Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8461613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 85630 characters in sequence are not A, C, G, or T
File 13 of 18
Found at i:5909378 original size:2 final size:2
Alignment explanation
Indices: 5909371--5909395 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5909361 GAGAAGAAAA
5909371 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
5909396 ATATTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5910557 original size:2 final size:2
Alignment explanation
Indices: 5910552--5910576 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5910542 GTGTGTATTC
5910552 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5910577 GAATTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5922787 original size:82 final size:82
Alignment explanation
Indices: 5922664--5922877 Score: 218
Period size: 82 Copynumber: 2.6 Consensus size: 82
5922654 TTGAAAAGTG
* * * *
5922664 TTATTGTTACATACCATGTACAAAAAGATATTACACACCATGGTTAAAAAAGGTTGTTCCA-TGC
1 TTATTGTTACATACCATATACAAAAACATATTACACACCATGGTTAAAAAA-GTTATTACACT-C
*
5922728 CATGTTGAAAAA-AAAATA
64 CATGTTAAAAAATAAAATA
* * * ** * *
5922746 TTATTGTTACATTCCTTATACAAAAACATATTATATGCCATGGTTAAAAAAGTTATTACACTTCG
1 TTATTGTTACATACCATATACAAAAACATATTACACACCATGGTTAAAAAAGTTATTACACTCCA
5922811 TGTTAAAAAATAAAATA
66 TGTTAAAAAATAAAATA
* *** * * *
5922828 TTATTGTTATATGTTATATACAAAAACATGTTACATACCAT-ATTAAAAAA
1 TTATTGTTACATACCATATACAAAAACATATTACACACCATGGTTAAAAAA
5922878 ATATTATTGT
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
81 25 0.23
82 84 0.77
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (82 bp):
TTATTGTTACATACCATATACAAAAACATATTACACACCATGGTTAAAAAAGTTATTACACTCCA
TGTTAAAAAATAAAATA
Found at i:5922915 original size:32 final size:29
Alignment explanation
Indices: 5922856--5922914 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
5922846 TACAAAAACA
5922856 TGTTACATACCATATTAAAAAAATATTAT
1 TGTTACATACCATATTAAAAAAATATTAT
5922885 TGTTACA-ATCCATATTTAAAAAAA-ATTAT
1 TGTTACATA-CCATA-TTAAAAAAATATTAT
5922914 T
1 T
5922915 ACACTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 1 0.04
29 18 0.64
30 9 0.32
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.39
Consensus pattern (29 bp):
TGTTACATACCATATTAAAAAAATATTAT
Found at i:5925433 original size:7 final size:7
Alignment explanation
Indices: 5925421--5925447 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5925411 ACCCTAATAA
5925421 TTGCAAC
1 TTGCAAC
5925428 TTGCAAC
1 TTGCAAC
5925435 TTGCAAC
1 TTGCAAC
5925442 TTGCAA
1 TTGCAA
5925448 TCAACACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (7 bp):
TTGCAAC
Found at i:5932534 original size:17 final size:18
Alignment explanation
Indices: 5932512--5932545 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
5932502 TGTTTAATTA
5932512 TTTTATTTATTT-TTTCT
1 TTTTATTTATTTATTTCT
5932529 TTTTATTTATTTATTTC
1 TTTTATTTATTTATTTC
5932546 ATCTAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTATTTATTTCT
Found at i:5933905 original size:16 final size:17
Alignment explanation
Indices: 5933886--5933923 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
5933876 TAATTTCAGA
5933886 TTTTACTATTTTTTA-T
1 TTTTACTATTTTTTAGT
*
5933902 TTTTATTATTTTTTAGT
1 TTTTACTATTTTTTAGT
5933919 TTTTA
1 TTTTA
5933924 TTTTATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTACTATTTTTTAGT
Found at i:5935991 original size:71 final size:71
Alignment explanation
Indices: 5935833--5935993 Score: 169
Period size: 71 Copynumber: 2.3 Consensus size: 71
5935823 TTTTGTGAAG
* * * * * * * *
5935833 AAAGTATGGATACCTACAAGGAAGGTATCAATACTTGTTGTCTAGAATGCCTTGGGGAGCATTTT
1 AAAGTATAGATACCTATAAGCAAGGCATCAATACTTGCTATCCAGAATGCCTTGGGAAGCATTTT
5935898 ATTTGA
66 ATTTGA
* * * * * * *
5935904 ATAGTTTTGATTCCTATAAGCAAGGCATCAATACTTGCTATCCAGATTGCCTTTGGAAGTATTTT
1 AAAGTATAGATACCTATAAGCAAGGCATCAATACTTGCTATCCAGAATGCCTTGGGAAGCATTTT
*
5935969 GTTTGA
66 ATTTGA
*
5935975 AAAGTATAAATACCTATAA
1 AAAGTATAGATACCTATAA
5935994 TGGAGGTTTT
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (71 bp):
AAAGTATAGATACCTATAAGCAAGGCATCAATACTTGCTATCCAGAATGCCTTGGGAAGCATTTT
ATTTGA
Found at i:5939876 original size:28 final size:28
Alignment explanation
Indices: 5939831--5939884 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
5939821 CATTGAAACT
* *
5939831 TTATTTATGTATGATGTATTTTATTTGC
1 TTATTTACGTATGATGTAATTTATTTGC
* *
5939859 TTATTTACGTTTGGTGTAATTTATTT
1 TTATTTACGTATGATGTAATTTATTT
5939885 ACTTTTAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (28 bp):
TTATTTACGTATGATGTAATTTATTTGC
Found at i:5964836 original size:16 final size:15
Alignment explanation
Indices: 5964809--5964847 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
5964799 ATCAATGTCT
*
5964809 AATCCAAATGATTCA
1 AATCCAAATGATCCA
5964824 AATCCAGAATGATCCA
1 AATCCA-AATGATCCA
*
5964840 AACCCAAA
1 AATCCAAA
5964848 ACGACTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.49, C:0.26, G:0.08, T:0.18
Consensus pattern (15 bp):
AATCCAAATGATCCA
Found at i:5982355 original size:16 final size:16
Alignment explanation
Indices: 5982334--5982366 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5982324 GAAGATTTTC
*
5982334 ATGCCAAGAACTACTT
1 ATGCCAAGAACCACTT
5982350 ATGCCAAGAACCACTT
1 ATGCCAAGAACCACTT
5982366 A
1 A
5982367 GAGCTACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.21
Consensus pattern (16 bp):
ATGCCAAGAACCACTT
Found at i:5986459 original size:27 final size:27
Alignment explanation
Indices: 5986416--5986503 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
5986406 TTAGTGGGTT
*
5986416 AAGTTATCCATCCACTTTTGATGGATA
1 AAGTTATCCATCTACTTTTGATGGATA
* * * **
5986443 AAATTATTCATCTACTTCTGATACATA
1 AAGTTATCCATCTACTTTTGATGGATA
* *
5986470 AAGTTATCCAT-TCACTTTTAATGGGTA
1 AAGTTATCCATCT-ACTTTTGATGGATA
5986497 AAGTTAT
1 AAGTTAT
5986504 TCTTAGAATT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (27 bp):
AAGTTATCCATCTACTTTTGATGGATA
Found at i:5987002 original size:11 final size:11
Alignment explanation
Indices: 5986986--5987018 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
5986976 AAAGAACAAC
5986986 TATAAGAAAAA
1 TATAAGAAAAA
5986997 TATAAGAAAAA
1 TATAAGAAAAA
5987008 TATAAGAAAAA
1 TATAAGAAAAA
5987019 GTATTTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (11 bp):
TATAAGAAAAA
Found at i:5989470 original size:3 final size:3
Alignment explanation
Indices: 5989462--5989492 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5989452 GGTAACAAAA
5989462 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
5989493 TAACACATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:5992528 original size:40 final size:40
Alignment explanation
Indices: 5992473--5992556 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
5992463 GACATTTGAG
5992473 TGAAATACCAAATGGAGTTCTCATAACAAGTCATGTTTAA
1 TGAAATACCAAATGGAGTTCTCATAACAAGTCATGTTTAA
*
5992513 TGAAATACCAAATGGAGTTCTCATAACAAGTCATGTTTAG
1 TGAAATACCAAATGGAGTTCTCATAACAAGTCATGTTTAA
5992553 TGAA
1 TGAA
5992557 CTTGTTCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (40 bp):
TGAAATACCAAATGGAGTTCTCATAACAAGTCATGTTTAA
Found at i:5996037 original size:2 final size:2
Alignment explanation
Indices: 5996025--5996060 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5996015 CATTTCATAC
*
5996025 AT AT AT GT 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 AT AT AT AT
5996061 TAAAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6000414 original size:20 final size:20
Alignment explanation
Indices: 6000389--6000449 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
6000379 ATGTTATAAT
6000389 TAAAATAAAAAATATTAAAA
1 TAAAATAAAAAATATTAAAA
* *
6000409 TAAAATATATAATA-TAAGAA
1 TAAAATAAAAAATATTAA-AA
*
6000429 TAAAA-AATAAAAAATTAAAA
1 TAAAATAA-AAAATATTAAAA
6000449 T
1 T
6000450 TTATATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAATAAAAAATATTAAAA
Found at i:6000432 original size:35 final size:35
Alignment explanation
Indices: 6000383--6000561 Score: 140
Period size: 33 Copynumber: 5.1 Consensus size: 35
6000373 TTTATAATGT
*
6000383 TATAAT-TAA-AATAAAAAATATTAAAATAAAATA
1 TATAATATAAGAATAAAAAATATAAAAATAAAATA
6000416 TATAATATAAGAATAAAAAATA-AAAAATTAAAATTTA
1 TATAATATAAGAATAAAAAATATAAAAA-TAAAA--TA
* *
6000453 TATAATAT-AG-GTAAAACAA-ATTAAAATAAAATA
1 TATAATATAAGAATAAAA-AATATAAAAATAAAATA
* *
6000486 TATAATATAAAAAATATATTAAAAAAATAAAAATAAAATA
1 TATAATAT--AAGA-ATA--AAAAATATAAAAATAAAATA
* * * *
6000526 TATAAGATTATAAT-AATAA-ATAAAAATAAAATA
1 TATAATATAAGAATAAAAAATATAAAAATAAAATA
6000559 TAT
1 TAT
6000562 GACATTAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
33 33 0.27
34 11 0.09
35 27 0.22
36 9 0.07
37 12 0.10
38 4 0.03
39 2 0.02
40 23 0.19
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.30
Consensus pattern (35 bp):
TATAATATAAGAATAAAAAATATAAAAATAAAATA
Found at i:6000433 original size:40 final size:38
Alignment explanation
Indices: 6000389--6000558 Score: 115
Period size: 40 Copynumber: 4.5 Consensus size: 38
6000379 ATGTTATAAT
6000389 TAAAATAAAAAATATTAAAATAAAATATATAATATAAGAA
1 TAAAA-AAAAAA-ATTAAAATAAAATATATAATATAAGAA
* *
6000429 TAAAAAATAAAAAATTAAAAT---TTATATAATAT-AG-G
1 T-AAAAA-AAAAAATTAAAATAAAATATATAATATAAGAA
* *
6000464 T---AAAACAAATTAAAATAAAATATATAATATAAAAAA
1 TAAAAAAAAAAATTAAAATAAAATATATAATAT-AAGAA
** * * * *
6000500 TATATTAAAAAAATAAAAATAAAATATATAAGATTATAA
1 TA-AAAAAAAAAATTAAAATAAAATATATAATATAAGAA
*
6000539 TAATAAATAAAAA-TAAAATA
1 TAA-AAAAAAAAATTAAAATA
6000559 TATGACATTA
Statistics
Matches: 101, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
30 12 0.12
31 2 0.02
33 10 0.10
35 2 0.02
36 3 0.03
37 10 0.10
38 7 0.07
39 11 0.11
40 35 0.35
41 9 0.09
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (38 bp):
TAAAAAAAAAAATTAAAATAAAATATATAATATAAGAA
Found at i:6007436 original size:27 final size:27
Alignment explanation
Indices: 6007406--6007460 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6007396 CAGCGCTGCT
* *
6007406 CACCTCCACGTCCTCCGCGTCCACCTC
1 CACCACCACCTCCTCCGCGTCCACCTC
* * *
6007433 CACCACCGCCTCCTCGGCGTCCCCCTC
1 CACCACCACCTCCTCCGCGTCCACCTC
6007460 C
1 C
6007461 GCGTCCGGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.09, C:0.62, G:0.13, T:0.16
Consensus pattern (27 bp):
CACCACCACCTCCTCCGCGTCCACCTC
Found at i:6012072 original size:17 final size:18
Alignment explanation
Indices: 6012050--6012084 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6012040 ATGCTTTTGT
*
6012050 TGTTTT-TTTTTTAATTA
1 TGTTTTATTTCTTAATTA
6012067 TGTTTTATTTCTTAATTA
1 TGTTTTATTTCTTAATTA
6012085 CTCTTCCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
TGTTTTATTTCTTAATTA
Found at i:6023777 original size:6 final size:7
Alignment explanation
Indices: 6023760--6023788 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6023750 ATTTTTTTTA
6023760 AAAAATT
1 AAAAATT
6023767 AAAAATT
1 AAAAATT
6023774 AAAAATT
1 AAAAATT
6023781 AAAAATT
1 AAAAATT
6023788 A
1 A
6023789 TGCCTATTTC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:6027846 original size:47 final size:45
Alignment explanation
Indices: 6027777--6027874 Score: 142
Period size: 47 Copynumber: 2.1 Consensus size: 45
6027767 CTAATTTTAA
*
6027777 TTTTCCCAGTTTCCTTTGTTGGGTTTGGGCCAACCGCATCTTCCATT
1 TTTTCCCAGTTTCCTTTGTTGGGTTTGGGCCAACCACATCTT-C-TT
* * *
6027824 TTTTCCCCGTTTTCTTTTTTGGGTTTGGGCCAACCACATCTTCTT
1 TTTTCCCAGTTTCCTTTGTTGGGTTTGGGCCAACCACATCTTCTT
6027869 TTTTCC
1 TTTTCC
6027875 TTTACATCGG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
45 8 0.17
46 1 0.02
47 38 0.81
ACGTcount: A:0.09, C:0.28, G:0.16, T:0.47
Consensus pattern (45 bp):
TTTTCCCAGTTTCCTTTGTTGGGTTTGGGCCAACCACATCTTCTT
Found at i:6029870 original size:16 final size:18
Alignment explanation
Indices: 6029844--6029894 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
6029834 ATGGATGGAT
6029844 TAAATTCTAATATT-CATC
1 TAAA-TCTAATATTACATC
6029862 T-AATCTAAT-TTACATC
1 TAAATCTAATATTACATC
6029878 TAAATCTAGATA-TACAT
1 TAAATCTA-ATATTACAT
6029895 AGTATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.07
16 11 0.38
17 8 0.28
18 8 0.28
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAATCTAATATTACATC
Found at i:6034114 original size:18 final size:18
Alignment explanation
Indices: 6034091--6034128 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6034081 AAAAGTATTC
*
6034091 ATCCACTTCTGTTGGGTT
1 ATCCACTTCTGATGGGTT
*
6034109 ATCCACTTTTGATGGGTT
1 ATCCACTTCTGATGGGTT
6034127 AT
1 AT
6034129 TTTAGTGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (18 bp):
ATCCACTTCTGATGGGTT
Found at i:6034223 original size:25 final size:25
Alignment explanation
Indices: 6034163--6034258 Score: 106
Period size: 26 Copynumber: 3.8 Consensus size: 25
6034153 ATTTGTCCAC
6034163 TTCTGATGGTAAAATTATCTATTCAT
1 TTCTGATGGTAAAATTAT-TATTCAT
* *
6034189 TTCTGGTGGTAAAATTATTATTAGAT
1 TTCTGATGGTAAAATTATTATT-CAT
* *
6034215 TT-TGATGGTAAAATTATTCATCCAC
1 TTCTGATGGTAAAATTATT-ATTCAT
6034240 TTCT-AGTGGTAAAATTATT
1 TTCTGA-TGGTAAAATTATT
6034259 TTTAGAATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
25 23 0.38
26 37 0.62
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (25 bp):
TTCTGATGGTAAAATTATTATTCAT
Found at i:6034249 original size:51 final size:51
Alignment explanation
Indices: 6034166--6034264 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
6034156 TGTCCACTTC
* * *
6034166 TGATGGTAAAATTATCTATTCATTTCTGGTGGTAAAATTATTATTAGATTT
1 TGATGGTAAAATTATCTATCCACTTCTAGTGGTAAAATTATTATTAGATTT
*
6034217 TGATGGTAAAATTAT-TCATCCACTTCTAGTGGTAAAATTATTTTTAGA
1 TGATGGTAAAATTATCT-ATCCACTTCTAGTGGTAAAATTATTATTAGA
6034265 ATTGAAATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (51 bp):
TGATGGTAAAATTATCTATCCACTTCTAGTGGTAAAATTATTATTAGATTT
Found at i:6035352 original size:16 final size:16
Alignment explanation
Indices: 6035331--6035363 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6035321 TATACTTTTA
*
6035331 TTTTTTCTAAA-TTCT
1 TTTTTTTTAAAGTTCT
6035346 TTTTTTTTAAAGTTCT
1 TTTTTTTTAAAGTTCT
6035362 TT
1 TT
6035364 ACATTTCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTTTTAAAGTTCT
Found at i:6039051 original size:19 final size:19
Alignment explanation
Indices: 6039016--6039056 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6039006 TGGACAAAAA
*
6039016 AAAGAAAAGAGATAAAAGG
1 AAAGAAAAGAGAAAAAAGG
6039035 AAAGCAAAAGA-AAAAAAGG
1 AAAG-AAAAGAGAAAAAAGG
6039054 AAA
1 AAA
6039057 TGGAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAGAAAAGAGAAAAAAGG
Found at i:6045182 original size:17 final size:17
Alignment explanation
Indices: 6045160--6045192 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6045150 TTCATTTTTT
6045160 ATGAAAAAATAGGAAAA
1 ATGAAAAAATAGGAAAA
6045177 ATGAAAAAATAGGAAA
1 ATGAAAAAATAGGAAA
6045193 GGGGTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (17 bp):
ATGAAAAAATAGGAAAA
Found at i:6047829 original size:5 final size:5
Alignment explanation
Indices: 6047819--6047851 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
6047809 TGTCTGTTGA
6047819 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
6047852 AAAGAGTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6056483 original size:20 final size:19
Alignment explanation
Indices: 6056445--6056483 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6056435 TATTTATTAC
**
6056445 TTTTATTTAAATTTTATAA
1 TTTTATTTAAATTAAATAA
6056464 TTTTATTTTAAATTAAATAA
1 TTTTA-TTTAAATTAAATAA
6056484 AATTTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTATTTAAATTAAATAA
Found at i:6056779 original size:11 final size:11
Alignment explanation
Indices: 6056758--6056786 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6056748 TAGATATTTG
6056758 ATTAA-TAATA
1 ATTAATTAATA
6056768 ATTAATTAATA
1 ATTAATTAATA
6056779 ATTAATTA
1 ATTAATTA
6056787 TAAAATATTA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAATTAATA
Found at i:6056823 original size:21 final size:22
Alignment explanation
Indices: 6056799--6056844 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6056789 AAATATTATT
6056799 AATTTAA-AATA-AAAATATAAA
1 AATTTAATAATATAAAATA-AAA
*
6056820 AATTTAATTATATAAAATAAAA
1 AATTTAATAATATAAAATAAAA
6056842 AAT
1 AAT
6056845 AAAAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 9 0.41
23 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTAATAATATAAAATAAAA
Found at i:6058015 original size:17 final size:18
Alignment explanation
Indices: 6057993--6058032 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6057983 TAATTATAAA
*
6057993 AATAATTATAACAAA-AT
1 AATAATAATAACAAATAT
*
6058010 AATAATAATATCAAATAT
1 AATAATAATAACAAATAT
6058028 AATAA
1 AATAA
6058033 AATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAATAATAACAAATAT
Found at i:6062080 original size:5 final size:5
Alignment explanation
Indices: 6062070--6062095 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6062060 AAAATGGAAC
6062070 AAACA AAACA AAACA AAACA AAACA A
1 AAACA AAACA AAACA AAACA AAACA A
6062096 TCTTTTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:6064926 original size:4 final size:4
Alignment explanation
Indices: 6064919--6064950 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
6064909 ACACACACAC
6064919 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
6064951 GTATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:6066318 original size:36 final size:36
Alignment explanation
Indices: 6066248--6066318 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
6066238 CTATAACCTC
* *
6066248 ACTACCTGTTACTTGGGTTAAGTTATAACTACTTAA
1 ACTACCTGTTACTTGGGTTAAGGTATAACCACTTAA
* *
6066284 ACTACCTTTTCACTT-GGTTAAGGTATAGCCACTTA
1 ACTACCTGTT-ACTTGGGTTAAGGTATAACCACTTA
6066319 CGAGATTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
ACTACCTGTTACTTGGGTTAAGGTATAACCACTTAA
Found at i:6071473 original size:73 final size:73
Alignment explanation
Indices: 6071297--6071461 Score: 226
Period size: 73 Copynumber: 2.3 Consensus size: 73
6071287 AACAGAATGT
* * *
6071297 TCTTAGTCGACTAACATTGCTACTTAGTTGATTAAGTTG-TTCATGTCTCTGAATCTAGTTTCTG
1 TCTTAGTCGACTAACAATGCTACTTAGTCGATTAAGTTGTTTC-TGTCTCTGAATCTAGTTTCTA
*
6071361 GCAGTAGGC
65 GCAGTAAGC
* * *
6071370 TCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTTGTTTCTGTCTCTGAA-CTCAGTTTTTA
1 TCTTAGTCGACTAACAATGCTACTTAGTCGATTAAGTTGTTTCTGTCTCTGAATCT-AGTTTCTA
6071434 GCAGTAAGC
65 GCAGTAAGC
*
6071443 TTTTAGTCGACTAACAATG
1 TCTTAGTCGACTAACAATG
6071462 TCACTCGGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 2 0.02
73 76 0.94
74 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (73 bp):
TCTTAGTCGACTAACAATGCTACTTAGTCGATTAAGTTGTTTCTGTCTCTGAATCTAGTTTCTAG
CAGTAAGC
Found at i:6071479 original size:73 final size:73
Alignment explanation
Indices: 6071297--6071488 Score: 194
Period size: 73 Copynumber: 2.6 Consensus size: 73
6071287 AACAGAATGT
* * * * * *
6071297 TCTTAGTCGACTAACATTGCTACTTAGTTGATTAAGTTG-TTCATGTCTCTGAATCTAGTTTCTG
1 TCTTAGTCGACTAACAATACTACTCAGTCGACTAAGTTGTTTC-TGTCTCTGAATCTAGTTTCTA
*
6071361 GCAGTAGGC
65 GCAGTAAGC
* * * *
6071370 TCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTTGTTTCTGTCTCTGAA-CTCAGTTTTTA
1 TCTTAGTCGACTAACAATACTACTCAGTCGACTAAGTTGTTTCTGTCTCTGAATCT-AGTTTCTA
6071434 GCAGTAAGC
65 GCAGTAAGC
* * *
6071443 TTTTAGTCGACTAACAAT-GTCACTCGGTCGACTAAG-TGTTCTCTGT
1 TCTTAGTCGACTAACAATACT-ACTCAGTCGACTAAGTTGTT-TCTGT
6071489 TTCACAATCT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
72 7 0.07
73 92 0.90
74 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (73 bp):
TCTTAGTCGACTAACAATACTACTCAGTCGACTAAGTTGTTTCTGTCTCTGAATCTAGTTTCTAG
CAGTAAGC
Found at i:6073152 original size:31 final size:31
Alignment explanation
Indices: 6073117--6073202 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
6073107 TGACACATAA
6073117 GTCTTTGGATTTGATATTTGTTTCAAATTTG
1 GTCTTTGGATTTGATATTTGTTTCAAATTTG
* * *
6073148 GTCTTTAGATTTGATATTTGATTCAACTTTG
1 GTCTTTGGATTTGATATTTGTTTCAAATTTG
* * *
6073179 GTGTTTGAATTTTGGTATTTGTTT
1 GTCTTTGGA-TTTGATATTTGTTT
6073203 TGGTTTTGGC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
31 34 0.74
32 12 0.26
ACGTcount: A:0.19, C:0.06, G:0.20, T:0.56
Consensus pattern (31 bp):
GTCTTTGGATTTGATATTTGTTTCAAATTTG
Found at i:6074349 original size:103 final size:103
Alignment explanation
Indices: 6074170--6074377 Score: 398
Period size: 103 Copynumber: 2.0 Consensus size: 103
6074160 CAATTTTCAT
6074170 ATTTACCACTTTTCCCAATTTTACCTAGAAGGGGATTGAAAATCACGTTGAAATCAACACACTGC
1 ATTTACCACTTTTCCCAATTTTACCTAGAAGGGGATTGAAAATCACGTTGAAATCAACACACTGC
*
6074235 AACAGGACCTGATTGCTCAAGTCAAAGGCCTTAACGTC
66 AACAGGACCTGATTGCTCAAGTCAAAGCCCTTAACGTC
*
6074273 ATTTACCACTTTTCCCAATTTTACCTAGAAGGGGATTGAAAATCACGTTGAAATCAACACATTGC
1 ATTTACCACTTTTCCCAATTTTACCTAGAAGGGGATTGAAAATCACGTTGAAATCAACACACTGC
6074338 AACAGGACCTGATTGCTCAAGTCAAAGCCCTTAACGTC
66 AACAGGACCTGATTGCTCAAGTCAAAGCCCTTAACGTC
6074376 AT
1 AT
6074378 GGCCACCAAG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (103 bp):
ATTTACCACTTTTCCCAATTTTACCTAGAAGGGGATTGAAAATCACGTTGAAATCAACACACTGC
AACAGGACCTGATTGCTCAAGTCAAAGCCCTTAACGTC
Found at i:6077113 original size:25 final size:25
Alignment explanation
Indices: 6077076--6077136 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
6077066 TATCAACTCA
* * *
6077076 TGGCCTTGCCACGTATGACAATCGG
1 TGGCCTTGCCACGTATAACAACCCG
*
6077101 TGTCCTTGCCACGTATAACAACCCG
1 TGGCCTTGCCACGTATAACAACCCG
6077126 TGGCCTTGCCA
1 TGGCCTTGCCA
6077137 TGTACAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.25
Consensus pattern (25 bp):
TGGCCTTGCCACGTATAACAACCCG
Found at i:6078807 original size:16 final size:17
Alignment explanation
Indices: 6078781--6078826 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
6078771 CCTCCATTTC
6078781 CTCTCTTTTCTTCTCTTT
1 CTCT-TTTTCTTCTCTTT
*
6078799 -TCTTTTTCTTTTCTTT
1 CTCTTTTTCTTCTCTTT
6078815 CTCTTTTT-TTCT
1 CTCTTTTTCTTCT
6078827 TCTTGGGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
CTCTTTTTCTTCTCTTT
Found at i:6078810 original size:11 final size:11
Alignment explanation
Indices: 6078782--6078826 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
6078772 CTCCATTTCC
6078782 TCTCTTTTC-T
1 TCTCTTTTCTT
6078792 TCTCTTTTCTT
1 TCTCTTTTCTT
*
6078803 TTTCTTTTCTT
1 TCTCTTTTCTT
6078814 TCTCTTTT-TT
1 TCTCTTTTCTT
6078824 TCT
1 TCT
6078827 TCTTGGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTCTTTTCTT
Found at i:6079523 original size:31 final size:31
Alignment explanation
Indices: 6079451--6079543 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
6079441 TCTTATTACC
* **
6079451 ATTTGATCCTTTAAACTTTTCATCCTT-CATA
1 ATTTGATCCTTCAAACTTTTCATAATTACA-A
*
6079482 ATTTGGTCCTTCAAACTTTTCATAAATTACAA
1 ATTTGATCCTTCAAACTTTTCAT-AATTACAA
6079514 A-TTGATCCTTC-AACTTGTTCATAATTACAA
1 ATTTGATCCTTCAAACTT-TTCATAATTACAA
6079544 CTTTACTTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
30 13 0.24
31 35 0.65
32 4 0.07
33 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.43
Consensus pattern (31 bp):
ATTTGATCCTTCAAACTTTTCATAATTACAA
Found at i:6084431 original size:21 final size:21
Alignment explanation
Indices: 6084405--6084449 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
6084395 TTGATTGTTG
6084405 CTTAGATGCTGGCGTCTGAGA
1 CTTAGATGCTGGCGTCTGAGA
6084426 CTTAGATGCTGGCGTCTGAGA
1 CTTAGATGCTGGCGTCTGAGA
6084447 CTT
1 CTT
6084450 CCTTGTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (21 bp):
CTTAGATGCTGGCGTCTGAGA
Found at i:6094722 original size:21 final size:21
Alignment explanation
Indices: 6094695--6094743 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
6094685 GTAGCGCAGT
6094695 GCTGCAGCACTACTTCTCCAGC
1 GCTGCAGCACTAC-TCTCCAGC
6094717 -CTGCAGCACTACTCTCCAGC
1 GCTGCAGCACTACTCTCCAGC
6094737 GCTGCAG
1 GCTGCAG
6094744 TGCTGAGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.18, C:0.41, G:0.20, T:0.20
Consensus pattern (21 bp):
GCTGCAGCACTACTCTCCAGC
Found at i:6095303 original size:21 final size:22
Alignment explanation
Indices: 6095268--6095311 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
6095258 CTCTTAAAGT
6095268 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
6095290 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
6095311 A
1 A
6095312 TTAATCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:6098024 original size:13 final size:13
Alignment explanation
Indices: 6098006--6098036 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6097996 TATCTTCTCT
6098006 AAAAAAATTTGAA
1 AAAAAAATTTGAA
*
6098019 AAAAAAATTTTAA
1 AAAAAAATTTGAA
6098032 AAAAA
1 AAAAA
6098037 TAAGGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAAAAAATTTGAA
Found at i:6110069 original size:18 final size:19
Alignment explanation
Indices: 6110048--6110084 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6110038 TTTTTATGTA
*
6110048 ATTAA-ATTTTTTTAAAAT
1 ATTAATATTTATTTAAAAT
6110066 ATTAATATTTATTTAAAAT
1 ATTAATATTTATTTAAAAT
6110085 TAAAACTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATATTTATTTAAAAT
Found at i:6110458 original size:50 final size:49
Alignment explanation
Indices: 6110363--6110518 Score: 204
Period size: 50 Copynumber: 3.1 Consensus size: 49
6110353 TAACATTATC
* * *
6110363 TTAAGACAACTCTTATCTTAATTAAGACAACACATATATGTTTGTCTAAA
1 TTAAGACAACTCTTATATTAATTAAGACAACATATATAT-CTTGTCTAAA
* *
6110413 TTAAGACAACTCTTATATTTAATTAAGATAACATATGTATCTTGTCTAAA
1 TTAAGACAACTCTTATA-TTAATTAAGACAACATATATATCTTGTCTAAA
* * * *
6110463 TTAAGACAAATCTTGTAATAATTAAGACAACATATAAATTCTTGTCTAAA
1 TTAAGACAACTCTTATATTAATTAAGACAACATATATA-TCTTGTCTAAA
6110513 TTAAGA
1 TTAAGA
6110519 TAAGTTTCGT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 17 0.18
50 57 0.61
51 19 0.20
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (49 bp):
TTAAGACAACTCTTATATTAATTAAGACAACATATATATCTTGTCTAAA
Found at i:6115134 original size:102 final size:102
Alignment explanation
Indices: 6114958--6115163 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 102
6114948 ATTTGGAACA
6114958 ATTTATACACTGCATTTGTGGAAAGCATGAGCTGGTAGAAACCATAGGCAACTATGGATACAAAT
1 ATTTATACACTGCATTTGTGGAAAGCATGAGCTGGTAGAAACCATAGGCAACTATGGATACAAAT
6115023 TGATTTGGAAAGTTGTTTGTGTAACCTATTTATATAT
66 TGATTTGGAAAGTTGTTTGTGTAACCTATTTATATAT
* *
6115060 ATTTATACACTGCATTTGTGGAAAGCATGAGCTGGTAGAAACCATAGGCAATTATGGATGCAAAT
1 ATTTATACACTGCATTTGTGGAAAGCATGAGCTGGTAGAAACCATAGGCAACTATGGATACAAAT
*
6115125 TGATTTGGAAAGTTGTTTGTGTAGCCTATTTATATAT
66 TGATTTGGAAAGTTGTTTGTGTAACCTATTTATATAT
6115162 AT
1 AT
6115164 ACATATATGT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (102 bp):
ATTTATACACTGCATTTGTGGAAAGCATGAGCTGGTAGAAACCATAGGCAACTATGGATACAAAT
TGATTTGGAAAGTTGTTTGTGTAACCTATTTATATAT
Found at i:6120779 original size:36 final size:34
Alignment explanation
Indices: 6120713--6120805 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 34
6120703 TAATGACCTA
*
6120713 ATGTGGGGCATTATACCACACATATACTCAAACTAG
1 ATGTGGGGCATTATA-C-CACATATACTCAAACCAG
* *
6120749 ATGTGGGGCATTATACCATATGAGTGCTCAAACCAG
1 ATGTGGGGCATTATACCACAT-A-TACTCAAACCAG
*
6120785 ATGTGAGGC-TTCATACCACAT
1 ATGTGGGGCATT-ATACCACAT
6120806 GTGATAAGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
34 4 0.08
35 4 0.08
36 41 0.84
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (34 bp):
ATGTGGGGCATTATACCACATATACTCAAACCAG
Found at i:6132270 original size:62 final size:62
Alignment explanation
Indices: 6132193--6132310 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
6132183 TGCAGTCCAA
* *
6132193 TATACATCACCATAATAACTTTCATTGAACATAACTTAGAATCATTATCATCATTTGTTTTT
1 TATACATCACCATAATAACTTTCATTCAACATAACATAGAATCATTATCATCATTTGTTTTT
** *
6132255 TATACATCATGATAATAACTTTCATTCAACATAACATAGAATCATTGTCATCATTT
1 TATACATCACCATAATAACTTTCATTCAACATAACATAGAATCATTATCATCATTT
6132311 CGTAAGATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (62 bp):
TATACATCACCATAATAACTTTCATTCAACATAACATAGAATCATTATCATCATTTGTTTTT
Found at i:6137926 original size:79 final size:80
Alignment explanation
Indices: 6137767--6137917 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 80
6137757 CCCCACACCT
* * *
6137767 GAACTAGAGCCAACACACAAAAGGGGAAAAAGTGGCATGTTGGCCAAGCTTAACTCCGTGGTATT
1 GAACTAGAGCCAACACACAAAAGGGGAAAAAGTGGCACGTTAGCCAAGCTTAACTCCGTGGCATT
6137832 CTTACCCCCTCACTA
66 CTTACCCCCTCACTA
* *
6137847 GAACTAGAGCCAACATACAAAA-GGG-AAAAGATGGCACGTTAGCCAAGCTTAAC-CATGTGGCA
1 GAACTAGAGCCAACACACAAAAGGGGAAAAAG-TGGCACGTTAGCCAAGCTTAACTC-CGTGGCA
6137909 TTCTTACCC
64 TTCTTACCC
6137918 TTACACTAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
78 6 0.09
79 37 0.58
80 21 0.33
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (80 bp):
GAACTAGAGCCAACACACAAAAGGGGAAAAAGTGGCACGTTAGCCAAGCTTAACTCCGTGGCATT
CTTACCCCCTCACTA
Found at i:6145111 original size:73 final size:73
Alignment explanation
Indices: 6144989--6145153 Score: 213
Period size: 73 Copynumber: 2.3 Consensus size: 73
6144979 CAGACAAAAT
* ** *
6144989 GCTCTTAGTCAACTAATATTGCTACTTAGTCGATTAAGTTGTCTATGTCTCTAAACCCAGTTTTT
1 GCTCTTAGTCAACTAACAAAGCTACTTAGTCGATTAAGTTATCTATGTCTCTAAACCCAGTTTTT
*
6145054 GACAGTAG
66 GACAGTAA
* * * * *
6145062 GCTCTTAGTCAACTAACAAAGCTTCTTAGTTGATTAAGTTATTTCTGTCTCTGAACCCAGTTTTT
1 GCTCTTAGTCAACTAACAAAGCTACTTAGTCGATTAAGTTATCTATGTCTCTAAACCCAGTTTTT
*
6145127 GGCAGTAA
66 GACAGTAA
* *
6145135 GCTCTTAATCGACTAACAA
1 GCTCTTAGTCAACTAACAA
6145154 TGTCTTTTGG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (73 bp):
GCTCTTAGTCAACTAACAAAGCTACTTAGTCGATTAAGTTATCTATGTCTCTAAACCCAGTTTTT
GACAGTAA
Found at i:6145182 original size:73 final size:73
Alignment explanation
Indices: 6144989--6145185 Score: 182
Period size: 73 Copynumber: 2.7 Consensus size: 73
6144979 CAGACAAAAT
* * ** * * * * *
6144989 GCTCTTAGTCAACTAATATTGCTACTTAGTCGATTAAGTTGTCTATGTCTCTAAACCCAGTTTTT
1 GCTCTTAATCAACTAACAAAGCTTCTTAGTCAACTAAGTTATCTCTGTCTCTAAACCCAGTTTTT
*
6145054 GACAGTAG
66 GACAGTAA
* ** * * *
6145062 GCTCTTAGTCAACTAACAAAGCTTCTTAGTTGATTAAGTTATTTCTGTCTCTGAACCCAGTTTTT
1 GCTCTTAATCAACTAACAAAGCTTCTTAGTCAACTAAGTTATCTCTGTCTCTAAACCCAGTTTTT
*
6145127 GGCAGTAA
66 GACAGTAA
* * *
6145135 GCTCTTAATCGACTAACAATGTCTT-TTGGTCAACTAAGTGT-TCTCTGTCTC
1 GCTCTTAATCAACTAACAAAG-CTTCTTAGTCAACTAAGT-TATCTCTGTCTC
6145186 ATAGTTTGCT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
73 99 0.96
74 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (73 bp):
GCTCTTAATCAACTAACAAAGCTTCTTAGTCAACTAAGTTATCTCTGTCTCTAAACCCAGTTTTT
GACAGTAA
Found at i:6152815 original size:14 final size:13
Alignment explanation
Indices: 6152796--6152855 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
6152786 TTCTTCTAGC
6152796 CTTTCTTCTTTCAT
1 CTTTCTTCTTTC-T
* *
6152810 CTTTCTCCTGTCT
1 CTTTCTTCTTTCT
*
6152823 CTCTTCTTTTTTCT
1 CT-TTCTTCTTTCT
6152837 CCTTTCTTCTTTTCT
1 -CTTTCTTC-TTTCT
6152852 CTTT
1 CTTT
6152856 TCACTTTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.08
14 27 0.73
15 7 0.19
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.65
Consensus pattern (13 bp):
CTTTCTTCTTTCT
Found at i:6152836 original size:21 final size:22
Alignment explanation
Indices: 6152799--6152857 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
6152789 TTCTAGCCTT
6152799 TCTTCT-TTCATC-TTTCTCCTG
1 TCTTCTCTTC-TCTTTTCTCCTG
* *
6152820 TC-TCTCTTCTTTTTTCTCCTT
1 TCTTCTCTTCTCTTTTCTCCTG
*
6152841 TCTTCTTTTCTCTTTTC
1 TCTTCTCTTCTCTTTTC
6152858 ACTTTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 4 0.13
21 15 0.48
22 12 0.39
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.64
Consensus pattern (22 bp):
TCTTCTCTTCTCTTTTCTCCTG
Found at i:6155323 original size:42 final size:38
Alignment explanation
Indices: 6155235--6155325 Score: 92
Period size: 42 Copynumber: 2.3 Consensus size: 38
6155225 TAAAGTAAGA
* **
6155235 AAAACTCTTTTTGTTAAAAAAAAGAATCATGGTGCAAG
1 AAAACTCTTTTTGTTAAAAAAAAAAATCATAATGCAAG
* *
6155273 AAACACTCTTTTTCTTTAAAAAAAATAAAGTCATAATTCAAG
1 AAA-ACTCTTTTT-GTTAAAAAAAA-AAA-TCATAATGCAAG
6155315 TAAAACTCTTT
1 -AAAACTCTTT
6155326 CAAAAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.07
39 9 0.21
40 10 0.23
41 2 0.05
42 16 0.37
43 3 0.07
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (38 bp):
AAAACTCTTTTTGTTAAAAAAAAAAATCATAATGCAAG
Found at i:6161647 original size:14 final size:14
Alignment explanation
Indices: 6161628--6161665 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6161618 AATGAAATTG
6161628 ATATGTATATGT-A
1 ATATGTATATGTGA
*
6161641 TATATGTGTATGTGA
1 -ATATGTATATGTGA
6161656 ATATGTATAT
1 ATATGTATAT
6161666 TTTCCTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (14 bp):
ATATGTATATGTGA
Found at i:6171081 original size:21 final size:21
Alignment explanation
Indices: 6170998--6171082 Score: 80
Period size: 21 Copynumber: 3.8 Consensus size: 21
6170988 CACATATATC
*
6170998 CTTGTCTAAATTAAAATAACT
1 CTTGTCTAAATTAAGATAACT
* *
6171019 CTTGTCTTAATTAAGATAATATATTTT
1 CTTGTCTAAATTAAG---ATA-A--CT
6171046 CTTGTCTAAATTAAGATAACT
1 CTTGTCTAAATTAAGATAACT
*
6171067 CTTGTCTCAATTAAGA
1 CTTGTCTAAATTAAGA
6171083 CAACATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 29 0.56
23 1 0.02
24 6 0.12
25 1 0.02
27 15 0.29
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.42
Consensus pattern (21 bp):
CTTGTCTAAATTAAGATAACT
Found at i:6172902 original size:36 final size:36
Alignment explanation
Indices: 6172828--6173083 Score: 328
Period size: 35 Copynumber: 7.3 Consensus size: 36
6172818 TCTCAAGCAC
* *
6172828 TTGATTAAAATTGTTTAATTAAG---TTGTGCCTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
*
6172861 TTGATTAAATTTGTTTAATCAAGTTATTGGGCCTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
* *
6172897 TTGATTAAATTTGTTTAATCAAGTTATTGGGCTTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
* *
6172933 TTGATCAAA-TTGTTTAATTAAGTTATTGGGCCTCA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
**** *
6172968 TTGATTAAA-TTAAACAATTAAGTTATT-GGCTTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
*
6173002 TTGATTAAATTTGTTTAATCAAGTTATTGGGCCTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
* *
6173038 TTAATTAAA-TTGTTTAATTAAGTTATTTGGCCTAA
1 TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
6173073 TTGATTAAATT
1 TTGATTAAATT
6173084 AAACAATTAA
Statistics
Matches: 192, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
33 21 0.11
34 14 0.07
35 90 0.47
36 67 0.35
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (36 bp):
TTGATTAAATTTGTTTAATTAAGTTATTGGGCCTAA
Found at i:6173011 original size:105 final size:105
Alignment explanation
Indices: 6172835--6173102 Score: 380
Period size: 105 Copynumber: 2.6 Consensus size: 105
6172825 CACTTGATTA
* **** *
6172835 AAATTGTTTAATTAAG---TTGTGCCTAATTGATTAAATTTGTTTAATCAAGTTATTGGGCCTAA
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAA-TTAAACAATTAAGTTATT-GGCCTAA
* *
6172897 TTGATTAAATTTGTTTAATCAAGTTATTGGGCTTAATTGATC
64 TTGATTAAATTTGTTTAATCAAGTTATTGGGCCTAATTAATC
* *
6172939 AAATTGTTTAATTAAGTTATTGGGCCTCATTGATTAAATTAAACAATTAAGTTATTGGCTTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTATTGGCCTAATT
*
6173004 GATTAAATTTGTTTAATCAAGTTATTGGGCCTAATTAATT
66 GATTAAATTTGTTTAATCAAGTTATTGGGCCTAATTAATC
*
6173044 AAATTGTTTAATTAAGTTATTTGGCCTAATTGATTAAATTAAACAATTAAGTTAATTGG
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTT-ATTGG
6173103 GCTTCTTAAG
Statistics
Matches: 147, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
104 16 0.11
105 96 0.65
106 18 0.12
107 17 0.12
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (105 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTATTGGCCTAATT
GATTAAATTTGTTTAATCAAGTTATTGGGCCTAATTAATC
Found at i:6173141 original size:18 final size:18
Alignment explanation
Indices: 6173118--6173158 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
6173108 TTAAGGACTT
*
6173118 AATTAAATTATTTATTTA
1 AATTAAATTATTTATTCA
6173136 AATTAAATTATTTATTCA
1 AATTAAATTATTTATTCA
6173154 AATTA
1 AATTA
6173159 TTGGATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAAATTATTTATTCA
Found at i:6182491 original size:250 final size:246
Alignment explanation
Indices: 6182041--6182829 Score: 937
Period size: 250 Copynumber: 3.2 Consensus size: 246
6182031 NNNNNNNNNC
* *
6182041 TAAAAGTATGTAACGATATATAAATTTTAATTTTTAAATAAAAAAATAA-AGATAAAAATAATTA
1 TAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAAT-AAAAAATAATA-AT-AAAATAATTA
* * * * * * *
6182105 TAATAT-AAAATTAACATAGATAAGTCTTAATGTAAAATTGTAAGAATTGACGTATAAATTTATA
63 TAAT-TCAAAATTGATATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATA
* * * *
6182169 AAAATAGAATAACTAAATTTTAAATCTTAACGTAAACATGTAAGAGTTAAGGTAACAAGTTC-AT
127 AAAGTAGAATAACTAAATTTTAAATCTTAACGTAAACATGTGAGAGTTAACGTAATAAG-TCAAT
*
6182233 TAAGTAAAAAAAAAATCTAATGTTAGTGGAAAATAAATATTTAAATCTATATTCTCGGAT
191 TAAGT--AAAAAAAATCTAAT-TTAGT-GAAAATAAATATTTAAATATATATTCTCGGAT
* * *
6182293 TAAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAATAATAATAATAAAATAATTATAG
1 TAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAATAAAATAATTATAA
* * * * *
6182358 TTCAAAATTGATATAGATAAATCTTGATATAAAACTGTAACAGTTGACGCAAAAACTTATAAAGG
66 TTCAAAATTGATATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAG
* * * *
6182423 T-GTAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACATAATAAGTCAATTGAG
131 TAG-AATAACTAAATTTTAAATCTTAACGTAAACATGTGAGAGTTAACGTAATAAGTCAATTAAG
* * * * *
6182487 TAAAAAAATTTTAATTTTAGTGAAAAAAAATATTTAAATATATATTCTTCAG-C
195 TAAAAAAAATCTAA-TTTAGTGAAAATAAATATTTAAATATATATTC-TCGGAT
*
6182540 TAAATGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAAATAATAATAATTAT
1 TAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAAT-AATAA-AATAATTAT
* * * *
6182605 AACTCAAAATTG-TCATGGATAAATTTTGACGTAAAACTGTAACAATTGACGTAAAAATTTATAA
64 AATTCAAAATTGAT-ATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAA
* * * *
6182669 AAGTAGAATAACTAAATTTTAAATTTTAACGT-AACGTGCTGAAAAGTTTAACGTAATCATGTCA
128 AAGTAGAATAACTAAATTTTAAATCTTAACGTAAACATG-TG-AGAG-TTAACGTAAT-AAGTCA
* *
6182733 ATTAAGTAAAAAAAATCTAACTTTAGTGAAAATAAATATTTAAATTTATATTCTCGAAT
189 ATTAAGTAAAAAAAATCTAA-TTTAGTGAAAATAAATATTTAAATATATATTCTCGGAT
*
6182792 TAAAAGTGTTTAAAC-ATAATACAAATTTTAATTTTTAA
1 TAAAAGTGTTT-AACGAT-ATATAAATTTTAATTTTTAA
6182830 GTTTGGACAT
Statistics
Matches: 458, Mismatches: 62, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
247 70 0.15
248 29 0.06
249 96 0.21
250 119 0.26
251 21 0.05
252 101 0.22
253 22 0.05
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (246 bp):
TAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAATAAAATAATTATAA
TTCAAAATTGATATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAG
TAGAATAACTAAATTTTAAATCTTAACGTAAACATGTGAGAGTTAACGTAATAAGTCAATTAAGT
AAAAAAAATCTAATTTAGTGAAAATAAATATTTAAATATATATTCTCGGAT
Found at i:6183160 original size:20 final size:19
Alignment explanation
Indices: 6183126--6183171 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6183116 AAAGGTGAAA
*
6183126 TAAC-TAAATTTTAAATCT
1 TAACGTAAATTTTAAAACT
*
6183144 TAACGTAAATATTTAAAAGT
1 TAACGTAAAT-TTTAAAACT
6183164 TAACGTAA
1 TAACGTAA
6183172 TAATTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 15 0.62
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (19 bp):
TAACGTAAATTTTAAAACT
Found at i:6183553 original size:696 final size:692
Alignment explanation
Indices: 6182143--6185665 Score: 2183
Period size: 696 Copynumber: 4.9 Consensus size: 692
6182133 AATGTAAAAT
* * * * * *
6182143 TGTAAGAATTGACGTATAAATTTATAAAAATAGAATAACTAAATTTTAAATCTTAACGTAAACAT
1 TGTAATAATTGACGTAAAAACTTATAAAAATAAAATAATTAAATTTTAAATCTTAACGTAAATAT
* *
6182208 GTAAGAGTTAAGGTAACAAGTTC-ATTAAGTAAAAAAAAAATCTAATGTTAGTGGAAAATAAATA
66 GTAAGAGTTAACGTAACAAG-TCAATTAAGT---AAAAAAATCTAATTTTAGT-GAAAATAAATA
* * * * * *
6182272 TTTAAATCTATATTCTC-GGATTAAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAAT
126 TTTAAATTTATATTTTCAGG-CTAAAAGTGATTAACGATATATAAATTTTAATTTTTAAATAAAA
* * * * *
6182336 AATAATAAT-AAAATAATTATAGTTCAAAATTGATATAGATAAATCTTGATATAAAACTGTAACA
190 AATAATAATGAAAAAAATTATAGTTC-AAATTGACATAGAAAAATCTTGAGATAAAA-T-TAAAA
* ** * * *
6182400 GTTG-ACGCAAAAACTTATAAAGGTGTAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGA
252 ATTGAATAC-AAAACTTATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATATAAGA
* * *
6182464 GTTAACATAATAAGTCAATTGAGTAAAAAAATTTTAATTTTAGTGAAAAAA-AATATTTAAATAT
316 GTTAACATAATAAGTCAATTAAGTAAAAAAA-TTTAATTTTAAT-AAAAAATAATATTTAAATTT
* *
6182528 ATATTCTTC-AGCTAAATGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAAT-AA
379 ATATT-ATCGAGCTAAA-GTATTTAACGATATATAAATTTTAATTTTTAAAT-AAAAATAATAAA
* ** * * * * * *
6182591 ATAATAATAATTATAACTCAAAATTGTCATGGATAAATTTTGACGTAAAACTGTAACAATTGACG
441 ATAAAAATAATTATAGTTCAAAATTGACATAGA-AAGTCTTGACATAAAACTGTAAGAATTGACG
* * * * * *
6182656 TAAAAATTTATAAAAGTAGAATAACTAAATTTTAAATTTTAACGT-AACGTGCTGAAAAGTTTAA
505 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGC-G-AGAG-TTAA
* * * * ** *
6182720 CGTAATCATGTCAATTAAGTAAAAAAAATCTAACTTTAGTGAAAATAAATATTTAAATTTATATT
567 CGTAAT-AAGTTAATTAAGTAAAAAAAATCTAATTTTAATGAAAATAAGCATTTATATTTATATT
* * * * * *** * ** *
6182785 CTCGAATTAAAAGTGT-TTA-AACATAATACAAATTTTAATTTTTAAGTTTGGACATCAAAC
631 ATCGAACTAAAAGTATGTAACAACATAATACAAATTTCAATTAAAAAGTATAAAAATCAAAC
* *
6182845 TGTAATAATTGACGTAAAAACTTATAAAGATAAAATAATTAAATTTTAAATCTTAACGTAAATGT
1 TGTAATAATTGACGTAAAAACTTATAAAAATAAAATAATTAAATTTTAAATCTTAACGTAAATAT
* * *
6182910 GTTAGAGTTAATGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAAT-AAAA-AAATATTTAA
66 GTAAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAATAAATATTTAA
6182973 ATTTATATTTTCAGGCTAAAAGTGATTAACGATATATAAATTTTAATTTTTAAATAAAAAATAAT
131 ATTTATATTTTCAGGCTAAAAGTGATTAACGATATATAAATTTTAATTTTTAAATAAAAAATAAT
* **
6183038 AATGAAAAAAATTATAGTTCAATATTGACATAGACAAGCCTTGAGATAAATATTAAAAATTGATA
196 AATGAAAAAAATTATAGTTCAA-ATTGACATAGAAAAATCTTGAGATAAA-ATTAAAAATTGA-A
* * *
6183103 TACAACTAA-TTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATATTTAAAAGTTAA
258 TACAA--AACTTATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATATAAGAGTTAA
* * * * **
6183167 CGTAATAA-TTAATTAAGTAAAAAAA-TAAATTTTAATAAAAATATATACATTTGTATTTATATT
321 CATAATAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAA-ATA-ATATTTAAATTTATATT
** * * * *
6183230 ATCGAGCTGAAAGTACGTAATGAAAT-TACAATATT-ACTTTTAAATAAAGAATAAATAAAATAA
384 ATCGAGCT-AAAGTATTTAACGATATATA-AATTTTAATTTTTAAATAAA-AAT-AATAAAATAA
* * * * *
6183293 AAATTATTATCGTTCAAAATTGACATA-AAAGTCTTAACATAAAACTATAAGAATTGA-GGAAAG
445 AAATAATTATAGTTCAAAATTGACATAGAAAGTCTTGACATAAAACTGTAAGAATTGACGTAAA-
* * * *
6183356 AACTTATAATGGTGGATTATCTAAATTTTAAATCTTAACGTAAATGTGCGAGAGTTAACATAATA
509 AACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGCGAGAGTTAACGTAATA
* * **
6183421 AGTTAATTAAGTAAAAAAAAT-TAATTTTAATAAAAAATAAGCATTTATATTAATATTATCGGGC
574 AGTTAATTAAGTAAAAAAAATCTAATTTTAAT-GAAAATAAGCATTTATATTTATATTATCGAAC
* * *
6183485 TAAAAGTATGTAACAATATAATA-TAATTTCAA-TAAAAAGATAAAAATAATTATGGTTTAATAA
638 TAAAAGTATGTAACAACATAATACAAATTTCAATTAAAAAG-T----ATAA--A------AATCA
6183548 ATTGAC
690 A---AC
** * *
6183554 ATAGGTAAGTTTCGACATAAAACTGTAAGAATTTATGCAAAAACTTATAAAGTTGGAATAACTAA
1 -T--GTAA---T--A-AT-TGAC-GTAAAAACTTAT--AAAAA--TA-AAA--T--AAT---TAA
* * *
6183619 ATTTTAAATCTTAACGTAAATATGTGAGAATTAACGTAATAA---AA--AA-T-AAAAAATCTAA
43 ATTTTAAATCTTAACGTAAATATGTAAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAA
** * * *
6183677 TTTTAGTGAAAAATAAATATTTAAATTTATATTTTCAAACTAAAAATGATTCACGATATACAAAT
108 TTTTAGTG-AAAATAAATATTTAAATTTATATTTTCAGGCTAAAAGTGATTAACGATATATAAAT
* * * * *
6183742 TTTAATTTTTAAATAAAGAATAATAAGGATTAAAATAATTATAGTTTAAAATGAACATAAAAAAA
172 TTTAATTTTTAAATAAAAAATAATAATGA--AAAA-AATTATAGTTCAAATTG-ACATAGAAAAA
* *
6183807 TCTTGACG-TAAAATTATAAGAATTAACATA-AAAACTTATAAAGATGAAATAATTAAATTTTAA
233 TCTTGA-GATAAAATTA-AA-AATTGA-ATACAAAACTTATAAAGGTGAAATAATTAAATTTTAA
* * * * ** *
6183870 ATATTAGCATAAATGTATAAGAGTTAACATAGCAAGTCAATTAAGTAAAAAAATTTAATTTTATT
294 ATCTTAACGTAAATATATAAGAGTTAACATAATAAGTCAATTAAGTAAAAAAATTTAATTTTAAT
* * *
6183935 AAAAAATAAATATTTAAATTTATATTCTTG-GAATAAAAGTATTTAACGATATATAAATTTTAAT
359 AAAAAAT-AATATTTAAATTTATATTATCGAG-CT-AAAGTATTTAACGATATATAAATTTTAAT
*
6183999 TTTTAAATAAAAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAGATAAG-CGTTGA
421 TTTTAAATAAAAATAATAAA-ATAAAAATAATTATAGTTCAAAATTGACATAGA-AAGTC-TTGA
* *
6184063 CCTAAAACTGTAAGAATTGACGTAAAAACTTATAAAGGTGGAAAAACTAAATTTTAAATCTTAAC
483 CATAAAACTGTAAGAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAAC
***
6184128 GTAAATGTATTAGAGTTAACGTAATAAGTTAATTAAGT-AAAAAAATCTAATTTTAATGAAAATA
548 GTAAATGTGCGAGAGTTAACGTAATAAGTTAATTAAGTAAAAAAAATCTAATTTTAATGAAAATA
* * ** * *
6184192 AGCATTTATATTTATATTTTCGAACTAAAAGTATGTAACAAGATACAAATTTTAATTTTTAAATA
613 AGCATTTATATTTATATTATCGAACTAAAAGTATGTAACAACAT---AA-TACAA-ATTTCAAT-
* * *
6184257 AAAATAATAAGGATAAAAAT-AATTAT
672 ----TAAAAAGTATAAAAATCAA--AC
* ** * * *
6184283 TGT-TTAAATTGATATAGATAAGTCTTAATATAAAACTGTAAGAATTAACGTAAAAACTTATAAA
1 TGTAAT-AATTGACGTA-A-AA-ACTT-ATA-AAAA---TAA-AA-TAA--T-TAAA-TT-TTAA
** * * *
6184347 AGTGAAATAAC-TAAAT-TTTAA-ATCTTAACATAAGCTTGTGAGAGTTAACGTAACAAATCAAT
50 A-T--CTTAACGTAAATATGTAAGA--GT----TAA-C--GT-A-A--CAA-GT-------CAAT
* * * * *
6184409 TAAGTAAAAAAATTTAATTTTAATAAAAAATAAATATTTAAATTTATATTTTTAGGTTAAAAGT-
91 TAAGTAAAAAAATCTAATTTTAGT-GAAAATAAATATTTAAATTTATATTTTCAGGCTAAAAGTG
*
6184473 ATTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAAGGTTTAAAAATAATTATAGTT
155 A-TTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAA---TGAAAAA-AATTATAG-T
* *
6184538 TAAAATGGACATAGAAAAATTCTGTGACG-T--AATTATAAGAATT-AAGGTA-AAAACTTATAA
214 TCAAATTGACATAGAAAAA-TCT-TGA-GATAAAATTA-AA-AATTGAA--TACAAAACTTATAA
* * * **
6184598 AGATGAAATAATTAAATTTTAAATCTTAACATAAATATATGAGAGTTAACATAGCAAGTCAATTA
272 AGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATATAAGAGTTAACATAATAAGTCAATTA
* * * * *
6184663 AGTAAAAAAAATTTAATTTTATTGAAAAATAAATATTTAAATTTATATTCT-TAGAATAAAAGTA
337 AGT-AAAAAAATTTAATTTTAATAAAAAAT-AATATTTAAATTTATATTATCGAG-CT-AAAGTA
* * * *
6184727 TTTAACAATATATAAATTTTAATATTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAA
398 TTTAACGATATATAAATTTTAATTTTTAAATAAAAATAATAA-AATAAAAATAATTATAGTTCAA
* * * * ** *** * *
6184792 AATTGATATAGATAAGTCGTGGA-AT--AAC--TAA-ATTTTAAATTTTAACATA-AATATGTGA
462 AATTGACATAGA-AAGTC-TTGACATAAAACTGTAAGAATTGACGTAAAAACTTATAA-AGGTG-
* ** * * * * *
6184850 GAGTTAACGTAATAAGTT-AA--TTAA-GTAAAAAAGT-CTA-ATTTTAA--TAA-AA--AAAAT
523 GA-ATAAC-TAA-ATTTTAAATCTTAACGT--AAATGTGCGAGA-GTTAACGTAATAAGTTAATT
*** * * ** * * **
6184904 AAGT-ATTTAGATTTATATTATCGA-GCTAAAAGTATGTAACGATATATAAATTT-TAATT-TTT
582 AAGTAAAAAAAATCTA-ATT-TTAATG--AAAA-TA---AGC-AT-T-TATATTTAT-ATTATCG
* * * * ** * *
6184965 AAATAAAAAAATAAAGATAA-AA-ATAATTATAAATATAAAATTAACATAG-ATAAGTCTTAATG
635 AACT--AAAAGT-ATG-TAACAACATAA-TACAAAT-TTCAATTAA-AAAGTATAA-----AA-A
* *
6185027 TAAAAT
687 TCAAAC
* * * * * *
6185033 TGTAAGAATTGACGTATAAATTTATAAAAATAGAATAACTAAATTTTAAATCTTAACGTAAACAT
1 TGTAATAATTGACGTAAAAACTTATAAAAATAAAATAATTAAATTTTAAATCTTAACGTAAATAT
* *
6185098 GTAAGAGTTAAGGTAACAAGTTC-ATTAAGTAAAAAAAAAATCTAATGTTAGTGGAAAAT-AATA
66 GTAAGAGTTAACGTAACAAG-TCAATTAAGT---AAAAAAATCTAATTTTAGT-GAAAATAAATA
* * *
6185161 TTTAAATCTA-ATTTCTC-GGATTAAAAGTGTTTAACGATATATAAATTTT-ATTTTTAAATAAA
126 TTTAAATTTATATTT-TCAGG-CTAAAAGTGATTAACGATATATAAATTTTAATTTTTAAATAAA
* * * * * *
6185223 TAATAATAAT-AAAATAATTATAGTTCAAAATTG-TATAGATAAATCTTGATATAAAACTGTAAC
189 AAATAATAATGAAAAAAATTATAGTTC-AAATTGACATAGAAAAATCTTGAGATAAAA-T-TAAA
* ** * * *
6185286 AGTTG-ACGCAAAAACTTATAAAGGTGTAATAATTAAATTTTAAATCTTAACGTAAATATGTGAG
251 AATTGAATAC-AAAACTTATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATATAAG
* * *
6185350 AGTTAACATAATAAGTCAATTGAGTAAAAAAATTTTAATTTTAGTGAAAAAA-AATATTTAAATA
315 AGTTAACATAATAAGTCAATTAAGTAAAAAAA-TTTAATTTTAAT-AAAAAATAATATTTAAATT
* *
6185414 TATATTCTTC-AGCTAAATGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAA-AAT-AA
378 TATATT-ATCGAGCTAAA-GTATTTAACGATATATAAATTTTAATTTTTAAATAAAAATAATAAA
* ** * * * * * *
6185476 ATAATAATAATTATAACTCAAAATTGTCATGGATAAATTTTGACGTAAAACTGTAACAATTGACG
441 ATAAAAATAATTATAGTTCAAAATTGACATAGA-AAGTCTTGACATAAAACTGTAAGAATTGACG
* * * * ***
6185541 TAAAAATTTATAAAAGTAGAATAACTAAATTTTAAATTTTAACGTAAATGTATTAGAGTTAACGT
505 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGCGAGAGTTAACGT
*
6185606 AATAAGTTAATTAAGT-AAAAAAGTCTAATTTTAATGAAAAATAAGCATTTATATTTATAT
570 AATAAGTTAATTAAGTAAAAAAAATCTAATTTTAATG-AAAATAAGCATTTATATTTATAT
6185666 GATTGGATTA
Statistics
Matches: 2228, Mismatches: 362, Indels: 459
0.73 0.12 0.15
Matches are distributed among these distances:
692 8 0.00
693 55 0.02
694 24 0.01
695 28 0.01
696 153 0.07
697 102 0.05
698 90 0.04
699 19 0.01
700 1 0.00
701 2 0.00
702 82 0.04
704 3 0.00
705 39 0.02
706 10 0.00
707 20 0.01
708 75 0.03
709 119 0.05
710 36 0.02
711 13 0.01
712 13 0.01
713 4 0.00
714 19 0.01
715 29 0.01
716 41 0.02
717 22 0.01
718 4 0.00
719 9 0.00
720 16 0.01
721 17 0.01
722 18 0.01
723 6 0.00
724 7 0.00
725 21 0.01
726 5 0.00
727 10 0.00
728 75 0.03
729 12 0.01
730 74 0.03
731 121 0.05
732 138 0.06
733 108 0.05
734 12 0.01
735 7 0.00
736 3 0.00
737 5 0.00
738 5 0.00
739 4 0.00
740 3 0.00
741 2 0.00
742 15 0.01
743 4 0.00
744 10 0.00
745 22 0.01
746 24 0.01
747 19 0.01
748 13 0.01
749 100 0.04
750 145 0.07
751 150 0.07
752 23 0.01
753 7 0.00
754 4 0.00
755 3 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (692 bp):
TGTAATAATTGACGTAAAAACTTATAAAAATAAAATAATTAAATTTTAAATCTTAACGTAAATAT
GTAAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAATAAATATTTAA
ATTTATATTTTCAGGCTAAAAGTGATTAACGATATATAAATTTTAATTTTTAAATAAAAAATAAT
AATGAAAAAAATTATAGTTCAAATTGACATAGAAAAATCTTGAGATAAAATTAAAAATTGAATAC
AAAACTTATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATATAAGAGTTAACATAA
TAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAAATAATATTTAAATTTATATTATCGAGC
TAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAAATAATAAAATAAAAATAATTATA
GTTCAAAATTGACATAGAAAGTCTTGACATAAAACTGTAAGAATTGACGTAAAAACTTATAAAGG
TGGAATAACTAAATTTTAAATCTTAACGTAAATGTGCGAGAGTTAACGTAATAAGTTAATTAAGT
AAAAAAAATCTAATTTTAATGAAAATAAGCATTTATATTTATATTATCGAACTAAAAGTATGTAA
CAACATAATACAAATTTCAATTAAAAAGTATAAAAATCAAAC
Found at i:6184479 original size:498 final size:499
Alignment explanation
Indices: 6182836--6184809 Score: 2126
Period size: 498 Copynumber: 4.0 Consensus size: 499
6182826 TTAAGTTTGG
* * * * * *
6182836 ACATCAAACTGTAATAATTGACGTAAAAACTTATAAAGATAAAATAATTAAATTTTAAATCTTAA
1 ACATAAAACTATAAGAATTAACGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATCTTAA
* * ** *
6182901 CGTAAATGTGTTAGAGTTAATGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAAT--AAAA-
66 CATAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAAAT
6182963 AAATATTTAAATTTATATTTTCAGGCTAAAAGTGA-TTAACGATATATAAATTTTAATTTTTAAA
131 AAATATTTAAATTTATATTTTCAGGCTAAAAGT-ATTTAACGATATATAAATTTTAATTTTTAAA
* * * * *
6183027 TAAAAAATAATAATG--AAAAA-AATTATAGTTCAATATTGACATAGACAAGCCTTGAGATAAAT
195 TAAAAAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAGATAAG-CTTGACATAAA-
* *
6183089 A-T-TAAAAATTGATATACAACTAA-TTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTA
258 ACTGTAAGAATTGATGTA-AA--AACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTA
* * * *
6183151 AATATTTAAAAGTTAACGTAATAATTAATTAAGTAAAAAAAT-AAATTTTAAT-AAAAATATATA
320 AATATATGAGAGTTAACGTAATAATTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATA-A-A
** * * * * * * *
6183214 CATTTGTATTTATATTATCGAGCTGAAAGTACGTAATGAA-ATTAC-AATATT-ACTTTTAAATA
383 CATTTAAATTTATATTTTCGAACTAAAAGTATGTAA-CAATA-TACAAATTTTAATTTTTAAATA
* * * *
6183276 AAGAATAAATAA-AATAAAAATTATTATCGTTCAAAATTGACATA-A-AAGTCTTA
446 AAGAAT-AATAAGGATAAAAATAATTATAGTT-TAAATTGACATAGATAAGTCTTA
* * * * * * *
6183329 ACATAAAACTATAAGAATTGA-GGAAAGAACTTATAATGGTGGATTATCTAAATTTTAAATCTTA
1 ACATAAAACTATAAGAATTAACGTAAA-AACTTATAAAGATGAAATAACTAAATTTTAAATCTTA
* * * * *
6183393 ACGTAAATGTGCGAGAGTTAACATAATAAGTTAATTAAGTAAAAAAAATTAATTTTAATAAAAAA
65 ACATAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAAA
** * * * * * *
6183458 TAAGCATTTATATTAATATTATCGGGCTAAAAGTATGTAAC-A-ATAT-AA-TATAA---TT---
130 TAAATATTTAAATTTATATTTTCAGGCTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAA
* * * *
6183513 T---CAATAA-AAAGATAAAAATAATTATGGTTTAATAAATTGACATAGGTAAGTTTCGACATAA
195 TAAAAAATAATAAAGATAAAAATAATTATAGTTT-A-AAATTGACATAGATAAGCTT-GACATAA
* * * *
6183574 AACTGTAAGAATTTATGCAAAAACTTATAAAGTTGGAATAACTAAATTTTAAATCTTAACGTAAA
257 AACTGTAAGAATTGATGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAA
* * * *
6183639 TATGTGAGAATTAACGTAATAA--AA--AA-T-AAAAAATCTAATTTTAGTGAAAAATAAATATT
322 TATATGAGAGTTAACGTAATAATTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAACATT
* * * *
6183698 TAAATTTATATTTTCAAACTAAAAATGAT-TCACGATATACAAATTTTAATTTTTAAATAAAGAA
387 TAAATTTATATTTTCGAACTAAAAGT-ATGTAACAATATACAAATTTTAATTTTTAAATAAAGAA
* * * * * *
6183762 TAATAAGGATTAAAATAATTATAGTTTAAAATGAACATAAAAAAATCTTG
451 TAATAAGGATAAAAATAATTATAGTTTAAATTG-ACATAGATAAGTCTTA
* * * * * *
6183812 ACGTAAAATTATAAGAATTAACATAAAAACTTATAAAGATGAAATAATTAAATTTTAAATATTAG
1 ACATAAAACTATAAGAATTAACGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATCTTAA
* * * *
6183877 CATAAATGTATAAGAGTTAACATAGCAAGTCAATTAAGTAAAAAAATTTAATTTTATTAAAAAAT
66 CATAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAAAT
*
6183942 AAATATTTAAATTTATATTCTT--GGAATAAAAGTATTTAACGATATATAAATTTTAATTTTTAA
131 AAATATTTAAATTTATATT-TTCAGG-CTAAAAGTATTTAACGATATATAAATTTTAATTTTTAA
*
6184005 AT-AAAAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAGATAAGCGTTGACCTAAA
194 ATAAAAAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAGATAAGC-TTGACATAAA
*
6184069 ACTGTAAGAATTGACGTAAAAACTTATAAAGGTGGAAA-AACTAAATTTTAAATCTTAACGTAAA
258 ACTGTAAGAATTGATGTAAAAACTTATAAAGGT-GAAATAACTAAATTTTAAATCTTAACGTAAA
* * *
6184133 TGTATTAGAGTTAACGTAATAAGTTAATTAAGTAAAAAAATCTAATTTTAATG-AAAATAAGCAT
322 TATATGAGAGTTAACGTAATAA-TTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAACAT
* *
6184197 TTATATTTATATTTTCGAACTAAAAGTATGTAACAAGATACAAATTTTAATTTTTAAATAAA-AA
386 TTAAATTTATATTTTCGAACTAAAAGTATGTAACAATATACAAATTTTAATTTTTAAATAAAGAA
* *
6184261 TAATAAGGATAAAAATAATTATTGTTTAAATTGATATAGATAAGTCTTA
451 TAATAAGGATAAAAATAATTATAGTTTAAATTGACATAGATAAGTCTTA
* *
6184310 ATATAAAACTGTAAGAATTAACGTAAAAACTTATAAA-AGTGAAATAACTAAATTTTAAATCTTA
1 ACATAAAACTATAAGAATTAACGTAAAAACTTATAAAGA-TGAAATAACTAAATTTTAAATCTTA
* * *
6184374 ACATAAGCT-TGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAATTTAATTTTAATAAAAA
65 ACATAA-ATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAA
* *
6184438 ATAAATATTTAAATTTATATTTTTAGGTTAAAAGTATTTAACGATATATAAATTTTAATTTTTAA
129 ATAAATATTTAAATTTATATTTTCAGGCTAAAAGTATTTAACGATATATAAATTTTAATTTTTAA
* * * * * *
6184503 ATAAAAAATAATAAGGTTTAAAAATAATTATAGTTTAAAATGGACATAGAAAAATTCTGTGACGT
194 ATAAAAAATAATAAAG-ATAAAAATAATTATAGTTTAAAATTGACATAG-ATAA-GCT-TGACAT
* * * * * * *
6184568 --AATTATAAGAATTAAGGTAAAAACTTATAAAGATGAAATAATTAAATTTTAAATCTTAACATA
255 AAAACTGTAAGAATTGATGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTA
* ** * * *
6184631 AATATATGAGAGTTAACATAGCAAGTCAATTAAGTAAAAAAAATTTAATTTTATTGAAAAATAAA
320 AATATATGAGAGTTAACGTAATAA-TTAATTAAGT-AAAAAAATCTAATTTTAATGAAAAATAAA
* * * * *
6184696 TATTTAAATTTATATTCTTAGAA-TAAAAGTATTTAACAATATATAAATTTTAATATTTAAATAA
383 CATTTAAATTTATATT-TTCGAACTAAAAGTATGTAACAATATACAAATTTTAATTTTTAAATAA
*
6184760 A-AATAATAAGGATAAAAATAATTATAGTTTAAAATTGATATAGATAAGTC
447 AGAATAATAAGGATAAAAATAATTATAGTTT-AAATTGACATAGATAAGTC
6184810 GTGGAATAAC
Statistics
Matches: 1240, Mismatches: 177, Indels: 118
0.81 0.12 0.08
Matches are distributed among these distances:
479 4 0.00
480 48 0.04
481 47 0.04
482 15 0.01
483 143 0.12
484 12 0.01
485 15 0.01
486 64 0.05
487 28 0.02
488 10 0.01
489 2 0.00
490 2 0.00
492 8 0.01
493 102 0.08
494 100 0.08
495 17 0.01
496 53 0.04
497 5 0.00
498 180 0.15
499 55 0.04
500 173 0.14
501 40 0.03
502 93 0.08
503 24 0.02
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (499 bp):
ACATAAAACTATAAGAATTAACGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATCTTAA
CATAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAATTTAATTTTAATAAAAAAT
AAATATTTAAATTTATATTTTCAGGCTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAAT
AAAAAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAGATAAGCTTGACATAAAACT
GTAAGAATTGATGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATATA
TGAGAGTTAACGTAATAATTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAACATTTAAA
TTTATATTTTCGAACTAAAAGTATGTAACAATATACAAATTTTAATTTTTAAATAAAGAATAATA
AGGATAAAAATAATTATAGTTTAAATTGACATAGATAAGTCTTA
Found at i:6184990 original size:210 final size:211
Alignment explanation
Indices: 6184604--6185020 Score: 563
Period size: 211 Copynumber: 2.0 Consensus size: 211
6184594 ATAAAGATGA
* *
6184604 AATAATTAAATTTTAAATCTTAACATAAATATATGAGAGTTAACATAGCAAGTCAATTAAGTAAA
1 AATAACTAAATTTTAAATCTTAACATAAATATATGAGAGTTAACATAACAAGTCAATTAAGTAAA
* ** * * *
6184669 AAAAATTTAATTTTATTGAAAAATAAATATTTAAATTTATATTCTTAGAATAAAAGTATTTAACA
66 AAAAATCTAATTTTATAAAAAAATAAATATTTAAATTTATATTATGAGAATAAAAGTATGTAACA
* * * *
6184734 ATATATAAATTTTAATATTTAAATAAAAATAATAAGGATAAAAATAATTAT-AGTTTAAAATTGA
131 ATATATAAATTTTAATATTTAAATAAAAATAATAAAGATAAAAATAATTATAAATATAAAATTAA
*
6184798 TATAGATAAGTCGTGG
196 CATAGATAAGTCGTGG
* * * * *
6184814 AATAACTAAATTTTAAATTTTAACATAAATATGTGAGAGTTAACGTAATAAGTTAATTAAGT-AA
1 AATAACTAAATTTTAAATCTTAACATAAATATATGAGAGTTAACATAACAAGTCAATTAAGTAAA
* * * *
6184878 AAAAGTCTAATTTTAATAAAAAAAATAAGTATTTAGATTTATATTATCGAG-CTAAAAGTATGTA
66 AAAAATCTAATTTT-AT-AAAAAAATAAATATTTAAATTTATATTAT-GAGAATAAAAGTATGTA
* *
6184942 ACGATATATAAATTTTAATTTTTAAATAAAAA-AATAAAGATAAAAATAATTATAAATATAAAAT
128 ACAATATATAAATTTTAATATTTAAATAAAAATAATAAAGATAAAAATAATTATAAATATAAAAT
6185006 TAACATAGATAAGTC
193 TAACATAGATAAGTC
6185021 TTAATGTAAA
Statistics
Matches: 179, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
209 14 0.08
210 77 0.43
211 86 0.48
212 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.36
Consensus pattern (211 bp):
AATAACTAAATTTTAAATCTTAACATAAATATATGAGAGTTAACATAACAAGTCAATTAAGTAAA
AAAAATCTAATTTTATAAAAAAATAAATATTTAAATTTATATTATGAGAATAAAAGTATGTAACA
ATATATAAATTTTAATATTTAAATAAAAATAATAAAGATAAAAATAATTATAAATATAAAATTAA
CATAGATAAGTCGTGG
Found at i:6185378 original size:247 final size:243
Alignment explanation
Indices: 6184813--6185649 Score: 929
Period size: 247 Copynumber: 3.4 Consensus size: 243
6184803 ATAAGTCGTG
* * *
6184813 GAATAACTAAATTTTAAATTTTAACATAAATATGTGAGAGTTAACGTAATAAGTTAATTAAGT-A
1 GAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAA
* * * * * * *
6184877 AAAAAGTCTAATTTTAATAAAAAAAATAAGTATTTAGATTTATATTATCGAGCTAAAAGTATGTA
66 AAAAAATCTAATTTTAGT--GAAAAATAA-TATTTA-AATTATATTCTCGA-CTAAAAGTGTTTA
6184942 ACGATATATAAATTTTAATTTTTAAATAAAAA-AATAAAGATAAAAATAATTATAAATAT-AAAA
126 ACGATATATAAATTTTAATTTTTAAATAAAAATAAT--A-AT-AAAATAATTAT-AAT-TCAAAA
** * * * * * *
6185005 TTAACATAGATAAGTCTTAATGTAAAATTGTAAGAATTGACGTATAAATTTATAAAAATA
185 TT-GTATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAGTA
* * * *
6185065 GAATAACTAAATTTTAAATCTTAACGTAAACATGTAAGAGTTAAGGTAACAAGTTC-ATTAAGTA
1 GAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTAATAAG-TCAATTAAGT-
* * *
6185129 AAAAAAAAATCTAATGTTAGTGGAAAATAATATTTAAATCTA-ATTTCTCGGATTAAAAGTGTTT
64 -AAAAAAAATCTAATTTTAGTGAAAAATAATATTTAAAT-TATA-TTCTC-GACTAAAAGTGTTT
*
6185193 AACGATATATAAATTTT-ATTTTTAAATAAATAATAATAATAAAATAATTATAGTTCAAAATTGT
125 AACGATATATAAATTTTAATTTTTAAATAAA-AATAATAATAAAATAATTATAATTCAAAATTGT
* * * * *
6185257 ATAGATAAATCTTGATATAAAACTGTAACAGTTGACGCAAAAACTTATAAAGGT-
189 ATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAGTA
* * *
6185311 GTAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACATAATAAGTCAATTGAGTA
1 G-AATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTA
* * * *
6185376 AAAAAATTTTAATTTTAGTGAAAAAAAATATTTAAATATATATTCTTC-AGCTAAATGTGTTTAA
65 AAAAAAATCTAATTTTAGTGAAAAATAATATTTAAAT-TATATTC-TCGA-CTAAAAGTGTTTAA
*
6185440 CGATATATAAATTTTAATTTTTAAATAAAAA-AATAAATAATAATAATTATAACTCAAAATTGTC
127 CGATATATAAATTTTAATTTTTAAATAAAAATAAT-AATAA-AATAATTATAATTCAAAATTGT-
* * *
6185504 ATGGATAAATTTTGACGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAGTA
189 ATAGATAAATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAGTA
* * * * *
6185559 GAATAACTAAATTTTAAATTTTAACGTAAATGTATTAGAGTTAACGTAATAAGTTAATTAAGT-A
1 GAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAA
* *
6185623 AAAAAGTCTAATTTTAATGAAAAATAA
66 AAAAAATCTAATTTTAGTGAAAAATAA
6185650 GCATTTATAT
Statistics
Matches: 497, Mismatches: 68, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
244 4 0.01
245 72 0.14
246 63 0.13
247 196 0.39
248 9 0.02
249 11 0.02
250 2 0.00
251 17 0.03
252 94 0.19
253 13 0.03
255 16 0.03
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (243 bp):
GAATAACTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAA
AAAAAATCTAATTTTAGTGAAAAATAATATTTAAATTATATTCTCGACTAAAAGTGTTTAACGAT
ATATAAATTTTAATTTTTAAATAAAAATAATAATAAAATAATTATAATTCAAAATTGTATAGATA
AATCTTGATGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAGTA
Found at i:6185796 original size:247 final size:247
Alignment explanation
Indices: 6184813--6185851 Score: 883
Period size: 247 Copynumber: 4.2 Consensus size: 247
6184803 ATAAGTCGTG
* * *
6184813 GAATAACTAAATTTTAAATTTTAACATAAATATGTGAGAGTTAACGTAATAAGTTAATTAAGT-A
1 GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTAA
* * *
6184877 AAAAAGTCTAATTTTAATAAAAAAAATAAGTATTTAGATTTATATTA-TCGAGCTAAAAGTATGT
66 AAAAAGTCTAATTTTAAT--GAAAAATAAGTATTTAAATTTATATTATTGGAGCTAAAAGTATGT
*
6184941 AACGATATATAAATTTTAATTTTTAAATAAAA-AAATAAAGATAAAAATAATTATAAATATAAAA
129 AACGATATATAAATTTTAATTTTTAAATAAAATATAT-AAGATAAAAATAA-T-TAAATA-AAAA
* * * *
6185005 TTAAC-ATAGAT-AAGTCTTAATGTAAAATTGTAAGAATTGACGTATAAATTTATAAAAAT
190 TT--CTATAGATAAAGTCTTGATGTAAAACTGTAACAATTGACGTA-AAATTTATAAAAGT
** * * * *
6185064 AGAATAACTAAATTTTAAATCTTAACGTAAACATGTAAGAGTTAAGGTAACAAGTTCATTAAGTA
1 -GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAATAAGTTAATTAAGT-
* * * * * * *
6185129 AAAAAAAAATCTAATGTTAGTGGAAAATAA-TATTTAAATCTA-ATT-TCTCGGA-TTAAAAGTG
64 -AAAAAAAGTCTAATTTTAATGAAAAATAAGTATTTAAATTTATATTAT-T-GGAGCTAAAAGTA
* * * *
6185190 TTTAACGATATATAAATTTT-ATTTTTAAAT-AAATA-ATAATA-ATAAAATAATTATAGTTCAA
126 TGTAACGATATATAAATTTTAATTTTTAAATAAAATATATAAGATA-AAAATAATTA-A-ATAAA
* * * * * *
6185251 AATTGTATAGATAAA-TCTTGATATAAAACTGTAACAGTTGACGCAAAAACTTATAAAGGT
188 AATTCTATAGATAAAGTCTTGATGTAAAACTGTAACAATTGACG-TAAAATTTATAAAAGT
* * * * *
6185311 GTAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAACATAATAAGTCAATTGAGTA
1 G-AATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTA
* * * * * * * * * *
6185376 AAAAAATTTTAATTTTAGTGAAAAA-AAATATTTAAATATATATTCTT-CAGCTAAATGTGTTTA
65 AAAAAAGTCTAATTTTAATGAAAAATAAGTATTTAAATTTATATTATTGGAGCTAAAAGTATGTA
* * * *
6185439 ACGATATATAAATTTTAATTTTTAAATAAAA-AAATAA-ATAATAATAATTATAACTCAAAATTG
130 ACGATATATAAATTTTAATTTTTAAATAAAATATATAAGATAAAAATAATTA-AA-TAAAAATTC
* * *
6185502 TCATGGATAAA-TTTTGACGTAAAACTGTAACAATTGACGTAAAAATTTATAAAAGT
193 T-ATAGATAAAGTCTTGATGTAAAACTGTAACAATTGACGT-AAAATTTATAAAAGT
* * *
6185558 AGAATAACTAAATTTTAAATTTTAACGTAAATGTATTAGAGTTAACGTAATAAGTTAATTAAGT-
1 -GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTA
* * * *
6185622 AAAAAAGTCTAATTTTAATGAAAAATAAGCATTTATATTTATATGATTGGA-TTAAAA-TATGT-
65 AAAAAAGTCTAATTTTAATGAAAAATAAGTATTTAAATTTATATTATTGGAGCTAAAAGTATGTA
* *
6185684 AC-ATAT-TCAAATTTTTA-TGTTAAATAAAGATATATAAGATAAAAATAATTTAAAGGTAAAAA
130 ACGATATAT-AAATTTTAATTTTTAAATAAA-ATATATAAGATAAAAATAA-TTAAA--TAAAAA
* ** * * *
6185746 GTTACTATTG-TAAAAGT-TTGATGTAAAGTTGTAAGAATTAATGTAAAATTTTATAAAAGT
190 -TT-CTATAGAT-AAAGTCTTGATGTAAAACTGTAACAATTGACGTAAAA-TTTATAAAAGT
** * * * *
6185806 GAAATAAAAAAAGTTAAAATCTTAACATAAATGTGTAAGAGTTAAC
1 G-AATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
6185852 ATAACGAGTA
Statistics
Matches: 645, Mismatches: 102, Indels: 84
0.78 0.12 0.10
Matches are distributed among these distances:
243 11 0.02
244 16 0.02
245 67 0.10
246 74 0.11
247 237 0.37
248 90 0.14
249 13 0.02
250 5 0.01
251 14 0.02
252 93 0.14
253 9 0.01
255 16 0.02
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (247 bp):
GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTAA
AAAAAGTCTAATTTTAATGAAAAATAAGTATTTAAATTTATATTATTGGAGCTAAAAGTATGTAA
CGATATATAAATTTTAATTTTTAAATAAAATATATAAGATAAAAATAATTAAATAAAAATTCTAT
AGATAAAGTCTTGATGTAAAACTGTAACAATTGACGTAAAATTTATAAAAGT
Found at i:6188014 original size:35 final size:35
Alignment explanation
Indices: 6187963--6188126 Score: 188
Period size: 35 Copynumber: 4.7 Consensus size: 35
6187953 GTACTCTCCT
* *
6187963 AGGATGTAAAATACTACTAGTGCTAGTATTTTCCTG
1 AGGATGTAAAATACTACTAGTGCTTGTATTCT-CTG
* * *
6187999 A-GATGTAAAAAACTACTAGTTCTTGTATTCTCTT
1 AGGATGTAAAATACTACTAGTGCTTGTATTCTCTG
* * *
6188033 AGGATGTAAAATACCACTAGTGCTTGCATTTTCCT-
1 AGGATGTAAAATACTACTAGTGCTTGTATTCT-CTG
* * *
6188068 TGGATGTAAAATACTACTGGTGCTTGTATTCTCTT
1 AGGATGTAAAATACTACTAGTGCTTGTATTCTCTG
*
6188103 AGGATGTAAAATACTAGTAGTGCT
1 AGGATGTAAAATACTACTAGTGCT
6188127 AATTTTGTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
34 5 0.05
35 99 0.93
36 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (35 bp):
AGGATGTAAAATACTACTAGTGCTTGTATTCTCTG
Found at i:6188040 original size:70 final size:70
Alignment explanation
Indices: 6187951--6188127 Score: 257
Period size: 70 Copynumber: 2.5 Consensus size: 70
6187941 GCAAATGGTG
* * *
6187951 TTGTACTCTCCTAGGATGTAAAATACTACTAGTGCTAGTATTTTCC-TGAGATGTAAAAAACTAC
1 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTAGCATTTTCCTTG-GATGTAAAAAACTAC
*
6188015 TAGTTC
65 TAGTGC
* * *
6188021 TTGTATTCTCTTAGGATGTAAAATACCACTAGTGCTTGCATTTTCCTTGGATGTAAAATACTACT
1 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTAGCATTTTCCTTGGATGTAAAAAACTACT
*
6188086 GGTGC
66 AGTGC
*
6188091 TTGTATTCTCTTAGGATGTAAAATACTAGTAGTGCTA
1 TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTA
6188128 ATTTTGTTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
70 93 0.98
71 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (70 bp):
TTGTATTCTCTTAGGATGTAAAATACTACTAGTGCTAGCATTTTCCTTGGATGTAAAAAACTACT
AGTGC
Found at i:6190814 original size:30 final size:29
Alignment explanation
Indices: 6190772--6190835 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
6190762 AATTAAACCC
* *
6190772 TTATGTTTTATTTTAAGAAAAATAAGTTT
1 TTATATTTTATTTTAAGAAAAATAAGCTT
* **
6190801 TTATATTTATATTTTGAGTCAAATAAGCTT
1 TTATATTT-TATTTTAAGAAAAATAAGCTT
6190831 TTATA
1 TTATA
6190836 ACTAATGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (29 bp):
TTATATTTTATTTTAAGAAAAATAAGCTT
Found at i:6191139 original size:30 final size:28
Alignment explanation
Indices: 6191105--6191163 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
6191095 AAATTTTTTG
6191105 ACACAA-AATAAAATATAAGAACTTAATTGA
1 ACACAATAA-AAAATA-AAG-ACTTAATTGA
*
6191135 ACACAATAAAAAATAAAGACTTATTTGA
1 ACACAATAAAAAATAAAGACTTAATTGA
6191163 A
1 A
6191164 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 10 0.37
29 3 0.11
30 12 0.44
31 2 0.07
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (28 bp):
ACACAATAAAAAATAAAGACTTAATTGA
Found at i:6191144 original size:28 final size:28
Alignment explanation
Indices: 6191102--6191163 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
6191092 TGAAAATTTT
*
6191102 TTGACACAAAATAAAATAT-AAGAACTTAA
1 TTGA-ACAAAATAAAAAATAAAG-ACTTAA
* *
6191131 TTGAACACAATAAAAAATAAAGACTTAT
1 TTGAACAAAATAAAAAATAAAGACTTAA
6191159 TTGAA
1 TTGAA
6191164 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (28 bp):
TTGAACAAAATAAAAAATAAAGACTTAA
Found at i:6191935 original size:14 final size:13
Alignment explanation
Indices: 6191916--6191963 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
6191906 TTCTCCTTTC
6191916 TTCTCTATCTTATT
1 TTCTCTAT-TTATT
6191930 TTCTCTATTT-TT
1 TTCTCTATTTATT
6191942 TTCT-T-TTTATT
1 TTCTCTATTTATT
6191953 TTCATCTATTT
1 TTC-TCTATTT
6191964 TTTCCTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.10
11 6 0.20
12 7 0.23
13 3 0.10
14 11 0.37
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTCTATTTATT
Found at i:6192995 original size:15 final size:16
Alignment explanation
Indices: 6192962--6192996 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6192952 TTTCTCTTTT
*
6192962 TCTTTGCTTTCCATTA
1 TCTTTGCTTGCCATTA
6192978 TCTTTGCTTGCC-TTA
1 TCTTTGCTTGCCATTA
6192993 TCTT
1 TCTT
6192997 ATTGTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.09, C:0.26, G:0.09, T:0.57
Consensus pattern (16 bp):
TCTTTGCTTGCCATTA
Found at i:6196825 original size:36 final size:37
Alignment explanation
Indices: 6196778--6196851 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
6196768 TTTGATTAAG
* *
6196778 ATTCAATACAATGCC-TTTTGTGGATCAAGCATAACC
1 ATTCAATACAATGCCTTTTTATGGATAAAGCATAACC
*
6196814 ATTCAATACAATGCCTTTTTATGGTTAAAGCATAACC
1 ATTCAATACAATGCCTTTTTATGGATAAAGCATAACC
6196851 A
1 A
6196852 GTTTACCCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 15 0.44
37 19 0.56
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.32
Consensus pattern (37 bp):
ATTCAATACAATGCCTTTTTATGGATAAAGCATAACC
Found at i:6197430 original size:19 final size:20
Alignment explanation
Indices: 6197392--6197431 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
6197382 TCTATTGAAA
6197392 ATGTATCAATACATTTTTGAG
1 ATGTATCAATACA-TTTTGAG
6197413 ATGTATCAATAC-TTTTGAG
1 ATGTATCAATACATTTTGAG
6197432 TTAGTGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTTTGAG
Found at i:6201648 original size:2 final size:2
Alignment explanation
Indices: 6201641--6201674 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6201631 GGTTTTGTAC
* *
6201641 AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6201675 GTAAAGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6202096 original size:25 final size:25
Alignment explanation
Indices: 6202062--6202121 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
6202052 TCTGTGATAT
*
6202062 ATATACATGGCAAGGCCATGAGATG
1 ATATACATGGCAAGGCCACGAGATG
* ** *
6202087 ATATATATGGTTAGGCCACGAGTTG
1 ATATACATGGCAAGGCCACGAGATG
*
6202112 ATACACATGG
1 ATATACATGG
6202122 TTGCGATCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (25 bp):
ATATACATGGCAAGGCCACGAGATG
Found at i:6204471 original size:32 final size:32
Alignment explanation
Indices: 6204428--6204489 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6204418 ACTAAGAGGG
* *
6204428 TACTGCCAGAAACTGGATTCAGAGGCAGAGCC
1 TACTGCCAGAAACTGGATTCAAAGACAGAGCC
* *
6204460 TACTGCTAGAAACTGGGTTCAAAGACAGAG
1 TACTGCCAGAAACTGGATTCAAAGACAGAG
6204490 ACGACTTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (32 bp):
TACTGCCAGAAACTGGATTCAAAGACAGAGCC
Found at i:6207786 original size:40 final size:41
Alignment explanation
Indices: 6207730--6207808 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
6207720 GCTTCGATAT
6207730 TTTTTATTTTAACATTCAATGATGCTTGATAAAGTTCAACA
1 TTTTTATTTTAACATTCAATGATGCTTGATAAAGTTCAACA
*
6207771 TTTTT-TTTTAGCATTCAATGATGCTTGATAAAGTTCAA
1 TTTTTATTTTAACATTCAATGATGCTTGATAAAGTTCAA
6207809 TAAGATGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.86
41 5 0.14
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (41 bp):
TTTTTATTTTAACATTCAATGATGCTTGATAAAGTTCAACA
Found at i:6207969 original size:28 final size:28
Alignment explanation
Indices: 6207936--6208004 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
6207926 ATCTCTTCAC
* * *
6207936 TAGTCACCCATTCTTGATGGGTTAAAAG
1 TAGTCACCCACTCCTGATGGATTAAAAG
* *
6207964 TAGTCATCCACTCCTGGTGGATTAAAAG
1 TAGTCACCCACTCCTGATGGATTAAAAG
* *
6207992 TATTCATCCACTC
1 TAGTCACCCACTC
6208005 TTCGTGAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (28 bp):
TAGTCACCCACTCCTGATGGATTAAAAG
Found at i:6208044 original size:27 final size:27
Alignment explanation
Indices: 6207958--6208025 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
6207948 CTTGATGGGT
* * *
6207958 TAAAAGTAGT-CATCCACTCCTGGTGGAT
1 TAAAAGTA-TCCATCCACTCTTCGT-GAG
*
6207986 TAAAAGTATTCATCCACTCTTCGTGAG
1 TAAAAGTATCCATCCACTCTTCGTGAG
6208013 TAAAAGTATCCAT
1 TAAAAGTATCCAT
6208026 TTACTCTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (27 bp):
TAAAAGTATCCATCCACTCTTCGTGAG
Found at i:6208583 original size:19 final size:19
Alignment explanation
Indices: 6208556--6208592 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6208546 AAAATATAAG
*
6208556 AGAAAGTATTTAGAGGGAA
1 AGAAAGTATTTAAAGGGAA
*
6208575 AGAACGTATTTAAAGGGA
1 AGAAAGTATTTAAAGGGA
6208593 GTAAGAAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.30, T:0.22
Consensus pattern (19 bp):
AGAAAGTATTTAAAGGGAA
Found at i:6208793 original size:12 final size:12
Alignment explanation
Indices: 6208778--6208816 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6208768 AATATAAAAT
6208778 TATTCATAACAA
1 TATTCATAACAA
*
6208790 TATTCACAA-AA
1 TATTCATAACAA
6208801 TTATTCATAACAA
1 -TATTCATAACAA
6208814 TAT
1 TAT
6208817 CATCATCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (12 bp):
TATTCATAACAA
Found at i:6208823 original size:3 final size:3
Alignment explanation
Indices: 6208815--6208840 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6208805 TCATAACAAT
6208815 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
6208841 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:6208845 original size:3 final size:3
Alignment explanation
Indices: 6208839--6208879 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6208829 CATCATCATC
6208839 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6208880 AAACATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6209571 original size:2 final size:2
Alignment explanation
Indices: 6209564--6209589 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6209554 TTAATGGTAA
6209564 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
6209590 TTCAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6215338 original size:16 final size:16
Alignment explanation
Indices: 6215280--6215344 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
6215270 AAAAAGATAA
*
6215280 TTTTATTTTTAATTAAT
1 TTTTATTTTT-ATTATT
**
6215297 TTTTATAATTATTATT
1 TTTTATTTTTATTATT
* * *
6215313 ATATAATTTTATTATT
1 TTTTATTTTTATTATT
*
6215329 TTTTATTTTTTTTATT
1 TTTTATTTTTATTATT
6215345 AATTAATAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
16 28 0.78
17 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTTATTATT
Found at i:6215339 original size:9 final size:10
Alignment explanation
Indices: 6215282--6215345 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
6215272 AAAGATAATT
*
6215282 TTATTTTTAA
1 TTATTTTTTA
*
6215292 TTAATTTTTA
1 TTATTTTTTA
*
6215302 TAATTATTATTA
1 TTATT-TT-TTA
*
6215314 -TATAATTTTA
1 TTAT-TTTTTA
6215324 TTATTTTTTA
1 TTATTTTTTA
6215334 TT-TTTTTTA
1 TTATTTTTTA
6215343 TTA
1 TTA
6215346 ATTAATAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
9 9 0.21
10 21 0.50
11 9 0.21
12 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:6220723 original size:29 final size:30
Alignment explanation
Indices: 6220691--6220761 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
6220681 TCATAAAACT
* *
6220691 AATTTGATTCAAA-ATAA-AAATAAATAAAA
1 AATTTAATT-AAATATAATAAAAAAATAAAA
6220720 AATTTAATTAAATATAATAAAAAAAT-AAA
1 AATTTAATTAAATATAATAAAAAAATAAAA
*
6220749 AATTTACTTAAAT
1 AATTTAATTAAAT
6220762 TTTTTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 27 0.73
30 7 0.19
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (30 bp):
AATTTAATTAAATATAATAAAAAAATAAAA
Found at i:6222927 original size:36 final size:36
Alignment explanation
Indices: 6222887--6222958 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
6222877 TCCCACAACT
6222887 TAATTGTGATTTATGTATGAACTGGAGGCAAAAGAA
1 TAATTGTGATTTATGTATGAACTGGAGGCAAAAGAA
6222923 TAATTGTGATTTATGTATGAACTGGAGGCAAAAGAA
1 TAATTGTGATTTATGTATGAACTGGAGGCAAAAGAA
6222959 AAATCAGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.31
Consensus pattern (36 bp):
TAATTGTGATTTATGTATGAACTGGAGGCAAAAGAA
Found at i:6230337 original size:11 final size:12
Alignment explanation
Indices: 6230306--6230337 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6230296 CTTTTTGTCT
6230306 TTTCTTCTT-TC
1 TTTCTTCTTCTC
6230317 TTTCTTCTTCTC
1 TTTCTTCTTCTC
6230329 -TTCTTCTTC
1 TTTCTTCTTC
6230338 CCCTCGTCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.90
12 2 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTCTTCTTCTC
Found at i:6230460 original size:15 final size:14
Alignment explanation
Indices: 6230431--6230460 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6230421 GCCTTCCTTT
6230431 CTTTTCTTTTCTTC
1 CTTTTCTTTTCTTC
6230445 CTTTTCTTTCTCTTC
1 CTTTTCTTT-TCTTC
6230460 C
1 C
6230461 CCGCGCCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTTCTTTTCTTC
Found at i:6244281 original size:21 final size:21
Alignment explanation
Indices: 6244257--6244304 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6244247 GTGATCGGCT
*
6244257 GATGGGGATGGCC-GAATGCTG
1 GATGGGGATGGCCAG-ATGCTA
6244278 GATGGGGATGGCCAGATGCTA
1 GATGGGGATGGCCAGATGCTA
6244299 GATGGG
1 GATGGG
6244305 AAGCAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.12, G:0.48, T:0.19
Consensus pattern (21 bp):
GATGGGGATGGCCAGATGCTA
Found at i:6245551 original size:33 final size:33
Alignment explanation
Indices: 6245510--6245595 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
6245500 TTTTAATGTC
* *
6245510 ATATATTTTATTTTTATTTT-TTATTATAATTTT
1 ATATATTTTATTTTTATTTTCTAATAAT-ATTTT
*
6245543 ATATATTTTATTTTTATTTCCTAATAATATTTT
1 ATATATTTTATTTTTATTTTCTAATAATATTTT
*
6245576 CTATATTATTA-TTTTATTTT
1 ATATATT-TTATTTTTATTTT
6245596 AATTTCTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 38 0.83
34 8 0.17
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTCTAATAATATTTT
Found at i:6245557 original size:15 final size:15
Alignment explanation
Indices: 6245495--6245559 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
6245485 CATCTCTTAA
* * *
6245495 ATATATTTTAATGTC
1 ATATATTTTATTTTT
6245510 ATATATTTTATTTTT
1 ATATATTTTATTTTT
* *
6245525 ATTTTTTATTATAATTTT
1 ATATATT-TTAT--TTTT
6245543 ATATATTTTATTTTT
1 ATATATTTTATTTTT
6245558 AT
1 AT
6245560 TTCCTAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 23 0.57
16 4 0.10
17 4 0.10
18 9 0.22
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
ATATATTTTATTTTT
Found at i:6253570 original size:2 final size:2
Alignment explanation
Indices: 6253559--6253596 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
6253549 CACACTTCAC
6253559 CA CA CTA CA CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA C-A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6253597 GGCCCTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:6267217 original size:36 final size:37
Alignment explanation
Indices: 6267147--6267218 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
6267137 TCTATATGAT
*
6267147 ATAACCTTTAAGCTAAGATAGTTTTTCATTATGTGAC
1 ATAACCTTTAAGCTAAGATAGTCTTTCATTATGTGAC
*
6267184 ATAACCTTTAAGTTAAGATAG-CTTTCATTATGTGA
1 ATAACCTTTAAGCTAAGATAGTCTTTCATTATGTGA
6267219 GACAATCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 13 0.39
37 20 0.61
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (37 bp):
ATAACCTTTAAGCTAAGATAGTCTTTCATTATGTGAC
Found at i:6268482 original size:10 final size:10
Alignment explanation
Indices: 6268469--6268495 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6268459 TTAGAAGAAA
6268469 TTGAATTACT
1 TTGAATTACT
6268479 TTGAATTACT
1 TTGAATTACT
6268489 TTGAATT
1 TTGAATT
6268496 CTAATTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (10 bp):
TTGAATTACT
Found at i:6270315 original size:2 final size:2
Alignment explanation
Indices: 6270308--6270332 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6270298 CTGTTCTTTA
6270308 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6270333 GTTTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6274392 original size:23 final size:23
Alignment explanation
Indices: 6274333--6274395 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
6274323 TTAAAAAAAT
6274333 TTAAATAAATATTTATTATTTTAA
1 TTAAATAAATA-TTATTATTTTAA
* *
6274357 TTAATCTATATATT-TTATTTTAAA
1 TTAA-ATAAATATTATTATTTT-AA
6274381 TTAAATAAATATTAT
1 TTAAATAAATATTAT
6274396 AATCAATGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 14 0.44
24 13 0.41
25 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAATAAATATTATTATTTTAA
Found at i:6275287 original size:36 final size:33
Alignment explanation
Indices: 6275246--6275330 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 33
6275236 TAGGTAGGTG
6275246 GACTCGGGTGAGGGGGGGGAAGGGGAATCAGGTCGA
1 GACTCGGG-GAGGGGGGGG-A-GGGAATCAGGTCGA
*
6275282 GACTCGCGGGAGGGGAGGGAGGGAATCAGGTCGA
1 GACTCG-GGGAGGGGGGGGAGGGAATCAGGTCGA
6275316 GACTC-GGGAGGGGGG
1 GACTCGGGGAGGGGGG
6275331 AAGTAGTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 9 0.20
34 19 0.41
35 1 0.02
36 15 0.33
37 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.56, T:0.09
Consensus pattern (33 bp):
GACTCGGGGAGGGGGGGGAGGGAATCAGGTCGA
Found at i:6275383 original size:13 final size:13
Alignment explanation
Indices: 6275365--6275389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6275355 GCCCATGGGT
6275365 AATTTTTTTTTTA
1 AATTTTTTTTTTA
6275378 AATTTTTTTTTT
1 AATTTTTTTTTT
6275390 TTCGATTTTT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
AATTTTTTTTTTA
Found at i:6275459 original size:22 final size:22
Alignment explanation
Indices: 6275434--6275475 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6275424 CCTTCTCGAC
*
6275434 GACCGAGCCAATCAACCGACGA
1 GACCGAGCCAAACAACCGACGA
* *
6275456 GACCGATCGAAACAACCGAC
1 GACCGAGCCAAACAACCGAC
6275476 AATTACAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.36, G:0.21, T:0.05
Consensus pattern (22 bp):
GACCGAGCCAAACAACCGACGA
Found at i:6276383 original size:4 final size:4
Alignment explanation
Indices: 6276367--6276399 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
6276357 CACAACTTTA
*
6276367 AAGC AAGC GAGC AAGC AAGC AAGC AAGC AAGC A
1 AAGC AAGC AAGC AAGC AAGC AAGC AAGC AAGC A
6276400 CATTGCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.24, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGC
Found at i:6281608 original size:59 final size:59
Alignment explanation
Indices: 6281540--6281656 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
6281530 TATGTCAAAA
* * * *
6281540 ACATAAGCATATTGCGTTTGAAATTTCTTGAAACCTCCCCTTAACTTAATTAGTCTCTT
1 ACATAAGCATATTGCATTTAAAATTTCTTGAAACCTCCCCATAACTTAATTAATCTCTT
*
6281599 ACATGAGCATATTGCATTTAAAATTTCTTGAAACCTCCCCATAACTTAATTAATCTCT
1 ACATAAGCATATTGCATTTAAAATTTCTTGAAACCTCCCCATAACTTAATTAATCTCT
6281657 ACGCTGTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (59 bp):
ACATAAGCATATTGCATTTAAAATTTCTTGAAACCTCCCCATAACTTAATTAATCTCTT
Found at i:6286668 original size:27 final size:27
Alignment explanation
Indices: 6286602--6286844 Score: 170
Period size: 27 Copynumber: 9.1 Consensus size: 27
6286592 TAACACACAC
* * *
6286602 ACAATGCAATATTTTGAT-GAAAGTAAT
1 ACAATGTATTATTTTGATGGAAA-TAAA
*
6286629 ACAATATATTATTTTGATGGAAATAAA
1 ACAATGTATTATTTTGATGGAAATAAA
* * * *
6286656 ATAATGTAATATTCTAATGGAAATAAA
1 ACAATGTATTATTTTGATGGAAATAAA
** * *
6286683 ACGGTGTAGTA-TTTGATGGAGATAAA
1 ACAATGTATTATTTTGATGGAAATAAA
*
6286709 ACAATGTATTATTTTGATTGAAATAAA
1 ACAATGTATTATTTTGATGGAAATAAA
* * ** *
6286736 ACAGTGTAGTATTACGACGGAAAT-AA
1 ACAATGTATTATTTTGATGGAAATAAA
** * *
6286762 ATGATGTAGTACTTTGAT-GAAGATAAA
1 ACAATGTATTATTTTGATGGAA-ATAAA
** * * * *
6286789 ACACGGTATTGTTTTGATGAAAACAAT
1 ACAATGTATTATTTTGATGGAAATAAA
**
6286816 ACAATGTATTATTTTGATACAAATAAA
1 ACAATGTATTATTTTGATGGAAATAAA
6286843 AC
1 AC
6286845 TTAAACCTCT
Statistics
Matches: 160, Mismatches: 51, Indels: 10
0.72 0.23 0.05
Matches are distributed among these distances:
25 3 0.02
26 35 0.22
27 116 0.73
28 6 0.04
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (27 bp):
ACAATGTATTATTTTGATGGAAATAAA
Found at i:6286708 original size:53 final size:53
Alignment explanation
Indices: 6286641--6286762 Score: 154
Period size: 53 Copynumber: 2.3 Consensus size: 53
6286631 AATATATTAT
* *
6286641 TTTGATGGAAATAAAATAATGTAATATTCTAATGGAAATAAAACGGTGTAGTA
1 TTTGATGGAAATAAAACAATGTAATATTCTAATGGAAATAAAACAGTGTAGTA
* * * * *
6286694 TTTGATGGAGATAAAACAATGTATTATTTTGATTGAAATAAAACAGTGTAGTA
1 TTTGATGGAAATAAAACAATGTAATATTCTAATGGAAATAAAACAGTGTAGTA
* *
6286747 TTACGACGGAAATAAA
1 TT-TGATGGAAATAAA
6286763 TGATGTAGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
53 48 0.83
54 10 0.17
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (53 bp):
TTTGATGGAAATAAAACAATGTAATATTCTAATGGAAATAAAACAGTGTAGTA
Found at i:6286758 original size:80 final size:80
Alignment explanation
Indices: 6286614--6286828 Score: 215
Period size: 80 Copynumber: 2.7 Consensus size: 80
6286604 AATGCAATAT
* * * * *
6286614 TTTGATGAA-AGTAATACAATATATTATTTTGATGGAAATAAAATAATGTAATATTCTAATGGAA
1 TTTGATGAAGA-TAAAACAATGTATTATTTTGATTGAAATAAAACAATGTAATATTCTAACGGAA
*
6286678 ATAAAACGGTGTAGTA-
65 AT-AAACGATGTAGTAC
* * * *
6286694 TTTGATGGAGATAAAACAATGTATTATTTTGATTGAAATAAAACAGTGTAGTATTAC-GACGGAA
1 TTTGATGAAGATAAAACAATGTATTATTTTGATTGAAATAAAACAATGTAATATT-CTAACGGAA
*
6286758 ATAAATGATGTAGTAC
65 ATAAACGATGTAGTAC
** * *
6286774 TTTGATGAAGATAAAACACGGTATTGTTTTGA-TGAAA-ACAATACAATGTATTATT
1 TTTGATGAAGATAAAACAATGTATTATTTTGATTGAAATA-AA-ACAATGTAATATT
6286829 TTGATACAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 18 0.16
80 92 0.81
81 2 0.02
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (80 bp):
TTTGATGAAGATAAAACAATGTATTATTTTGATTGAAATAAAACAATGTAATATTCTAACGGAAA
TAAACGATGTAGTAC
Found at i:6286769 original size:53 final size:53
Alignment explanation
Indices: 6286647--6286791 Score: 150
Period size: 53 Copynumber: 2.7 Consensus size: 53
6286637 TTATTTTGAT
* * * * * *
6286647 GGAAATAAAATAATGTAATATTCTAATGGAAATAAAACGGTGTAGTATTTGAT
1 GGAAATAAAATAATGTAATATTTTGATTGAAATAAAACAGTGTAGTATTCGAC
* * *
6286700 GGAGATAAAACAATGTATTATTTTGATTGAAATAAAACAGTGTAGTATTACGAC
1 GGAAATAAAATAATGTAATATTTTGATTGAAATAAAACAGTGTAGTATT-CGAC
* * *
6286754 GGAAAT-AAATGATGTAGTACTTTGA-TGAAGATAAAACA
1 GGAAATAAAATAATGTAATATTTTGATTGAA-ATAAAACA
6286792 CGGTATTGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 4 0.05
53 65 0.86
54 7 0.09
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (53 bp):
GGAAATAAAATAATGTAATATTTTGATTGAAATAAAACAGTGTAGTATTCGAC
Found at i:6291769 original size:36 final size:36
Alignment explanation
Indices: 6291717--6291791 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
6291707 TCTATCGATA
* *
6291717 GATTTCATCCAAATCACTTCATTTTGTTCCTGGGTG
1 GATTTCATCCAAATCACTTCATTTCGTTCCTAGGTG
*
6291753 GATTTCATCCAGATCACTTCATTTCGTTCCTAGGTG
1 GATTTCATCCAAATCACTTCATTTCGTTCCTAGGTG
6291789 GAT
1 GAT
6291792 ATCAATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (36 bp):
GATTTCATCCAAATCACTTCATTTCGTTCCTAGGTG
Found at i:6294920 original size:29 final size:29
Alignment explanation
Indices: 6294888--6294944 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
6294878 AGATATTCAA
* *
6294888 TATATCTTGCTCAACTATTGTGGATATTG
1 TATATCTTACTCAACTACTGTGGATATTG
* *
6294917 TATATCTTATTTAACTACTGTGGATATT
1 TATATCTTACTCAACTACTGTGGATATT
6294945 ATAAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
TATATCTTACTCAACTACTGTGGATATTG
Found at i:6306530 original size:24 final size:24
Alignment explanation
Indices: 6306498--6306549 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
6306488 AACAGTTGTG
*
6306498 GACAATGTAGATAGTGAAGCAGAT
1 GACAATGTAGATAGAGAAGCAGAT
*
6306522 GACAATGTAGATAGAGAAGTAGAT
1 GACAATGTAGATAGAGAAGCAGAT
6306546 GACA
1 GACA
6306550 GCCATGATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.29, T:0.19
Consensus pattern (24 bp):
GACAATGTAGATAGAGAAGCAGAT
Found at i:6307848 original size:2 final size:2
Alignment explanation
Indices: 6307830--6307869 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
6307820 CCTTATCTTT
* * *
6307830 TA TA TA AA TA TA AA TA TA TA GA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6307870 GAGAAAGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (2 bp):
TA
Done.