Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 21 of 126
Found at i:6260056 original size:38 final size:38
Alignment explanation
Indices: 6259957--6260062 Score: 158
Period size: 38 Copynumber: 2.7 Consensus size: 38
6259947 AAAATATTTT
*
6259957 AAAATATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTA
1 AAAATATTTTAAAATTAAAAAAA--TTAAAAAAGTATGTA
* *
6259997 AAAAAAATTTAAAATTAAAAAAATTAAAAAAGTATGTA
1 AAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTA
*
6260035 AAAATATTTTAAAATTAAAAAAAATAAA
1 AAAATATTTTAAAATTAAAAAAATTAAA
6260063 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:6269414 original size:29 final size:30
Alignment explanation
Indices: 6269380--6269458 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
6269370 TAACCACTGT
6269380 ACTTTTC-AAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
6269409 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCC-AA
6269440 AC-TTTCTAAAA-TTACATTT
1 ACTTTTCTAAAATTTACATTT
6269459 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:6269464 original size:29 final size:29
Alignment explanation
Indices: 6269383--6269495 Score: 124
Period size: 30 Copynumber: 3.9 Consensus size: 29
6269373 CCACTGTACT
6269383 TTTC-AAAATTTACATTTTGACCCCAAAC
1 TTTCTAAAATTTACATTTTGACCCCAAAC
6269411 TTTTCTAAAATTTACATTTTGACCCCAAAAC
1 -TTTCTAAAATTTACATTTTGACCCC-AAAC
** * *
6269442 TTTCTAAAA-TTACATTTCAACCCTTAGAC
1 TTTCTAAAATTTACATTTTGACCC-CAAAC
*
6269471 TTTCTCAAAATTT-CACTTTGACCCC
1 TTTCT-AAAATTTACATTTTGACCCC
6269496 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:6270109 original size:8 final size:8
Alignment explanation
Indices: 6270096--6270132 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
6270086 CTTTGAGACA
6270096 AGAAGAAG
1 AGAAGAAG
6270104 AGAAGAAG
1 AGAAGAAG
6270112 AGAAGAAG
1 AGAAGAAG
*
6270120 A-AAAAAG
1 AGAAGAAG
6270127 A-AAGAA
1 AGAAGAA
6270133 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:6270137 original size:12 final size:12
Alignment explanation
Indices: 6270120--6270171 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
6270110 AGAGAAGAAG
6270120 AAAAAAGAAAGA
1 AAAAAAGAAAGA
6270132 AAAAAAG--AGA
1 AAAAAAGAAAGA
*
6270142 AAGGAAAAGAGAGA
1 AA--AAAAGAAAGA
6270156 AAAAAAGAAAGA
1 AAAAAAGAAAGA
6270168 AAAA
1 AAAA
6270172 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:6270143 original size:14 final size:14
Alignment explanation
Indices: 6270109--6270167 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
6270099 AGAAGAGAAG
6270109 AAGAG-AAGAAGAAA
1 AAGAGAAAGAA-AAA
6270123 AA-AGAAAGAAAAA
1 AAGAGAAAGAAAAA
*
6270136 AAGAGAAAGGAAAA
1 AAGAGAAAGAAAAA
*
6270150 GAGAGAAA-AAAAGA
1 AAGAGAAAGAAAA-A
6270164 AAGA
1 AAGA
6270168 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:6270652 original size:20 final size:20
Alignment explanation
Indices: 6270627--6270664 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6270617 AAAAATATTC
6270627 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
6270647 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
6270665 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:6270844 original size:16 final size:18
Alignment explanation
Indices: 6270825--6270862 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6270815 TTTTTTTAAG
6270825 AAAAAAT-T-TTGTTTCA
1 AAAAAATGTCTTGTTTCA
*
6270841 AAAAAATGTCTTGTTTTA
1 AAAAAATGTCTTGTTTCA
6270859 AAAA
1 AAAA
6270863 TTCCCGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (18 bp):
AAAAAATGTCTTGTTTCA
Found at i:6270960 original size:16 final size:17
Alignment explanation
Indices: 6270915--6270981 Score: 82
Period size: 17 Copynumber: 3.9 Consensus size: 17
6270905 CGTTTTTTTC
*
6270915 CAAAAATTTTCGTGTTT
1 CAAAAATTCTCGTGTTT
* *
6270932 CTAAAATTTTCGTGTTT
1 CAAAAATTCTCGTGTTT
*
6270949 -ACAAATTCTCGTGTTTT
1 CAAAAATTCTCGTG-TTT
6270966 CAAAAATTCTCGTGTT
1 CAAAAATTCTCGTGTT
6270982 AAAAAAAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
16 10 0.23
17 21 0.49
18 12 0.28
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (17 bp):
CAAAAATTCTCGTGTTT
Found at i:6270986 original size:16 final size:16
Alignment explanation
Indices: 6270934--6270987 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
6270924 TCGTGTTTCT
* *
6270934 AAAATTTTCGTGTTTA
1 AAAATTCTCGTGTTAA
* *
6270950 CAAATTCTCGTGTTTTCA
1 AAAATTCTCGTG--TTAA
6270968 AAAATTCTCGTGTTAA
1 AAAATTCTCGTGTTAA
6270984 AAAA
1 AAAA
6270988 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:6270988 original size:18 final size:18
Alignment explanation
Indices: 6270951--6271006 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
6270941 TCGTGTTTAC
***
6270951 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTGTTAAAAA
6270969 AAATTCTCGTGTTAAAAA
1 AAATTCTCGTGTTAAAAA
6270987 AAACTT-TCGT-TTAAAAA
1 AAA-TTCTCGTGTTAAAAA
6271004 AAA
1 AAA
6271007 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:6280167 original size:10 final size:9
Alignment explanation
Indices: 6280152--6280204 Score: 61
Period size: 10 Copynumber: 5.4 Consensus size: 9
6280142 TATTATGCCT
6280152 AAAAACAGAA
1 AAAAACA-AA
6280162 AAAAACAAA
1 AAAAACAAA
6280171 AAAAACAAAA
1 AAAAAC-AAA
*
6280181 ACAAAAAAAA
1 A-AAAACAAA
6280191 ACAAAACAAA
1 A-AAAACAAA
6280201 AAAA
1 AAAA
6280205 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:6280188 original size:25 final size:25
Alignment explanation
Indices: 6280152--6280214 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
6280142 TATTATGCCT
*
6280152 AAAAACAGAAAAAAACAAAA-AAAA
1 AAAAACAAAAAAAAACAAAACAAAA
6280176 CAAAAACAAAAAAAAACAAAACAAAA
1 -AAAAACAAAAAAAAACAAAACAAAA
*
6280202 AAAGAAGAAAAAA
1 AAA-AACAAAAAA
6280215 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:6280212 original size:16 final size:14
Alignment explanation
Indices: 6280160--6280204 Score: 72
Period size: 15 Copynumber: 3.1 Consensus size: 14
6280150 CTAAAAACAG
6280160 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
6280174 AACAAAAACAAAAAA
1 AA-AAAAACAAAAAA
6280189 AAACAAAACAAAAAA
1 AAA-AAAACAAAAAA
6280204 A
1 A
6280205 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:6281671 original size:84 final size:84
Alignment explanation
Indices: 6281119--6282284 Score: 1466
Period size: 84 Copynumber: 14.5 Consensus size: 84
6281109 CTCATAATAC
* ** **
6281119 AGAGGTGAGTTGAGCCTC--GGTTCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTC-----A
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
* **
6281177 AAAATCAACTCATAAT-AC
66 AAAATCAACTCATATTGTG
* * *
6281195 AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATTTCTTTTAAATTTTCGTTTTTC-----A
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
* **
6281253 AAAATCAACTCATAAT-AC
66 AAAATCAACTCATATTGTG
* * *
6281271 AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATTTCTTTTAAATTTTCGTTTTTC-----A
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
* **
6281329 AAAATCAACTCATAAT-AC
66 AAAATCAACTCATATTGTG
* * **
6281347 AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTC-----A
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
* *
6281405 AAAATCAACTCATAATGCG
66 AAAATCAACTCATATTGTG
* * * * * *****
6281424 AGAGGTGAGTTGAGCTTCGGGTCAC--GCTGAGGTA-TT-TTTT-AATTTCTGTTTTTTTTTTTC
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTT-T-TGTTTTTCAAAA
* * **
6281484 AAAAAATTAACTCATAAT-AC
64 AAAAAATCAACTCATATTGTG
* * * *
6281504 AGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTATTT-TTTTAAATTTCTGCTTTTTTC---A
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTG--TTTTTCAAAA
6281563 AAAAAATCAACTCATATTGTG
64 AAAAAATCAACTCATATTGTG
6281584 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6281649 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6281668 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6281733 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6281752 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6281817 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6281836 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6281901 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6281920 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6281985 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6282004 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6282069 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6282088 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
* *
6282153 AAAATCAACTCATAATGCG
66 AAAATCAACTCATATTGTG
* * * **
6282172 AGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTA--T-TTTTCAATTCATGTTTTTC-----A
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
6282227 AAAATCAACTCATATTGTG
66 AAAATCAACTCATATTGTG
6282246 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTT
1 AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTT
6282285 TCGATTTTTG
Statistics
Matches: 1025, Mismatches: 39, Indels: 50
0.92 0.04 0.04
Matches are distributed among these distances:
74 46 0.04
75 4 0.00
76 237 0.23
77 27 0.03
78 3 0.00
79 33 0.03
80 58 0.06
81 28 0.03
82 30 0.03
83 12 0.01
84 547 0.53
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (84 bp):
AGAGGTGAGTTAAGCCTCGGGGCACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAA
AAAATCAACTCATATTGTG
Found at i:6282579 original size:30 final size:30
Alignment explanation
Indices: 6282545--6282663 Score: 102
Period size: 30 Copynumber: 4.0 Consensus size: 30
6282535 TTGCATTGTA
*
6282545 ACCCCTATACTTTTCAAAATTTACATTTTG
1 ACCCCTAAACTTTTCAAAATTTACATTTTG
* **
6282575 ACCCCAAAAC-TTTCTAAAA-TTACATTTCA
1 ACCCCTAAACTTTTC-AAAATTTACATTTTG
* * *
6282604 ACCCTTAGACTTTCTCAAAATTT-CACTTTG
1 ACCCCTAAACTTT-TCAAAATTTACATTTTG
* *
6282634 ACCCCTAAACTCTT-AAGAAATTACATTTTG
1 ACCCCTAAACTTTTCAA-AATTTACATTTTG
6282664 GCCTATATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
28 2 0.03
29 24 0.35
30 38 0.56
31 4 0.06
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (30 bp):
ACCCCTAAACTTTTCAAAATTTACATTTTG
Found at i:6282660 original size:60 final size:59
Alignment explanation
Indices: 6282544--6282661 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 59
6282534 TTTGCATTGT
* * *
6282544 AACCCCTATACTTTTCAAAATTTACATTTTGACCCCAAAACTTTCTAAAATTACATTTC
1 AACCCCTAGACTTTTCAAAATTTACACTTTGACCCCAAAACTTTCAAAAATTACATTTC
* *
6282603 AACCCTTAGACTTTCTCAAAATTT-CACTTTGACCCCTAAACTCTT-AAGAAATTACATTT
1 AACCCCTAGACTTT-TCAAAATTTACACTTTGACCCCAAAACT-TTCAA-AAATTACATTT
6282662 TGGCCTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 29 0.57
60 22 0.43
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
AACCCCTAGACTTTTCAAAATTTACACTTTGACCCCAAAACTTTCAAAAATTACATTTC
Found at i:6283267 original size:14 final size:13
Alignment explanation
Indices: 6283245--6283297 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
6283235 AGACAAGAAG
6283245 AAGAGAAGAAGAAAA
1 AAGA-AAGAA-AAAA
6283260 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
6283273 AGAGAAAGAAAAAGA
1 A-AGAAAGAAAAA-A
6283288 AAGAAA-AAAA
1 AAGAAAGAAAA
6283298 GTAATTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:6283270 original size:10 final size:10
Alignment explanation
Indices: 6283248--6283295 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
6283238 CAAGAAGAAG
*
6283248 AGAAGAAGAA
1 AGAAAAAGAA
*
6283258 AAAAGAAAGAA
1 AGAA-AAAGAA
6283269 A-AAAAGAGAA
1 AGAAAA-AGAA
6283279 AGAAAAAGAA
1 AGAAAAAGAA
6283289 AGAAAAA
1 AGAAAAA
6283296 AAGTAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 21 0.64
11 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:6283273 original size:12 final size:12
Alignment explanation
Indices: 6283256--6283346 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
6283246 AGAGAAGAAG
6283256 AAAAAAGAAAGA
1 AAAAAAGAAAGA
6283268 AAAAAAGAGAA-A
1 AAAAAAGA-AAGA
*
6283280 GAAAAAGAAAGA
1 AAAAAAGAAAGA
* *
6283292 AAAAAAGTAA-T
1 AAAAAAGAAAGA
* **
6283303 TAAAAAGTAATTA
1 AAAAAAG-AAAGA
*
6283316 AAAAAA-TAAG-
1 AAAAAAGAAAGA
6283326 -AAAAAGAAAGA
1 AAAAAAGAAAGA
6283337 AAAAAAGAAA
1 AAAAAAGAAA
6283347 ATAAAAAGTA
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 9 0.15
12 35 0.59
13 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:6283329 original size:45 final size:45
Alignment explanation
Indices: 6283278--6283369 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
6283268 AAAAAAGAGA
* *
6283278 AAGAAAAAGAAAGAAAAAAAGTAATTAAAAAGTAATTAAAAAAAT
1 AAGAAAAAGAAAGAAAAAAAGAAAATAAAAAGTAATTAAAAAAAT
6283323 AAGAAAAAGAAAGAAAAAAAGAAAATAAAAAGTAATTAAAAAAAT
1 AAGAAAAAGAAAGAAAAAAAGAAAATAAAAAGTAATTAAAAAAAT
6283368 AA
1 AA
6283370 AAACAGCAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (45 bp):
AAGAAAAAGAAAGAAAAAAAGAAAATAAAAAGTAATTAAAAAAAT
Found at i:6283352 original size:11 final size:11
Alignment explanation
Indices: 6283257--6283364 Score: 65
Period size: 11 Copynumber: 9.5 Consensus size: 11
6283247 GAGAAGAAGA
*
6283257 AAAAAGAAAGAA
1 AAAAAGAAA-AT
*
6283269 AAAAAGAGAAAG
1 AAAAAGA-AAAT
*
6283281 AAAAAGAAAGAA
1 AAAAAGAAA-AT
* *
6283293 AAAAAGTAATT
1 AAAAAGAAAAT
* *
6283304 AAAAAGTAATT
1 AAAAAGAAAAT
*
6283315 AAAAA-AATAAG
1 AAAAAGAA-AAT
*
6283326 AAAAAGAAAGAA
1 AAAAAGAAA-AT
6283338 AAAAAGAAAAT
1 AAAAAGAAAAT
* *
6283349 AAAAAGTAATT
1 AAAAAGAAAAT
6283360 AAAAA
1 AAAAA
6283365 AATAAAAACA
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
10 1 0.01
11 40 0.51
12 36 0.46
13 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:6283354 original size:19 final size:20
Alignment explanation
Indices: 6283317--6283372 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
6283307 AAGTAATTAA
*
6283317 AAAAATAAGAAAA-AGAAAG-
1 AAAAA-AAGAAAATAAAAAGT
6283336 AAAAAAAGAAAATAAAAAGT
1 AAAAAAAGAAAATAAAAAGT
**
6283356 AATTAAA-AAAATAAAAA
1 AAAAAAAGAAAATAAAAA
6283373 CAGCAGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 7 0.22
19 20 0.62
20 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (20 bp):
AAAAAAAGAAAATAAAAAGT
Found at i:6283364 original size:12 final size:12
Alignment explanation
Indices: 6283292--6283365 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 12
6283282 AAAAGAAAGA
6283292 AAAAAAGTAATT
1 AAAAAAGTAATT
6283304 -AAAAAGTAATT
1 AAAAAAGTAATT
*
6283315 AAAAAAATAA--
1 AAAAAAGTAATT
* * **
6283325 GAAAAAGAAAGA
1 AAAAAAGTAATT
* *
6283337 AAAAAAGAAAAT
1 AAAAAAGTAATT
6283349 -AAAAAGTAATT
1 AAAAAAGTAATT
6283360 AAAAAA
1 AAAAAA
6283366 ATAAAAACAG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
10 7 0.14
11 20 0.41
12 22 0.45
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
AAAAAAGTAATT
Found at i:6283819 original size:20 final size:20
Alignment explanation
Indices: 6283794--6283831 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6283784 AAAAATATTC
6283794 AAAAATTCTCGTATTTTAAT
1 AAAAATTCTCGTATTTTAAT
*
6283814 AAAAATTCTCGTGTTTTA
1 AAAAATTCTCGTATTTTA
6283832 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:6283989 original size:35 final size:35
Alignment explanation
Indices: 6283939--6284034 Score: 106
Period size: 36 Copynumber: 2.8 Consensus size: 35
6283929 CGGTATTTGT
* *
6283939 TAAAGAAAAATCGTG-TTTCAAAAATTCTCGTGAA
1 TAAAAAAAAATCGTGTTTTCAAAAATTCCCGTGAA
**
6283973 TAAAAAAAAATTCGTGTTTTCAAAAATTCCCGTGTT
1 TAAAAAAAAA-TCGTGTTTTCAAAAATTCCCGTGAA
* * *
6284009 TCAAAAAAAGTCATGTTTT-AAAAATT
1 TAAAAAAAAATCGTGTTTTCAAAAATT
6284035 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:6283997 original size:16 final size:16
Alignment explanation
Indices: 6283978--6284156 Score: 68
Period size: 16 Copynumber: 10.5 Consensus size: 16
6283968 GTGAATAAAA
6283978 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
6283994 AAAAATTCCCGTG-TTTC
1 AAAAATT--CGTGTTTTC
* *
6284011 AAAAAAAGTCATGTTTT-
1 --AAAAATTCGTGTTTTC
6284028 AAAAATTTTCGTG-TTTC
1 AAAAA--TTCGTGTTTTC
* *
6284045 TAAAATTTCCCTGTTTT-
1 -AAAAATT-CGTGTTTTC
6284062 AAAAATTCCCGTG-TTTC
1 AAAAATT--CGTGTTTTC
6284079 AAAAAAAATGTCGTGTTTT-
1 ---AAAAAT-TCGTGTTTTC
6284098 AAAAATTTTCGTG-TTTC
1 AAAAA--TTCGTGTTTTC
* *
6284115 TAAAATTTTCGTGTTTAC
1 -AAAA-ATTCGTGTTTTC
*
6284133 -AAATTCTCGTGTTTTC
1 AAAAAT-TCGTGTTTTC
6284149 AAAAATTC
1 AAAAATTC
6284157 CCGTGTTAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 52
0.66 0.06 0.28
Matches are distributed among these distances:
15 7 0.06
16 43 0.34
17 33 0.26
18 22 0.18
19 10 0.08
20 9 0.07
21 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:6283997 original size:17 final size:16
Alignment explanation
Indices: 6283977--6284153 Score: 72
Period size: 17 Copynumber: 10.3 Consensus size: 16
6283967 CGTGAATAAA
6283977 AAAAAATTCGTGTTTTC
1 AAAAAATTCGTG-TTTC
6283994 -AAAAATTCCCGTGTTTC
1 AAAAAATT--CGTGTTTC
* * *
6284011 AAAAAAAGTCATGTTTT
1 -AAAAAATTCGTGTTTC
*
6284028 AAAAATTTTCGTGTTTC
1 AAAAA-ATTCGTGTTTC
* * *
6284045 TAAAATTTCCCTGTTT-
1 AAAAAATT-CGTGTTTC
*
6284061 TAAAAATTCCCGTGTTTC
1 AAAAAATT--CGTGTTTC
*
6284079 AAAAAAAATGTCGTGTTTT
1 --AAAAAAT-TCGTGTTTC
*
6284098 AAAAATTTTCGTGTTTC
1 AAAAA-ATTCGTGTTTC
**
6284115 TAAAATTTTCGTGTTT-
1 -AAAAAATTCGTGTTTC
* *
6284131 ACAAATTCTCGTGTTTTC
1 AAAAAAT-TCGTG-TTTC
6284149 AAAAA
1 AAAAA
6284154 TTCCCGTGTT
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:6284015 original size:34 final size:34
Alignment explanation
Indices: 6283944--6284153 Score: 192
Period size: 34 Copynumber: 6.1 Consensus size: 34
6283934 TTTGTTAAAG
* * **
6283944 AAAAA-TCGTGTTTCAAAAATTCTCGTGAATAAAA
1 AAAAATTCGTGTTTTAAAAATTCTCGTG-TTTCAA
*
6283978 AAAAATTCGTGTTTTCAAAAATTCCCGTGTTTCAA
1 AAAAATTCGTGTTTT-AAAAATTCTCGTGTTTCAA
* * * *
6284013 AAAAAGTCATGTTTTAAAAATTTTCGTGTTTC-T
1 AAAAATTCGTGTTTTAAAAATTCTCGTGTTTCAA
* * *
6284046 AAAATTTCCCTGTTTTAAAAATTCCCGTGTTTCAAA
1 AAAAATT-CGTGTTTTAAAAATTCTCGTGTTTC-AA
* *
6284082 AAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTA
1 AAAAAT-TCGTGTTTTAAAAATTCTCGTGTTTCAA
** *
6284117 AAATTTTCGTG-TTTACAAATTCTCGTGTTTTCAA
1 AAAAATTCGTGTTTTAAAAATTCTCGTG-TTTCAA
6284151 AAA
1 AAA
6284154 TTCCCGTGTT
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:6284026 original size:70 final size:69
Alignment explanation
Indices: 6283944--6284111 Score: 198
Period size: 70 Copynumber: 2.4 Consensus size: 69
6283934 TTTGTTAAAG
* * *
6283944 AAAAA-TCGTGTTTCAAAAATTCTCGTGAATAAAAAAAAATT-CGTGTTTTCAAAAATTCCCGTG
1 AAAAAGTCGTGTTTTAAAAATTTTCGTG--TAAAAAAAAATTCCCTGTTTT-AAAAATTCCCGTG
6284007 TTTC-AA
63 TTTCAAA
* **** *
6284013 AAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCCTGTTTTAAAAATTCCCGTGTTT
1 AAAAAGTCGTGTTTTAAAAATTTTCGTGTAAAAAAAAATTCCCTGTTTTAAAAATTCCCGTGTTT
6284078 CAAA
66 CAAA
6284082 AAAAATGTCGTGTTTTAAAAATTTTCGTGT
1 AAAAA-GTCGTGTTTTAAAAATTTTCGTGT
6284112 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:6284085 original size:87 final size:85
Alignment explanation
Indices: 6283994--6284247 Score: 210
Period size: 87 Copynumber: 3.1 Consensus size: 85
6283984 TCGTGTTTTC
*
6283994 AAAAATTCCCGTGTTTCAAAAAAAGTCATGTTT-TAAAAATTTTCGTGTTT-CTAAAATT-TCCC
1 AAAAAATCCCGTGTTTCAAAAAAAGTCATGTTTCT-AAAATTTTCGTGTTTAC--AAATTCT-CC
6284056 TGTTTT-AAAAATTCCCGTGTTTCAA
62 TGTTTTCAAAAATTCCCGTG-TT-AA
** * *** * *
6284081 AAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTTCGTGTTTACAAATTCTCGTGTT
1 AAAAAATCCCGTGTTTCAAAAAAAGTCATGTTTCTAAAATTTTCGTGTTTACAAATTCTCCTGTT
6284146 TTCAAAAATTCCCGTGTTAA
66 TTCAAAAATTCCCGTGTTAA
* ** * *
6284166 AAAAACTTTCGT-TTT-AAAAAAA---AAG----TAAAATTTTCGTGTTTACAAATTCTCGTGTT
1 AAAAAATCCCGTGTTTCAAAAAAAGTCATGTTTCTAAAATTTTCGTGTTTACAAATTCTCCTGTT
* * *
6284222 TTCAAAAATACTCATGTTAA
66 TTCAAAAATTCCCGTGTTAA
6284242 AAAAAA
1 AAAAAA
6284248 ACTTTCGTTT
Statistics
Matches: 144, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
76 53 0.37
80 1 0.01
83 5 0.03
84 3 0.02
85 12 0.08
86 14 0.10
87 54 0.38
88 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (85 bp):
AAAAAATCCCGTGTTTCAAAAAAAGTCATGTTTCTAAAATTTTCGTGTTTACAAATTCTCCTGTT
TTCAAAAATTCCCGTGTTAA
Found at i:6284112 original size:70 final size:69
Alignment explanation
Indices: 6283987--6284153 Score: 248
Period size: 70 Copynumber: 2.4 Consensus size: 69
6283977 AAAAAATTCG
6283987 TGTTTTCAAAAATTCCCGTGTTTC-AAAAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAAT
1 TGTTTT-AAAAATTCCCGTGTTTCAAAAAAAAGTCATGTTTTAAAAATTTTCGTGTTTCTAAAAT
6284051 TTCCC
65 TTCCC
*
6284056 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAATGTCGTGTTTTAAAAATTTTCGTGTTTCTAAAAT
1 TGTTTTAAAAATTCCCGTGTTTCAAAAAAAA-GTCATGTTTTAAAAATTTTCGTGTTTCTAAAAT
* *
6284121 TTTCG
65 TTCCC
* *
6284126 TG-TTTACAAATTCTCGTGTTTTCAAAAA
1 TGTTTTAAAAATTCCCGTG-TTTCAAAAA
6284154 TTCCCGTGTT
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:6284208 original size:76 final size:77
Alignment explanation
Indices: 6284115--6284265 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 77
6284105 TTCGTGTTTC
* *
6284115 TAAAATTTTCGTGTTTACAAATTCTCGTGTTTTCAAAAATTCCCGTGTT-AAAAAAACTTTCGTT
1 TAAAATTTTCGTGTTTACAAATTCTCGTGTTTTCAAAAATACCCATGTTAAAAAAAACTTTCGTT
6284179 TTAAAAAAAAAG
66 TTAAAAAAAAAG
*
6284191 TAAAATTTTCGTGTTTACAAATTCTCGTGTTTTCAAAAATACTCATGTTAAAAAAAAACTTTCGT
1 TAAAATTTTCGTGTTTACAAATTCTCGTGTTTTCAAAAATACCCATGTT-AAAAAAAACTTTCGT
6284256 TTTAAAAAAA
65 TTTAAAAAAA
6284266 GAAATACTGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
76 46 0.66
78 24 0.34
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (77 bp):
TAAAATTTTCGTGTTTACAAATTCTCGTGTTTTCAAAAATACCCATGTTAAAAAAAACTTTCGTT
TTAAAAAAAAAG
Found at i:6284218 original size:16 final size:16
Alignment explanation
Indices: 6284193--6284227 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6284183 AAAAAAAGTA
*
6284193 AAATTTTCGTGTTTAC
1 AAATTCTCGTGTTTAC
*
6284209 AAATTCTCGTGTTTTC
1 AAATTCTCGTGTTTAC
6284225 AAA
1 AAA
6284228 AATACTCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (16 bp):
AAATTCTCGTGTTTAC
Found at i:6284874 original size:15 final size:15
Alignment explanation
Indices: 6284854--6284885 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6284844 TTACTTCTTT
6284854 TCAAATCATCAATCA
1 TCAAATCATCAATCA
*
6284869 TCAAATCATTAATCA
1 TCAAATCATCAATCA
6284884 TC
1 TC
6284886 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:6285472 original size:71 final size:71
Alignment explanation
Indices: 6285356--6285499 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
6285346 ACTATCCTCT
6285356 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
1 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
6285421 AAGTAG
66 AAGTAG
6285427 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
1 TTTGAAATTGTCTCAATAGTTTCTACAACACTAGAAGTAATAGAATGAGTTTTTACTACAAAAGT
*
6285492 ATGTAG
66 AAGTAG
6285498 TT
1 TT
6285500 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:6287552 original size:16 final size:18
Alignment explanation
Indices: 6287531--6287568 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
6287521 TTTTTTTTAG
6287531 ATTTTAAGA-TTA-TTTT
1 ATTTTAAGATTTATTTTT
*
6287547 ATTTTAATATTTATTTTT
1 ATTTTAAGATTTATTTTT
6287565 ATTT
1 ATTT
6287569 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:6289770 original size:36 final size:36
Alignment explanation
Indices: 6289723--6290089 Score: 156
Period size: 36 Copynumber: 10.1 Consensus size: 36
6289713 ATATCGTCAG
* *
6289723 TTTATCTGACTAGTGCTGGGCGTAAATCTTTGTCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
* * * ** * *
6289759 TTTATTCGACTAGTGCAGGGCACATTTACTGT-TAG-
1 TTTATCCGACTAGTGCTGGGCGCAAAT-CTTTGTCGA
* * * * * *
6289794 TTTATCCAACTAGCGCTGGGAGCAAATCTACTATTGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* * *
6289831 TTTATCCGATTAGCGCTGGGCACAAATCTTTGTCTG-
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTC-GA
* * * * * * *
6289867 TTAATTCGACTAGTGCTAGGCACACATTTAATATCATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCT--T-T-GTCGA
* *
6289907 TTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
* * * * ** *
6289943 TTTATTCGACTAGTG-TAGG-ACACATCAACTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATC-TTTGTCGA
* * * * * *
6289978 TTTACCCGACTAGCGCTAGGCACAAATATTTATCGA
1 TTTATCCGACTAGTGCTGGGCGCAAATCTTTGTCGA
** * * * *
6290014 TTTATTTGACTAGTGC-AGG-GCACATCTACTGTCGG
1 TTTATCCGACTAGTGCTGGGCGCAAATCT-TTGTCGA
* *
6290049 TTTA-CCTGACTAGTGCTGGGCGCAAATTTTTATCGA
1 TTTATCC-GACTAGTGCTGGGCGCAAATCTTTGTCGA
6290085 TTTAT
1 TTTAT
6290090 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:6289988 original size:35 final size:35
Alignment explanation
Indices: 6289949--6290063 Score: 88
Period size: 35 Copynumber: 3.3 Consensus size: 35
6289939 TCGATTTATT
6289949 CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
1 CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
* * ** * * **
6289984 CGACTAGCGCTAGGCACAAAT-ATTTATCGATTTATT
1 CGACTAGTG-TAGG-ACACATCAACTGTCGGTTTACC
* * * *
6290020 TGACTAGTGCAGGGCACATCTACTGTCGGTTTACC
1 CGACTAGTGTAGGACACATCAACTGTCGGTTTACC
*
6290055 TGACTAGTG
1 CGACTAGTG
6290064 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:6290016 original size:71 final size:72
Alignment explanation
Indices: 6289831--6290133 Score: 308
Period size: 71 Copynumber: 4.2 Consensus size: 72
6289821 CTACTATTGA
* * * *
6289831 TTTATCCGATTAGCGCTGGGCACAAATCTTTGTCTG-TTAATTCGACTAGTGCTAGGCACACATT
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATC-GATTTATTCGACTAGTGCTAGG-ACACA-T
* * * *
6289895 TAATATCATCGA
63 CAA-CT-GTCGG
* * * *
6289907 TTTATCCGACTAGCGTTGGGCGCAAATCTTTGTCGATTTATTCGACTAGTG-TAGGACACATCAA
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
6289971 CTGTCGG
66 CTGTCGG
* * * * *
6289978 TTTACCCGACTAGCGCTAGGCACAAATATTTATCGATTTATTTGACTAGTGC-AGGGCACATCTA
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
6290042 CTGTCGG
66 CTGTCGG
* * * * ** * *
6290049 TTTACCTGACTAGTGCTGGGCGCAAATTTTTATCGATTTATTTAACTAGTGCAAGG-CACATCTA
1 TTTACCCGACTAGCGCTGGGCACAAATCTTTATCGATTTATTCGACTAGTGCTAGGACACATCAA
6290113 CTGTCGG
66 CTGTCGG
6290120 TTTACCCGACTAGC
1 TTTACCCGACTAGC
6290134 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:6291004 original size:22 final size:21
Alignment explanation
Indices: 6290959--6291004 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6290949 ATTGACATAT
*
6290959 TTTGAGTTGTTTTAAAGTGTA
1 TTTGAGTTGTTTTAAAATGTA
6290980 TTTGATGTTGTTTATAAAATG-A
1 TTTGA-GTTGTTT-TAAAATGTA
6291002 TTT
1 TTT
6291005 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:6294922 original size:19 final size:18
Alignment explanation
Indices: 6294917--6294962 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6294907 ATATTTATTC
6294917 TTTTTATAAATTTTATATA
1 TTTTTA-AAATTTTATATA
*
6294936 TTTTTAAATAATTT-TA-A
1 TTTTTAAA-ATTTTATATA
6294953 TTTTTAAAAT
1 TTTTTAAAAT
6294963 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:6295364 original size:63 final size:63
Alignment explanation
Indices: 6295286--6295412 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
6295276 ATTAGATTCA
6295286 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
1 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
*
6295349 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATTTAAATACCTTT
1 TCTCAATATCGTGCAATACTCCACAAATAGTTTAATTATCCCATACATTATCTAAATACCTTT
6295412 T
1 T
6295413 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:6298326 original size:29 final size:28
Alignment explanation
Indices: 6298280--6298337 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
6298270 CTGAACATAT
6298280 TATGTTATAAAAATATTATATTAATTATA
1 TATGTTATAAAAATATTATA-TAATTATA
* *
6298309 TATGTTA-AATAATAATTATATATTTATA
1 TATGTTATAAAAAT-ATTATATAATTATA
6298337 T
1 T
6298338 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:6298536 original size:38 final size:38
Alignment explanation
Indices: 6298455--6298535 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
6298445 TATTTAATGC
* *
6298455 AATAAAATATTTATTATATTTATTTGTGTTTTTAATAT
1 AATAAAATATTTATTATATTTATTAGTATTTTTAATAT
6298493 AATAAAATATTTATTATATTTATGGTAGTATTTTTTAATAT
1 AATAAAATATTTATTATATTTAT--TAGTA-TTTTTAATAT
6298534 AA
1 AA
6298536 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:6300033 original size:7 final size:7
Alignment explanation
Indices: 6300023--6300053 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6300013 AAATTTATAA
6300023 AAATATT
1 AAATATT
6300030 AAATATT
1 AAATATT
6300037 AAATATT
1 AAATATT
6300044 AAATATT
1 AAATATT
6300051 AAA
1 AAA
6300054 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:6300047 original size:21 final size:20
Alignment explanation
Indices: 6300023--6300061 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6300013 AAATTTATAA
*
6300023 AAATATTAAATATTAAATATT
1 AAATATTAAA-ATAAAATATT
6300044 AAATATTAAAATAAAATA
1 AAATATTAAAATAAAATA
6300062 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:6300655 original size:21 final size:21
Alignment explanation
Indices: 6300629--6300671 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6300619 ACAACTCAAA
* *
6300629 ATTATTATTATTGTTGGTAAT
1 ATTATTACTATTGTTGATAAT
*
6300650 ATTATTACTGTTGTTGATAAT
1 ATTATTACTATTGTTGATAAT
6300671 A
1 A
6300672 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:6300682 original size:21 final size:21
Alignment explanation
Indices: 6300634--6300682 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6300624 TCAAAATTAT
* * * *
6300634 TATTATTGTTGGTAATATTAT
1 TATTGTTGTTGATAATAATAA
*
6300655 TACTGTTGTTGATAATAATAA
1 TATTGTTGTTGATAATAATAA
6300676 TATTGTT
1 TATTGTT
6300683 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:6301551 original size:33 final size:33
Alignment explanation
Indices: 6301489--6301557 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
6301479 ACAGCAAATT
* *
6301489 TAAACCATATTTATGAGTGTATATATATATATA
1 TAAACCATATTTATGAATGTATATATATATAAA
* *
6301522 TAAACCATATTTAT-AATTTATAATTTATATAAA
1 TAAACCATATTTATGAATGTAT-ATATATATAAA
6301555 TAA
1 TAA
6301558 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:6315114 original size:13 final size:13
Alignment explanation
Indices: 6315098--6315123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6315088 ACTCTAAAAA
6315098 TTAAAATATATAT
1 TTAAAATATATAT
6315111 TTAAAATATATAT
1 TTAAAATATATAT
6315124 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:6322429 original size:18 final size:19
Alignment explanation
Indices: 6322390--6322429 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6322380 TTCAACAATG
* *
6322390 ACAATATCTAAAATCTTGA
1 ACAATATCTAAAAACTTCA
6322409 ACAATA-CTAAAAACTTCA
1 ACAATATCTAAAAACTTCA
6322427 ACA
1 ACA
6322430 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:6324825 original size:3 final size:3
Alignment explanation
Indices: 6324817--6324851 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6324807 TAAATCTTTA
* *
6324817 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
6324852 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:6327910 original size:41 final size:41
Alignment explanation
Indices: 6327861--6327969 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
6327851 GACTTTAAGT
*
6327861 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
6327902 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
6327943 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
6327970 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 58 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:6329496 original size:25 final size:25
Alignment explanation
Indices: 6329467--6329515 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6329457 ATATAGTTTT
*
6329467 TATATTA-ATTATAAATGTTATAATA
1 TATATTATATTAT-AATATTATAATA
6329492 TATATTATATTATAATATTATAAT
1 TATATTATATTATAATATTATAAT
6329516 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:6331194 original size:41 final size:41
Alignment explanation
Indices: 6331131--6331255 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 41
6331121 ACTAATCTGA
* * *
6331131 TTTATTGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGC
1 TTTA-TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
*
6331173 TTTATGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
* * * * * *
6331214 TTAATGCCGGTGATACATTTCGGACTATAAGTCTAGCAGGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
6331255 T
1 T
6331256 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:6333916 original size:24 final size:25
Alignment explanation
Indices: 6333879--6333973 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 25
6333869 TATATGGCTA
* *
6333879 TTTGGTGCTTCCCGTTA-AGTGCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
*
6333903 TTTGGAGCTACCCGTTA-ATTGCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
*
6333927 TTCGGAG--ACCCGTTATAG-GCTC
1 TTTGGAGCTACCCGTTATAGTGCTC
* *
6333949 TTTGTGAGATTCCCGTTATAGTGCT
1 TTTG-GAGCTACCCGTTATAGTGCT
6333974 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:6335375 original size:7 final size:6
Alignment explanation
Indices: 6335332--6335382 Score: 75
Period size: 6 Copynumber: 8.2 Consensus size: 6
6335322 TGGTTTTCTC
*
6335332 AAAATG AAAATG GAAATG AAAATG AAAATG AAAATG AGAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A-AAATG
6335382 A
1 A
6335383 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:6340867 original size:19 final size:19
Alignment explanation
Indices: 6340845--6340888 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
6340835 GAAAAATGAG
6340845 TTTGAGAAAAAAAATTAAA
1 TTTGAGAAAAAAAATTAAA
** *
6340864 TTTGTTTAAAAAAAATTAAG
1 TTTG-AGAAAAAAAATTAAA
6340884 TTTGA
1 TTTGA
6340889 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:6350537 original size:126 final size:126
Alignment explanation
Indices: 6350230--6350681 Score: 737
Period size: 126 Copynumber: 3.6 Consensus size: 126
6350220 TTTTTAAGAT
*
6350230 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
6350295 GCTATAGTTGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTAT-AAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
* * *
6350355 AACGCTTCTAGCAGGATGCATTATGAGAACAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
* *
6350420 GCTACAGTAGGTCCTGAAAAAAATAATTTCGAGTTGATGTTTCTGAGCGAATAGTATAAAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
* * * * *
6350481 AACGCTTCTACCAGGATGCGTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACTCACTTTT
1 AACGCTTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTT
*
6350546 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA
66 GCTACAGTAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAA
* *
6350607 AACGCTTCCT-GCAGGGTGCTTTATGAAAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTT
1 AACGCTT-CTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTT
6350671 TGCTACAGTAG
65 TGCTACAGTAG
6350682 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:6353779 original size:53 final size:53
Alignment explanation
Indices: 6353716--6354060 Score: 552
Period size: 53 Copynumber: 6.5 Consensus size: 53
6353706 GATGGTTAGT
*
6353716 CAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
1 CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
* * * *
6353769 TAAATTATATCAAATTATTAATTGATCATTGTAGTAATTGTTAGTAAAA-TTA
1 CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
*
6353821 TCAAATTATATCTAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
1 -CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
6353875 CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
1 CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
*
6353928 CAAATTATATCAAATTATTAATTGATAATTGTAGTAATGGTTAGTAAAA-TTA
1 CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
* **
6353980 TCAAATTATATCAAATTATTAGTTGATAATTGTATTAATATTTAGTAAAATTGT-
1 -CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATT-TA
6354034 CAAATTATATCAAATTATTAATTGATA
1 CAAATTATATCAAATTATTAATTGATA
6354061 GTACCGGTCA
Statistics
Matches: 270, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
52 6 0.02
53 259 0.96
54 4 0.01
55 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (53 bp):
CAAATTATATCAAATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTA
Found at i:6353917 original size:159 final size:158
Alignment explanation
Indices: 6353683--6354060 Score: 608
Period size: 159 Copynumber: 2.4 Consensus size: 158
6353673 TATTTTTTTC
* *
6353683 AATTATTAATTGATAATTGTATTGATGGTTAG-------TCAAATTATATCTAATTATTAATTGA
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTCAAATTATATCAAATTATTAATTGA
* *
6353741 TAATTGTATTAATGGTTAGTAAAATTTATAAATTATATCAAATTATTAATTGATCATTGTAGTAA
66 TAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCAAATTATTAATTGATAATTGTAGTAA
* *
6353806 TTGTTAGTAAAATTATCAAATTATATCT
131 TGGTTAGTAAAATTATCAAATTATATCA
6353834 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTT-CAAATTATATCAAATTATTAATTG
6353899 ATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCAAATTATTAATTGATAATTGTAGTA
65 ATAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCAAATTATTAATTGATAATTGTAGTA
6353964 ATGGTTAGTAAAATTATCAAATTATATCA
130 ATGGTTAGTAAAATTATCAAATTATATCA
* **
6353993 AATTATTAGTTGATAATTGTATTAATATTTAGTAAAATTGTCAAATTATATCAAATTATTAATTG
1 AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATT-TCAAATTATATCAAATTATTAATTG
6354058 ATA
65 ATA
6354061 GTACCGGTCA
Statistics
Matches: 209, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
151 31 0.15
158 1 0.00
159 176 0.84
160 1 0.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (158 bp):
AATTATTAATTGATAATTGTATTAATGGTTAGTAAAATTTCAAATTATATCAAATTATTAATTGA
TAATTGTATTAATGGTTAGTAAAATTTACAAATTATATCAAATTATTAATTGATAATTGTAGTAA
TGGTTAGTAAAATTATCAAATTATATCA
Found at i:6354234 original size:22 final size:22
Alignment explanation
Indices: 6354163--6354235 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
6354153 TATATTTAAG
* *
6354163 TTAAGGGTTAGAGTTTTTAGGT
1 TTAAGGTTTAGAGGTTTTAGGT
* *
6354185 TTAGGGTTTA-AGGTTTTATAGT
1 TTAAGGTTTAGAGGTTTTA-GGT
* *
6354207 TAAAGGTTTAGGGGTTTTAGGT
1 TTAAGGTTTAGAGGTTTTAGGT
6354229 TTAAGGT
1 TTAAGGT
6354236 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:6354281 original size:22 final size:22
Alignment explanation
Indices: 6354157--6354419 Score: 69
Period size: 22 Copynumber: 11.9 Consensus size: 22
6354147 TCAAATTATA
* *
6354157 TTTAAGTTAAG-GGTTAGAGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * * *
6354178 TTTAGGTTTAGGGTTTAAGG-T
1 TTTAAGTTAAGAGTTTAGGGTT
*
6354199 TTTATAGTTAA-AGGTTTAGGGGT
1 TTTA-AGTTAAGA-GTTTAGGGTT
* ** *
6354222 TTTAGGTTTAAG-GTCAAGGTTT
1 TTTAAG-TTAAGAGTTTAGGGTT
** *
6354244 TTTATTTTATGA-TTTAGGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
*
6354265 TTTAAGTTAAGAGTTTAGAATTTAGGGT
1 TTTAAGTTAAGAGTTTAG------GGTT
* * * *
6354293 TTAAAATTTAGAATTT-GGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * * *
6354314 TTTAGGTTTAG-GATTAGTGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * *
6354335 TTTAATTTAAAAG-TTCGGGTT
1 TTTAAGTTAAGAGTTTAGGGTT
* * *
6354356 TTAAAAGTTTAGGGTTTAGGGTT
1 TT-TAAGTTAAGAGTTTAGGGTT
* *
6354379 TTTTAGTTAA-AGGTTTATGGTT
1 TTTAAGTTAAGA-GTTTAGGGTT
6354401 TTTAAGTTTAA-AGTTTAGG
1 TTTAAG-TTAAGAGTTTAGG
6354420 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:6354323 original size:21 final size:21
Alignment explanation
Indices: 6354276--6354386 Score: 64
Period size: 21 Copynumber: 5.2 Consensus size: 21
6354266 TTAAGTTAAG
*
6354276 AGTTTAGAATTTAGGG-TTTAA
1 AGTTTAGAATTT-GGGTTTTTA
*
6354297 AATTTAGAATTTGGGTTTTTA
1 AGTTTAGAATTTGGGTTTTTA
* * * *
6354318 GGTTTAGGATTAGTGTTTTTA
1 AGTTTAGAATTTGGGTTTTTA
* * *
6354339 A-TTTAAAAGTTCGGGTTTTAAA
1 AGTTTAGAA-TTTGGGTTTT-TA
** *
6354361 AGTTTAGGGTTTAGGGTTTTTT
1 AGTTTAGAATTT-GGGTTTTTA
6354383 AGTT
1 AGTT
6354387 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:6354471 original size:21 final size:21
Alignment explanation
Indices: 6354447--6354727 Score: 114
Period size: 21 Copynumber: 13.4 Consensus size: 21
6354437 TTAGGTTGAG
6354447 GGTTTAAGGTTTTTAGTTTAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
6354468 GGTTTAGGGTTTTTA-ATTAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
6354488 GGGTTAAGGGTTTTAAGTTT-A
1 GGTTTAA-GGTTTTTAGTTTAA
* * *
6354509 GGGTT-AGTTTTTTTAATTTAA
1 GGTTTAAG-GTTTTTAGTTTAA
* * * *
6354530 GGGTTAGGGTTTTAAGTGTTTCA
1 GGTTTAAGGTTTTTA--GTTTAA
* * *
6354553 GATTTAGGGTTTTTAGTTAAA
1 GGTTTAAGGTTTTTAGTTTAA
* *
6354574 GGTTTATGATTTTTAGGTTTAA
1 GGTTTAAGGTTTTTA-GTTTAA
* *
6354596 AGTTTTAGG-----A-TTTAA
1 GGTTTAAGGTTTTTAGTTTAA
* * *** * *
6354611 GGTTTATGTTTTCAGGATAAGA
1 GGTTTAAGGTTTTTAGTTTA-A
* *
6354633 GG-TTAGGGTTTTTTAGTTTAT
1 GGTTTAAGG-TTTTTAGTTTAA
* *
6354654 GGTTTAGGGTTTTTAGGTTAA
1 GGTTTAAGGTTTTTAGTTTAA
*
6354675 GAGTTTAAAGTTTTTAGTTTAA
1 G-GTTTAAGGTTTTTAGTTTAA
*
6354697 GGGTTTATGGTTTTTAAGTTTAA
1 -GGTTTAAGGTTTTT-AGTTTAA
*
6354720 GATTTAAG
1 GGTTTAAG
6354728 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:6354479 original size:14 final size:14
Alignment explanation
Indices: 6354406--6354479 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
6354396 TGGTTTTTAA
*
6354406 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGG
* *
6354420 ATTT-AGAGTTTATG
1 GTTTAAG-GTTTAGG
* * *
6354434 ATTTTAGGTTGAGG
1 GTTTAAGGTTTAGG
***
6354448 GTTTAAGGTTTTTA
1 GTTTAAGGTTTAGG
6354462 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
6354476 GTTT
1 GTTT
6354480 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:6354522 original size:41 final size:43
Alignment explanation
Indices: 6354445--6354546 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 43
6354435 TTTTAGGTTG
* *
6354445 AGGGTTTAA-GGTTTTTAGTTTAAGGTTTAGGGTTTTTAA-TTA
1 AGGG-TTAAGGGTTTTAAGTTTAAGGGTTAGGGTTTTTAATTTA
**
6354487 AGGGTTAAGGGTTTTAAGTTT-AGGGTTAGTTTTTTTAATTTA
1 AGGGTTAAGGGTTTTAAGTTTAAGGGTTAGGGTTTTTAATTTA
6354529 AGGGTT-AGGGTTTTAAGT
1 AGGGTTAAGGGTTTTAAGT
6354547 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:6354542 original size:185 final size:186
Alignment explanation
Indices: 6354313--6354668 Score: 490
Period size: 185 Copynumber: 1.9 Consensus size: 186
6354303 GAATTTGGGT
* * *
6354313 TTTTAGGTTTAGGATTAGTGTTTTTAATTTAAAAGTTCGGGTTTTAAAAGTTT-AGGGTTTAGGG
1 TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGGGTTTTAAAAGTTTCA-GATTTAGGG
*
6354377 TTTTTTAGTTAAAGGTTTATGGTTTTTAAGTTTAAAG-TTTAGGATTT-AGAGTTTATGATTTT-
65 -TTTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGGATTTAAG-GTTTATG-TTTTC
* *
6354439 AGGTTGAG-GGTTTAAGG-TTTTTAGTTTAAGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
127 AGGATAAGAGG-TTAAGGTTTTTTAGTTTAAGGTTTAGGGTTTTTAATTAAGGGTTAAGGG
* * ** **
6354498 TTTTAAGTTTAGGGTTAGTTTTTTTAATTTAAGGGTTAGGGTTTTAAGTGTTTCAGATTTAGGGT
1 TTTTAAGTTTAGGATTAGTGTTTTTAATTTAAAAGTTAGGGTTTTAAAAGTTTCAGATTTAGGGT
*
6354563 TTTTAGTTAAAGGTTTATGATTTTTAGGTTTAAAGTTTTAGGATTTAAGGTTTATGTTTTCAGGA
66 TTTTAGTTAAAGGTTTATGATTTTTAAGTTTAAAGTTTTAGGATTTAAGGTTTATGTTTTCAGGA
* *
6354628 TAAGAGGTTAGGGTTTTTTAGTTTATGGTTTAGGGTTTTTA
131 TAAGAGGTTAAGGTTTTTTAGTTTAAGGTTTAGGGTTTTTA
6354669 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:6354660 original size:22 final size:21
Alignment explanation
Indices: 6354635--6354752 Score: 92
Period size: 22 Copynumber: 5.4 Consensus size: 21
6354625 GGATAAGAGG
*
6354635 TTAGGGTTTTTTAGTTTATGGT
1 TTAGGG-TTTTTAGTTTAAGGT
*
6354657 TTAGGGTTTTTAGGTTAAGAGT
1 TTAGGGTTTTTAGTTTAAG-GT
**
6354679 TTAAAGTTTTTAGTTTAAGGGT
1 TTAGGGTTTTTAGTTTAA-GGT
* *
6354701 TTATGGTTTTTAAGTTTAAGAT
1 TTAGGGTTTTT-AGTTTAAGGT
* * * * *
6354723 TTAAGATTTATAATTTTAGGT
1 TTAGGGTTTTTAGTTTAAGGT
*
6354744 TAAGGGTTT
1 TTAGGGTTT
6354753 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:6354726 original size:44 final size:43
Alignment explanation
Indices: 6354590--6354726 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 43
6354580 TGATTTTTAG
* * * *
6354590 GTTTAAAG-TTTTAGGATTTAAGGTTTA-TGTTTTCAGGATAAGA
1 GTTTAAAGTTTTTA-G-TTTAGGGTTTAGGGTTTTTAGGTTAAGA
* ** *
6354633 GGTTAGGGTTTTTTAGTTTATGGTTTAGGGTTTTTAGGTTAAGA
1 GTTTAAAG-TTTTTAGTTTAGGGTTTAGGGTTTTTAGGTTAAGA
* *
6354677 GTTTAAAGTTTTTAGTTTAAGGGTTTATGGTTTTTAAGTTTAAGA
1 GTTTAAAGTTTTTAGTTT-AGGGTTTAGGGTTTTT-AGGTTAAGA
6354722 -TTTAA
1 GTTTAA
6354727 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:6354747 original size:50 final size:50
Alignment explanation
Indices: 6354686--6354781 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
6354676 AGTTTAAAGT
*
6354686 TTTTAGTTTAAGGGTTTATGG-TTTTTAAGTTTAAGATTTAAGATTTATAA
1 TTTTAGGTTAAGGGTTTA-GGTTTTTTAAGTTTAAGATTTAAGATTTATAA
* * *
6354736 TTTTAGGTTAAGGGTTTAGGTTTTTTTAGTTTATGATTTAGGATTT
1 TTTTAGGTTAAGGGTTTAGGTTTTTTAAGTTTAAGATTTAAGATTT
6354782 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:6354761 original size:22 final size:21
Alignment explanation
Indices: 6354736--6354812 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
6354726 AGATTTATAA
6354736 TTTTAGGTTAAGGGTTTAGGTTT
1 TTTTA-GTTAAGGGTTTAGG-TT
* * *
6354759 TTTTAGTTTATGATTTAGGATT
1 TTTTAGTTAAGGGTTTAGG-TT
* * *
6354781 TTTAAGTTAAGAGTTTCGGTTT
1 TTTTAGTTAAGGGTTTAGG-TT
6354803 TTTTAGTTAA
1 TTTTAGTTAA
6354813 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:6354876 original size:15 final size:16
Alignment explanation
Indices: 6354856--6354888 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6354846 GTGTTTTTAA
6354856 TTTAAG-GGTTAGGGT
1 TTTAAGAGGTTAGGGT
*
6354871 TTTAAGAGTTTAGGGT
1 TTTAAGAGGTTAGGGT
6354887 TT
1 TT
6354889 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:6354912 original size:37 final size:35
Alignment explanation
Indices: 6354871--6354942 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 35
6354861 GGGTTAGGGT
*
6354871 TTTAAGAG-TTTAGGGTTTATAATTTTTAGGTTTAAGG
1 TTTAAG-GTTTTAGGGTTTAT-ATTTTTAAG-TTAAGG
6354908 TTTAAGGTTTTAGGGTTTATATTTTTAAGTTAAGG
1 TTTAAGGTTTTAGGGTTTATATTTTTAAGTTAAGG
6354943 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:6354919 original size:15 final size:15
Alignment explanation
Indices: 6354856--6354926 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
6354846 GTGTTTTTAA
* *
6354856 TTTAAGGGTTAGGGT
1 TTTAAGGTTTAAGGT
*
6354871 TTTAAGAGTTTAGGGT
1 TTTAAG-GTTTAAGGT
* *
6354887 TTATAA-TTTTTAGG-
1 TT-TAAGGTTTAAGGT
6354901 TTTAAGGTTTAAGGT
1 TTTAAGGTTTAAGGT
*
6354916 TTTAGGGTTTA
1 TTTAAGGTTTA
6354927 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:6364389 original size:42 final size:42
Alignment explanation
Indices: 6364337--6364420 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
6364327 GTCGCCTTGG
6364337 GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGA
1 GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGA
* *
6364379 GAAAGAGTCTACTAGATTGCCAAGACGAGAATACGGAGTTGA
1 GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGA
6364421 AGGTCCAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (42 bp):
GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGA
Found at i:6371643 original size:53 final size:53
Alignment explanation
Indices: 6371559--6371662 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
6371549 TAAAATTAAG
* *
6371559 CATCATAACTCATCGCCGTATCGTCCCAAAATGAATGGTGCAGTGGAGGCAAA
1 CATCATAACTCATCGCCATATCGTCCAAAAATGAATGGTGCAGTGGAGGCAAA
6371612 CATCATAACTCATCGCCATATCGTCCAAAAATGAATGGTGCAGTGGAGGCA
1 CATCATAACTCATCGCCATATCGTCCAAAAATGAATGGTGCAGTGGAGGCA
6371663 GCTAATAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (53 bp):
CATCATAACTCATCGCCATATCGTCCAAAAATGAATGGTGCAGTGGAGGCAAA
Found at i:6373582 original size:44 final size:46
Alignment explanation
Indices: 6373468--6373582 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
6373458 ATACAGGTCT
* * *
6373468 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
6373514 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
6373558 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
6373583 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:6373641 original size:41 final size:41
Alignment explanation
Indices: 6373594--6373969 Score: 216
Period size: 41 Copynumber: 8.7 Consensus size: 41
6373584 GATTATAGGA
* *
6373594 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
* * *
6373635 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATC---GAA-T-CAGG
* * * * **
6373681 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCG-A-ATCA-GG
* * ** ** *
6373724 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAATAAAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGA-T-CGAAT-CAGG
* *
6373768 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
* * *
6373810 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATC---GAA-T-CAGG
* * ** ** *
6373856 TCTTATCCCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATC--AGG
* * * *
6373899 ATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
* **
6373941 AT-TTATCTCCCTGTGGTTACAGTGGAGTA
1 -TCTTATCTCTCTGAAGTTACAGTGGAGTA
6373970 CATTGAAGCC
Statistics
Matches: 255, Mismatches: 59, Indels: 42
0.72 0.17 0.12
Matches are distributed among these distances:
41 82 0.32
42 9 0.04
43 37 0.15
44 36 0.14
45 30 0.12
46 61 0.24
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAATCAGG
Found at i:6373685 original size:46 final size:45
Alignment explanation
Indices: 6373592--6373882 Score: 246
Period size: 46 Copynumber: 6.6 Consensus size: 45
6373582 CGGATTATAG
* *
6373592 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
* * *
6373633 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATT-CA
* * * *
6373679 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAAT-TCA
* * ** * * **
6373723 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAAATAAA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
* *
6373766 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 -GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
* * *
6373808 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATT-CA
* *
6373854 GATCTTATCCCCCTGAAGTTACAGTGGAG
1 GATCTTATCTCTCTGAAGTTACAGTGGAG
6373883 CGGATTAAAA
Statistics
Matches: 199, Mismatches: 35, Indels: 27
0.76 0.13 0.10
Matches are distributed among these distances:
41 62 0.31
42 3 0.02
43 33 0.17
44 5 0.03
45 32 0.16
46 64 0.32
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
GATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGAAGAATTCA
Found at i:6373817 original size:175 final size:170
Alignment explanation
Indices: 6373461--6373883 Score: 652
Period size: 175 Copynumber: 2.5 Consensus size: 170
6373451 GTTCATAATA
* * ** * *
6373461 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
* *
6373526 ATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTATA
66 GTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTATA
6373591 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
6373631 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
* *
6373696 GTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAA
66 GTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGATT--
6373759 AAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
128 --AT--AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* *
6373806 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAA
1 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
*
6373871 GTTACAGTGGAGC
66 GTTACAGCGGAGC
6373884 GGATTAAAAC
Statistics
Matches: 233, Mismatches: 13, Indels: 9
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
175 116 0.50
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (170 bp):
CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
GTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTATA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:6373930 original size:131 final size:130
Alignment explanation
Indices: 6373679--6373969 Score: 428
Period size: 131 Copynumber: 2.2 Consensus size: 130
6373669 AAGAATTGCA
* * * *
6373679 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATATAATCCTATCCCCCTGAAGTTAC
* *
6373744 AGTGGAGCGGATTAAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 AGTGGAGCGGATTAAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
* *
6373809 G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATA-T--A-ATCCTATCCCCCTGAAG
*
6373872 TTACAGTGGAGCGGATT-AAAACAAAGGATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCA
62 TTACAGTGGAGCGGATTAAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA
6373936 TCAG
127 TCAG
*
6373940 GAT-TTATCTCCCTGTGGTTACAGTGGAGTA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTA
6373970 CATTGAAGCC
Statistics
Matches: 145, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
128 1 0.01
129 35 0.24
130 1 0.01
131 75 0.52
132 33 0.23
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (130 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATATAATCCTATCCCCCTGAAGTTAC
AGTGGAGCGGATTAAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
Found at i:6376075 original size:5 final size:5
Alignment explanation
Indices: 6376061--6376089 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
6376051 ACATAAGTGC
6376061 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
6376090 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:6379233 original size:15 final size:16
Alignment explanation
Indices: 6379215--6379244 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6379205 TTTTTCTAAA
6379215 CTCTAATTTT-AATTT
1 CTCTAATTTTCAATTT
6379230 CTCTAATTTTCAATT
1 CTCTAATTTTCAATT
6379245 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:6391884 original size:3 final size:3
Alignment explanation
Indices: 6391876--6391906 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
6391866 TGTTCTCGAT
6391876 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
6391907 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:6400496 original size:29 final size:29
Alignment explanation
Indices: 6400436--6400507 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
6400426 AAATGGACTT
* ***
6400436 ACACGCCCGTGTGGTCCACACAGCTTTGC
1 ACACGCCCGTGTGGCCCACACAGCTCACC
*
6400465 ACACGTCCGTGTGGCCCACACAGCTCACC
1 ACACGCCCGTGTGGCCCACACAGCTCACC
*
6400494 ACACGCCCATGTGG
1 ACACGCCCGTGTGG
6400508 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:6407744 original size:61 final size:60
Alignment explanation
Indices: 6407648--6407825 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 60
6407638 ATTGCGAGGT
* * *
6407648 CAATGGTGTTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCTGGGC
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTTGTGTAGTAGGCTGCCGAGC
* * *
6407708 ATAATGGTGCTTGGTTGATATGGGCATCATAGAAATGG-TTTCTTGGTTAATAGGCTGCCGAGC
1 -CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGCTTT-GT-G-TAGTAGGCTGCCGAGC
* * *
6407771 CAATGGTGCTTGGTTAAAATGGGCA-CTATACAAATGGTTCTTTGTGTAGTAGGCT
1 CAATGGTGCTTGGTTGATATGGGCATC-ATAGAAATGG--CTTTGTGTAGTAGGCT
6407826 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:6407824 original size:62 final size:63
Alignment explanation
Indices: 6407648--6407825 Score: 222
Period size: 61 Copynumber: 2.9 Consensus size: 63
6407638 ATTGCGAGGT
* * *
6407648 CAATGGTGTTTGGTTGATATGGGCATCATAGAAATGG--CTTTGTGTAGTAGGCTGCTGGGCA
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTCTTTGTGTAGTAGGCTGCCGAGCA
* * *
6407709 TAATGGTGCTTGGTTGATATGGGCATCATAGAAATGGTTTCTTGGT-TAATAGGCTGCCGAGC-
1 CAATGGTGCTTGGTTGATATGGGCATCATAGAAATGG-TTCTTTGTGTAGTAGGCTGCCGAGCA
* * *
6407771 CAATGGTGCTTGGTTAAAATGGGCA-CTATACAAATGGTTCTTTGTGTAGTAGGCT
1 CAATGGTGCTTGGTTGATATGGGCATC-ATAGAAATGGTTCTTTGTGTAGTAGGCT
6407826 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:6414831 original size:24 final size:24
Alignment explanation
Indices: 6414803--6414851 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6414793 AGATATGTCA
*
6414803 TCATTGTTTATAATTTTAATTTTT
1 TCATTGTTTATAAATTTAATTTTT
*
6414827 TCATTTTTTATAAATTTAATTTTT
1 TCATTGTTTATAAATTTAATTTTT
6414851 T
1 T
6414852 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:6417669 original size:29 final size:29
Alignment explanation
Indices: 6417602--6417681 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
6417592 ATCTCAAATA
* * *
6417602 TATACATGAACTTTGGTCTAATGTTCAATTC
1 TATACATGAACTTTGAT-T-TTGTGCAATTC
*
6417633 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTGCAATTC
6417662 TATACATGAAACTTTGATTT
1 TATACATG-AACTTTGATTT
6417682 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:6417690 original size:30 final size:29
Alignment explanation
Indices: 6417602--6417692 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
6417592 ATCTCAAATA
* * *
6417602 TATACATGAACTTTGGTCTAATGTTCAATTC
1 TATACATGAACTTTGATTTAA--TCCAATTC
** * *
6417633 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTAATCCAATTC
6417662 TATACATGAAACTTTGATTTAATCCAATTC
1 TATACATG-AACTTTGATTTAATCCAATTC
6417692 T
1 T
6417693 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:6418491 original size:14 final size:14
Alignment explanation
Indices: 6418472--6418502 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6418462 TGAATTGTTT
*
6418472 TAATCTAAATTTAC
1 TAATCTAAATTAAC
6418486 TAATCTAAATTAAC
1 TAATCTAAATTAAC
6418500 TAA
1 TAA
6418503 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:6419382 original size:30 final size:30
Alignment explanation
Indices: 6419325--6419382 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
6419315 CACGAGCTGG
* * * *
6419325 CACATGGGCATGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGCCCAGCACATGTGGCT
*
6419355 CACACGGGCGTGTGCCCAGCACATGTGG
1 CACACGGGCATGTGCCCAGCACATGTGG
6419383 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:6420559 original size:7 final size:7
Alignment explanation
Indices: 6420544--6420574 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6420534 TTAATTTAAA
6420544 ATATA-T
1 ATATATT
6420550 ATATATT
1 ATATATT
6420557 ATATATT
1 ATATATT
6420564 ATATATT
1 ATATATT
6420571 ATAT
1 ATAT
6420575 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:6420616 original size:11 final size:11
Alignment explanation
Indices: 6420600--6420628 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6420590 TAAGTTGTTA
6420600 TATTATATTAT
1 TATTATATTAT
6420611 TATTATATTAT
1 TATTATATTAT
6420622 TA-TATAT
1 TATTATAT
6420629 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:6421724 original size:25 final size:25
Alignment explanation
Indices: 6421696--6421780 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
6421686 GAACTTTAGC
**
6421696 GTGCTCTCTGATTATTAGCACGTTG
1 GTGCTCTCTGATTATTAGCACGTCA
6421721 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
* *
6421746 ATGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
6421771 GTGCTCTCTG
1 GTGCTCTCTG
6421781 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:6421775 original size:50 final size:47
Alignment explanation
Indices: 6421697--6421826 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 47
6421687 AACTTTAGCG
* ** *
6421697 TGCTCTCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCACGTCAA
1 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTG--T-TTAGCACATCAA
*
6421747 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCTA
1 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTTTAGCACATCAA
* * *
6421794 TGCTCTCTG--TA-TAGCACTTTACTGCTCTCTGTT
1 TGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGTT
6421827 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:6421797 original size:22 final size:23
Alignment explanation
Indices: 6421735--6421826 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 23
6421725 TCTCTGATTA
*
6421735 TTAGCACGTC-AATGCTCTCTGAT
1 TTAGCACGTCTACTGCTCTCTG-T
*
6421758 TACTAGCACGTC-AGTGCTCTCTGT
1 T--TAGCACGTCTACTGCTCTCTGT
*
6421782 TTAGCACATCTA-TGCTCTCTGT
1 TTAGCACGTCTACTGCTCTCTGT
* *
6421804 ATAGCAC-TTTACTGCTCTCTGT
1 TTAGCACGTCTACTGCTCTCTGT
6421826 T
1 T
6421827 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:6424587 original size:40 final size:41
Alignment explanation
Indices: 6424543--6424726 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
6424533 GCTCCTCGTT
* *
6424543 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCA
* * *
6424583 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCA
*
6424623 CAAATGCCTTCGGG-CTTAGCCCGAAAT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCA
* * *
6424662 CAAATGCCTTCGGG-CTTAGCCCGGAATATTGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-AATTCGCA
6424703 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6424727 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 52 0.41
40 67 0.53
41 5 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCA
Found at i:6424645 original size:79 final size:82
Alignment explanation
Indices: 6424543--6424726 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 82
6424533 GCTCCTCGTT
* **
6424543 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAACCC
*
6424606 GG-AT-TTAGTAAC-TCGCA
64 GGAATATT-GTAACTTAGCA
*
6424623 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGG
*
6424686 AATATTGTCACTTAGCA
66 AATATTGTAACTTAGCA
6424703 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6424727 CATCATTCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
78 22 0.24
79 46 0.51
80 23 0.25
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGG
AATATTGTAACTTAGCA
Found at i:6424664 original size:39 final size:39
Alignment explanation
Indices: 6424543--6424684 Score: 182
Period size: 39 Copynumber: 3.6 Consensus size: 39
6424533 GCTCCTCGTT
* *
6424543 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGT-ATCTCGCA
* *
6424583 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTATCTCGCA
*
6424623 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTATCTCGCA
6424662 CAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
6424685 GAATATTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 44 0.48
40 44 0.48
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTATCTCGCA
Found at i:6424888 original size:134 final size:134
Alignment explanation
Indices: 6424648--6424918 Score: 508
Period size: 134 Copynumber: 2.0 Consensus size: 134
6424638 TTAGCCCGAA
6424648 ATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATATTGTCACTTAGCACAAGCCTTCG
1 ATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATATTGTCACTTAGCACAAGCCTTCG
6424713 GGACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCCCATTCGTA
66 GGACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCCCATTCGTA
6424778 TTTC
131 TTTC
* *
6424782 ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATTGTCACTTAGCACAAGCCTTC
1 ATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGGAATATTGTCACTTAGCACAAGCCTTC
6424846 GGGACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCCCATTCGT
65 GGGACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCCCATTCGT
6424911 ATTTC
130 ATTTC
6424916 ATT
1 ATT
6424919 TTCGTTAGCA
Statistics
Matches: 134, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
134 125 0.93
135 9 0.07
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (134 bp):
ATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATATTGTCACTTAGCACAAGCCTTCG
GGACTTAGCCCGGACATCATTCAAATAACCATGCACATTTAACAATAAATCATGGCCCATTCGTA
TTTC
Found at i:6428058 original size:13 final size:13
Alignment explanation
Indices: 6428040--6428072 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6428030 TGGTTATCTA
*
6428040 TATTTTTTGTTTT
1 TATTTTTTATTTT
6428053 TA-TTTTTATTTT
1 TATTTTTTATTTT
6428065 TATTTTTT
1 TATTTTTT
6428073 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:6435513 original size:30 final size:31
Alignment explanation
Indices: 6435458--6435528 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
6435448 TAGTAAAGTT
6435458 AAAATTAAATTTTAACTTCTCAAAA-TAATA
1 AAAATTAAATTTTAACTTCTCAAAATTAATA
* *
6435488 AAAATTTAATTTTAATCCTT-T-AAAATTTATA
1 AAAATTAAATTTTAA--CTTCTCAAAATTAATA
6435519 AAAATATAAA
1 AAAAT-TAAA
6435529 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:6439051 original size:16 final size:18
Alignment explanation
Indices: 6439016--6439054 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
6439006 AACATAATTT
6439016 TTTTTGAAAAAACGGAAA
1 TTTTTGAAAAAACGGAAA
*
6439034 TTTTTG-AAACAC-GAAA
1 TTTTTGAAAAAACGGAAA
6439050 TTTTT
1 TTTTT
6439055 TTGAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (18 bp):
TTTTTGAAAAAACGGAAA
Found at i:6439062 original size:19 final size:19
Alignment explanation
Indices: 6439014--6439069 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
6439004 ATAACATAAT
*
6439014 TTTTTTTGAAAAAACGGAAA
1 TTTTTTTGAAAACAC-GAAA
6439034 --TTTTTG-AAACACGAAA
1 TTTTTTTGAAAACACGAAA
*
6439050 TTTTTTTGAAAACAAGAAA
1 TTTTTTTGAAAACACGAAA
6439069 T
1 T
6439070 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 4 0.13
17 5 0.16
18 12 0.39
19 10 0.32
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (19 bp):
TTTTTTTGAAAACACGAAA
Found at i:6439328 original size:23 final size:20
Alignment explanation
Indices: 6439302--6439356 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 20
6439292 AAATTATTCG
6439302 AATTAAAAAATCAAATAAAATAA
1 AATTAAAAAAT-AAAT-AAA-AA
*
6439325 AATTAAGAATATAAATAAAAA
1 AATTAA-AAAATAAATAAAAA
6439346 AA-TAAAAAATA
1 AATTAAAAAATA
6439357 CTTAAAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 4 0.14
22 3 0.10
23 10 0.34
24 4 0.14
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AATTAAAAAATAAATAAAAA
Found at i:6439857 original size:18 final size:18
Alignment explanation
Indices: 6439830--6439883 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
6439820 CAGAATGTAG
6439830 TTTTTT-TTTCTCTTT-TT
1 TTTTTTCTTTC-CTTTCTT
6439847 TTTTTTCTTTCCTTTCTT
1 TTTTTTCTTTCCTTTCTT
* *
6439865 TTTCTTCTTCTCCCTTCTT
1 TTTTTTCTT-TCCTTTCTT
6439884 CTTCCTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 10 0.31
18 14 0.44
19 8 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTCTTTCCTTTCTT
Found at i:6439882 original size:19 final size:18
Alignment explanation
Indices: 6439845--6439894 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6439835 TTTTCTCTTT
* *
6439845 TTTTTTTTCTTTCCTTTC
1 TTTTTCTTCTTTCCCTTC
6439863 TTTTTCTTCTTCTCCCTTC
1 TTTTTCTTCTT-TCCCTTC
* *
6439882 TTCTTCCTCTTTC
1 TTTTTCTTCTTTC
6439895 GGCCCTACCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTCTTCTTTCCCTTC
Found at i:6440006 original size:15 final size:15
Alignment explanation
Indices: 6439984--6440043 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
6439974 CTTTCTCTTC
6439984 TCTCTTTCTTTATCT
1 TCTCTTTCTTTATCT
* *
6439999 TTTCTTTCTTTTTCT
1 TCTCTTTCTTTATCT
*
6440014 TCT-TTTCTTTCTTCT
1 TCTCTTTCTTT-ATCT
6440029 T-TCTTT-TTT-TCT
1 TCTCTTTCTTTATCT
6440041 TCT
1 TCT
6440044 TTCTTCCTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 4 0.10
13 1 0.03
14 11 0.28
15 23 0.59
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTCTTTCTTTATCT
Found at i:6440013 original size:29 final size:29
Alignment explanation
Indices: 6439964--6440048 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 29
6439954 TCACCGATGC
* *
6439964 TTATCCTTTCCTTTC-TCTTCTCTCTTTCT
1 TTAT-CTTTTCTTTCTTTTTCTCTCTTTCT
6439993 TTATCTTTTCTTTCTTTTTCT-TCTTT-T
1 TTATCTTTTCTTTCTTTTTCTCTCTTTCT
*
6440020 CTT-TC--TTCTTTCTTTTTTTCTTCTTTCT
1 -TTATCTTTTCTTTCTTTTTCTC-TCTTTCT
6440048 T
1 T
6440049 CCTCCTCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
25 13 0.27
27 9 0.19
28 17 0.35
29 9 0.19
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (29 bp):
TTATCTTTTCTTTCTTTTTCTCTCTTTCT
Found at i:6440019 original size:18 final size:18
Alignment explanation
Indices: 6439996--6440045 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
6439986 TCTTTCTTTA
6439996 TCTTTTCTTTCTTTTTCT
1 TCTTTTCTTTCTTTTTCT
6440014 TCTTTTCTTTCTTCTTTCT
1 TCTTTTCTTTCTT-TTTCT
*
6440033 TTTTTTC-TTCTTT
1 TCTTTTCTTTCTTT
6440046 CTTCCTCCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 1 0.03
18 18 0.60
19 11 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTTCTTTCTTTTTCT
Found at i:6440044 original size:15 final size:15
Alignment explanation
Indices: 6439999--6440048 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
6439989 TTCTTTATCT
*
6439999 TTTCTTTCTTT-TTC
1 TTTCTTTTTTTCTTC
6440013 -TTCTTTTCTTTCTTC
1 TTTCTTTT-TTTCTTC
6440028 TTTCTTTTTTTCTTC
1 TTTCTTTTTTTCTTC
6440043 TTTCTT
1 TTTCTT
6440049 CCTCCTCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.19
14 3 0.09
15 16 0.50
16 7 0.22
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTTTCTTC
Found at i:6441492 original size:6 final size:6
Alignment explanation
Indices: 6441482--6441534 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
6441472 TTCCCACTCA
* * *
6441482 TAATAA TAATAC TAATAA TAATAC TAATAC TAATAC TAATAC TAATAT
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC
6441530 TAATA
1 TAATA
6441535 GTTACCTCAC
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:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (6 bp):
TAATAC
Found at i:6455914 original size:44 final size:43
Alignment explanation
Indices: 6455808--6456282 Score: 285
Period size: 44 Copynumber: 10.9 Consensus size: 43
6455798 AATATTAGAG
* *
6455808 ATCTTATCTCCCTG-AGATTACAGTGGAGCAGATCGTA--TCAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGCACAA
* * *
6455849 GTCTTATCTCCCTG-AGATTACAGAGGAGCAGATCGGAGCCACAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAG-CACAA
* * * * **
6455893 ACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATACAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAA-GCACAA
* * * * *
6455937 GTCTTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
1 ATCTTATCTCCCTGAA-GTTACAGTGGAGCAGATCGAAGCA---CAA
* * *
6455983 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAG-CACAA
* * *
6456027 ATCTTATCTTCCTG-AGTTTACAGCGGAGCAGATCGAAG-ACACT
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGCACA-A
* ** **
6456070 ATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA-AA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCACAA
* * * * *
6456112 TGATCTTATCTCTCTGAATTTACAGTAGAGTAGATC---GCATCAG
1 --ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCA-CAA
* * * * *
6456155 GTCTTATCTCCCTGATA-TTACAATGGAGCAGACCGAAGGATTTCAG
1 ATCTTATCTCCCTGA-AGTTACAGTGGAGCAGATCGAAGCA---CAA
* * * *
6456201 ATCTTATCTCCCTTAGGTTACAGTGGAACAGATTGAAGC-CAGA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCACA-A
*
6456244 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAG
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAG
6456283 ACACTATCCT
Statistics
Matches: 331, Mismatches: 74, Indels: 55
0.72 0.16 0.12
Matches are distributed among these distances:
41 61 0.18
42 5 0.02
43 36 0.11
44 158 0.48
45 2 0.01
46 67 0.20
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGCACAA
Found at i:6456032 original size:90 final size:84
Alignment explanation
Indices: 6455806--6456277 Score: 303
Period size: 90 Copynumber: 5.4 Consensus size: 84
6455796 TGAATATTAG
* * *
6455806 AGATCTTATCTCCCTG-AGATTACAGTGGAGCAGATCGTATC-AAGTCTTATCTCCCTGAGATTA
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAACAAAGTCTTATCTCCCTGAGATTA
*
6455869 CAGAGGAGCAGATCGGAGCCAC
65 CAGAGGAGCAGATCGAAG--AC
* * * * * * *
6455891 AAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATACAAGTCTTATCTCCCTAAGGTT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-ACA-AAGTCTTATCTCCCTGAGATT
* * *
6455956 ACAGTGGAGTAGACCGAAGAATTTC
64 ACAGAGGAGCAGATCGAAG-A---C
* * * * *
6455981 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTTT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-ACA-AAGTCTTATCTCCCTGAGATT
*
6456046 ACAGCGGAGCAGATCGAAGAC
64 ACAGAGGAGCAGATCGAAGAC
* * * * *
6456067 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGA-AT
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAAA-G-TCTTATCTCCCTGAGA-
* * *
6456131 TTACAGTA-GAGTAGATCGCA-TC
62 TTACAG-AGGAGCAGATCGAAGAC
* * ** * *
6456153 AGGTCTTATCTCCCTGATA-TTACAATGGAGCAGACCGAAGGATTTCAGA-TCTTATCTCCCTTA
1 AGATCTTATCTCCCTGA-AGTTACAGTGGAGCAGATTGAA--A---CAAAGTCTTATCTCCCTGA
* * * * *
6456216 GGTTACAGTGGAACAGATTGAAGCCAG
60 GATTACAGAGGAGCAGATCGAAG--AC
*
6456243 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGAT
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGAT
6456278 CGAAGACACT
Statistics
Matches: 294, Mismatches: 68, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
85 61 0.21
86 8 0.03
87 90 0.31
88 35 0.12
89 1 0.00
90 99 0.34
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (84 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAAAGTCTTATCTCCCTGAGATTAC
AGAGGAGCAGATCGAAGAC
Found at i:6456048 original size:134 final size:133
Alignment explanation
Indices: 6455850--6456097 Score: 320
Period size: 134 Copynumber: 1.9 Consensus size: 133
6455840 TCGTATCAAG
*
6455850 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGGAGCCACAAACCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTACA
* * * * * * *
6455915 GTGGGGCAGGTTGAATATACAAGTCTTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAAGAATT
66 GCGGAGCAGATCGAAGACACAA-TCCTATCTCCCTGAA-GTTACAGTGGAGTAGACCGAAGAATT
6455979 TCAGA
129 TCAGA
* * * * * *
6455984 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTG-AGTTTAC
1 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAG-TTAC
*
6456048 AGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAG
65 AGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAG
6456098 CAGATTAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
133 25 0.26
134 72 0.74
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (133 bp):
TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTACA
GCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTC
AGA
Found at i:6456147 original size:87 final size:87
Alignment explanation
Indices: 6455812--6456148 Score: 280
Period size: 87 Copynumber: 3.9 Consensus size: 87
6455802 TTAGAGATCT
*
6455812 TATCTCCCTG-AGATTACAGTGGAGCAGATCG--TAT-CAAGTCTTATCTCCCTGAGA-TTACAG
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAATATACAAGTCTTATCTCCCTGA-ATTTACAG
* * *
6455872 -AGGAGCAGATCGGAGCCACAAACC
64 TA-GAGCAGATCGAAGACACAATCC
* * *
6455896 TTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATACAAGTCTTATCTCCCT-AAGGTTACAG
1 -TATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATACAAGTCTTATCTCCCTGAA-TTTACAG
* * * *
6455960 TGGAGTAGACCGAAGA-ATTTCAGATCT
64 TAGAGCAGATCGAAGACA---CA-ATCC
* *** * * * * **
6455987 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTTTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATACAAGTCTTATCTCCCTGAATTTACAGTA
*
6456052 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACAATCC
* *
6456074 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA-AATGATCTTATCTCTCTGAATTTACAG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATACAA-G-TCTTATCTCCCTGAATTTACAG
*
6456137 TAGAGTAGATCG
64 TAGAGCAGATCG
6456149 CATCAGGTCT
Statistics
Matches: 200, Mismatches: 37, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
85 27 0.14
86 6 0.03
87 65 0.32
88 33 0.17
90 65 0.32
91 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATACAAGTCTTATCTCCCTGAATTTACAGTA
GAGCAGATCGAAGACACAATCC
Found at i:6458162 original size:17 final size:17
Alignment explanation
Indices: 6458140--6458172 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6458130 TATTTAATTC
6458140 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
6458157 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
6458173 GTATAAACTC
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Done.