:52004390 original size:24 final size:25
Alignment explanation
Indices: 52004353--52004447 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 25
52004343 TATATGGCTA
* *
52004353 TTTGGTGCTTCCCGTTA-AGTGCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
*
52004377 TTTGGAGCTACCCGTTA-ATTGCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
*
52004401 TTCGGAG--ACCCGTTATAG-GCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
* *
52004423 TTTGTGAGATTCCCGTTATAGTGCT
1 TTTG-GAGCTACCCGTTATAGTGCT
52004448 TGAGAGAGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.25
23 4 0.07
24 27 0.46
25 10 0.17
26 3 0.05
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (25 bp):
TTTGGAGCTACCCGTTATAGTGCTC
Found at i:52005849 original size:7 final size:6
Alignment explanation
Indices: 52005806--52005856 Score: 75
Period size: 6 Copynumber: 8.2 Consensus size: 6
52005796 TGGTTTTCTC
*
52005806 AAAATG AAAATG GAAATG AAAATG AAAATG AAAATG AGAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A-AAATG
52005856 A
1 A
52005857 TTCATTTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
6 29 0.69
7 13 0.31
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:52011607 original size:19 final size:19
Alignment explanation
Indices: 52011585--52011628 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
52011575 GAAAAATGAG
52011585 TTTGAGAAAAAAAATTAAA
1 TTTGAGAAAAAAAATTAAA
** *
52011604 TTTGTTTAAAAAAAATTAAG
1 TTTG-AGAAAAAAAATTAAA
52011624 TTTGA
1 TTTGA
52011629 ATGTAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTTGAGAAAAAAAATTAAA
Found at i:52021467 original size:126 final size:126
Alignment explanation
Indices: 52021160--52021611 Score: 737
Period size: 126 Copynumber: 3.6 Consensus size: 126
52021150 TTTTTAAGAT
*
52021160 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
52021225 GCTATAGTTGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTAT-AAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
* * *
52021285 AACGCTTCTAGCAGGATGCATTATGAGAACAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
52021350 GCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
* * * * *
52021411 AACGCTTCTACCAGGATGCGTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACTCACTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
*
52021476 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
* *
52021537 AACGCTTCCT-GCAGGGTGCTTTATGAAAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTT
1 AACGCTT-CTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTT
52021601 TGCTACAGTAG
65 TGCTACAGTAG
52021612 CATGTTCGGG
Statistics
Matches: 300, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 114 0.38
126 184 0.61
127 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (126 bp):
AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
Found at i:52024677 original size:45 final size:46
Alignment explanation
Indices: 52024613--52024937 Score: 229
Period size: 53 Copynumber: 6.3 Consensus size: 46
52024603 TATTTTTTTC
* *
52024613 AATTATTAATTGATAATTGTATTGATGGTTAG-TCAAATTATATCT
1 AATTATTAATTGATAATTGTATTAATGGTTAGATCAAATTATATCA
*
52024658 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTATAAATTATATCA
1 AATTATTAATTGATAATTGTATTAATGGTTAG----A--T-CAAATTATATCA
* * * *
52024711 AATTATTAATTGATCATTGTAGTAATTGTTAGTAAAATTATCAAATTATATCT
1 AATTATTAATTGATAATTGTATTAATGGTTAG-------ATCAAATTATATCA
52024764 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCA
1 AATTATTAATTGATAATTGTATTAATGGTTAG----A--T-CAAATTATATCA
*
52024817 AATTATTAATTGATAATTGTAGTAATGGTTAGTAAAATTATCAAATTATATCA
1 AATTATTAATTGATAATTGTATTAATGGTTAG-------ATCAAATTATATCA
* **
52024870 AATTATTAGTTGATAATTGTATTAATATTTAGTAAAATTGTCAAATTATATCA
1 AATTATTAATTGATAATTGTATTAATGGTTAG----A---TCAAATTATATCA
52024923 AATTATTAATTGATA
1 AATTATTAATTGATA
52024938 GTACCGGTCA
Statistics
Matches: 230, Mismatches: 30, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
45 31 0.13
50 4 0.02
52 2 0.01
53 187 0.81
54 2 0.01
56 4 0.02
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.45
Consensus pattern (46 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGATCAAATTATATCA
Found at i:52024709 original size:53 final size:53
Alignment explanation
Indices: 52024647--52024937 Score: 435
Period size: 53 Copynumber: 5.5 Consensus size: 53
52024637 ATGGTTAGTC
*
52024647 AAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAT
1 AAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAT
* * *
52024700 AAATTATATCAAATTATTAATTGATCATTGTAGTAATTGTTAGTAAAA-TTAT
1 AAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAT
* *
52024752 CAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAC
1 -AAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAT
*
52024806 AAATTATATCAAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAA-TTAT
1 AAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAT
* ** *
52024858 CAAATTATATCAAATTATTAGTTGATAATTGTATTAATATTTAGTAAAATTGT-C
1 -AAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATT-TAT
52024912 AAATTATATCAAATTATTAATTGATA
1 AAATTATATCAAATTATTAATTGATA
52024938 GTACCGGTCA
Statistics
Matches: 215, Mismatches: 18, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
52 7 0.03
53 203 0.94
54 4 0.02
55 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (53 bp):
AAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTAT
Found at i:52024788 original size:106 final size:106
Alignment explanation
Indices: 52024645--52024937 Score: 507
Period size: 106 Copynumber: 2.8 Consensus size: 106
52024635 TGATGGTTAG
*
52024645 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTATAAATTATATC
1 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATC
* *
52024710 AAATTATTAATTGATCATTGTAGTAATTGTTAGTAAAATTA
66 AAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAATTA
52024751 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATC
1 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATC
52024816 AAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAATTA
66 AAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAATTA
* * **
52024857 TCAAATTATATCAAATTATTAGTTGATAATTGTATTAATATTTAGTAAAATTGT-CAAATTATAT
1 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATT-TACAAATTATAT
52024921 CAAATTATTAATTGATA
65 CAAATTATTAATTGATA
52024938 GTACCGGTCA
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
106 178 0.99
107 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (106 bp):
TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATC
AAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAATTA
Found at i:52024848 original size:159 final size:151
Alignment explanation
Indices: 52024613--52024937 Score: 474
Period size: 159 Copynumber: 2.1 Consensus size: 151
52024603 TATTTTTTTC
* *
52024613 AATTATTAATTGATAATTGTATTGATGGTTAGTCAAATTATATCTAATTATTAATTGATAATTGT
1 AATTATTAATTGATAATTGTATTAATGGTTAGTCAAATTATATCAAATTATTAATTGATAATTGT
* *
52024678 ATTAATGGTTAGTAAAATTTAT-AAATTATATCAAATTATTAATTGATCATTGTAGTAAT-TGTT
66 AGTAATGGTTAGTAAAA-TTATCAAATTATATCAAATTATTAATTGATAATTGTAGTAATAT-TT
*
52024741 AGTAAAATTATCAAATTATATCT
129 AGTAAAATTATCAAATTATATCA
52024764 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAG-------T-CAAATTATATCAAATTATTAATTG
* *
52024829 ATAATTGTAGTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAGTTGATAATTGTATTA
58 ATAATTGTAGTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGATAATTGTAGTA
*
52024894 ATATTTAGTAAAATTGTCAAATTATATCA
123 ATATTTAGTAAAATTATCAAATTATATCA
52024923 AATTATTAATTGATA
1 AATTATTAATTGATA
52024938 GTACCGGTCA
Statistics
Matches: 156, Mismatches: 8, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
151 31 0.20
158 5 0.03
159 119 0.76
160 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.45
Consensus pattern (151 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGTCAAATTATATCAAATTATTAATTGATAATTGT
AGTAATGGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGATAATTGTAGTAATATTTAG
TAAAATTATCAAATTATATCA
Found at i:52025111 original size:22 final size:22
Alignment explanation
Indices: 52025040--52025112 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
52025030 TATATTTAAG
* *
52025040 TTAAGGGTTAGAGTTTTTAGGT
1 TTAAGGTTTAGAGGTTTTAGGT
* *
52025062 TTAGGGTTTA-AGGTTTTATAGT
1 TTAAGGTTTAGAGGTTTTA-GGT
* *
52025084 TAAAGGTTTAGGGGTTTTAGGT
1 TTAAGGTTTAGAGGTTTTAGGT
52025106 TTAAGGT
1 TTAAGGT
52025113 CAAGGTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 7 0.17
22 26 0.65
23 7 0.17
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (22 bp):
TTAAGGTTTAGAGGTTTTAGGT
Found at i:52025158 original size:22 final size:22
Alignment explanation
Indices: 52025034--52025296 Score: 69
Period size: 22 Copynumber: 11.9 Consensus size: 22
52025024 TCAAATTATA
* *
52025034 TTTAAGTTAAG-GGTTAGAGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * * *
52025055 TTTAGGTTTAGGGTTTAAGG-T
1 TTTAAGTTAAGAGTTTAGGGTT
*
52025076 TTTATAGTTAA-AGGTTTAGGGGT
1 TTTA-AGTTAAGA-GTTTAGGGTT
* ** *
52025099 TTTAGGTTTAAG-GTCAAGGTTT
1 TTTAAG-TTAAGAGTTTAGGGTT
** *
52025121 TTTATTTTATGA-TTTAGGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
*
52025142 TTTAAGTTAAGAGTTTAGAATTTAGGGT
1 TTTAAGTTAAGAGTTTAG------GGTT
* * * *
52025170 TTAAAATTTAGAATTT-GGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * * *
52025191 TTTAGGTTTAG-GATTAGTGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * *
52025212 TTTAATTTAAAAG-TTCGGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * *
52025233 TTAAAAGTTTAGGGTTTAGGGTT
1 TT-TAAGTTAAGAGTTTAGGGTT
* *
52025256 TTTTAGTTAA-AGGTTTATGGTT
1 TTTAAGTTAAGA-GTTTAGGGTT
52025278 TTTAAGTTTAA-AGTTTAGG
1 TTTAAG-TTAAGAGTTTAGG
52025297 ATTTAGAGTT
Statistics
Matches: 168, Mismatches: 54, Indels: 39
0.64 0.21 0.15
Matches are distributed among these distances:
20 2 0.01
21 63 0.38
22 64 0.38
23 23 0.14
27 1 0.01
28 15 0.09
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (22 bp):
TTTAAGTTAAGAGTTTAGGGTT
Found at i:52025200 original size:21 final size:21
Alignment explanation
Indices: 52025153--52025263 Score: 64
Period size: 21 Copynumber: 5.2 Consensus size: 21
52025143 TTAAGTTAAG
*
52025153 AGTTTAGAATTTAGGG-TTTAA
1 AGTTTAGAATTT-GGGTTTTTA
*
52025174 AATTTAGAATTTGGGTTTTTA
1 AGTTTAGAATTTGGGTTTTTA
* * * *
52025195 GGTTTAGGATTAGTGTTTTTA
1 AGTTTAGAATTTGGGTTTTTA
* * *
52025216 A-TTTAAAAGTTCGGGTTTTAAA
1 AGTTTAGAA-TTTGGGTTTT-TA
** *
52025238 AGTTTAGGGTTTAGGGTTTTTT
1 AGTTTAGAATTT-GGGTTTTTA
52025260 AGTT
1 AGTT
52025264 AAAGGTTTAT
Statistics
Matches: 66, Mismatches: 19, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
20 8 0.12
21 39 0.59
22 8 0.12
23 11 0.17
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (21 bp):
AGTTTAGAATTTGGGTTTTTA
Found at i:52025348 original size:21 final size:21
Alignment explanation
Indices: 52025324--52025604 Score: 114
Period size: 21 Copynumber: 13.4 Consensus size: 21
52025314 TTAGGTTGAG
52025324 GGTTTAAGGTTTTTAGTTTAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
52025345 GGTTTAGGGTTTTTA-ATTAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
52025365 GGGTTAAGGGTTTTAAGTTT-A
1 GGTTTAA-GGTTTTTAGTTTAA
* * *
52025386 GGGTT-AGTTTTTTTAATTTAA
1 GGTTTAAG-GTTTTTAGTTTAA
* * * *
52025407 GGGTTAGGGTTTTAAGTGTTTCA
1 GGTTTAAGGTTTTTA--GTTTAA
* * *
52025430 GATTTAGGGTTTTTAGTTAAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
52025451 GGTTTATGATTTTTAGGTTTAA
1 GGTTTAAGGTTTTTA-GTTTAA
* *
52025473 AGTTTTAGG-----A-TTTAA
1 GGTTTAAGGTTTTTAGTTTAA
* * *** * *
52025488 GGTTTATGTTTTCAGGATAAGA
1 GGTTTAAGGTTTTTAGTTTA-A
* *
52025510 GG-TTAGGGTTTTTTAGTTTAT
1 GGTTTAAGG-TTTTTAGTTTAA
* *
52025531 GGTTTAGGGTTTTTAGGTTAA
1 GGTTTAAGGTTTTTAGTTTAA
*
52025552 GAGTTTAAAGTTTTTAGTTTAA
1 G-GTTTAAGGTTTTTAGTTTAA
*
52025574 GGGTTTATGGTTTTTAAGTTTAA
1 -GGTTTAAGGTTTTT-AGTTTAA
*
52025597 GATTTAAG
1 GGTTTAAG
52025605 ATTTATAATT
Statistics
Matches: 189, Mismatches: 51, Indels: 39
0.68 0.18 0.14
Matches are distributed among these distances:
15 10 0.05
17 1 0.01
19 1 0.01
20 18 0.10
21 73 0.39
22 62 0.33
23 24 0.13
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (21 bp):
GGTTTAAGGTTTTTAGTTTAA
Found at i:52025356 original size:14 final size:14
Alignment explanation
Indices: 52025283--52025356 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
52025273 TGGTTTTTAA
*
52025283 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGG
* *
52025297 ATTT-AGAGTTTATG
1 GTTTAAG-GTTTAGG
* * *
52025311 ATTTTAGGTTGAGG
1 GTTTAAGGTTTAGG
***
52025325 GTTTAAGGTTTTTA
1 GTTTAAGGTTTAGG
52025339 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
52025353 GTTT
1 GTTT
52025357 TTAATTAAGG
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
13 1 0.02
14 41 0.93
15 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:52025399 original size:41 final size:43
Alignment explanation
Indices: 52025322--52025423 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 43
52025312 TTTTAGGTTG
* *
52025322 AGGGTTTAA-GGTTTTTAGTTTAAGGTTTAGGGTTTTTAA-TTA
1 AGGG-TTAAGGGTTTTAAGTTTAAGGGTTAGGGTTTTTAATTTA
**
52025364 AGGGTTAAGGGTTTTAAGTTT-AGGGTTAGTTTTTTTAATTTA
1 AGGGTTAAGGGTTTTAAGTTTAAGGGTTAGGGTTTTTAATTTA
52025406 AGGGTT-AGGGTTTTAAGT
1 AGGGTTAAGGGTTTTAAGT
52025424 GTTTCAGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 30 0.56
42 24 0.44
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (43 bp):
AGGGTTAAGGGTTTTAAGTTTAAGGGTTAGGGTTTTTAATTTA
Found at i:52025419 original size:185 final size:186
Alignment explanation
Indices: 52025190--52025545 Score: 490
Period size: 185 Copynumber: 1.9 Consensus size: 186
52025180 GAATTTGGGT
* * *
52025190 TTTTAGGTTTAGGATTAGTGTTTTTAATTTAAAAGTTCGGGTTTTAAAAGTTT-AGGGTTTAGGG
1 TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGGGTTTTAAAAGTTTCA-GATTTAGGG
*
52025254 TTTTTTAGTTAAAGGTTTATGGTTTTTAAGTTTAAAG-TTTAGGATTT-AGAGTTTATGATTTT-
65 -TTTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGGATTTAAG-GTTTATG-TTTTC
* *
52025316 AGGTTGAG-GGTTTAAGG-TTTTTAGTTTAAGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
127 AGGATAAGAGG-TTAAGGTTTTTTAGTTTAAGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
* * ** **
52025375 TTTTAAGTTTAGGGTTAGTTTTTTTAATTTAAGGGTTAGGGTTTTAAGTGTTTCAGATTTAGGGT
1 TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGGGTTTTAAAAGTTTCAGATTTAGGGT
*
52025440 TTTTAGTTAAAGGTTTATGATTTTTAGGTTTAAAGTTTTAGGATTTAAGGTTTATGTTTTCAGGA
66 TTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGGATTTAAGGTTTATGTTTTCAGGA
* *
52025505 TAAGAGGTTAGGGTTTTTTAGTTTATGGTTTAGGGTTTTTA
131 TAAGAGGTTAAGGTTTTTTAGTTTAAGGTTTAGGGTTTTTA
52025546 GGTTAAGAGT
Statistics
Matches: 150, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
184 38 0.25
185 81 0.54
186 31 0.21
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (186 bp):
TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGGGTTTTAAAAGTTTCAGATTTAGGGT
TTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGGATTTAAGGTTTATGTTTTCAGGA
TAAGAGGTTAAGGTTTTTTAGTTTAAGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
Found at i:52025537 original size:22 final size:21
Alignment explanation
Indices: 52025512--52025629 Score: 92
Period size: 22 Copynumber: 5.4 Consensus size: 21
52025502 GGATAAGAGG
*
52025512 TTAGGGTTTTTTAGTTTATGGT
1 TTAGGG-TTTTTAGTTTAAGGT
*
52025534 TTAGGGTTTTTAGGTTAAGAGT
1 TTAGGGTTTTTAGTTTAAG-GT
**
52025556 TTAAAGTTTTTAGTTTAAGGGT
1 TTAGGGTTTTTAGTTTAA-GGT
* *
52025578 TTATGGTTTTTAAGTTTAAGAT
1 TTAGGGTTTTT-AGTTTAAGGT
* * * * *
52025600 TTAAGATTTATAATTTTAGGT
1 TTAGGGTTTTTAGTTTAAGGT
*
52025621 TAAGGGTTT
1 TTAGGGTTT
52025630 AGGTTTTTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
21 24 0.32
22 44 0.58
23 8 0.11
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.52
Consensus pattern (21 bp):
TTAGGGTTTTTAGTTTAAGGT
Found at i:52025603 original size:44 final size:43
Alignment explanation
Indices: 52025467--52025603 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 43
52025457 TGATTTTTAG
* * * *
52025467 GTTTAAAG-TTTTAGGATTTAAGGTTTA-TGTTTTCAGGATAAGA
1 GTTTAAAGTTTTTA-G-TTTAGGGTTTAGGGTTTTTAGGTTAAGA
* ** *
52025510 GGTTAGGGTTTTTTAGTTTATGGTTTAGGGTTTTTAGGTTAAGA
1 GTTTAAAG-TTTTTAGTTTAGGGTTTAGGGTTTTTAGGTTAAGA
* *
52025554 GTTTAAAGTTTTTAGTTTAAGGGTTTATGGTTTTTAAGTTTAAGA
1 GTTTAAAGTTTTTAGTTT-AGGGTTTAGGGTTTTT-AGGTTAAGA
52025599 -TTTAA
1 GTTTAA
52025604 GATTTATAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
43 25 0.33
44 38 0.50
45 13 0.17
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (43 bp):
GTTTAAAGTTTTTAGTTTAGGGTTTAGGGTTTTTAGGTTAAGA
Found at i:52025624 original size:50 final size:50
Alignment explanation
Indices: 52025563--52025658 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
52025553 AGTTTAAAGT
*
52025563 TTTTAGTTTAAGGGTTTATGG-TTTTTAAGTTTAAGATTTAAGATTTATAA
1 TTTTAGGTTAAGGGTTTA-GGTTTTTTAAGTTTAAGATTTAAGATTTATAA
* * *
52025613 TTTTAGGTTAAGGGTTTAGGTTTTTTTAGTTTATGATTTAGGATTT
1 TTTTAGGTTAAGGGTTTAGGTTTTTTAAGTTTAAGATTTAAGATTT
52025659 TTAAGTTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (50 bp):
TTTTAGGTTAAGGGTTTAGGTTTTTTAAGTTTAAGATTTAAGATTTATAA
Found at i:52025638 original size:22 final size:21
Alignment explanation
Indices: 52025613--52025689 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
52025603 AGATTTATAA
52025613 TTTTAGGTTAAGGGTTTAGGTTT
1 TTTTA-GTTAAGGGTTTAGG-TT
* * *
52025636 TTTTAGTTTATGATTTAGGATT
1 TTTTAGTTAAGGGTTTAGG-TT
* * *
52025658 TTTAAGTTAAGAGTTTCGGTTT
1 TTTTAGTTAAGGGTTTAGG-TT
52025680 TTTTAGTTAA
1 TTTTAGTTAA
52025690 AAGTTAGGGG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 37 0.88
23 5 0.12
ACGTcount: A:0.22, C:0.01, G:0.22, T:0.55
Consensus pattern (21 bp):
TTTTAGTTAAGGGTTTAGGTT
Found at i:52025753 original size:15 final size:16
Alignment explanation
Indices: 52025733--52025765 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52025723 GTGTTTTTAA
52025733 TTTAAG-GGTTAGGGT
1 TTTAAGAGGTTAGGGT
*
52025748 TTTAAGAGTTTAGGGT
1 TTTAAGAGGTTAGGGT
52025764 TT
1 TT
52025766 ATAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (16 bp):
TTTAAGAGGTTAGGGT
Found at i:52025789 original size:37 final size:35
Alignment explanation
Indices: 52025748--52025819 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 35
52025738 GGGTTAGGGT
*
52025748 TTTAAGAG-TTTAGGGTTTATAATTTTTAGGTTTAAGG
1 TTTAAG-GTTTTAGGGTTTAT-ATTTTTAAG-TTAAGG
52025785 TTTAAGGTTTTAGGGTTTATATTTTTAAGTTAAGG
1 TTTAAGGTTTTAGGGTTTATATTTTTAAGTTAAGG
52025820 AATAAAACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 6 0.18
36 9 0.27
37 18 0.55
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (35 bp):
TTTAAGGTTTTAGGGTTTATATTTTTAAGTTAAGG
Found at i:52025796 original size:15 final size:15
Alignment explanation
Indices: 52025733--52025803 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
52025723 GTGTTTTTAA
* *
52025733 TTTAAGGGTTAGGGT
1 TTTAAGGTTTAAGGT
*
52025748 TTTAAGAGTTTAGGGT
1 TTTAAG-GTTTAAGGT
* *
52025764 TTATAA-TTTTTAGG-
1 TT-TAAGGTTTAAGGT
52025778 TTTAAGGTTTAAGGT
1 TTTAAGGTTTAAGGT
*
52025793 TTTAGGGTTTA
1 TTTAAGGTTTA
52025804 TATTTTTAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
13 3 0.07
14 8 0.18
15 21 0.47
16 10 0.22
17 3 0.07
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTAAGGT
Found at i:52033198 original size:17 final size:18
Alignment explanation
Indices: 52033171--52033204 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52033161 GACTAAATTG
52033171 ATCTAATATAAAAACTAA
1 ATCTAATATAAAAACTAA
*
52033189 ATCT-ATATAAGAACTA
1 ATCTAATATAAAAACTA
52033205 TTACAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (18 bp):
ATCTAATATAAAAACTAA
Found at i:52048137 original size:13 final size:13
Alignment explanation
Indices: 52048121--52048147 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52048111 ACATAAGTGC
52048121 TTTATTTATTTTA
1 TTTATTTATTTTA
52048134 TTTATTTATTTTA
1 TTTATTTATTTTA
52048147 T
1 T
52048148 ATTGTTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:52060319 original size:44 final size:46
Alignment explanation
Indices: 52060205--52060319 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
52060195 ATACAGGTCT
* * *
52060205 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
52060251 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
52060295 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
52060320 GGATTATAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 25 0.42
45 3 0.05
46 32 0.53
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:52060378 original size:41 final size:41
Alignment explanation
Indices: 52060331--52060705 Score: 216
Period size: 41 Copynumber: 8.7 Consensus size: 41
52060321 GATTATAGGA
* *
52060331 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
* * *
52060372 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATC---GAA-T-CAGG
* * * * **
52060418 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCG-A-ATCA-GG
* * ** ** *
52060461 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAATAAAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGA-T-CGAAT-CAGG
* *
52060505 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
* * *
52060547 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATC---GAA-T-CAGG
* ** ** *
52060593 TCTTATC-CCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATC--AGG
* * * *
52060635 ATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
* **
52060677 AT-TTATCTCCCTGTGGTTACAGTGGAGTA
1 -TCTTATCTCTCTGAAGTTACAGTGGAGTA
52060706 CATTGAAGCC
Statistics
Matches: 255, Mismatches: 57, Indels: 44
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.00
41 81 0.32
42 13 0.05
43 40 0.16
44 29 0.11
45 49 0.19
46 42 0.16
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
Found at i:52060422 original size:46 final size:45
Alignment explanation
Indices: 52060329--52060618 Score: 246
Period size: 41 Copynumber: 6.6 Consensus size: 45
52060319 CGGATTATAG
* *
52060329 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
* * *
52060370 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATT-CA
* * * *
52060416 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAAT-TCA
* * ** * * **
52060460 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAAATAAA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
* *
52060503 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 -GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
* * *
52060545 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATT-CA
*
52060591 GATCTTATC-CCCTGAAGTTACAGTGGAG
1 GATCTTATCTCTCTGAAGTTACAGTGGAG
52060619 CGGATTAAAA
Statistics
Matches: 199, Mismatches: 34, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
41 62 0.31
42 3 0.02
43 33 0.17
44 5 0.03
45 49 0.25
46 47 0.24
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
Found at i:52060521 original size:45 final size:44
Alignment explanation
Indices: 52060416--52060650 Score: 160
Period size: 43 Copynumber: 5.4 Consensus size: 44
52060406 AAGAATTGCA
* * * * *
52060416 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAAAATAAAG
* *
52060460 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATAAAG
* * * *** *
52060504 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-CAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG
* * * ** **
52060546 G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAAAG
* *
52060591 GATCTTATC-CCCTGAAGTTACAGTGGAGCGGATTAAAACAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG
*
52060634 GATCTTATCTCTCTGAA
1 GATCTTATCTCCCTGAA
52060651 ATTATAGTAG
Statistics
Matches: 148, Mismatches: 32, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
41 29 0.20
42 4 0.03
43 48 0.32
44 10 0.07
45 48 0.32
46 9 0.06
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG
Found at i:52060554 original size:175 final size:170
Alignment explanation
Indices: 52060198--52060619 Score: 652
Period size: 175 Copynumber: 2.5 Consensus size: 170
52060188 GTTCATAATA
* * ** * *
52060198 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
* *
52060263 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTATA
66 GTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTATA
52060328 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
52060368 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
* *
52060433 GTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAA
66 GTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGATT--
52060496 AAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
128 --AT--AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
52060543 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATC-CCCTGAA
1 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
*
52060607 GTTACAGTGGAGC
66 GTTACAGCGGAGC
52060620 GGATTAAAAC
Statistics
Matches: 233, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
168 1 0.00
169 32 0.14
170 82 0.35
173 2 0.01
174 18 0.08
175 98 0.42
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (170 bp):
CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
GTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTATA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:52060663 original size:130 final size:130
Alignment explanation
Indices: 52060416--52060705 Score: 428
Period size: 130 Copynumber: 2.2 Consensus size: 130
52060406 AAGAATTGCA
* * *
52060416 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATATAATCCTATCTCCCTGAAGTTAC
* *
52060481 AGTGGAGCGGATTAAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 AGTGGAGCGGATTAAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
* *
52060546 G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATC-CCCTGAAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATA-T--A-ATCCTATCTCCCTGAAG
*
52060608 TTACAGTGGAGCGGATT-AAAACAAAGGATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCA
62 TTACAGTGGAGCGGATTAAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA
52060672 TCAG
127 TCAG
*
52060676 GAT-TTATCTCCCTGTGGTTACAGTGGAGTA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTA
52060706 CATTGAAGCC
Statistics
Matches: 145, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
128 1 0.01
129 35 0.24
130 75 0.52
131 27 0.19
132 7 0.05
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (130 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATATAATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
Found at i:52062811 original size:5 final size:5
Alignment explanation
Indices: 52062797--52062825 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
52062787 ACATAAGTGC
52062797 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
52062826 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:52065967 original size:15 final size:16
Alignment explanation
Indices: 52065949--52065978 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52065939 TTTTTCTAAA
52065949 CTCTAATTTT-AATTT
1 CTCTAATTTTCAATTT
52065964 CTCTAATTTTCAATT
1 CTCTAATTTTCAATT
52065979 CAATATTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (16 bp):
CTCTAATTTTCAATTT
Found at i:52078618 original size:3 final size:3
Alignment explanation
Indices: 52078610--52078640 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
52078600 TGTTCTCGAT
52078610 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
52078641 GCTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:52087230 original size:29 final size:29
Alignment explanation
Indices: 52087170--52087241 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
52087160 AAATGGACTT
* ***
52087170 ACACGCCCGTGTGGTCCACACAGCTTTGC
1 ACACGCCCGTGTGGCCCACACAGCTCACC
*
52087199 ACACGTCCGTGTGGCCCACACAGCTCACC
1 ACACGCCCGTGTGGCCCACACAGCTCACC
*
52087228 ACACGCCCATGTGG
1 ACACGCCCGTGTGG
52087242 AATCAGTAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.19, C:0.40, G:0.24, T:0.17
Consensus pattern (29 bp):
ACACGCCCGTGTGGCCCACACAGCTCACC
Found at i:52094478 original size:61 final size:60
Alignment explanation
Indices: 52094382--52094559 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 60
52094372 ATTGCGAGGT
* * *
52094382 CAATGGTGTTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCTGGGC
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCCGAGC
* * *
52094442 ATAATGGTGCTTGGTTGATATGGGCATCATAGAAATGG-TTTCTTGGTTAATAGGCTGCCGAGC
1 -CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTT-GT-G-TAGTAGGCTGCCGAGC
* * *
52094505 CAATGGTGCTTGGTTAAAATGGGCA-CTATACAAATGGTTCTTTGTGTAGTAGGCT
1 CAATGGTGCTTGGTTGATATGGGCATC-ATAGAAATGG--CTTTGTGTAGTAGGCT
52094560 TCACTAAGCA
Statistics
Matches: 98, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
60 3 0.03
61 37 0.38
62 40 0.41
63 14 0.14
64 1 0.01
65 3 0.03
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (60 bp):
CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCCGAGC
Found at i:52094558 original size:62 final size:63
Alignment explanation
Indices: 52094382--52094559 Score: 222
Period size: 61 Copynumber: 2.9 Consensus size: 63
52094372 ATTGCGAGGT
* * *
52094382 CAATGGTGTTTGGTTGATATGGGCATCATAGAAATGG--CTTTGTGTAGTAGGCTGCTGGGCA
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTCTTTGTGTAGTAGGCTGCCGAGCA
* * *
52094443 TAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTTCTTGGT-TAATAGGCTGCCGAGC-
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGG-TTCTTTGTGTAGTAGGCTGCCGAGCA
* * *
52094505 CAATGGTGCTTGGTTAAAATGGGCA-CTATACAAATGGTTCTTTGTGTAGTAGGCT
1 CAATGGTGCTTGGTTGATATGGGCATC-ATAGAAATGGTTCTTTGTGTAGTAGGCT
52094560 TCACTAAGCA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
61 43 0.43
62 39 0.39
63 13 0.13
64 5 0.05
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (63 bp):
CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTCTTTGTGTAGTAGGCTGCCGAGCA
Found at i:52101565 original size:24 final size:24
Alignment explanation
Indices: 52101537--52101585 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
52101527 AGATATGTCA
*
52101537 TCATTGTTTATAATTTTAATTTTT
1 TCATTGTTTATAAATTTAATTTTT
*
52101561 TCATTTTTTATAAATTTAATTTTT
1 TCATTGTTTATAAATTTAATTTTT
52101585 T
1 T
52101586 TTCTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TCATTGTTTATAAATTTAATTTTT
Found at i:52104403 original size:29 final size:29
Alignment explanation
Indices: 52104336--52104415 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
52104326 ATCTCAAATA
* * *
52104336 TATACATGAACTTTGGTCTAATGTTCAATTC
1 TATACATGAACTTTGAT-T-TTGTGCAATTC
*
52104367 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTGCAATTC
52104396 TATACATGAAACTTTGATTT
1 TATACATG-AACTTTGATTT
52104416 AATCCAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.36
30 12 0.27
31 16 0.36
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTGCAATTC
Found at i:52104424 original size:30 final size:29
Alignment explanation
Indices: 52104336--52104426 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
52104326 ATCTCAAATA
* * *
52104336 TATACATGAACTTTGGTCTAATGTTCAATTC
1 TATACATGAACTTTGATTTAA--TCCAATTC
** * *
52104367 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTAATCCAATTC
52104396 TATACATGAAACTTTGATTTAATCCAATTC
1 TATACATG-AACTTTGATTTAATCCAATTC
52104426 T
1 T
52104427 CACAAATTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 14 0.29
30 18 0.37
31 17 0.35
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTAATCCAATTC
Found at i:52105225 original size:14 final size:14
Alignment explanation
Indices: 52105206--52105236 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52105196 TGAATTGTTT
*
52105206 TAATCTAAATTTAC
1 TAATCTAAATTAAC
52105220 TAATCTAAATTAAC
1 TAATCTAAATTAAC
52105234 TAA
1 TAA
52105237 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:52106116 original size:30 final size:30
Alignment explanation
Indices: 52106059--52106116 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
52106049 CACGAGCTGG
* * * *
52106059 CACATGGGCATGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGCCCAGCACATGTGGCT
*
52106089 CACACGGGCGTGTGCCCAGCACATGTGG
1 CACACGGGCATGTGCCCAGCACATGTGG
52106117 AAATGCCCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.17
Consensus pattern (30 bp):
CACACGGGCATGTGCCCAGCACATGTGGCT
Found at i:52107293 original size:7 final size:7
Alignment explanation
Indices: 52107278--52107308 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
52107268 TTAATTTAAA
52107278 ATATA-T
1 ATATATT
52107284 ATATATT
1 ATATATT
52107291 ATATATT
1 ATATATT
52107298 ATATATT
1 ATATATT
52107305 ATAT
1 ATAT
52107309 TATTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATATT
Found at i:52107350 original size:11 final size:11
Alignment explanation
Indices: 52107334--52107362 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
52107324 TAAGTTGTTA
52107334 TATTATATTAT
1 TATTATATTAT
52107345 TATTATATTAT
1 TATTATATTAT
52107356 TA-TATAT
1 TATTATAT
52107363 AAAACAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATATTAT
Found at i:52108458 original size:25 final size:25
Alignment explanation
Indices: 52108430--52108514 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
52108420 GAACTTTAGC
**
52108430 GTGCTCTCTGATTATTAGCACGTTG
1 GTGCTCTCTGATTATTAGCACGTCA
52108455 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
* *
52108480 ATGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
52108505 GTGCTCTCTG
1 GTGCTCTCTG
52108515 TTTAGCACAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTCA
Found at i:52108509 original size:50 final size:47
Alignment explanation
Indices: 52108431--52108560 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 47
52108421 AACTTTAGCG
* ** *
52108431 TGCTCTCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCACGTCAA
1 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTG--T-TTAGCACATCAA
*
52108481 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCTA
1 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCAA
* * *
52108528 TGCTCTCTG--TA-TAGCACTTTACTGCTCTCTGTT
1 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTT
52108561 CATTAGTGCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 19 0.26
45 2 0.03
47 19 0.26
48 1 0.01
50 31 0.43
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (47 bp):
TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCAA
Found at i:52108531 original size:22 final size:23
Alignment explanation
Indices: 52108469--52108560 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 23
52108459 TCTCTGATTA
*
52108469 TTAGCACGTC-AATGCTCTCTGAT
1 TTAGCACGTCTACTGCTCTCTG-T
*
52108492 TACTAGCACGTC-AGTGCTCTCTGT
1 T--TAGCACGTCTACTGCTCTCTGT
*
52108516 TTAGCACATCTA-TGCTCTCTGT
1 TTAGCACGTCTACTGCTCTCTGT
* *
52108538 ATAGCAC-TTTACTGCTCTCTGT
1 TTAGCACGTCTACTGCTCTCTGT
52108560 T
1 T
52108561 CATTAGTGCA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
21 3 0.05
22 34 0.57
23 2 0.03
24 2 0.03
25 19 0.32
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.38
Consensus pattern (23 bp):
TTAGCACGTCTACTGCTCTCTGT
Found at i:52111378 original size:79 final size:79
Alignment explanation
Indices: 52111276--52111498 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
52111266 GCTCCTCGTT
* * *
52111276 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52111341 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
52111356 CAAATGCCTTCGGGCTTAGCCC-GAAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
52111418 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * *
52111434 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
52111497 GA
64 GA
52111499 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 48 0.39
79 53 0.43
80 22 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:52111397 original size:39 final size:40
Alignment explanation
Indices: 52111276--52111498 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
52111266 GCTCCTCGTT
* *
52111276 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52111316 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
52111356 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52111395 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52111434 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52111475 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52111499 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 87 0.53
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52111459 original size:118 final size:119
Alignment explanation
Indices: 52111276--52111496 Score: 285
Period size: 118 Copynumber: 1.9 Consensus size: 119
52111266 GCTCCTCGTT
*
52111276 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
52111341 AT-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
66 ATATT-GTAACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
* **
52111395 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
52111456 CGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCG
63 CGGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCG
52111497 GACATCATTC
Statistics
Matches: 90, Mismatches: 6, Indels: 13
0.83 0.06 0.12
Matches are distributed among these distances:
117 15 0.17
118 54 0.60
119 21 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
Found at i:52114694 original size:13 final size:13
Alignment explanation
Indices: 52114676--52114708 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
52114666 TGGTTATCTA
*
52114676 TATTTTTTGTTTT
1 TATTTTTTATTTT
52114689 TA-TTTTTATTTT
1 TATTTTTTATTTT
52114701 TATTTTTT
1 TATTTTTT
52114709 TATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:52116028 original size:21 final size:23
Alignment explanation
Indices: 52115988--52116029 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
52115978 GGTTATTAGA
52115988 ATTTTACAAATTAAAAAATATTT
1 ATTTTACAAATTAAAAAATATTT
*
52116011 ATTTTA-AAA-TAAATAATAT
1 ATTTTACAAATTAAAAAATAT
52116030 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTACAAATTAAAAAATATTT
Found at i:52122433 original size:30 final size:31
Alignment explanation
Indices: 52122378--52122448 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
52122368 TAGTAAAGTT
52122378 AAAATTAAATTTTAACTTCTCAAAA-TAATA
1 AAAATTAAATTTTAACTTCTCAAAATTAATA
* *
52122408 AAAATTTAATTTTAATCCTT-T-AAAATTTATA
1 AAAATTAAATTTTAA--CTTCTCAAAATTAATA
52122439 AAAATATAAA
1 AAAAT-TAAA
52122449 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 18 0.53
31 10 0.29
32 6 0.18
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (31 bp):
AAAATTAAATTTTAACTTCTCAAAATTAATA
Found at i:52134876 original size:2 final size:2
Alignment explanation
Indices: 52134869--52134893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52134859 TTAATACGTA
52134869 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
52134894 AGTATGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52135110 original size:17 final size:17
Alignment explanation
Indices: 52135088--52135120 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52135078 GAGTTTATAC
52135088 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
52135105 ATATAATATATTAAAA
1 ATATAATATATTAAAA
52135121 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:52136588 original size:14 final size:14
Alignment explanation
Indices: 52136571--52136621 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
52136561 GTTAAAAAAA
52136571 TATTATTAAATTAT
1 TATTATTAAATTAT
*
52136585 TATTATTAAATTTT
1 TATTATTAAATTAT
*
52136599 TAAATCATTATAATTAT
1 T--ATTATTA-AATTAT
52136616 TATTAT
1 TATTAT
52136622 ATTATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 6 0.20
17 6 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTAAATTAT
Found at i:52136748 original size:25 final size:24
Alignment explanation
Indices: 52136718--52136778 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 24
52136708 TTGTAATTAC
52136718 TTATTATATAAGAAAATATTATAT
1 TTATTATATAAGAAAATATTATAT
** *
52136742 TATATTATATTATTAAAGTATTATAT
1 T-TATTATA-TAAGAAAATATTATAT
*
52136768 TTATTAAATAA
1 TTATTATATAA
52136779 TAAACAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.10
25 13 0.43
26 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TTATTATATAAGAAAATATTATAT
Found at i:52136765 original size:16 final size:17
Alignment explanation
Indices: 52136744--52136775 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52136734 TATTATATTA
52136744 TATTATA-TTATTAAAG
1 TATTATATTTATTAAAG
52136760 TATTATATTTATTAAA
1 TATTATATTTATTAAA
52136776 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTATATTTATTAAAG
Found at i:52136818 original size:17 final size:17
Alignment explanation
Indices: 52136796--52136830 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52136786 AACATAATTT
*
52136796 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
*
52136813 AAAAGAAGAAAATAAAC
1 AAAAGAAGAAAAGAAAC
52136830 A
1 A
52136831 GAATAGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:52137581 original size:6 final size:6
Alignment explanation
Indices: 52137528--52137580 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
52137518 GTGAGGTAAC
* * *
52137528 TATTAA TATTAG TATTAG TATTAG TATTAG TATTAT TATTAG TATTAT
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
52137576 TATTA
1 TATTA
52137581 TGAGTGGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (6 bp):
TATTAG
Found at i:52139043 original size:19 final size:19
Alignment explanation
Indices: 52139021--52139087 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 19
52139011 AGGAAGAAAG
52139021 AAGAAAAAAAGAAAGAAGA
1 AAGAAAAAAAGAAAGAAGA
*
52139040 AAGAAAAGAAGAAA-AAGA
1 AAGAAAAAAAGAAAGAAGA
52139058 AAGAAAAGATAAAGAAAGAGAGA
1 AAG-AAA-A-AAAGAAAGA-AGA
52139081 AGAGAAA
1 A-AGAAA
52139088 GGAAAGGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.17
19 16 0.40
20 1 0.03
21 6 0.15
22 1 0.03
23 7 0.17
24 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (19 bp):
AAGAAAAAAAGAAAGAAGA
Found at i:52139046 original size:18 final size:19
Alignment explanation
Indices: 52139021--52139066 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
52139011 AGGAAGAAAG
*
52139021 AAGAAAAAAAGAAAGAAGA
1 AAGAAAAGAAGAAAGAAGA
52139040 AAGAAAAGAAGAAA-AAGA
1 AAGAAAAGAAGAAAGAAGA
52139058 AAGAAAAGA
1 AAGAAAAGA
52139067 TAAAGAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAAGAAAGAAGA
Found at i:52139066 original size:15 final size:16
Alignment explanation
Indices: 52139014--52139076 Score: 76
Period size: 15 Copynumber: 3.9 Consensus size: 16
52139004 AAGGAGGAGG
52139014 AAGAAAGAAGAAA-AA
1 AAGAAAGAAGAAAGAA
52139029 AAGAAAGAAGAAAGAA
1 AAGAAAGAAGAAAGAA
*
52139045 AAGAAGAAAAAGAAAGAA
1 AAG-A-AAGAAGAAAGAA
*
52139063 AAGATA-AAGAAAGA
1 AAGAAAGAAGAAAGA
52139077 GAGAAGAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 21 0.49
16 6 0.14
17 2 0.05
18 14 0.33
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAGAAAGAAGAAAGAA
Found at i:52139201 original size:19 final size:17
Alignment explanation
Indices: 52139179--52139231 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
52139169 AAAGAGGAAG
*
52139179 AAGAAGGGAGAAGAAGAAA
1 AAGAAAGGA-AAGAA-AAA
52139198 AAGAAAGGAAAGAAAAA
1 AAGAAAGGAAAGAAAAA
52139215 AA-AAAGAGAAA-AAAAA
1 AAGAAAG-GAAAGAAAAA
52139231 A
1 A
52139232 CTACATTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 10 0.31
17 9 0.28
18 5 0.16
19 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAGAAAGGAAAGAAAAA
Found at i:52139757 original size:23 final size:21
Alignment explanation
Indices: 52139705--52139759 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
52139695 GTATTTTAAG
52139705 TATTTTTT-A-TTTTTTTATT
1 TATTTTTTAATTTTTTTTATT
*
52139724 TATATTCTTAATTTTATTTTATT
1 TAT-TTTTTAATTTT-TTTTATT
52139747 TGATTTTTTAATT
1 T-ATTTTTTAATT
52139760 CGAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 3 0.10
20 4 0.14
21 1 0.03
22 3 0.10
23 16 0.55
24 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
TATTTTTTAATTTTTTTTATT
Found at i:52140020 original size:19 final size:19
Alignment explanation
Indices: 52139992--52140047 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 19
52139982 TTTATCAAAT
*
52139992 ATTTCTTGTTTTCAAAAAA
1 ATTTCGTGTTTTCAAAAAA
52140011 ATTTCGTG-TTTC--AAAA
1 ATTTCGTGTTTTCAAAAAA
*
52140027 ATTTCCGTTTTTTCAAAAAA
1 ATTT-CGTGTTTTCAAAAAA
52140047 A
1 A
52140048 ATTATGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 8 0.26
17 3 0.10
18 8 0.26
19 7 0.23
20 5 0.16
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (19 bp):
ATTTCGTGTTTTCAAAAAA
Found at i:52140026 original size:17 final size:19
Alignment explanation
Indices: 52140001--52140046 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
52139991 TATTTCTTGT
52140001 TTTCAAAAAAATTT-CG-TG
1 TTTC-AAAAAATTTCCGTTG
*
52140019 TTTC-AAAAATTTCCGTTT
1 TTTCAAAAAATTTCCGTTG
52140037 TTTCAAAAAA
1 TTTCAAAAAA
52140047 AATTATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 9 0.38
19 5 0.21
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (19 bp):
TTTCAAAAAATTTCCGTTG
Found at i:52140028 original size:16 final size:18
Alignment explanation
Indices: 52140007--52140045 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
52139997 TTGTTTTCAA
52140007 AAAAATTT-CG-TGTTTC
1 AAAAATTTCCGTTGTTTC
*
52140023 AAAAATTTCCGTTTTTTC
1 AAAAATTTCCGTTGTTTC
52140041 AAAAA
1 AAAAA
52140046 AAATTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (18 bp):
AAAAATTTCCGTTGTTTC
Done.