Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 133 of 163
Found at i:36364569 original size:25 final size:27
Alignment explanation
Indices: 36364541--36364592 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
36364531 TTTATATGGT
36364541 ATTTGAAAAAAAATT-AT-TATTTTAA
1 ATTTGAAAAAAAATTAATATATTTTAA
** *
36364566 ATTTTTAAATAAATTAATATATTTTAA
1 ATTTGAAAAAAAATTAATATATTTTAA
36364593 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 12 0.55
26 2 0.09
27 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTTGAAAAAAAATTAATATATTTTAA
Found at i:36367222 original size:23 final size:23
Alignment explanation
Indices: 36367196--36367332 Score: 86
Period size: 22 Copynumber: 6.1 Consensus size: 23
36367186 GCGCGCTTAT
*
36367196 TGTTTCGCACTTTGTGTGCTTAC
1 TGTTTCGCACTTTGTGTGCCTAC
* *
36367219 TGTTTCGCACCTCGTGTGCCTAC
1 TGTTTCGCACTTTGTGTGCCTAC
*
36367242 TGATT-GCA-TTGTGTGTGCCTAC
1 TGTTTCGCACTT-TGTGTGCCTAC
* ** * ***
36367264 TAATTT-GGGCTATGTGCATCTAC
1 T-GTTTCGCACTTTGTGTGCCTAC
* *
36367287 TGATT-GCACTATGTGTGCCTAC
1 TGTTTCGCACTTTGTGTGCCTAC
* *
36367309 TGATT-GCACTGTGTGTGCCTAC
1 TGTTTCGCACTTTGTGTGCCTAC
36367331 TG
1 TG
36367333 GATTACACTG
Statistics
Matches: 89, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.01
22 51 0.57
23 36 0.40
24 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.39
Consensus pattern (23 bp):
TGTTTCGCACTTTGTGTGCCTAC
Found at i:36367341 original size:23 final size:22
Alignment explanation
Indices: 36367232--36367349 Score: 128
Period size: 22 Copynumber: 5.3 Consensus size: 22
36367222 TTCGCACCTC
*
36367232 GTGTGCCTACTGATTGCATTGT
1 GTGTGCCTACTGATTGCACTGT
* ** *
36367254 GTGTGCCTACTAATTTGGGCTAT
1 GTGTGCCTACTGA-TTGCACTGT
*** *
36367277 GTGCATCTACTGATTGCACTAT
1 GTGTGCCTACTGATTGCACTGT
36367299 GTGTGCCTACTGATTGCACTGT
1 GTGTGCCTACTGATTGCACTGT
*
36367321 GTGTGCCTACTGGATTACACTGT
1 GTGTGCCTACT-GATTGCACTGT
36367344 GTGTGC
1 GTGTGC
36367350 TTATTGTTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
22 48 0.62
23 30 0.38
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.37
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTGT
Found at i:36367347 original size:45 final size:45
Alignment explanation
Indices: 36367232--36367349 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
36367222 TTCGCACCTC
* **
36367232 GTGTGCCTACTGATTGCATTGTGTGTGCCTACTAATTTGGGCTAT
1 GTGTGCCTACTGATTGCACTGTGTGTGCCTACTAATTTGCACTAT
*** * * *
36367277 GTGCATCTACTGATTGCACTATGTGTGCCTACTGA-TTGCACTGT
1 GTGTGCCTACTGATTGCACTGTGTGTGCCTACTAATTTGCACTAT
*
36367321 GTGTGCCTACTGGATTACACTGTGTGTGC
1 GTGTGCCTACT-GATTGCACTGTGTGTGC
36367350 TTATTGTTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 14 0.24
45 44 0.76
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.37
Consensus pattern (45 bp):
GTGTGCCTACTGATTGCACTGTGTGTGCCTACTAATTTGCACTAT
Found at i:36371553 original size:23 final size:23
Alignment explanation
Indices: 36371520--36371564 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
36371510 ATCGAGATCC
36371520 AAGATTTACATAAAAGTTTTGGGA
1 AAGATTTACAT-AAAGTTTTGGGA
*
36371544 AAGA-TTACATGAAGTTTTGGG
1 AAGATTTACATAAAGTTTTGGG
36371565 TACCCGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 6 0.30
24 4 0.20
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (23 bp):
AAGATTTACATAAAGTTTTGGGA
Found at i:36374163 original size:23 final size:22
Alignment explanation
Indices: 36374116--36374216 Score: 94
Period size: 23 Copynumber: 4.5 Consensus size: 22
36374106 TTCGCACCTC
* * *
36374116 GTGTGCTTACTGATTGCACTGT
1 GTGTGCCTACTAATTGCACTAT
*
36374138 GTGTGCCTACTAATTTGCGCTAT
1 GTGTGCCTACTAA-TTGCACTAT
* * *
36374161 GTGCGCCTACTGATTACACTAT
1 GTGTGCCTACTAATTGCACTAT
* *
36374183 GTGTTCCTACTAGATTGCACTGT
1 GTGTGCCTACTA-ATTGCACTAT
*
36374206 GTGTGCTTACT
1 GTGTGCCTACT
36374217 GTTAAGTACT
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 27 0.44
23 35 0.56
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (22 bp):
GTGTGCCTACTAATTGCACTAT
Found at i:36374217 original size:45 final size:45
Alignment explanation
Indices: 36374116--36374217 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
36374106 TTCGCACCTC
* * *
36374116 GTGTGCTTACTGATTGCACTGTGTGTGCCTACTAATTTGCGCTAT
1 GTGTGCTTACTGATTACACTATGTGTGCCTACTAATTTGCACTAT
* * * *
36374161 GTGCGCCTACTGATTACACTATGTGTTCCTACTAGA-TTGCACTGT
1 GTGTGCTTACTGATTACACTATGTGTGCCTACTA-ATTTGCACTAT
36374206 GTGTGCTTACTG
1 GTGTGCTTACTG
36374218 TTAAGTACTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (45 bp):
GTGTGCTTACTGATTACACTATGTGTGCCTACTAATTTGCACTAT
Found at i:36382577 original size:42 final size:42
Alignment explanation
Indices: 36382525--36382609 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
36382515 CTTCTGAGAA
36382525 GAAAGAAAAATAGACAAACTAGGTTTTTCTTTTCAATTAAAG
1 GAAAGAAAAATAGACAAACTAGGTTTTTCTTTTCAATTAAAG
36382567 GAAAGAAAAATAGACAAACTAGGTTTTTCTTTTCAATTAAAG
1 GAAAGAAAAATAGACAAACTAGGTTTTTCTTTTCAATTAAAG
36382609 G
1 G
36382610 TGAAAGGAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (42 bp):
GAAAGAAAAATAGACAAACTAGGTTTTTCTTTTCAATTAAAG
Found at i:36385160 original size:34 final size:34
Alignment explanation
Indices: 36385122--36385189 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
36385112 TGAATAAATG
36385122 AATGAATGCATACTTGGTAAAAACTACATAAAAA
1 AATGAATGCATACTTGGTAAAAACTACATAAAAA
36385156 AATGAATGCATACTTGGTAAAAACTACATAAAAA
1 AATGAATGCATACTTGGTAAAAACTACATAAAAA
36385190 TTTTACACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (34 bp):
AATGAATGCATACTTGGTAAAAACTACATAAAAA
Found at i:36392376 original size:30 final size:31
Alignment explanation
Indices: 36392329--36392386 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
36392319 TTTGATTTTT
36392329 ATTTAATTTTATACATTTAAATAAATATATTA
1 ATTTAATTTTATACATTT-AATAAATATATTA
*
36392361 ATTT-ATTTT-TACATTTAATTAATATA
1 ATTTAATTTTATACATTTAATAAATATA
36392387 ATTATTAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 9 0.36
30 7 0.28
31 5 0.20
32 4 0.16
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAATTTTATACATTTAATAAATATATTA
Found at i:36392828 original size:11 final size:11
Alignment explanation
Indices: 36392809--36392842 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
36392799 TTTTTTATGA
36392809 AAATA-TTATT
1 AAATATTTATT
36392819 AAATATTTATT
1 AAATATTTATT
36392830 AAATATTT-TT
1 AAATATTTATT
36392840 AAA
1 AAA
36392843 ATTGTCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTATT
Found at i:36392844 original size:11 final size:10
Alignment explanation
Indices: 36392809--36392842 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
36392799 TTTTTTATGA
*
36392809 AAATATTATT
1 AAATATTTTT
36392819 AAATATTTATT
1 AAATATTT-TT
36392830 AAATATTTTT
1 AAATATTTTT
36392840 AAA
1 AAA
36392843 ATTGTCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AAATATTTTT
Found at i:36393909 original size:8 final size:9
Alignment explanation
Indices: 36393876--36393907 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
36393866 TTTTTTTTTA
36393876 TTTAAATAT
1 TTTAAATAT
36393885 TTTAAATAT
1 TTTAAATAT
36393894 TTTAAA-AT
1 TTTAAATAT
36393902 TTTAAA
1 TTTAAA
36393908 ATAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTAAATAT
Found at i:36393930 original size:34 final size:35
Alignment explanation
Indices: 36393890--36393958 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
36393880 AATATTTTAA
36393890 ATATTTTAAAAT-TTT-AAAATAATAAAAATAAATT
1 ATATTTT-AAATCTTTAAAAATAATAAAAATAAATT
* * *
36393924 ATATTTTGACTCTTTAAAAATAATAAAAATTAATT
1 ATATTTTAAATCTTTAAAAATAATAAAAATAAATT
36393959 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 2 0.07
34 10 0.33
35 18 0.60
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (35 bp):
ATATTTTAAATCTTTAAAAATAATAAAAATAAATT
Found at i:36396861 original size:15 final size:16
Alignment explanation
Indices: 36396841--36396881 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
36396831 TGAGTGAAAA
36396841 TAAAATATTTTA-TAT
1 TAAAATATTTTATTAT
*
36396856 TAAAAT-TTTTATTTT
1 TAAAATATTTTATTAT
36396871 TAAAATATTTT
1 TAAAATATTTT
36396882 CAATAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 14 0.61
16 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAAAATATTTTATTAT
Found at i:36405085 original size:27 final size:27
Alignment explanation
Indices: 36405055--36405141 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
36405045 GCATACTGAC
* *
36405055 AATGACACTTCAGTGCAAATTAGTGAT
1 AATGACACTTCAATGCAAATCAGTGAT
* *
36405082 AATGACATTTCAATGCAACTCAGTGAT
1 AATGACACTTCAATGCAAATCAGTGAT
* * * *
36405109 AAT-AGCACCTCGATGCAATTCAATGAT
1 AATGA-CACTTCAATGCAAATCAGTGAT
36405136 AATGAC
1 AATGAC
36405142 TCTTTAGAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
AATGACACTTCAATGCAAATCAGTGAT
Found at i:36415161 original size:16 final size:16
Alignment explanation
Indices: 36415140--36415174 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
36415130 AGTATCAAGT
36415140 CAAGTCAGTTGAGCTG
1 CAAGTCAGTTGAGCTG
36415156 CAAGTCAGTTGAGCTG
1 CAAGTCAGTTGAGCTG
36415172 CAA
1 CAA
36415175 TTACAGCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (16 bp):
CAAGTCAGTTGAGCTG
Found at i:36425124 original size:18 final size:17
Alignment explanation
Indices: 36425090--36425153 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
36425080 TAAATATTGG
*
36425090 ATTTTTTTATATCTTTAA
1 ATTTTTTT-TATTTTTAA
*
36425108 ATTTATTTTTATTTTTAT
1 ATTT-TTTTTATTTTTAA
* *
36425126 ATTTTTTTGAATTTTAAA
1 ATTTTTTT-TATTTTTAA
36425144 GATTTTTTTT
1 -ATTTTTTTT
36425154 TCATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.11
18 21 0.57
19 12 0.32
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTTTTTTTATTTTTAA
Found at i:36425837 original size:15 final size:15
Alignment explanation
Indices: 36425798--36425841 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
36425788 TATTAATATG
*
36425798 AATAATATAATAATT
1 AATAATTTAATAATT
*
36425813 AATTATTTAA-AATT
1 AATAATTTAATAATT
36425827 AAATAATTTAATAAT
1 -AATAATTTAATAAT
36425842 ATTTTCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 17 0.71
16 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATTTAATAATT
Found at i:36427589 original size:19 final size:20
Alignment explanation
Indices: 36427546--36427589 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
36427536 AAATTACAAA
36427546 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
36427566 CAAAAATT-AAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
36427585 AAAAA
1 AAAAA
36427590 TACTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 10 0.48
20 7 0.33
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:36427619 original size:18 final size:18
Alignment explanation
Indices: 36427594--36427632 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
36427584 TAAAAATACT
*
36427594 AAAATTT-AAATTTTTAA
1 AAAATTTAAAAATTTTAA
36427611 AAAATTTTAAAAATTTTAA
1 AAAA-TTTAAAAATTTTAA
36427630 AAA
1 AAA
36427633 TTATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 3 0.16
19 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTAAAAATTTTAA
Found at i:36427623 original size:26 final size:26
Alignment explanation
Indices: 36427555--36427626 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
36427545 AAAAAAATTC
*
36427555 AAAATAATTTTCAAAAATTAAAATATTT
1 AAAA-AATTTT-AAAAATTTAAATATTT
** *
36427583 ATAAAAATACT-AAAATTTAAATTTTT
1 A-AAAAATTTTAAAAATTTAAATATTT
36427609 AAAAAATTTTAAAAATTT
1 AAAAAATTTTAAAAATTT
36427627 TAAAAATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
25 7 0.19
26 21 0.58
28 5 0.14
29 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAAAATTTTAAAAATTTAAATATTT
Found at i:36427624 original size:9 final size:9
Alignment explanation
Indices: 36427560--36427634 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
36427550 AATTCAAAAT
36427560 AATTTTCAAA
1 AATTTT-AAA
36427570 AA--TTAAA
1 AATTTTAAA
36427577 ATATTTATAAA
1 A-ATTT-TAAA
**
36427588 AATACT-AA
1 AATTTTAAA
36427596 AA-TTT-AA
1 AATTTTAAA
*
36427603 ATTTTTAAAA
1 AATTTT-AAA
36427613 AATTTTAAA
1 AATTTTAAA
36427622 AATTTTAAA
1 AATTTTAAA
36427631 AATT
1 AATT
36427635 ATATAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
7 8 0.15
8 10 0.19
9 17 0.33
10 12 0.23
11 5 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTTTAAA
Found at i:36427642 original size:18 final size:19
Alignment explanation
Indices: 36427600--36427642 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36427590 TACTAAAATT
*
36427600 TAAATTTTTAAAAAATTTTA
1 TAAA-TTTTAAAAAATTATA
*
36427620 AAAATTTT-AAAAATTATA
1 TAAATTTTAAAAAATTATA
36427638 TAAAT
1 TAAAT
36427643 AAAGTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 13 0.65
19 4 0.20
20 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATTTTAAAAAATTATA
Found at i:36430784 original size:24 final size:24
Alignment explanation
Indices: 36430751--36430796 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
36430741 TTCGGCCCGG
36430751 TTTTATAATAATAATTTTATTTTTA
1 TTTTATAATAATAATTTT-TTTTTA
*
36430776 TTTT-TAATACTAATTTTTTTT
1 TTTTATAATAATAATTTTTTTT
36430797 ACTTGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTATAATAATAATTTTTTTTTA
Found at i:36431153 original size:111 final size:111
Alignment explanation
Indices: 36430957--36431164 Score: 380
Period size: 111 Copynumber: 1.9 Consensus size: 111
36430947 ATAGAACTCT
* *
36430957 TCACTGACTAATCCCACGTCTAAGGGTCTATCTCTCCCTTTCCACTTGATCATCCAAATCTCATC
1 TCACTGACTAATCCCACGTCTAAGGGTCTATCTCTCCCATTCCACTTAATCATCCAAATCTCATC
36431022 AATTGCTTGTCAAATCCATCCAAAAAAAAAAAAAAGACTAGCAACC
66 AATTGCTTGTCAAATCCATCCAAAAAAAAAAAAAAGACTAGCAACC
*
36431068 TCACTGACTAATCTCACGTCTAAGGGTCTATCTCTCCCATTCCACTTAATCATCCAAATCTCATC
1 TCACTGACTAATCCCACGTCTAAGGGTCTATCTCTCCCATTCCACTTAATCATCCAAATCTCATC
*
36431133 AATTGCTTGTCAAATTCATCCAAAAAAAAAAA
66 AATTGCTTGTCAAATCCATCCAAAAAAAAAAA
36431165 GACTAGCAGC
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.28
Consensus pattern (111 bp):
TCACTGACTAATCCCACGTCTAAGGGTCTATCTCTCCCATTCCACTTAATCATCCAAATCTCATC
AATTGCTTGTCAAATCCATCCAAAAAAAAAAAAAAGACTAGCAACC
Found at i:36431991 original size:15 final size:14
Alignment explanation
Indices: 36431951--36431987 Score: 53
Period size: 11 Copynumber: 2.9 Consensus size: 14
36431941 CATTTAACAA
36431951 TAGTTATAATTTAT
1 TAGTTATAATTTAT
36431965 T--TTA-AATTTAT
1 TAGTTATAATTTAT
36431976 TAGTTATAATTT
1 TAGTTATAATTT
36431988 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 3 0.15
14 6 0.30
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TAGTTATAATTTAT
Found at i:36432010 original size:26 final size:26
Alignment explanation
Indices: 36431951--36432012 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
36431941 CATTTAACAA
* **
36431951 TAGTTATAA-TTTATTTTAAATTTAT
1 TAGTGATAATTTTATTTTAAATAAAT
*
36431976 TAGTTATAATTTTATTTTAAAATAAAT
1 TAGTGATAATTTTATTTT-AAATAAAT
36432003 T-GTGATAATT
1 TAGTGATAATT
36432013 AAGGTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.28
26 16 0.50
27 7 0.22
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (26 bp):
TAGTGATAATTTTATTTTAAATAAAT
Found at i:36432435 original size:15 final size:15
Alignment explanation
Indices: 36432415--36432444 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36432405 TTCTTTTTTA
36432415 CCTCCTCCTCCTTCT
1 CCTCCTCCTCCTTCT
36432430 CCTCCTCCTCCTTCT
1 CCTCCTCCTCCTTCT
36432445 TCTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (15 bp):
CCTCCTCCTCCTTCT
Found at i:36432752 original size:16 final size:16
Alignment explanation
Indices: 36432721--36432768 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
36432711 TTTTAACTTT
36432721 TTTATTTATAAAATATTA
1 TTTATTT-T-AAATATTA
36432739 TTTATTTTAAATATTA
1 TTTATTTTAAATATTA
* **
36432755 CTTACATTAAATAT
1 TTTATTTTAAATAT
36432769 GTTATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 19 0.70
17 1 0.04
18 7 0.26
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTATTTTAAATATTA
Found at i:36433073 original size:24 final size:23
Alignment explanation
Indices: 36433045--36433095 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
36433035 GTTTTTTCTA
36433045 GTTTTT-ATCTGCCTTTGTGGCAC
1 GTTTTTCATCTGCC-TTGTGGCAC
* *
36433068 GTTTTTCCTCTGTCTTGTGGCAC
1 GTTTTTCATCTGCCTTGTGGCAC
36433091 GTTTT
1 GTTTT
36433096 CGCCCACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.51
Consensus pattern (23 bp):
GTTTTTCATCTGCCTTGTGGCAC
Found at i:36436281 original size:21 final size:20
Alignment explanation
Indices: 36436252--36436294 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
36436242 TTGTTTGAAG
* *
36436252 TTGAGCATCTCATTGTTTTTC
1 TTGAACATC-CATTGTTTGTC
*
36436273 TTGAACATCCGTTGTTTGTC
1 TTGAACATCCATTGTTTGTC
36436293 TT
1 TT
36436295 TAGCCTCTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.51
Consensus pattern (20 bp):
TTGAACATCCATTGTTTGTC
Found at i:36437754 original size:20 final size:21
Alignment explanation
Indices: 36437719--36437769 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
36437709 AAAAAAATAA
*
36437719 AAATAATAATAA--GAGCTGAT
1 AAATAATAA-AATTGAGCTCAT
36437739 AAAT-ATAAAATTGAGCTCAT
1 AAATAATAAAATTGAGCTCAT
*
36437759 ATATAATAAAA
1 AAATAATAAAA
36437770 ATTAAGCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.08
19 4 0.15
20 14 0.54
21 6 0.23
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (21 bp):
AAATAATAAAATTGAGCTCAT
Found at i:36444884 original size:26 final size:26
Alignment explanation
Indices: 36444848--36444995 Score: 188
Period size: 26 Copynumber: 5.7 Consensus size: 26
36444838 TCGCTCGAGA
* *
36444848 AGTTTAGCTCATACGAGCCCAGATAG
1 AGTTTAGCTCTTACGAGCCCAGACAG
*
36444874 AGTTTAGCTCATACGAGCCCAGACAG
1 AGTTTAGCTCTTACGAGCCCAGACAG
* *
36444900 AGTTTAGCTCTTACAAGCCTAGACAG
1 AGTTTAGCTCTTACGAGCCCAGACAG
*
36444926 AATTTAGCTCTTACGAGCCCAGACAG
1 AGTTTAGCTCTTACGAGCCCAGACAG
* * * *
36444952 AATTTAGTTCTTATGAGCCCAGACAA
1 AGTTTAGCTCTTACGAGCCCAGACAG
* *
36444978 AGTTTAGTTCTTGCGAGC
1 AGTTTAGCTCTTACGAGC
36444996 TAGAATTCAT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 109 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (26 bp):
AGTTTAGCTCTTACGAGCCCAGACAG
Found at i:36444958 original size:78 final size:79
Alignment explanation
Indices: 36444845--36444989 Score: 211
Period size: 78 Copynumber: 1.8 Consensus size: 79
36444835 AAGTCGCTCG
* * *
36444845 AGAAGTTTAGCTCATACGAGCCCAGATAGAGTTTAGCTCATACGAGCCCAGACAGAGTTTAGCTC
1 AGAAGTTTAGCTCATACGAGCCCAGACAGAATTTAGCTCATACGAGCCCAGACAAAGTTTAGCTC
36444910 TTACAAGCCTAGAC
66 TTACAAGCCTAGAC
* * * * *
36444924 AGAA-TTTAGCTCTTACGAGCCCAGACAGAATTTAGTTCTTATGAGCCCAGACAAAGTTTAGTTC
1 AGAAGTTTAGCTCATACGAGCCCAGACAGAATTTAGCTCATACGAGCCCAGACAAAGTTTAGCTC
36444988 TT
66 TT
36444990 GCGAGCTAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 54 0.93
79 4 0.07
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (79 bp):
AGAAGTTTAGCTCATACGAGCCCAGACAGAATTTAGCTCATACGAGCCCAGACAAAGTTTAGCTC
TTACAAGCCTAGAC
Found at i:36446911 original size:59 final size:59
Alignment explanation
Indices: 36446809--36447034 Score: 190
Period size: 59 Copynumber: 3.8 Consensus size: 59
36446799 ACCCGGTGGC
* * * * * * *
36446809 AAAATGGTAATTTTGGGAC-TCTCAAGGGAAAAATGG-AAATTTTGGGAAGATTCGGGGTTA
1 AAAATGG-AATTTTTGGACAT-TCAGGGGTAAAATGGTAATTTTTGGGAA-AATCGGGATAA
** * *
36446869 AAAAT-GACA-TTTTGGATGTTCAGGGGTTAAATGGTAATTTTTGGTAAAATCGGGATAA
1 AAAATGGA-ATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGGAAAATCGGGATAA
** * * ** *
36446927 AAAATGGAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTAAGAAAAATTGAAATCA
1 AAAATGGAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGGAAAATCGGGATAA
* * * *
36446986 AAAATAGAATTTTTAGACATTCGGGGGTAAAATGGTAATTTTTAGGAAA
1 AAAATGGAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGGAAA
36447035 TTTGAGGTTA
Statistics
Matches: 136, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
58 33 0.24
59 98 0.72
60 5 0.04
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (59 bp):
AAAATGGAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGGAAAATCGGGATAA
Found at i:36446958 original size:29 final size:30
Alignment explanation
Indices: 36446809--36446968 Score: 97
Period size: 29 Copynumber: 5.5 Consensus size: 30
36446799 ACCCGGTGGC
* *
36446809 AAAATGGTAATTTTGGGAC-TCTCAAGGG-A
1 AAAATGGTAATTTTTGGACAT-TCAGGGGTA
* * *
36446838 AAAATGGAAATTTTGGGAAGATTC-GGGGTTA
1 AAAATGGTAATTTTTGG-ACATTCAGGGG-TA
**
36446869 AAAAT-G-ACA-TTTTGGATGTTCAGGGGT-
1 AAAATGGTA-ATTTTTGGACATTCAGGGGTA
* * * *
36446896 TAAATGGTAATTTTTGGTAAAATC-GGGATAA
1 AAAATGGTAATTTTTGG-ACATTCAGGGGT-A
36446927 AAAATGG-AATTTTTGGACATTCAGGGGT-
1 AAAATGGTAATTTTTGGACATTCAGGGGTA
36446955 AAAATGGTAATTTT
1 AAAATGGTAATTTT
36446969 AAGAAAAATT
Statistics
Matches: 102, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
27 4 0.04
28 14 0.14
29 50 0.49
30 21 0.21
31 13 0.13
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGACATTCAGGGGTA
Found at i:36447025 original size:29 final size:29
Alignment explanation
Indices: 36446986--36447174 Score: 122
Period size: 29 Copynumber: 6.5 Consensus size: 29
36446976 ATTGAAATCA
* * *
36446986 AAAATAGAATTTTTA-GACATTCGGGGGT
1 AAAATGGAATTTTTAGGAAATTCGAGGGT
* *
36447014 AAAATGGTAATTTTTAGGAAATTTGAGGTT
1 AAAATGG-AATTTTTAGGAAATTCGAGGGT
* *
36447044 AAAATGGAA-TTTTAGGAAGTTCGAGGTT
1 AAAATGGAATTTTTAGGAAATTCGAGGGT
* * *
36447072 AAAAAT-GAATTTTTTGGAAGTTCGACGGT
1 -AAAATGGAATTTTTAGGAAATTCGAGGGT
* *
36447101 AAAATTGTAATTTTT-GGAAGTTTCG-GGGT
1 AAAA-TGGAATTTTTAGGAA-ATTCGAGGGT
*
36447130 CAAAATGCAA-TTTT-GGAGAAGTTCGAGGGT
1 -AAAATGGAATTTTTAGGA-AA-TTCGAGGGT
**
36447160 CAAAATATAATTTTT
1 -AAAATGGAATTTTT
36447175 GGATAGTTTA
Statistics
Matches: 132, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
28 37 0.28
29 48 0.36
30 43 0.33
31 4 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAATGGAATTTTTAGGAAATTCGAGGGT
Found at i:36447075 original size:58 final size:58
Alignment explanation
Indices: 36446927--36447075 Score: 151
Period size: 59 Copynumber: 2.6 Consensus size: 58
36446917 ATCGGGATAA
* * * * ** *
36446927 AAAATGGAATTTTTGGACATTC-AGGGGTAAAATGGTAATTTTAAGAAAAATTGAAATCA
1 AAAATGGAATTTTAGGACATTCGA-GGGTAAAATGGTAATTTTTAGGAAATTTGAGGT-T
* *
36446986 AAAATAGAATTTTTA-GACATTCGGGGGTAAAATGGTAATTTTTAGGAAATTTGAGGTT
1 AAAATGGAA-TTTTAGGACATTCGAGGGTAAAATGGTAATTTTTAGGAAATTTGAGGTT
*
36447044 AAAATGGAATTTTAGGA-AGTTCGAGGTTAAAA
1 AAAATGGAATTTTAGGACA-TTCGAGGGTAAAA
36447076 ATGAATTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
57 6 0.08
58 21 0.28
59 43 0.58
60 4 0.05
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (58 bp):
AAAATGGAATTTTAGGACATTCGAGGGTAAAATGGTAATTTTTAGGAAATTTGAGGTT
Found at i:36447135 original size:30 final size:27
Alignment explanation
Indices: 36447009--36447182 Score: 125
Period size: 29 Copynumber: 6.0 Consensus size: 27
36446999 TAGACATTCG
* *
36447009 GGGGTAAAATGGTAATTTTTAGGAAATTT
1 GGGGTAAAAT-GTAATTTTT-GGAAGTTC
* * *
36447038 GAGGTTAAAATGGAATTTTAGGAAGTTC
1 G-GGGTAAAATGTAATTTTTGGAAGTTC
*
36447066 GAGGTTAAAAATG-AATTTTTTGGAAGTTC
1 G-GGGT-AAAATGTAA-TTTTTGGAAGTTC
*
36447095 GACGGTAAAATTGTAATTTTTGGAAGTTTC
1 G-GGGTAAAA-TGTAATTTTTGGAAG-TTC
* *
36447125 GGGGTCAAAATGCAATTTTGGAGAAGTTC
1 GGGGT-AAAATGTAATTTTTG-GAAGTTC
*
36447154 GAGGGTCAAAATATAATTTTTGGATAGTT
1 G-GGGT-AAAATGTAATTTTTGGA-AGTT
36447183 TAGGGACCTC
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
28 18 0.15
29 60 0.50
30 43 0.36
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (27 bp):
GGGGTAAAATGTAATTTTTGGAAGTTC
Found at i:36449227 original size:16 final size:16
Alignment explanation
Indices: 36449189--36449242 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
36449179 TATTTTATTA
* *
36449189 AATTTACAATAATATTA
1 AATTTAAAATAA-ATTG
*
36449206 AATTTAAATTAAATTG
1 AATTTAAAATAAATTG
*
36449222 AATTTAAAATAAATTT
1 AATTTAAAATAAATTG
36449238 AATTT
1 AATTT
36449243 CAAAGTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 22 0.69
17 10 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
AATTTAAAATAAATTG
Found at i:36449927 original size:29 final size:30
Alignment explanation
Indices: 36449899--36449956 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
36449889 AAATCATAAT
36449899 TTAATAAT-TA-TTTAAAAAATAATTTTAA
1 TTAATAATATATTTTAAAAAATAATTTTAA
**
36449927 -TAATTTTATATTTTAAAAAATAATTTTAA
1 TTAATAATATATTTTAAAAAATAATTTTAA
36449956 T
1 T
36449957 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.20
28 2 0.08
29 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TTAATAATATATTTTAAAAAATAATTTTAA
Found at i:36449950 original size:20 final size:22
Alignment explanation
Indices: 36449925--36449966 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
36449915 AAATAATTTT
36449925 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
36449945 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
36449967 TCATTTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:36449967 original size:20 final size:20
Alignment explanation
Indices: 36449916--36449972 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
36449906 TTATTTAAAA
36449916 AATAATTTT--AATAATTTT
1 AATAATTTTAAAATAATTTT
36449934 -AT-ATTTTAAAAAATAATTTT
1 AATAATTTT--AAAATAATTTT
*
36449954 AATAATTTTAAAATCATTT
1 AATAATTTTAAAATAATTT
36449973 ATTGACGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
20 18 0.56
21 2 0.06
22 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:36450784 original size:45 final size:45
Alignment explanation
Indices: 36450722--36451826 Score: 1398
Period size: 45 Copynumber: 25.3 Consensus size: 45
36450712 TATGTCGTAT
** *
36450722 TAATCAATCAAATAATATTTACCATATCACACATATCGTATAACA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
36450767 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
*
36450812 TAATTAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36450857 TAATCAGTCAAATAATATTTACCATATCATACATATCGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* * ** * *
36450902 TAATCAATTAAACAATATTTGTCATGTCATGCATATCATATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* * *
36450947 TAATCAATCAAATAATATTTATCATATCATACATATCATATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* * *
36450992 CAATCAATCAAATATTATTTACCATGTCATG-----C--ATA-CA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451029 TAATCAATCAAATAATATTTACCATATTATCCATATCGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
*
36451074 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGAA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451119 TAATCAATCAAATAATATTTACCATATTATACATATCGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
*
36451164 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGAA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* * *
36451209 TAATCAATCAAATAATATTTACCATATCATGCATACCATTTAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* ** *
36451254 TAATCAATCAAATATTATTTACCATATCATATATATCGTATAACA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451299 TAATCAATCAAATAATATTTACCATGTCATGCATATCATATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451344 TAATCAATCAAATAATATTTACCATATCATACATATTGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451389 TAATCAATCAAATATTATTTACCATGTCATG-----C--ATA-CA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* * *
36451426 TAATCAATCAAATAATATTTACCATGTCATGCATATCGCATAGTA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451471 TAATCAATCAAATAATATTTACCATATCATACATATCGTATAACA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451516 TAATCAATCAAATAATATTTACCATATCATACATATCTTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451561 TAATCAATCAAATAATATTTACCATATCATACATATCGTATAACA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* * * * *
36451606 TAACCAATTAAATAATATTTACCATGTGATGCATATCGTAT-GAAA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAG-CA
* * * *
36451651 TACTTAATCAAATAATATTTATCATATCATGCATAACGTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451696 TAGTCAATCAATTAATATTTACC--AT-AT-C----C-TATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451732 TAATCAATCACATAACATTTAC-----CAT--AT-T-GTATAGCA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
* *
36451768 TAATCAATCAAATAACATTTACCATATCATGCATATCGTATAACA
1 TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
*
36451813 TAATTAATCAAATA
1 TAATCAATCAAATA
36451827 CTAACTAACT
Statistics
Matches: 926, Mismatches: 102, Indels: 64
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.00
36 53 0.06
37 61 0.07
38 6 0.01
40 1 0.00
41 4 0.00
42 4 0.00
43 4 0.00
44 7 0.01
45 783 0.85
46 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (45 bp):
TAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCA
Found at i:36451238 original size:397 final size:397
Alignment explanation
Indices: 36450722--36451720 Score: 1581
Period size: 397 Copynumber: 2.5 Consensus size: 397
36450712 TATGTCGTAT
* *
36450722 TAATCAATCAAATAATATTTACCATATCACACATATCGTATAACATAATCAATCAAATAATATTT
1 TAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTT
* *
36450787 ACCATATCATGCATATCGTATAGCATAATTAATCAAATAATATTTACCATATCATGCATATCGTA
66 ACCATATCATGCATATCGTATAGAATAATCAATCAAATAATATTTACCATATCATGCATATCGTA
* *
36450852 TAGCATAATCAGTCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATTAAACAA
131 TAGCATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAACAA
** *
36450917 TATTTGTCATGTCATGCATATCATATAGCATAATCAATCAAATAATATTTATCATATCATACATA
196 TATTTACCATGTCATGCATATCATATAGCATAATCAATCAAATAATATTTACCATATCATACATA
36450982 TCATATAGCACAATCAATCAAATATTATTTACCATGTCATGCATACATAATCAATCAAATAATAT
261 TCATATAGCACAATCAATCAAATATTATTTACCATGTCATGCATACATAATCAATCAAATAATAT
* * *
36451047 TTACCATATTATCCATATCGTATAGCATAATCAATCAAATAATATTTACCATATCATGCATATCG
326 TTACCATATCATCCATATCGCATAGCATAATCAATCAAATAATATTTACCATATCATACATATCG
36451112 TATAGA-A
391 TATA-ACA
*
36451119 TAATCAATCAAATAATATTTACCATATTATACATATCGTATAGCATAATCAATCAAATAATATTT
1 TAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTT
* * *
36451184 ACCATATCATGCATATCGTATAGAATAATCAATCAAATAATATTTACCATATCATGCATACCATT
66 ACCATATCATGCATATCGTATAGAATAATCAATCAAATAATATTTACCATATCATGCATATCGTA
* * * *
36451249 TAGCATAATCAATCAAATATTATTTACCATATCATATATATCGTATAACATAATCAATCAAATAA
131 TAGCATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAACAA
36451314 TATTTACCATGTCATGCATATCATATAGCATAATCAATCAAATAATATTTACCATATCATACATA
196 TATTTACCATGTCATGCATATCATATAGCATAATCAATCAAATAATATTTACCATATCATACATA
** *
36451379 TTGTATAGCATAATCAATCAAATATTATTTACCATGTCATGCATACATAATCAATCAAATAATAT
261 TCATATAGCACAATCAATCAAATATTATTTACCATGTCATGCATACATAATCAATCAAATAATAT
* * *
36451444 TTACCATGTCATGCATATCGCATAGTATAATCAATCAAATAATATTTACCATATCATACATATCG
326 TTACCATATCATCCATATCGCATAGCATAATCAATCAAATAATATTTACCATATCATACATATCG
36451509 TATAACA
391 TATAACA
*
36451516 TAATCAATCAAATAATATTTACCATATCATACATATCTTATAGCATAATCAATCAAATAATATTT
1 TAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTT
* * * * *
36451581 ACCATATCATACATATCGTATA-ACATAACCAATTAAATAATATTTACCATGTGATGCATATCGT
66 ACCATATCATGCATATCGTATAGA-ATAATCAATCAAATAATATTTACCATATCATGCATATCGT
* * * * * * * **
36451645 AT-GAAATACTTAATCAAATAATATTTATCATATCATGCATAACGTATAGCATAGTCAATCAATT
130 ATAG-CATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAAC
36451709 AATATTTACCAT
194 AATATTTACCAT
36451721 ATCCTATAGC
Statistics
Matches: 552, Mismatches: 47, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
396 3 0.01
397 549 0.99
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (397 bp):
TAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAATAATATTT
ACCATATCATGCATATCGTATAGAATAATCAATCAAATAATATTTACCATATCATGCATATCGTA
TAGCATAATCAATCAAATAATATTTACCATATCATACATATCGTATAGCATAATCAATCAAACAA
TATTTACCATGTCATGCATATCATATAGCATAATCAATCAAATAATATTTACCATATCATACATA
TCATATAGCACAATCAATCAAATATTATTTACCATGTCATGCATACATAATCAATCAAATAATAT
TTACCATATCATCCATATCGCATAGCATAATCAATCAAATAATATTTACCATATCATACATATCG
TATAACA
Found at i:36451423 original size:33 final size:33
Alignment explanation
Indices: 36451386--36451460 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 33
36451376 ATATTGTATA
*
36451386 GCATAATCAATCAAATATTATTTACCATGTCAT
1 GCATAATCAATCAAATAATATTTACCATGTCAT
36451419 GCATACATAATCAATCAAATAATATTTACCATGTCAT
1 G----CATAATCAATCAAATAATATTTACCATGTCAT
36451456 GCATA
1 GCATA
36451461 TCGCATAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
33 5 0.14
37 32 0.86
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (33 bp):
GCATAATCAATCAAATAATATTTACCATGTCAT
Found at i:36452358 original size:28 final size:28
Alignment explanation
Indices: 36452318--36452496 Score: 189
Period size: 28 Copynumber: 6.3 Consensus size: 28
36452308 AATTTTTTGA
*
36452318 AAAATAGTGGCAAAACTATAAAATCTGG
1 AAAACAGTGGCAAAACTATAAAATCTGG
* * *
36452346 AAAACAGCGGCAAAACTGTAAAAT-TTG
1 AAAACAGTGGCAAAACTATAAAATCTGG
* * **
36452373 AAGAACCAGTGGCAAAATTGTAAAATCTAA
1 AA-AA-CAGTGGCAAAACTATAAAATCTGG
* *
36452403 AAAATCAGTGGGAAAACCATAAAATCTGG
1 AAAA-CAGTGGCAAAACTATAAAATCTGG
* * * *
36452432 AAAATAGTGACAAAACTGTAAAATCTAG
1 AAAACAGTGGCAAAACTATAAAATCTGG
36452460 AAAACAGTGGCAAAACTATAAAATCTGG
1 AAAACAGTGGCAAAACTATAAAATCTGG
*
36452488 AAAATAGTG
1 AAAACAGTG
36452497 TAAGTTTCAA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 4 0.03
28 73 0.60
29 42 0.34
30 3 0.02
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAACAGTGGCAAAACTATAAAATCTGG
Found at i:36452384 original size:57 final size:56
Alignment explanation
Indices: 36452318--36452496 Score: 207
Period size: 57 Copynumber: 3.2 Consensus size: 56
36452308 AATTTTTTGA
* * * * * *
36452318 AAAATAGTGGCAAAACTATAAAATCTGGAAAACAGCGGCAAAACTGTAAAAT-TTG
1 AAAACAGTGGCAAAACTGTAAAATCTAGAAAACAGTGGCAAAACTATAAAATCTGG
* * * *
36452373 AAGAACCAGTGGCAAAATTGTAAAATCTAAAAAATCAGTGGGAAAACCATAAAATCTGG
1 AA-AA-CAGTGGCAAAACTGTAAAATCTAGAAAA-CAGTGGCAAAACTATAAAATCTGG
* *
36452432 AAAATAGTGACAAAACTGTAAAATCTAGAAAACAGTGGCAAAACTATAAAATCTGG
1 AAAACAGTGGCAAAACTGTAAAATCTAGAAAACAGTGGCAAAACTATAAAATCTGG
*
36452488 AAAATAGTG
1 AAAACAGTG
36452497 TAAGTTTCAA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
55 2 0.02
56 33 0.32
57 47 0.45
58 18 0.17
59 4 0.04
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (56 bp):
AAAACAGTGGCAAAACTGTAAAATCTAGAAAACAGTGGCAAAACTATAAAATCTGG
Found at i:36453485 original size:33 final size:33
Alignment explanation
Indices: 36453437--36453563 Score: 113
Period size: 33 Copynumber: 3.9 Consensus size: 33
36453427 TATCTACCAT
* *
36453437 TCAAGAATTTCAATTCATTCATATATTATAAATAA
1 TCAAGAA-TT-AATTCATTCATATATCATAAAGAA
*
36453472 TCAAGAATTAATTCATTCATATATCACAAAGAA
1 TCAAGAATTAATTCATTCATATATCATAAAGAA
36453505 TCAA-AA-T--TTCATTCATATATCATAATA-AA
1 TCAAGAATTAATTCATTCATATATCATAA-AGAA
* ** *
36453534 T-AAAAACGCAATCCATTCATATATCATAAA
1 TCAAGAA-TTAATTCATTCATATATCATAAA
36453564 TAGAAATATT
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.03
29 22 0.28
30 1 0.01
31 1 0.01
32 3 0.04
33 42 0.52
34 2 0.03
35 7 0.09
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (33 bp):
TCAAGAATTAATTCATTCATATATCATAAAGAA
Found at i:36453539 original size:29 final size:29
Alignment explanation
Indices: 36453483--36453539 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
36453473 CAAGAATTAA
*
36453483 TTCATTCATATATCACAAAGAATCAAAAT
1 TTCATTCATATATCACAAAGAATAAAAAT
*
36453512 TTCATTCATATATCATAATA-AATAAAAA
1 TTCATTCATATATCACAA-AGAATAAAAA
36453540 CGCAATCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (29 bp):
TTCATTCATATATCACAAAGAATAAAAAT
Found at i:36453637 original size:34 final size:35
Alignment explanation
Indices: 36453571--36453638 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
36453561 AAATAGAAAT
* *
36453571 ATTTTCAATTTATTCATGTATCATAAACAATCAAAG
1 ATTTTCAATTCATTCATATAT-ATAAACAATCAAAG
36453607 ATTTTCAATTCATTCATATAT-TAAACAATCAA
1 ATTTTCAATTCATTCATATATATAAACAATCAA
36453639 GTAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 11 0.37
36 19 0.63
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.40
Consensus pattern (35 bp):
ATTTTCAATTCATTCATATATATAAACAATCAAAG
Found at i:36454860 original size:30 final size:31
Alignment explanation
Indices: 36454826--36454891 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 31
36454816 ACATATAACT
36454826 TATAA-CTTATGGGTGCAGTAAACTGCCATA
1 TATAACCTTATGGGTGCAGTAAACTGCCATA
36454856 TATAACTTCCTTATGGGTGCAGTAAACTGCCATA
1 TATAA---CCTTATGGGTGCAGTAAACTGCCATA
36454890 TA
1 TA
36454892 CTTCCTCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 5 0.16
34 27 0.84
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (31 bp):
TATAACCTTATGGGTGCAGTAAACTGCCATA
Found at i:36457901 original size:45 final size:45
Alignment explanation
Indices: 36457843--36458011 Score: 205
Period size: 45 Copynumber: 3.8 Consensus size: 45
36457833 ATCATGTGTG
** * *
36457843 TCGTATAGTATAATCAATCAAATAACATTTACCATATCACGCATA
1 TCGTATAACATAATCAATCAAATAATATTTACCATATCATGCATA
* * *
36457888 TTGTATAACATAATCAATAAAATAATATTTACCATGTCATGCATA
1 TCGTATAACATAATCAATCAAATAATATTTACCATATCATGCATA
* * *
36457933 TCGTATAGCATAATTAATCAAATAATATTTATCATATCATGCATA
1 TCGTATAACATAATCAATCAAATAATATTTACCATATCATGCATA
* **
36457978 TCGTATAGA-ATACTTTATCAAATAATATTTACCA
1 TCGTATA-ACATAATCAATCAAATAATATTTACCA
36458012 CACCATAATT
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
45 106 1.00
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (45 bp):
TCGTATAACATAATCAATCAAATAATATTTACCATATCATGCATA
Found at i:36457984 original size:90 final size:90
Alignment explanation
Indices: 36457843--36458011 Score: 232
Period size: 90 Copynumber: 1.9 Consensus size: 90
36457833 ATCATGTGTG
* *
36457843 TCGTATAGTATAATCAATCAAATAACATTTACCATATCACGCATATTGTATA-ACATAATCAATA
1 TCGTATAGCATAATCAATCAAATAACATTTACCATATCACGCATATCGTATAGA-ATAATCAATA
36457907 AAATAATATTTACCATGTCATGCATA
65 AAATAATATTTACCATGTCATGCATA
* * * * * ** *
36457933 TCGTATAGCATAATTAATCAAATAATATTTATCATATCATGCATATCGTATAGAATACTTTATCA
1 TCGTATAGCATAATCAATCAAATAACATTTACCATATCACGCATATCGTATAGAATAATCAATAA
36457998 AATAATATTTACCA
66 AATAATATTTACCA
36458012 CACCATAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
90 67 0.99
91 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (90 bp):
TCGTATAGCATAATCAATCAAATAACATTTACCATATCACGCATATCGTATAGAATAATCAATAA
AATAATATTTACCATGTCATGCATA
Found at i:36458072 original size:74 final size:74
Alignment explanation
Indices: 36457941--36458085 Score: 218
Period size: 74 Copynumber: 2.0 Consensus size: 74
36457931 TATCGTATAG
* * * * *
36457941 CATAATTAATCAAATAATATTTATCATATCATGCATATCGTATAGAATACTTTATCAAATAATAT
1 CATAATTAATCAAATAATATTTACCACATCATGCATATCATATAGAATAATTAATCAAATAATAT
36458006 TTACCACAC
66 TTACCACAC
* * *
36458015 CATAATTAATCAAGTAGTATTTACCACATCATGCATATCATATAGCATAATTAATCAAATAATAT
1 CATAATTAATCAAATAATATTTACCACATCATGCATATCATATAGAATAATTAATCAAATAATAT
36458080 TTACCA
66 TTACCA
36458086 TATAATACAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (74 bp):
CATAATTAATCAAATAATATTTACCACATCATGCATATCATATAGAATAATTAATCAAATAATAT
TTACCACAC
Found at i:36458081 original size:45 final size:45
Alignment explanation
Indices: 36458015--36458130 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
36458005 TTTACCACAC
* * * *
36458015 CATAATTAATCAAGTAGTATTTACCACATCATGCATATCATATAG
1 CATAATTAATCAAATAATATTTACCACATAATACATATCATATAG
* *
36458060 CATAATTAATCAAATAATATTTACCATATAATACATATCGTATAG
1 CATAATTAATCAAATAATATTTACCACATAATACATATCATATAG
* *
36458105 CAAAATCAATCAAATAATATTTACCA
1 CATAATTAATCAAATAATATTTACCA
36458131 TGTCATGTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (45 bp):
CATAATTAATCAAATAATATTTACCACATAATACATATCATATAG
Found at i:36458117 original size:119 final size:119
Alignment explanation
Indices: 36457913--36458130 Score: 339
Period size: 119 Copynumber: 1.8 Consensus size: 119
36457903 AATAAAATAA
** * * * *
36457913 TATTTACCATGTCATGCATATCGTATAGCATAATTAATCAAATAATATTTATCATATCATGCATA
1 TATTTACCACATCATGCATATCATATAGCATAATTAATCAAATAATATTTACCATATAATACATA
* **
36457978 TCGTATAGAATACTTTATCAAATAATATTTACCACACCATAATTAATCAAGTAG
66 TCGTATAGAATAATCAATCAAATAATATTTACCACACCATAATTAATCAAGTAG
36458032 TATTTACCACATCATGCATATCATATAGCATAATTAATCAAATAATATTTACCATATAATACATA
1 TATTTACCACATCATGCATATCATATAGCATAATTAATCAAATAATATTTACCATATAATACATA
36458097 TCGTATAGCAA-AATCAATCAAATAATATTTACCA
66 TCGTATAG-AATAATCAATCAAATAATATTTACCA
36458131 TGTCATGTGA
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 87 0.98
120 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (119 bp):
TATTTACCACATCATGCATATCATATAGCATAATTAATCAAATAATATTTACCATATAATACATA
TCGTATAGAATAATCAATCAAATAATATTTACCACACCATAATTAATCAAGTAG
Found at i:36462710 original size:8 final size:8
Alignment explanation
Indices: 36462697--36462724 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
36462687 AAAATAAAAA
36462697 TTAATATT
1 TTAATATT
36462705 TTAATATT
1 TTAATATT
36462713 TTAATATT
1 TTAATATT
36462721 TTAA
1 TTAA
36462725 AAATTAAAAA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTAATATT
Found at i:36467118 original size:20 final size:21
Alignment explanation
Indices: 36467082--36467127 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
36467072 ACAACCCAAA
36467082 TATTTAATTCAAAATATTTAAT
1 TATTTAATT-AAAATATTTAAT
36467104 TATTTAATT-AAATATTTAAT
1 TATTTAATTAAAATATTTAAT
36467124 TATT
1 TATT
36467128 AAAAACAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.62
22 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTAATTAAAATATTTAAT
Found at i:36467132 original size:144 final size:147
Alignment explanation
Indices: 36466967--36467297 Score: 499
Period size: 144 Copynumber: 2.2 Consensus size: 147
36466957 TGGATTTTTT
** **
36466967 TTAAAT-TTTAAATTAGAAAAAACAACCCAAATACTTCATTATTTAATTACTTAAATCAACCCAA
1 TTAAATATTT-AATTATTAAAAACAACCCAAATACTGAATTATTTAATTACTTAAATCAACCCAA
36467031 TTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTC-A-A
65 TTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAATA
36467094 A-ATATTTAATTATTTAA
130 ATATATTTAATTATTTAA
* *
36467111 TTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTATTTAAATCAACTCAAT
1 TTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTACTTAAATCAACCCAAT
*
36467176 TAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACTCAAATATTTAATTCAAAAT
66 TAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTC---A-
36467241 ATTTAATTATATTTAATTATTTAA
127 A--TAA-TATATTTAATTATTTAA
36467265 TTAAATATTTAATTATTAAAAACAACCCAAATA
1 TTAAATATTTAATTATTAAAAACAACCCAAATA
36467298 TTTAATTCAA
Statistics
Matches: 169, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
144 114 0.67
145 3 0.02
149 1 0.01
152 2 0.01
154 49 0.29
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (147 bp):
TTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTACTTAAATCAACCCAAT
TAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAATAA
TATATTTAATTATTTAA
Found at i:36467196 original size:34 final size:34
Alignment explanation
Indices: 36467107--36467197 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 34
36467097 ATTTAATTAT
* *
36467107 TTAATTAAATATTTAATTATTAAAAACAACCCAA
1 TTAATTAATTATTTAATTATTTAAAACAACCCAA
* * * * *
36467141 ATACTGAATTATTTAATTATTTAAATCAACTCAA
1 TTAATTAATTATTTAATTATTTAAAACAACCCAA
*
36467175 TTAATTAATTAATTAATTATTTA
1 TTAATTAATTATTTAATTATTTA
36467198 TTTATTTAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (34 bp):
TTAATTAATTATTTAATTATTTAAAACAACCCAA
Found at i:36467274 original size:20 final size:18
Alignment explanation
Indices: 36467240--36467281 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
36467230 TAATTCAAAA
36467240 TATTTAATTATATTTAAT
1 TATTTAATTATATTTAAT
36467258 TATTTAATTAAATATTTAAT
1 TATTTAATT--ATATTTAAT
36467278 TATT
1 TATT
36467282 AAAAACAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAATTATATTTAAT
Found at i:36467283 original size:70 final size:70
Alignment explanation
Indices: 36467175--36467333 Score: 232
Period size: 70 Copynumber: 2.3 Consensus size: 70
36467165 ATCAACTCAA
* * ** *
36467175 TTAATTA-A-TTAATTAATTATTTATTTATTTAAATATTAAAAACAACTCAAATATTTAATTCAA
1 TTAATTATATTTAATTATTTAATTAAATATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
36467238 AATAT
66 AATAT
*
36467243 TTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATTCAA
1 TTAATTATATTTAATTATTTAATTAAATATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
36467308 AATAT
66 AATAT
36467313 TTAATTAAATATTTAATTATT
1 TTAATT--ATATTTAATTATT
36467334 AAAAACACCC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
68 7 0.09
69 1 0.01
70 60 0.74
72 13 0.16
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.47
Consensus pattern (70 bp):
TTAATTATATTTAATTATTTAATTAAATATTTAAATATTAAAAACAACCCAAATATTTAATTCAA
AATAT
Found at i:36467296 original size:26 final size:26
Alignment explanation
Indices: 36467267--36467358 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
36467257 TTATTTAATT
36467267 AAATATTTAATTATTAAAAACAACCC
1 AAATATTTAATTATTAAAAACAACCC
** **
36467293 AAATATTTAATTCA--AAATATTTAA-TT
1 AAATATTTAATT-ATTAAA-A-ACAACCC
36467319 AAATATTTAATTATTAAAAAC-ACCC
1 AAATATTTAATTATTAAAAACAACCC
*
36467344 AAATACTTAATTATT
1 AAATATTTAATTATT
36467359 TAATTAGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
24 1 0.02
25 18 0.35
26 26 0.51
27 6 0.12
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATATTTAATTATTAAAAACAACCC
Found at i:36467312 original size:14 final size:12
Alignment explanation
Indices: 36467293--36467331 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
36467283 AAAACAACCC
36467293 AAATATTTAATT
1 AAATATTTAATT
36467305 CAAAATATTTAATT
1 --AAATATTTAATT
36467319 AAATATTTAATT
1 AAATATTTAATT
36467331 A
1 A
36467332 TTAAAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 13 0.52
14 12 0.48
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATATTTAATT
Found at i:36467321 original size:52 final size:51
Alignment explanation
Indices: 36467258--36467355 Score: 178
Period size: 52 Copynumber: 1.9 Consensus size: 51
36467248 TATATTTAAT
*
36467258 TATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATTCAAAA
1 TATTTAATTAAATATTTAATTATTAAAAAC-ACCCAAATACTTAATTCAAAA
36467310 TATTTAATTAAATATTTAATTATTAAAAACACCCAAATACTTAATT
1 TATTTAATTAAATATTTAATTATTAAAAACACCCAAATACTTAATT
36467356 ATTTAATTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 15 0.33
52 30 0.67
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (51 bp):
TATTTAATTAAATATTTAATTATTAAAAACACCCAAATACTTAATTCAAAA
Found at i:36467422 original size:192 final size:204
Alignment explanation
Indices: 36467031--36467496 Score: 638
Period size: 192 Copynumber: 2.3 Consensus size: 204
36467021 ATCAACCCAA
* * ** *
36467031 TTAATTA-ATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAAA
1 TTAATTATATTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATTC--A
36467095 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTA
64 ATA--TAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTA
* *
36467160 TTTAAATCAACTCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACTCAA
127 GTTAAATCAACTC-A-CAATTAATTAATTAA-TATTTA-TTA-TTAAATATTAAAAACAACTCAA
36467225 ATATTTAATTCAAAATAT
187 ATATTTAATTCAAAATAT
36467243 TTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATTC-A
1 TTAATTATA-TTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATTCAA
*
36467307 -A-AA-TATTTAATTAAATATTTAATTATTAAAAAC-ACCCAAATACTTAATTATTTAATTAGTT
65 TATAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTAGTT
36467368 AAATCAAC-C-CAATTAATTAATT-A-A-TTA-TA-TAAATATT-AAAACAAC-CTAAATATTTA
130 AAATCAACTCACAATTAATTAATTAATATTTATTATTAAATATTAAAAACAACTC-AAATATTTA
36467424 ATTCAAAATAT
194 ATTCAAAATAT
*
36467435 TTAATTATACTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATT
1 TTAATTATA-TTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATT
36467497 ATTTAATTAG
Statistics
Matches: 241, Mismatches: 10, Indels: 26
0.87 0.04 0.09
Matches are distributed among these distances:
191 1 0.00
192 88 0.37
193 8 0.03
195 2 0.01
197 3 0.01
198 1 0.00
200 1 0.00
201 12 0.05
204 1 0.00
205 34 0.14
206 30 0.12
207 2 0.01
210 1 0.00
211 1 0.00
212 7 0.03
213 1 0.00
214 48 0.20
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (204 bp):
TTAATTATATTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATATTTAATTCAAT
ATAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTAGTTA
AATCAACTCACAATTAATTAATTAATATTTATTATTAAATATTAAAAACAACTCAAATATTTAAT
TCAAAATAT
Found at i:36467573 original size:154 final size:154
Alignment explanation
Indices: 36467378--36467804 Score: 705
Period size: 154 Copynumber: 2.7 Consensus size: 154
36467368 AAATCAACCC
* * *
36467378 AATTAATTAATTAATTATATAAATATT-AAAACAACCTAAATATTTAATTCAAAATATTTAATTA
1 AATTATTTATTTATTTATATAAATATTAAAAACAACCTAAATATTTAATTCAAAATATTTAATTA
*
36467442 TACTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTAG
66 TATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTAG
36467507 TTAAATCAACCCAATTAATTAATT
131 TTAAATCAACCCAATTAATTAATT
*
36467531 AATTATTTATTTATTTATATAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAATTA
1 AATTATTTATTTATTTATATAAATATTAAAAACAACCTAAATATTTAATTCAAAATATTTAATTA
36467596 TATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTAG
66 TATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTAG
36467661 TTAAATCAACCCAATTAATTAATT
131 TTAAATCAACCCAATTAATTAATT
*
36467685 AATTATTTATTTATTTAT-TTAATATTAAAAACAACCTAAATATTTAATTCAAAATATTTAATTA
1 AATTATTTATTTATTTATATAAATATTAAAAACAACCTAAATATTTAATTCAAAATATTTAATTA
*
36467749 TTTAATTATATTTACTTATTTAATTAAATATTTAATTATTAAAAACAACTCAAATA
66 --T-ATT-TA---A-TTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATA
36467805 ATTTTGATGA
Statistics
Matches: 257, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
153 68 0.26
154 142 0.55
155 1 0.00
156 3 0.01
157 2 0.01
160 1 0.00
161 40 0.16
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (154 bp):
AATTATTTATTTATTTATATAAATATTAAAAACAACCTAAATATTTAATTCAAAATATTTAATTA
TATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTAG
TTAAATCAACCCAATTAATTAATT
Found at i:36467620 original size:20 final size:18
Alignment explanation
Indices: 36467586--36467627 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
36467576 TAATTCAAAA
36467586 TATTTAATTATATTTAAT
1 TATTTAATTATATTTAAT
36467604 TATTTAATTAAATATTTAAT
1 TATTTAATT--ATATTTAAT
36467624 TATT
1 TATT
36467628 AAAAACAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAATTATATTTAAT
Found at i:36467621 original size:346 final size:344
Alignment explanation
Indices: 36466967--36467650 Score: 1044
Period size: 346 Copynumber: 2.0 Consensus size: 344
36466957 TGGATTTTTT
*
36466967 TTAAATTTTAAATTAGAAAAAACAACCCAAATACTTCATTATTTAATTACTTAAATCAACCCAAT
1 TTAAATTTTAAATTAGAAAAAACAACCCAAATACTTAATTATTTAATTACTTAAATCAACCC-A-
36467032 TAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAAAAT
64 -AATTAATTAATTAA-TATTTA-TTA-TTAAATATTAAAAACAACCCAAATATTTAATTCAAAAT
*
36467097 ATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTATT
125 ATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTAGT
* * *
36467162 TAAATCAACTCAATTAATTAATTAATTAATTATTTATTTATTTAAATATTAAAAACAACTCAAAT
190 TAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATATAAATATTAAAAACAACCCAAAT
36467227 ATTTAATTCAAAATATTTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACC
255 ATTTAATTCAAAATATTTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACC
*
36467292 CAAATATTTAATTCAAAATATTTAA
320 CAAATACTTAATTCAAAATATTTAA
** *
36467317 TTAAATATTT-AATTATTAAAAAC-ACCCAAATACTTAATTATTTAATTAGTTAAATCAACCC-A
1 TTAAAT-TTTAAATTAGAAAAAACAACCCAAATACTTAATTATTTAATTACTTAAATCAACCCAA
*
36467379 ATTAATTAATT-A-A-TTA-TA-TAAATATT-AAAACAACCTAAATATTTAATTCAAAATATTTA
65 ATTAATTAATTAATATTTATTATTAAATATTAAAAACAACCCAAATATTTAATTC---A-A---A
*
36467438 ATTATACTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAA
123 A-TAT--TTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAA
*
36467503 TTAGTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTATATAAATATTAAAAACAACC
185 TTAGTTAAATCAACCCAATTAATTAATTAATTAATTATTTATTTATATAAATATTAAAAACAACC
36467568 CAAATATTTAATTCAAAATATTTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAA
250 CAAATATTTAATTCAAAATATTTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAA
36467633 CAACCCAAATACTTAATT
315 CAACCCAAATACTTAATT
36467651 ATTTAATTAG
Statistics
Matches: 311, Mismatches: 12, Indels: 26
0.89 0.03 0.07
Matches are distributed among these distances:
336 22 0.07
337 8 0.03
339 3 0.01
340 1 0.00
341 3 0.01
342 1 0.00
343 2 0.01
344 4 0.01
345 12 0.04
346 199 0.64
349 36 0.12
350 17 0.05
351 3 0.01
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.42
Consensus pattern (344 bp):
TTAAATTTTAAATTAGAAAAAACAACCCAAATACTTAATTATTTAATTACTTAAATCAACCCAAA
TTAATTAATTAATATTTATTATTAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTTAA
TTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTGAATTATTTAATTAGTTAAATC
AACCCAATTAATTAATTAATTAATTATTTATTTATATAAATATTAAAAACAACCCAAATATTTAA
TTCAAAATATTTAATTATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATA
CTTAATTCAAAATATTTAA
Found at i:36467656 original size:34 final size:33
Alignment explanation
Indices: 36467608--36467695 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 33
36467598 TTTAATTATT
*
36467608 TAATTAAATATTTAATTATTAAAAACAACCCAAA
1 TAATTAATTATTTAATTATT-AAAACAACCCAAA
* * *
36467642 TACTTAATTATTTAATTAGTTAAATCAACCCAAT
1 TAATTAATTATTTAATTA-TTAAAACAACCCAAA
* *
36467676 TAATTAATTAATTATTTATT
1 TAATTAATTATTTAATTATT
36467696 TATTTATTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
33 2 0.04
34 42 0.91
35 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (33 bp):
TAATTAATTATTTAATTATTAAAACAACCCAAA
Found at i:36467753 original size:22 final size:20
Alignment explanation
Indices: 36467725--36467788 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 20
36467715 ACAACCTAAA
36467725 TATTTAATTCAAAATATTTAAT
1 TATTTAATT--AAATATTTAAT
*
36467747 TATTTAATT--ATATTTACT
1 TATTTAATTAAATATTTAAT
36467765 TATTTAATTAAATATTTAAT
1 TATTTAATTAAATATTTAAT
36467785 TATT
1 TATT
36467789 AAAAACAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 17 0.45
20 12 0.32
22 9 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATTAAATATTTAAT
Found at i:36473912 original size:43 final size:43
Alignment explanation
Indices: 36473838--36474087 Score: 224
Period size: 43 Copynumber: 5.8 Consensus size: 43
36473828 GTGGAAAAAA
* * *
36473838 CGCCGCTAAAGAACACT-AT-TTATAGCAGCGTTTTTGGAGTAAG
1 CGCCGCTAAAGAACA-TGGTCTT-TAGCGGCGTTTTTGAAGTAAG
* **
36473881 CGTCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTTGAAAAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTGAAGTAAG
* * * **
36473925 CGCCGCTAAAG-ACTATGTTCTTTAGAGGCGTTTGT-ATCTAAG
1 CGCCGCTAAAGAAC-ATGGTCTTTAGCGGCGTTTTTGAAGTAAG
* *
36473967 CGCCGCTAAAGAACATAGTCTTTAGCGGCGTTTGTAGAAG-AAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTGAAGTAAG
* * *
36474010 CGCCGTTAAAGAACATGGACTTTAGCGGCGTTTGT-AAGTAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTGAAGT-AAG
* * * *
36474053 CGCCGCTAAAGATCATGTTCTTTTGCGGCCTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
36474088 TTTTATAAAC
Statistics
Matches: 166, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.02
42 32 0.19
43 94 0.57
44 37 0.22
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTGAAGTAAG
Found at i:36473967 original size:86 final size:85
Alignment explanation
Indices: 36473815--36474081 Score: 263
Period size: 86 Copynumber: 3.1 Consensus size: 85
36473805 ATCTGTTAAT
* * * * * * *
36473815 TTTAGCGGTGTTTGTGGAAAAAACGCCGCTAAAGAACACT--A-TTTATAGCAGCGTTTTTGGAG
1 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGAACA-TGGACTTTAGAG--GCGTTTGT-AAC
*
36473877 TAAGCGTCGCTAAAGAACATGGTC
62 TAAGCGCCGCTAAAGAACATGGTC
* ** *
36473901 TTTAGCGGCGTTTGTTGAAAAAAGCGCCGCTAAAG-ACTATGTTCTTTAGAGGCGTTTGTATCTA
1 TTTAGCGGCGTTTGTAG-AAAAAGCGCCGCTAAAGAAC-ATGGACTTTAGAGGCGTTTGTAACTA
*
36473965 AGCGCCGCTAAAGAACATAGTC
64 AGCGCCGCTAAAGAACATGGTC
* * * *
36473987 TTTAGCGGCGTTTGTAGAAGAAGCGCCGTTAAAGAACATGGACTTTAGCGGCGTTTGTAAGTAAA
1 TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGAACATGGACTTTAGAGGCGTTTGTAACT-AA
* *
36474052 GCGCCGCTAAAGATCATGTTC
65 GCGCCGCTAAAGAACATGGTC
*
36474073 TTTTGCGGC
1 TTTAGCGGC
36474082 CTTTTTTTTT
Statistics
Matches: 151, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
85 35 0.23
86 86 0.57
87 24 0.16
89 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGAACATGGACTTTAGAGGCGTTTGTAACTAAG
CGCCGCTAAAGAACATGGTC
Found at i:36474020 original size:129 final size:128
Alignment explanation
Indices: 36473838--36474075 Score: 324
Period size: 129 Copynumber: 1.9 Consensus size: 128
36473828 GTGGAAAAAA
* * * *
36473838 CGCCGCTAAAGAACACTATTTATAGCAGCGTTTTTGGAGTAAGCGTCGCTAAAGAACATGGTCTT
1 CGCCGCTAAAGAACACTATTTATAGCAGCGTTTTAGAAGTAAGCGCCGCTAAAGAACATGGACTT
36473903 TAGCGGCGTTTGTTGAA-AAAAGCGCCGCTAAAGA-CTATGTTCTTTAGAGGCGTTTGTATCTAA
66 TAGCGGCGTTTG-T-AAGAAAAGCGCCGCTAAAGATC-ATGTTCTTTAGAGGCGTTTGTATCTAA
36473966 G
128 G
* *
36473967 CGCCGCTAAAGAACA-TAGTCTT-TAGCGGCGTTTGTAGAAG-AAGCGCCGTTAAAGAACATGGA
1 CGCCGCTAAAGAACACTA-T-TTATAGCAGCGTTT-TAGAAGTAAGCGCCGCTAAAGAACATGGA
*
36474029 CTTTAGCGGCGTTTGTAAGTAAAGCGCCGCTAAAGATCATGTTCTTT
63 CTTTAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCATGTTCTTT
36474076 TGCGGCCTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
127 2 0.02
128 28 0.29
129 61 0.63
130 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (128 bp):
CGCCGCTAAAGAACACTATTTATAGCAGCGTTTTAGAAGTAAGCGCCGCTAAAGAACATGGACTT
TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAGATCATGTTCTTTAGAGGCGTTTGTATCTAAG
Found at i:36475318 original size:12 final size:12
Alignment explanation
Indices: 36475303--36475328 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36475293 ATAAAATTAT
36475303 CATTTTAATTGA
1 CATTTTAATTGA
36475315 CATTTTAATTGA
1 CATTTTAATTGA
36475327 CA
1 CA
36475329 GCTTCGAAAA
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:0.12, G:0.08, T:0.46
Consensus pattern (12 bp):
CATTTTAATTGA
Found at i:36476010 original size:15 final size:14
Alignment explanation
Indices: 36475974--36476016 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
36475964 ATAATAAAAA
36475974 TATAATTTTATTATTT
1 TATAA-TTT-TTATTT
36475990 TAATAATTTTTATGTT
1 T-ATAATTTTTAT-TT
36476006 TATAATTTTTA
1 TATAATTTTTA
36476017 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 14 0.56
16 7 0.28
17 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TATAATTTTTATTT
Found at i:36476088 original size:78 final size:78
Alignment explanation
Indices: 36475941--36476106 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 78
36475931 TTTTTTTTCG
* **
36475941 AAATTAAA-TTATATATTTTTATAATAATAAAAATATAATTTTATTATTTTAATAATTTTTATGT
1 AAATTAAATTTATATATTTTTAAAATAATAAAAATATAATTTTATTATTTT-ATAATTTAAATGT
* *
36476005 TTATAATTTTTAAA
65 TTATAAATTATAAA
* * *
36476019 AAATTAAATTTTTATTATTTTTAAAATAGTTAAAATATAATTTTATTATTTT-TAATTTAAAAT-
1 AAATTAAATTTATA-TATTTTTAAAATAATAAAAATATAATTTTATTATTTTATAATTT-AAATG
36476082 TTTATAAATTATAAA
64 TTTATAAATTATAAA
36476097 AAATTTAAAT
1 AAA-TTAAAT
36476107 AAAAAAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
78 30 0.39
79 12 0.16
80 34 0.45
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (78 bp):
AAATTAAATTTATATATTTTTAAAATAATAAAAATATAATTTTATTATTTTATAATTTAAATGTT
TATAAATTATAAA
Found at i:36477441 original size:25 final size:23
Alignment explanation
Indices: 36477412--36477458 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
36477402 AATTGGATCC
36477412 AAATTAAATTCTAAAAAGATAATTA
1 AAATTAAA-TCTAAAAA-ATAATTA
*
36477437 AAATTAAATCTAAACAATAATT
1 AAATTAAATCTAAAAAATAATT
36477459 CCCTAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATTAAATCTAAAAAATAATTA
Found at i:36478007 original size:29 final size:29
Alignment explanation
Indices: 36477969--36478078 Score: 93
Period size: 29 Copynumber: 3.7 Consensus size: 29
36477959 TAAATTTGTA
*
36477969 TTTTTTTTAATTTTTAAGGGGCCCAAATT
1 TTTTTTTTAACTTTTAAGGGGCCCAAATT
**
36477998 TTTTTTTTAAACTTTTATA--GG-TTAAATTT
1 TTTTTTTT-AACTTTTA-AGGGGCCCAAA-TT
**
36478027 TTTTTTATTAACTTTTAAGGACCCCAAATT
1 TTTTTT-TTAACTTTTAAGGGGCCCAAATT
36478057 TTTTTTTACTAACTTTT-AGGGG
1 TTTTTTT--TAACTTTTAAGGGG
36478079 ACCTAAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.06
29 27 0.43
30 20 0.32
31 12 0.19
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (29 bp):
TTTTTTTTAACTTTTAAGGGGCCCAAATT
Found at i:36478056 original size:31 final size:28
Alignment explanation
Indices: 36477969--36478074 Score: 97
Period size: 31 Copynumber: 3.6 Consensus size: 28
36477959 TAAATTTGTA
*
36477969 TTTTTTTTAATTTTTAAGGGGCCCAAATTT
1 TTTTTTTTAACTTTTAA--GGCCCAAATTT
* **
36477999 TTTTTTTAAACTTTTATAGG-TTAAATTT
1 TTTTTTTTAACTTTTA-AGGCCCAAATTT
36478027 TTTTTTATTAACTTTTAAGGACCCCAAATTT
1 TTTTTT-TTAACTTTTAAGG--CCCAAATTT
*
36478058 TTTTTTACTAACTTTTA
1 TTTTTT-TTAACTTTTA
36478075 GGGGACCTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
28 15 0.24
29 11 0.17
30 14 0.22
31 23 0.37
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (28 bp):
TTTTTTTTAACTTTTAAGGCCCAAATTT
Found at i:36478092 original size:32 final size:31
Alignment explanation
Indices: 36478025--36478094 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
36478015 TAGGTTAAAT
* * *
36478025 TTTTTTTTATTAACTTTTAAGGACCCCAAAT
1 TTTTTTTTACTAACTTTTAAGGACCCAAAAA
* *
36478056 TTTTTTTTACTAACTTTTAGGGGACCTAAAAA
1 TTTTTTTTACTAACTTTTA-AGGACCCAAAAA
36478088 TTTTTTT
1 TTTTTTT
36478095 CTCCAACTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (31 bp):
TTTTTTTTACTAACTTTTAAGGACCCAAAAA
Found at i:36479733 original size:5 final size:5
Alignment explanation
Indices: 36479723--36479765 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
36479713 AATGCATAAT
36479723 TAAAA TAAAA TTAAAAA TAAAA TAAAA TGAAAA TGAAAA TAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA T-AAAA T-AAAA TAAA
36479766 TGTACTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 18 0.51
6 13 0.37
7 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:36479736 original size:11 final size:11
Alignment explanation
Indices: 36479720--36479765 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
36479710 AATAATGCAT
36479720 AATTAAAATAA
1 AATTAAAATAA
36479731 AATTAAAAATAA
1 AATT-AAAATAA
36479743 AA-TAAAATGAA
1 AATTAAAAT-AA
*
36479754 AATGAAAATAA
1 AATTAAAATAA
36479765 A
1 A
36479766 TGTACTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 5 0.16
11 12 0.39
12 14 0.45
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (11 bp):
AATTAAAATAA
Found at i:36479767 original size:16 final size:16
Alignment explanation
Indices: 36479723--36479765 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
36479713 AATGCATAAT
*
36479723 TAAAATAAAATTAAAAA
1 TAAAATAAAA-TGAAAA
36479740 TAAAATAAAATGAAAA
1 TAAAATAAAATGAAAA
36479756 TGAAAATAAA
1 T-AAAATAAA
36479766 TGTACTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
TAAAATAAAATGAAAA
Found at i:36483075 original size:16 final size:16
Alignment explanation
Indices: 36482991--36483080 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 16
36482981 AATTTGAATA
36482991 AAATTTATTTAAATTT
1 AAATTTATTTAAATTT
* * *
36483007 GAATTTACTTTTACTTT
1 AAATTTA-TTTAAATTT
* * * *
36483024 GAACTTATTTTGAGTTT
1 AAATTTA-TTTAAATTT
**
36483041 GGATTTAATTTAAATTT
1 AAATTT-ATTTAAATTT
36483058 AAATTTATTTCAAA-TT
1 AAATTTATTT-AAATTT
36483074 AAATTTA
1 AAATTTA
36483081 AACTTTAGAA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
16 19 0.33
17 38 0.66
18 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (16 bp):
AAATTTATTTAAATTT
Found at i:36485108 original size:29 final size:29
Alignment explanation
Indices: 36485068--36485234 Score: 137
Period size: 30 Copynumber: 5.7 Consensus size: 29
36485058 AAATTATCCA
* *
36485068 AAAATTACATTTTTACCCCCGAACTTTCC
1 AAAATTACATTTTTAACCCTGAACTTTCC
* *
36485097 AAAATT-CTATTTTTAACCTTGATCTTTCC
1 AAAATTAC-ATTTTTAACCCTGAACTTTCC
*
36485126 AAAAATTACATTTTTAACCCTAAACTTTCC
1 -AAAATTACATTTTTAACCCTGAACTTTCC
* * **
36485156 AAAATTCCA-TTTTAACCTTGATTTTTCC
1 AAAATTACATTTTTAACCCTGAACTTTCC
*
36485184 AAAAAAATAC-TATTTT-ACCCTCGAAC-TTCC
1 --AAAATTACAT-TTTTAACCCT-GAACTTTCC
*
36485214 AAAAATTCCATTTTTAACCCT
1 -AAAATTACATTTTTAACCCT
36485235 AATTTTTTTC
Statistics
Matches: 109, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
28 16 0.15
29 42 0.39
30 44 0.40
31 7 0.06
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTTAACCCTGAACTTTCC
Found at i:36485156 original size:59 final size:58
Alignment explanation
Indices: 36485064--36485322 Score: 226
Period size: 59 Copynumber: 4.4 Consensus size: 58
36485054 CCCTAAATTA
** * * *
36485064 TCCAAAAATTACATTTTTACCCCCGAACTTTCC-AAAATTCTATTTTTAACCTTGATCTT
1 TCCAAAAATTACATTTTTA-CCCTAAAC-TTCCAAAAATTCCATTTTTAACCCTAATCTT
* * *
36485123 TCCAAAAATTACATTTTTAACCCTAAACTTTCC-AAAATTCCA-TTTTAACCTTGATTTT
1 TCCAAAAATTACATTTTT-ACCCTAAAC-TTCCAAAAATTCCATTTTTAACCCTAATCTT
* * *
36485181 TCCAAAAAAATAC-TATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAATTTTT
1 TCC-AAAAATTACAT-TTTTACCCT-AAACTTCCAAAAATTCCATTTTTAACCCTAA-TCTT
* * * *
36485242 TTCAAAAATTACCA--TTTACCACTAAACTTCCAAAAATTCCATTTTAAACCCCAAACTT
1 TCCAAAAATTA-CATTTTTACC-CTAAACTTCCAAAAATTCCATTTTTAACCCTAATCTT
*
36485300 TCCTAAAATTATCATTTTT-CCCT
1 TCCAAAAATTA-CATTTTTACCCT
36485323 TGAGTTACCA
Statistics
Matches: 170, Mismatches: 18, Indels: 25
0.80 0.08 0.12
Matches are distributed among these distances:
58 43 0.25
59 97 0.57
60 23 0.14
61 7 0.04
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.39
Consensus pattern (58 bp):
TCCAAAAATTACATTTTTACCCTAAACTTCCAAAAATTCCATTTTTAACCCTAATCTT
Found at i:36485317 original size:118 final size:115
Alignment explanation
Indices: 36485068--36485345 Score: 253
Period size: 118 Copynumber: 2.4 Consensus size: 115
36485058 AAATTATCCA
* * * *
36485068 AAAATTA-CATTTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCTTGATCTTTCCAAAAAT
1 AAAATTATCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATCTTTCCAAAAAT
*** **
36485132 TACATTTTTAACCCTAAACTTTCCAAAATTCCATTTTAACCTTGATTTTTCC
65 TACA-TTTTAACCCTAAACTTTCCAAAATTCCATTTTAACCCCAAACTTTCC
** * *
36485184 AAAAAAATACTATTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTAACCCTAATTTTTTTCAAA
1 AAAATTAT-C-ATTTTACCCTCGAACTTTCC-AAAATTCCATTTTTAACCCTAA-TCTTTCCAAA
36485248 AATTACCA-TTT-ACCACTAAAC-TTCCAAAAATTCCATTTTAAACCCCAAACTTTCC
62 AATTA-CATTTTAACC-CTAAACTTTCC-AAAATTCCATTTT-AACCCCAAACTTTCC
* * * *
36485303 TAAAATTATCATTTTTCCCTTG-AGTTACCAAAATTACCATTTT
1 -AAAATTATCATTTTACCCTCGAACTTTCCAAAATT-CCATTTT
36485346 ACCCCCAAGT
Statistics
Matches: 131, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
116 5 0.04
117 18 0.14
118 75 0.57
119 25 0.19
120 8 0.06
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (115 bp):
AAAATTATCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCTAATCTTTCCAAAAATT
ACATTTTAACCCTAAACTTTCCAAAATTCCATTTTAACCCCAAACTTTCC
Found at i:36490367 original size:11 final size:10
Alignment explanation
Indices: 36490335--36490380 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
36490325 CGGATTCAAT
36490335 AAAAAAAAGA
1 AAAAAAAAGA
*
36490345 AAAGAAGAAGA
1 AAA-AAAAAGA
36490356 AAAAAAATAGA
1 AAAAAAA-AGA
36490367 AAAAAAAATGA
1 AAAAAAAA-GA
36490378 AAA
1 AAA
36490381 GGAGAGGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 7 0.23
11 24 0.77
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:36490379 original size:22 final size:21
Alignment explanation
Indices: 36490335--36490380 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
36490325 CGGATTCAAT
*
36490335 AAAAAAAAGAAAAGAAGAAGA
1 AAAAAAAAGAAAAGAAAAAGA
36490356 AAAAAAATAGAAAA-AAAAATGA
1 AAAAAAA-AGAAAAGAAAAA-GA
36490378 AAA
1 AAA
36490381 GGAGAGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (21 bp):
AAAAAAAAGAAAAGAAAAAGA
Found at i:36491499 original size:97 final size:96
Alignment explanation
Indices: 36491325--36491621 Score: 513
Period size: 97 Copynumber: 3.1 Consensus size: 96
36491315 AGATTTGAAA
* * *
36491325 GGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAAACATGAAGGGAAAGATCTAAGCCA
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
*
36491390 CAATGGCGGATCCAGTACCACGAAGACACAAG
66 CAACGGC-GATCCAGTACCACGAAGACACAAG
36491422 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
36491487 CAACGGCAGATCCAGTACCACGAAGACACAAG
66 CAACGGC-GATCCAGTACCACGAAGACACAAG
* *
36491519 GGAAAGGTTTAAGTAGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATATAAGCCG
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
36491584 CAACGGCGAATCCAGTACCACGAAGACACAAG
66 CAACGGCG-ATCCAGTACCACGAAGACACAAG
36491616 GGAAAG
1 GGAAAG
36491622 ATCTAAGCTG
Statistics
Matches: 192, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
96 1 0.01
97 191 0.99
ACGTcount: A:0.39, C:0.21, G:0.27, T:0.13
Consensus pattern (96 bp):
GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
CAACGGCGATCCAGTACCACGAAGACACAAG
Found at i:36491796 original size:242 final size:242
Alignment explanation
Indices: 36491371--36491880 Score: 815
Period size: 242 Copynumber: 2.1 Consensus size: 242
36491361 CAGAAACATG
*
36491371 AAGGGAAAGATCTAAGCCACAATGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCACAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
* * * *
36491436 CGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCAGATCCA
66 CGCAATGGCAAACCTAGTACCTCAGAGACATGAAAGGAAAGATCTAACCCACAACGGCAGATCCA
* *
36491501 GTACCACGAAGACACAAGGGAAAGGTTTAAGTAGCAATGGCGAACCTAGTACCTCAGAGACATGA
131 GTACCACGAAGACACAAGGGAAAGGTTTAAGTAGCAATGGCGAACCTAGTACCTCAAAGAAATGA
36491566 AGGGAAAGATATAAGCCGCAACGGCGAATCCAGTACCAC-GAAGACAC
196 AGGGAAAGATATAAGCCGCAACGGCGAATCCAGTACCACAG-AGACAC
** * *
36491613 AAGGGAAAGATCTAAGCTGCAACGGCGGATCGAGTACCACGAAGACGCAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCACAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
* * *
36491678 CGCAATGGCAAACCTAGTACCTCAGAGACATGAAAGGAAAGATCTAACCCATAACGGCATATCTA
66 CGCAATGGCAAACCTAGTACCTCAGAGACATGAAAGGAAAGATCTAACCCACAACGGCAGATCCA
* *
36491743 GTACCACGAAGACGCAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAAAGAAATGA
131 GTACCACGAAGACACAAGGGAAAGGTTTAAGTAGCAATGGCGAACCTAGTACCTCAAAGAAATGA
*
36491808 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAGACAC
196 AGGGAAAGATATAAGCCGCAACGGCGAATCCAGTACCACAGAGACAC
* * *
36491855 AGAGGGAAAGGTTTAAGTCACAACGG
1 A-AGGGAAAGATCTAAGCCACAACGG
36491881 TGAACCTTGT
Statistics
Matches: 244, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
242 224 0.92
243 20 0.08
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.14
Consensus pattern (242 bp):
AAGGGAAAGATCTAAGCCACAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
CGCAATGGCAAACCTAGTACCTCAGAGACATGAAAGGAAAGATCTAACCCACAACGGCAGATCCA
GTACCACGAAGACACAAGGGAAAGGTTTAAGTAGCAATGGCGAACCTAGTACCTCAAAGAAATGA
AGGGAAAGATATAAGCCGCAACGGCGAATCCAGTACCACAGAGACAC
Found at i:36491905 original size:98 final size:97
Alignment explanation
Indices: 36491419--36492139 Score: 587
Period size: 97 Copynumber: 7.4 Consensus size: 97
36491409 ACGAAGACAC
* * * * * * *
36491419 AAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCTC-AGAGACATGAAGGGAAAGATCTA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGA-AGACA-CAAGGGAAAGGTTTA
* * * * *
36491482 AGCCGCAACGGCAGATCC-AGTACCAC-GAAGACA-C
63 AGTCGCAACGGC-GAACCTTGTACCTCAGAAGA-ATG
* ** * * * * *
36491516 AAGGGAAAGGTTTAAGTAGCAATGGCGAA-CCTAGTACCTC-AGAGACATGAAGGGAAAGATATA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGA-AGACA-CAAGGGAAAGGTTTA
* * * *
36491579 AGCCGCAACGGCGAATCC-AGTACCAC-GAAGACA-C
63 AGTCGCAACGGCGAA-CCTTGTACCTCAGAAGA-ATG
* * * * *
36491613 AAGGGAAAGATCTAAGCTGCAACGGCGGATCGAGTACCACGAAGACGCAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
* * *
36491678 CGCAATGGCAAACCTAGTACCTCAG-AGACATG
66 CGCAACGGCGAACCTTGTACCTCAGAAGA-ATG
* * * ** * *
36491710 AAAGGAAAGATCTAACCCATAACGGC-ATATCTAGTACCACGAAGACGCAAGGGAAAGGTTTAAG
1 AAGGGAAAGATTTAAGCCGCAACGGCGA-ATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAG
* *
36491774 TCGCAATGGCGAACCTAGTACCTCA-AAGAAATG
65 TCGCAACGGCGAACCTTGTACCTCAGAAG-AATG
36491807 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCAC-AGAGACACAGAGGGAAAGGTTTAA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA-AGACACA-AGGGAAAGGTTTAA
* * *
36491871 GTCACAACGGTGAACCTTGTACCTTAGAAGAATG
64 GTCGCAACGGCGAACCTTGTACCTCAGAAGAATG
* * * *
36491905 AAGGGAAAGATTTAAGTCGCAACCGCGAATCCAGTACCAC-AAGGAAATAAAGGGAAAGGTTTAA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAA-GACA-CAAGGGAAAGGTTTAA
*
36491969 GTCGCAACGGCGAACCTTGTACCT-AGGAAGCATG
64 GTCGCAACGGCGAACCTTGTACCTCA-GAAGAATG
* * * *
36492003 AAGGGAAGGATTTAAGCCGTAACGGTGAATCCAGTACCACGAAGATTTA-AAGGGAAAGGTTTTA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGA--CACAAGGGAAAGG-TTTA
**
36492067 AGTCGCAACGATGAACCTTGTACCTCAGAA-ACATG
63 AGTCGCAACGGCGAACCTTGTACCTCAGAAGA-ATG
* ** *
36492102 AAGGGAAAGATTTAAGCCTCAACAACGAATCTAGTACC
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACC
36492140 TTGAAGATGT
Statistics
Matches: 539, Mismatches: 63, Indels: 42
0.84 0.10 0.07
Matches are distributed among these distances:
95 2 0.00
96 39 0.07
97 251 0.47
98 175 0.32
99 70 0.13
100 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (97 bp):
AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
CGCAACGGCGAACCTTGTACCTCAGAAGAATG
Found at i:36492140 original size:49 final size:50
Alignment explanation
Indices: 36491320--36492209 Score: 609
Period size: 49 Copynumber: 18.2 Consensus size: 50
36491310 CACAAAGATT
* * * * *
36491320 TGAAAGGAAAGGTTTAAGTCGCAATGACGAACCTAGTACCTCAGAA-ACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * * * * *
36491369 TGAAGGGAAAGATCTAAGCCACAATGGCGGATCCAGTACCAC-GAAGACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * *
36491418 -CAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAG-AGACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * *
36491466 TGAAGGGAAAGATCTAAGCCGCAACGGC-AGATCCAGTACCAC-GAAGACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGA-ATCTAGTACCTCAGAAGACA
* * * * *
36491515 -CAAGGGAAAGGTTTAAGTAGCAATGGCGAACCTAGTACCTCAG-AGACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * *
36491563 TGAAGGGAAAGATATAAGCCGCAACGGCGAATCCAGTACCAC-GAAGACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * * *
36491612 -CAAGGGAAAGATCTAAG-CTGCAACGGCGGATCGAGTACCAC-GAAGAC-
1 TGAAGGGAAAGATTTAAGTC-GCAACGGCGAATCTAGTACCTCAGAAGACA
* * * *
36491659 -GCAAGGGAAAGGTTTAAGTCGCAATGGCAAACCTAGTACCTCAG-AGACA
1 TG-AAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * ** ** *
36491708 TGAAAGGAAAGATCTAACCCATAACGGC-ATATCTAGTACCAC-GAAGAC-
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGA-ATCTAGTACCTCAGAAGACA
* * * *
36491756 -GCAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCA-AAGAAA
1 TG-AAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * *
36491805 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAG-AGACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * * * * *
36491854 -CAGAGGGAAAGGTTTAAGTCACAACGGTGAACCTTGTACCTTAGAAGA-A
1 TGA-AGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * * *
36491903 TGAAGGGAAAGATTTAAGTCGCAACCGCGAATCCAGTACCACA-AGGAAA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * *
36491952 TAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCT-AGGAAG-CA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCA-GAAGACA
* * * * * * **
36492001 TGAAGGGAAGGATTTAAGCCGTAACGGTGAATCCAGTACCAC-GAAGATT
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * ** * *
36492050 TAAAGGGAAAGGTTTTAAGTCGCAACGATGAACCTTGTACCTCAGAA-ACA
1 TGAAGGGAAA-GATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * ** * **
36492100 TGAAGGGAAAGATTTAAGCCTCAACAACGAATCTAGTACCT-TGAAGATG
1 TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
* * * * * *
36492149 TGAAGGGAAAG-GTTACGACCGCAACGGCGAAGCCAGTACCTTAGAA-ACA
1 TGAAGGGAAAGATTTAAG-TCGCAACGGCGAATCTAGTACCTCAGAAGACA
* *
36492198 TGACGAGAAAGA
1 TGAAGGGAAAGA
36492210 ATCAAACCCA
Statistics
Matches: 641, Mismatches: 163, Indels: 73
0.73 0.19 0.08
Matches are distributed among these distances:
47 2 0.00
48 203 0.32
49 388 0.61
50 45 0.07
51 3 0.00
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (50 bp):
TGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCTCAGAAGACA
Found at i:36492528 original size:39 final size:39
Alignment explanation
Indices: 36492423--36492530 Score: 146
Period size: 39 Copynumber: 2.8 Consensus size: 39
36492413 GAAGATTTTG
* * *
36492423 ATCTTTTACCCCGAGCTTGGGGTAGATCACCATTAGCCG
1 ATCTTTTACCCCGAGCTTGGGGCAGATTACCATTAGCCA
*
36492462 ATCTTTTACCCCAAG-TCTGGGGCAGATTACCATTAGCCA
1 ATCTTTTACCCCGAGCT-TGGGGCAGATTACCATTAGCCA
* *
36492501 ATCTCTTACCTCGAGCTTGGGGCAGATTAC
1 ATCTTTTACCCCGAGCTTGGGGCAGATTAC
36492531 AGACATTCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 58 0.97
40 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (39 bp):
ATCTTTTACCCCGAGCTTGGGGCAGATTACCATTAGCCA
Found at i:36492544 original size:39 final size:37
Alignment explanation
Indices: 36492501--36492604 Score: 115
Period size: 36 Copynumber: 2.8 Consensus size: 37
36492491 CCATTAGCCA
* * *
36492501 ATCTCTTACCTC-GAGCTTGGGGCAGATTACAGACATTCG
1 ATCTCTTACCTCAAAGCCTGGGGCAGA-T-CA-ACACTCG
*
36492540 ATCTCTTACC-CAAAGCCTGGGGCAGATCACCACTCG
1 ATCTCTTACCTCAAAGCCTGGGGCAGATCAACACTCG
*
36492576 ATCTCTTACCTCAAA-CCTGAGGCAGATCA
1 ATCTCTTACCTCAAAGCCTGGGGCAGATCA
36492605 CCATCAGACA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
36 28 0.48
37 6 0.10
38 2 0.03
39 22 0.38
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
ATCTCTTACCTCAAAGCCTGGGGCAGATCAACACTCG
Found at i:36492584 original size:36 final size:36
Alignment explanation
Indices: 36492537--36492607 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
36492527 TTACAGACAT
*
36492537 TCGATCTCTTACC-CAAAGCCTGGGGCAGATCACCAC
1 TCGATCTCTTACCTCAAA-CCTGAGGCAGATCACCAC
36492573 TCGATCTCTTACCTCAAACCTGAGGCAGATCACCA
1 TCGATCTCTTACCTCAAACCTGAGGCAGATCACCA
36492608 TCAGACAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (36 bp):
TCGATCTCTTACCTCAAACCTGAGGCAGATCACCAC
Found at i:36493177 original size:17 final size:16
Alignment explanation
Indices: 36493138--36493230 Score: 87
Period size: 17 Copynumber: 5.6 Consensus size: 16
36493128 CATTTTTAAA
* *
36493138 ATTTAAATCTAAATTT
1 ATTTAAATTTGAATTT
36493154 ATTTAAATTTGAATTT
1 ATTTAAATTTGAATTT
*
36493170 ACTTTAAATTTGAACTT
1 A-TTTAAATTTGAATTT
* * *
36493187 ATTTTGAGTTTGGATTT
1 A-TTTAAATTTGAATTT
*
36493204 AATTTAAATTTAAATTT
1 -ATTTAAATTTGAATTT
36493221 ATTTCAAATT
1 ATTT-AAATT
36493231 AAATTTAAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
16 19 0.31
17 42 0.68
18 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTTAAATTTGAATTT
Found at i:36493246 original size:7 final size:6
Alignment explanation
Indices: 36493136--36493246 Score: 58
Period size: 6 Copynumber: 19.5 Consensus size: 6
36493126 CCCATTTTTA
* * *
36493136 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * * **
36493181 GAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAATTT --ATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
36493225 CAAA-TT AAATTT AAACTTT AAA
1 -AAATTT AAATTT AAA-TTT AAA
36493247 AGTCCAAGCT
Statistics
Matches: 82, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
4 8 0.10
5 14 0.17
6 53 0.65
7 7 0.09
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:36495260 original size:29 final size:28
Alignment explanation
Indices: 36495220--36495466 Score: 146
Period size: 29 Copynumber: 8.4 Consensus size: 28
36495210 AAATTATCCA
*
36495220 AAAATTACATTTTTACTCTCGAACTTTCC
1 AAAATTACATTTTTAC-CCCGAACTTTCC
36495249 AAAATT-CTATTTTTGACCCCGAACTTTCC
1 AAAATTAC-ATTTTT-ACCCCGAACTTTCC
*
36495278 AAAAATTACATTTTTACCCCTTAAC-TTCC
1 -AAAATTACATTTTTACCCC-GAACTTTCC
* ** **
36495307 AAAATTCCATTTTTGACCTTGATTTTTCC
1 AAAATTACATTTTT-ACCCCGAACTTTCC
* *
36495336 AAAAATAACA-TTTTACCCCCGAACTTTCA
1 -AAAATTACATTTTTA-CCCCGAACTTTCC
** *
36495365 AAAATTTTATTTTTAACCCC-AATTTCTCC
1 AAAATTACATTTTT-ACCCCGAACTT-TCC
*
36495394 AAAAATTATCA-TTTTACCCTCGAAC-TTCT
1 -AAAATTA-CATTTTTACCC-CGAACTTTCC
*** *
36495423 AAAATTTTTGTTTTTGACCCTGAACTTTCCC
1 AAAA-TTACATTTTT-ACCCCGAACTTT-CC
36495454 AAAATTACCATTT
1 AAAATTA-CATTT
36495467 CACCCCTCGG
Statistics
Matches: 164, Mismatches: 32, Indels: 42
0.69 0.13 0.18
Matches are distributed among these distances:
28 30 0.18
29 77 0.47
30 45 0.27
31 12 0.07
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTACATTTTTACCCCGAACTTTCC
Found at i:36495421 original size:116 final size:117
Alignment explanation
Indices: 36495216--36495428 Score: 290
Period size: 116 Copynumber: 1.8 Consensus size: 117
36495206 CCCTAAATTA
* * * * *
36495216 TCCAAAAATTACATTTTTACTCTCGAACTTTCCAAAATTCTATTTTTGACCCCGAACTTTCCAAA
1 TCCAAAAATAACATTTTTACCCCCGAACTTTCAAAAATTCTATTTTTAACCCCGAACTTTCCAAA
*
36495281 AATTACATTTTTACCCCTTAACTTCCAAAATTCCATTTTTGACCTTGATTTT
66 AATTACATTTTTACCCCTGAACTTCCAAAATTCCATTTTTGACCTTGATTTT
* *
36495333 TCCAAAAATAACA-TTTTACCCCCGAACTTTCAAAAATTTTATTTTTAACCCC-AATTTCTCCAA
1 TCCAAAAATAACATTTTTACCCCCGAACTTTCAAAAATTCTATTTTTAACCCCGAACTT-TCCAA
*
36495396 AAATTATCA-TTTTA-CCCTCGAACTTCTAAAATT
65 AAATTA-CATTTTTACCCCT-GAACTTCCAAAATT
36495429 TTTGTTTTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
115 8 0.10
116 62 0.74
117 14 0.17
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (117 bp):
TCCAAAAATAACATTTTTACCCCCGAACTTTCAAAAATTCTATTTTTAACCCCGAACTTTCCAAA
AATTACATTTTTACCCCTGAACTTCCAAAATTCCATTTTTGACCTTGATTTT
Found at i:36495437 original size:59 final size:57
Alignment explanation
Indices: 36495211--36495466 Score: 230
Period size: 58 Copynumber: 4.4 Consensus size: 57
36495201 AAGGTCCCTA
* *
36495211 AATTATCCAAAAATTACATTTTTACTCTCGAACTTTCCAAAATTCTATTTTTGACCCC
1 AATTTTCCAAAAATTACATTTTTACCCTCGAAC-TTCCAAAATTCTATTTTTGACCCC
* * * **
36495269 GAACTTTCCAAAAATTACATTTTTACCC-CTTAACTTCCAAAATTCCATTTTTGACCTTG
1 -AATTTTCCAAAAATTACATTTTTACCCTC-GAACTTCCAAAATTCTATTTTTGACC-CC
* * * * * *
36495328 ATTTTTCCAAAAATAACA-TTTTACCCCCGAACTTTCAAAAATTTTATTTTTAACCCC
1 AATTTTCCAAAAATTACATTTTTACCCTCGAAC-TTCCAAAATTCTATTTTTGACCCC
* * * *
36495385 AATTTCTCCAAAAATTATCA-TTTTACCCTCGAACTTCTAAAATTTTTGTTTTTGACCCTG
1 AATTT-TCCAAAAATTA-CATTTTTACCCTCGAACTTCCAAAA-TTCTATTTTTGACCC-C
* *
36495445 AACTTTCCCAAAATTACCATTT
1 AATTTTCCAAAAATTA-CATTT
36495467 CACCCCTCGG
Statistics
Matches: 161, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
57 15 0.09
58 73 0.45
59 67 0.42
60 6 0.04
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (57 bp):
AATTTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAATTCTATTTTTGACCCC
Found at i:36501978 original size:43 final size:41
Alignment explanation
Indices: 36501908--36502071 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 41
36501898 TGTGTTAATT
* * * *
36501908 TTAGCGGCGTTTGTGGAAAAAACGCCGCTAAAAAACAT-TATC
1 TTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGACCATGT-TC
*
36501950 TATAGCGGCGTTTGTGAGGAAAGTGCCGCTAAAGACCATGTTC
1 T-TAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGACCATGTTC
* * * *
36501993 TTAAGCAGTGTTTTTGAGGAAAGCGCTGCTAAAGACCATGTTC
1 TT-AGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGACCATGTTC
* *
36502036 TTTAGCGGCGTTTATGGGAAAAGTGCCGCTAAAGAC
1 -TTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGAC
36502072 TATGGGAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
42 4 0.04
43 93 0.92
44 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (41 bp):
TTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGACCATGTTC
Found at i:36502080 original size:24 final size:24
Alignment explanation
Indices: 36502048--36502093 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36502038 TAGCGGCGTT
*
36502048 TATGGGAAAAGTGCCGCTAAAGAC
1 TATGGGAAAAGCGCCGCTAAAGAC
*
36502072 TATGGGAAAAGCGCTGCTAAAG
1 TATGGGAAAAGCGCCGCTAAAG
36502094 CCACGTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.17
Consensus pattern (24 bp):
TATGGGAAAAGCGCCGCTAAAGAC
Found at i:36502134 original size:66 final size:67
Alignment explanation
Indices: 36502012--36502136 Score: 180
Period size: 66 Copynumber: 1.9 Consensus size: 67
36502002 GTTTTTGAGG
* ** ** *
36502012 AAAGCGCTGCTAAAGACCATGTTCTTTAGCGGCGTTTATGGGAAAAGTGCCGCTAAAGACTATGG
1 AAAGCGCTGCTAAAGACCACGTTCTTTAGCGGCGTTTATGAAAAAAGCACCACTAAAGACTATGG
36502077 GA
66 GA
*
36502079 AAAGCGCTGCTAAAG-CCACGTTCTTTAGCGGCGTTTGTGAAAAAAGCACCACTAAAGA
1 AAAGCGCTGCTAAAGACCACGTTCTTTAGCGGCGTTTATGAAAAAAGCACCACTAAAGA
36502137 TCATGTTCTT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
66 36 0.71
67 15 0.29
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (67 bp):
AAAGCGCTGCTAAAGACCACGTTCTTTAGCGGCGTTTATGAAAAAAGCACCACTAAAGACTATGG
GA
Found at i:36502236 original size:43 final size:43
Alignment explanation
Indices: 36502074--36502236 Score: 193
Period size: 43 Copynumber: 3.8 Consensus size: 43
36502064 CTAAAGACTA
** *
36502074 TGGGAAAAGCGCTGCTAAAG-CCACGTTCTTTAGCGGCGTTTG
1 TGGGAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTG
** * * * *
36502116 TGAAAAAAGCACCACTAAAGATCATGTTCTTTAGAGGCATTTG
1 TGGGAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTG
* * *
36502159 CGGGAAAAGCGCCACTAAAAACCGTGTTCTTTAGCGGCGTTTG
1 TGGGAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTG
**
36502202 TGGGTGAAGCGCCACTAAAGACCATGTTCTTTAGC
1 TGGGAAAAGCGCCACTAAAGACCATGTTCTTTAGC
36502237 TTTAGCGGCG
Statistics
Matches: 97, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 15 0.15
43 82 0.85
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
TGGGAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTG
Found at i:36502337 original size:42 final size:43
Alignment explanation
Indices: 36502289--36502439 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 43
36502279 AAAAGCATCG
*
36502289 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCG-CT
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCA
* *
36502331 CTAAAGACCGTGTTCTTTAGCGGCGTTTGTGGGAGAAGCGCCA
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCA
* * * * * * * *
36502374 CTAAAGATCGTGGTCTTTAGTGGCGTTTAT-GAAAAAGTGCCG
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCA
* *
36502416 CTAAAGACCATATTCTATAGCGGC
1 CTAAAGACCATGTTCTTTAGCGGC
36502440 CTTTTTCCTC
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 64 0.70
43 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCA
Found at i:36506021 original size:18 final size:18
Alignment explanation
Indices: 36505998--36506038 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36505988 AATAAATACA
*
36505998 AAATACTCAGATTAAAAG
1 AAATACTCAAATTAAAAG
* *
36506016 AAATACTTAAATTCAAAG
1 AAATACTCAAATTAAAAG
36506034 AAATA
1 AAATA
36506039 TTTTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATACTCAAATTAAAAG
Found at i:36507440 original size:15 final size:16
Alignment explanation
Indices: 36507420--36507451 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36507410 GAAATAATAA
36507420 TTTG-AAAATTAAATT
1 TTTGAAAAATTAAATT
36507435 TTTGAAAAATTAAATT
1 TTTGAAAAATTAAATT
36507451 T
1 T
36507452 GATTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTGAAAAATTAAATT
Found at i:36507533 original size:60 final size:60
Alignment explanation
Indices: 36507424--36507566 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 60
36507414 TAATAATTTG
* * * *
36507424 AAAA-TTAAATTTTTGAAAAATTAAATTTGATTTGTTTTTTAATTTAAATTTTGAAAAA-A
1 AAAACTTAAATTTTT-TAAAGTTAAATTTGATTTGATTTTGAATTTAAATTTTGAAAAACA
* * *
36507483 AAACACTTAATTTTTTTATAGTTAATTTTGATTT-ATTTTGAATTTAAAATTTTGAAAAACA
1 AAA-ACTTAAATTTTTTAAAGTTAAATTTGATTTGATTTTGAATTT-AAATTTTGAAAAACA
36507544 AAAACTTAAATTTTTTAAAGTTA
1 AAAACTTAAATTTTTTAAAGTTA
36507567 GAAAATTTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
59 12 0.17
60 46 0.65
61 13 0.18
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (60 bp):
AAAACTTAAATTTTTTAAAGTTAAATTTGATTTGATTTTGAATTTAAATTTTGAAAAACA
Found at i:36509336 original size:139 final size:139
Alignment explanation
Indices: 36509086--36509367 Score: 555
Period size: 139 Copynumber: 2.0 Consensus size: 139
36509076 CATGTTCAAG
36509086 AAAGAAATTAATTTTTGTTTGGAAGTCTCACTATTTCGAGGTGATCGAGAAAGAAAATCACGTCC
1 AAAGAAATTAATTTTTGTTTGGAAGTCTCACTATTTCGAGGTGATCGAGAAAGAAAATCACGTCC
36509151 AGTGAGTTAGGACATAACATTTCGAGATCCAGAAATAACGAGCCTTCCTTTGTTGTAAACTTTTA
66 AGTGAGTTAGGACATAACATTTCGAGATCCAGAAATAACGAGCCTTCCTTTGTTGTAAACTTTTA
36509216 AACCTTGGA
131 AACCTTGGA
*
36509225 AAAGAAATTAATTTTTGTTTGGAAGTCTCACTATTTCGAGGTGATTGAGAAAGAAAATCACGTCC
1 AAAGAAATTAATTTTTGTTTGGAAGTCTCACTATTTCGAGGTGATCGAGAAAGAAAATCACGTCC
36509290 AGTGAGTTAGGACATAACATTTCGAGATCCAGAAATAACGAGCCTTCCTTTGTTGTAAACTTTTA
66 AGTGAGTTAGGACATAACATTTCGAGATCCAGAAATAACGAGCCTTCCTTTGTTGTAAACTTTTA
36509355 AACCTTGGA
131 AACCTTGGA
36509364 AAAG
1 AAAG
36509368 GATATTCGAT
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 142 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (139 bp):
AAAGAAATTAATTTTTGTTTGGAAGTCTCACTATTTCGAGGTGATCGAGAAAGAAAATCACGTCC
AGTGAGTTAGGACATAACATTTCGAGATCCAGAAATAACGAGCCTTCCTTTGTTGTAAACTTTTA
AACCTTGGA
Found at i:36509838 original size:22 final size:21
Alignment explanation
Indices: 36509794--36509840 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
36509784 CGATCTAAGG
*
36509794 AAAAATAAAAGAAACAGATTT
1 AAAAATAAAAGAAACAGAATT
* *
36509815 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAG-AAACAGAATT
36509837 AAAA
1 AAAA
36509841 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:36511480 original size:104 final size:104
Alignment explanation
Indices: 36511288--36511485 Score: 245
Period size: 104 Copynumber: 1.9 Consensus size: 104
36511278 ATACATTGGA
* * **
36511288 CCTTTTGACGCGAAATGAAATGACACCCAAGCACTCCATCCCGATTACTCAGCCTAACATGCTCT
1 CCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGATTACTCAGCCTAACACACTCT
*
36511353 AAATTTTTTTCTTCTCACTTTTTTTTATAATGCGTTAGC
66 AAATTTTTTTCTTATCACTTTTTTTTATAATGCGTTAGC
* * * * * *
36511392 CCTTTTGATGCGAAGTGAAATGATAACCAAGCACTCCACCCCGGTTACTCAGTCTAACACATTCT
1 CCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGATTACTCAGCCTAACACACTCT
* **
36511457 GAATTTATTTAT-TTATTTCTTTTTTTTAT
66 AAATTT-TTT-TCTTATCACTTTTTTTTAT
36511486 TCGGGTTAGA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 60 0.77
105 17 0.22
106 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (104 bp):
CCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGATTACTCAGCCTAACACACTCT
AAATTTTTTTCTTATCACTTTTTTTTATAATGCGTTAGC
Found at i:36512254 original size:18 final size:17
Alignment explanation
Indices: 36512220--36512265 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
36512210 TTCCTAGACA
*
36512220 AAAATAAATAAATAAAT
1 AAAATAAATAAAGAAAT
*
36512237 AAAATAAGATAGAGAAAT
1 AAAATAA-ATAAAGAAAT
36512255 AAAA-AAATAAA
1 AAAATAAATAAA
36512266 AATAATTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 4 0.16
17 9 0.36
18 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAGAAAT
Found at i:36515036 original size:21 final size:22
Alignment explanation
Indices: 36515012--36515073 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
36515002 CGATCCAAGG
*
36515012 AAAAATAAAAG-AAATAGATTT
1 AAAAATAAAAGAAAATAGAATT
*
36515033 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
36515055 AAAAGA-AATAGAAAATAGA
1 AAAA-ATAAAAGAAAATAGA
36515074 GAAGTCGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.29
22 24 0.69
23 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:36516446 original size:29 final size:29
Alignment explanation
Indices: 36516405--36516695 Score: 117
Period size: 30 Copynumber: 9.8 Consensus size: 29
36516395 TTTTAGGCAT
*
36516405 AAAAATGTCATTTTTAGAAGTTCGGGGGC
1 AAAAATGTGATTTTTAGAAGTTCGGGGGC
* * * *
36516434 AAAAATATGATTTTTGGAAGTTTGGAGGC
1 AAAAATGTGATTTTTAGAAGTTCGGGGGC
* * * *
36516463 AAAAACGTGAATTTTGGAATTTCGAGGGGC
1 AAAAATGTGATTTTTAGAAGTTCG-GGGGC
* **
36516493 AAATATGTGATTTTT-GCAAGTTCAAGGG-
1 AAAAATGTGATTTTTAG-AAGTTCGGGGGC
* * * *
36516521 TAAAATAG-AATTTTTAGAAGTTTGGGGGT
1 AAAAAT-GTGATTTTTAGAAGTTCGGGGGC
* * *
36516550 GAAAATG-GAATTTTTGAGAAGTTTAGGGGTC
1 AAAAATGTG-ATTTTT-AGAAG-TTCGGGGGC
* * * * *
36516581 -AAAATATAATTTTTGAGAAATTTGAGGGGT
1 AAAAATGTGATTTTT-AGAAGTTCG-GGGGC
* * ** * *
36516611 TAAAATGT-ATTTTTTGGAAAGTTTAGTGGT
1 AAAAATGTGA-TTTTTAG-AAGTTCGGGGGC
* * *
36516641 TAAAATGTAATTTTTAAGAAGTTTGGGGGC
1 AAAAATGTGATTTTT-AGAAGTTCGGGGGC
* *
36516671 TAAAATGTGATTTTTGAGAAATTCG
1 AAAAATGTGATTTTT-AGAAGTTCG
36516696 AGGATCAAAA
Statistics
Matches: 200, Mismatches: 47, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
28 19 0.09
29 63 0.31
30 94 0.47
31 24 0.12
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAAATGTGATTTTTAGAAGTTCGGGGGC
Found at i:36516508 original size:30 final size:29
Alignment explanation
Indices: 36516405--36516508 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
36516395 TTTTAGGCAT
* * *
36516405 AAAAATGTCATTTTTAGAAGTTCGGGGGC
1 AAAAATGTGATTTTTGGAATTTCGGGGGC
* *
36516434 AAAAATATGATTTTTGGAAGTTT-GGAGGC
1 AAAAATGTGATTTTTGGAA-TTTCGGGGGC
* *
36516463 AAAAACGTGAATTTTGGAATTTCGAGGGGC
1 AAAAATGTGATTTTTGGAATTTCG-GGGGC
*
36516493 AAATATGTGATTTTTG
1 AAAAATGTGATTTTTG
36516509 CAAGTTCAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.05
29 38 0.63
30 19 0.32
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAAATGTGATTTTTGGAATTTCGGGGGC
Found at i:36516572 original size:30 final size:29
Alignment explanation
Indices: 36516518--36516690 Score: 154
Period size: 30 Copynumber: 5.8 Consensus size: 29
36516508 GCAAGTTCAA
*
36516518 GGGTAAAATAGAATTTTT-AGAAGTTTGG
1 GGGTAAAATGGAATTTTTGAGAAGTTTGG
*
36516546 GGGTGAAAATGGAATTTTTGAGAAGTTTAG
1 GGGT-AAAATGGAATTTTTGAGAAGTTTGG
** *
36516576 GGGTCAAAATATAATTTTTGAGAAATTTGAG
1 GGGT-AAAATGGAATTTTTGAGAAGTTTG-G
* * *
36516607 GGGTTAAAATGTATTTTTTG-GAAAGTTTAGT
1 GGG-TAAAATGGAATTTTTGAG-AAGTTT-GG
* * *
36516638 GGTTAAAATGTAATTTTTAAGAAGTTTGG
1 GGGTAAAATGGAATTTTTGAGAAGTTTGG
36516667 GGGCTAAAATGTG-ATTTTTGAGAA
1 GGG-TAAAATG-GAATTTTTGAGAA
36516691 ATTCGAGGAT
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
28 4 0.03
29 16 0.14
30 71 0.60
31 25 0.21
32 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.38
Consensus pattern (29 bp):
GGGTAAAATGGAATTTTTGAGAAGTTTGG
Done.