Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 57 of 228
Found at i:16953602 original size:59 final size:59
Alignment explanation
Indices: 16953534--16953703 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
16953524 TCAAATTATT
*
16953534 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
16953593 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
16953652 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
16953704 ACAAACTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:16953810 original size:22 final size:24
Alignment explanation
Indices: 16953770--16953813 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
16953760 AAATAAACTT
*
16953770 AAAATGAAAAACTATTATATTTTA
1 AAAATGAAAAAATATTATATTTTA
16953794 AAAAT-AAAAAATA-TATATTT
1 AAAATGAAAAAATATTATATTT
16953814 AATATTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAATGAAAAAATATTATATTTTA
Found at i:16954301 original size:5 final size:5
Alignment explanation
Indices: 16954288--16954317 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
16954278 TAATTTCATT
16954288 TTTTAA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
16954318 TGTAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:16955929 original size:18 final size:18
Alignment explanation
Indices: 16955887--16955929 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16955877 TACCAGGTGC
* *
16955887 GTATCCTAACTCTTATGT
1 GTATCCTAACCCTTATAT
16955905 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
16955923 GTTTCCT
1 GTATCCT
16955930 TTATTCACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:16956391 original size:59 final size:59
Alignment explanation
Indices: 16956302--16956422 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
16956292 ATTGATTTAT
*
16956302 TTTTGAATATTTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATA-GAAGTTA
1 TTTTGAATATGTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATATG-AGTTA
* ** * *
16956361 TTTTGAATATGTTTGTTCAATTTATTTTTATATTGTTTTATTTAATAAATTATGAGTTA
1 TTTTGAATATGTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATATGAGTTA
16956420 TTT
1 TTT
16956423 CGATGTGGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (59 bp):
TTTTGAATATGTTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATATGAGTTA
Found at i:16957599 original size:30 final size:30
Alignment explanation
Indices: 16957556--16957616 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16957546 CAGATTTTAG
*
16957556 GAGCCACACGGGCTGGGCACACACCCATGT
1 GAGCCACACGGGCTGAGCACACACCCATGT
* * **
16957586 GAGCCTCATGGGCTGAGCACATGCCCATGT
1 GAGCCACACGGGCTGAGCACACACCCATGT
16957616 G
1 G
16957617 CCAACCCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (30 bp):
GAGCCACACGGGCTGAGCACACACCCATGT
Found at i:16963942 original size:9 final size:9
Alignment explanation
Indices: 16963928--16963952 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16963918 ATTGTTCAGA
16963928 AAAAAAATC
1 AAAAAAATC
16963937 AAAAAAATC
1 AAAAAAATC
16963946 AAAAAAA
1 AAAAAAA
16963953 AATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:16964811 original size:30 final size:30
Alignment explanation
Indices: 16964776--16964833 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16964766 TTTCAAGAGC
* *
16964776 CACACGGGCTGGGCACATGCCCATGTGAGA
1 CACACGGGCTGGACACATGCCAATGTGAGA
16964806 CACACGGGCTGGACACATGCCAATGTGA
1 CACACGGGCTGGACACATGCCAATGTGA
16964834 TAGCCAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGACACATGCCAATGTGAGA
Found at i:16970913 original size:41 final size:41
Alignment explanation
Indices: 16970865--16970942 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
16970855 CTGTCTAACC
*
16970865 TAATTGACAAATTCTATTATTTAACTTCTGTTTTACACACA
1 TAATTGACAAATTCTATTATTCAACTTCTGTTTTACACACA
* *
16970906 TAATTGACGAATTTTATTATTCAACTTCTGTTTTACA
1 TAATTGACAAATTCTATTATTCAACTTCTGTTTTACA
16970943 TGATAAATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.46
Consensus pattern (41 bp):
TAATTGACAAATTCTATTATTCAACTTCTGTTTTACACACA
Found at i:16974434 original size:19 final size:19
Alignment explanation
Indices: 16974410--16974448 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16974400 TTTAGCTCTA
*
16974410 TTTAATTTATTTTTTAATT
1 TTTAATATATTTTTTAATT
16974429 TTTAATATATTTTTTAATT
1 TTTAATATATTTTTTAATT
16974448 T
1 T
16974449 ATATTATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTAATATATTTTTTAATT
Found at i:16974456 original size:19 final size:19
Alignment explanation
Indices: 16974409--16974457 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
16974399 CTTTAGCTCT
16974409 ATTTA-ATT-TATTTTTTA
1 ATTTATATTATATTTTTTA
* *
16974426 ATTTTTAATATATTTTTTA
1 ATTTATATTATATTTTTTA
16974445 ATTTATATTATAT
1 ATTTATATTATAT
16974458 GAAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 4 0.15
18 2 0.08
19 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATATTATATTTTTTA
Found at i:16981939 original size:57 final size:59
Alignment explanation
Indices: 16981836--16981951 Score: 200
Period size: 57 Copynumber: 2.0 Consensus size: 59
16981826 GTAACTTTCT
16981836 TTATAATTGAATAACAGAAAAAATTTACCAATAATTAGATGACTACCAAAAAA-GAAAG
1 TTATAATTGAATAACAGAAAAAATTTACCAATAATTAGATGACTACCAAAAAAGGAAAG
* *
16981894 TTATAATTGAGTAACAGAAAAAA-TTATCAATAATTAGATGACTACCAAAAAAGGAAAG
1 TTATAATTGAATAACAGAAAAAATTTACCAATAATTAGATGACTACCAAAAAAGGAAAG
16981952 AATTTAAAGG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
57 28 0.51
58 27 0.49
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.24
Consensus pattern (59 bp):
TTATAATTGAATAACAGAAAAAATTTACCAATAATTAGATGACTACCAAAAAAGGAAAG
Found at i:16984820 original size:31 final size:31
Alignment explanation
Indices: 16984739--16984826 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
16984729 AACTTTTAAG
* *
16984739 AGCTTAATGGGAATTTCTAAAAATTTTGGAA
1 AGCTTAATGAGAATTTTTAAAAATTTTGGAA
* *
16984770 ATC-TAATTAGAATTTTTAAAAATTTT-GAA
1 AGCTTAATGAGAATTTTTAAAAATTTTGGAA
*
16984799 AGGCTTAATGAGATTTTTTAAAAATTTT
1 A-GCTTAATGAGAATTTTTAAAAATTTT
16984827 AGAGCCCTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 4 0.08
30 21 0.44
31 23 0.48
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (31 bp):
AGCTTAATGAGAATTTTTAAAAATTTTGGAA
Found at i:16984837 original size:61 final size:62
Alignment explanation
Indices: 16984740--16984871 Score: 149
Period size: 61 Copynumber: 2.1 Consensus size: 62
16984730 ACTTTTAAGA
* * * * * ** *
16984740 GCTTAATGGGAATTTCTAAAAATTTTGGAAATCTAATTAGAATT-TTTAAAAATTTTGAAAG
1 GCTTAATGAGAATTTCTAAAAATTTTAGAAACCTAATTAAAATTATTAAAAAAAATTAAAAG
* * **
16984801 GCTTAATGAGATTTTTTAAAAATTTTAGAGCCCTAATTAAAATTATTAAAAAAAATTAAAAG
1 GCTTAATGAGAATTTCTAAAAATTTTAGAAACCTAATTAAAATTATTAAAAAAAATTAAAAG
16984863 GCTTAATGA
1 GCTTAATGA
16984872 TAAATTTCCA
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
61 36 0.62
62 22 0.38
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (62 bp):
GCTTAATGAGAATTTCTAAAAATTTTAGAAACCTAATTAAAATTATTAAAAAAAATTAAAAG
Found at i:16987237 original size:9 final size:9
Alignment explanation
Indices: 16987223--16987251 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
16987213 ACAAATATAT
16987223 ATTTTAAAA
1 ATTTTAAAA
16987232 ATTTTAAAA
1 ATTTTAAAA
16987241 ATTTTAAAA
1 ATTTTAAAA
16987250 AT
1 AT
16987252 ATATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:16987252 original size:33 final size:35
Alignment explanation
Indices: 16987210--16987276 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
16987200 TCTCATTTAA
16987210 TTAACAAATATA-TATTTTAAAA-ATTTTAAAAATT
1 TTAACAAATATATTA-TTTAAAATATTTTAAAAATT
*
16987244 TTAA-AAATATATTATTTAAAATTTTTTAAAAAT
1 TTAACAAATATATTATTTAAAATATTTTAAAAAT
16987277 AAATACGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (35 bp):
TTAACAAATATATTATTTAAAATATTTTAAAAATT
Found at i:16987271 original size:34 final size:34
Alignment explanation
Indices: 16987210--16987276 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
16987200 TCTCATTTAA
16987210 TTAACAAATATATATTTTAAAAATTTTAAAAATT
1 TTAACAAATATATATTTTAAAAATTTTAAAAATT
*
16987244 TTAA-AAATATAT-TATTTAAAATTTTTTAAAAAT
1 TTAACAAATATATAT-TTTAAAA-ATTTTAAAAAT
16987277 AAATACGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 1 0.03
33 15 0.50
34 14 0.47
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (34 bp):
TTAACAAATATATATTTTAAAAATTTTAAAAATT
Found at i:16987287 original size:24 final size:25
Alignment explanation
Indices: 16987242--16987290 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16987232 ATTTTAAAAA
* **
16987242 TTTTAAAAATATATTATTTAAAATT
1 TTTTAAAAATATAATACGTAAAATT
16987267 TTTTAAAAATA-AATACGTAAAATT
1 TTTTAAAAATATAATACGTAAAATT
16987291 GCATGCAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTAAAAATATAATACGTAAAATT
Found at i:16988812 original size:9 final size:9
Alignment explanation
Indices: 16988798--16988825 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16988788 ATACGTATAT
16988798 AGAAGTAAA
1 AGAAGTAAA
16988807 AGAAGTAAA
1 AGAAGTAAA
16988816 AGAAGTAAA
1 AGAAGTAAA
16988825 A
1 A
16988826 AAAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (9 bp):
AGAAGTAAA
Found at i:16989606 original size:17 final size:17
Alignment explanation
Indices: 16989584--16989628 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
16989574 TTTATTCAAT
*
16989584 ATAAAAATAGAAAATAA
1 ATAAAAACAGAAAATAA
*
16989601 ATAAAACACCGAAAATAA
1 ATAAAA-ACAGAAAATAA
16989619 A-AAAAACAGA
1 ATAAAAACAGA
16989629 GATGCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 10 0.42
ACGTcount: A:0.73, C:0.09, G:0.07, T:0.11
Consensus pattern (17 bp):
ATAAAAACAGAAAATAA
Found at i:16989693 original size:18 final size:18
Alignment explanation
Indices: 16989670--16989705 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16989660 CTGTTTTCAA
16989670 TCTCCCAATTTACAGTAT
1 TCTCCCAATTTACAGTAT
* *
16989688 TCTCCCCATTTTCAGTAT
1 TCTCCCAATTTACAGTAT
16989706 ACAAATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (18 bp):
TCTCCCAATTTACAGTAT
Found at i:16990120 original size:28 final size:28
Alignment explanation
Indices: 16990068--16990123 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
16990058 TTATTTTAAA
*
16990068 ATATATTATGGTAGTTCTACCAAAAAAT
1 ATATATTATGGTAGTTATACCAAAAAAT
**
16990096 ATATATTATGGTAGTTATATTAAAAAAT
1 ATATATTATGGTAGTTATACCAAAAAAT
16990124 GGTATGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (28 bp):
ATATATTATGGTAGTTATACCAAAAAAT
Found at i:16992477 original size:38 final size:38
Alignment explanation
Indices: 16992434--16992559 Score: 114
Period size: 38 Copynumber: 3.2 Consensus size: 38
16992424 AATTACTATA
*
16992434 AGAAATAATAATTTAAATTGATTTATTTTGCAAAATAT
1 AGAAATAATAATTTAAATTGATTTCTTTTGCAAAATAT
* * * *
16992472 AGAAATAA-AA-CTAAGGTTTATAGCTCTTTTG-AAATTACTAT
1 AGAAATAATAATTTAA-ATTGAT--TTCTTTTGCAAA--A-TAT
*
16992513 AAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATAT
1 -AGAAATAATAATTTAAATTGATTTCTTTTGCAAAATAT
16992552 AGAAATAA
1 AGAAATAA
16992560 AACTAAGGTT
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
36 3 0.04
37 6 0.09
38 19 0.28
39 9 0.13
40 2 0.03
41 10 0.15
42 11 0.16
43 5 0.07
44 3 0.04
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (38 bp):
AGAAATAATAATTTAAATTGATTTCTTTTGCAAAATAT
Found at i:16992527 original size:80 final size:80
Alignment explanation
Indices: 16992411--16992571 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
16992401 AATAAAAAAG
*
16992411 ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGATTTATTTTGCAAAATATAGAA
1 ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTATTTTGCAAAATATAGAA
16992476 ATAAAACTAAGGTTT
66 ATAAAACTAAGGTTT
* *
16992491 ATAGCTCTTTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATATAGAA
1 ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTATTTTGCAAAATATAGAA
16992556 ATAAAACTAAGGTTT
66 ATAAAACTAAGGTTT
16992571 A
1 A
16992572 ATTCATAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.37
Consensus pattern (80 bp):
ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTATTTTGCAAAATATAGAA
ATAAAACTAAGGTTT
Found at i:16993351 original size:23 final size:23
Alignment explanation
Indices: 16993303--16993351 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
16993293 AATATGATAA
*
16993303 AAATTTAAAATATAAACTATTGG
1 AAATTTAAAATATAAACTATTAG
16993326 AAATTTCAAAATA-AAACT-TGTAG
1 AAATTT-AAAATATAAACTAT-TAG
16993349 AAA
1 AAA
16993352 GAAAATTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 1 0.04
23 16 0.70
24 6 0.26
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (23 bp):
AAATTTAAAATATAAACTATTAG
Found at i:17004560 original size:29 final size:29
Alignment explanation
Indices: 17004518--17004576 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17004508 CTTAAACAGT
17004518 AATTAAATAAAATTCTAAAATGACAACTA
1 AATTAAATAAAATTCTAAAATGACAACTA
17004547 AATTAAATAAAATTCTAAAATGACAACTA
1 AATTAAATAAAATTCTAAAATGACAACTA
17004576 A
1 A
17004577 CTATTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.27
Consensus pattern (29 bp):
AATTAAATAAAATTCTAAAATGACAACTA
Found at i:17004654 original size:25 final size:23
Alignment explanation
Indices: 17004625--17004671 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
17004615 AGCATAAATT
*
17004625 TTATAAAATTATGATATAATTAAAA
1 TTATAAAA-TATAAT-TAATTAAAA
17004650 TTATAAAATATAATTAATTAAA
1 TTATAAAATATAATTAATTAAA
17004672 TAAAAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTATAAAATATAATTAATTAAAA
Found at i:17004982 original size:22 final size:23
Alignment explanation
Indices: 17004952--17004998 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
17004942 AGTTTATAAG
17004952 TTTAGAAGT-AAAAATGACTAATT
1 TTTAGAAGTGAAAAATGA-TAATT
*
17004975 TTTA-AAGTGAAAACTGATAATT
1 TTTAGAAGTGAAAAATGATAATT
17004997 TT
1 TT
17004999 GAGCTTAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (23 bp):
TTTAGAAGTGAAAAATGATAATT
Found at i:17007660 original size:9 final size:9
Alignment explanation
Indices: 17007646--17007672 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
17007636 AAAATGGACA
17007646 TGAAATAGG
1 TGAAATAGG
17007655 TGAAATAGG
1 TGAAATAGG
17007664 TGAAATAGG
1 TGAAATAGG
17007673 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
TGAAATAGG
Found at i:17008347 original size:10 final size:10
Alignment explanation
Indices: 17008332--17008356 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17008322 TTAGTGAAAA
17008332 AGAAAAAATG
1 AGAAAAAATG
17008342 AGAAAAAATG
1 AGAAAAAATG
17008352 AGAAA
1 AGAAA
17008357 TTTCCCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAAAATG
Found at i:17008741 original size:101 final size:102
Alignment explanation
Indices: 17008473--17008748 Score: 335
Period size: 101 Copynumber: 2.7 Consensus size: 102
17008463 AAAGTGATGG
* * **
17008473 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TGGAATGATAATGGTCAAATGTGTAGT
* * * *
17008536 ACTATGTACAGGCTACTATGTGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTACGTGAACCGGAAAGCTTCGA
* * **
17008574 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAT-ATTAATGGTCATGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGA-TAATGGTCAAATGTGTAGT
* * *
17008638 ACTATATGCAGGCTACTACGTGAACTGGAAAG-TTTGA
65 ACTATGTGCAGGCTACTACGTGAACCGGAAAGCTTCGA
* * * *
17008675 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGATAATGGTCAAATGTGTAGTA
17008740 CTATGTGCA
66 CTATGTGCA
17008749 AACCACCGAA
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
99 1 0.01
100 4 0.03
101 105 0.70
102 39 0.26
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGATAATGGTCAAATGTGTAGTA
CTATGTGCAGGCTACTACGTGAACCGGAAAGCTTCGA
Found at i:17013672 original size:109 final size:109
Alignment explanation
Indices: 17013481--17013705 Score: 423
Period size: 109 Copynumber: 2.1 Consensus size: 109
17013471 ATAGGTGTCC
* *
17013481 TAGATGCTTTCAGCCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCACAGTAGGTTT
1 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTAGTTCACAGTAGGTTT
17013546 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
66 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
*
17013590 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTAGTTCACAGTTGGTTT
1 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTAGTTCACAGTAGGTTT
17013655 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
66 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
17013699 TAGATGC
1 TAGATGC
17013706 ACCTTATTGA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 113 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (109 bp):
TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTAGTTCACAGTAGGTTT
TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
Found at i:17017541 original size:27 final size:27
Alignment explanation
Indices: 17017511--17017566 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
17017501 CAGGAATGAT
17017511 TATGCCTTTTTCCAAAATGGAAAAATG
1 TATGCCTTTTTCCAAAATGGAAAAATG
*
17017538 TATGCTTTTTTCCAAAATGGAAAAATG
1 TATGCCTTTTTCCAAAATGGAAAAATG
17017565 TA
1 TA
17017567 ATCATTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (27 bp):
TATGCCTTTTTCCAAAATGGAAAAATG
Found at i:17017606 original size:6 final size:6
Alignment explanation
Indices: 17017595--17017641 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
17017585 TAGGTTTCCA
* * *
17017595 AAATGG AAATGG AAATGG AAATGG AAATAG AAATAG AAATAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
17017642 ATTCATTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:17041860 original size:19 final size:21
Alignment explanation
Indices: 17041822--17041860 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17041812 CTGGATAAAA
17041822 GTATCAATACTATGGACCAAG
1 GTATCAATACTATGGACCAAG
*
17041843 GTATCGATACT-T-GACCAA
1 GTATCAATACTATGGACCAA
17041861 ATGAACAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (21 bp):
GTATCAATACTATGGACCAAG
Found at i:17048056 original size:26 final size:26
Alignment explanation
Indices: 17048019--17048070 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17048009 GAAGCAAGCT
*
17048019 AATCACCTGTGCTTAAAATTGATTAA
1 AATCACCCGTGCTTAAAATTGATTAA
17048045 AATCACCCGTGCTTAAAATTGATTAA
1 AATCACCCGTGCTTAAAATTGATTAA
17048071 GTTTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (26 bp):
AATCACCCGTGCTTAAAATTGATTAA
Found at i:17050349 original size:20 final size:20
Alignment explanation
Indices: 17050312--17050349 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17050302 ATGCCAAAAG
*
17050312 AAGCCACAAAGAACAACAGA
1 AAGCCACAAAAAACAACAGA
*
17050332 AAGCCACAAAAAAGAACA
1 AAGCCACAAAAAACAACA
17050350 CACGCAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.24, G:0.13, T:0.00
Consensus pattern (20 bp):
AAGCCACAAAAAACAACAGA
Found at i:17055298 original size:54 final size:55
Alignment explanation
Indices: 17055200--17055315 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 55
17055190 ACGGCCTAGC
* *
17055200 ACACGGGCTTGTGACACGGTCGTATGACCCTATTCAGAGAGTTACATGG-GTGAGG
1 ACACGGGCTTGAGACACGGCCGTATGACCCTATTCAGAGAGTTACATGGCGTGA-G
* * *
17055255 ACACGGGC-TGAGACACGGCCGTGTGTCCCTAGTTC-GA-AGGTTACATGGCTTGAG
1 ACACGGGCTTGAGACACGGCCGTATGACCCTA-TTCAGAGA-GTTACATGGCGTGAG
17055309 ACACGGG
1 ACACGGG
17055316 TATGTGTCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
53 1 0.02
54 38 0.72
55 14 0.26
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (55 bp):
ACACGGGCTTGAGACACGGCCGTATGACCCTATTCAGAGAGTTACATGGCGTGAG
Found at i:17063651 original size:25 final size:25
Alignment explanation
Indices: 17063607--17063655 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17063597 GTCGCTGCAA
* *
17063607 GCCACACACTTTATCCACCCAAACC
1 GCCACACACCTTAGCCACCCAAACC
*
17063632 GCCACACACCTTAGCTACCCAAAC
1 GCCACACACCTTAGCCACCCAAAC
17063656 TGCCGCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.47, G:0.06, T:0.14
Consensus pattern (25 bp):
GCCACACACCTTAGCCACCCAAACC
Found at i:17065671 original size:52 final size:52
Alignment explanation
Indices: 17065610--17065753 Score: 234
Period size: 52 Copynumber: 2.8 Consensus size: 52
17065600 TGAACTTAGA
* * * *
17065610 AATTGTGTATAAGGTAACCCATAAAAAAATAATTTCTTAGAAAATTTAAATT
1 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
17065662 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
1 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
* *
17065714 AACTATGTATAAGTTAACCCATAAAAAATTAATTTCTTAG
1 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAG
17065754 GGTTTAGTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (52 bp):
AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
Found at i:17070203 original size:40 final size:40
Alignment explanation
Indices: 17070172--17070534 Score: 437
Period size: 40 Copynumber: 9.1 Consensus size: 40
17070162 TTACAGTTAT
* * *
17070172 GTGCCCATGTTTGTACTTCGGTACTCCTGATTGCACTTAT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* **
17070212 GTGCCCCTATTTGTACTTCACTACCCCTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
17070252 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* *
17070292 GTGCCCTTGTTTGTACTTTGGTACCCCTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* * * *
17070332 GTGCCCCTATTTGTACTTTGGTACCCCTAATTGCACTTAT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* * *
17070372 GTGCCCTTATTT-TACTTCGGTACCACTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* *
17070411 ATGCCCCTGTTTGTACTTCGGTACCGCTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* * * * *
17070451 GTGCCCCTGTTTATACTTTGGCACCCCTAAATGCACATCTA-
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCAC-T-TAC
* * * *
17070492 -TGCCCATGTTTGCACTTCGGTGCCCCTGATCGCACATT-C
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCAC-TTAC
17070531 GTGC
1 GTGC
17070535 TTCTGATTGC
Statistics
Matches: 278, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.12
40 242 0.87
41 1 0.00
42 2 0.01
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (40 bp):
GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
Found at i:17070358 original size:20 final size:20
Alignment explanation
Indices: 17070181--17070435 Score: 101
Period size: 20 Copynumber: 12.8 Consensus size: 20
17070171 TGTGCCCATG
* *
17070181 TTTGTACTTCGGTACTCCTGA
1 TTTGTACTTAGGTACCCCT-A
* * *
17070202 -TTGCACTTATGTGCCCCTA
1 TTTGTACTTAGGTACCCCTA
*
17070221 TTTGTACTTCA-CTACCCCTGA
1 TTTGTACTT-AGGTACCCCT-A
* * * *
17070242 -TTGCACTTACGTGCCCCTG
1 TTTGTACTTAGGTACCCCTA
*
17070261 TTTGTACTTCGGTACCCCTGA
1 TTTGTACTTAGGTACCCCT-A
* * * * *
17070282 -TTGCACTTACGTGCCCTTG
1 TTTGTACTTAGGTACCCCTA
*
17070301 TTTGTACTTTGGTACCCCTGA
1 TTTGTACTTAGGTACCCCT-A
* * *
17070322 -TTGCACTTACGTGCCCCTA
1 TTTGTACTTAGGTACCCCTA
*
17070341 TTTGTACTTTGGTACCCCTA
1 TTTGTACTTAGGTACCCCTA
* * * * *
17070361 ATTGCACTTATGTGCCCTTA
1 TTTGTACTTAGGTACCCCTA
* *
17070381 TTT-TACTTCGGTACCACTGA
1 TTTGTACTTAGGTACCCCT-A
* ** * *
17070401 -TTGCACTTACATGCCCCTG
1 TTTGTACTTAGGTACCCCTA
*
17070420 TTTGTACTTCGGTACC
1 TTTGTACTTAGGTACC
17070436 GCTGATTGCA
Statistics
Matches: 160, Mismatches: 62, Indels: 25
0.65 0.25 0.10
Matches are distributed among these distances:
19 14 0.09
20 144 0.90
21 2 0.01
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.38
Consensus pattern (20 bp):
TTTGTACTTAGGTACCCCTA
Found at i:17070526 original size:20 final size:20
Alignment explanation
Indices: 17070503--17070559 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
17070493 GCCCATGTTT
17070503 GCACTTCGGTGCCCCTGATC
1 GCACTTCGGTGCCCCTGATC
** *
17070523 GCACATTC-GTGCTTCTGATT
1 GCAC-TTCGGTGCCCCTGATC
*
17070543 GCACTTTGGTGCCCCTG
1 GCACTTCGGTGCCCCTG
17070560 TTATGCATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.11, C:0.33, G:0.25, T:0.32
Consensus pattern (20 bp):
GCACTTCGGTGCCCCTGATC
Found at i:17075186 original size:21 final size:21
Alignment explanation
Indices: 17075148--17075187 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17075138 TTTAGAAAAG
*
17075148 TTAGATAAGTGAAATAAATAA
1 TTAGATAAGAGAAATAAATAA
17075169 TTAGATAA-AGAAATTAAAT
1 TTAGATAAGAGAAA-TAAAT
17075188 GAAGGGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
TTAGATAAGAGAAATAAATAA
Found at i:17090228 original size:93 final size:94
Alignment explanation
Indices: 17089972--17090262 Score: 395
Period size: 93 Copynumber: 3.1 Consensus size: 94
17089962 AATTATTATT
17089972 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
17090037 TTACTAAAA--TT-ATG--TAATACTATA
66 TTACTAAAATCTTAATGTATAATACTATA
* * * * *
17090061 AAATATAA-TTAA-AATAAT-TATTATTAAATATAATT-TAATAAAAATATATAATTATTCTTAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCT--T---AATAT-TAAATATTCTTAT
17090122 ATGAATTTACTAAAATCTTAATGTATAATACTAT-
60 ATGAATTTACTAAAATCTTAATGTATAATACTATA
17090156 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
* *
17090221 TTACTAAAATCATAATATATAATACTATA
66 TTACTAAAATCTTAATGTATAATACTATA
17090250 AAATATAATTTAA
1 AAATATAATTTAA
17090263 AATAATTATT
Statistics
Matches: 174, Mismatches: 12, Indels: 27
0.82 0.06 0.13
Matches are distributed among these distances:
85 1 0.01
86 14 0.08
87 6 0.03
88 4 0.02
89 8 0.05
90 5 0.03
91 27 0.16
93 46 0.26
94 21 0.12
95 8 0.05
96 13 0.07
97 6 0.03
98 14 0.08
99 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (94 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
TTACTAAAATCTTAATGTATAATACTATA
Found at i:17090290 original size:120 final size:118
Alignment explanation
Indices: 17090155--17090376 Score: 390
Period size: 119 Copynumber: 1.9 Consensus size: 118
17090145 TATAATACTA
*
17090155 TAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAA
1 TAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-TAAATATTCTTATATGAA
*
17090220 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTAT
65 TTTACTAAAATCATAATACATAATACTATAAAA-ATAATTTAAAATAATTATTAT
*
17090275 TAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAAT
1 TAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATAAATATTCTTATATGAAT
*
17090340 TTACTAAAATTATAATACATAATACTATAAAAATAAT
66 TTACTAAAATCATAATACATAATACTATAAAAATAAT
17090377 ATTTTTATTT
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 5 0.05
119 48 0.49
120 45 0.46
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (118 bp):
TAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATAAATATTCTTATATGAAT
TTACTAAAATCATAATACATAATACTATAAAAATAATTTAAAATAATTATTAT
Found at i:17090310 original size:59 final size:60
Alignment explanation
Indices: 17089946--17090335 Score: 218
Period size: 59 Copynumber: 6.4 Consensus size: 60
17089936 TAAATAATTT
*
17089946 AATCAT-ATTTTAACATAATTATTAT-TAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATATTAA-AT-ATTATTATATAAATATAATTTAATAAAAATATATAATTTAATAA
* * * * * * *
17090006 AATTCTTAATATTAAATATT-CT-TAT--AT-GAATTTACTAAAATTATGTAATACT-ATAA
1 AA-TCATAATATTAAATATTATTATATAAATATAATTTAATAAAAATATATAAT-TTAATAA
*
17090062 AAT-ATAAT-TAAAATAATTATTAT-TAAATATAATTTAATAAAAATATATAATTATTCTTATAT
1 AATCATAATATTAAAT-ATTATTATATAAATATAATTTAATAAAAATATAT-A--A-T-TTA-AT
*
17090124 GA
59 AA
* * * * * *
17090126 ATTTACTAAAATCTTAATGTATAATACTATAAATATAATTTAATAAAAATATATAATTTAATAA
1 AATCA-TAATAT-TAAATAT-TATTA-TATAAATATAATTTAATAAAAATATATAATTTAATAA
* * * * * ** * * *
17090190 AATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT-ATAA
1 AA-TCATAATATTAAATATTATTATATAAATATAATTTAATAAAAATATATAAT-TTAATAA
*
17090251 AAT-ATAAT-TTAAAATAATTATTAT-TAAACATAATTTAATAAAAATATATAATTTAATAA
1 AATCATAATATT-AAAT-ATTATTATATAAATATAATTTAATAAAAATATATAATTTAATAA
* * *
17090310 AATTCTTAATA-TAATTATTCTTATAT
1 AA-TCATAATATTAAATATTATTATAT
17090336 GAATTTACTA
Statistics
Matches: 243, Mismatches: 55, Indels: 64
0.67 0.15 0.18
Matches are distributed among these distances:
53 5 0.02
54 7 0.03
55 3 0.01
56 25 0.10
57 5 0.02
58 19 0.08
59 44 0.18
60 18 0.07
61 40 0.16
62 12 0.05
63 5 0.02
64 14 0.06
65 5 0.02
66 4 0.02
67 3 0.01
68 7 0.03
69 2 0.01
70 25 0.10
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (60 bp):
AATCATAATATTAAATATTATTATATAAATATAATTTAATAAAAATATATAATTTAATAA
Found at i:17091097 original size:30 final size:30
Alignment explanation
Indices: 17091063--17091121 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
17091053 TTCAGTCTTA
*
17091063 AGCCAAGATAAAGTAGGCAATACCTGAATT
1 AGCCAAGATAAAGTAGGCAATAACTGAATT
17091093 AGCCAAGATAAAGTAGGCAATAACTGAAT
1 AGCCAAGATAAAGTAGGCAATAACTGAAT
17091122 AGTGATGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (30 bp):
AGCCAAGATAAAGTAGGCAATAACTGAATT
Found at i:17101797 original size:37 final size:37
Alignment explanation
Indices: 17101747--17101827 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
17101737 ATCTAATCGA
* * *
17101747 AACACGCTAAACGCTTATGAGAGCTAATGCAACCGAT
1 AACACGCTAAACGCTCATAAGAGCTAATCCAACCGAT
*
17101784 AACACGCTAAACGCTCATAAGAGCTAATCCAATCGAT
1 AACACGCTAAACGCTCATAAGAGCTAATCCAACCGAT
17101821 AACACGC
1 AACACGC
17101828 CTCGGCACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.17
Consensus pattern (37 bp):
AACACGCTAAACGCTCATAAGAGCTAATCCAACCGAT
Found at i:17115705 original size:43 final size:42
Alignment explanation
Indices: 17115655--17115748 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
17115645 TCTTACATGG
* *
17115655 AAATCTCATATCGATGTCAATAGCCCAACTATGGTCTTACACA
1 AAATCTCATATCGATG-CAATAGCCCAAATATGGCCTTACACA
* * * *
17115698 AAGTCTCATATCGATGCCATATCCCAAATATGGCCTTATACA
1 AAATCTCATATCGATGCAATAGCCCAAATATGGCCTTACACA
17115740 AAATCTCAT
1 AAATCTCAT
17115749 GCAATGCCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 29 0.66
43 15 0.34
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.29
Consensus pattern (42 bp):
AAATCTCATATCGATGCAATAGCCCAAATATGGCCTTACACA
Found at i:17115741 original size:42 final size:42
Alignment explanation
Indices: 17115655--17115880 Score: 146
Period size: 48 Copynumber: 5.0 Consensus size: 42
17115645 TCTTACATGG
* * * *
17115655 AAATCTCATATCGATGTCAATAGCCCAACTATGGTCTTACACA
1 AAATCTCATATCGATG-CCATATCCCAAATATGGTCTTATACA
* *
17115698 AAGTCTCATATCGATGCCATATCCCAAATATGGCCTTATACA
1 AAATCTCATATCGATGCCATATCCCAAATATGGTCTTATACA
* *
17115740 AAATCTCATGCAATGCCGATGCCATATCCCAGATATGGTCTTATACG
1 AAATCTCAT---AT--CGATGCCATATCCCAAATATGGTCTTATACA
** * * *
17115787 GGATCTTAAATCGATTCTGATGCCATATCCCAGATATGGTCTTATACG
1 AAATC-T-CAT--A-TC-GATGCCATATCCCAAATATGGTCTTATACA
* * *
17115835 AGATCTCAAATCGACGCCGATGCCATATCCCAGATATGGTCTTATA
1 AAATCTC--AT--A--TCGATGCCATATCCCAAATATGGTCTTATA
17115881 TGAGATTCAA
Statistics
Matches: 153, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
42 29 0.19
43 15 0.10
45 2 0.01
47 33 0.22
48 70 0.46
49 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
AAATCTCATATCGATGCCATATCCCAAATATGGTCTTATACA
Found at i:17115817 original size:48 final size:48
Alignment explanation
Indices: 17115709--17115893 Score: 232
Period size: 48 Copynumber: 3.9 Consensus size: 48
17115699 AGTCTCATAT
* * * * * *
17115709 CGATGCCATATCCCAAATATGGCCTTATACAAAATCTC--ATGCAATGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAAT-CGACGC
* * **
17115756 CGATGCCATATCCCAGATATGGTCTTATACGGGATCTTAAATCGATTC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGACGC
*
17115804 TGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGACGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGACGC
*
17115852 CGATGCCATATCCCAGATATGGTCTTATATGAGAT-TCAAATC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATC
17115894 AATTCGGTAA
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 39 0.32
48 80 0.66
49 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGACGC
Found at i:17115893 original size:95 final size:95
Alignment explanation
Indices: 17115710--17115898 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 95
17115700 GTCTCATATC
*
17115710 GATGCCATATCCCAAATATGGCCTTATACAAAATCTCATGCAATGCCGATGCCATATCCCAGATA
1 GATGCCATATCCCAAATATGGCCTTATACAAAATCTCATGCAACGCCGATGCCATATCCCAGATA
* * *
17115775 TGGTCTTATACGGGATCTTAAATCGATTCT
66 TGGTCTTATACGAGATCTCAAATCAATTCT
* * * * *
17115805 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAAT-CGACGCCGATGCCATATCCCAGA
1 GATGCCATATCCCAAATATGGCCTTATACAAAATCTC--ATGCAACGCCGATGCCATATCCCAGA
*
17115869 TATGGTCTTATATGAGAT-TCAAATCAATTC
64 TATGGTCTTATACGAGATCTCAAATCAATTC
17115899 GGTAATATAC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
95 43 0.52
96 37 0.45
97 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (95 bp):
GATGCCATATCCCAAATATGGCCTTATACAAAATCTCATGCAACGCCGATGCCATATCCCAGATA
TGGTCTTATACGAGATCTCAAATCAATTCT
Found at i:17122155 original size:24 final size:25
Alignment explanation
Indices: 17122067--17122157 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 25
17122057 GGCTCTTCGA
17122067 AGCTTCCCGTTAT-TGGCT-AGCATG
1 AGCTTCCCGTTATATGGCTCA-CATG
* * **
17122091 AGCTTCCCGAT-TGTGGCTCTTATG
1 AGCTTCCCGTTATATGGCTCACATG
** *
17122115 AGCTTCTTGTTACATGGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
17122140 AGCTT-CCGTTATATGGCT
1 AGCTTCCCGTTATATGGCT
17122158 TGAGAGAGGA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
23 1 0.02
24 36 0.71
25 14 0.27
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:17125297 original size:6 final size:6
Alignment explanation
Indices: 17125286--17125319 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17125276 AGGTTTTCAA
* *
17125286 AAATGG AAATGG AAATGG AAATGA AAATGA AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
17125320 ATAAACTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:17133471 original size:19 final size:19
Alignment explanation
Indices: 17133449--17133537 Score: 79
Period size: 19 Copynumber: 4.7 Consensus size: 19
17133439 CTGGCACATG
**
17133449 AAGTGCATCCTAGCGTACA
1 AAGTGCATCCTAGCACACA
** *
17133468 AAGTGCATTTTAGCACACG
1 AAGTGCATCCTAGCACACA
*
17133487 AAGTGCATCCTATCACACA
1 AAGTGCATCCTAGCACACA
* * * *
17133506 AAATGCATCCCAACACACG
1 AAGTGCATCCTAGCACACA
*
17133525 AAGTGTATCCTAG
1 AAGTGCATCCTAG
17133538 TGTATAAGCA
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (19 bp):
AAGTGCATCCTAGCACACA
Found at i:17133507 original size:38 final size:38
Alignment explanation
Indices: 17133442--17133537 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
17133432 GTGCATACTG
* ** * ***
17133442 GCACATGAAGTGCATCCTAGCGTACAAAGTGCATTTTA
1 GCACACGAAGTGCATCCTAGCACACAAAATGCATCCCA
*
17133480 GCACACGAAGTGCATCCTATCACACAAAATGCATCCCA
1 GCACACGAAGTGCATCCTAGCACACAAAATGCATCCCA
* *
17133518 ACACACGAAGTGTATCCTAG
1 GCACACGAAGTGCATCCTAG
17133538 TGTATAAGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (38 bp):
GCACACGAAGTGCATCCTAGCACACAAAATGCATCCCA
Found at i:17143899 original size:20 final size:20
Alignment explanation
Indices: 17143852--17143903 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
17143842 TGGTAAAGTC
*
17143852 AATATTGATAAATCCTTAGA
1 AATATTGGTAAATCCTTAGA
*
17143872 AATATTGGTAAATCGTTAGA
1 AATATTGGTAAATCCTTAGA
* *
17143892 TATTTTGGTAAA
1 AATATTGGTAAA
17143904 AGCTTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
AATATTGGTAAATCCTTAGA
Found at i:17174850 original size:40 final size:40
Alignment explanation
Indices: 17174754--17174977 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
17174744 TGAATGCTGT
* * * * * *
17174754 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
** * *
17174794 CCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAAA
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAA
* ** *
17174834 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* ** *
17174874 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
17174914 CCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
17174953 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTG
17174978 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:17174957 original size:39 final size:40
Alignment explanation
Indices: 17174806--17174975 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
17174796 GGACTAAGAT
* * *
17174806 CCGAAGGCCTTTGTGCGAGATACTAAAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
** *
17174846 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
** * *
17174886 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
* * *
17174926 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
17174965 CCGAAGGCATT
1 CCGAAGGCATT
17174976 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.29
40 84 0.71
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
Found at i:17174995 original size:79 final size:80
Alignment explanation
Indices: 17174828--17175010 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
17174818 GTGCGAGATA
* ** * *
17174828 CTAAAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
17174893 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
17174908 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
17174972 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
17174987 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
17175011 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.53
80 26 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:17179695 original size:45 final size:45
Alignment explanation
Indices: 17179638--17179900 Score: 276
Period size: 45 Copynumber: 5.9 Consensus size: 45
17179628 TTATAGTGGA
* * * ***
17179638 AACGTGTAAGACCACAGCCGAAAGGTTTTATAGCATCATGATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCATGATTTT
* * * * * *
17179683 AACGATTAAGACCATAGCTGAAAGACATTATGGCAGCATAATTTA
1 AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCATGATTTT
* *
17179728 AACGAGTAAGACCATAGCTGAAAGACGTTGTGGCATCATGATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCATGATTTT
* *
17179773 AAC-AGTAAGACCATAGCTGAAAGATGTTATAGCATCACGATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCATGATTTT
* * * * *
17179817 AACAAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCATGATTTT
* * * * * *
17179862 AACGAGTAAGAGCATATCTAAAAGGCGCTATGGCATCAT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCAT
17179901 AAATCAGACG
Statistics
Matches: 186, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 40 0.22
45 146 0.78
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (45 bp):
AACGAGTAAGACCATAGCTGAAAGACGTTATAGCATCATGATTTT
Found at i:17179715 original size:90 final size:89
Alignment explanation
Indices: 17179606--17179796 Score: 220
Period size: 90 Copynumber: 2.1 Consensus size: 89
17179596 GAATAAAACT
* ** * * ***
17179606 ATAGTTGAAAGAAACTATGGCATTATAGTGGAAACGTGTAAGACCACAGCCGAAAGGTTTTATAG
1 ATAGCTGAAAGAAACTATGGCAGCATAATGGAAACGAGTAAGACCACAGCCGAAAGACGTTATAG
*
17179671 CATCATGATTTTAACGATTAAGACC
66 CATCATGATTTTAAC-AGTAAGACC
* * ** * * * *
17179696 ATAGCTGAAAGACATTATGGCAGCATAATTTAAACGAGTAAGACCATAGCTGAAAGACGTTGTGG
1 ATAGCTGAAAGAAACTATGGCAGCATAATGGAAACGAGTAAGACCACAGCCGAAAGACGTTATAG
17179761 CATCATGATTTTAACAGTAAGACC
66 CATCATGATTTTAACAGTAAGACC
17179785 ATAGCTGAAAGA
1 ATAGCTGAAAGA
17179797 TGTTATAGCA
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
89 20 0.24
90 64 0.76
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (89 bp):
ATAGCTGAAAGAAACTATGGCAGCATAATGGAAACGAGTAAGACCACAGCCGAAAGACGTTATAG
CATCATGATTTTAACAGTAAGACC
Found at i:17179815 original size:134 final size:134
Alignment explanation
Indices: 17179643--17179900 Score: 338
Period size: 134 Copynumber: 1.9 Consensus size: 134
17179633 GTGGAAACGT
* * * * * *
17179643 GTAAGACCACAGCCGAAAGGTTTTATAGCATCATGATTTTAACGATTAAGACCATAGCTGAAAGA
1 GTAAGACCACAGCCGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
* * * *
17179708 CATTATGGCAGCATAATT-TAAACGAGTAAGACCATAGCTGAAAGACGTTGTGGCATCATGATTT
66 CATTATGGCAGCACAATTCT-AACGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATTT
17179772 TAACA
130 TAACA
* *
17179777 GTAAGACCATAGCTGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
1 GTAAGACCACAGCCGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
* * * * * *
17179842 CGTTATGGCATCACGATTCTAACGAGTAAGAGCATATCTAAAAGGCGCTATGGCATCAT
66 CATTATGGCAGCACAATTCTAACGAGTAAGACCATAGCTAAAAGACGCTATGGCATCAT
17179901 AAATCAGACG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
134 104 0.99
135 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (134 bp):
GTAAGACCACAGCCGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
CATTATGGCAGCACAATTCTAACGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATTTT
AACA
Found at i:17179831 original size:89 final size:90
Alignment explanation
Indices: 17179665--17179877 Score: 284
Period size: 89 Copynumber: 2.4 Consensus size: 90
17179655 CCGAAAGGTT
* * * *
17179665 TTATAGCATCATGATTTTAACGATTAAGACCATAGCTGAAAGACATTATGGCAGCATAATTTAAA
1 TTATGGCATCATGATTTTAACGAGTAAGACCATAGCTGAAAGACATTATAGCAGCACAATTTAAA
* *
17179730 CGAGTAAGACCATAGCTGAAAGACG
66 CAAGTAAGACCATAGCTAAAAGACG
* ** * * *
17179755 TTGTGGCATCATGATTTTAAC-AGTAAGACCATAGCTGAAAGATGTTATAGCATCACGATTTTAA
1 TTATGGCATCATGATTTTAACGAGTAAGACCATAGCTGAAAGACATTATAGCAGCACAATTTAAA
17179819 CAAGTAAGACCATAGCTAAAAGACG
66 CAAGTAAGACCATAGCTAAAAGACG
* * *
17179844 TTATGGCATCACGATTCTAACGAGTAAGAGCATA
1 TTATGGCATCATGATTTTAACGAGTAAGACCATA
17179878 TCTAAAAGGC
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 76 0.72
90 30 0.28
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (90 bp):
TTATGGCATCATGATTTTAACGAGTAAGACCATAGCTGAAAGACATTATAGCAGCACAATTTAAA
CAAGTAAGACCATAGCTAAAAGACG
Found at i:17191043 original size:50 final size:50
Alignment explanation
Indices: 17190968--17191068 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
17190958 TGATAGTTGT
* *
17190968 TAAATTCGGTTTTAGAGTTCATCTTAGGTAGGATTTGT-TCGAATATTGAC
1 TAAATTCGGTTTTAGAATTCATCTTAGGTAGGATTTGTAT-GAATACTGAC
*
17191018 TAAATTTGGTTTTAGAATTCATCTTAGGTAGGATTTGTATGAATACTGAC
1 TAAATTCGGTTTTAGAATTCATCTTAGGTAGGATTTGTATGAATACTGAC
17191068 T
1 T
17191069 TAAAGATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (50 bp):
TAAATTCGGTTTTAGAATTCATCTTAGGTAGGATTTGTATGAATACTGAC
Found at i:17192673 original size:3 final size:3
Alignment explanation
Indices: 17192665--17192689 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17192655 AAACTTTAGG
17192665 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
17192690 CATCATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17215670 original size:17 final size:19
Alignment explanation
Indices: 17215628--17215673 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17215618 ATTTAATTAA
*
17215628 TTAAATATAATTTATATAT
1 TTAAATATGATTTATATAT
*
17215647 ATAAATATGATTT-TAT-T
1 TTAAATATGATTTATATAT
17215664 TTAAATATGA
1 TTAAATATGA
17215674 CAGTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 3 0.12
19 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
TTAAATATGATTTATATAT
Found at i:17216856 original size:14 final size:14
Alignment explanation
Indices: 17216837--17216879 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
17216827 GCCCCTATGC
17216837 TTTTATTTTTTTCT
1 TTTTATTTTTTTCT
* *
17216851 TTTTATTTATTTGT
1 TTTTATTTTTTTCT
* *
17216865 TTTCATTTTCTTCT
1 TTTTATTTTTTTCT
17216879 T
1 T
17216880 CCCTTTTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTTTCT
Found at i:17230827 original size:24 final size:24
Alignment explanation
Indices: 17230761--17230916 Score: 174
Period size: 25 Copynumber: 6.4 Consensus size: 24
17230751 TCATTAGGGG
*
17230761 TTACCGATTTTAGCTCGTGA-GAGC
1 TTACCGATTTCAGCTCGT-ATGAGC
* *
17230785 TTATCGATTCTCAGCTCGTATGATC
1 TTACCGATT-TCAGCTCGTATGAGC
17230810 TTACCGATTTCAGCTCGTATGAGC
1 TTACCGATTTCAGCTCGTATGAGC
*
17230834 TTACCGATTTCAACTCGTAAT-AGC
1 TTACCGATTTCAGCTCGT-ATGAGC
* *
17230858 TTACCAATTCTCAGCTCATATGAGC
1 TTACCGATT-TCAGCTCGTATGAGC
17230883 TTACCGATTTACAGCTCGTGA-GAGC
1 TTACCGATTT-CAGCTCGT-ATGAGC
*
17230908 ATACCGATT
1 TTACCGATT
17230917 CATAGCTCAT
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
24 54 0.48
25 58 0.51
26 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTATGAGC
Found at i:17230834 original size:49 final size:48
Alignment explanation
Indices: 17230761--17230916 Score: 172
Period size: 49 Copynumber: 3.2 Consensus size: 48
17230751 TCATTAGGGG
* * *
17230761 TTACCGATTTTAGCTCGTGA-GAGCTTATCGATTCTCAGCTCGT-ATGATC
1 TTACCGATTTCAGCTCGT-ATGAGCTTACCGATT-TCAGCTCGTAAT-AGC
*
17230810 TTACCGATTTCAGCTCGTATGAGCTTACCGATTTCAACTCGTAATAGC
1 TTACCGATTTCAGCTCGTATGAGCTTACCGATTTCAGCTCGTAATAGC
* * * *
17230858 TTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCTCGTGAGAGC
1 TTACCGATT-TCAGCTCGTATGAGCTTACCGATTT-CAGCTCGTAATAGC
*
17230908 ATACCGATT
1 TTACCGATT
17230917 CATAGCTCAT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
48 19 0.21
49 55 0.60
50 18 0.20
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (48 bp):
TTACCGATTTCAGCTCGTATGAGCTTACCGATTTCAGCTCGTAATAGC
Found at i:17230880 original size:73 final size:74
Alignment explanation
Indices: 17230761--17230916 Score: 208
Period size: 73 Copynumber: 2.1 Consensus size: 74
17230751 TCATTAGGGG
* * * * * * *
17230761 TTACCGATTTTAGCTCGTGAGAGCTTATCGATTCTCAGCTCGTATGATCTTACCGATTT-CAGCT
1 TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
17230825 CGT-ATGAGC
66 CGTGA-GAGC
*
17230834 TTACCGATTTCAACTCGTAATAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
1 TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
17230899 CGTGAGAGC
66 CGTGAGAGC
*
17230908 ATACCGATT
1 TTACCGATT
17230917 CATAGCTCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
73 51 0.71
74 20 0.28
75 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (74 bp):
TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
CGTGAGAGC
Found at i:17230929 original size:50 final size:49
Alignment explanation
Indices: 17230781--17230932 Score: 155
Period size: 49 Copynumber: 3.1 Consensus size: 49
17230771 TAGCTCGTGA
* * * * * * *
17230781 GAGCTTATCGATTCTCAGCTCGTATGATCTTACCGATT-TCAGCTCGTAT
1 GAGCTTACCGATT-TCAACTCGTAAGAGCATACCAATTCTCAGCTCATAT
* *
17230830 GAGCTTACCGATTTCAACTCGTAATAGCTTACCAATTCTCAGCTCATAT
1 GAGCTTACCGATTTCAACTCGTAAGAGCATACCAATTCTCAGCTCATAT
* * *
17230879 GAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATTCAT-AGCTCATAT
1 GAGCTTACCGATTT-CAACTCGTAAGAGCATACCAATTC-TCAGCTCATAT
17230929 GAGC
1 GAGC
17230933 ATACATGTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 19 0.22
49 36 0.41
50 32 0.36
51 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
GAGCTTACCGATTTCAACTCGTAAGAGCATACCAATTCTCAGCTCATAT
Found at i:17230933 original size:25 final size:25
Alignment explanation
Indices: 17230789--17230936 Score: 99
Period size: 25 Copynumber: 6.0 Consensus size: 25
17230779 GAGAGCTTAT
* * * *
17230789 CGATTCTCAGCTCGTATGATCTTAC
1 CGATTCACAGCTCATATGAGCATAC
* * *
17230814 CGATT-TCAGCTCGTATGAGCTTAC
1 CGATTCACAGCTCATATGAGCATAC
* *
17230838 CGATTTCA-A-CTCGTAAT-AGCTTAC
1 CGA-TTCACAGCTCAT-ATGAGCATAC
* * *
17230862 CAATTCTCAGCTCATATGAGCTTAC
1 CGATTCACAGCTCATATGAGCATAC
* *
17230887 CGATTTACAGCTCGTGA-GAGCATAC
1 CGATTCACAGCTCAT-ATGAGCATAC
*
17230912 CGATTCATAGCTCATATGAGCATAC
1 CGATTCACAGCTCATATGAGCATAC
17230937 ATGTACAACA
Statistics
Matches: 102, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
23 3 0.03
24 39 0.38
25 59 0.58
26 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (25 bp):
CGATTCACAGCTCATATGAGCATAC
Found at i:17233147 original size:20 final size:21
Alignment explanation
Indices: 17233122--17233160 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17233112 CTGCATTTTG
*
17233122 AAAATTTTTATAT-TTTCCCT
1 AAAATTTCTATATGTTTCCCT
17233142 AAAATTTCTATATGTTTCC
1 AAAATTTCTATATGTTTCC
17233161 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (21 bp):
AAAATTTCTATATGTTTCCCT
Found at i:17238126 original size:15 final size:15
Alignment explanation
Indices: 17238106--17238135 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17238096 CTTTTTTGGC
*
17238106 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
17238121 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
17238136 TTTACCCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:17239189 original size:19 final size:19
Alignment explanation
Indices: 17239165--17239201 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17239155 GCATGACCTC
17239165 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
17239184 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
17239202 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:17241245 original size:18 final size:17
Alignment explanation
Indices: 17241219--17241253 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17241209 AATATTAAGA
*
17241219 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17241236 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17241254 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17241265 original size:120 final size:120
Alignment explanation
Indices: 17241112--17241395 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
17241102 TAATTGAAAA
* * *
17241112 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
17241176 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
17241231 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
17241296 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
17241351 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
17241396 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:17241367 original size:18 final size:17
Alignment explanation
Indices: 17241339--17241373 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17241329 ATTATTAAGA
*
17241339 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17241356 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17241374 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17241373 original size:16 final size:16
Alignment explanation
Indices: 17241339--17241393 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
17241329 ATTATTAAGA
17241339 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
17241356 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
17241372 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
17241386 ATGTTTAA
1 AT-TTTAA
17241394 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:17241630 original size:16 final size:16
Alignment explanation
Indices: 17241609--17241676 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
17241599 AATTTGCTAT
17241609 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
17241625 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
17241641 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17241657 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17241673 TACA
1 TACA
17241677 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:17243608 original size:41 final size:41
Alignment explanation
Indices: 17243536--17243782 Score: 305
Period size: 41 Copynumber: 5.8 Consensus size: 41
17243526 AGATTTTATT
* * * * *
17243536 ATTAGCGACGTTTTTTCAAAAACGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
*
17243577 ATAAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
*
17243618 ATTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
* *
17243659 ATTAGTGGCATTTTTGGCGTTTTCTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTA---GC------GGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
17243709 ATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCCCGAGC
1 ATTAGCGGCGCTTTCTC-AAAAACGCCGCTAAAGCCCCGAGC
* *
17243751 ATTAGCGGCACTTTCTCAAAAACGCTGCTAAA
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
17243783 TGCATCAAAA
Statistics
Matches: 181, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
41 102 0.56
42 39 0.22
44 2 0.01
47 2 0.01
50 36 0.20
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGC
Found at i:17243742 original size:42 final size:41
Alignment explanation
Indices: 17243674--17243782 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 41
17243664 TGGCATTTTT
* *
17243674 GGCGTTTTCTCAAAAACGCCGCTAAAGGCCCGAGCATTAGC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGC
17243715 GGCGCTTTCTCAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTCTC-AAAAACGCCGCTAAAGCCCCGAGCATTAGC
* *
17243757 GGCACTTTCTCAAAAACGCTGCTAAA
1 GGCGCTTTCTCAAAAACGCCGCTAAA
17243783 TGCATCAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 24 0.38
42 39 0.62
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.19
Consensus pattern (41 bp):
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGC
Found at i:17243934 original size:40 final size:39
Alignment explanation
Indices: 17243842--17243957 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
17243832 GCGCTTCTTG
* * * * *
17243842 GAAAACGCCGCTAATACTTATTTTTAGCGGCGTTTTTCA
1 GAAAGCGCCGCTAATGCTCAATTTTAGCGGCGTTTTACA
* *
17243881 GAATGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTAC-
1 GAAAGCGCCGCTAATGCTCAAT-TTTAGCGGCGTTTTACA
* * *
17243920 GTAAAGGGCTGCTAATGCTCAATTTCTAGTGGCGTTTT
1 G-AAAGCGCCGCTAATGCTCAATTT-TAGCGGCGTTTT
17243958 TTGTCCAAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
39 19 0.31
40 43 0.69
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (39 bp):
GAAAGCGCCGCTAATGCTCAATTTTAGCGGCGTTTTACA
Found at i:17243981 original size:12 final size:12
Alignment explanation
Indices: 17243964--17243989 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17243954 TTTTTTGTCC
17243964 AAACGCCGCTAA
1 AAACGCCGCTAA
17243976 AAACGCCGCTAA
1 AAACGCCGCTAA
17243988 AA
1 AA
17243990 TCCTATTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:17249471 original size:11 final size:11
Alignment explanation
Indices: 17249385--17249483 Score: 55
Period size: 11 Copynumber: 9.2 Consensus size: 11
17249375 CTTTAAAGCT
*
17249385 AATAACAATAA
1 AATAATAATAA
*
17249396 ATTAATAACT-A
1 AATAATAA-TAA
*
17249407 AAT-CTAATAGA
1 AATAATAATA-A
* *
17249418 AATACTAAGAA
1 AATAATAATAA
17249429 AATAA-AATAA
1 AATAATAATAA
* *
17249439 TATCAATAAGAA
1 AAT-AATAATAA
*
17249451 AACAAT--TAA
1 AATAATAATAA
17249460 AATAATAATAA
1 AATAATAATAA
*
17249471 AATAATAACAA
1 AATAATAATAA
17249482 AA
1 AA
17249484 GAAAAGAAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
9 8 0.12
10 9 0.14
11 38 0.58
12 11 0.17
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAATAA
Found at i:17260998 original size:21 final size:20
Alignment explanation
Indices: 17260953--17261009 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
17260943 AACAAACGAA
* *
17260953 AAATTAGAATGAAAAA-ATT
1 AAATTAAAATAAAAAATATT
17260972 AAATTAAAA-ACAAAAATATT
1 AAATTAAAATA-AAAAATATT
17260992 AAAATTAAAATAAAAAAT
1 -AAATTAAAATAAAAAAT
17261010 GGCTAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 13 0.41
20 3 0.09
21 15 0.47
22 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
AAATTAAAATAAAAAATATT
Found at i:17261006 original size:20 final size:19
Alignment explanation
Indices: 17260952--17261009 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
17260942 AAACAAACGA
*
17260952 AAAATTAGAATGAAAAAATT
1 AAAATTAAAAT-AAAAAATT
*
17260972 -AAATTAAAAACAAAAATATT
1 AAAATT-AAAATAAAAA-ATT
17260992 AAAATTAAAATAAAAAAT
1 AAAATTAAAATAAAAAAT
17261010 GGCTAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 12 0.38
20 15 0.47
21 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATTAAAATAAAAAATT
Found at i:17263889 original size:37 final size:37
Alignment explanation
Indices: 17263839--17263917 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17263829 TTATTACGAA
* *
17263839 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
17263876 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
17263913 GTCTT
1 GTCTT
17263918 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:17264114 original size:47 final size:47
Alignment explanation
Indices: 17264036--17264566 Score: 645
Period size: 47 Copynumber: 10.8 Consensus size: 47
17264026 CCCTTCGGGA
* * * * * * *
17264036 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17264083 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17264130 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17264176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17264223 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** ** **
17264270 CTTATCACGGCCAT-TAGGC-CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCA----CATATATACACTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA----
17264333 GGC
45 GGC
17264336 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17264383 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17264430 TTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17264479 TTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17264528 CTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC
17264567 TAACACTTTC
Statistics
Matches: 429, Mismatches: 29, Indels: 52
0.84 0.06 0.10
Matches are distributed among these distances:
46 46 0.11
47 222 0.52
49 97 0.23
50 7 0.02
51 2 0.00
52 2 0.00
53 1 0.00
54 5 0.01
55 3 0.01
56 5 0.01
57 5 0.01
58 3 0.01
59 5 0.01
60 1 0.00
61 2 0.00
62 3 0.01
63 7 0.02
64 3 0.01
66 10 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17264282 original size:19 final size:19
Alignment explanation
Indices: 17264258--17264296 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17264248 TTCATCACAT
17264258 CGGCCATTAGGCCTTATCA
1 CGGCCATTAGGCCTTATCA
17264277 CGGCCATTAGGCCTTATCA
1 CGGCCATTAGGCCTTATCA
17264296 C
1 C
17264297 ATATATACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.26
Consensus pattern (19 bp):
CGGCCATTAGGCCTTATCA
Found at i:17264282 original size:66 final size:66
Alignment explanation
Indices: 17264211--17264343 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
17264201 TTCATCACAT
17264211 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
17264276 A
66 A
*
17264277 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
17264342 A
66 A
17264343 C
1 C
17264344 ATATATACAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (66 bp):
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
A
Found at i:17264298 original size:113 final size:112
Alignment explanation
Indices: 17264165--17264390 Score: 434
Period size: 113 Copynumber: 2.0 Consensus size: 112
17264155 TTCATCACAT
17264165 CGGCCATAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CGGCCATAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
17264230 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
66 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
17264277 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCA-TAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
17264342 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
65 ACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
17264390 C
1 C
17264391 ATATATACAC
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
112 6 0.05
113 106 0.95
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (112 bp):
CGGCCATAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:17264471 original size:96 final size:94
Alignment explanation
Indices: 17264277--17264566 Score: 517
Period size: 96 Copynumber: 3.0 Consensus size: 94
17264267 GGCCTTATCA
17264277 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
17264342 ACATATATACACTTTCACATTCATCACAT
66 ACATATATACACTTTCACATTCATCACAT
* *
17264371 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCTTTATC
1 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
17264436 ACATATATATACACTTTCACATTCATCACAT
66 AC--ATATATACACTTTCACATTCATCACAT
*
17264467 CGGCCATTAGGCTTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
17264532 TCACATATATACACTTTCACATTCATCACAT
64 TCACATATATACACTTTCACATTCATCACAT
17264563 CGGC
1 CGGC
17264567 TAACACTTTC
Statistics
Matches: 187, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
94 65 0.35
96 77 0.41
98 45 0.24
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (94 bp):
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATACACTTTCACATTCATCACAT
Found at i:17264573 original size:74 final size:74
Alignment explanation
Indices: 17264495--17264642 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
17264485 ACATATATAT
17264495 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
17264560 CATCGGCTA
66 CATCGGCTA
*
17264569 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATTA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
17264634 CATCGGCTA
66 CATCGGCTA
17264643 TTAGGCCTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (74 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCTA
Found at i:17264575 original size:27 final size:27
Alignment explanation
Indices: 17264542--17264593 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
17264532 TCACATATAT
17264542 ACACTTTCACATTCATCACATCGGCTA
1 ACACTTTCACATTCATCACATCGGCTA
17264569 ACACTTTCACATTCATCACATCGGC
1 ACACTTTCACATTCATCACATCGGC
17264594 CATTAGGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.08, T:0.29
Consensus pattern (27 bp):
ACACTTTCACATTCATCACATCGGCTA
Found at i:17264622 original size:47 final size:47
Alignment explanation
Indices: 17264569--17264667 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
17264559 ACATCGGCTA
17264569 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
* *
17264616 ACACTTTCACATTCATTACATCGGCTATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
17264663 ACACT
1 ACACT
17264668 GTCTTGGCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:17272664 original size:14 final size:14
Alignment explanation
Indices: 17272645--17272697 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
17272635 CAAAAATAAC
*
17272645 AAAAATAACAAAAT
1 AAAAATAAAAAAAT
17272659 AAAAATAAAAAAAAT
1 AAAAAT-AAAAAAAT
* * *
17272674 AAAATTTATAAAAT
1 AAAAATAAAAAAAT
17272688 AAAAATAAAA
1 AAAAATAAAA
17272698 TTATAAACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:17272693 original size:20 final size:20
Alignment explanation
Indices: 17272668--17272709 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17272658 TAAAAATAAA
17272668 AAAAATAAAATTTATAAA-AT
1 AAAAATAAAA-TTATAAACAT
17272688 AAAAATAAAATTATAAACAT
1 AAAAATAAAATTATAAACAT
17272708 AA
1 AA
17272710 TATACTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATAAAATTATAAACAT
Found at i:17273042 original size:14 final size:13
Alignment explanation
Indices: 17273009--17273057 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 13
17272999 TGCGGTAAGT
17273009 ATAATAATAAA-A
1 ATAATAATAAACA
17273021 ATATATAATATAACA
1 ATA-ATAATA-AACA
17273036 ATAATAATAAACTA
1 ATAATAATAAAC-A
17273050 ATAATAAT
1 ATAATAAT
17273058 TCAGTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.09
13 9 0.27
14 17 0.52
15 4 0.12
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAATAAACA
Found at i:17275029 original size:37 final size:37
Alignment explanation
Indices: 17274983--17275059 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
17274973 TATAAAATAT
* * *
17274983 AAATTTATAAAAATATTTAAGTATATAAAAGTACTAA
1 AAATTTATAAAAATATATAAATATATAAAAGAACTAA
** *
17275020 AAATTTATAAATTTATATAAATATGTAAAAGAACTAA
1 AAATTTATAAAAATATATAAATATATAAAAGAACTAA
17275057 AAA
1 AAA
17275060 GCGTATCAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (37 bp):
AAATTTATAAAAATATATAAATATATAAAAGAACTAA
Found at i:17276338 original size:38 final size:38
Alignment explanation
Indices: 17276284--17276453 Score: 250
Period size: 38 Copynumber: 4.5 Consensus size: 38
17276274 AACACGCTAG
* *
17276284 TTTGCTCATAAAAGCTATTCCATCCAATAACATGCCAA
1 TTTGCTCATAAGAGCTATTCCATCCGATAACATGCCAA
* *
17276322 TTTGCTCATAAGAGCTATTCCATCCGATAACATGCTAG
1 TTTGCTCATAAGAGCTATTCCATCCGATAACATGCCAA
*
17276360 TTTGATCATAAGAGCTATTCCATCCGATAACATGCCAA
1 TTTGCTCATAAGAGCTATTCCATCCGATAACATGCCAA
* * * *
17276398 TTTGCTCATAAGAGTTATTCCATCCGTTAATATGTCAA
1 TTTGCTCATAAGAGCTATTCCATCCGATAACATGCCAA
*
17276436 TTTGCTTATAAGAGCTAT
1 TTTGCTCATAAGAGCTAT
17276454 AATTGAAAAT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 118 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (38 bp):
TTTGCTCATAAGAGCTATTCCATCCGATAACATGCCAA
Found at i:17276351 original size:19 final size:19
Alignment explanation
Indices: 17276329--17276389 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
17276319 CAATTTGCTC
17276329 ATAAGAGCTATTCCATCCG
1 ATAAGAGCTATTCCATCCG
* **
17276348 ATAACATGCTAGTTTGAT-C-
1 ATAAGA-GCTA-TTCCATCCG
17276367 ATAAGAGCTATTCCATCCG
1 ATAAGAGCTATTCCATCCG
17276386 ATAA
1 ATAA
17276390 CATGCCAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 5 0.16
19 14 0.44
20 5 0.16
21 4 0.12
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (19 bp):
ATAAGAGCTATTCCATCCG
Found at i:17278070 original size:23 final size:24
Alignment explanation
Indices: 17278024--17278068 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17278014 GTTTATGATC
*
17278024 TTTAAAAAATATTATTTACTAAAT
1 TTTAAAAAATAATATTTACTAAAT
17278048 TTTAAAAAA-AATATTTA-TAAA
1 TTTAAAAAATAATATTTACTAAA
17278069 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTAAAAAATAATATTTACTAAAT
Found at i:17280573 original size:39 final size:38
Alignment explanation
Indices: 17280500--17280573 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
17280490 TGAATGGACC
** * **
17280500 AAAAAAATTTAAAAATATAAATTTTTTATTAAAATCAT
1 AAAAAAATTTAAAAATATAAAAATTGTAAAAAAATCAT
17280538 AAAAAATATTTAAAAATATAAAAATTGTAAAAAAAT
1 AAAAAA-ATTTAAAAATATAAAAATTGTAAAAAAAT
17280574 ATTTAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 6 0.20
39 24 0.80
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (38 bp):
AAAAAAATTTAAAAATATAAAAATTGTAAAAAAATCAT
Found at i:17280598 original size:29 final size:29
Alignment explanation
Indices: 17280530--17280588 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
17280520 ATTTTTTATT
*
17280530 AAAATCAT-AAAAAATATTTAAAAATATA
1 AAAATCGTAAAAAAATATTTAAAAATATA
*
17280558 AAAATTGTAAAAAAATATTTAAAAATATA
1 AAAATCGTAAAAAAATATTTAAAAATATA
17280587 AA
1 AA
17280589 TTATCGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAATCGTAAAAAAATATTTAAAAATATA
Found at i:17280942 original size:16 final size:16
Alignment explanation
Indices: 17280921--17280973 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
17280911 TTGGTTCGCT
17280921 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
* *
17280937 GTAATGGAATAAATGC
1 GTAATGGAATAGAGGC
17280953 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
17280969 GTAAT
1 GTAAT
17280974 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:17281042 original size:44 final size:46
Alignment explanation
Indices: 17280953--17281043 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
17280943 GAATAAATGC
*
17280953 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
*
17280999 GTAATGGAATAGAGGCGTAAT-TGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
17281043 G
1 G
17281044 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.47
45 2 0.05
46 21 0.49
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:17281044 original size:39 final size:44
Alignment explanation
Indices: 17280953--17281059 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 44
17280943 GAATAAATGC
*
17280953 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
*
17280999 GTAATGGAATAGAGGCGTAAT-TGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
17281039 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
17281060 ACATAAGGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.32
40 2 0.04
43 1 0.02
44 13 0.23
45 2 0.04
46 21 0.37
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:17281212 original size:16 final size:15
Alignment explanation
Indices: 17281202--17281356 Score: 68
Period size: 16 Copynumber: 10.5 Consensus size: 15
17281192 CATAATTGTT
17281202 ATAAAATATAATTTA
1 ATAAAATATAATTTA
17281217 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
17281234 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
17281246 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
17281258 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
17281272 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
17281291 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
17281308 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
17281319 ATTAAATATAATTTA
1 ATAAAATATAATTTA
17281334 ATAAATATATAATTTA
1 ATAAA-ATATAATTTA
17281350 ATAAAAT
1 ATAAAAT
17281357 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 48
0.66 0.04 0.29
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 15 0.14
16 22 0.20
17 13 0.12
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:17281247 original size:17 final size:17
Alignment explanation
Indices: 17281207--17281240 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17281197 TTGTTATAAA
17281207 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17281224 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17281241 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17281352 original size:26 final size:26
Alignment explanation
Indices: 17281296--17281369 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
17281286 TATGATACTA
* *
17281296 AAATATAATTTAAAATAAT-TATTATT
1 AAATATAATTTAATA-AATATATAATT
17281322 AAATATAATTTAATAAATATATAATT
1 AAATATAATTTAATAAATATATAATT
* *
17281348 TAATAAAATTGTTAATAAATAT
1 AAATATAA-T-TTAATAAATAT
17281370 TCTTATATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.07
26 26 0.63
27 1 0.02
28 11 0.27
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATAATTTAATAAATATATAATT
Found at i:17281455 original size:15 final size:15
Alignment explanation
Indices: 17281435--17281473 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
17281425 CATAATTGTT
17281435 ATAAAATATAATTTA
1 ATAAAATATAATTTA
17281450 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
17281467 ATAAAAT
1 ATAAAAT
17281474 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:17281480 original size:17 final size:17
Alignment explanation
Indices: 17281440--17281473 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17281430 TTGTTATAAA
17281440 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17281457 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17281474 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17281520 original size:117 final size:117
Alignment explanation
Indices: 17281187--17281675 Score: 786
Period size: 117 Copynumber: 4.3 Consensus size: 117
17281177 TTAATCATAT
* * * *
17281187 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
17281252 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
17281304 TTTAAAATAATTATTATTAAATATAATTTAAT-AAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
17281368 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
17281420 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
17281485 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
17281537 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
17281595 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
17281647 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
17281676 TAATCTACTT
Statistics
Matches: 356, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
108 21 0.06
109 26 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
116 111 0.31
117 144 0.40
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:17281545 original size:20 final size:21
Alignment explanation
Indices: 17281506--17281545 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17281496 AATTTACTAA
*
17281506 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
17281527 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
17281546 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:17281558 original size:26 final size:28
Alignment explanation
Indices: 17281513--17281592 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
17281503 TAATAAAATC
17281513 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
17281543 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
17281570 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
17281593 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:17281625 original size:44 final size:41
Alignment explanation
Indices: 17281291--17281625 Score: 144
Period size: 42 Copynumber: 8.3 Consensus size: 41
17281281 TAATATATGA
17281291 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
17281332 TAATAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACTAAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
17281373 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
* * *
17281407 TACTAAAATATAATTTAACATAATTGTTATAAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
17281448 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
17281490 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
17281524 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
17281565 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
17281611 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
17281626 ATATAATACT
Statistics
Matches: 219, Mismatches: 33, Indels: 81
0.66 0.10 0.24
Matches are distributed among these distances:
34 10 0.05
35 30 0.14
36 8 0.04
38 13 0.06
39 29 0.13
40 7 0.03
41 17 0.08
42 32 0.15
43 31 0.14
44 28 0.13
45 7 0.03
46 7 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:17283920 original size:27 final size:28
Alignment explanation
Indices: 17283884--17283951 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
17283874 AATTACTAAT
* * *
17283884 AAAATAATAAATAATTTCCTATGTTT-A
1 AAAAAAATAAAAAAATTCCTATGTTTAA
*
17283911 AAAAAAATAAAAAAAATTCCTATTTTTAA
1 AAAAAAAT-AAAAAAATTCCTATGTTTAA
17283940 AATAAAAATAAA
1 AA-AAAAATAAA
17283952 CATGCTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.21
28 15 0.44
29 6 0.18
30 6 0.18
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAAAATAAAAAAATTCCTATGTTTAA
Done.