Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 172 of 213
Found at i:51771225 original size:27 final size:27
Alignment explanation
Indices: 51771195--51771251 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
51771185 CCTCATTTTC
* * *
51771195 AACATCCTTTCGGACTAGCCCGTGTTT
1 AACATCCTATCAGACTAACCCGTGTTT
51771222 AACATCCTATCAGACTAACCCGTGTTT
1 AACATCCTATCAGACTAACCCGTGTTT
51771249 AAC
1 AAC
51771252 GTCTCATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (27 bp):
AACATCCTATCAGACTAACCCGTGTTT
Found at i:51771650 original size:45 final size:45
Alignment explanation
Indices: 51771601--51771686 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
51771591 CCTATTTACT
** *
51771601 ATGATGCCATGGCATCTTTCAGCCATGGTCTTACTCATTTTCATC
1 ATGATGCCATAACATCTTTCAGCCATGATCTTACTCATTTTCATC
* * * *
51771646 ATGATGCTATAACGTCTTTTAGCTATGATCTTACTCATTTT
1 ATGATGCCATAACATCTTTCAGCCATGATCTTACTCATTTT
51771687 AGGAGTATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAGCCATGATCTTACTCATTTTCATC
Found at i:51774084 original size:25 final size:25
Alignment explanation
Indices: 51774014--51774084 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
51774004 GTGGAGACAC
*
51774014 CACAGCTCGTATGAGCTTACCAATT
1 CACAGCTCGTATGAGCTTACCGATT
* *
51774039 -TCAGCTCGTGA-GAGCTGACCGATT
1 CACAGCTCGT-ATGAGCTTACCGATT
51774063 CACAGCTCGTATGAGCTTACCG
1 CACAGCTCGTATGAGCTTACCG
51774085 TTATTCAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:51774093 original size:25 final size:24
Alignment explanation
Indices: 51774016--51774094 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
51774006 GGAGACACCA
*
51774016 CAGCTCGTATGAGCTTACC-AATTT
1 CAGCTCGTATGAGCTTACCGTA-TT
*
51774040 CAGCTCGTGA-GAGCTGACCG-ATT
1 CAGCTCGT-ATGAGCTTACCGTATT
51774063 CACAGCTCGTATGAGCTTACCGTTATT
1 --CAGCTCGTATGAGCTTACCG-TATT
51774090 CAGCT
1 CAGCT
51774095 TAGAAGAGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
23 2 0.04
24 18 0.39
25 23 0.50
27 3 0.07
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGTATT
Found at i:51785712 original size:22 final size:21
Alignment explanation
Indices: 51785671--51785712 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51785661 TCAATGGCCA
**
51785671 CATACCAAAATCGCATTCAAG
1 CATACCAAAAGAGCATTCAAG
51785692 CATACCAAAAGAGCCATTCAA
1 CATACCAAAAGAG-CATTCAA
51785713 AACATAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.17
Consensus pattern (21 bp):
CATACCAAAAGAGCATTCAAG
Found at i:51787095 original size:15 final size:16
Alignment explanation
Indices: 51787068--51787097 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51787058 TAGAACTCTA
51787068 ATTTAGCTCATTTTTT
1 ATTTAGCTCATTTTTT
51787084 ATTTAG-TCATTTTT
1 ATTTAGCTCATTTTT
51787098 ATCGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTTAGCTCATTTTTT
Found at i:51809438 original size:8 final size:8
Alignment explanation
Indices: 51809425--51809463 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
51809415 GAATTTCAAG
51809425 TTATTTCA
1 TTATTTCA
51809433 TTATTTCA
1 TTATTTCA
51809441 GTATATTTCA
1 -T-TATTTCA
51809451 TTATTTCA
1 TTATTTCA
51809459 -TATTT
1 TTATTT
51809464 ATGAGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 15 0.52
9 2 0.07
10 7 0.24
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (8 bp):
TTATTTCA
Found at i:51809440 original size:18 final size:19
Alignment explanation
Indices: 51809417--51809458 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
51809407 AGATTATTGA
51809417 ATTTCAAGT-TATTTCATT
1 ATTTCAAGTATATTTCATT
51809435 ATTTC-AGTATATTTCATT
1 ATTTCAAGTATATTTCATT
51809453 ATTTCA
1 ATTTCA
51809459 TATTTATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTCAAGTATATTTCATT
Found at i:51812253 original size:18 final size:18
Alignment explanation
Indices: 51812210--51812264 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
51812200 ATATATATGT
* *
51812210 TATAAAAATACATATATA
1 TATAGAAATACATATAAA
*
51812228 T-TATGAAATGCATATAAA
1 TATA-GAAATACATATAAA
51812246 TATAGAAATA-ATAATAAA
1 TATAGAAATACAT-ATAAA
51812264 T
1 T
51812265 GATAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 4 0.13
18 24 0.80
19 2 0.07
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (18 bp):
TATAGAAATACATATAAA
Found at i:51812264 original size:10 final size:10
Alignment explanation
Indices: 51812251--51812288 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
51812241 ATAAATATAG
51812251 AAATAATAAT
1 AAATAATAAT
*
51812261 AAATGATAAT
1 AAATAATAAT
51812271 AAATAAT-AT
1 AAATAATAAT
51812280 -AATAATAAT
1 AAATAATAAT
51812289 GATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 6 0.24
9 4 0.16
10 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATAATAAT
Found at i:51812264 original size:28 final size:28
Alignment explanation
Indices: 51812233--51812288 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
51812223 ATATATTATG
51812233 AAATGCAT-ATAAAT-ATAGAAATAATAAT
1 AAATG-ATAATAAATAATA-AAATAATAAT
*
51812261 AAATGATAATAAATAATATAATAATAAT
1 AAATGATAATAAATAATAAAATAATAAT
51812289 GATAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 20 0.80
29 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (28 bp):
AAATGATAATAAATAATAAAATAATAAT
Found at i:51812281 original size:25 final size:23
Alignment explanation
Indices: 51812253--51812299 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
51812243 AAATATAGAA
51812253 ATAATAATAAATGATAATAAATAAT
1 ATAATAAT-AATGATAA-AAATAAT
51812278 ATAATAATAATGATAAAAATAA
1 ATAATAATAATGATAAAAATAA
51812300 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 8 0.36
25 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATAATAATGATAAAAATAAT
Found at i:51812879 original size:16 final size:16
Alignment explanation
Indices: 51812851--51812891 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
51812841 TTTCAAACGA
51812851 AAAATAAATAAAAAAG
1 AAAATAAATAAAAAAG
51812867 AAAATGAAA-AAAAAAG
1 AAAAT-AAATAAAAAAG
*
51812883 AAAAAAAAT
1 AAAATAAAT
51812892 GACAAAACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAATAAATAAAAAAG
Found at i:51818830 original size:35 final size:34
Alignment explanation
Indices: 51818779--51818877 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 34
51818769 TAAATAGTCC
* *
51818779 TCTTTTCCTTAATTCTTCGACACTCAAAAAA-ATCA
1 TCTTTTGCTTAGTTCTTC--CACTCAAAAAAGATCA
51818814 TCTTTTGCTTAGTTCTTCCA-TCAAAACAAATGATCA
1 TCTTTTGCTTAGTTCTTCCACTC-AAA-AAA-GATCA
*
51818850 TCCTTTTGATTAGTTCTTCCACTCAAAA
1 T-CTTTTGCTTAGTTCTTCCACTCAAAA
51818878 GAAAAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
32 2 0.04
33 5 0.09
34 3 0.05
35 16 0.29
36 6 0.11
37 21 0.38
38 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (34 bp):
TCTTTTGCTTAGTTCTTCCACTCAAAAAAGATCA
Found at i:51823823 original size:25 final size:25
Alignment explanation
Indices: 51823774--51823852 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
51823764 GTCGCTAGGG
* *
51823774 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
*
51823798 TTACCGATACTCAGTTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * * *
51823823 TTACCGTTATTCAGCTCGGAGGAGC
1 TTACCGATACTCAGCTCGTATGAGC
51823848 TTACC
1 TTACC
51823853 ATTTATAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
24 9 0.20
25 37 0.80
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:51823871 original size:24 final size:25
Alignment explanation
Indices: 51823784--51823871 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
51823774 TTACCGATTC
* * *
51823784 CAGCTCTTATGAGCTTACCGATACT
1 CAGCTCGTATGAGCTTACCGTTATT
*
51823809 CAGTTCGTATGAGCTTACCGTTATT
1 CAGCTCGTATGAGCTTACCGTTATT
* * *
51823834 CAGCTCGGAGGAGCTTACCATT-TAT
1 CAGCTCGTATGAGCTTACCGTTAT-T
51823859 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
51823872 ATACATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 12 0.23
25 40 0.77
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTTATT
Found at i:51825824 original size:23 final size:23
Alignment explanation
Indices: 51825772--51825817 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
51825762 TCAGTCATCC
51825772 CTACACACCATATTGTGTCATTA
1 CTACACACCATATTGTGTCATTA
*
51825795 CTACACACCTTATTGTGTCATTA
1 CTACACACCATATTGTGTCATTA
51825818 TGACACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (23 bp):
CTACACACCATATTGTGTCATTA
Found at i:51830027 original size:14 final size:15
Alignment explanation
Indices: 51829999--51830033 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
51829989 CTAATAGAAT
51829999 TTTTATTTAAAAAAA
1 TTTTATTTAAAAAAA
51830014 TTTTATTT-AAAAAA
1 TTTTATTTAAAAAAA
51830028 TTTTAT
1 TTTTAT
51830034 CTAATTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTATTTAAAAAAA
Found at i:51835680 original size:19 final size:19
Alignment explanation
Indices: 51835654--51835701 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
51835644 TATAAAATTT
*
51835654 TAATTTTTTTATATTTTATAA
1 TAATTTTATTA-ATTTT-TAA
51835675 -AATTTTATTAATTTTTAA
1 TAATTTTATTAATTTTTAA
51835693 TAATTTTAT
1 TAATTTTAT
51835702 CATTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTATTAATTTTTAA
Found at i:51835841 original size:28 final size:28
Alignment explanation
Indices: 51835795--51835870 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
51835785 AAATTTTTAC
* * *
51835795 AATAATTTAATATTATATTTCATA-TTTT
1 AATAATTT-TTATAATATTTAATAGTTTT
51835823 CAA-AATATTTTATAATATTTAATAGTTTT
1 -AATAAT-TTTTATAATATTTAATAGTTTT
*
51835852 AATAGTTTTTATAATATTT
1 AATAATTTTTATAATATTT
51835871 TTGATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 30 0.75
29 10 0.25
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (28 bp):
AATAATTTTTATAATATTTAATAGTTTT
Found at i:51835867 original size:21 final size:20
Alignment explanation
Indices: 51835842--51835882 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
51835832 TTATAATATT
51835842 TAATAGTTTTAATAGTTTTTA
1 TAATAGTTTTAATA-TTTTTA
* *
51835863 TAATATTTTTGATATTTTTA
1 TAATAGTTTTAATATTTTTA
51835883 AATCTTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TAATAGTTTTAATATTTTTA
Found at i:51838667 original size:93 final size:93
Alignment explanation
Indices: 51838500--51838676 Score: 266
Period size: 93 Copynumber: 1.9 Consensus size: 93
51838490 ATGGTATTTA
* *
51838500 TTGACCAAGATAGCTTTTCTTGTAAAGGTTCATGGACACTGAACTTAAAGATCGACTCTTCTAGC
1 TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGACACTGAACTTAAAGATCGACTCTTCTAGC
*
51838565 GGTTCTTTATTATGCATGTATGTGATTG
66 GGTTCTTTATGATGCATGTATGTGATTG
* * * * *
51838593 TTGACGAAGATAGCTTTTCTTGTAGAGGCTCATAGACACTGGACTTAAAGATTGACTCTTCTAGT
1 TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGACACTGAACTTAAAGATCGACTCTTCTAGC
51838658 GG-TCATTTATGATGCATGT
66 GGTTC-TTTATGATGCATGT
51838677 GTTGCGAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (93 bp):
TTGACCAAGATAGCTTTTCTTGTAAAGGCTCATAGACACTGAACTTAAAGATCGACTCTTCTAGC
GGTTCTTTATGATGCATGTATGTGATTG
Found at i:51841839 original size:12 final size:11
Alignment explanation
Indices: 51841817--51841854 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
51841807 TTTCCAGTGA
51841817 AGAAA-AGAAG
1 AGAAACAGAAG
*
51841827 AGAGACGAGAAG
1 AGAAAC-AGAAG
51841839 AGAAACAGAAG
1 AGAAACAGAAG
51841850 AGAAA
1 AGAAA
51841855 TTGGGAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.63, C:0.05, G:0.32, T:0.00
Consensus pattern (11 bp):
AGAAACAGAAG
Found at i:51844493 original size:49 final size:49
Alignment explanation
Indices: 51844421--51844518 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
51844411 ATCATTTTTA
51844421 ATCTTAAGAACTAAACTTTGATATGGGCTGAAAGTCTCCTTAACTTCTC
1 ATCTTAAGAACTAAACTTTGATATGGGCTGAAAGTCTCCTTAACTTCTC
51844470 ATCTTAAGAACTAAACTTTGATATGGGCTGAAAGTCTCCTTAACTTCTC
1 ATCTTAAGAACTAAACTTTGATATGGGCTGAAAGTCTCCTTAACTTCTC
51844519 TGTGTAAAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (49 bp):
ATCTTAAGAACTAAACTTTGATATGGGCTGAAAGTCTCCTTAACTTCTC
Found at i:51845257 original size:20 final size:20
Alignment explanation
Indices: 51845232--51845296 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
51845222 AGAGATTTAT
*
51845232 TTATTTTAACTAAATTAATA
1 TTATTTTAATTAAATTAATA
**
51845252 TTATTTTAATTAATAAAAATA
1 TTATTTTAATTAA-ATTAATA
*
51845273 TT-TTTATAATTAAATTATTA
1 TTATTT-TAATTAAATTAATA
51845293 TTAT
1 TTAT
51845297 GATAAAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTTTAATTAAATTAATA
Found at i:51845304 original size:17 final size:17
Alignment explanation
Indices: 51845262--51845304 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
51845252 TTATTTTAAT
* *
51845262 TAATAAAAATATTTTTA
1 TAATAAAATTATTATTA
*
51845279 TAATTAAATTATTATTA
1 TAATAAAATTATTATTA
*
51845296 TGATAAAAT
1 TAATAAAAT
51845305 AATTCTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TAATAAAATTATTATTA
Found at i:51847808 original size:51 final size:51
Alignment explanation
Indices: 51847727--51847839 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
51847717 CGGATCACAT
*
51847727 TTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
* * *
51847778 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
51847829 TTATCACTTGT
1 TTATCACTTGT
51847840 TACTAATCAG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATAAGATAAGTGTAGCTAAAGCTACCAC
Found at i:51850659 original size:31 final size:30
Alignment explanation
Indices: 51850624--51850710 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 30
51850614 TTTAATATAT
*
51850624 AAATTTTGATTTGATGCAATTATACACATG
1 AAATTTTGATTTGATTCAATTATACACATG
* * * * *
51850654 AAAATTTG---TAATTCAAATATATACAAG
1 AAATTTTGATTTGATTCAATTATACACATG
51850681 AAATTTTGATTTTGATTCAATTATACACAT
1 AAATTTTGA-TTTGATTCAATTATACACAT
51850711 TTAAAAAAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
27 21 0.50
30 7 0.17
31 14 0.33
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (30 bp):
AAATTTTGATTTGATTCAATTATACACATG
Found at i:51855985 original size:16 final size:16
Alignment explanation
Indices: 51855960--51855994 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
51855950 TTTAGATTTG
51855960 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
51855976 AAACTGTAGACTGTGA
1 AAACTATAGACTGTGA
51855992 AAA
1 AAA
51855995 ATCTCGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:51860685 original size:22 final size:22
Alignment explanation
Indices: 51860646--51860688 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
51860636 TTCCATTAGT
51860646 GTAATTTTTAAAGTTAGGTAAGG
1 GTAATTTTTAAAG-TAGGTAAGG
51860669 GTAATTTTGTAAA-TAGGTAA
1 GTAATTTT-TAAAGTAGGTAA
51860689 TTAAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (22 bp):
GTAATTTTTAAAGTAGGTAAGG
Found at i:51861612 original size:25 final size:25
Alignment explanation
Indices: 51861584--51861674 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
51861574 TTATCGATTC
* * *
51861584 CAGCTCTTATGAGCTTACCGATACT
1 CAGCTCATATGAGCTTACCGTTATT
* *
51861609 CAGCTCGTATAAGCTTACCGTTATT
1 CAGCTCATATGAGCTTACCGTTATT
* *
51861634 CAGCTCAGAGGAGCTTACCGTTATT
1 CAGCTCATATGAGCTTACCGTTATT
* *
51861659 CAGCTCAAAAGAGCTT
1 CAGCTCATATGAGCTT
51861675 TCCATTTATA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (25 bp):
CAGCTCATATGAGCTTACCGTTATT
Found at i:51869264 original size:50 final size:49
Alignment explanation
Indices: 51869131--51869278 Score: 165
Period size: 49 Copynumber: 3.0 Consensus size: 49
51869121 TGCAAGTACG
* *
51869131 TAGCAGTTTATCTGCAAATTAGTGGTGGCCTGTCCACAAAGTGTTTCAG
1 TAGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTTCAA
* * * *
51869180 TAGCAATATATATATGCATA-T-GTGGTGGCTTGTCCACTAAGTGTTATCAA
1 TAGCAGT-T-TATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTT-TCAA
* *
51869230 TGGCAGTTTATCTACAAATTAGTGGTGGCTTGTCCACAAATGGTGTTTC
1 TAGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAA--GTGTTTC
51869279 GAATGGACAA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
48 7 0.09
49 30 0.38
50 28 0.35
51 10 0.12
52 5 0.06
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (49 bp):
TAGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTTCAA
Found at i:51870451 original size:13 final size:13
Alignment explanation
Indices: 51870433--51870461 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51870423 AAATTTTATA
51870433 GATTTGATGTTTT
1 GATTTGATGTTTT
51870446 GATTTGATGTTTT
1 GATTTGATGTTTT
51870459 GAT
1 GAT
51870462 CATACACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (13 bp):
GATTTGATGTTTT
Found at i:51878579 original size:45 final size:45
Alignment explanation
Indices: 51878499--51878615 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 45
51878489 ATGCCATAAC
* * *
51878499 GTCTTTCAGCTATAGTCTTAATC-TTGTTTACCATGATGTCATAGT
1 GTCTTTCAGCTATAGTCTTACTCATT-TATACCATGATGTCATAGA
* * * *
51878544 GTCTTTCAACTATGGTCTTACTCATTTATATCATGATGTTATAGA
1 GTCTTTCAGCTATAGTCTTACTCATTTATACCATGATGTCATAGA
* * **
51878589 ATCTTTTAGCTATTTTCTTACTCATTT
1 GTCTTTCAGCTATAGTCTTACTCATTT
51878616 TTAGGCTATA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 57 0.97
46 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (45 bp):
GTCTTTCAGCTATAGTCTTACTCATTTATACCATGATGTCATAGA
Found at i:51880281 original size:27 final size:28
Alignment explanation
Indices: 51880251--51880319 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 28
51880241 CACAGAGCAT
* *
51880251 CTCGCACTTTGA-CACTTGTGGAGACAA
1 CTCGCACTTTCACCACTTGTAGAGACAA
51880278 CTCGCAC-TTCACCACTTGTAGAGACAA
1 CTCGCACTTTCACCACTTGTAGAGACAA
*
51880305 CTCACAC-TTCACCAC
1 CTCGCACTTTCACCAC
51880320 GAGCTGCTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (28 bp):
CTCGCACTTTCACCACTTGTAGAGACAA
Found at i:51882549 original size:22 final size:21
Alignment explanation
Indices: 51882505--51882554 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
51882495 TTGGTCATTC
** *
51882505 AATTATTAATTTTTTTAATTT
1 AATTATTAATTTTTCGAAATT
51882526 AATTACTTAATTTTTCGAAATT
1 AATTA-TTAATTTTTCGAAATT
*
51882548 AAATATT
1 AATTATT
51882555 TGAGTCACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTATTAATTTTTCGAAATT
Found at i:51883235 original size:17 final size:15
Alignment explanation
Indices: 51883211--51883256 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
51883201 GACAAAATTT
51883211 TCAAAATTAAAATAA
1 TCAAAATTAAAATAA
51883226 TACAAAAATTAAAATTAA
1 T-C-AAAATTAAAA-TAA
51883244 TC-AAATTAAAATA
1 TCAAAATTAAAATA
51883257 CAAGTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 1 0.04
17 11 0.39
18 4 0.14
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TCAAAATTAAAATAA
Found at i:51884344 original size:2 final size:2
Alignment explanation
Indices: 51884339--51884382 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
51884329 AGTATAAAAT
*
51884339 GA GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA -A GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
51884380 GA G
1 GA G
51884383 GGGTTAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51885745 original size:30 final size:30
Alignment explanation
Indices: 51885677--51885764 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 30
51885667 ATTTTAATAG
* * * * *
51885677 ATCATATTTTTATAATTTTTAAAGGGTTAA
1 ATCAAATTTTTATTATTTTTAAAAGCTAAA
51885707 ATCAAATTTTTATTATTTTTAAAAGCTAAA
1 ATCAAATTTTTATTATTTTTAAAAGCTAAA
51885737 AT-ATAATTTTATCATTATTAATTTAAAA
1 ATCA-AATTTT-T-ATTATT--TTTAAAA
51885765 TTTTATAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.02
30 33 0.69
31 1 0.02
32 6 0.12
34 7 0.15
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (30 bp):
ATCAAATTTTTATTATTTTTAAAAGCTAAA
Found at i:51887914 original size:23 final size:22
Alignment explanation
Indices: 51887871--51887928 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
51887861 AAAGGGTATC
* *
51887871 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
51887892 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
51887915 TACATATCATATCT
1 TACAAATCATATCT
51887929 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:51887922 original size:17 final size:17
Alignment explanation
Indices: 51887900--51887990 Score: 67
Period size: 17 Copynumber: 5.0 Consensus size: 17
51887890 ATTACAAAAT
51887900 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
51887917 CATATCATATCTAAGATTGCA
1 CATATC-T-TCTAAGATT--A
* *
51887938 TATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
51887957 CATCAT-ATCTAAGATTA
1 CAT-ATCTTCTAAGATTA
* *
51887974 CATATCCTCAAAGATTA
1 CATATCTTCTAAGATTA
51887991 TATTTCCATA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.03
17 27 0.44
18 1 0.02
19 11 0.18
20 2 0.03
21 18 0.30
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:51887944 original size:21 final size:22
Alignment explanation
Indices: 51887898--51887965 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 22
51887888 AGATTACAAA
51887898 ATCATATC-T-TCTAAGATT--
1 ATCATATCATATCTAAGATTGC
51887916 A-CATATCATATCTAAGATTGC
1 ATCATATCATATCTAAGATTGC
51887937 AT-ATATCATATCTAAGATTGC
1 ATCATATCATATCTAAGATTGC
51887958 ATCATATC
1 ATCATATC
51887966 TAAGATTACA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.14
18 2 0.05
19 9 0.20
21 22 0.50
22 5 0.11
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
ATCATATCATATCTAAGATTGC
Found at i:51888632 original size:132 final size:132
Alignment explanation
Indices: 51888390--51889409 Score: 1629
Period size: 132 Copynumber: 7.7 Consensus size: 132
51888380 GAGATAGGAT
* * *
51888390 TTGGTGGCTTAAATCTGCTTCCCACAATCTTGGAAAGATAATATTTTCCGTTTTTTGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG-TCTTTGATCTGCTC
* *
51888455 CACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAA
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
51888520 GGC
130 GGC
* *
51888523 TTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
51888588 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
51888653 GC
131 GC
* * *
51888655 TTGGTGGCTTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
* *
51888720 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGAAAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
51888785 GC
131 GC
* * *
51888787 TTGGTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
*
51888852 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
51888917 GC
131 GC
* * * *
51888919 TTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCATCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
** *
51888984 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTTTCCGCTGCTGCTCAGGGAGGCAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
*
51889049 AC
131 GC
*
51889051 TTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
* * * ** * *
51889115 CACTACTGCTTAGAGAGATAAAATCTACAATCTTCAACCTTCTCCATTGTTGCTTA--GAGACAA
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
51889178 GGC
130 GGC
*
51889181 TTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
* *
51889245 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCTGCTGCTGCTCAGGGAGACAA
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
51889310 GGC
130 GGC
* *
51889313 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT-TGTCTTCGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
51889377 CACTACTGCTTAGGGAGATAAGATCTAC-ATCTT
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTT
51889410 TGATCCAATT
Statistics
Matches: 833, Mismatches: 51, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
130 119 0.14
131 5 0.01
132 663 0.80
133 46 0.06
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (132 bp):
TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
GC
Found at i:51889396 original size:44 final size:44
Alignment explanation
Indices: 51888447--51889400 Score: 263
Period size: 44 Copynumber: 21.7 Consensus size: 44
51888437 CCGTTTTTTG
* * *
51888447 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCT-GTCTTCA
* * * * * * * * *
51888491 ACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTG-TGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAA-GATTTGCTGTCTTCA
* * ** **
51888535 ATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTTCCATCTTTG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCTGTCTTCA
* * **
51888579 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * * * * * ** * * *
51888623 ACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * ** **
51888667 ATCTGTTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCATCTTTG
1 ATCTG-CT-CCACTACTGCTTAGG-GAGATAAGATTTGCTGTCTTCA
* * **
51888711 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * * ** * * ** * * *
51888755 ACCTACTCCGCTGTTGCTCAGGGAGAAAAGGCTTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * * *
51888799 ATCTACTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCGTCTTCG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCTGTCTTCA
* * **
51888843 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * * ** * * ** * * *
51888887 ACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
** ** *
51888931 ATCTGCTTCCCACTA-T-CTTAGAAAGATAAGATTTGCCATCTTCG
1 ATCTGC-T-CCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * **
51888975 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* ** * * * ** * *
51889019 ACCTTTTCCGCTGCTGCTCAGGGAGGCAAGACTTTG-TGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-TTTGCTGTCTTCA
* **
51889063 ATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTG-TCGTCTTTG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCT-GTCTTCA
* * * * **
51889107 ATCTGCTCCACTACTGCTTAGAGAGATAAAATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * * ** * * * *
51889151 ACCTTCTCCATTGTTGCTTA--GAGACAAGGCTTTG-TGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAA-GATTTGCTGTCTTCA
* **
51889193 ATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTG-TCGTCTTTG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCT-GTCTTCA
* * ** *
51889237 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * ** * * * ** * * *
51889281 ACCTACTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
* * *
51889325 ATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGTTGTCTTCG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCTGTCTTCA
51889369 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT
51889401 CTACATCTTT
Statistics
Matches: 619, Mismatches: 240, Indels: 102
0.64 0.25 0.11
Matches are distributed among these distances:
42 59 0.10
43 43 0.07
44 465 0.75
45 29 0.05
46 23 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGTCTTCA
Found at i:51889623 original size:44 final size:45
Alignment explanation
Indices: 51889423--51889624 Score: 222
Period size: 44 Copynumber: 4.6 Consensus size: 45
51889413 TCCAATTCCT
* * *
51889423 ACCAATATA-GGAAGACAGGATCTGTTATCTTCGATCTACTTCAC
1 ACCAATACATGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
51889467 GCCAATACAT-GAAGACAAGATCTGCTTTCTTCGATATACTTCGCC
1 ACCAATACATGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
*
51889512 ACCAAT--ATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATACAT-GGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
51889554 TACCAATATA-GGAAGACAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATACATGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
*
51889599 GCCAATACATGG-AGACAAGATCTGCT
1 ACCAATACATGGAAGACAAGATCTGCT
51889625 TTTTCACTGA
Statistics
Matches: 132, Mismatches: 16, Indels: 20
0.79 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 23 0.17
44 83 0.63
45 25 0.19
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (45 bp):
ACCAATACATGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:51895145 original size:22 final size:21
Alignment explanation
Indices: 51895110--51895216 Score: 73
Period size: 19 Copynumber: 5.2 Consensus size: 21
51895100 AAAGGGTATC
* *
51895110 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
51895131 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
51895154 TACATATCATA--TCTAAGATT
1 TACAAATCATATCTCTAAGA-T
* *
51895174 GTATATATCATA--TCTAAGAT
1 -TACAAATCATATCTCTAAGAT
* *
51895194 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
51895213 TACA
1 TACA
51895217 TATCCTCGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
19 27 0.36
20 2 0.03
21 20 0.27
22 15 0.20
23 11 0.15
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:51895153 original size:23 final size:22
Alignment explanation
Indices: 51895110--51895167 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
51895100 AAAGGGTATC
* *
51895110 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
51895131 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
51895154 TACATATCATATCT
1 TACAAATCATATCT
51895168 AAGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:51895170 original size:19 final size:19
Alignment explanation
Indices: 51895123--51895220 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
51895113 AAATTAAATC
*
51895123 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
51895143 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
51895165 TCTAAGATTGTATATATCATA
1 TCTAAGA-T-TACATATCATA
*
51895186 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
51895205 TCTAAGATTACATATC
1 TCTAAGATTACATATC
51895221 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 31 0.46
20 2 0.03
21 17 0.25
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:51898778 original size:38 final size:38
Alignment explanation
Indices: 51898725--51898815 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 38
51898715 GGTTATTACG
*
51898725 AAGGACCAGTTGATAACCGTCAACACGGTGTCACCCCA
1 AAGGACCAGTAGATAACCGTCAACACGGTGTCACCCCA
* ** * *
51898763 AAGGACCAGTGGATAATTGTCAACATGGTGTCACCTCA
1 AAGGACCAGTAGATAACCGTCAACACGGTGTCACCCCA
51898801 AAGGACCAGTAGATA
1 AAGGACCAGTAGATA
51898816 TTCATTTCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (38 bp):
AAGGACCAGTAGATAACCGTCAACACGGTGTCACCCCA
Found at i:51900654 original size:30 final size:30
Alignment explanation
Indices: 51900620--51900682 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
51900610 ACTTATTTTA
51900620 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* * *
51900650 TTGTTAATTTTTTTATTATTTTAGAGGCGT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
51900680 TTG
1 TTG
51900683 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:51900820 original size:11 final size:11
Alignment explanation
Indices: 51900804--51900834 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51900794 TATATATATT
51900804 TAAAAATTATA
1 TAAAAATTATA
*
51900815 TAAAAATAATA
1 TAAAAATTATA
51900826 TAAAAATTA
1 TAAAAATTA
51900835 ATGCGAGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:51904334 original size:94 final size:94
Alignment explanation
Indices: 51904173--51904444 Score: 346
Period size: 94 Copynumber: 2.9 Consensus size: 94
51904163 TTAGGCTTAC
* * * *
51904173 AAAGTTATAAAGCAGACACCTCGAGAGGAAACTGCTCGTTAAGTTTACTAGAAGAATCGCTTCTA
1 AAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTA
*
51904238 GCCTTTTAAGGTACTTAGCTAAATTGAAA
66 GCCTTTTAAGGCACTTAGCTAAATTGAAA
* * *
51904267 AAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGCTTCTA
1 AAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTA
* ** *
51904332 GCCTCTTAAGGCACTTAGCTAAATTTTAC
66 GCCTTTTAAGGCACTTAGCTAAATTGAAA
* * * * * * * *
51904361 AAAGTTACAAAACAAACACCCCAAATAGGAAGTTGCTGGATAAGTTTAATAGAAGAATTGCTTCT
1 AAAGTTATAAAGCAGACACCTC-AAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCT
*
51904426 AGCCTTTTAATGCACTTAG
65 AGCCTTTTAAGGCACTTAG
51904445 GAAAAATTTA
Statistics
Matches: 153, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
94 101 0.66
95 52 0.34
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (94 bp):
AAAGTTATAAAGCAGACACCTCAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTA
GCCTTTTAAGGCACTTAGCTAAATTGAAA
Found at i:51904475 original size:95 final size:95
Alignment explanation
Indices: 51904181--51904603 Score: 295
Period size: 94 Copynumber: 4.5 Consensus size: 95
51904171 ACAAAGTTAT
* * * * *
51904181 AAAGCAGACACCTC-GAGAGGAAACTGCTCGTTAAGTTTACTAGAAGAATCGCTTCTAGCCTTTT
1 AAAGCAGACACCCCAAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTAGCCTTTT
* ** * *
51904245 AAGGTACTTA-GCTAAATTGAAAAAAGTT-A
66 AAGGCACTTAGGAAAAATT-TAAAAATTTCA
* * * * *
51904274 TAAAGCAGACACCTC-AAGAGGAAATTGCTCGCTAAGTTCAATAAAAGAATCGCTTCTAGCCTCT
1 -AAAGCAGACACCCCAAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTAGCCTTT
** * * *
51904338 TAAGGCACTTAGCTAAATTTTACAAAGTTACA
65 TAAGGCACTTAGGAAAAATTTA-AAAATTTCA
* * * * *
51904370 AAA-CAAACACCCCAAATAGGAAGTTGCTGGATAAGTTTAATAGAAGAATTGCTTCTAGCCTTTT
1 AAAGCAGACACCCCAAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTAGCCTTTT
* * *
51904434 AATGCACTTAGGAAAAATTTAATATTTTCA
66 AAGGCACTTAGGAAAAATTTAAAAATTTCA
* * * * *** * * *
51904464 AAAGCCGACACCCCAAAGAGAAAACTACTTTCTAAGTTT-ATAGAAGAAACACTTCTAGCCTCTT
1 AAAGCAGACACCCCAAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTAGCCTTTT
** * ** * *
51904528 AAAACATTTAGCCAAAATTCAATATAA--TCT
66 AAGGCACTTAGGAAAAATTTAA-A-AATTTCA
* * * * *
51904558 AAAGCTGACACCTCAAAGAGGAAACTGTTTGATAAGTTTAATAGAA
1 AAAGCAGACACCCCAAAGAGGAAATTGCTCGATAAGTTTAATAGAA
51904604 TAACCACTTC
Statistics
Matches: 258, Mismatches: 63, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
94 155 0.60
95 101 0.39
96 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (95 bp):
AAAGCAGACACCCCAAAGAGGAAATTGCTCGATAAGTTTAATAGAAGAATCGCTTCTAGCCTTTT
AAGGCACTTAGGAAAAATTTAAAAATTTCA
Found at i:51905108 original size:30 final size:30
Alignment explanation
Indices: 51905052--51905108 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
51905042 CTTACAGGGG
* **
51905052 ACACACGACTATGTCACATGGTCGTGTGTC
1 ACACACGACTATGTCACACGCCCGTGTGTC
51905082 ACACACGACTGA-GTCACACGCCCGTGT
1 ACACACGACT-ATGTCACACGCCCGTGT
51905109 CTCAGGCCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 22 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (30 bp):
ACACACGACTATGTCACACGCCCGTGTGTC
Found at i:51905890 original size:41 final size:42
Alignment explanation
Indices: 51905845--51905943 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 42
51905835 ATAAGGGAAT
51905845 GTATGTGCAATTTAGGGGTACCGAAGTAC-AAACAGGGGCA-A
1 GTATGTGCAATTTAGGGGTACCGAAGTACAAAACA-GGGCACA
* *
51905886 GTATGTGCAA-TCAGGGGTACCGAAGTACAAAAACATGGCACA
1 GTATGTGCAATTTAGGGGTACCGAAGTAC-AAAACAGGGCACA
51905928 -TATGTGCAATTTAGGG
1 GTATGTGCAATTTAGGG
51905944 AATAATTAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
40 17 0.33
41 23 0.45
42 11 0.22
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.21
Consensus pattern (42 bp):
GTATGTGCAATTTAGGGGTACCGAAGTACAAAACAGGGCACA
Found at i:51908550 original size:32 final size:33
Alignment explanation
Indices: 51908504--51908565 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
51908494 TCATGTTATC
*
51908504 TAAATTTTATTATTTTTATATATATATTTGAAA
1 TAAATTTTATTATTTTAATATATATATTTGAAA
* *
51908537 TAAA-TTTATTATTTTAATATTTATGTTTG
1 TAAATTTTATTATTTTAATATATATATTTG
51908566 TTTCTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (33 bp):
TAAATTTTATTATTTTAATATATATATTTGAAA
Found at i:51911283 original size:12 final size:12
Alignment explanation
Indices: 51911266--51911290 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51911256 GGTGTTCATT
51911266 CGGTTAACCGAC
1 CGGTTAACCGAC
51911278 CGGTTAACCGAC
1 CGGTTAACCGAC
51911290 C
1 C
51911291 CAAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:51911470 original size:9 final size:9
Alignment explanation
Indices: 51911452--51911493 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
51911442 TTTGGTTAAA
51911452 AATTAACCG
1 AATTAACCG
*
51911461 AATTACCCG
1 AATTAACCG
51911470 AATTAACCG
1 AATTAACCG
*
51911479 AATTACCCG
1 AATTAACCG
51911488 AATTAA
1 AATTAA
51911494 ATCACTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:51911475 original size:18 final size:18
Alignment explanation
Indices: 51911452--51911493 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
51911442 TTTGGTTAAA
51911452 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
51911470 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
51911488 AATTAA
1 AATTAA
51911494 ATCACTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:51911659 original size:6 final size:6
Alignment explanation
Indices: 51911531--51911643 Score: 226
Period size: 6 Copynumber: 18.8 Consensus size: 6
51911521 ATTTTTAGAC
51911531 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
51911579 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
51911627 TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAG
51911644 AATTTTATTT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 107 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:51911667 original size:20 final size:20
Alignment explanation
Indices: 51911536--51911656 Score: 163
Period size: 18 Copynumber: 6.5 Consensus size: 20
51911526 TAGACTTTAG
51911536 TTTTAGTTTTAGTTTTAG--
1 TTTTAGTTTTAGTTTTAGAA
51911554 TTTTAGTTTTAGTTTTAG--
1 TTTTAGTTTTAGTTTTAGAA
51911572 TTTTAGTTTTAGTTTTAG--
1 TTTTAGTTTTAGTTTTAGAA
51911590 TTTTAGTTTTAGTTTTAG--
1 TTTTAGTTTTAGTTTTAGAA
51911608 TTTTAGTTTTAGTTTTAG--
1 TTTTAGTTTTAGTTTTAGAA
51911626 TTTTAGTTTTAGTTTTAGAA
1 TTTTAGTTTTAGTTTTAGAA
*
51911646 TTTTATTTTTA
1 TTTTAGTTTTA
51911657 TTTATTAAAT
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
18 90 0.90
20 10 0.10
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (20 bp):
TTTTAGTTTTAGTTTTAGAA
Found at i:51911724 original size:18 final size:18
Alignment explanation
Indices: 51911684--51911727 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
51911674 AATTTTTATG
**
51911684 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
51911702 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
51911720 CTTGGGTT
1 ATTGGGTT
51911728 TGAATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:51916445 original size:25 final size:25
Alignment explanation
Indices: 51916356--51916439 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
51916346 CGGACACACC
51916356 ACAGCTCGTATGAGCTTACCGATTT
1 ACAGCTCGTATGAGCTTACCGATTT
* ** * *
51916381 GCAGCTCGTAAAAGCTTACAGGTTT
1 ACAGCTCGTATGAGCTTACCGATTT
* *
51916406 TCAGCTCGTATGAGCTTACCGATCT
1 ACAGCTCGTATGAGCTTACCGATTT
51916431 ACAGCTCGT
1 ACAGCTCGT
51916440 GAGAGCATAC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTACCGATTT
Found at i:51916462 original size:50 final size:50
Alignment explanation
Indices: 51916357--51916469 Score: 129
Period size: 50 Copynumber: 2.3 Consensus size: 50
51916347 GGACACACCA
* * * * *
51916357 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTAAAAGCTTACAGGTTTT
1 CAGCTCGTATGAGCTTACCGATCTACAGCTCGTAAAAGCATACAGATTAT
* * *
51916407 CAGCTCGTATGAGCTTACCGATCTACAGCTCGTGAGAGCATACTGATTCAT
1 CAGCTCGTATGAGCTTACCGATCTACAGCTCGTAAAAGCATACAGATT-AT
*
51916458 -AGCTCATATGAG
1 CAGCTCGTATGAG
51916470 TATACATGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATCTACAGCTCGTAAAAGCATACAGATTAT
Found at i:51919327 original size:26 final size:26
Alignment explanation
Indices: 51919274--51919325 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51919264 ATTTTAAATA
*
51919274 AATTAAAACCCTAATTCTCCTAATTT
1 AATTAAAACCCTAATTATCCTAATTT
* *
51919300 AATTTAAACTCCTAATTATCTTAATT
1 AATTAAAAC-CCTAATTATCCTAATT
51919326 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAAAACCCTAATTATCCTAATTT
Found at i:51919431 original size:90 final size:92
Alignment explanation
Indices: 51919210--51919446 Score: 298
Period size: 90 Copynumber: 2.6 Consensus size: 92
51919200 TTGAGAAACC
* * ** * *** *
51919210 TTAAACTCCTAATTATCTTAATTAAAATCTAAATTATCATCTAAATTATTAAGTATTTTAAATAA
1 TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATTAAAGT-CATAA
* *
51919275 ATTAAAACCCTAATTCTCCTAATTTAAT
65 ATTAAAACCCTAATTCACCTAATTCAAT
* *
51919303 TTAAACTCCTAATTATCTTAATTAAAATCTAAATTATTATTTAACCTATTAATTAAAGTCATAAA
1 TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATTAAAGTCATAAA
*
51919368 TT-AAACTCTAATT-ACCTAATTCAAT
66 TTAAAACCCTAATTCACCTAATTCAAT
* * *
51919393 TTAAACTCCTATTTATCTCAATTAAAATTTATATTATTATCTAACCTATTAATT
1 TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATT
51919447 TAATTTCTCA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
90 59 0.46
91 10 0.08
92 7 0.06
93 51 0.40
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (92 bp):
TTAAACTCCTAATTATCTCAATTAAAATCTAAATTATTATCTAACCTATTAATTAAAGTCATAAA
TTAAAACCCTAATTCACCTAATTCAAT
Found at i:51926369 original size:26 final size:28
Alignment explanation
Indices: 51926329--51926382 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
51926319 TAAATTTTTT
*
51926329 TACTTTTCTCTC-AAAACTTTTACTCTC
1 TACTTTCCTCTCAAAAACTTTTACTCTC
51926356 TACTTTCCTC-CAAAAACTTTTACTCTC
1 TACTTTCCTCTCAAAAACTTTTACTCTC
51926383 CTCCCCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.44
Consensus pattern (28 bp):
TACTTTCCTCTCAAAAACTTTTACTCTC
Found at i:51926777 original size:13 final size:12
Alignment explanation
Indices: 51926759--51926821 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 12
51926749 AGTAATAATT
51926759 TTATTTATATCTA
1 TTATTTATAT-TA
51926772 TTATTTATATTA
1 TTATTTATATTA
* *
51926784 TTAAATTAAATT-
1 TT-ATTTATATTA
51926796 TTACATTT-TA-TA
1 TT--ATTTATATTA
51926808 TTATTTATATTA
1 TTATTTATATTA
51926820 TT
1 TT
51926822 GAATTGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
10 4 0.10
11 3 0.08
12 13 0.32
13 20 0.50
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:51927427 original size:14 final size:15
Alignment explanation
Indices: 51927410--51927441 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
51927400 TATTTTTTGG
51927410 AAAATGATTT-CTGA
1 AAAATGATTTACTGA
51927424 AAAATGATTTACTGA
1 AAAATGATTTACTGA
51927439 AAA
1 AAA
51927442 TATTTTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (15 bp):
AAAATGATTTACTGA
Found at i:51927442 original size:14 final size:13
Alignment explanation
Indices: 51927409--51927446 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
51927399 ATATTTTTTG
51927409 GAAAATGATTTCT
1 GAAAATGATTTCT
51927422 GAAAAATGATTTACT
1 G-AAAATGATTT-CT
51927437 GAAAAT-ATTT
1 GAAAATGATTT
51927447 TTTGGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
GAAAATGATTTCT
Found at i:51927557 original size:57 final size:56
Alignment explanation
Indices: 51927494--51927610 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 56
51927484 GAAAAGTTGT
*
51927494 TTTTACATATATT--AATAAATTTATGTACATATTAAT-AAATTTTTATATTTTAAATTG
1 TTTTACATATATTACAAT-AATTT-TGT--ATATAAATAAAATTTTTATATTTTAAATTG
* *
51927551 TTTTACATATATTACAATGATTTTGTTTATAAATAAAATTTTTATATTTTAAATTG
1 TTTTACATATATTACAATAATTTTGTATATAAATAAAATTTTTATATTTTAAATTG
51927607 TTTT
1 TTTT
51927611 TATATAGTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
55 6 0.11
56 25 0.46
57 16 0.30
58 4 0.07
59 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (56 bp):
TTTTACATATATTACAATAATTTTGTATATAAATAAAATTTTTATATTTTAAATTG
Found at i:51928983 original size:28 final size:28
Alignment explanation
Indices: 51928951--51929005 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
51928941 TACATACATA
*
51928951 TGTATA-ATAAGAATAAT-TTAATATAGGT
1 TGTATACATAA-AAAAATATTAA-ATAGGT
51928979 TGTATACATAAAAAAATATTAAATAGG
1 TGTATACATAAAAAAATATTAAATAGG
51929006 GATATTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.35
Consensus pattern (28 bp):
TGTATACATAAAAAAATATTAAATAGGT
Found at i:51929077 original size:18 final size:16
Alignment explanation
Indices: 51929054--51929089 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
51929044 AAATGGCTTT
51929054 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
51929072 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
51929088 TA
1 TA
51929090 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:51930406 original size:15 final size:15
Alignment explanation
Indices: 51930383--51930430 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
51930373 CTTTTAATAA
51930383 TTTTGTTTTTTATTT
1 TTTTGTTTTTTATTT
51930398 TTATT-TTTTTATATATT
1 TT-TTGTTTTT-TAT-TT
51930415 TTTTGTTTATTTATTT
1 TTTTGTTT-TTTATTT
51930431 GATTTGGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 7 0.25
16 9 0.32
17 10 0.36
18 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTGTTTTTTATTT
Found at i:51931114 original size:46 final size:46
Alignment explanation
Indices: 51931046--51931136 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
51931036 TCCGATTAGG
*
51931046 AATTCTTCGGTCTATTCTACTGTAATCTCAAGGAGATAAGACCTGT
1 AATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGT
51931092 AATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTG
1 AATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTG
51931137 ATGCGATCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (46 bp):
AATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGT
Found at i:51936387 original size:6 final size:6
Alignment explanation
Indices: 51936378--51936406 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51936368 AAAAGAAAAA
51936378 AAATAC AAATAC AAATAC AAATAC AAATA
1 AAATAC AAATAC AAATAC AAATAC AAATA
51936407 AATAGTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAC
Found at i:51936421 original size:7 final size:7
Alignment explanation
Indices: 51936405--51936440 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
51936395 CAAATACAAA
51936405 TAAATAG
1 TAAATAG
*
51936412 TAAGTAG
1 TAAATAG
51936419 TAAATAG
1 TAAATAG
51936426 TAAATAG
1 TAAATAG
51936433 TAAATAG
1 TAAATAG
51936440 T
1 T
51936441 TTATTTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (7 bp):
TAAATAG
Found at i:51936825 original size:18 final size:19
Alignment explanation
Indices: 51936795--51936833 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
51936785 GTAATAAAAT
*
51936795 ATGCATAATAAATATTGAA
1 ATGCATAATAAATATTAAA
51936814 ATGCATAA-AAATATTAAA
1 ATGCATAATAAATATTAAA
51936832 AT
1 AT
51936834 AAAGTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (19 bp):
ATGCATAATAAATATTAAA
Found at i:51937440 original size:12 final size:12
Alignment explanation
Indices: 51937404--51937442 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
51937394 TTCTTATTGC
*
51937404 AAATAATATTTA
1 AAATAATATTTT
51937416 AAATAAATATTTT
1 AAAT-AATATTTT
51937429 AAATAATATTTT
1 AAATAATATTTT
51937441 AA
1 AA
51937443 TACATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:51938087 original size:15 final size:15
Alignment explanation
Indices: 51938029--51938092 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
51938019 TAAATTTTAT
51938029 TTATTTTTC-AAAAA
1 TTATTTTTCGAAAAA
*
51938043 TTATTTTTTCAAATAAA
1 TTA-TTTTTCGAA-AAA
*
51938060 TT-TTTTT-GTAAAA
1 TTATTTTTCGAAAAA
51938073 TTATTTTTCGAAAAA
1 TTATTTTTCGAAAAA
*
51938088 ATATT
1 TTATT
51938093 CGAACTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.12
14 9 0.22
15 20 0.49
16 2 0.05
17 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (15 bp):
TTATTTTTCGAAAAA
Found at i:51938139 original size:23 final size:25
Alignment explanation
Indices: 51938104--51938149 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
51938094 GAACTGGAAT
* *
51938104 AAAATAATTTG-AATTTTTTTTCGA
1 AAAATAATATGAAATTTATTTTCGA
51938128 AAAATAA-ATGAAATTTATTTTC
1 AAAATAATATGAAATTTATTTTC
51938150 AGTTGAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (25 bp):
AAAATAATATGAAATTTATTTTCGA
Found at i:51945477 original size:35 final size:36
Alignment explanation
Indices: 51945386--51945503 Score: 130
Period size: 36 Copynumber: 3.3 Consensus size: 36
51945376 TACATTGTCA
* * *
51945386 ATCCAAAACACACTAGAAGCTCACACGAGCCAATCC
1 ATCCAAAACACGCCAGATGCTCACACGAGCCAATCC
* *
51945422 CTCCAAAACACGCCATATGCTCACACGAGCCAATCC
1 ATCCAAAACACGCCAGATGCTCACACGAGCCAATCC
* * * * *
51945458 TTCC-AAACATGCCAGATGCTCATAAGAGCTAATCC
1 ATCCAAAACACGCCAGATGCTCACACGAGCCAATCC
*
51945493 ATCCGAAACAC
1 ATCCAAAACAC
51945504 ACCAAATAGA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 29 0.43
36 39 0.57
ACGTcount: A:0.37, C:0.36, G:0.12, T:0.15
Consensus pattern (36 bp):
ATCCAAAACACGCCAGATGCTCACACGAGCCAATCC
Found at i:51949835 original size:21 final size:20
Alignment explanation
Indices: 51949811--51949850 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
51949801 ATTTTTGGGT
* *
51949811 TATAGAATTTATATATATATA
1 TATACAATTCATA-ATATATA
51949832 TATACAATTCATAATATAT
1 TATACAATTCATAATATAT
51949851 TTATGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (20 bp):
TATACAATTCATAATATATA
Found at i:51951310 original size:14 final size:14
Alignment explanation
Indices: 51951291--51951318 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51951281 GGTTTCTGAT
51951291 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
51951305 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
51951319 CCGTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTGTTTTGGGCCA
Found at i:51975932 original size:23 final size:23
Alignment explanation
Indices: 51975906--51975966 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
51975896 TAATCATTTA
*
51975906 TGGCGTATTTTGTATAGCCTATG
1 TGGCGTATTCTGTATAGCCTATG
* *
51975929 TGGCGTATTCTGTATGGCCTTTG
1 TGGCGTATTCTGTATAGCCTATG
**
51975952 TGGCAAATTCTGTAT
1 TGGCGTATTCTGTAT
51975967 TGTTTCATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.16, C:0.15, G:0.26, T:0.43
Consensus pattern (23 bp):
TGGCGTATTCTGTATAGCCTATG
Found at i:51977843 original size:54 final size:54
Alignment explanation
Indices: 51977765--51977867 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
51977755 AGTGGGATTA
*
51977765 ATAAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCCTGTAAT
1 ATAAACTCATAGAGTATTATCGGGATTACCAGTCCAGGCTAAATCCCCTGTAAT
51977819 ATAAACTCATAGAGTATTATCGGGATTACCAGTCCAGGCTAAATCCCCT
1 ATAAACTCATAGAGTATTATCGGGATTACCAGTCCAGGCTAAATCCCCT
51977868 ACAATGACAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (54 bp):
ATAAACTCATAGAGTATTATCGGGATTACCAGTCCAGGCTAAATCCCCTGTAAT
Found at i:51998714 original size:18 final size:18
Alignment explanation
Indices: 51998672--51998714 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
51998662 GCCCATTCCG
* *
51998672 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
51998690 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
51998708 AAGTATG
1 AAGTATG
51998715 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:51999245 original size:28 final size:28
Alignment explanation
Indices: 51999163--51999340 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
51999153 GAGATTGGCG
* * * *
51999163 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
51999192 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
51999219 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
51999247 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
51999275 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
51999303 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
51999330 CTGAGTGTGCG
1 CTAAGTGTGCG
51999341 GACTTATTAT
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 44 0.32
28 81 0.60
29 11 0.08
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:52007481 original size:27 final size:28
Alignment explanation
Indices: 52007369--52007494 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
52007359 TAAATTGTGC
* *
52007369 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
52007397 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
52007425 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
52007453 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
52007480 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52007495 GACTTATTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.26
28 69 0.74
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:52016912 original size:12 final size:12
Alignment explanation
Indices: 52016895--52016924 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52016885 TCAGGCAGTT
52016895 ACACGGCCTAGC
1 ACACGGCCTAGC
*
52016907 ACACGGCCTGGC
1 ACACGGCCTAGC
52016919 ACACGG
1 ACACGG
52016925 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:52021931 original size:42 final size:42
Alignment explanation
Indices: 52021800--52021940 Score: 174
Period size: 42 Copynumber: 3.4 Consensus size: 42
52021790 GCTCGTATGA
* * *
52021800 GGAGCTTCGTTGATACACAAATTGTCATTTAAACTCATGTGG
1 GGAGCTTCGCTGATACACAACTTGTCATTTAAGCTCATGTGG
* * * * *
52021842 GGAGCATCACTAATACACAACTTGTCACTTCAGCTCATGTGG
1 GGAGCTTCGCTGATACACAACTTGTCATTTAAGCTCATGTGG
* * * *
52021884 GGAGCTTCGTTGATACATAGCTTGTCATTTAAGCTCACGTGG
1 GGAGCTTCGCTGATACACAACTTGTCATTTAAGCTCATGTGG
52021926 GGAGCTTCGCTGATA
1 GGAGCTTCGCTGATA
52021941 AATAGCTTGT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
GGAGCTTCGCTGATACACAACTTGTCATTTAAGCTCATGTGG
Found at i:52028782 original size:15 final size:15
Alignment explanation
Indices: 52028759--52028796 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
52028749 AATGGATAAA
*
52028759 TTATCTAATTAATTT
1 TTATCTAATTAATAT
*
52028774 TTATTTAATTAATAT
1 TTATCTAATTAATAT
52028789 TTATCTAA
1 TTATCTAA
52028797 AAAAGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATCTAATTAATAT
Found at i:52029759 original size:3 final size:3
Alignment explanation
Indices: 52029751--52029811 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
52029741 AAACATAGCC
52029751 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
52029799 TAC TAT TAT TAT T
1 TAT TAT TAT TAT T
52029812 TAGCCAATCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:52038437 original size:28 final size:29
Alignment explanation
Indices: 52038406--52038476 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
52038396 AAAAGTTGGT
52038406 AAAAAAATATTTTGGGCCCCTTAA-AA-TC
1 AAAAAAATATTTT-GGCCCCTTAAGAACTC
* * *
52038434 AAAAAAAAATTATGGCCCCTTAAGAACTG
1 AAAAAAATATTTTGGCCCCTTAAGAACTC
52038463 AAAAATAATATTTT
1 AAAAA-AATATTTT
52038477 AGACTCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 10 0.29
28 13 0.37
29 6 0.17
30 6 0.17
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (29 bp):
AAAAAAATATTTTGGCCCCTTAAGAACTC
Found at i:52038920 original size:68 final size:68
Alignment explanation
Indices: 52038811--52038949 Score: 278
Period size: 68 Copynumber: 2.0 Consensus size: 68
52038801 CAATTTAATA
52038811 TTTCATTTTTCTAATAAAAAATCATAAGAAATTATTAATATTGTAAAATATTAAAAATTTATATA
1 TTTCATTTTTCTAATAAAAAATCATAAGAAATTATTAATATTGTAAAATATTAAAAATTTATATA
52038876 AAC
66 AAC
52038879 TTTCATTTTTCTAATAAAAAATCATAAGAAATTATTAATATTGTAAAATATTAAAAATTTATATA
1 TTTCATTTTTCTAATAAAAAATCATAAGAAATTATTAATATTGTAAAATATTAAAAATTTATATA
52038944 AAC
66 AAC
52038947 TTT
1 TTT
52038950 GCTTTAAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (68 bp):
TTTCATTTTTCTAATAAAAAATCATAAGAAATTATTAATATTGTAAAATATTAAAAATTTATATA
AAC
Found at i:52039013 original size:18 final size:17
Alignment explanation
Indices: 52038955--52039030 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 17
52038945 ACTTTGCTTT
52038955 AAAATTTATATAAGCTTATA
1 AAAATTTA-A-AA-CTTATA
*
52038975 AAAATATAAAACTTATAA
1 AAAATTTAAAACTTAT-A
52038993 AAAATTTAATATA-TTATA
1 AAAATTTAA-A-ACTTATA
* *
52039011 AAAATTAAAAAATTA-A
1 AAAATTTAAAACTTATA
52039027 AAAA
1 AAAA
52039031 CCAAACATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
16 6 0.12
17 9 0.18
18 20 0.41
19 6 0.12
20 8 0.16
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (17 bp):
AAAATTTAAAACTTATA
Found at i:52039074 original size:20 final size:19
Alignment explanation
Indices: 52038955--52039126 Score: 70
Period size: 20 Copynumber: 8.7 Consensus size: 19
52038945 ACTTTGCTTT
**
52038955 AAAATTTATATAAGCTTATA
1 AAAATTTATA-AAAATTATA
*
52038975 AAAA--TATAAAACTTATAA
1 AAAATTTATAAAAATTAT-A
* *
52038993 AAAATTTA-ATATATTATA
1 AAAATTTATAAAAATTATA
*
52039011 AAAA-TTA-AAAAATTAAAAA
1 AAAATTTATAAAAATT--ATA
** *
52039030 ACCAAACATATTAAAATATTTTA
1 A--AAATTTA-TAAAA-ATTATA
52039053 AAAATTTATAAAAACTTATA
1 AAAATTTATAAAAA-TTATA
*
52039073 AATATTT-TAAAAAATTATA
1 AAAATTTAT-AAAAATTATA
* *
52039092 AGAAATTCA-AGTAAATTATA
1 A-AAATTTATA-AAAATTATA
52039112 AATAATTTATAAAAA
1 AA-AATTTATAAAAA
52039127 ATAAAAAAGT
Statistics
Matches: 115, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
17 15 0.13
18 14 0.12
19 19 0.17
20 47 0.41
21 9 0.08
22 2 0.02
23 2 0.02
24 4 0.03
25 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTTATAAAAATTATA
Found at i:52039085 original size:19 final size:20
Alignment explanation
Indices: 52039041--52039128 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
52039031 CCAAACATAT
* *
52039041 TAAAATATTTTAAAAATTTA
1 TAAAAAATTATAAAAATTTA
* *
52039061 TAAAAACTTATAAATATTT-
1 TAAAAAATTATAAAAATTTA
*
52039080 TAAAAAATTATAAGAAATTCA
1 TAAAAAATTATAA-AAATTTA
**
52039101 -AGTAAATTATAAATAATTTA
1 TAAAAAATTATAAA-AATTTA
52039121 TAAAAAAT
1 TAAAAAAT
52039129 AAAAAAGTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
19 13 0.25
20 34 0.65
21 5 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAAATTATAAAAATTTA
Found at i:52039704 original size:10 final size:10
Alignment explanation
Indices: 52039661--52039832 Score: 91
Period size: 10 Copynumber: 17.2 Consensus size: 10
52039651 AATTCAAAAA
*
52039661 TTTTATAACT
1 TTTTATAATT
*
52039671 TTTTATAACT
1 TTTTATAATT
**
52039681 CATTATAATT
1 TTTTATAATT
52039691 TTTTATAATTT
1 TTTTATAA-TT
*
52039702 TTTTATGATTT
1 TTTTAT-AATT
* *
52039713 TTTTCTAA-G
1 TTTTATAATT
52039722 TTTTATAATT
1 TTTTATAATT
*
52039732 TTTCAT-ATT
1 TTTTATAATT
* *
52039741 TTTAATATTT
1 TTTTATAATT
52039751 TTATTAT-ATT
1 TT-TTATAATT
**
52039761 TTTTAGGATT
1 TTTTATAATT
* * *
52039771 TCTAATAAGT
1 TTTTATAATT
52039781 TTTTATAA-T
1 TTTTATAATT
* **
52039790 GTTCCTAATT
1 TTTTATAATT
*
52039800 TTTTATGATT
1 TTTTATAATT
**
52039810 TTTTATAAGC
1 TTTTATAATT
52039820 TTTTATAAATT
1 TTTTAT-AATT
52039831 TT
1 TT
52039833 ATTTATGTTT
Statistics
Matches: 118, Mismatches: 36, Indels: 15
0.70 0.21 0.09
Matches are distributed among these distances:
9 24 0.20
10 71 0.60
11 22 0.19
12 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:52039705 original size:11 final size:11
Alignment explanation
Indices: 52039683--52039734 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
52039673 TTATAACTCA
52039683 TTATAA-TTTT
1 TTATAATTTTT
52039693 TTATAATTTTT
1 TTATAATTTTT
*
52039704 TTATGATTTTT
1 TTATAATTTTT
* *
52039715 TTCTAA--GTT
1 TTATAATTTTT
52039724 TTATAATTTTT
1 TTATAATTTTT
52039735 CATATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 7 0.21
10 6 0.18
11 20 0.61
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:52039981 original size:17 final size:18
Alignment explanation
Indices: 52039949--52039984 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
52039939 GCATTTGTGC
52039949 TTTTTTATAAGTTTTTGTA
1 TTTTTTATAAG-TTTTGTA
52039968 TTTTTTATAA-TTTTGTA
1 TTTTTTATAAGTTTTGTA
52039985 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTTTATAAGTTTTGTA
Found at i:52040360 original size:9 final size:9
Alignment explanation
Indices: 52040343--52040436 Score: 104
Period size: 9 Copynumber: 10.4 Consensus size: 9
52040333 AGATTTTTAC
*
52040343 TTTTGTAAT
1 TTTTATAAT
52040352 TTTTATAAT
1 TTTTATAAT
52040361 TTTTATAAGT
1 TTTTATAA-T
*
52040371 TTATATAAT
1 TTTTATAAT
52040380 TTTTATAAT
1 TTTTATAAT
*
52040389 ATTTTATAAA
1 -TTTTATAAT
52040399 TTTTATAAAT
1 TTTTAT-AAT
52040409 TTTT-T-AT
1 TTTTATAAT
*
52040416 ATTTAT-AT
1 TTTTATAAT
52040424 TTTTATAAT
1 TTTTATAAT
52040433 TTTT
1 TTTT
52040437 TTCAATGATA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
7 5 0.07
8 8 0.11
9 38 0.52
10 22 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:52040380 original size:28 final size:26
Alignment explanation
Indices: 52040343--52040436 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 26
52040333 AGATTTTTAC
*
52040343 TTTTGTAATTTTTATAATTTTTATAA
1 TTTTATAATTTTTATAATTTTTATAA
52040369 GTTTATATAATTTTTATAATATTTTATAAA
1 -TTT-TATAATTTTTATAAT-TTTTAT-AA
* *
52040399 TTTTATAAATTTTT-T-ATATTTATAT
1 TTTTAT-AATTTTTATAATTTTTATAA
52040424 TTTTATAATTTTT
1 TTTTATAATTTTT
52040437 TTCAATGATA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
24 7 0.12
25 7 0.12
26 5 0.08
27 5 0.08
28 18 0.30
29 16 0.27
30 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTATAATTTTTATAATTTTTATAA
Found at i:52040412 original size:19 final size:18
Alignment explanation
Indices: 52040352--52040436 Score: 93
Period size: 19 Copynumber: 4.7 Consensus size: 18
52040342 CTTTTGTAAT
*
52040352 TTTTATAATTTTTATAAG
1 TTTTATAATTTTTATAAA
52040370 TTTATATAATTTTTATAATA
1 TTT-TATAATTTTTATAA-A
*
52040390 TTTTATAAATTTTATAAA
1 TTTTATAATTTTTATAAA
* * *
52040408 TTTT-TTATATTTAT-AT
1 TTTTATAATTTTTATAAA
52040424 TTTTATAATTTTT
1 TTTTATAATTTTT
52040437 TTCAATGATA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
16 5 0.09
17 13 0.23
18 8 0.14
19 27 0.48
20 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTATAAA
Found at i:52043132 original size:98 final size:98
Alignment explanation
Indices: 52043011--52043201 Score: 312
Period size: 98 Copynumber: 1.9 Consensus size: 98
52043001 AGAATAAAAC
*
52043011 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATCCCTT
1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
* *
52043076 TAGAATC-CTAAACTTGGAATATTTCCTTTACTT
66 TAGAATCTC-AAACTCGGAACATTTCCTTTACTT
* * *
52043109 TAAAAGAACTTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTT
1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
52043174 TAGAATCTCAAACTCGGAACATTTCCTT
66 TAGAATCTCAAACTCGGAACATTTCCTT
52043202 CATGATTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
98 85 0.99
99 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
TAGAATCTCAAACTCGGAACATTTCCTTTACTT
Found at i:52045459 original size:41 final size:40
Alignment explanation
Indices: 52045414--52045540 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 40
52045404 AATACCATCG
* * *
52045414 CATAGCCGAAGCTATTATAATCCCGCATACTAAGTGCCTTA
1 CATAGCCGAAGCTATT-CAATCCCGCACACTAAGTGCCATA
**
52045455 CATAGCCGAAGCTATCTCAATCTTGCACACTAAGTGCCATA
1 CATAGCCGAAGCTAT-TCAATCCCGCACACTAAGTGCCATA
* * *
52045496 TATAGCCGAAGCTATTCCCAAT--CGCACACTAAGTGCTAAA
1 CATAGCCGAAGCTATT--CAATCCCGCACACTAAGTGCCATA
52045536 CATAG
1 CATAG
52045541 TCGATTAATC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
40 20 0.27
41 48 0.66
42 5 0.07
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (40 bp):
CATAGCCGAAGCTATTCAATCCCGCACACTAAGTGCCATA
Found at i:52049180 original size:18 final size:18
Alignment explanation
Indices: 52049159--52049200 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
52049149 CAAGTTCAGC
52049159 TTCTGGCTCATCTTCACA
1 TTCTGGCTCATCTTCACA
* *
52049177 TTCTAGTTCATCTTCACA
1 TTCTGGCTCATCTTCACA
52049195 TTCTGG
1 TTCTGG
52049201 ATCTTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.43
Consensus pattern (18 bp):
TTCTGGCTCATCTTCACA
Found at i:52049400 original size:165 final size:165
Alignment explanation
Indices: 52049229--52049604 Score: 556
Period size: 165 Copynumber: 2.3 Consensus size: 165
52049219 TTCATTTAAA
* * *
52049229 GGTTCTAGCTC-TCCCGTAGATTCTAATAATTCTAAAGATTCCGGTTTAGGTCATGGGGATTCTA
1 GGTTCTAGCTCAT-CCGAAGATTCTAACAATTCTAAAGATTCCAGTTTAGGTCATGGGGATTCTA
* * *
52049293 GTTCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCTAAATCTTCTAAATCATTGTCA
65 GATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCCAAATCATTGTCA
*
52049358 CATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAG
130 CATTCTAGTTCATCTTCACATTATGGTTCTTGGAAG
* * *
52049394 GGTTCTAGCTCATTCGAAGATTCTAACAATTCTAAGGATTCTAGTTTAGGTCATGGGGATTCTAG
1 GGTTCTAGCTCATCCGAAGATTCTAACAATTCTAAAGATTCCAGTTTAGGTCATGGGGATTCTAG
** **
52049459 ATCCTCTGGAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCCAGCTCATTGTCAC
66 ATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCCAAATCATTGTCAC
52049524 ATTCTAGTTCATCTTCACATTATGGTTCTTGGAAG
131 ATTCTAGTTCATCTTCACATTATGGTTCTTGGAAG
* * * * * *
52049559 GGTTCTGGCTCATTCGGAGATTCTAACAAGTCTAAGGATTCTAGTT
1 GGTTCTAGCTCATCCGAAGATTCTAACAATTCTAAAGATTCCAGTT
52049605 CTGCTATGGC
Statistics
Matches: 193, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 192 0.99
166 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (165 bp):
GGTTCTAGCTCATCCGAAGATTCTAACAATTCTAAAGATTCCAGTTTAGGTCATGGGGATTCTAG
ATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCCAAATCATTGTCAC
ATTCTAGTTCATCTTCACATTATGGTTCTTGGAAG
Found at i:52049987 original size:18 final size:18
Alignment explanation
Indices: 52049966--52050028 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
52049956 CAGTTTCAGC
*
52049966 TTCAGGCTCATCTTCACA
1 TTCAGGTTCATCTTCACA
*
52049984 TTCAGGTTCATATTCACA
1 TTCAGGTTCATCTTCACA
*
52050002 TTCTA-GTTCTTCTTCACA
1 TTC-AGGTTCATCTTCACA
*
52050020 TTCAAGTTC
1 TTCAGGTTC
52050029 TTTTAAGCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 1 0.03
18 37 0.95
19 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (18 bp):
TTCAGGTTCATCTTCACA
Found at i:52050039 original size:18 final size:18
Alignment explanation
Indices: 52049976--52050047 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
52049966 TTCAGGCTCA
* * *
52049976 TCTTCACATTCAGGTTCA
1 TCTTAACATTCAAGTTCT
* * *
52049994 TATTCACATTCTAGTTCT
1 TCTTAACATTCAAGTTCT
*
52050012 TCTTCACATTCAAGTTCT
1 TCTTAACATTCAAGTTCT
*
52050030 T-TTAAGCATTCAAATTCT
1 TCTTAA-CATTCAAGTTCT
52050048 GGTTCTTCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
17 3 0.07
18 42 0.93
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (18 bp):
TCTTAACATTCAAGTTCT
Found at i:52050599 original size:192 final size:193
Alignment explanation
Indices: 52050238--52051242 Score: 991
Period size: 192 Copynumber: 5.0 Consensus size: 193
52050228 TCAAGTTCAA
* * * * * *
52050238 CTTCTGGATCATCCTCAAAATCTAGTTTATCTTCAG-ATTCCGGTTCTAGTGCTACTAACTCATC
1 CTTCTGGCTCATCCTCAAATTCCAGTTCATCTTCAGCATTCTGGTTCTAGTGCTGCTAACTCATC
* **
52050302 CACAAACTCGGGTTCCAACAATTCTAAGGATTCTGATTCTACTACAACTTCTCAGTCTTCATTAA
66 CACAAACTCAGGTTCCAACAATTCTAAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTAA
* *
52050367 ATCATAAGGCTTCTAATTCCTCTGCAAGTTCT-AGTTCTTTATCAGGTTCTAGCAATTATAAGG
131 ATCATGAGGCTTCTAATTCCTCTACAAGTTCTGA-TTCTTTATCAGGTTCTAGCAATTATAAGG
* * *
52050430 TTTCTGGCTTATCCGCAAATTCCAGTTCATCTTCA-CATTCTGGTTCTAGTGCTGCTAACTCATC
1 CTTCTGGCTCATCCTCAAATTCCAGTTCATCTTCAGCATTCTGGTTCTAGTGCTGCTAACTCATC
* * * *
52050494 CATAAACTCAGGTTCTAACCATTCTAAGGATTCTGATTCTACAACGGCTTCTCAGTCTTCATTAA
66 CACAAACTCAGGTTCCAACAATTCTAAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTAA
* * * ** * *
52050559 ATCATGGGGCTTCTAGTTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAATAGTTCTAAGG
131 ATCATGAGGCTTCTAATTCCTCTACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAGG
* * * * * * * * *
52050622 CTTTTGGCTCATCTTCAGACTCCAGTTC-TTTTAAGCATTCTGGTTCTGGTGCTTCTAACTCTTC
1 CTTCTGGCTCATCCTCAAATTCCAGTTCATCTTCAGCATTCTGGTTCTAGTGCTGCTAACTCATC
* * * *
52050686 CACAAACAT-AGGTTCCAACAATTCTAATGATTCTGTTTCTACTGCGGCTTCTCAGTCTACATTA
66 CACAAAC-TCAGGTTCCAACAATTCTAAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTA
* * *
52050750 AATCATGGGGCTTCTAATTCCTCTTCAAGTTCTGGTTCTTTATCAGGTTCTAGCAATTATAAGG
130 AATCATGAGGCTTCTAATTCCTCTACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAGG
* * * *
52050814 CTTATGGGTCATCCTCAAATTCTATTTCATCTTC-GCATTCTGGTTCTTTTAATCATTTTGGTTC
1 CTTCTGGCTCATCCTCAAATTCCAGTTCATCTTCAGCATTCTGGTTC------T-A-----G---
* * * *
52050878 TATTGCTGGTAACTCCTCCACAAACTCAGGTTCCAACAGTTCTAAGGGTTCTGATTCTACTACGG
51 ---TGCTGCTAACTCATCCACAAACTCAGGTTCCAACAATTCTAAGGATTCTGATTCTACTACGG
* * * *
52050943 CTTCTCAGTCTTCATTAAACCATAAGGCTTCTAATTCCTCTGCAAGTTCTGGTTCTTTATCAGGT
113 CTTCTCAGTCTTCATTAAATCATGAGGCTTCTAATTCCTCTACAAGTTCTGATTCTTTATCAGGT
*
52051008 TCTAGAAATTATAAGG
178 TCTAGCAATTATAAGG
* *
52051024 CTTCAGGCTCATCCTCAAATTCTAGTTTATCTTCACATTCTGGTTCTTTTAAGCATTCTGGTTCT
1 CTTCTGGCTCATCCTCAAATTCCAG------TT--CA-TC---TTC-----AGCATTCTGGTTCT
* * ** *
52051089 AGTGCTGCTAACTCATCCACAAATTCTGGTTTGAACAATTCTAAGGATTCT-AGTCCTACTACGG
49 AGTGCTGCTAACTCATCCACAAACTCAGGTTCCAACAATTCTAAGGATTCTGA-TTCTACTACGG
* ** * *
52051153 CTTCTAAGTCTTCATTAGAA-CATGAGGCTTCTGGTTCCTCTACAAGTTCTGCTTCTTTGTCAGG
113 CTTCTCAGTCTTCATTA-AATCATGAGGCTTCTAATTCCTCTACAAGTTCTGATTCTTTATCAGG
* *
52051217 TTCTAGTAATTCTAAGG
177 TTCTAGCAATTATAAGG
52051234 CTTCTGGCT
1 CTTCTGGCT
52051243 TTTCATCACA
Statistics
Matches: 669, Mismatches: 100, Indels: 70
0.80 0.12 0.08
Matches are distributed among these distances:
191 4 0.01
192 354 0.53
193 5 0.01
198 1 0.00
204 1 0.00
209 2 0.00
210 276 0.41
211 2 0.00
216 3 0.00
218 2 0.00
219 2 0.00
221 1 0.00
222 4 0.01
228 12 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (193 bp):
CTTCTGGCTCATCCTCAAATTCCAGTTCATCTTCAGCATTCTGGTTCTAGTGCTGCTAACTCATC
CACAAACTCAGGTTCCAACAATTCTAAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTAA
ATCATGAGGCTTCTAATTCCTCTACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAGG
Found at i:52050992 original size:210 final size:209
Alignment explanation
Indices: 52050646--52051242 Score: 797
Period size: 210 Copynumber: 2.8 Consensus size: 209
52050636 TCAGACTCCA
* * *
52050646 GTTCTTTTAAGCATTCTGGTTCTGGTGCTTCTAACTCTTCCACAAACAT-AGGTTCCAACAATTC
1 GTTCTTTTAAGCATTCTGGTTCTAGTGCTGCTAACTCATCCACAAAC-TCAGGTTCCAACAATTC
* * * * * *
52050710 TAATGATTCTGTTTCTACTGCGGCTTCTCAGTCTACATTAAATCATGGGGCTTCTAATTCCTCTT
65 TAAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTAAA-CATGAGGCTTCTAATTCCTCTA
* *
52050775 CAAGTTCTGGTTCTTTATCAGGTTCTAGCAATTATAAGGCTT-ATGGGTCATCCTCAAATTCTA-
129 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCA-GGCTCATCCTCAAATTCTAG
*
52050838 TTTCATCTTCGCATTCTG
193 TTT-ATCTTCACATTCTG
* * * * * *
52050856 GTTCTTTTAATCATTTTGGTTCTATTGCTGGTAACTCCTCCACAAACTCAGGTTCCAACAGTTCT
1 GTTCTTTTAAGCATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACTCAGGTTCCAACAATTCT
* * *
52050921 AAGGGTTCTGATTCTACTACGGCTTCTCAGTCTTCATTAAACCATAAGGCTTCTAATTCCTCTGC
66 AAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTAAA-CATGAGGCTTCTAATTCCTCTAC
52050986 AAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCAGGCTCATCCTCAAATTCTAGTT
130 AAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCAGGCTCATCCTCAAATTCTAGTT
52051051 TATCTTCACATTCTG
195 TATCTTCACATTCTG
* * **
52051066 GTTCTTTTAAGCATTCTGGTTCTAGTGCTGCTAACTCATCCACAAATTCTGGTTTGAACAATTCT
1 GTTCTTTTAAGCATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACTCAGGTTCCAACAATTCT
* * **
52051131 AAGGATTCT-AGTCCTACTACGGCTTCTAAGTCTTCATTAGAACATGAGGCTTCTGGTTCCTCTA
66 AAGGATTCTGA-TTCTACTACGGCTTCTCAGTCTTCATTA-AACATGAGGCTTCTAATTCCTCTA
* * * * *
52051195 CAAGTTCTGCTTCTTTGTCAGGTTCTAGTAATTCTAAGGCTTCTGGCT
129 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCAGGCT
52051243 TTTCATCACA
Statistics
Matches: 340, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
209 2 0.01
210 332 0.98
211 6 0.02
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (209 bp):
GTTCTTTTAAGCATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACTCAGGTTCCAACAATTCT
AAGGATTCTGATTCTACTACGGCTTCTCAGTCTTCATTAAACATGAGGCTTCTAATTCCTCTACA
AGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCAGGCTCATCCTCAAATTCTAGTTT
ATCTTCACATTCTG
Found at i:52051349 original size:18 final size:18
Alignment explanation
Indices: 52051305--52051354 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
52051295 CTTCTCTTTG
* *
52051305 TCACATTCAAGTTCAGCT
1 TCACATTCTAGTTCAGAT
*
52051323 TCACATTCTAGTTCATAT
1 TCACATTCTAGTTCAGAT
*
52051341 TCACATTCTGGTTC
1 TCACATTCTAGTTC
52051355 CTTTGAGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (18 bp):
TCACATTCTAGTTCAGAT
Found at i:52052142 original size:18 final size:18
Alignment explanation
Indices: 52052119--52052154 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52052109 AAAGGATTCG
52052119 GTTCTGACAATTCTCAAA
1 GTTCTGACAATTCTCAAA
**
52052137 GTTCTGACTTTTCTCAAA
1 GTTCTGACAATTCTCAAA
52052155 CTTCACAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
GTTCTGACAATTCTCAAA
Found at i:52055335 original size:899 final size:898
Alignment explanation
Indices: 52052829--52057181 Score: 7716
Period size: 899 Copynumber: 4.8 Consensus size: 898
52052819 ATGGATATTC
* * * *
52052829 TAAAGCATCAAGCTCCTCATCAGGTTCAACTATTTTTGGTTATTTTATGATGTTGGGTTTTTTAT
1 TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGG-TTTTTAT
*
52052894 AAGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTAATAGGTTCTGAA
65 AAGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTATTAGGTTCTGAA
* *
52052959 GGATATAAGTCTTCTACGAGTGACTCTTCAGGTCTGGATTCCCTATCATTTTCTATTATTTCATC
130 GGATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATC
* * * *
52053024 CATTTGACATGCTTATACATACTTTATAATCAAGTTCTAGAAATTTTATGGGTCGTGACTTATCT
195 CATTTGACATGCTTATACATACTTTATAATCAAGTTCTGGAAATTTT-TGGGTCTTGACATAGCT
* *
52053089 ATCTATTCTTTATCAGTTTCTGGTATTTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCAT
259 ATCTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCAT
* * *
52053154 GGGTACCAATGCTTCAGCGACTAACGGTCCTACGACTTTTATTCCTACTAGCCCTTCCACAGGTG
324 GGGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTG
* *
52053219 CTGGACCTACTAAAACTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATGATGTTG
389 CTGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTG
* * *
52053284 AGTTCTTAATAATATTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTATT
454 AGTTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGA-ATTTTATT
* *
52053349 AGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATTTTCTATCTTTTTCGT
518 AGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGT
*
52053414 ATTATTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCT
583 ATTATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCT
*
52053479 ACTTCTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCAC
648 ACTTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCAC
52053544 AGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAG
713 AGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAG
52053609 GCGTTAGTTCTTTCACAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCT
778 GCGTTAGTTCTTTCACAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCT
52053674 CACTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
843 CACTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
* *
52053730 TAAAGCTTCAGGCTCCTCATCAGGTTCAGCCATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
1 TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
* * *
52053795 AGGTTTTAATGATGTTAAAGTTTTTAGCATTTATATGAATTTTGACTTTTTATTAGGTTCTGAAG
66 AGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTATTAGGTTCTGAAG
* *
52053860 GATATAAGTCCTCTACGAGTGATTCTCCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATCC
131 GATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATCC
*
52053925 ATTTGACATGCTTATACATACTTTATAATCAAGTTCTGGAAATTTTTGGGTCTTGACATAGATAT
196 ATTTGACATGCTTATACATACTTTATAATCAAGTTCTGGAAATTTTTGGGTCTTGACATAGCTAT
52053990 CTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATGG
261 CTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATGG
* *
52054055 GTACCGATGCTTCAGCGACTAATGGTTCGACGACTTTTATTCCTACGAGCCCTTCCACAGGTGCT
326 GTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTGCT
52054120 GGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTGAG
391 GGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTGAG
*
52054185 TTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAGTGTTGAATTTTATTAGG
456 TTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGAATTTTATTAGG
52054250 TTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGTATT
521 TTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGTATT
52054315 ATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTACT
586 ATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTACT
52054380 TGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAGG
651 TGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAGG
52054445 CACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAGGCG
716 CACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAGGCG
* *
52054510 TTAATTCTTTCACAACTAATAACCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCTCAC
781 TTAGTTCTTTCACAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCTCAC
52054575 TCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
846 TCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
* *
52054628 TAAAGCTTCAGGCTCTTCATCAGGTTCAACAATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
1 TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
*
52054693 AGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAAATTTGACTTTTTATTAGGTTCTGAAG
66 AGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTATTAGGTTCTGAAG
*
52054758 GATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCTCTATCATTTTCTATTATTTCATCC
131 GATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATCC
*
52054823 ATTTGACATGCTGATACATACTTTATAATCAAGTTCTGGAAAATTTTTGGGTCTTGACATAGCTA
196 ATTTGACATGCTTATACATACTTTATAATCAAGTTCTGG-AAATTTTTGGGTCTTGACATAGCTA
52054888 TCTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATG
260 TCTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATG
52054953 GGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTGC
325 GGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTGC
52055018 TGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTGA
390 TGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTGA
52055083 GTTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGAATTTTATTAG
455 GTTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGAATTTTATTAG
52055148 GTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGTAT
520 GTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGTAT
52055213 TATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTAC
585 TATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTAC
52055278 TTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAG
650 TTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAG
52055343 GCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAGGC
715 GCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAGGC
*
52055408 GTTAGTTCTTTCACAACTAATAGCCATACGGGATCTGGTCATACAAGTTCAAGCAATTTTGCTCA
780 GTTAGTTCTTTCACAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCTCA
52055473 CTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
845 CTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
52055527 TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
1 TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
* *
52055592 AGGTTATAATGATTTTAAAGTTTTTAGCATTTATATGAAATTTGACTTTTTATTAGGTTCTGAAG
66 AGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTATTAGGTTCTGAAG
*
52055657 GATATAAATCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATCC
131 GATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATCC
*
52055722 ATTTGACATGCTGATACATACTTTATAATCAAGTTCTGGAAAATTTTTGGGTCTTGACATAGCTA
196 ATTTGACATGCTTATACATACTTTATAATCAAGTTCTGG-AAATTTTTGGGTCTTGACATAGCTA
*
52055787 TCTATTATTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATG
260 TCTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATG
*
52055852 GGTACCGATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTGC
325 GGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTGC
*
52055917 TGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTAA
390 TGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTGA
52055982 GTTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGAATTTTATTAG
455 GTTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGAATTTTATTAG
* *
52056047 GTTCTGACGGATCTAAGTCTTCTACAAGTAACCCATCAGGTTCAAATTTTCTATCTTTTTTGTAT
520 GTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGTAT
52056112 TATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTAC
585 TATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTAC
52056177 TTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAG
650 TTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAG
* * * *
52056242 GCACTAGTACTTCAGTGACAAACGGTCCTACAGCTTCTACCCCTTCTTCGAGTCCTTCCACAGGT
715 GCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAGGC
* *
52056307 GTTAGTTCTTTCACAACTAATAGCCATAAAGGATCTGATCATACAAGTTCAAGCAATTTTGCTCA
780 GTTAGTTCTTTCACAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCTCA
* * * * *
52056372 CTCTGGATCATTTACAGATTCTGGTCACTCTTCTGCAAGTCATAGTTCTGGTTT
845 CTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
* * * * * *
52056426 TAAAGCTTCAGGCTTCTCGTCAGGTTCAACTACTTTTGGCTATTTTATGATGTTGGGTTTTTTAT
1 TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGG-TTTTTAT
* * *
52056491 AAGGTTATAACGATTCTAAAGTTTTTAACATTTATATGACTTTTGACTTTTTATTAGGTTCTGAA
65 AAGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTATTAGGTTCTGAA
* * * * *
52056556 GGATCTAAGTCTTCTACAAGTGACTCTTCAGGTTTGGATTCCATATCATTTTCTTTTATTTCATC
130 GGATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATC
* * * * * *
52056621 CATTTAACATGCTTATACATACTTTATAATAAAGTTCTAGAAATTTTATGGGTCGTGACTTATCT
195 CATTTGACATGCTTATACATACTTTATAATCAAGTTCTGGAAATTTT-TGGGTCTTGACATAGCT
* *
52056686 ATCTATTCTTTATCAGTTTCTGGTATTTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCAT
259 ATCTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCAT
* * *
52056751 GGGTACCAATGCTTCAGCGACTAACGGTCCTACGACTTTTATTCCTACTAGCCCTTCCACAGGTG
324 GGGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTG
* *
52056816 CTGGACCTACTAAAACTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATGATGTTG
389 CTGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTG
* *
52056881 AGTTCTTAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTATT
454 AGTTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGA-ATTTTATT
* *
52056946 AGGTTCTGAAGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATATTCTATCTTTTTTGT
518 AGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGT
* * * * *
52057011 ATTACTTTATTTATTTAACATGCTTTTACATATTCTATATTAATTTTGTGGGTTTTGACTTGTCT
583 ATTATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCT
*
52057076 ACTTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAGATACGGGTGCTTCCAC
648 ACTTGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCAC
*
52057141 AGGCACTAGTACTTCAATGACAAATGGTCCTACAGCTTCTA
713 AGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTA
52057182 GTCACTCTTC
Statistics
Matches: 3323, Mismatches: 125, Indels: 8
0.96 0.04 0.00
Matches are distributed among these distances:
898 605 0.18
899 1844 0.55
900 591 0.18
901 283 0.09
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (898 bp):
TAAAGCTTCAGGCTCCTCATCAGGTTCAACTATTTTTTGTTATTTTATGATTTTGGGTTTTTATA
AGGTTATAATGATTTTAAAGTTTTTAACATTTATATGAATTTTGACTTTTTATTAGGTTCTGAAG
GATATAAGTCTTCTACGAGTGATTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATCC
ATTTGACATGCTTATACATACTTTATAATCAAGTTCTGGAAATTTTTGGGTCTTGACATAGCTAT
CTATTCTTTATCAGTGTCTGGTAATTCTAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCATGG
GTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTGCT
GGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGTTGAG
TTCTGAATAATGTTATAATGATTCTAAGGTTTTTAACCATTATATGAATGTTGAATTTTATTAGG
TTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATCTTCTATCTTTTTTGTATT
ATTTTATCTATTTAACATGCTTGTACATATTTTATAATAATTTTGTGGGTTTTGACTTGTCTACT
TGTTGTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAAATACGGGTGCTTCCACAGG
CACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCGAGCCCTTCCACAGGCG
TTAGTTCTTTCACAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTTGCTCAC
TCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTATGGTTT
Found at i:52057949 original size:18 final size:18
Alignment explanation
Indices: 52057926--52057967 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
52057916 ACAAAATCTA
52057926 GTTCTTCCACACACACCG
1 GTTCTTCCACACACACCG
** *
52057944 GTTCTTCCAGTCACACTG
1 GTTCTTCCACACACACCG
52057962 GTTCTT
1 GTTCTT
52057968 TGACAACCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.36, G:0.14, T:0.33
Consensus pattern (18 bp):
GTTCTTCCACACACACCG
Found at i:52058017 original size:198 final size:198
Alignment explanation
Indices: 52057780--52058248 Score: 683
Period size: 198 Copynumber: 2.4 Consensus size: 198
52057770 GCAATAGTTT
* * * * *
52057780 TGGTTCCAAAACTTCAAGCTCTTCCACGAACATTGGTTCTGCTACGACTGATGGCCATACAGCTA
1 TGGTTCCAAAACTTCAGGCTCTTCCACAAACACTGGTTCTGCTACGACTGATGGCCATGCAACTA
* * *
52057845 CCGGTTCTACTTTGAGCGC-CTCTTCAGGTTTTAGTTCTCATAAGACTAATAGTCACATGACTTC
66 CTGGTTCTACTTTAAGC-CACTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTC
* * * * ** *
52057909 TAGTCATACAAAATCTA-GTTCTTCCACACACACCGGTTCTTCCAGTCACACTGGTTCTTTGACA
130 CAGTCATACAAAATC-AGGCTCTTCCACACACACAGGTTCATCCAAACACACTGGTTCTTTCACA
*
52057973 ACCTC
194 ACATC
52057978 TGGTTCCAAAACTTCAGGCTCTTCCACAAACACTGGTTCTGCTACGACTGATGG-CAGTGCAACT
1 TGGTTCCAAAACTTCAGGCTCTTCCACAAACACTGGTTCTGCTACGACTGATGGCCA-TGCAACT
* *
52058042 ACTGGTTCTATTTTAAGCCACTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGAGTTC
65 ACTGGTTCTACTTTAAGCCACTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTC
* *
52058107 CGGTCATACAAAATCAGGCTCTTCTACACACACAGGTTCATCCAAACACACTGGTTCTTTCACAA
130 CAGTCATACAAAATCAGGCTCTTCCACACACACAGGTTCATCCAAACACACTGGTTCTTTCACAA
52058172 CATC
195 CATC
* * *
52058176 TGGTTCCAAAACTTCAGGCTCTTCCACAAGCACTGGTTCTACTACGACTAATGGCCATGCAACTA
1 TGGTTCCAAAACTTCAGGCTCTTCCACAAACACTGGTTCTGCTACGACTGATGGCCATGCAACTA
52058241 CTGGTTCT
66 CTGGTTCT
52058249 GCTACGATTG
Statistics
Matches: 244, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
197 4 0.02
198 238 0.98
199 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (198 bp):
TGGTTCCAAAACTTCAGGCTCTTCCACAAACACTGGTTCTGCTACGACTGATGGCCATGCAACTA
CTGGTTCTACTTTAAGCCACTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTCC
AGTCATACAAAATCAGGCTCTTCCACACACACAGGTTCATCCAAACACACTGGTTCTTTCACAAC
ATC
Found at i:52058244 original size:33 final size:33
Alignment explanation
Indices: 52058207--52058282 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
52058197 TTCCACAAGC
*
52058207 ACTGGTTCTACTACGACTAATGGCCATGCAACT
1 ACTGGTTCTACTACGACTAATGGCCATGAAACT
* * *
52058240 ACTGGTTCTGCTACGATTGATGGCCATGAAACT
1 ACTGGTTCTACTACGACTAATGGCCATGAAACT
*
52058273 ACTAGTTCTA
1 ACTGGTTCTA
52058283 TTTCAAGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (33 bp):
ACTGGTTCTACTACGACTAATGGCCATGAAACT
Found at i:52058718 original size:198 final size:198
Alignment explanation
Indices: 52058391--52058761 Score: 625
Period size: 198 Copynumber: 1.9 Consensus size: 198
52058381 TCTTCCAATC
52058391 ACACTGGTTCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
1 ACACTGGTTCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
* *
52058456 TCTAGTTCTCATAAGACTAACAGTCACACGACATCTGCTCATACAAAATCTGGCTCTTCTACACA
66 TCTACTTCTCATAAGACTAACAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
*
52058521 CACAGGTTCCTCCAAACACACAGGTTCTTTCAAAACCTCTGGTTCTAAAATTTCAGGCTCTTCCA
131 CACAGGTTCCTCCAAACACACAGGCTCTTTCAAAACCTCTGGTTCTAAAATTTCAGGCTCTTCCA
52058586 CAA
196 CAA
* * *
52058589 ACACTGGTTCTGCTACGACTGGTGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCTGGT
1 ACACTGGTTCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
* * *
52058654 TCTACTTCTCATAAGAGTAATAGTCACACGACTTCTACTCATACAAAATCTGGCTCTTCTACACA
66 TCTACTTCTCATAAGACTAACAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
* * * *
52058719 CACAGGTTCTTCCAAACACACTGGCTCTTTTACAACCTCTGGT
131 CACAGGTTCCTCCAAACACACAGGCTCTTTCAAAACCTCTGGT
52058762 CACTCTTCCA
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
198 160 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (198 bp):
ACACTGGTTCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
TCTACTTCTCATAAGACTAACAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
CACAGGTTCCTCCAAACACACAGGCTCTTTCAAAACCTCTGGTTCTAAAATTTCAGGCTCTTCCA
CAA
Found at i:52058747 original size:18 final size:18
Alignment explanation
Indices: 52058703--52058747 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
52058693 CATACAAAAT
* *
52058703 CTGGCTCTTCTACACACA
1 CTGGCTCTTCCAAACACA
* *
52058721 CAGGTTCTTCCAAACACA
1 CTGGCTCTTCCAAACACA
52058739 CTGGCTCTT
1 CTGGCTCTT
52058748 TTACAACCTC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (18 bp):
CTGGCTCTTCCAAACACA
Done.