Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 36 of 135
Found at i:14199197 original size:2 final size:2
Alignment explanation
Indices: 14199190--14199247 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
14199180 CACTTTTGGG
14199190 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14199232 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
14199248 TTCAATCCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14206600 original size:35 final size:35
Alignment explanation
Indices: 14206495--14206622 Score: 114
Period size: 35 Copynumber: 3.6 Consensus size: 35
14206485 GCACATCGTC
* * * *
14206495 AGTCCAACCATAACACGCCAGATGCTCATACGAGCCC
1 AGTCCAACCAAAACACGCCA-ATGCTCACAAGAG-CT
** * *
14206532 A-TCCCTCTAAAACACACCAAATGCTCACAAGAGCT
1 AGTCCAACCAAAACACGCC-AATGCTCACAAGAGCT
* * **
14206567 AGTCCAACCGAAACATGCCAATGCTCATTAGAGCT
1 AGTCCAACCAAAACACGCCAATGCTCACAAGAGCT
14206602 AGTCCAACCAAAACACGCCAA
1 AGTCCAACCAAAACACGCCAA
14206623 ACAGAGAGTA
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
35 35 0.49
36 34 0.48
37 2 0.03
ACGTcount: A:0.38, C:0.34, G:0.13, T:0.15
Consensus pattern (35 bp):
AGTCCAACCAAAACACGCCAATGCTCACAAGAGCT
Found at i:14209378 original size:38 final size:38
Alignment explanation
Indices: 14209335--14209413 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
14209325 AATTCGCCTA
14209335 ATCCACTATCATATTTTTCTAGATTTATTAAAGAATTT
1 ATCCACTATCATATTTTTCTAGATTTATTAAAGAATTT
14209373 ATCCACTATCATATTTTTCTAGATTTATTAAAGAATTT
1 ATCCACTATCATATTTTTCTAGATTTATTAAAGAATTT
14209411 ATC
1 ATC
14209414 TCCTCATCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (38 bp):
ATCCACTATCATATTTTTCTAGATTTATTAAAGAATTT
Found at i:14231364 original size:21 final size:21
Alignment explanation
Indices: 14231338--14231389 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
14231328 AACACCCACA
*
14231338 ACAACCCCCGCCAGAGCAACC
1 ACAACCCCCGCCAGAACAACC
* **
14231359 ACAACCCTCGCTGGAACAACC
1 ACAACCCCCGCCAGAACAACC
14231380 ACAACCCCCG
1 ACAACCCCCG
14231390 TCGAAAGCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.50, G:0.13, T:0.04
Consensus pattern (21 bp):
ACAACCCCCGCCAGAACAACC
Found at i:14231554 original size:27 final size:28
Alignment explanation
Indices: 14231524--14231594 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 28
14231514 TATTTAATAA
14231524 AATAAAAGTTATTTTTAATA-TTTTAAT
1 AATAAAAGTTATTTTTAATATTTTTAAT
14231551 AAT-AAA-TTATTTTT-ATATTTTTAAT
1 AATAAAAGTTATTTTTAATATTTTTAAT
* * *
14231576 AA-AATAGTTCTTTTGAATA
1 AATAAAAGTTATTTTTAATA
14231595 AAGTAATAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 3 0.08
25 19 0.51
26 9 0.24
27 6 0.16
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (28 bp):
AATAAAAGTTATTTTTAATATTTTTAAT
Found at i:14234824 original size:125 final size:125
Alignment explanation
Indices: 14234557--14234823 Score: 346
Period size: 125 Copynumber: 2.2 Consensus size: 125
14234547 AGCCAAACAG
* * ** *
14234557 GAACTACGGTAGAAAAAGAACGTCCACGTAGGAGTTTTTTCATCAATTTTGCTGACAGTGCATCC
1 GAACTACTGTAGAAAAAAAACGTCCACGTAGGAACTTTTTCATCAATTTTGCTGACACTGCATCC
* *
14234622 TGCTTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
66 TACTTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAA
* * * * *
14234682 GAACTATTGTGGAAAAAAAGCGTCCACGTGGGAACTTTTTCAGT-AATTTTGCTGATACTGCATC
1 GAACTACTGTAGAAAAAAAACGTCCACGTAGGAACTTTTTCA-TCAATTTTGCTGACACTGCATC
* **
14234746 CTACTTGAAGCGTTTTTTACATTATCTT-TTCAGAATCGTCTTCTCAAAA-T-TTTTTT-AA
65 CTACTTGAAGCGTTTTTAACACCAT-TTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAA
14234804 GAACTACTGTAGAAAAAAAA
1 GAACTACTGTAGAAAAAAAA
14234824 ACAAAATCCT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
122 18 0.15
123 6 0.05
124 1 0.01
125 94 0.77
126 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAAAACGTCCACGTAGGAACTTTTTCATCAATTTTGCTGACACTGCATCC
TACTTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAA
Found at i:14234920 original size:34 final size:34
Alignment explanation
Indices: 14234882--14235011 Score: 147
Period size: 34 Copynumber: 3.8 Consensus size: 34
14234872 CACAAAATTA
14234882 TTTCTTAAAAGCTCTAAACCCTAATTTAATTAAT
1 TTTCTTAAAAGCTCTAAACCCTAATTTAATTAAT
14234916 TTTCTTAAAAGCTCTAAACCCTAATTTAATTAAT
1 TTTCTTAAAAGCTCTAAACCCTAATTTAATTAAT
* * * * *
14234950 TCAT-TTAAAA-CCCAAAAACCTAAGTTAATTAAT
1 T-TTCTTAAAAGCTCTAAACCCTAATTTAATTAAT
* * * *
14234983 TTTTTTAAAAAACTCTAATCCTTAATTTA
1 TTTCTT-AAAAGCTCTAAACCCTAATTTA
14235012 TTCCCTAAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
32 1 0.01
33 22 0.28
34 45 0.56
35 12 0.15
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (34 bp):
TTTCTTAAAAGCTCTAAACCCTAATTTAATTAAT
Found at i:14235077 original size:33 final size:33
Alignment explanation
Indices: 14235035--14235097 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
14235025 CCTTAAAACC
* * *
14235035 TAACTCTAAATTATTTTAAGAAAACCCTAACTT
1 TAACCCTAAATTACTTTAACAAAACCCTAACTT
*
14235068 TAACCCTAAATTACTTTAACAAAACTCTAA
1 TAACCCTAAATTACTTTAACAAAACCCTAA
14235098 AATCATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (33 bp):
TAACCCTAAATTACTTTAACAAAACCCTAACTT
Found at i:14242266 original size:12 final size:12
Alignment explanation
Indices: 14242249--14242273 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14242239 TTGAGAATTT
14242249 TTCCAAAAGAAA
1 TTCCAAAAGAAA
14242261 TTCCAAAAGAAA
1 TTCCAAAAGAAA
14242273 T
1 T
14242274 ATGTTGGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TTCCAAAAGAAA
Found at i:14251738 original size:37 final size:37
Alignment explanation
Indices: 14251695--14251825 Score: 142
Period size: 37 Copynumber: 3.5 Consensus size: 37
14251685 CATTATTTTA
14251695 GCGTGTTATCGGGTGGATTAGCTCTAATGAGCATTTG
1 GCGTGTTATCGGGTGGATTAGCTCTAATGAGCATTTG
* * * * *
14251732 GTGTGTT-TACGGTTGGACTAGCTCTTCA-GAGCAATTG
1 GCGTGTTAT-CGGGTGGATTAGCTC-TAATGAGCATTTG
*
14251769 GCGTGTTATCGGGTGGATTAGCTCTTATGAGC-TTCTG
1 GCGTGTTATCGGGTGGATTAGCTCTAATGAGCATT-TG
* *
14251806 GCGTGTTTTCGGATGGATTA
1 GCGTGTTATCGGGTGGATTA
14251826 CTGTGCTAGT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
36 4 0.05
37 70 0.91
38 3 0.04
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (37 bp):
GCGTGTTATCGGGTGGATTAGCTCTAATGAGCATTTG
Found at i:14255370 original size:18 final size:16
Alignment explanation
Indices: 14255337--14255384 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14255327 CTTAAAATAT
*
14255337 ATATTTTAAAAATAAA
1 ATATGTTAAAAATAAA
14255353 ATATGTTAAATAATTAAA
1 ATATGTTAAA-AA-TAAA
*
14255371 AT-TATTAAAAATAA
1 ATATGTTAAAAATAA
14255385 TTAATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 8 0.29
18 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATGTTAAAAATAAA
Found at i:14255800 original size:17 final size:17
Alignment explanation
Indices: 14255773--14255818 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
14255763 CCAATATAAT
* * *
14255773 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
14255790 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
14255807 AAATATTTTTAA
1 AAATATTTTTAA
14255819 AATACATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:14255846 original size:29 final size:26
Alignment explanation
Indices: 14255813--14255867 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 26
14255803 TTTAAAATAT
*
14255813 TTTTAAAATACATTTTTTATTATTTTTAA
1 TTTTAAAACAC-TTTTTTA--ATTTTTAA
14255842 TTTTAAAACACTTTTTTAATTTTTAA
1 TTTTAAAACACTTTTTTAATTTTTAA
14255868 AATAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
28 7 0.28
29 10 0.40
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAAAACACTTTTTTAATTTTTAA
Found at i:14255877 original size:20 final size:19
Alignment explanation
Indices: 14255834--14255878 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
14255824 ATTTTTTATT
*
14255834 ATTTTTAATTTTAAAACAC
1 ATTTTTAATTTTAAAACAA
* *
14255853 TTTTTTAATTTTTAAAATAA
1 ATTTTTAA-TTTTAAAACAA
14255873 ATTTTT
1 ATTTTT
14255879 GGTATTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTAATTTTAAAACAA
Found at i:14259894 original size:29 final size:29
Alignment explanation
Indices: 14259853--14259910 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
14259843 CTGTCTTCTC
*
14259853 CCCCAAATGTTCTTTCCCCTCTGCCGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCCGGTT
* *
14259882 CCCCAAACGTTCTTTTCCCTCTGCTGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCCGGTT
14259911 TTTTGGAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.10, C:0.40, G:0.14, T:0.36
Consensus pattern (29 bp):
CCCCAAACGTTCTTTCCCCTCTGCCGGTT
Found at i:14263680 original size:13 final size:13
Alignment explanation
Indices: 14263662--14263724 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
14263652 ACACTCAAAT
14263662 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
14263675 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
14263688 TCTT-AAAAGCAC
1 TTTTCAAAAGCAC
14263700 TTCTT-AAAAGCAC
1 TT-TTCAAAAGCAC
*
14263713 TTCTCAAAAGCA
1 TTTTCAAAAGCA
14263725 ATGAAGAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
12 10 0.22
13 35 0.78
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.29
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:14263696 original size:25 final size:26
Alignment explanation
Indices: 14263665--14263724 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 26
14263655 CTCAAATTTT
14263665 TCAAAAGCACTT-TTCAAAAGCAC-TC
1 TCAAAAGCACTTCTT-AAAAGCACTTC
*
14263690 TTAAAAGCACTTCTTAAAAGCACTTC
1 TCAAAAGCACTTCTTAAAAGCACTTC
14263716 TCAAAAGCA
1 TCAAAAGCA
14263725 ATGAAGAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (26 bp):
TCAAAAGCACTTCTTAAAAGCACTTC
Found at i:14268910 original size:9 final size:9
Alignment explanation
Indices: 14268878--14268914 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14268868 TGAATTTTCG
14268878 AATTCGAAT
1 AATTCGAAT
*
14268887 AACTCGAAT
1 AATTCGAAT
14268896 AATTCGAAT
1 AATTCGAAT
*
14268905 AGTTCGAAT
1 AATTCGAAT
14268914 A
1 A
14268915 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14274261 original size:12 final size:13
Alignment explanation
Indices: 14274246--14274280 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
14274236 GAAAAAATGA
14274246 TAAA-AAATAAAG
1 TAAATAAATAAAG
14274258 TAAATAAATAAAG
1 TAAATAAATAAAG
14274271 -AAATAAATAA
1 TAAATAAATAA
14274281 TATATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (13 bp):
TAAATAAATAAAG
Found at i:14274267 original size:4 final size:4
Alignment explanation
Indices: 14274245--14274295 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
14274235 GGAAAAAATG
* *
14274245 ATAA A-AA ATAA AGTAA ATAA ATAA AGAA ATAA ATAA TATAT ATAA TATAA
1 ATAA ATAA ATAA A-TAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA -ATAA
14274295 A
1 A
14274296 AGAAGGTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.08
4 25 0.64
5 11 0.28
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:14274499 original size:12 final size:13
Alignment explanation
Indices: 14274473--14274503 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
14274463 AAAATGATAA
14274473 AAATAAAGTAAAT
1 AAATAAAGTAAAT
14274486 AAATAAAG-AAAT
1 AAATAAAGTAAAT
14274498 AAATAA
1 AAATAA
14274504 TATATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
AAATAAAGTAAAT
Found at i:14279671 original size:23 final size:25
Alignment explanation
Indices: 14279622--14279671 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
14279612 AAAAAAAATG
*
14279622 TTTTTTAATTGTTTTCTTGCCTCTT
1 TTTTTTAATTGTTTTCTTGCCTATT
* *
14279647 TTTTTTTA-TGTTTTGTTG-CTATT
1 TTTTTTAATTGTTTTCTTGCCTATT
14279670 TT
1 TT
14279672 CTTGTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 6 0.27
24 9 0.41
25 7 0.32
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.72
Consensus pattern (25 bp):
TTTTTTAATTGTTTTCTTGCCTATT
Found at i:14279876 original size:25 final size:25
Alignment explanation
Indices: 14279848--14279895 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
14279838 GTATTTTTTT
14279848 AAAATTTATTTTCAAT-TTTTTAGGA
1 AAAATTTATTTT-AATGTTTTTAGGA
14279873 AAAATTTATTTTAATGTTTTTAG
1 AAAATTTATTTTAATGTTTTTAG
14279896 TATTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (25 bp):
AAAATTTATTTTAATGTTTTTAGGA
Found at i:14294137 original size:42 final size:42
Alignment explanation
Indices: 14294090--14294293 Score: 315
Period size: 42 Copynumber: 4.9 Consensus size: 42
14294080 ACGTTTTTGT
*
14294090 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
14294132 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
14294174 -AAAAAACGCCGCTAAA-AACCATGTTCTTTAGCGGCGCTTA-
1 AAAAAAACGCCGCTAAAGAA-CATGTTCTTTAGCGGCGCTTAG
* *
14294214 ATAAAAAACGCCGCTAAAGACCATGTTTTTTAGCGGCGCTTAG
1 A-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
14294257 AGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
14294294 TTTTTGTTTG
Statistics
Matches: 149, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
40 2 0.01
41 35 0.23
42 110 0.74
43 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:14294188 original size:83 final size:83
Alignment explanation
Indices: 14294091--14294293 Score: 320
Period size: 83 Copynumber: 2.4 Consensus size: 83
14294081 CGTTTTTGTA
* *
14294091 AAAAAACGCTGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCTGCTAAAGAACAT
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATAAAAAACGCCGCTAAAGAACAT
14294155 GTTCTTTAGAGGCGCTTAG
65 GTTCTTTAGAGGCGCTTAG
*
14294174 AAAAAACGCCGCTAAA-AACCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCAT
1 AAAAAACGCCGCTAAAGAA-CATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGAACAT
* *
14294238 GTTTTTTAGCGGCGCTTAG
65 GTTCTTTAGAGGCGCTTAG
14294257 AGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 A-AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
14294294 TTTTTGTTTG
Statistics
Matches: 111, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
82 3 0.03
83 74 0.67
84 32 0.29
85 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (83 bp):
AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGAACATG
TTCTTTAGAGGCGCTTAG
Found at i:14306107 original size:21 final size:20
Alignment explanation
Indices: 14306081--14306133 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
14306071 ACAAAAAGAT
* *
14306081 TTTTTTTTAATAATTTTTCAA
1 TTTTTTTTAA-AATTTGTAAA
14306102 TTTTTTTTAAAATTTGTAAA
1 TTTTTTTTAAAATTTGTAAA
*
14306122 CTTTTTTTAAAA
1 TTTTTTTTAAAA
14306134 AATTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTTTTAAAATTTGTAAA
Found at i:14306141 original size:20 final size:21
Alignment explanation
Indices: 14306102--14306141 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14306092 AATTTTTCAA
* *
14306102 TTTTTTTTAAAATTTGTAAAC
1 TTTTTTTAAAAAATTGTAAAC
14306123 TTTTTTTAAAAAATT-TAAA
1 TTTTTTTAAAAAATTGTAAA
14306142 AAAATTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTTTAAAAAATTGTAAAC
Found at i:14306167 original size:43 final size:45
Alignment explanation
Indices: 14306120--14306217 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 45
14306110 AAAATTTGTA
14306120 AACTTTTTTTAAAAAATTT-AAAAAAAT-T-TTGTATTTA-TTTTTT
1 AACTTTTTTT-AAAAATTTGAAAAAAATGTATT-TATTTATTTTTTT
* * *
14306163 AAC-TTTTATAGAAATTTGAAAAAAATGTATTTTTTTATTTTTTT
1 AACTTTTTTTAAAAATTTGAAAAAAATGTATTTATTTATTTTTTT
14306207 AATCTTTTTTT
1 AA-CTTTTTTT
14306218 TTCTCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
41 7 0.16
42 13 0.29
43 9 0.20
44 10 0.22
45 1 0.02
46 5 0.11
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (45 bp):
AACTTTTTTTAAAAATTTGAAAAAAATGTATTTATTTATTTTTTT
Found at i:14306207 original size:44 final size:42
Alignment explanation
Indices: 14306133--14306214 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 42
14306123 TTTTTTTAAA
14306133 AAATTTAAAAAAATTTTGTATTTATTTTTTAA-CTTTTATAG
1 AAATTTAAAAAAATTTTGTATTTATTTTTTAATCTTTTATAG
*
14306174 AAATTTGAAAAAAATGTATT-TTTTTATTTTTTTAATCTTTT
1 AAATTT-AAAAAAAT-T-TTGTATTTA-TTTTTTAATCTTTT
14306215 TTTTTCTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
41 6 0.17
42 8 0.23
43 6 0.17
44 10 0.29
45 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (42 bp):
AAATTTAAAAAAATTTTGTATTTATTTTTTAATCTTTTATAG
Found at i:14306866 original size:21 final size:21
Alignment explanation
Indices: 14306842--14306903 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
14306832 CATTTAATTA
14306842 ATTTTTTAAAATTAAAAAAAT
1 ATTTTTTAAAATTAAAAAAAT
* *
14306863 ATTTTTTAAATCATTTAAATAAT
1 ATTTTTTAAA--ATTAAAAAAAT
**
14306886 -TTTTTTAATTTTAAAAAA
1 ATTTTTTAAAATTAAAAAA
14306904 GTTAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 6 0.18
21 10 0.30
22 8 0.24
23 9 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTTTAAAATTAAAAAAAT
Found at i:14309983 original size:50 final size:50
Alignment explanation
Indices: 14309917--14310036 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 50
14309907 AATGAAAAAG
* *
14309917 ATATGATGGTAGCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
1 ATATGATAGTACCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
**
14309967 ATATGATAGTACCTGTGCATTTTGACTTCTCTGATTTAGTTAGTATAAAT
1 ATATGATAGTACCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
*
14310017 ATATGATAGTACCCGTGCAT
1 ATATGATAGTACCTGTGCAT
14310037 CATGTGGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (50 bp):
ATATGATAGTACCTGTGCATTTCAACTTCTCTGATTTAGTTAGTATAAAT
Found at i:14314361 original size:22 final size:21
Alignment explanation
Indices: 14314336--14314376 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14314326 TTCTTTATTT
*
14314336 TCTATTCTCTTCTGCTTCTCCC
1 TCTATTCTCCTCT-CTTCTCCC
*
14314358 TCTATTTTCCTCTCTTCTC
1 TCTATTCTCCTCTCTTCTC
14314377 GATCTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.05, C:0.39, G:0.02, T:0.54
Consensus pattern (21 bp):
TCTATTCTCCTCTCTTCTCCC
Found at i:14319245 original size:19 final size:19
Alignment explanation
Indices: 14319221--14319302 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
14319211 TTACAAAAAA
14319221 AAAATTTAAAATAATTTTT
1 AAAATTTAAAATAATTTTT
* * *
14319240 AAAATTCAAAATAATTATA
1 AAAATTTAAAATAATTTTT
*
14319259 AAAATTTTAATATATATTTTT
1 AAAA-TTTAAAATA-ATTTTT
* *
14319280 AAAAATTATAAAT-TTTTTT
1 AAAATTTA-AAATAATTTTT
14319299 AAAA
1 AAAA
14319303 AATTAAAGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 29 0.58
20 10 0.20
21 11 0.22
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTT
Found at i:14333137 original size:110 final size:110
Alignment explanation
Indices: 14332944--14333162 Score: 366
Period size: 110 Copynumber: 2.0 Consensus size: 110
14332934 TTAGCACATT
* *
14332944 TTATGTGAGCTTTCCCGCGTATCAGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAATG
1 TTATGTAAGCTTTCCCGCGTATCAGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAAGG
* *
14333009 AACGGTAAGTGTTCTAATGGTTATGTTATAAACATATGGAAAGGA
66 AACAGTAAGTGTTCTAATGGTTATCTTATAAACATATGGAAAGGA
* * *
14333054 TTATGTAAGCTTTCCTGCGTATCCGATATTATTCTAAGTGATTCAACGGGCATGCATAGGGAAGG
1 TTATGTAAGCTTTCCCGCGTATCAGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAAGG
*
14333119 AACAGTAAGTGTTCTAATGGTTATCTTATAAACCTATGGAAAGG
66 AACAGTAAGTGTTCTAATGGTTATCTTATAAACATATGGAAAGG
14333163 TATGAAATGA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (110 bp):
TTATGTAAGCTTTCCCGCGTATCAGATATTATTCTAAGTGATTCAACGGGCATGCAAAGGGAAGG
AACAGTAAGTGTTCTAATGGTTATCTTATAAACATATGGAAAGGA
Found at i:14336703 original size:25 final size:25
Alignment explanation
Indices: 14336636--14336704 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
14336626 ATAAAATAAT
*
14336636 GGTAAGCTCATACGAGCTGAGAATC
1 GGTAAGCTCATACGAGCTGAAAATC
*
14336661 GATAAGCTC-TCACGAGCT-ACAAATC
1 GGTAAGCTCAT-ACGAGCTGA-AAATC
*
14336686 GGTAAGCTCATACAAGCTG
1 GGTAAGCTCATACGAGCTG
14336705 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
24 2 0.06
25 33 0.92
26 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAAAATC
Found at i:14336881 original size:20 final size:20
Alignment explanation
Indices: 14336853--14336894 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
14336843 GCAATTACTC
14336853 AATTCAAAAACACAT-AATTT
1 AATTC-AAAACACATAAATTT
* *
14336873 AATTTAAAACATATAAATTT
1 AATTCAAAACACATAAATTT
14336893 AA
1 AA
14336895 AATTTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAAAACACATAAATTT
Found at i:14344116 original size:25 final size:25
Alignment explanation
Indices: 14344084--14344153 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
14344074 GATGAAATAA
*
14344084 CGGTAAGCTCATACGAGCTG-AGAAT
1 CGGTAAGCTCATATGAGCTGCA-AAT
14344109 CGGTAAGCTC-TCATGAGCTGCAAAT
1 CGGTAAGCTCAT-ATGAGCTGCAAAT
*
14344134 CGGTAAGCTTATATGAGCTG
1 CGGTAAGCTCATATGAGCTG
14344154 TGGTGTGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATATGAGCTGCAAAT
Found at i:14349886 original size:16 final size:17
Alignment explanation
Indices: 14349856--14349891 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14349846 AGTAAAAATG
*
14349856 ATAAAAATTATTTAAAA
1 ATAAAAATCATTTAAAA
*
14349873 ATAAAAATCATTAAAAA
1 ATAAAAATCATTTAAAA
14349890 AT
1 AT
14349892 GTNNNNNNNN
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAATCATTTAAAA
Found at i:14354957 original size:13 final size:13
Alignment explanation
Indices: 14354927--14354951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14354917 CAATATATTT
14354927 ATTAATTAAAAAC
1 ATTAATTAAAAAC
14354940 ATTAATTAAAAA
1 ATTAATTAAAAA
14354952 ATTTAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:14354973 original size:22 final size:21
Alignment explanation
Indices: 14354930--14354974 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14354920 TATATTTATT
* *
14354930 AATTAAAAACATTAATTAAAA
1 AATTAAAAACATGAAATAAAA
*
14354951 AATTTAAAACATGAAATAGAAA
1 AATTAAAAACATGAAATA-AAA
14354973 AA
1 AA
14354975 GATTCGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (21 bp):
AATTAAAAACATGAAATAAAA
Found at i:14357290 original size:29 final size:31
Alignment explanation
Indices: 14357258--14357318 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
14357248 AAACTTCTTT
14357258 ACTTTC-CCCCAAAACTTTTACTCCT-TCCC
1 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
* *
14357287 ACTTTCTCCTCAAAATTTTTACTCCTCTCCC
1 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
14357318 A
1 A
14357319 TCCCACCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 6 0.21
30 17 0.61
31 5 0.18
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
Found at i:14357392 original size:19 final size:20
Alignment explanation
Indices: 14357359--14357396 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14357349 GCTCTTTCAA
14357359 CCCCCAAAACTTTTTACTTT
1 CCCCCAAAACTTTTTACTTT
14357379 CCCCCAAAAC-TTTTACTT
1 CCCCCAAAACTTTTTACTT
14357397 CTCACCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
CCCCCAAAACTTTTTACTTT
Found at i:14372775 original size:43 final size:43
Alignment explanation
Indices: 14372714--14372798 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
14372704 ACCTAATTAG
*
14372714 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAAA
1 GAAAATAATCCCCTTATTCTAATAAACTACTAAAAGATAAAAA
14372757 GAAAATAATCCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATCCCCTTATTCTAATAAACTACTAAAAGATAAAA
14372799 TAAAATATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (43 bp):
GAAAATAATCCCCTTATTCTAATAAACTACTAAAAGATAAAAA
Found at i:14372844 original size:19 final size:19
Alignment explanation
Indices: 14372820--14372866 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
14372810 TAGAATATCT
14372820 ATAAGATTTATCTACCTAA
1 ATAAGATTTATCTACCTAA
*
14372839 ATAAGATTTATCTATCTAA
1 ATAAGATTTATCTACCTAA
14372858 ATAA-ATTTA
1 ATAAGATTTA
14372867 AAATATATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (19 bp):
ATAAGATTTATCTACCTAA
Found at i:14374335 original size:24 final size:24
Alignment explanation
Indices: 14374303--14374349 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14374293 CTAAATTTAT
*
14374303 AATACTTTCCTTTC-CTTTCTCTTC
1 AATACTTTCC-ATCACTTTCTCTTC
*
14374327 AATATTTTCCATCACTTTCTCTT
1 AATACTTTCCATCACTTTCTCTT
14374350 ATTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (24 bp):
AATACTTTCCATCACTTTCTCTTC
Found at i:14381301 original size:16 final size:15
Alignment explanation
Indices: 14381269--14381302 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
14381259 AATAAATTAA
*
14381269 ATTTTATATTGAATT
1 ATTTTATATTAAATT
14381284 ATTTTATATTTAAATT
1 ATTTTATA-TTAAATT
14381300 ATT
1 ATT
14381303 ATGTTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTTATATTAAATT
Found at i:14381534 original size:3 final size:3
Alignment explanation
Indices: 14381528--14381567 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14381518 ATTTGAAAAT
14381528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14381568 ATAAAGTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14387372 original size:2 final size:2
Alignment explanation
Indices: 14387365--14387392 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14387355 ATTCAATAGG
14387365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14387393 GTATGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14403427 original size:24 final size:24
Alignment explanation
Indices: 14403395--14403443 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
14403385 TAGGACAAGG
14403395 TAAGAACATCAAGATTTCAATATA
1 TAAGAACATCAAGATTTCAATATA
* *
14403419 TAAGTACATCAAGATTTTAATATA
1 TAAGAACATCAAGATTTCAATATA
14403443 T
1 T
14403444 TTTTAAGTTT
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:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (24 bp):
TAAGAACATCAAGATTTCAATATA
Found at i:14412019 original size:14 final size:14
Alignment explanation
Indices: 14412000--14412026 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14411990 ATCAAGAAGG
14412000 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
14412014 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
14412027 GAAGTGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:14412637 original size:23 final size:21
Alignment explanation
Indices: 14412611--14412652 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
14412601 ACAGTAGTGA
14412611 GTTTTTTTTTCTTTTTCTTTTTC
1 GTTTTTTTTT-TTTTT-TTTTTC
14412634 GTTTTTTTTTTTTTTTTTT
1 GTTTTTTTTTTTTTTTTTT
14412653 GGGGGGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (21 bp):
GTTTTTTTTTTTTTTTTTTTC
Found at i:14412638 original size:21 final size:20
Alignment explanation
Indices: 14412614--14412651 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14412604 GTAGTGAGTT
14412614 TTTTTTTCTTTTTCTTTTTCG
1 TTTTTTT-TTTTTCTTTTTCG
14412635 TTTTTTTTTTTT-TTTTT
1 TTTTTTTTTTTTCTTTTT
14412652 TGGGGGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (20 bp):
TTTTTTTTTTTTCTTTTTCG
Found at i:14413894 original size:48 final size:48
Alignment explanation
Indices: 14413842--14413990 Score: 135
Period size: 48 Copynumber: 3.1 Consensus size: 48
14413832 ATTTAAATTT
14413842 ATTTATTTGGAGAGATTGATTTTGAATATTTAAATAACGTAAATGGTC
1 ATTTATTTGGAGAGATTGATTTTGAATATTTAAATAACGTAAATGGTC
** * * * * * ** *
14413890 ATTTATTTTCA-ACACTT-ATAAATTCAATATATAATTTAAATTTAAAT--TT
1 ATTTATTTGGAGAGA-TTGAT--TTTGAATATTTAA-AT-AACGTAAATGGTC
14413939 ATTTATTTGGAGAGATTGATTTTGAATATTTAAATAACGTAAATGGTC
1 ATTTATTTGGAGAGATTGATTTTGAATATTTAAATAACGTAAATGGTC
14413987 ATTT
1 ATTT
14413991 GCAATGTTTT
Statistics
Matches: 72, Mismatches: 20, Indels: 18
0.65 0.18 0.16
Matches are distributed among these distances:
46 7 0.10
47 5 0.07
48 26 0.36
49 22 0.31
50 5 0.07
51 7 0.10
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (48 bp):
ATTTATTTGGAGAGATTGATTTTGAATATTTAAATAACGTAAATGGTC
Found at i:14413911 original size:97 final size:98
Alignment explanation
Indices: 14413793--14413990 Score: 389
Period size: 97 Copynumber: 2.0 Consensus size: 98
14413783 ATAAGCCATG
14413793 TTTATTTTCATACACTTATAAATTCAATATATAATTTAAATTTAAATTTATTTATTTGGAGAGAT
1 TTTATTTTCATACACTTATAAATTCAATATATAATTTAAATTTAAATTTATTTATTTGGAGAGAT
14413858 TGATTTTGAATATTTAAATAACGTAAATGGTCA
66 TGATTTTGAATATTTAAATAACGTAAATGGTCA
14413891 TTTATTTTCA-ACACTTATAAATTCAATATATAATTTAAATTTAAATTTATTTATTTGGAGAGAT
1 TTTATTTTCATACACTTATAAATTCAATATATAATTTAAATTTAAATTTATTTATTTGGAGAGAT
14413955 TGATTTTGAATATTTAAATAACGTAAATGGTCA
66 TGATTTTGAATATTTAAATAACGTAAATGGTCA
14413988 TTT
1 TTT
14413991 GCAATGTTTT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 90 0.90
98 10 0.10
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (98 bp):
TTTATTTTCATACACTTATAAATTCAATATATAATTTAAATTTAAATTTATTTATTTGGAGAGAT
TGATTTTGAATATTTAAATAACGTAAATGGTCA
Found at i:14416116 original size:6 final size:7
Alignment explanation
Indices: 14416098--14416125 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14416088 GAAAGAAATG
14416098 CTTTTTT
1 CTTTTTT
14416105 CTTTTTT
1 CTTTTTT
14416112 CTTTTTT
1 CTTTTTT
14416119 CTTTTTT
1 CTTTTTT
14416126 TACTATCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
CTTTTTT
Found at i:14425426 original size:20 final size:19
Alignment explanation
Indices: 14425390--14425434 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
14425380 TAAAAACAAT
* *
14425390 TATTTTATTAAATAAATTA
1 TATTTTATAAAAAAAATTA
*
14425409 TATTATTATAAAAAAAATTC
1 TATT-TTATAAAAAAAATTA
14425429 TATTTT
1 TATTTT
14425435 TCTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTTATAAAAAAAATTA
Found at i:14428985 original size:8 final size:8
Alignment explanation
Indices: 14428972--14428996 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14428962 AAAAAAAATC
14428972 ATATATAA
1 ATATATAA
14428980 ATATATAA
1 ATATATAA
14428988 ATATATAA
1 ATATATAA
14428996 A
1 A
14428997 AGTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:14445682 original size:7 final size:7
Alignment explanation
Indices: 14445670--14445698 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
14445660 AAAGGGGATT
14445670 AGAAGAG
1 AGAAGAG
14445677 AGAAGAG
1 AGAAGAG
14445684 AGAAGAG
1 AGAAGAG
14445691 AGAAGAG
1 AGAAGAG
14445698 A
1 A
14445699 TGATGGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (7 bp):
AGAAGAG
Found at i:14454448 original size:13 final size:13
Alignment explanation
Indices: 14454430--14454456 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14454420 TTATAATTTA
14454430 GCTTCCCAAAACC
1 GCTTCCCAAAACC
14454443 GCTTCCCAAAACC
1 GCTTCCCAAAACC
14454456 G
1 G
14454457 ACAGACGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.44, G:0.11, T:0.15
Consensus pattern (13 bp):
GCTTCCCAAAACC
Found at i:14455422 original size:32 final size:31
Alignment explanation
Indices: 14455386--14455494 Score: 91
Period size: 32 Copynumber: 3.5 Consensus size: 31
14455376 CTAAATATAA
*
14455386 AAAATTTAATAAATTTAACTCTCAATATTTAC
1 AAAATTTAATAAATTT-AGTCTCAATATTTAC
* * * * *
14455418 AAAATAT-ATCATTTTAGT-TCAGATTATTAAA
1 AAAATTTAATAAATTTAGTCTCA-A-TATTTAC
*
14455449 AAAATTCAATAAATTTAGTCCTCAATATTTAC
1 AAAATTTAATAAATTTAGT-CTCAATATTTAC
14455481 AAAA--TAATAAATTT
1 AAAATTTAATAAATTT
14455495 TGATTTTTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
29 3 0.05
30 12 0.20
31 16 0.27
32 24 0.41
33 1 0.02
34 3 0.05
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (31 bp):
AAAATTTAATAAATTTAGTCTCAATATTTAC
Found at i:14457716 original size:20 final size:20
Alignment explanation
Indices: 14457688--14457730 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
14457678 AATATAAACC
*
14457688 ATATTTTTTTTATTTTTAAA
1 ATATATTTTTTATTTTTAAA
14457708 ATATATTTTTTATTTTTAAA
1 ATATATTTTTTATTTTTAAA
14457728 ATA
1 ATA
14457731 CACTACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATATATTTTTTATTTTTAAA
Found at i:14477310 original size:16 final size:17
Alignment explanation
Indices: 14477284--14477318 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14477274 TATATATTTT
*
14477284 ATTTGTTTTCAGATAAA
1 ATTTGTTTTCAAATAAA
14477301 ATTT-TTTTCAAATAAA
1 ATTTGTTTTCAAATAAA
14477317 AT
1 AT
14477319 ATTAATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTGTTTTCAAATAAA
Found at i:14483896 original size:34 final size:34
Alignment explanation
Indices: 14483846--14483928 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
14483836 CAAACATTTC
* * *
14483846 AACAATTGATTCAAAAGAAATAATATTTTAACAT
1 AACAATCGATTTAAAAGAAATAATATTCTAACAT
* * * *
14483880 AATAATCGATTTAAAAGGAGTAATATTCTAATAT
1 AACAATCGATTTAAAAGAAATAATATTCTAACAT
*
14483914 GACAATCGATTTAAA
1 AACAATCGATTTAAA
14483929 CATAAAAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (34 bp):
AACAATCGATTTAAAAGAAATAATATTCTAACAT
Found at i:14486747 original size:116 final size:117
Alignment explanation
Indices: 14486610--14486842 Score: 459
Period size: 116 Copynumber: 2.0 Consensus size: 117
14486600 CCTCCCAAAA
14486610 ATAATAAAAATTTGATTTAATCCTCTAAAAATTATAAAGATATAGACTATTAAAATAGTAAAATT
1 ATAATAAAAATTTGATTTAATCCTCTAAAAATTATAAAGATATAGACTATTAAAATAGTAAAATT
14486675 ATATTTTTACTATCGTAAAAAATATAATTTAATTCCGACCTCCCAAAAAATT
66 ATATTTTTACTATCGTAAAAAATATAATTTAATTCCGACCTCCCAAAAAATT
14486727 ATAATAAAAA-TTGATTTAATCCTCTAAAAATTATAAAGATATAGACTATTAAAATAGTAAAATT
1 ATAATAAAAATTTGATTTAATCCTCTAAAAATTATAAAGATATAGACTATTAAAATAGTAAAATT
14486791 ATATTTTTACTATCGTAAAAAATATAATTTAATTCCGACCTCCCAAAAAATT
66 ATATTTTTACTATCGTAAAAAATATAATTTAATTCCGACCTCCCAAAAAATT
14486843 TTTCTAACTC
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
116 106 0.91
117 10 0.09
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (117 bp):
ATAATAAAAATTTGATTTAATCCTCTAAAAATTATAAAGATATAGACTATTAAAATAGTAAAATT
ATATTTTTACTATCGTAAAAAATATAATTTAATTCCGACCTCCCAAAAAATT
Found at i:14487225 original size:25 final size:27
Alignment explanation
Indices: 14487168--14487229 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 27
14487158 GTGAGATTGT
*
14487168 AATAATTTAATTAATTTTCAAGTAATAC
1 AATAATTT-ATTAATATTCAAGTAATAC
*
14487196 AATAATTTATTAA-ATTGAAG-AATAC
1 AATAATTTATTAATATTCAAGTAATAC
14487221 AATAATTTA
1 AATAATTTA
14487230 GTTGTTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 14 0.44
26 5 0.16
27 5 0.16
28 8 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (27 bp):
AATAATTTATTAATATTCAAGTAATAC
Found at i:14487461 original size:3 final size:3
Alignment explanation
Indices: 14487453--14487485 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
14487443 TTTGTTATTT
*
14487453 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14487486 AGTTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14490601 original size:1 final size:1
Alignment explanation
Indices: 14490595--14490620 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
14490585 ATGCCCTGGG
14490595 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
14490621 GTGGTTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:14498369 original size:19 final size:19
Alignment explanation
Indices: 14498345--14498383 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
14498335 TCAATGAGGT
14498345 TATTGTTTTAATGCACTGG
1 TATTGTTTTAATGCACTGG
14498364 TATTGTTTTAATGCACTGG
1 TATTGTTTTAATGCACTGG
14498383 T
1 T
14498384 TCGAGCCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.49
Consensus pattern (19 bp):
TATTGTTTTAATGCACTGG
Found at i:14528407 original size:17 final size:18
Alignment explanation
Indices: 14528378--14528417 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
14528368 AAAAAATATT
14528378 ATTTTTCACATTTTCATA
1 ATTTTTCACATTTTCATA
14528396 ATTTTTCA-ATTTTCATA
1 ATTTTTCACATTTTCATA
14528413 ATTTT
1 ATTTT
14528418 CTTAGATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTCACATTTTCATA
Found at i:14530798 original size:17 final size:19
Alignment explanation
Indices: 14530778--14530815 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
14530768 TTAAAACTTT
*
14530778 TAAAAGA-AATTAT-TTTA
1 TAAAAGATAAATATATTTA
14530795 TAAAAGATAAATATATTTA
1 TAAAAGATAAATATATTTA
14530814 TA
1 TA
14530816 TATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAAGATAAATATATTTA
Found at i:14549926 original size:9 final size:9
Alignment explanation
Indices: 14549912--14549936 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14549902 GGAACATTCT
14549912 GCCCAATTG
1 GCCCAATTG
14549921 GCCCAATTG
1 GCCCAATTG
14549930 GCCCAAT
1 GCCCAAT
14549937 AGGCTGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (9 bp):
GCCCAATTG
Found at i:14552872 original size:15 final size:16
Alignment explanation
Indices: 14552840--14552874 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
14552830 CGAAAACCGT
14552840 CTTTGCCTTTGCCTTC
1 CTTTGCCTTTGCCTTC
*
14552856 CTTTGCC-TTGTCTTC
1 CTTTGCCTTTGCCTTC
14552871 CTTT
1 CTTT
14552875 ACTTTTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.00, C:0.34, G:0.11, T:0.54
Consensus pattern (16 bp):
CTTTGCCTTTGCCTTC
Found at i:14572969 original size:27 final size:27
Alignment explanation
Indices: 14572935--14573004 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
14572925 AAAAATAAAA
* *
14572935 ATTTACCAAAATACTA-CAAGTTTTTTT
1 ATTTACCAAAATA-TATAAACTTTTTTT
14572962 ATTTACCAAAATATATAAACTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTT
14572989 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
14573005 CAAAAAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.44
Consensus pattern (27 bp):
ATTTACCAAAATATATAAACTTTTTTT
Found at i:14573168 original size:27 final size:27
Alignment explanation
Indices: 14573082--14573157 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
14573072 CGCCAATGGT
* *
14573082 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
14573109 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAATACC
14573136 ATTGGCGGCACCAATGGTGCCA
1 ATTGGCGGCACCAATGGTGCCA
14573158 TACTAATTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:14580512 original size:19 final size:21
Alignment explanation
Indices: 14580488--14580526 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14580478 ACTACAACAA
*
14580488 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAATAATATAC
14580507 AAAATAATAACAATAATATA
1 AAAATAATAACAATAATATA
14580527 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATAACAATAATATAC
Found at i:14580687 original size:27 final size:27
Alignment explanation
Indices: 14580649--14580724 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
14580639 ATAATACGAG
14580649 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
14580676 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
14580703 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
14580725 GTGACCAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:14580801 original size:19 final size:18
Alignment explanation
Indices: 14580766--14580805 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14580756 TTTTTTATCA
**
14580766 GGTTTTTTTTTTAATTTT
1 GGTTTTTTTGATAATTTT
14580784 GGTTTTTTTGATATATTTT
1 GGTTTTTTTGATA-ATTTT
14580803 GGT
1 GGT
14580806 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (18 bp):
GGTTTTTTTGATAATTTT
Found at i:14580857 original size:29 final size:28
Alignment explanation
Indices: 14580794--14580866 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
14580784 GGTTTTTTTG
**
14580794 ATATATTTTGGTAAATAAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAAACTT
14580822 ATATATTTTGGTAAATAAAAAAAAACTT
1 ATATATTTTGGTAAATAAAAAAAAACTT
* *
14580850 GTAGTATTTTGATAAAT
1 ATA-TATTTTGGTAAAT
14580867 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAAACTT
Found at i:14581298 original size:228 final size:228
Alignment explanation
Indices: 14580901--14581356 Score: 912
Period size: 228 Copynumber: 2.0 Consensus size: 228
14580891 TAAAACACCC
14580901 CACGATGATTCATACAACCCTTTCATGCTCTCGCATTTGACAATAGACACATCTTTGCTAACTTG
1 CACGATGATTCATACAACCCTTTCATGCTCTCGCATTTGACAATAGACACATCTTTGCTAACTTG
14580966 AAACAACAAAGGCAAAAAGCAACCCCAAAATACCTTGCATCGAAAAAGACAAAACCCATCACAAC
66 AAACAACAAAGGCAAAAAGCAACCCCAAAATACCTTGCATCGAAAAAGACAAAACCCATCACAAC
14581031 AGCGGGGTTGACCATTAATGCCCTCAATAGCTAACAAATTGAGGTGGACGCATTATTGAAAAAGG
131 AGCGGGGTTGACCATTAATGCCCTCAATAGCTAACAAATTGAGGTGGACGCATTATTGAAAAAGG
14581096 GCAAAGGGTGGAGAGGAAAGACTGCCAAAATGG
196 GCAAAGGGTGGAGAGGAAAGACTGCCAAAATGG
14581129 CACGATGATTCATACAACCCTTTCATGCTCTCGCATTTGACAATAGACACATCTTTGCTAACTTG
1 CACGATGATTCATACAACCCTTTCATGCTCTCGCATTTGACAATAGACACATCTTTGCTAACTTG
14581194 AAACAACAAAGGCAAAAAGCAACCCCAAAATACCTTGCATCGAAAAAGACAAAACCCATCACAAC
66 AAACAACAAAGGCAAAAAGCAACCCCAAAATACCTTGCATCGAAAAAGACAAAACCCATCACAAC
14581259 AGCGGGGTTGACCATTAATGCCCTCAATAGCTAACAAATTGAGGTGGACGCATTATTGAAAAAGG
131 AGCGGGGTTGACCATTAATGCCCTCAATAGCTAACAAATTGAGGTGGACGCATTATTGAAAAAGG
14581324 GCAAAGGGTGGAGAGGAAAGACTGCCAAAATGG
196 GCAAAGGGTGGAGAGGAAAGACTGCCAAAATGG
14581357 AGGCTCTCAC
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 228 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (228 bp):
CACGATGATTCATACAACCCTTTCATGCTCTCGCATTTGACAATAGACACATCTTTGCTAACTTG
AAACAACAAAGGCAAAAAGCAACCCCAAAATACCTTGCATCGAAAAAGACAAAACCCATCACAAC
AGCGGGGTTGACCATTAATGCCCTCAATAGCTAACAAATTGAGGTGGACGCATTATTGAAAAAGG
GCAAAGGGTGGAGAGGAAAGACTGCCAAAATGG
Found at i:14590333 original size:26 final size:26
Alignment explanation
Indices: 14590304--14590407 Score: 65
Period size: 26 Copynumber: 4.2 Consensus size: 26
14590294 ATAATTATTA
14590304 TCTTTAAAATATTGAGGTGGAATTTT
1 TCTTTAAAATATTGAGGTGGAATTTT
* * ** **
14590330 TC-TTCAAAT-TTAACTTTGTTATTTT
1 TCTTTAAAATATTGA-GGTGGAATTTT
* * * *
14590355 TCTTTTAAA-GTTCAGGT--AATTAT
1 TCTTTAAAATATTGAGGTGGAATTTT
*
14590378 TATTTAAAATATTGAGGTGGAATTTT
1 TCTTTAAAATATTGAGGTGGAATTTT
14590404 TCTT
1 TCTT
14590408 CAAATTTAAC
Statistics
Matches: 54, Mismatches: 18, Indels: 12
0.64 0.21 0.14
Matches are distributed among these distances:
23 11 0.20
24 9 0.17
25 16 0.30
26 18 0.33
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (26 bp):
TCTTTAAAATATTGAGGTGGAATTTT
Found at i:14590389 original size:74 final size:75
Alignment explanation
Indices: 14590295--14590444 Score: 284
Period size: 74 Copynumber: 2.0 Consensus size: 75
14590285 TCAATTTAAA
14590295 TAATTATTATCTTTAAAATATTGAGGTGGAATTTTTCTTCAAATTTAACTTTGTTATTTTTCTTT
1 TAATTATTA-CTTTAAAATATTGAGGTGGAATTTTTCTTCAAATTTAACTTTGTTATTTTTCTTT
14590360 TAAAGTTCAGG
65 TAAAGTTCAGG
14590371 TAATTATTA-TTTAAAATATTGAGGTGGAATTTTTCTTCAAATTTAACTTTGTTATTTTTCTTTT
1 TAATTATTACTTTAAAATATTGAGGTGGAATTTTTCTTCAAATTTAACTTTGTTATTTTTCTTTT
14590435 AAAGTTCAGG
66 AAAGTTCAGG
14590445 CAGCAAGCTC
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
74 65 0.88
76 9 0.12
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (75 bp):
TAATTATTACTTTAAAATATTGAGGTGGAATTTTTCTTCAAATTTAACTTTGTTATTTTTCTTTT
AAAGTTCAGG
Found at i:14595099 original size:20 final size:20
Alignment explanation
Indices: 14595060--14595099 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14595050 AATATTTTCT
* *
14595060 AGTAAATCATTTTACTGAAA
1 AGTAAAACATTTTACCGAAA
*
14595080 AGTAAAACATTTTCCCGAAA
1 AGTAAAACATTTTACCGAAA
14595100 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACCGAAA
Found at i:14602644 original size:31 final size:32
Alignment explanation
Indices: 14602584--14602653 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
14602574 AGCGCGTAGA
14602584 TCTCGAAAAGTTATTCGAAATCAAAAAAAATCG
1 TCTC-AAAAGTTATTCGAAATCAAAAAAAATCG
14602617 TCTCAAAAGTTATTCGAAAT-AAAAAAAATCG
1 TCTCAAAAGTTATTCGAAATCAAAAAAAATCG
14602648 TCTCAA
1 TCTCAA
14602654 TCGGACAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 17 0.46
32 16 0.43
33 4 0.11
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.26
Consensus pattern (32 bp):
TCTCAAAAGTTATTCGAAATCAAAAAAAATCG
Found at i:14605926 original size:31 final size:31
Alignment explanation
Indices: 14605888--14605950 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14605878 AACACAATTT
14605888 ATAATTATTACCAATCACATACCATACATAC
1 ATAATTATTACCAATCACATACCATACATAC
14605919 ATAATTATTACCAATCACATACCATACATAC
1 ATAATTATTACCAATCACATACCATACATAC
14605950 A
1 A
14605951 ATCAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (31 bp):
ATAATTATTACCAATCACATACCATACATAC
Found at i:14607732 original size:57 final size:57
Alignment explanation
Indices: 14607654--14607766 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
14607644 GGATGATCCT
*
14607654 ATCTTGATATACCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCGGACGGGTG
1 ATCTTGATATACCCCTCCCGAAGAATATGAG-GAAAATAGATCTAGCCCGGACGGGTG
* * *
14607711 ATCTTGATATAGCCCTCCCGAAGAATATGAGGAAAATGGATTTAGCCCGGACGGGT
1 ATCTTGATATACCCCTCCCGAAGAATATGAGGAAAATAGATCTAGCCCGGACGGGT
14607767 AATCCGAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 5 0.10
57 46 0.90
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (57 bp):
ATCTTGATATACCCCTCCCGAAGAATATGAGGAAAATAGATCTAGCCCGGACGGGTG
Found at i:14609038 original size:18 final size:17
Alignment explanation
Indices: 14609005--14609041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
14608995 GAGTTAAGAT
14609005 ATAATTTTATCATTTTA
1 ATAATTTTATCATTTTA
*
14609022 ATAATTTATATCCTTTTA
1 ATAATTT-TATCATTTTA
14609040 AT
1 AT
14609042 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (17 bp):
ATAATTTTATCATTTTA
Found at i:14609121 original size:16 final size:16
Alignment explanation
Indices: 14609102--14609133 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14609092 TTTTATCATA
14609102 TATAAATTTAAAATTT
1 TATAAATTTAAAATTT
*
14609118 TATAAATTTTAAATTT
1 TATAAATTTAAAATTT
14609134 CTCATTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATAAATTTAAAATTT
Found at i:14609975 original size:132 final size:133
Alignment explanation
Indices: 14609738--14610021 Score: 426
Period size: 132 Copynumber: 2.1 Consensus size: 133
14609728 TATTTAGTGC
* * * *
14609738 CCCACAAGTTGTATTGATCTTAAGCCTTTTTTCGACCAAAACCACCTCTTATTCTCACATCTATC
1 CCCACAAGTTGTATTTATCTTAAGCCTTTTCTCCACCAAAACCACCTCCTATTCTCACATCTATC
14609803 CACCTACGTAAACTTTTTCTACACTGCCTATATATTTAGTGCCCTATGTGTCCTTAACCTAC-AT
66 CACCTACGTAAACTTTTTCTACACTGCCTATATATTTAGTGCCCTATGTGTCCTTAACCTACAAT
14609867 ACA
131 ACA
* * *
14609870 CCCACAAGTTGTATTTATCTTAAGCCTTTTCTCCATCAAAACCACTTCCTATTCTCACATCTATT
1 CCCACAAGTTGTATTTATCTTAAGCCTTTTCTCCACCAAAACCACCTCCTATTCTCACATCTATC
* * * * *
14609935 CACCTACGTAAATTTTTTCTACATTTCTTCTATATTTAGTGCCCTATGTGTCCTTAACCTACAAT
66 CACCTACGTAAACTTTTTCTACACTGCCTATATATTTAGTGCCCTATGTGTCCTTAACCTACAAT
14610000 ACA
131 ACA
* * *
14610003 CCTAGACGTTGTATTTATC
1 CCCACAAGTTGTATTTATC
14610022 GGATCACGTT
Statistics
Matches: 136, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
132 115 0.85
133 21 0.15
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (133 bp):
CCCACAAGTTGTATTTATCTTAAGCCTTTTCTCCACCAAAACCACCTCCTATTCTCACATCTATC
CACCTACGTAAACTTTTTCTACACTGCCTATATATTTAGTGCCCTATGTGTCCTTAACCTACAAT
ACA
Found at i:14617302 original size:27 final size:27
Alignment explanation
Indices: 14617265--14617335 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
14617255 ATGATGGGCC
*
14617265 TGCCACAGGCGGCACCAAAGGTGCC-T
1 TGCCACAGGCGGCACCAAAGCTGCCAT
* *
14617291 GTGGCAGAGGCGGCACCAAAGCTGCCAT
1 -TGCCACAGGCGGCACCAAAGCTGCCAT
14617319 TGCCACAGGCGGCACCA
1 TGCCACAGGCGGCACCA
14617336 CTTCAGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.10
Consensus pattern (27 bp):
TGCCACAGGCGGCACCAAAGCTGCCAT
Found at i:14617380 original size:3 final size:3
Alignment explanation
Indices: 14617367--14617400 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
14617357 CAGTCCAGCT
*
14617367 GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
14617401 GTGGTGCCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:14617802 original size:39 final size:40
Alignment explanation
Indices: 14617656--14617802 Score: 96
Period size: 39 Copynumber: 3.8 Consensus size: 40
14617646 AAAAAACTAA
* *
14617656 TATTATTATTATGGTTAGTTATTAGGATTAGTAAAAACCCT
1 TATTATTATTGTAGTTAGTTATTAGGATTAGT-AAAACCCT
* * *** *
14617697 AATTATTATTTTAGTTAGTATGATT--G-TTAGTTTTTA-CAT
1 TATTATTATTGTAGTTAGT-T-ATTAGGATTAG-TAAAACCCT
***
14617736 TA-TATTA--GT-GTTAGTTATTATTTTTAGTAAAACCCT
1 TATTATTATTGTAGTTAGTTATTAGGATTAGTAAAACCCT
14617772 TATTATTATTGT-GTTAGTTATTAGGATTAGT
1 TATTATTATTGTAGTTAGTTATTAGGATTAGT
14617803 GGTTAAACGT
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
33 3 0.04
34 1 0.01
35 8 0.10
36 9 0.11
37 5 0.06
38 5 0.06
39 21 0.27
40 5 0.06
41 18 0.23
42 1 0.01
43 3 0.04
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (40 bp):
TATTATTATTGTAGTTAGTTATTAGGATTAGTAAAACCCT
Found at i:14621814 original size:157 final size:153
Alignment explanation
Indices: 14621307--14622071 Score: 1042
Period size: 157 Copynumber: 4.9 Consensus size: 153
14621297 TGCAACTTCA
** * * * *
14621307 AAATAAATTTAGTAAAAAACCATTATTTCGGCCCTTTGTTCATATTTTTTCCCGGATTTTATTAC
1 AAATAAATTTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTAC
* *
14621372 TTT-AAAAAATATACTATTTTTTAATTTTATTATTTTACATTATTTTAGTAAATTATGTTTGAAA
66 TTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
14621436 TGTATTAATTTA-T-TGTTTTTT
131 TGTATTAATTTAGTGTGTTTTTT
* *
14621457 AAATAAATTTAAAAAAAAACCCTTATTTCGTCCCTTTGTTCGTATTTTTTTTGCCGGATTTTATT
1 AAATAAATTTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTT-CCGAATTTTATT
*
14621522 ACTTTAAAAAAATATATTCTACTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
64 ACTTTAAAAAAATATA--CTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
14621587 GAAATGTATTAATTTAGTGTGTTTTTT
127 GAAATGTATTAATTTAGTGTGTTTTTT
* * *
14621614 AAATAAATTTCAAAAAATAACCCTTATTTCGACCATTTGTTCGTATTTTTTTCCTGAATTTTATT
1 AAATAAATTT-AAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCC-GAATTTTATT
*
14621679 ACTTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
64 AC-TTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
14621744 AAATGTATTAATTTAGTGTGTGTTTTT
128 AAATGTATTAATTTAGTGTGT-TTTTT
* * *
14621771 AAATAAATTTAAAAAAATAACCCTTATTTAGGCCCTTTGTTCGTATTTTTTCCCCAAATTTTATT
1 AAATAAATTTAAAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTT-TCCGAATTTTATT
* * *
14621836 ACTTTCAATAAAAAAGATATTATTTTCGT-ATTTTATTATTTTAGATTATTTTAGTACATTATGT
64 ACTTT--A-AAAAAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGT
*
14621900 TTGAAATGTATTAATTTAGTGTGTGTTTT
125 TTGAAATGTATTAATTTAGTGTGTTTTTT
** **
14621929 AAATAAATTTAGTAAAAAACCCTTATTTCGG-CC-TTGTTCGTATTTTTTTACCGAAGCCTTATT
1 AAATAAATTTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTT-CCGAA-TTTTATT
* * * *
14621992 -GTTTCAAAAAATATATTATTTTCGT-ATTTTATTATTTTACGTTATTTTAGTACATTATGTTTG
64 ACTTTAAAAAAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
*
14622055 AAATGCATTAATTTAGT
128 AAATGTATTAATTTAGT
14622072 AAAAAACTCT
Statistics
Matches: 558, Mismatches: 38, Indels: 36
0.88 0.06 0.06
Matches are distributed among these distances:
150 39 0.07
151 6 0.01
152 88 0.16
153 10 0.02
155 82 0.15
156 86 0.15
157 105 0.19
158 67 0.12
159 74 0.13
160 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (153 bp):
AAATAAATTTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCGAATTTTATTAC
TTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
TGTATTAATTTAGTGTGTTTTTT
Found at i:14622026 original size:16 final size:18
Alignment explanation
Indices: 14622005--14622040 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
14621995 TCAAAAAATA
14622005 TATTATTTT-CG-TATTT
1 TATTATTTTACGTTATTT
14622021 TATTATTTTACGTTATTT
1 TATTATTTTACGTTATTT
14622039 TA
1 TA
14622041 GTACATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (18 bp):
TATTATTTTACGTTATTT
Found at i:14622468 original size:13 final size:13
Alignment explanation
Indices: 14622452--14622478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14622442 TCCTTTCTTT
14622452 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
14622465 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
14622478 T
1 T
14622479 CCAGCCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTTCTTCTCC
Found at i:14629057 original size:15 final size:16
Alignment explanation
Indices: 14629037--14629066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14629027 AGAAATGGGA
14629037 AATTT-AATTAGAAAG
1 AATTTAAATTAGAAAG
14629052 AATTTAAATTAGAAA
1 AATTTAAATTAGAAA
14629067 AGTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
AATTTAAATTAGAAAG
Found at i:14630658 original size:26 final size:27
Alignment explanation
Indices: 14630628--14630681 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
14630618 ATCCAACTTA
14630628 TTAGTAA-TTATTTTATAAAAAAA-ATT
1 TTAGTAAGTT-TTTTATAAAAAAATATT
14630654 TTAGTAAGTTTTTTATAAAAAAATATT
1 TTAGTAAGTTTTTTATAAAAAAATATT
14630681 T
1 T
14630682 CAAAGAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (27 bp):
TTAGTAAGTTTTTTATAAAAAAATATT
Found at i:14634631 original size:66 final size:66
Alignment explanation
Indices: 14634525--14634664 Score: 253
Period size: 66 Copynumber: 2.1 Consensus size: 66
14634515 ACACTTTACC
* *
14634525 AATATCCAAATATGAAAATCAGGTGTAAAACCAAAACTATCCCATAATGGGTTATTGAAAATTAT
1 AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
14634590 G
66 G
*
14634591 AATATCTAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
1 AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
14634656 G
66 G
14634657 AATATCCA
1 AATATCCA
14634665 TGTATTTCGG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (66 bp):
AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
G
Found at i:14635787 original size:35 final size:34
Alignment explanation
Indices: 14635728--14635821 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 34
14635718 TGAATTGACG
* * * *
14635728 GATAAGACCATGGTTGGACCATGGCAATGTTTAAAT
1 GATAAGACCATAGCTGGGCTATGGCAAT-TTT-AAT
14635764 G-TAAGACCATAGCTGGGCTATGGC-ATTTTAAT
1 GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
* * *
14635796 GAAAAGACCATAACTGGGTTATGGCA
1 GATAAGACCATAGCTGGGCTATGGCA
14635822 CCTTGAACGT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
32 4 0.08
33 23 0.47
34 2 0.04
35 19 0.39
36 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (34 bp):
GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
Found at i:14635836 original size:33 final size:32
Alignment explanation
Indices: 14635764--14635839 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
14635754 ATGTTTAAAT
* * * *
14635764 GTAAGACCATAGCTGGGCTATGGCATTTTAAT
1 GTAAGACCATAACTGGGCTATGGCACTTGAAC
* *
14635796 GAAAAGACCATAACTGGGTTATGGCACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGGCA-CTTGAAC
14635830 GTAAGACCAT
1 GTAAGACCAT
14635840 GGTTGGACCA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.83
34 5 0.14
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGGCACTTGAAC
Found at i:14635940 original size:33 final size:32
Alignment explanation
Indices: 14635868--14635944 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
14635858 TAGATACATG
* * **
14635868 TGTAAGACCATAGTTGGGATATGGCATTCTGA
1 TGTAAGACCATAATTGGGATATGGCATACAAA
*
14635900 TGATAAGACCATAATTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAATTGGGATATGGCA-TACAAA
14635934 TGTAAGACCAT
1 TGTAAGACCAT
14635945 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.82
34 5 0.13
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (32 bp):
TGTAAGACCATAATTGGGATATGGCATACAAA
Found at i:14635956 original size:105 final size:105
Alignment explanation
Indices: 14635763--14635956 Score: 264
Period size: 105 Copynumber: 1.8 Consensus size: 105
14635753 AATGTTTAAA
* * **
14635763 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGGGATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTCAA
**
14635828 ACGTAAGACCATGGTTGGACCATGACAGTATAGATACATG
66 ACGTAAGACCATGGCAGGACCATGACAGTATAGATACATG
* * * *
14635868 TGTAAGACCATAGTTGGGATATGGCATTCTGATGATAAGACCATAATTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGCTGGGATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCT-CA
* *
14635932 AATGTAAGACCATGGCAGGGCCATG
65 AACGTAAGACCATGGCAGGACCATG
14635957 GCAATGCATG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
104 2 0.03
105 74 0.97
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGGATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTCAA
ACGTAAGACCATGGCAGGACCATGACAGTATAGATACATG
Found at i:14643038 original size:12 final size:11
Alignment explanation
Indices: 14643007--14643045 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14642997 ATATTTTTTG
14643007 TTTTAAAATAT
1 TTTTAAAATAT
14643018 TTTTAAAATACT
1 TTTTAAAATA-T
* *
14643030 TTTTTAAATTT
1 TTTTAAAATAT
14643041 TTTTA
1 TTTTA
14643046 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14646246 original size:3 final size:3
Alignment explanation
Indices: 14646221--14646278 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
14646211 GTTATCTTTG
*
14646221 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA -TA TTA CTTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
14646266 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
14646279 AATAATATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14646264 original size:27 final size:24
Alignment explanation
Indices: 14646221--14646275 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
14646211 GTTATCTTTG
14646221 TTATTATATTATATATTACTATTA
1 TTATTATATTATATATTACTATTA
*
14646245 TTATTATATTACT-TATTATTATTA
1 TTATTATATTA-TATATTACTATTA
14646269 TTATTAT
1 TTATTAT
14646276 TATAATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTATATTATATATTACTATTA
Found at i:14646291 original size:24 final size:25
Alignment explanation
Indices: 14646221--14646288 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 25
14646211 GTTATCTTTG
* *
14646221 TTATTAT-ATTATATATTACTATTA
1 TTATTATAATAATATATTATTATTA
* *
14646245 TTATTATATTACTTATTATTATTATTA
1 TTATTATAATA-ATA-TATTATTATTA
14646272 TTATTATAATAATATAT
1 TTATTATAATAATATAT
14646289 ATTTATGCGC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 7 0.20
25 4 0.11
26 4 0.11
27 20 0.57
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATAATAATATATTATTATTA
Found at i:14646368 original size:33 final size:35
Alignment explanation
Indices: 14646308--14646382 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 35
14646298 CATATGTATC
*
14646308 TTATT-TT-ATATATATATATTTTATTTTATTTTAT
1 TTATTATTAATATATATACATTTTATTTTATTTT-T
14646342 TT-TTATTAATATATATACA-TTT-TTTTATTTTT
1 TTATTATTAATATATATACATTTTATTTTATTTTT
14646374 TTATTATTA
1 TTATTATTA
14646383 TATTTATGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
32 3 0.08
33 17 0.46
34 7 0.19
35 10 0.27
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (35 bp):
TTATTATTAATATATATACATTTTATTTTATTTTT
Found at i:14650814 original size:1 final size:1
Alignment explanation
Indices: 14650808--14650913 Score: 59
Period size: 1 Copynumber: 106.0 Consensus size: 1
14650798 GATTCAGTTT
* * * * * * * * * * *
14650808 AAAAAAAACAAAAAAACAAAAAAAACAAAAAAAGAGAAAAAATAGAAAAAAGAAAAAAAGAGAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
14650873 AAAAAAGAACAAAAAACAAAAAACAAAAAGAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14650914 CCTCTATCGG
Statistics
Matches: 71, Mismatches: 34, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.01
Consensus pattern (1 bp):
A
Found at i:14650822 original size:9 final size:9
Alignment explanation
Indices: 14650808--14650913 Score: 89
Period size: 9 Copynumber: 11.8 Consensus size: 9
14650798 GATTCAGTTT
14650808 AAAAAAAAC
1 AAAAAAAAC
14650817 -AAAAAAAC
1 AAAAAAAAC
14650825 AAAAAAAAC
1 AAAAAAAAC
*
14650834 AAAAAAAGAG
1 AAAAAAA-AC
* *
14650844 AAAAAATAG
1 AAAAAAAAC
14650853 AAAAAAGAA-
1 AAAAAA-AAC
14650862 AAAAAGAGAAC
1 AAAAA-A-AAC
14650873 AAAAAAGAAC
1 AAAAAA-AAC
14650883 --AAAAAAC
1 AAAAAAAAC
14650890 --AAAAAAC
1 AAAAAAAAC
14650897 AAAAAGAAAC
1 AAAAA-AAAC
14650907 AAAAAAA
1 AAAAAAA
14650914 CCTCTATCGG
Statistics
Matches: 86, Mismatches: 3, Indels: 16
0.82 0.03 0.15
Matches are distributed among these distances:
7 10 0.12
8 12 0.14
9 33 0.38
10 26 0.30
11 5 0.06
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:14650830 original size:17 final size:17
Alignment explanation
Indices: 14650808--14650914 Score: 101
Period size: 17 Copynumber: 6.0 Consensus size: 17
14650798 GATTCAGTTT
14650808 AAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
*
14650825 AAAAAAAACAAAAAAAG
1 AAAAAAAACAAAAAAAC
* *
14650842 AGAAAAAATAGAAAAAAGAA
1 A-AAAAAA-ACAAAAAA-AC
14650862 AAAAAGAGAACAAAAAAGA-
1 AAAAA-A-AACAAAAAA-AC
*
14650881 ACAAAAAAC-AAAAAAC
1 AAAAAAAACAAAAAAAC
14650897 AAAAAGAAACAAAAAAAC
1 AAAAA-AAACAAAAAAAC
14650915 CTCTATCGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 15
0.78 0.06 0.15
Matches are distributed among these distances:
15 1 0.01
16 9 0.12
17 24 0.32
18 14 0.18
19 15 0.20
20 12 0.16
21 1 0.01
ACGTcount: A:0.83, C:0.08, G:0.07, T:0.01
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:14653445 original size:87 final size:87
Alignment explanation
Indices: 14653354--14653708 Score: 187
Period size: 87 Copynumber: 4.1 Consensus size: 87
14653344 CCTAGGCATT
14653354 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
14653419 TA-ATTCTATCTCCCTGGTTGGC
66 TAGATTCTATCTCCCTGGTT-GC
** * * ** * ** * * * * * *
14653441 AGTGGAATAGATTGAAAATTTCAAATCGTATCTCCCTAG-GAATT--AGCGGAGCATATCGAAGA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT-GTG-GTTACAGTGGAGTACATTGAAG-
** * * *
14653503 TGGCAGACTT-TACCTCCCTGTGGTTAC
63 CCGTAGA-TTCTATCTCCC--TGGTTGC
* * * ** * * * * * * **
14653530 AGTGGAGTACATTGAAG-CCGTA-ATTCTATCTCCC--TGGTTGGCAGTGGAATAGATTGAAGAT
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT-ACAGTGGAGTACATTGAAGCC
*
14653591 TTCAGA-TCTTATCTCCCTAGGAATT--
65 GT-AGATTC-TATCTCCCT-GG--TTGC
14653616 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
14653681 TA-ATTCTATCTCCCTGGTTGGC
66 TAGATTCTATCTCCCTGGTT-GC
14653703 AGTGGA
1 AGTGGA
14653709 ATAGATTAAA
Statistics
Matches: 189, Mismatches: 54, Indels: 50
0.65 0.18 0.17
Matches are distributed among these distances:
84 4 0.02
85 3 0.02
86 31 0.16
87 80 0.42
88 27 0.14
89 34 0.18
90 10 0.05
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (87 bp):
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
TAGATTCTATCTCCCTGGTTGC
Found at i:14653564 original size:43 final size:44
Alignment explanation
Indices: 14653516--14653696 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 44
14653506 CAGACTTTAC
14653516 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTA-ATTCTAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAGATTCTAT
* * * ***
14653559 CTCCC--TGGTTGGCAGTGGAATAGATTGAAGATTTCAGA-TCTTAT
1 CTCCCTGTGGTT-ACAGTGGAGTACATTGAAGCCGT-AGATTC-TAT
* * * * ** * * *
14653603 CTCCCTAG-GAATT--AGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCT-GTG-GTTACAGTGGAGTACATTGAAG-CCGTAGATTCTAT
14653647 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTA-ATTCTAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAGATTCTAT
14653690 CTCCCTG
1 CTCCCTG
14653697 GTTGGCAGTG
Statistics
Matches: 100, Mismatches: 25, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
41 5 0.05
42 17 0.17
43 23 0.23
44 37 0.37
45 15 0.15
46 1 0.01
47 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (44 bp):
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAGATTCTAT
Found at i:14653766 original size:131 final size:131
Alignment explanation
Indices: 14653287--14653740 Score: 811
Period size: 131 Copynumber: 3.5 Consensus size: 131
14653277 NNNNNNNNNN
* *
14653287 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
1 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAGGAA
14653352 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
66 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
14653417 C
131 C
* *
14653418 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAA-ATTTCAAATCGTATCTCCCTAGGA
1 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATT-AAAGATTTCAGATCTTATCTCCCTAGGA
* * *
14653482 ATTAGCGGAGCATATCGAAGATGGCAGACTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
65 ATTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
14653547 CC
130 CC
*
14653549 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGAA
1 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAGGAA
14653614 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
66 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
14653679 C
131 C
*
14653680 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTGTCTCCCTA
1 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTA
14653741 AGCGGTAGTG
Statistics
Matches: 306, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
130 2 0.01
131 302 0.99
132 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (131 bp):
GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAGGAA
TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
C
Found at i:14655187 original size:3 final size:3
Alignment explanation
Indices: 14655162--14655219 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
14655152 GTTATCTTTG
*
14655162 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA -TA TTA CTTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
14655207 TTT TTA TTA TTA T
1 TTA TTA TTA TTA T
14655220 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:14655192 original size:24 final size:24
Alignment explanation
Indices: 14655162--14655216 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
14655152 GTTATCTTTG
14655162 TTATTATATTA-TATATTACTATTA
1 TTATTATATTACT-TATTACTATTA
* *
14655186 TTATTATATTACTTATTATTATTT
1 TTATTATATTACTTATTACTATTA
14655210 TTATTAT
1 TTATTAT
14655217 TATNNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTATATTACTTATTACTATTA
Found at i:14677444 original size:18 final size:18
Alignment explanation
Indices: 14677409--14677444 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14677399 CTCTTGACAA
*
14677409 GCAAAACAAGTTAAATTC
1 GCAAAACAAGTCAAATTC
*
14677427 GCAAAACAAGTCATATTC
1 GCAAAACAAGTCAAATTC
14677445 TGATTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.22
Consensus pattern (18 bp):
GCAAAACAAGTCAAATTC
Found at i:14677461 original size:17 final size:17
Alignment explanation
Indices: 14677435--14677469 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14677425 TCGCAAAACA
*
14677435 AGTCATATTCTGATTAT
1 AGTCAGATTCTGATTAT
14677452 AGTCAGATTCTGATTAT
1 AGTCAGATTCTGATTAT
14677469 A
1 A
14677470 CGACTCGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (17 bp):
AGTCAGATTCTGATTAT
Found at i:14684742 original size:12 final size:13
Alignment explanation
Indices: 14684718--14684750 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14684708 AATTTAATCA
14684718 TAATATATAATAT
1 TAATATATAATAT
14684731 TAATAT-TAATAT
1 TAATATATAATAT
*
14684743 TAAAATAT
1 TAATATAT
14684751 TGTTTTAATA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATATATAATAT
Found at i:14695094 original size:24 final size:24
Alignment explanation
Indices: 14695039--14695114 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
14695029 CCGGGATTAA
* *
14695039 TAACGGGAAGCTCACAAAGAGC-CT
1 TAACGGGAAGCT-TCGAAGAGCACT
* * * *
14695063 ATATCGGGTAGCTTTGAAGAGTACT
1 -TAACGGGAAGCTTCGAAGAGCACT
14695088 TAACGGGAAGCTTCGAAGAGCACT
1 TAACGGGAAGCTTCGAAGAGCACT
14695112 TAA
1 TAA
14695115 GTCAGAAAGC
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
24 28 0.70
25 12 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
TAACGGGAAGCTTCGAAGAGCACT
Found at i:14695871 original size:19 final size:20
Alignment explanation
Indices: 14695840--14695883 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
14695830 AACTCAATAA
* *
14695840 TTCCATGAAATTTCAGAATT
1 TTCCATGAAATTTAACAATT
14695860 TTCCAT-AAATTTAACAATT
1 TTCCATGAAATTTAACAATT
14695879 TTCCA
1 TTCCA
14695884 AATTAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (20 bp):
TTCCATGAAATTTAACAATT
Found at i:14709364 original size:78 final size:78
Alignment explanation
Indices: 14709282--14709491 Score: 249
Period size: 81 Copynumber: 2.7 Consensus size: 78
14709272 TGCCTTCTCG
** *
14709282 GGAGATGCATGTAATGAGGTTGATGATGGCACCGTTGGAGGAGGATGCATTTTCTGTTTTGATGG
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTGTTGGAGGAGGATGCATTCTCTGTTTTGATGG
* **
14709347 AACTGCTGGTGTA
66 AACCGCTGGCATA
* * * * **
14709360 GGAGATGCATGGAATGAGGTTGGTTATGGCATTATTGGAGGAGGATGCACCGAACTCTGTTTTGA
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTGTTGGAGGAGGATGCA---TTCTCTGTTTTGA
*
14709425 TGGAACCGCTGGCATG
63 TGGAACCGCTGGCATA
* * *
14709441 GGAAATGCATGTAATGAGGTCGATGATGGCATTGTTAGAGGAGGATGCATT
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTGTTGGAGGAGGATGCATT
14709492 GAGATCTCTG
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
78 43 0.40
81 64 0.60
ACGTcount: A:0.24, C:0.11, G:0.36, T:0.29
Consensus pattern (78 bp):
GGAGATGCATGTAATGAGGTTGATGATGGCATTGTTGGAGGAGGATGCATTCTCTGTTTTGATGG
AACCGCTGGCATA
Done.