Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 238 of 290
Found at i:82277050 original size:23 final size:23
Alignment explanation
Indices: 82277023--82277156 Score: 152
Period size: 23 Copynumber: 6.0 Consensus size: 23
82277013 GCTATGCCGA
82277023 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
82277046 TCAGGCACTTTATGTGTCGTATAT
1 TCAGGCACTTTATGTGTCGTAT-T
* *
82277070 T-AGGCACTTTTTGTGTCATATT
1 TCAGGCACTTTATGTGTCGTATT
* *
82277092 TCAGGCACCTCATGTGTCGTATAT
1 TCAGGCACTTTATGTGTCGTAT-T
* **
82277116 T-AGGCACCTCGTGTGTCGTA--
1 TCAGGCACTTTATGTGTCGTATT
82277136 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
82277157 ACTGATCAGG
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.11
21 6 0.06
22 2 0.02
23 74 0.76
24 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:82277078 original size:46 final size:45
Alignment explanation
Indices: 82277025--82277157 Score: 180
Period size: 46 Copynumber: 3.0 Consensus size: 45
82277015 TATGCCGATC
82277025 AGGCACTTTATGTGTCGTATTTCAGGCACTTTATGTGTCGTATATT
1 AGGCACTTTATGTGTCGTATTTCAGGCAC-TTATGTGTCGTATATT
* * *
82277071 AGGCACTTTTTGTGTCATATTTCAGGCACCTCATGTGTCGTATATT
1 AGGCACTTTATGTGTCGTATTTCAGGCA-CTTATGTGTCGTATATT
* **
82277117 AGGCACCTCGTGTGTCGTA--TCAGGCACTTATGTGTCGTATA
1 AGGCACTTTATGTGTCGTATTTCAGGCACTTATGTGTCGTATA
82277158 CTGATCAGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
43 14 0.18
44 7 0.09
46 56 0.72
47 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (45 bp):
AGGCACTTTATGTGTCGTATTTCAGGCACTTATGTGTCGTATATT
Found at i:82280449 original size:41 final size:41
Alignment explanation
Indices: 82280404--82280486 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
82280394 GTGAATATAT
82280404 AGTTAATGTTATTTAAGCGTGTTATATACATTAAGGATTTG
1 AGTTAATGTTATTTAAGCGTGTTATATACATTAAGGATTTG
*
82280445 AGTTAATGTTATTTAAGCGTGTTATATACATTGAGGATTTG
1 AGTTAATGTTATTTAAGCGTGTTATATACATTAAGGATTTG
82280486 A
1 A
82280487 AATGGAGAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.43
Consensus pattern (41 bp):
AGTTAATGTTATTTAAGCGTGTTATATACATTAAGGATTTG
Found at i:82280764 original size:23 final size:25
Alignment explanation
Indices: 82280728--82280777 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
82280718 AATTTGAATT
*
82280728 ATGAACATGAGAAATGATGAATTGA
1 ATGAACATGAGAAATGAAGAATTGA
*
82280753 ATGAA-ATG-GAAATGAAGCATTGA
1 ATGAACATGAGAAATGAAGAATTGA
82280776 AT
1 AT
82280778 TGTTAAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 3 0.13
25 5 0.22
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (25 bp):
ATGAACATGAGAAATGAAGAATTGA
Found at i:82281850 original size:20 final size:21
Alignment explanation
Indices: 82281816--82281855 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
82281806 ATCAAGGATC
*
82281816 CCAATAGCTAGAAAC-TCCCT
1 CCAATAGCTACAAACGTCCCT
*
82281836 CCAATAGCTCCAAACGTCCC
1 CCAATAGCTACAAACGTCCC
82281856 AAAATCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.40, G:0.10, T:0.17
Consensus pattern (21 bp):
CCAATAGCTACAAACGTCCCT
Found at i:82286581 original size:18 final size:18
Alignment explanation
Indices: 82286558--82286615 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
82286548 ATTTAAGCCA
82286558 ATTTAAAATTTAAAAATT
1 ATTTAAAATTTAAAAATT
82286576 ATTTAAAATTATAAAAAAGTT
1 ATTTAAAATT-T-AAAAA-TT
**
82286597 ATAAAAAATTT-AAAATT
1 ATTTAAAATTTAAAAATT
82286614 AT
1 AT
82286616 AAATTTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 4 0.11
18 14 0.40
19 1 0.03
20 6 0.17
21 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTTAAAATTTAAAAATT
Found at i:82286598 original size:11 final size:10
Alignment explanation
Indices: 82286569--82286611 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
82286559 TTTAAAATTT
*
82286569 AAAAATTATT
1 AAAAATTATA
*
82286579 TAAAATTATA
1 AAAAATTATA
82286589 AAAAAGTTATA
1 AAAAA-TTATA
82286600 AAAAATT-TA
1 AAAAATTATA
82286609 AAA
1 AAA
82286612 TTATAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 5 0.17
10 14 0.48
11 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:82286743 original size:11 final size:11
Alignment explanation
Indices: 82286721--82286764 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
82286711 TATTTTATAA
82286721 TTTTA-AAA-T
1 TTTTAGAAATT
*
82286730 TTTTATAAATT
1 TTTTAGAAATT
*
82286741 TTTTAGAATTT
1 TTTTAGAAATT
82286752 TTTTAGAAATT
1 TTTTAGAAATT
82286763 TT
1 TT
82286765 ATGACTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 22 0.73
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (11 bp):
TTTTAGAAATT
Found at i:82307966 original size:26 final size:25
Alignment explanation
Indices: 82307930--82307980 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
82307920 TCCACTACTA
*
82307930 ATCCCCTTATTACACAACTCTTTCC
1 ATCCCCCTATTACACAACTCTTTCC
82307955 NATCCCCCTATTACACAACTCTTTCC
1 -ATCCCCCTATTACACAACTCTTTCC
82307981 CGAAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.33
Consensus pattern (25 bp):
ATCCCCCTATTACACAACTCTTTCC
Found at i:82317292 original size:17 final size:17
Alignment explanation
Indices: 82317270--82317304 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
82317260 GAGTATAGTA
82317270 AAATATTAAAAAAAAAG
1 AAATATTAAAAAAAAAG
* *
82317287 AAATATTCAGAAAAAAG
1 AAATATTAAAAAAAAAG
82317304 A
1 A
82317305 GAGACACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (17 bp):
AAATATTAAAAAAAAAG
Found at i:82319663 original size:12 final size:12
Alignment explanation
Indices: 82319648--82319689 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
82319638 GAACATAGAG
*
82319648 ATAATGATAGTA
1 ATAATGATAATA
82319660 ATAATGATAATA
1 ATAATGATAATA
82319672 TATAAT-ATAATA
1 -ATAATGATAATA
82319684 ATAATG
1 ATAATG
82319690 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:82321314 original size:132 final size:131
Alignment explanation
Indices: 82321151--82323375 Score: 3201
Period size: 132 Copynumber: 16.9 Consensus size: 131
82321141 CAATACATGA
*** * * *
82321151 AGACAAGATCTGCTTTCTTCAATCGATTCCACTACTGA-CCAGGG-AGATAGAATTACTGGCTCC
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCT-ACCCAGGGAAG-TAGAATTACTGGCTTC
* * * *
82321214 AATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
64 AATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTT
82321279 AGGG
128 AGGG
* * * *
82321283 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCA
* ** *
82321347 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGTTTA
65 ATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTA
82321412 GGG
129 GGG
* * * * *
82321415 AGGCAATATATGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
* *
82321480 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTAG
82321545 GG
130 GG
* * *
82321547 AGATAAGATCTG---TCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
82321609 TGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTAG
82321674 GG
130 GG
* * * *
82321676 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCA
* * *
82321740 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTA
82321805 GGG
129 GGG
* * * * *
82321808 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAACTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCA
* * *
82321872 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTA
82321937 GGG
129 GGG
* * * * *
82321940 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAACTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCA
* * *
82322004 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTA
82322069 GGG
129 GGG
* * * *
82322072 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCA
82322136 ATGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTT
65 ATGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTT
82322200 AGGG
128 AGGG
** *
82322204 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
82322269 TGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTA
82322333 GGG
129 GGG
** *
82322336 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
82322401 TGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTA
82322465 GGG
129 GGG
** *
82322468 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
82322533 TGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTA
82322597 GGG
129 GGG
** *
82322600 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
82322665 TGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTA
82322729 GGG
129 GGG
** *
82322732 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
82322797 TGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTTA
82322861 GGG
129 GGG
** *
82322864 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
* *
82322929 TGTACTCCACTGTAACCAT-AGGGAGGTAAAATTTGCCATCTCTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACC-TCAGGGAGGTAAAA-TTACCATCTTTGATCTGCTCCACTACTGCTTA
82322993 GGG
129 GGG
** *
82322996 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
82323061 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTCTGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TACCATCTTTGATCTGCTCCACTACTGCTTAG
82323126 GG
130 GG
**
82323128 AGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCA
82323192 ATGTACTCCACTGTAACCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTT
65 ATGTACTCCACTGTAACC-TCAGGGAGGTAAAATT-ACCATCTTTGATCTGCTCCACTACTGCTT
82323256 AGGG
128 AGGG
* *
82323260 AGACAAGATATGAAATCTTCAATCTATTCCACTACTACCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
82323325 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTAATCTGCT
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAATT-ACCATCTTTGATCTGCT
82323376 TCGTTGTCTA
Statistics
Matches: 2015, Mismatches: 61, Indels: 34
0.95 0.03 0.02
Matches are distributed among these distances:
129 126 0.06
131 6 0.00
132 1874 0.93
133 9 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (131 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCTCAGGGAGGTAAAATTACCATCTTTGATCTGCTCCACTACTGCTTAGG
G
Found at i:82321694 original size:44 final size:44
Alignment explanation
Indices: 82321232--82322120 Score: 289
Period size: 44 Copynumber: 20.3 Consensus size: 44
82321222 CCGCTGCAAC
* * ** ** * *
82321232 CTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * *
82321276 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * * * *
82321320 CCCAGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAAC
1 CTCAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT--G
* * * * ** ** * *
82321364 CACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * ** * * * *
82321408 TTTAGGGAGGCAATATATGAAATCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * * * *
82321452 CCCAGGGA-AGT-AGA-AT-TATTGGCTTCAATGTACTCCACTG-TAAC
1 CTCAGGGAGA-TAAGATCTGTAAT--CTTCAATCTACTCCACTGCT--G
* * **** * * *
82321496 CTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* *
82321540 CTTAGGGAGATAAGATCTG---TCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * * * * **
82321581 CCCAAGGA-AGT-AGA-AT-TACTGGCTTCAATGTACTCCACTGCAAC
1 CTCAGGGAGA-TAAGATCTGTAAT--CTTCAATCTACTCCACTGC-TG
* * **** * * *
82321625 CTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * *
82321669 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * * * **
82321713 CCCAGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGCAAC
1 CTCAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGC-TG
* * **** * * *
82321757 CTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * *
82321801 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * * * **
82321845 CCCAGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACTGCAAC
1 CTCAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGC-TG
* * **** * * *
82321889 CTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * *
82321933 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * * * **
82321977 CCCAGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACTGCAAC
1 CTCAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGC-TG
* * **** * * *
82322021 CTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
* * *
82322065 CTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTG
1 CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
*
82322109 CCCAGGGAGATA
1 CTCAGGGAGATA
82322121 GAATTACTGG
Statistics
Matches: 579, Mismatches: 219, Indels: 94
0.65 0.25 0.11
Matches are distributed among these distances:
39 1 0.00
40 4 0.01
41 39 0.07
42 6 0.01
43 113 0.20
44 307 0.53
45 101 0.17
46 2 0.00
47 6 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTG
Found at i:82328348 original size:16 final size:16
Alignment explanation
Indices: 82328327--82328357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82328317 TTCTATAATG
82328327 AAATGCCATGCAGTCT
1 AAATGCCATGCAGTCT
*
82328343 AAATGCTATGCAGTC
1 AAATGCCATGCAGTC
82328358 AAAGTGAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:82330327 original size:60 final size:59
Alignment explanation
Indices: 82330263--82330405 Score: 234
Period size: 60 Copynumber: 2.4 Consensus size: 59
82330253 CTATATAAGA
82330263 AAAATGCATAGATATTATATAAGAAAAATGCATGTGAATGAACATAGAGATAATGATAGT
1 AAAATGCATA-ATATTATATAAGAAAAATGCATGTGAATGAACATAGAGATAATGATAGT
82330323 AAAATGCATATATATTATATAAGAAAAATGCATGTGAATGAACATAGAGATAATGATAGT
1 AAAATGCATA-ATATTATATAAGAAAAATGCATGTGAATGAACATAGAGATAATGATAGT
82330383 AATAATG-ATAATATATAATATAA
1 AA-AATGCATAATAT-T-ATATAA
82330406 TAATAATGTT
Statistics
Matches: 79, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
59 4 0.05
60 65 0.82
61 10 0.13
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (59 bp):
AAAATGCATAATATTATATAAGAAAAATGCATGTGAATGAACATAGAGATAATGATAGT
Found at i:82330387 original size:12 final size:12
Alignment explanation
Indices: 82330372--82330413 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
82330362 GAACATAGAG
*
82330372 ATAATGATAGTA
1 ATAATGATAATA
82330384 ATAATGATAATA
1 ATAATGATAATA
82330396 TATAAT-ATAATA
1 -ATAATGATAATA
82330408 ATAATG
1 ATAATG
82330414 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:82330983 original size:10 final size:11
Alignment explanation
Indices: 82330963--82331014 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 11
82330953 TTATTTTAAG
82330963 CAAAA-TAAAA
1 CAAAAGTAAAA
*
82330973 AAAAAGTAAAA
1 CAAAAGTAAAA
*
82330984 GAAAA-TAAAA
1 CAAAAGTAAAA
*
82330994 CAAAAGCAAAA
1 CAAAAGTAAAA
82331005 -AAAAGTAAAA
1 CAAAAGTAAAA
82331015 GATCACCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 22 0.63
11 13 0.37
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.08
Consensus pattern (11 bp):
CAAAAGTAAAA
Found at i:82330990 original size:21 final size:20
Alignment explanation
Indices: 82330964--82331014 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
82330954 TATTTTAAGC
*
82330964 AAAATAAAAAAAAAGTAAAA
1 AAAATAAAAAAAAAGCAAAA
*
82330984 GAAAATAAAACAAAAGCAAAA
1 -AAAATAAAAAAAAAGCAAAA
82331005 AAAAGTAAAA
1 AAAA-TAAAA
82331015 GATCACCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAATAAAAAAAAAGCAAAA
Found at i:82336703 original size:96 final size:96
Alignment explanation
Indices: 82336600--82336899 Score: 600
Period size: 96 Copynumber: 3.1 Consensus size: 96
82336590 TTCCATGAAT
82336600 ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
1 ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
82336665 ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
66 ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
82336696 ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
1 ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
82336761 ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
66 ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
82336792 ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
1 ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
82336857 ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
66 ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
82336888 ATCAAATTTGTT
1 ATCAAATTTGTT
82336900 GAGCGCAACG
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 204 1.00
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.50
Consensus pattern (96 bp):
ATCAAATTTGTTTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTT
ATTCTATGTTTGGCTTTATTCCCTAGTCCTC
Found at i:82336719 original size:51 final size:51
Alignment explanation
Indices: 82336664--82336815 Score: 115
Period size: 51 Copynumber: 3.1 Consensus size: 51
82336654 AATAAAATTT
82336664 TATTCTATGTTTGGCTTTATTCCCTAGTCCTCATCAAATTTGTTTAAAGCA
1 TATTCTATGTTTGGCTTTATTCCCTAGTCCTCATCAAATTTGTTTAAAGCA
*** * * ** * ***
82336715 TATTC-AAACTT---TTTATT--TTAGT-CT-ATTTTATAA-TTAATAAAATTT
1 TATTCTATGTTTGGCTTTATTCCCTAGTCCTCA--TCA-AATTTGTTTAAAGCA
82336760 TATTCTATGTTTGGCTTTATTCCCTAGTCCTCATCAAATTTGTTTAAAGCA
1 TATTCTATGTTTGGCTTTATTCCCTAGTCCTCATCAAATTTGTTTAAAGCA
82336811 TATTC
1 TATTC
82336816 AAACTTTTTA
Statistics
Matches: 67, Mismatches: 22, Indels: 24
0.59 0.19 0.21
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 17 0.25
46 5 0.07
47 6 0.09
49 6 0.09
50 5 0.07
51 22 0.33
52 2 0.03
53 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.49
Consensus pattern (51 bp):
TATTCTATGTTTGGCTTTATTCCCTAGTCCTCATCAAATTTGTTTAAAGCA
Found at i:82337375 original size:19 final size:19
Alignment explanation
Indices: 82337346--82337395 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
82337336 ATTCATTTAT
* *
82337346 TTATATATTTTTTAAT-TT
1 TTATGTATTTTTTAATGTC
*
82337364 TGTATGTATTTTATAATGTC
1 T-TATGTATTTTTTAATGTC
82337384 TTATGTATTTTT
1 TTATGTATTTTT
82337396 ATAGAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 23 0.88
20 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (19 bp):
TTATGTATTTTTTAATGTC
Found at i:82337530 original size:22 final size:22
Alignment explanation
Indices: 82337500--82337542 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
82337490 ACATCAAAAA
* *
82337500 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
82337522 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
82337543 AACGCCGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:82338234 original size:8 final size:8
Alignment explanation
Indices: 82338221--82338248 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
82338211 TCCTAAATCT
82338221 AAAGATTC
1 AAAGATTC
82338229 AAAGATTC
1 AAAGATTC
82338237 AAAGATTC
1 AAAGATTC
82338245 AAAG
1 AAAG
82338249 TTAACATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (8 bp):
AAAGATTC
Found at i:82339662 original size:194 final size:194
Alignment explanation
Indices: 82339248--82339693 Score: 538
Period size: 194 Copynumber: 2.3 Consensus size: 194
82339238 CGACAAACAG
* * * *
82339248 ATTCCCGTTCTTAAAAGTCGTTTTTCTTCGACTCTTGAAAAACTCAAAAGCAATATATAGCAACA
1 ATTCCCGTTCTT-AAAGACGTTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACA
*
82339313 AACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACATTAAGGAATCAAGATTTCATA
65 AACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATA
* * * * ** * * * *
82339378 GCTTCGGATATGTCATAAGATGGGGTTTTGTTGAGAAGAAATTCGGATAGTTAAACAACACCTGA
130 ACGTCAGAAATGTCATAAGATGGGGTTTTGTCAAGAAGAAATTCAGACAGTTAAACAAAACCCGA
* * * *
82339443 ATTCCCATTCTTAAAAATGTTTCTCTTCGACTTTTGTAAAACTCAAAAGCAATATACAGCAACAA
1 ATTCCCGTTCTTAAAGACGTTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACAA
* * * * * *
82339508 ACAGCATATATCGACAATCATAAACACAAATTCAGTAGAATCAGTAAGGAATCAAGATTTTATAA
66 ACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATAA
** * *
82339573 CGTCAGAAATGTTGTAA-ACT-GGGTTTTGTCAAGAAGCAATTCAGACAGTTAAACAAAACCCGT
131 CGTCAGAAATGTCATAAGA-TGGGGTTTTGTCAAGAAGAAATTCAGACAGTTAAACAAAACCCGA
* * * * *
82339636 ATTCCCGTTTTTCAAAGACATTTCTCTTTGATTTTTGAAAAACTC-AAAGTAATATACA
1 ATTCCCGTTCTT-AAAGACGTTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACA
82339694 ACAATATTTC
Statistics
Matches: 211, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
193 58 0.27
194 142 0.67
195 11 0.05
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (194 bp):
ATTCCCGTTCTTAAAGACGTTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACAA
ACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATAA
CGTCAGAAATGTCATAAGATGGGGTTTTGTCAAGAAGAAATTCAGACAGTTAAACAAAACCCGA
Found at i:82340995 original size:16 final size:16
Alignment explanation
Indices: 82340970--82341007 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
82340960 AACAAATTTG
*
82340970 AAATTTTACCTTATGC
1 AAATTCTACCTTATGC
82340986 AAATTCTACCTTATGC
1 AAATTCTACCTTATGC
82341002 AAATTC
1 AAATTC
82341008 CCAGCAGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (16 bp):
AAATTCTACCTTATGC
Found at i:82343257 original size:16 final size:16
Alignment explanation
Indices: 82343236--82343294 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
82343226 CACTAACCTG
82343236 TAACCCCTAAATCCCC
1 TAACCCCTAAATCCCC
* *
82343252 TAACCCCTAGATCTCC
1 TAACCCCTAAATCCCC
82343268 TAACCCCTAAATCCCC
1 TAACCCCTAAATCCCC
82343284 TAACCCCTAAA
1 TAACCCCTAAA
82343295 GCATAACACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.32, C:0.46, G:0.02, T:0.20
Consensus pattern (16 bp):
TAACCCCTAAATCCCC
Found at i:82343258 original size:7 final size:7
Alignment explanation
Indices: 82343236--82343293 Score: 53
Period size: 7 Copynumber: 7.4 Consensus size: 7
82343226 CACTAACCTG
82343236 TAACCCC
1 TAACCCC
82343243 TAAATCCCC
1 T-AA-CCCC
82343252 TAACCCC
1 TAACCCC
*
82343259 TAGATCTCC
1 TA-A-CCCC
82343268 TAACCCC
1 TAACCCC
82343275 TAAATCCCC
1 T-AA-CCCC
82343284 TAACCCC
1 TAACCCC
82343291 TAA
1 TAA
82343294 AGCATAACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 18 0.42
8 10 0.23
9 15 0.35
ACGTcount: A:0.31, C:0.47, G:0.02, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:82343691 original size:74 final size:73
Alignment explanation
Indices: 82343570--82343731 Score: 252
Period size: 74 Copynumber: 2.2 Consensus size: 73
82343560 GCGCTTTCTT
* * * *
82343570 AAAAACGTCGCTAAATCCTCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTTGTGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAG-TTTTTTTTGAGG
82343635 CACTATCCC
65 CACTATCCC
*
82343644 AAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAGTTTTTTTTGAGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAGTTTTTTTTGAGGC
* *
82343709 GCTTTCCC
66 ACTATCCC
82343717 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
82343732 GCCATGAACA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 32 0.40
74 48 0.60
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (73 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAGTTTTTTTTGAGGC
ACTATCCC
Found at i:82344165 original size:115 final size:114
Alignment explanation
Indices: 82343644--82344293 Score: 861
Period size: 114 Copynumber: 5.8 Consensus size: 114
82343634 GCACTATCCC
* * *
82343644 AAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGCCGTTGGGCTTAGTTTTTTTTGAGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTGCGGC
* * * *
82343709 GCTTTCCCAAAAACGCCGCTAAAGCCATGAACATTAGCGGCGCTTTCTT
66 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATA
* *
82343758 AAAAATGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGCCGTTGGG--T--TTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTGCGGC
82343819 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATA
66 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATA
* * * * * *
82343868 AAAAACCCCGCTAAATCCTCGAAAGCTCAGAAAATGGCGTCGTTTGGTTTAG--TTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTGCGGC
* * *
82343931 ACTTTACCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCAT-
66 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT-ATA
* * * * *
82343980 AAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGCCGTTAGGG-TTATTTTTTTTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTT-GGGCTTAGTTTTTTTTGCGG
82344044 CGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATAA
65 CGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTAT-A
* *
82344095 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCACTGTTGGGCTTAGTTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTGCGGC
* * *
82344160 GCTTTCCCAAAAATGCTGCTAAAGCCCTGAGCATTAGTGGCGCTTTATA
66 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATA
* * * * * * *
82344209 AAAAACACTGCTAAATCTCCGAAAGCTCGGTAAACGGCGTCGTTGGGCTTAG--GTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTGCGGC
** *
82344272 GCTTTCCGGAAAACACCGCTAA
66 GCTTTCCCAAAAACGCCGCTAA
82344294 TTCTTATTTT
Statistics
Matches: 473, Mismatches: 52, Indels: 24
0.86 0.09 0.04
Matches are distributed among these distances:
110 97 0.21
112 124 0.26
113 6 0.01
114 147 0.31
115 99 0.21
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (114 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCTTAGTTTTTTTTGCGGC
GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATA
Found at i:82344866 original size:44 final size:42
Alignment explanation
Indices: 82344810--82344892 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 42
82344800 GCCACATGTT
82344810 AAAAATTTAAATTTA-AAAAATATAAAAATCCAAAAAAAACTC
1 AAAAATTTAAATTTATAAAAATATAAAAA-CCAAAAAAAACTC
** *
82344852 AAAAATATTAAAATTTATAAATTTATAAAAACTAAAAAAAA
1 AAAAAT-TT-AAATTTATAAAAATATAAAAACCAAAAAAAA
82344893 TCATAATCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 6 0.17
43 2 0.06
44 16 0.46
45 11 0.31
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (42 bp):
AAAAATTTAAATTTATAAAAATATAAAAACCAAAAAAAACTC
Found at i:82346539 original size:125 final size:124
Alignment explanation
Indices: 82346231--82346580 Score: 587
Period size: 123 Copynumber: 2.8 Consensus size: 124
82346221 TTATTTCGAG
82346231 TTGACGTTTT-TGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* * * * **
82346295 GAAATCGCGCCATTGTGGATGCGATTTTGCTACGGTAGGTCATGTAAGAAATAATTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATAAAAGAAATAATTTTT
*
82346354 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGC
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
82346418 GAAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATAAAAGAAATAATTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATAAAAGAAATAA-TTTTT
*
82346478 TTGACGTTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
82346543 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
82346581 CAAGTTTGGG
Statistics
Matches: 211, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
122 3 0.01
123 105 0.50
124 11 0.05
125 92 0.44
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATAAAAGAAATAATTTTT
Found at i:82349707 original size:10 final size:10
Alignment explanation
Indices: 82349692--82349716 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
82349682 CAAATCTAAC
82349692 ATTATGTAAA
1 ATTATGTAAA
82349702 ATTATGTAAA
1 ATTATGTAAA
82349712 ATTAT
1 ATTAT
82349717 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:82349759 original size:55 final size:55
Alignment explanation
Indices: 82349700--82349825 Score: 243
Period size: 55 Copynumber: 2.3 Consensus size: 55
82349690 ACATTATGTA
*
82349700 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
82349755 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
82349810 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
82349826 GGTTAGAGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:82349881 original size:30 final size:30
Alignment explanation
Indices: 82349837--82351127 Score: 2114
Period size: 30 Copynumber: 43.7 Consensus size: 30
82349827 GTTAGAGTTA
82349837 GGGTTTTT-ATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82349866 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
***
82349896 GGGTTTTGGGTTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82349926 GGGTTTTTAATTAAATTAGGTTA-GG-A-T
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
* *
82349953 AGGATTTTTAATTAAATTATGTTAGGGCAGT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82349984 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350014 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350044 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350074 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350104 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350134 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350164 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350194 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350224 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350254 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350284 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350314 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350344 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350374 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350404 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350434 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350464 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350494 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350524 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350554 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350584 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350614 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350644 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350674 GGGTTTTTAATTAAATTAGGTTA-GG-A-T
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
* *
82350701 AGGATTTTTAATTAAATTATGTTAGGGCAGT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350732 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350762 GGGTTTTTAATTAAATTAGGTTA-GG-A-T
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
* *
82350789 AGGATTTTTAATTAAATTATGTTAGGGCAGT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350820 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
** *
82350850 GGGTTTTTAATTATGTTAGGTTAGGG--TT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
* *
82350878 AGGGTTTTTAATTAAATTAGGTTATGG--TT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82350907 AGGGTTTTTAATTAAATTAGGTT-----A--
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
*
82350931 GGGTTTTTAATTAAATTAGGTTAGGGCTGT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
* ** *
82350961 GAGTTTTTAATTATGTTAGGTTAGGG--TT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
* *
82350989 AGGGTTTTTAATTAAATTAGGTTATGG--TT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
*
82351018 AGGGTTTTTAATTAAATTAGGTTAGGGTAGT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
*
82351049 GGGTTTTTAATTAAATTAGGTTAGGG--TT
1 GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82351077 AGGGTTTTTAATTAAATTAGGTTAGGGCAGT
1 -GGGTTTTTAATTAAATTAGGTTAGGGCAGT
82351108 GGGTTTTTAATTAAATTAGG
1 GGGTTTTTAATTAAATTAGG
82351128 GTTTTTATTA
Statistics
Matches: 1197, Mismatches: 37, Indels: 55
0.93 0.03 0.04
Matches are distributed among these distances:
23 22 0.02
27 3 0.00
28 69 0.06
29 144 0.12
30 954 0.80
31 5 0.00
ACGTcount: A:0.27, C:0.03, G:0.29, T:0.42
Consensus pattern (30 bp):
GGGTTTTTAATTAAATTAGGTTAGGGCAGT
Found at i:82350901 original size:23 final size:23
Alignment explanation
Indices: 82350874--82350956 Score: 112
Period size: 23 Copynumber: 3.3 Consensus size: 23
82350864 GTTAGGTTAG
82350874 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT-AA--A--TTA
82350902 TGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
82350926 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
82350949 GGTTAGGG
1 GGTTAGGG
82350957 CTGTGAGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
23 31 0.57
24 3 0.06
26 1 0.02
28 2 0.04
29 17 0.31
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:82351233 original size:71 final size:71
Alignment explanation
Indices: 82351133--82351317 Score: 291
Period size: 71 Copynumber: 2.6 Consensus size: 71
82351123 TTAGGGTTTT
* * * *
82351133 TATTACATCAAATAGAACTTCTATTTTATTATATTAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTATATTAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
*
82351198 CTATGCC
65 CTATGCA
*
82351205 TATTATATTAAATAAACTTCTATTTTATTACATCAGATAATATCAAAATAACTCGAAAAAATTTC
1 TATTATATTAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
82351270 TATGCA
66 TATGCA
82351276 TATT-TCATTAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTAT-ATTAAATAAACTTCTATTTTATTACATCAAATAATA
82351318 AATTTAAATA
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.01
71 92 0.88
72 12 0.11
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.39
Consensus pattern (71 bp):
TATTATATTAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCA
Found at i:82351746 original size:18 final size:18
Alignment explanation
Indices: 82351719--82351753 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82351709 CGGAAAAGGA
* *
82351719 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
82351737 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
82351754 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:82352415 original size:7 final size:7
Alignment explanation
Indices: 82352405--82352429 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
82352395 TTATATACAT
82352405 AATACTA
1 AATACTA
82352412 AATACTA
1 AATACTA
82352419 AATACTA
1 AATACTA
82352426 AATA
1 AATA
82352430 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:82353179 original size:30 final size:30
Alignment explanation
Indices: 82353145--82353205 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
82353135 TCTAGAGTGA
82353145 TAGTGCACTCTCCACATGGAAGATGGAATG
1 TAGTGCACTCTCCACATGGAAGATGGAATG
82353175 TAGTGCACTCTCCACATGGAAGATGGAATG
1 TAGTGCACTCTCCACATGGAAGATGGAATG
82353205 T
1 T
82353206 GTGTGTCTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (30 bp):
TAGTGCACTCTCCACATGGAAGATGGAATG
Found at i:82353422 original size:22 final size:22
Alignment explanation
Indices: 82353397--82353459 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
82353387 TATAACAAAT
82353397 AATAAATTAATAATTATCTAAA
1 AATAAATTAATAATTATCTAAA
* * *
82353419 AATACATAAATAA-TATTTAAA
1 AATAAATTAATAATTATCTAAA
*
82353440 AATTAAATTTAATACTTATC
1 AA-TAAA-TTAATAATTATC
82353460 ATTTTCATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 9 0.29
22 14 0.45
23 5 0.16
24 3 0.10
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATTAATAATTATCTAAA
Found at i:82353628 original size:44 final size:44
Alignment explanation
Indices: 82353573--82353659 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
82353563 TTGAGGGGAA
*
82353573 ATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAAATTG
1 ATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGAAAATTG
*
82353617 ATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAGAAAATT
1 ATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGAAAATT
82353660 TGGAAGGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (44 bp):
ATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGAAAATTG
Found at i:82358885 original size:45 final size:44
Alignment explanation
Indices: 82358836--82359023 Score: 195
Period size: 45 Copynumber: 4.2 Consensus size: 44
82358826 TTAGCCCCGA
82358836 TCTTATTTATTTCCGATATGATGTCATAGTGTCTTTCAACTATGG
1 TCTTATTTATTTCCGATAT-ATGTCATAGTGTCTTTCAACTATGG
* * * *
82358881 TCTTATTCATTTCCG-TCATGTTGCCATAGTGTTTTTCAACTATGG
1 TCTTATTTATTTCCGAT-AT-ATGTCATAGTGTCTTTCAACTATGG
* * *
82358926 TCTTATTCATTTCCGGTATA-GTTCCATAGTGTCTTTCAATTATGG
1 TCTTATTTATTTCCGATATATG-T-CATAGTGTCTTTCAACTATGG
* *
82358971 TCTTATTCT-TTT-CTAGTATAGTGTCATAATGTCTTTCAACTATGG
1 TCTTATT-TATTTCCGA-TATA-TGTCATAGTGTCTTTCAACTATGG
82359016 TCTTATTT
1 TCTTATTT
82359024 GTTTTTCAAG
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 115 0.94
46 2 0.02
47 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (44 bp):
TCTTATTTATTTCCGATATATGTCATAGTGTCTTTCAACTATGG
Found at i:82361309 original size:21 final size:21
Alignment explanation
Indices: 82361285--82361336 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
82361275 TTAGGCTCAT
82361285 AAATAATTAATTAAAGTATTA
1 AAATAATTAATTAAAGTATTA
*
82361306 AAATAATATAA-TCAAGTATTA
1 AAATAAT-TAATTAAAGTATTA
*
82361327 TAAT-ATTAAT
1 AAATAATTAAT
82361337 GAGTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 19 0.70
22 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
AAATAATTAATTAAAGTATTA
Found at i:82362763 original size:28 final size:28
Alignment explanation
Indices: 82362715--82362880 Score: 155
Period size: 28 Copynumber: 6.0 Consensus size: 28
82362705 AACCATCTAT
* *
82362715 CCCCTATTTTTTCAAAATTTATAGTTTTG
1 CCCCTATTTTTT-AAATTTTATAATTTTG
82362744 CCCCTATTTTTTAAATTTTATAATTTTG
1 CCCCTATTTTTTAAATTTTATAATTTTG
* * * *
82362772 CCCTTATTTTTTGAATTTCATATTTTTG
1 CCCCTATTTTTTAAATTTTATAATTTTG
* *
82362800 CCTCTATTTTTTAGATTTTATAATTTTG
1 CCCCTATTTTTTAAATTTTATAATTTTG
* * *
82362828 --CCTATATTTTCAAATTTTACAGTATTT-
1 CCCCTAT-TTTTTAAATTTTATAAT-TTTG
82362855 --CCT-TTTTTTCAAATTTTATAATTTTG
1 CCCCTATTTTTT-AAATTTTATAATTTTG
82362881 TCCACTGCTT
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
25 7 0.06
26 15 0.13
27 16 0.14
28 63 0.56
29 12 0.11
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.57
Consensus pattern (28 bp):
CCCCTATTTTTTAAATTTTATAATTTTG
Found at i:82363200 original size:34 final size:33
Alignment explanation
Indices: 82363162--82363235 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
82363152 AGAATGACTT
82363162 TTGCTACCGAGTT-GAACTGTTATAAGCATATTAA
1 TTGCTACC-AGTTCGAACTGTTATAAGCATATT-A
* **
82363196 TTGCTA-CTGTTCCGATTTGTTATAAGCATATTA
1 TTGCTACCAGTT-CGAACTGTTATAAGCATATTA
82363229 TTGCTAC
1 TTGCTAC
82363236 TATATTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 3 0.09
33 8 0.24
34 23 0.68
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TTGCTACCAGTTCGAACTGTTATAAGCATATTA
Found at i:82371376 original size:14 final size:14
Alignment explanation
Indices: 82371340--82371378 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
82371330 AGATATGAAG
*
82371340 CAGAAGAGGAAAGA
1 CAGAAGAGAAAAGA
*
82371354 -AGCAGAGAAAAGA
1 CAGAAGAGAAAAGA
82371367 CAGAAGAGAAAA
1 CAGAAGAGAAAA
82371379 AGGGCACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (14 bp):
CAGAAGAGAAAAGA
Found at i:82376875 original size:90 final size:90
Alignment explanation
Indices: 82376765--82377138 Score: 588
Period size: 90 Copynumber: 4.1 Consensus size: 90
82376755 TCGACAGCGA
** *
82376765 AGCAGATCGAAGATACCAGCCTAGTCTCCCTGAGCAGCAGGGGAGTAGGTTGAAAGACATTACAG
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
82376830 ATCTTATCTCCCTAAACAGTAGTGG
66 ATCTTATCTCCCTAAACAGTAGTGG
*
82376855 AGCAAATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
**
82376920 ATCTTATCTCCCTAAGTAGTAGTGG
66 ATCTTATCTCCCTAAACAGTAGTGG
** *
82376945 AGCAGATCGAAGACCCTGGCCTAGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAGACATTACAG
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
**
82377010 ATCTTATCTCCCTAAGTAGTAGTGG
66 ATCTTATCTCCCTAAACAGTAGTGG
* * * *
82377035 AGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGTTTAAGAAA-ACATTAC
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTT--GAAAGACATTAC
82377099 AGATCTTATCTCCCTAAACAGTAGTGG
64 AGATCTTATCTCCCTAAACAGTAGTGG
82377126 AGCAGATCGAAGA
1 AGCAGATCGAAGA
82377139 TGGCAGATTT
Statistics
Matches: 262, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
90 214 0.82
91 44 0.17
92 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (90 bp):
AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
ATCTTATCTCCCTAAACAGTAGTGG
Found at i:82377080 original size:43 final size:43
Alignment explanation
Indices: 82376847--82377082 Score: 175
Period size: 43 Copynumber: 5.3 Consensus size: 43
82376837 CTCCCTAAAC
* * * *
82376847 AGTAGTGGAGCAAATCGAAGACCCCAGCCTAGTCTCCCTGAGC
1 AGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGT
* * * ** * * *
82376890 AGCAGTGGAGTAGGTTGAAAGACATTACAGATCTTATCTCCCTAAGT
1 AGTAGTGGAGTAGATCG-AAGAC--CCCAG-CCTTGTCTCCCTGAGT
* ** * *
82376937 AGTAGTGGAGCAGATCGAAGACCCTGGCCTAGTCTCCCTGAGC
1 AGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGT
* * ** * * *
82376980 AGTAGTGGAGTAGGTTGAAAGACATTACAGATCTTATCTCCCTAAGT
1 AGTAGTGGAGTAGATCG-AAGAC--CCCAG-CCTTGTCTCCCTGAGT
82377027 AGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGT
1 AGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGT
*
82377070 AGCAGTGGAGTAG
1 AGTAGTGGAGTAG
82377083 TTTAAGAAAA
Statistics
Matches: 140, Mismatches: 45, Indels: 16
0.70 0.22 0.08
Matches are distributed among these distances:
43 62 0.44
44 14 0.10
46 14 0.10
47 50 0.36
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (43 bp):
AGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGT
Found at i:82386426 original size:39 final size:39
Alignment explanation
Indices: 82386362--82386451 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
82386352 CACCAGTTTT
* * *
82386362 ACCACCACCACCTCCTGTGCCTAGAAGTGCATCATTACC
1 ACCACCACCACCTCCTATGCATAGAACTGCATCATTACC
* * *
82386401 ACCCCCACCACCTCCTATTCATAGAACTGCCTCATTACC
1 ACCACCACCACCTCCTATGCATAGAACTGCATCATTACC
82386440 ACCACCACCACC
1 ACCACCACCACC
82386452 ACCACCTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.27, C:0.47, G:0.08, T:0.19
Consensus pattern (39 bp):
ACCACCACCACCTCCTATGCATAGAACTGCATCATTACC
Found at i:82394086 original size:15 final size:15
Alignment explanation
Indices: 82394066--82394097 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
82394056 TAGAATATAT
82394066 AAGAAAAATTTGGAA
1 AAGAAAAATTTGGAA
82394081 AAGAAAAATTTGGAA
1 AAGAAAAATTTGGAA
82394096 AA
1 AA
82394098 AATTGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (15 bp):
AAGAAAAATTTGGAA
Found at i:82395320 original size:6 final size:6
Alignment explanation
Indices: 82395306--82395337 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
82395296 AGTCGTAACC
*
82395306 TTTCAT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
82395338 ACATCGTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCCT
Found at i:82406108 original size:20 final size:20
Alignment explanation
Indices: 82406044--82406108 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
82406034 TACCAAAGTA
* * *
82406044 CAAACAGGGCCACAAATGTG
1 CAAACAGGGGCACGAATGGG
* * *
82406064 CAAATAGGGGTATCG-A-GGA
1 CAAACAGGGGCA-CGAATGGG
82406083 CAAACAGGGGCACGAATGGG
1 CAAACAGGGGCACGAATGGG
82406103 CAAACA
1 CAAACA
82406109 AGGGTATTGA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
20 18 0.55
21 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.31, T:0.09
Consensus pattern (20 bp):
CAAACAGGGGCACGAATGGG
Found at i:82406126 original size:20 final size:20
Alignment explanation
Indices: 82406082--82406148 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
82406072 GGTATCGAGG
* * *
82406082 ACAAACAGGGGCACGAATGG
1 ACAAACAAGGGCATGAATGT
* *
82406102 GCAAACAAGGGTATTGAA-GT
1 ACAAACAAGGGCA-TGAATGT
*
82406122 ACAAATAAGGGCATGAATGT
1 ACAAACAAGGGCATGAATGT
82406142 ACAAACA
1 ACAAACA
82406149 TTCAATAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 4 0.11
20 29 0.81
21 3 0.08
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.13
Consensus pattern (20 bp):
ACAAACAAGGGCATGAATGT
Found at i:82410224 original size:22 final size:22
Alignment explanation
Indices: 82410196--82410242 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
82410186 CCGAGTACAA
82410196 ATACATCACTTTCTATAGTTTT
1 ATACATCACTTTCTATAGTTTT
82410218 ATACATCACTTTCTATAGTTTT
1 ATACATCACTTTCTATAGTTTT
82410240 ATA
1 ATA
82410243 TTGGATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (22 bp):
ATACATCACTTTCTATAGTTTT
Found at i:82412287 original size:48 final size:48
Alignment explanation
Indices: 82412227--82412318 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
82412217 CAGAGGCTAC
* * *
82412227 ATAACCATTCTCATGTATCGCGATATGCCAGTTCAATGCTCATACTAT
1 ATAACCAGTCTCATGTATCACGATATACCAGTTCAATGCTCATACTAT
* *
82412275 ATAACCAGTCTCATGTATCACTATCTACCAGTTCAATGCTCATA
1 ATAACCAGTCTCATGTATCACGATATACCAGTTCAATGCTCATA
82412319 TCATTAAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (48 bp):
ATAACCAGTCTCATGTATCACGATATACCAGTTCAATGCTCATACTAT
Found at i:82412297 original size:24 final size:23
Alignment explanation
Indices: 82412230--82412306 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
82412220 AGGCTACATA
* * *
82412230 ACCATTCTCATGTATCGCGATAT
1 ACCAGTCTCATGTATCACTATAT
*
82412253 GCCAGT-TCAATGCTCAT-ACTATAT
1 ACCAGTCTC-ATG-T-ATCACTATAT
*
82412277 AACCAGTCTCATGTATCACTATCT
1 -ACCAGTCTCATGTATCACTATAT
82412301 ACCAGT
1 ACCAGT
82412307 TCAATGCTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 2 0.05
23 15 0.36
24 13 0.31
25 10 0.24
26 2 0.05
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (23 bp):
ACCAGTCTCATGTATCACTATAT
Found at i:82417200 original size:27 final size:27
Alignment explanation
Indices: 82417146--82417200 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
82417136 AATATAATAT
*
82417146 AATTATAAAAAAATTAAATTGTACTTA
1 AATTATAAAAAAATTAAATTGTAATTA
* *
82417173 AATTATTAAAATATTTAAATT-TAATTA
1 AATTA-TAAAAAAATTAAATTGTAATTA
82417200 A
1 A
82417201 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTATAAAAAAATTAAATTGTAATTA
Found at i:82418695 original size:13 final size:13
Alignment explanation
Indices: 82418679--82418708 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
82418669 TTTTTACATT
*
82418679 TTAATTTTCTTAG
1 TTAATTTACTTAG
82418692 TTAATTTACTTAG
1 TTAATTTACTTAG
82418705 TTAA
1 TTAA
82418709 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:82419470 original size:85 final size:85
Alignment explanation
Indices: 82419324--82419757 Score: 832
Period size: 85 Copynumber: 5.1 Consensus size: 85
82419314 GGCCGGCCAT
82419324 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
82419389 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
82419409 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
82419474 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
82419494 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
82419559 GTAAGGATTAATAAAATGAA
66 GTAAGGATTAATAAAATAAA
82419579 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
82419644 GTAAGGATTAATAAAATGAA
66 GTAAGGATTAATAAAATAAA
82419664 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
82419729 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
82419749 GGGCATGGG
1 GAGCATGGG
82419758 CAATAAAATA
Statistics
Matches: 344, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 344 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:82428102 original size:49 final size:47
Alignment explanation
Indices: 82428044--82428396 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
82428034 ATTGATGTAC
* * * * *
82428044 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
82428091 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
82428140 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
82428189 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
82428236 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
82428283 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
82428330 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
82428377 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
82428397 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:82435992 original size:16 final size:15
Alignment explanation
Indices: 82435962--82435995 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
82435952 ATAACTAATA
*
82435962 TATAATTATATTTAT
1 TATAATTATAATTAT
82435977 TATAATGTATAATTAT
1 TATAAT-TATAATTAT
82435993 TAT
1 TAT
82435996 CAACTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TATAATTATAATTAT
Found at i:82437809 original size:264 final size:264
Alignment explanation
Indices: 82437339--82437868 Score: 1060
Period size: 264 Copynumber: 2.0 Consensus size: 264
82437329 CTGTGTCAAA
82437339 TCATGTAACTCACACTTTTTAGAGAGAATATTTGACGCCATTAGCGAATGTATGGTTCTATCTCA
1 TCATGTAACTCACACTTTTTAGAGAGAATATTTGACGCCATTAGCGAATGTATGGTTCTATCTCA
82437404 TTCAATTTTGCCTTATGCCTATTTCACATAGGACCACAATTTCATTAGAGCGAATGGTCTTGTTA
66 TTCAATTTTGCCTTATGCCTATTTCACATAGGACCACAATTTCATTAGAGCGAATGGTCTTGTTA
82437469 TAATTGATTTTAACAACAAAGACCATTGATGTGGGAAAAATCATTCTAAGAGAAATGCAAAATTA
131 TAATTGATTTTAACAACAAAGACCATTGATGTGGGAAAAATCATTCTAAGAGAAATGCAAAATTA
82437534 TGCTGCTAGATGTTCTGGCCCAGCTTACTTTCCCTTTACGATAACAATTTTGAGCTTGAAAGCTA
196 TGCTGCTAGATGTTCTGGCCCAGCTTACTTTCCCTTTACGATAACAATTTTGAGCTTGAAAGCTA
82437599 AAAT
261 AAAT
82437603 TCATGTAACTCACACTTTTTAGAGAGAATATTTGACGCCATTAGCGAATGTATGGTTCTATCTCA
1 TCATGTAACTCACACTTTTTAGAGAGAATATTTGACGCCATTAGCGAATGTATGGTTCTATCTCA
82437668 TTCAATTTTGCCTTATGCCTATTTCACATAGGACCACAATTTCATTAGAGCGAATGGTCTTGTTA
66 TTCAATTTTGCCTTATGCCTATTTCACATAGGACCACAATTTCATTAGAGCGAATGGTCTTGTTA
82437733 TAATTGATTTTAACAACAAAGACCATTGATGTGGGAAAAATCATTCTAAGAGAAATGCAAAATTA
131 TAATTGATTTTAACAACAAAGACCATTGATGTGGGAAAAATCATTCTAAGAGAAATGCAAAATTA
82437798 TGCTGCTAGATGTTCTGGCCCAGCTTACTTTCCCTTTACGATAACAATTTTGAGCTTGAAAGCTA
196 TGCTGCTAGATGTTCTGGCCCAGCTTACTTTCCCTTTACGATAACAATTTTGAGCTTGAAAGCTA
82437863 AAAT
261 AAAT
82437867 TC
1 TC
82437869 TTGCAAACGT
Statistics
Matches: 266, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 266 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (264 bp):
TCATGTAACTCACACTTTTTAGAGAGAATATTTGACGCCATTAGCGAATGTATGGTTCTATCTCA
TTCAATTTTGCCTTATGCCTATTTCACATAGGACCACAATTTCATTAGAGCGAATGGTCTTGTTA
TAATTGATTTTAACAACAAAGACCATTGATGTGGGAAAAATCATTCTAAGAGAAATGCAAAATTA
TGCTGCTAGATGTTCTGGCCCAGCTTACTTTCCCTTTACGATAACAATTTTGAGCTTGAAAGCTA
AAAT
Found at i:82443583 original size:79 final size:82
Alignment explanation
Indices: 82443472--82443656 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
82443462 GCTACTCGTT
* * *
82443472 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
82443535 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
82443552 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
82443615 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
82443632 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
82443657 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:82443656 original size:40 final size:40
Alignment explanation
Indices: 82443453--82443656 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
82443443 CGGAATTTAA
** *
82443453 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
82443493 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
82443533 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
82443572 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
82443612 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
82443652 CCGGA
1 CCGGA
82443657 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:82448851 original size:27 final size:27
Alignment explanation
Indices: 82448821--82448998 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82448811 ATATTGAGTC
* * * *
82448821 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
82448848 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82448875 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
82448903 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
82448930 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
82448957 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82448984 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82448999 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:82448960 original size:82 final size:81
Alignment explanation
Indices: 82448842--82448997 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82448832 TGCTATATAA
* *
82448842 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
82448907 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
82448924 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
82448988 CACTTAGTGC
65 CACTTAGTGC
82448998 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:82453877 original size:32 final size:30
Alignment explanation
Indices: 82453841--82453900 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
82453831 ACTTTAGTCA
* *
82453841 TTTATTTTATTAAAATTTAAATTTTATTTTTG
1 TTTATATTACTAAAATTT--ATTTTATTTTTG
82453873 TTTATATTACTAAAATTTATTTTATTTT
1 TTTATATTACTAAAATTTATTTTATTTT
82453901 CTTCTGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 10 0.38
32 16 0.62
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTATATTACTAAAATTTATTTTATTTTTG
Found at i:82459718 original size:42 final size:42
Alignment explanation
Indices: 82459671--82459753 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
82459661 TCAAACATGG
82459671 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCCA
1 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCCA
82459713 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCC
1 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCC
82459754 CCAAATTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (42 bp):
TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCCA
Found at i:82465972 original size:34 final size:34
Alignment explanation
Indices: 82465929--82466005 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
82465919 GTTTGCATTT
*
82465929 CTGTTACTGTTATTGTAATGGGCTAAGGCCCACA
1 CTGTTACTGTTATTGTAATGGACTAAGGCCCACA
82465963 CTGTTACTGTTATTGTAATGGACTAAGGCCCACA
1 CTGTTACTGTTATTGTAATGGACTAAGGCCCACA
*
82465997 CTGATACTG
1 CTGTTACTG
82466006 GACCGTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (34 bp):
CTGTTACTGTTATTGTAATGGACTAAGGCCCACA
Found at i:82474693 original size:28 final size:28
Alignment explanation
Indices: 82474661--82474725 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
82474651 ATTTACTAGA
*
82474661 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
82474689 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
82474717 ATACCCCTA
1 ATACCCCTA
82474726 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:82474889 original size:27 final size:27
Alignment explanation
Indices: 82474831--82474920 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
82474821 AGGAAGCGTC
82474831 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
82474859 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
82474886 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
82474915 CTGGTG
1 CTGGTG
82474921 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:82474939 original size:55 final size:56
Alignment explanation
Indices: 82474831--82474945 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
82474821 AGGAAGCGTC
* *
82474831 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
82474886 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
82474942 CTGG
1 CTGG
82474946 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:82475404 original size:19 final size:19
Alignment explanation
Indices: 82475380--82475422 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
82475370 GGCCTTTTAA
* *
82475380 TTACTTTTATGGTTTTGTT
1 TTACTTTTATGATTTTATT
*
82475399 TTACTTTTATTATTTTATT
1 TTACTTTTATGATTTTATT
82475418 TTACT
1 TTACT
82475423 ATGATGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.70
Consensus pattern (19 bp):
TTACTTTTATGATTTTATT
Found at i:82482108 original size:28 final size:28
Alignment explanation
Indices: 82482076--82482140 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
82482066 ATTTACTAGA
*
82482076 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
82482104 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
82482132 ATACCCCTA
1 ATACCCCTA
82482141 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:82486114 original size:7 final size:7
Alignment explanation
Indices: 82486102--82486126 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
82486092 AAAATGAATT
82486102 AAAAATA
1 AAAAATA
82486109 AAAAATA
1 AAAAATA
82486116 AAAAATA
1 AAAAATA
82486123 AAAA
1 AAAA
82486127 CCTTGGCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:82494659 original size:110 final size:110
Alignment explanation
Indices: 82494438--82494748 Score: 511
Period size: 110 Copynumber: 2.8 Consensus size: 110
82494428 ATCCTTTTGA
* * * * * *
82494438 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GCAATGTTACCAA
* * *
82494501 -TGCCATGCCTTGGCATGGTCTTCCATGGGACCTTTGCCTTATAGT
65 TTGTCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATAGT
82494546 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAATGTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAATGTTACCAAT
82494611 TGTCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGTCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATAGT
82494656 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAATGTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAATGTTACCAAT
82494721 TGTCATGCCTTCGCATGGTCTTACATGG
66 TGTCATGCCTTCGCATGGTCTTACATGG
82494749 TATCCTTAAA
Statistics
Matches: 191, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
107 1 0.01
108 49 0.26
109 6 0.03
110 135 0.71
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (110 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAATGTTACCAAT
TGTCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:82494755 original size:55 final size:52
Alignment explanation
Indices: 82494391--82494755 Score: 303
Period size: 55 Copynumber: 6.8 Consensus size: 52
82494381 ACACGGGTAC
* * * *
82494391 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTAGCAA
* *
82494440 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTA-GCAA
* * * *
82494493 CTCACCAATGCCATGCCTTGGCATGGTCTTCCATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTT-GCATGGTCTTACATGGTATCC-TTGCC-T-TAGCAA
* * * *
82494548 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTAGCAA
* * * *
82494601 TGTTACCAATTGTCATGCCTTCGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 -CTTACCAA-TGCCATGCCTT-GCATGGTCTTACATGGTATCC-TTGCC-T-TAGCAA
* * * *
82494658 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGCAA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTAGCAA
* *
82494711 TGTTACCAATTGTCATGCCTTCGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTT-GCATGGTCTTACATGGTATCCTT
82494756 AAACCCTAAT
Statistics
Matches: 255, Mismatches: 38, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
49 40 0.16
52 4 0.02
53 48 0.19
54 22 0.09
55 123 0.48
56 13 0.05
57 5 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (52 bp):
CTTACCAATGCCATGCCTTGCATGGTCTTACATGGTATCCTTGCCTTAGCAA
Found at i:82501893 original size:16 final size:16
Alignment explanation
Indices: 82501874--82501904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82501864 CTTCTTCACT
82501874 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
82501890 TACTTACTTACTTAA
1 TACTCACTTACTTAA
82501905 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:82501910 original size:20 final size:20
Alignment explanation
Indices: 82501871--82501910 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
82501861 AAACTTCTTC
* *
82501871 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
82501891 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
82501911 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:82502170 original size:49 final size:50
Alignment explanation
Indices: 82502095--82502242 Score: 147
Period size: 49 Copynumber: 2.9 Consensus size: 50
82502085 TACGCGGGTC
* *
82502095 CCTTACCATTGCCATGAT-TTGCCATGGTCTTACATGGTATCCTTTCGAAA
1 CCTTACCATTGCCATG-TCTTGACATGGTCTTACATGGTATCCTTTAGAAA
* *
82502145 -CTTACCATTGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CCTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCC-T---TTAGAAA
* * * * *
82502198 CCTTACAAATTTCCATGCCTTGGCGTGGTCTTACATGGTATCCTT
1 CCTTAC-CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
82502243 AAACCCTAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
48 1 0.01
49 36 0.45
50 1 0.01
51 1 0.01
53 6 0.08
54 6 0.08
55 29 0.36
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (50 bp):
CCTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTAGAAA
Found at i:82505078 original size:14 final size:14
Alignment explanation
Indices: 82505059--82505114 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
82505049 TTAACCATAG
82505059 AAATTCATACAATT
1 AAATTCATACAATT
*
82505073 AAATTCAT-CATATA
1 AAATTCATACA-ATT
*
82505087 AAAATCATACAAATT
1 AAATTCATAC-AATT
82505102 CAAATTCA-ACAAT
1 -AAATTCATACAAT
82505115 GTTTATTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.06
14 20 0.59
15 5 0.15
16 7 0.21
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTCATACAATT
Found at i:82523140 original size:10 final size:10
Alignment explanation
Indices: 82523125--82523163 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
82523115 CTGATTTGTA
82523125 CATGATATGC
1 CATGATATGC
82523135 CATGATATGC
1 CATGATATGC
82523145 ACATGATATGC
1 -CATGATATGC
82523156 CATGATAT
1 CATGATAT
82523164 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:82523140 original size:21 final size:21
Alignment explanation
Indices: 82523124--82523163 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
82523114 ACTGATTTGT
82523124 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
82523145 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
82523164 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:82525763 original size:30 final size:30
Alignment explanation
Indices: 82525729--82525787 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
82525719 AGTAATGTTG
82525729 TGACAATTACATAATAATCCAAGAAACATT
1 TGACAATTACATAATAATCCAAGAAACATT
82525759 TGACAATTACATAATAATCCAAGAAACAT
1 TGACAATTACATAATAATCCAAGAAACAT
82525788 ATTCATAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (30 bp):
TGACAATTACATAATAATCCAAGAAACATT
Found at i:82526503 original size:10 final size:10
Alignment explanation
Indices: 82526488--82526526 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
82526478 NNNNNNNNTA
82526488 CATGATATGC
1 CATGATATGC
82526498 CATGATATGC
1 CATGATATGC
82526508 ACATGATATGC
1 -CATGATATGC
82526519 CATGATAT
1 CATGATAT
82526527 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:82526513 original size:21 final size:21
Alignment explanation
Indices: 82526487--82526526 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
82526477 NNNNNNNNNT
82526487 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
82526508 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
82526527 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:82530875 original size:27 final size:27
Alignment explanation
Indices: 82530844--82531021 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82530834 TAAATTGTAC
82530844 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
82530871 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82530897 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
82530925 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
82530953 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82530980 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
82531007 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82531022 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:82530958 original size:82 final size:81
Alignment explanation
Indices: 82530845--82531000 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82530835 AAATTGTACA
* *
82530845 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
82530909 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
82530926 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
82530991 TGCGAGTTGA
65 TGCGAATTGA
82531001 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82531012 original size:82 final size:81
Alignment explanation
Indices: 82530841--82531021 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
82530831 GATTAAATTG
* *
82530841 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
82530906 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
82530922 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
82530986 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
82531004 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
82531022 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:82538939 original size:27 final size:27
Alignment explanation
Indices: 82538908--82539085 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82538898 TAAATTGTAC
82538908 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
82538935 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82538961 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
82538989 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
82539017 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82539044 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
82539071 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82539086 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:82539022 original size:82 final size:81
Alignment explanation
Indices: 82538909--82539064 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82538899 AAATTGTACA
* *
82538909 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
82538973 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
82538990 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
82539055 TGCGAGTTGA
65 TGCGAATTGA
82539065 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82539076 original size:82 final size:81
Alignment explanation
Indices: 82538905--82539085 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
82538895 GATTAAATTG
* *
82538905 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
82538970 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
82538986 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
82539050 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
82539068 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
82539086 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:82541077 original size:16 final size:19
Alignment explanation
Indices: 82541043--82541083 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
82541033 TAGTTTTCAA
82541043 AAAAAAAAGAAGAAGAAAC
1 AAAAAAAAGAAGAAGAAAC
82541062 AAAAAAAA-AAG-A-AAAC
1 AAAAAAAAGAAGAAGAAAC
82541078 AAAAAA
1 AAAAAA
82541084 TGAGAACGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.45
17 1 0.05
18 3 0.14
19 8 0.36
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAGAAGAAAC
Found at i:82541153 original size:20 final size:21
Alignment explanation
Indices: 82541115--82541157 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
82541105 ATAAAATAAA
82541115 AATAATCATAATAGTAAAACT
1 AATAATCATAATAGTAAAACT
*
82541136 AATAATTATAAT-GTAAAACT
1 AATAATCATAATAGTAAAACT
82541156 AA
1 AA
82541158 AACAAATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAATCATAATAGTAAAACT
Found at i:82542515 original size:18 final size:18
Alignment explanation
Indices: 82542492--82542534 Score: 79
Period size: 17 Copynumber: 2.4 Consensus size: 18
82542482 AAACATAAAA
82542492 CATAAAACTTTTTACGTG
1 CATAAAACTTTTTACGTG
82542510 CAT-AAACTTTTTACGTG
1 CATAAAACTTTTTACGTG
82542527 CATAAAAC
1 CATAAAAC
82542535 ATAAAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (18 bp):
CATAAAACTTTTTACGTG
Found at i:82544502 original size:12 final size:12
Alignment explanation
Indices: 82544485--82544510 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
82544475 CAATTTAAAA
82544485 ATATATATGTTC
1 ATATATATGTTC
82544497 ATATATATGTTC
1 ATATATATGTTC
82544509 AT
1 AT
82544511 CATAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATGTTC
Found at i:82552299 original size:35 final size:35
Alignment explanation
Indices: 82552268--82552350 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 35
82552258 TGTGATGTTT
* *
82552268 TATTGAACTTGTATATTCTGCCATATATGATGATA
1 TATTGAACTTGTATATCCGGCCATATATGATGATA
* *
82552303 TATTGAACTTGTATATCCGGCCATATGTAATGATA
1 TATTGAACTTGTATATCCGGCCATATATGATGATA
*
82552338 TAATGAACCTTGT
1 TATTGAA-CTTGT
82552351 GTATTTGGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 37 0.88
36 5 0.12
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (35 bp):
TATTGAACTTGTATATCCGGCCATATATGATGATA
Found at i:82559421 original size:41 final size:41
Alignment explanation
Indices: 82559345--82559422 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
82559335 ATAGTGATAT
*
82559345 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTAGTGAATTTGA
* * *
82559386 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCTAGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCTAGTGAAT
82559423 AAATAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTAGTGAATTTGA
Found at i:82559646 original size:35 final size:35
Alignment explanation
Indices: 82559607--82559694 Score: 131
Period size: 35 Copynumber: 2.5 Consensus size: 35
82559597 TGCGATGTTT
*
82559607 TATTGAACTTGTATATTCGGCCATATATGATGATA
1 TATTGAACTTGTATATTCGGCCATATATAATGATA
*
82559642 TATTGAACTTGTATATTCGGCCATATGTAATGATA
1 TATTGAACTTGTATATTCGGCCATATATAATGATA
* *
82559677 TAATGAACCTTGTGTATT
1 TATTGAA-CTTGTATATT
82559695 AGGTCATACA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
35 39 0.81
36 9 0.19
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (35 bp):
TATTGAACTTGTATATTCGGCCATATATAATGATA
Found at i:82562555 original size:93 final size:93
Alignment explanation
Indices: 82562443--82562614 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
82562433 CGCCCATAAG
* *
82562443 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82562508 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
82562536 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82562601 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
82562615 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:82562611 original size:46 final size:46
Alignment explanation
Indices: 82562436--82562611 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
82562426 TGTAACCCGC
* * *
82562436 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
82562482 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
82562532 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
82562575 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
82562612 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:82570136 original size:93 final size:93
Alignment explanation
Indices: 82570029--82570199 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
82570019 GCCCCTAAGT
* *
82570029 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
82570094 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
82570122 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
82570187 CGAGTTCGGATGC
66 CGAGTTCGGATGC
82570200 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:82570196 original size:46 final size:46
Alignment explanation
Indices: 82570024--82570196 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
82570014 AACCCGCCCC
* * *
82570024 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
82570070 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
82570118 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
82570163 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
82570197 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:82570651 original size:30 final size:30
Alignment explanation
Indices: 82570617--82570676 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
82570607 ATTTAATACG
82570617 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
82570647 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
82570677 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:82571666 original size:27 final size:27
Alignment explanation
Indices: 82571635--82571793 Score: 144
Period size: 27 Copynumber: 5.9 Consensus size: 27
82571625 TATGACCCCG
*
82571635 GTTTGTAAAATTATCGAAATACCCTTA
1 GTTTGTAAAATTATCGAAATACCCTCA
* * *
82571662 GTTTGTAAAATTGTTGAAATTCCCTCA
1 GTTTGTAAAATTATCGAAATACCCTCA
* * * *
82571689 ATTTGTAAAATTACCAAAATACCCCCA
1 GTTTGTAAAATTATCGAAATACCCTCA
*
82571716 GTTTGTAAAATTA-CTGAAATACCC-CC
1 GTTTGTAAAATTATC-GAAATACCCTCA
* *
82571742 GATTTGTAAAATTATTGAAATACCCT-T
1 G-TTTGTAAAATTATCGAAATACCCTCA
* * *
82571769 GTAGTGTAAAAATATCAAAATACCC
1 GT-TTGTAAAATTATCGAAATACCC
82571794 CTATAGGGTA
Statistics
Matches: 107, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.04
27 103 0.96
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
GTTTGTAAAATTATCGAAATACCCTCA
Found at i:82571701 original size:54 final size:54
Alignment explanation
Indices: 82571636--82571768 Score: 176
Period size: 54 Copynumber: 2.5 Consensus size: 54
82571626 ATGACCCCGG
** * *
82571636 TTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTGTTGAAATTCCCTCAA
1 TTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCCCAA
* * ** *
82571690 TTTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCCGA
1 TTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCCCAA
*
82571744 TTTGTAAAATTATTGAAATACCCTT
1 TTTGTAAAATTATCGAAATACCCTT
82571769 GTAGTGTAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (54 bp):
TTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCCCAA
Found at i:82571777 original size:54 final size:53
Alignment explanation
Indices: 82571630--82571779 Score: 165
Period size: 54 Copynumber: 2.8 Consensus size: 53
82571620 GTCGTTATGA
* ** *
82571630 CCCCGGTTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTGTTGAAATTC
1 CCCCGATTTGTAAAATTATCGAAATACCCTT-GTTTGTAAAATTACTGAAATAC
* * * * **
82571684 CCTCAATTTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTACTGAAATAC
1 CCCCGATTTGTAAAATTATCGAAATA-CCCTTGTTTGTAAAATTACTGAAATAC
* *
82571738 CCCCGATTTGTAAAATTATTGAAATACCCTTGTAGTGTAAAA
1 CCCCGATTTGTAAAATTATCGAAATACCCTTGT-TTGTAAAA
82571780 ATATCAAAAT
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
53 5 0.07
54 68 0.89
55 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (53 bp):
CCCCGATTTGTAAAATTATCGAAATACCCTTGTTTGTAAAATTACTGAAATAC
Found at i:82571777 original size:81 final size:81
Alignment explanation
Indices: 82571630--82571794 Score: 192
Period size: 81 Copynumber: 2.0 Consensus size: 81
82571620 GTCGTTATGA
* ** * * *
82571630 CCCCGGTTTGTAAAATTATCGAAATACCCTTAGTTTGTAAAATTGTTGAAATTCCCTCAATTTGT
1 CCCCAGTTTGTAAAATTATCGAAATACCCCGAGTTTGTAAAATTATTGAAATACCCTCAATGTGT
*
82571695 AAAATTACCAAAATAC
66 AAAAATACCAAAATAC
**
82571711 CCCCAGTTTGTAAAATTA-CTGAAATACCCCCGA-TTTGTAAAATTATTGAAATACCCT-TGTAG
1 CCCCAGTTTGTAAAATTATC-GAAATA-CCCCGAGTTTGTAAAATTATTGAAATACCCTCAAT-G
*
82571773 TGTAAAAATATCAAAATAC
63 TGTAAAAATACCAAAATAC
82571792 CCC
1 CCC
82571795 TATAGGGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 2 0.03
81 65 0.92
82 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (81 bp):
CCCCAGTTTGTAAAATTATCGAAATACCCCGAGTTTGTAAAATTATTGAAATACCCTCAATGTGT
AAAAATACCAAAATAC
Found at i:82572208 original size:22 final size:22
Alignment explanation
Indices: 82572156--82572217 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
82572146 GCTGCTTAAT
82572156 TTGATTATGGCTCTGTGCCATC
1 TTGATTATGGCTCTGTGCCATC
* * * *
82572178 CTAAATATGGCTCTGT-CCTATG
1 TTGATTATGGCTCTGTGCC-ATC
*
82572200 TTGATTATGGCTTTGTGC
1 TTGATTATGGCTCTGTGC
82572218 AAATCGTATT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 2 0.07
22 27 0.90
23 1 0.03
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (22 bp):
TTGATTATGGCTCTGTGCCATC
Found at i:82573992 original size:93 final size:93
Alignment explanation
Indices: 82573879--82574050 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
82573869 CGCCCATAAG
* *
82573879 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82573944 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
82573972 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82574037 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
82574051 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:82574047 original size:46 final size:46
Alignment explanation
Indices: 82573872--82574047 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
82573862 TGTAACCCGC
* * *
82573872 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
82573918 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
82573968 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
82574011 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
82574048 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:82575479 original size:13 final size:13
Alignment explanation
Indices: 82575461--82575485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82575451 TTAATAAGAC
82575461 AAAGTTTTTCAAA
1 AAAGTTTTTCAAA
82575474 AAAGTTTTTCAA
1 AAAGTTTTTCAA
82575486 CGTGACACGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAAGTTTTTCAAA
Found at i:82577420 original size:27 final size:26
Alignment explanation
Indices: 82577382--82577565 Score: 165
Period size: 27 Copynumber: 7.0 Consensus size: 26
82577372 TAAGACCTCG
82577382 GTTTGTAAAATTACCGAAATACTCCCA
1 GTTTGTAAAATTACCGAAATAC-CCCA
***
82577409 GTTTGTAAAATTTTTGAAATACCCCTA
1 GTTTGTAAAATTACCGAAATACCCC-A
* * **
82577436 ATTTGTAAAATTATCG-AATACTTCA
1 GTTTGTAAAATTACCGAAATACCCCA
*
82577461 GTTTGTAAAATTACCAAAATACCCTCA
1 GTTTGTAAAATTACCGAAATACCC-CA
*
82577488 GTTTGTAAAATTATCGAAATACCCC-
1 GTTTGTAAAATTACCGAAATACCCCA
* * **
82577513 GATTTGTAAAATTACCAAAACACCCTT
1 G-TTTGTAAAATTACCGAAATACCCCA
* * *
82577540 GTAGTGTAAAATTATCGAAAAACCCC
1 GT-TTGTAAAATTACCGAAATACCCC
82577566 TATAGGGTAA
Statistics
Matches: 127, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
25 15 0.12
26 36 0.28
27 76 0.60
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
GTTTGTAAAATTACCGAAATACCCCA
Found at i:82577470 original size:52 final size:53
Alignment explanation
Indices: 82577383--82577538 Score: 176
Period size: 52 Copynumber: 2.9 Consensus size: 53
82577373 AAGACCTCGG
* ****
82577383 TTTGTAAAATTACCGAAATACTCCCAGTTTGTAAAATTTTTGAAATACCC-CTAA
1 TTTGTAAAATTATCG-AATACTCCCAGTTTGTAAAATTACCAAAATACCCTC-AA
* *
82577437 TTTGTAAAATTATCGAATACT-TCAGTTTGTAAAATTACCAAAATACCCTCAG
1 TTTGTAAAATTATCGAATACTCCCAGTTTGTAAAATTACCAAAATACCCTCAA
*
82577489 TTTGTAAAATTATCGAAATAC-CCC-GATTTGTAAAATTACCAAAACACCCT
1 TTTGTAAAATTATCG-AATACTCCCAG-TTTGTAAAATTACCAAAATACCCT
82577539 TGTAGTGTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
52 39 0.44
53 36 0.40
54 14 0.16
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (53 bp):
TTTGTAAAATTATCGAATACTCCCAGTTTGTAAAATTACCAAAATACCCTCAA
Found at i:82577532 original size:53 final size:53
Alignment explanation
Indices: 82577377--82577565 Score: 197
Period size: 53 Copynumber: 3.6 Consensus size: 53
82577367 GTTGTTAAGA
* * ****
82577377 CCTCGGTTTGTAAAATTACCGAAATACTCCCAGTTTGTAAAATTTTTGAAATAC
1 CCTCAGTTTGTAAAATTATCGAAATAC-CCCAGTTTGTAAAATTACCAAAATAC
* **
82577431 CC-CTAATTTGTAAAATTATCG-AATACTTCAGTTTGTAAAATTACCAAAATAC
1 CCTC-AGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTACCAAAATAC
*
82577483 CCTCAGTTTGTAAAATTATCGAAATACCCC-GATTTGTAAAATTACCAAAACAC
1 CCTCAGTTTGTAAAATTATCGAAATACCCCAG-TTTGTAAAATTACCAAAATAC
* * *
82577536 CCT-TGTAGTGTAAAATTATCGAAAAACCCC
1 CCTCAGT-TTGTAAAATTATCGAAATACCCC
82577566 TATAGGGTAA
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 41 0.36
53 57 0.50
54 16 0.14
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (53 bp):
CCTCAGTTTGTAAAATTATCGAAATACCCCAGTTTGTAAAATTACCAAAATAC
Found at i:82577575 original size:27 final size:27
Alignment explanation
Indices: 82577491--82577578 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
82577481 ACCCTCAGTT
* * *
82577491 TGTAAAATTATCGAAATACCCCGAT-T
1 TGTAAAATTATCGAAAAACCCCTATAG
* * *
82577517 TGTAAAATTA-CCAAAACACCCTTGTAG
1 TGTAAAATTATCGAAAA-ACCCCTATAG
82577544 TGTAAAATTATCGAAAAACCCCTATAG
1 TGTAAAATTATCGAAAAACCCCTATAG
*
82577571 GGTAAAAT
1 TGTAAAAT
82577579 GACTGTTTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
25 4 0.08
26 15 0.31
27 25 0.51
28 5 0.10
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (27 bp):
TGTAAAATTATCGAAAAACCCCTATAG
Found at i:82582280 original size:22 final size:22
Alignment explanation
Indices: 82582253--82582297 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
82582243 TTTATGTTTA
*
82582253 TTAATTCATAATTTAA-TTAATT
1 TTAATTCAT-ATCTAAGTTAATT
*
82582275 TTAATTTATATCTAAGTTAATT
1 TTAATTCATATCTAAGTTAATT
82582297 T
1 T
82582298 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATTCATATCTAAGTTAATT
Found at i:82583475 original size:92 final size:92
Alignment explanation
Indices: 82583318--82583539 Score: 417
Period size: 92 Copynumber: 2.4 Consensus size: 92
82583308 TTAGATTTGA
82583318 TTAATCATTTGAATTGACATAGGAATATGCAAGAGATTAGTTCAATTTAATGAGTATGTATGTGC
1 TTAATCATTTGAATTGACATAGGAATATGCAAGAGATTAGTTCAATTTAATGAGTATGTATGTGC
82583383 AATAACATGTTGTTTATTAAAATCTGT
66 AATAACATGTTGTTTATTAAAATCTGT
82583410 TTAATCATTTGAATTGACATAGGAATATGCAAGAGATTAGTTCAATTTAATGAGTATGTATGTGC
1 TTAATCATTTGAATTGACATAGGAATATGCAAGAGATTAGTTCAATTTAATGAGTATGTATGTGC
82583475 AATAACATGTTGTTTATTAAAATCTGT
66 AATAACATGTTGTTTATTAAAATCTGT
* *
82583502 TTAATCATTTGAATTGACATAGGGATATGTTAAGAGAT
1 TTAATCATTTGAATTGACATAGGAATATG-CAAGAGAT
82583540 GAATAGATTT
Statistics
Matches: 127, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
92 120 0.94
93 7 0.06
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (92 bp):
TTAATCATTTGAATTGACATAGGAATATGCAAGAGATTAGTTCAATTTAATGAGTATGTATGTGC
AATAACATGTTGTTTATTAAAATCTGT
Found at i:82586545 original size:26 final size:24
Alignment explanation
Indices: 82586420--82586588 Score: 239
Period size: 24 Copynumber: 6.9 Consensus size: 24
82586410 CTCTTTTAGC
*
82586420 AACTGGGGCAAAAGCCCTTTTAAT
1 AACTGGGGCATAAGCCCTTTTAAT
* * *
82586444 AATTGGGGCATAAGCGCTTTTGAT
1 AACTGGGGCATAAGCCCTTTTAAT
*
82586468 AACTGGGGCAAAAGCCCTTTTAAT
1 AACTGGGGCATAAGCCCTTTTAAT
*
82586492 AACTGGGGCATAAGCCCTTTTGAT
1 AACTGGGGCATAAGCCCTTTTAAT
*
82586516 AACTGGGGCGTAAGCCCTTTTTTAAT
1 AACTGGGGCATAAGCCC--TTTTAAT
82586542 AACTGGGGCATAAGCCCTTTTTTAAT
1 AACTGGGGCATAAGCCC--TTTTAAT
82586568 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
82586589 GCATTTCCTC
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
24 82 0.63
26 48 0.37
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
AACTGGGGCATAAGCCCTTTTAAT
Found at i:82586663 original size:20 final size:20
Alignment explanation
Indices: 82586638--82586696 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
82586628 TTATGAATAC
82586638 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
82586658 ATCATGTGCATACCATACAT
1 ATCATGTGCATATCATACAT
* *
82586678 GTCATGTGCATATTATACA
1 ATCATGTGCATATCATACA
82586697 GACCATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Done.