Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 282 of 425
Found at i:87291556 original size:29 final size:29
Alignment explanation
Indices: 87291486--87291580 Score: 131
Period size: 28 Copynumber: 3.3 Consensus size: 29
87291476 GAAAGTATGT
*
87291486 ATATGAATGTGATTTGGGCCTAAT-AGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
87291514 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
87291543 ATATAAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
87291571 ATATGCATGT
1 ATATGAATGT
87291581 ATGTAGACTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 46 0.78
29 13 0.22
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:87293132 original size:17 final size:17
Alignment explanation
Indices: 87293110--87293143 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
87293100 CTTTCAACTG
87293110 CTTAAAGCTCTTATCTT
1 CTTAAAGCTCTTATCTT
87293127 CTTAAAGCTCTTATCTT
1 CTTAAAGCTCTTATCTT
87293144 TTCATACTTC
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:0.24, C:0.24, G:0.06, T:0.47
Consensus pattern (17 bp):
CTTAAAGCTCTTATCTT
Found at i:87293646 original size:42 final size:42
Alignment explanation
Indices: 87293538--87293688 Score: 221
Period size: 42 Copynumber: 3.6 Consensus size: 42
87293528 CGCACCCATC
* ** * *
87293538 CCATATCCCAGATATTGTCTTACATGAAAACCCGTATCGATG
1 CCATATCCCAGATATGGTCTTACATGAAGTCTCATATCGATG
* *
87293580 CCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCGATG
1 CC-ATATCCCAGATATGGTCTTACATGAAGTCTCATATCGATG
*
87293623 CCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACATGAAGTCTCATATCGATG
87293665 CCATATCCCAGATATGGTCTTACA
1 CCATATCCCAGATATGGTCTTACA
87293689 CGTAATCTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACATGAAGTCTCATATCGATG
Found at i:87295513 original size:16 final size:15
Alignment explanation
Indices: 87295492--87295522 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
87295482 TGACAGATCT
87295492 GAAAAGGAAAGAAAAA
1 GAAAAGGAAA-AAAAA
87295508 GAAAAGGAAAAAAAA
1 GAAAAGGAAAAAAAA
87295523 TGCCTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAAAGGAAAAAAAA
Found at i:87295968 original size:42 final size:42
Alignment explanation
Indices: 87295921--87296182 Score: 420
Period size: 42 Copynumber: 6.3 Consensus size: 42
87295911 CTTCATATAC
* *
87295921 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* *
87295963 AATGCAATGAAAAGTAAATGAACCTCCACA-CTCGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* *
87296004 AATGCAATGAAAAGTAAATTGACCTCCACACC-CGGACCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGG-CCTCTA
*
87296046 AATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
*
87296088 AATGCAATGAAAAGTAAATGGACCTCCACGCCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
*
87296130 AATGCAATGAAAAGTAAATGGACCTCCACACCTATGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
87296172 AATGCAATGAA
1 AATGCAATGAA
87296183 TGCTTTCCTT
Statistics
Matches: 206, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
41 40 0.19
42 164 0.80
43 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.19
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
Found at i:87296604 original size:12 final size:12
Alignment explanation
Indices: 87296587--87296632 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
87296577 TCTCTCTATC
*
87296587 TTTTTTGGTTTA
1 TTTTTTTGTTTA
*
87296599 TTTTTTTGTTTT
1 TTTTTTTGTTTA
87296611 TTTTTTTG-TT-
1 TTTTTTTGTTTA
87296621 TTTTTTTGTTTA
1 TTTTTTTGTTTA
87296633 GGCAAATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 8 0.27
11 4 0.13
12 18 0.60
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTTTTGTTTA
Found at i:87296605 original size:13 final size:11
Alignment explanation
Indices: 87296587--87296631 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
87296577 TCTCTCTATC
*
87296587 TTTTTTGGTTT
1 TTTTTTTGTTT
87296598 ATTTTTTTGTTT
1 -TTTTTTTGTTT
87296610 TTTTTTT-TGTT
1 TTTTTTTGT-TT
87296621 TTTTTTTGTTT
1 TTTTTTTGTTT
87296632 AGGCAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.03
11 18 0.60
12 11 0.37
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:87296612 original size:10 final size:10
Alignment explanation
Indices: 87296599--87296631 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
87296589 TTTTGGTTTA
87296599 TTTTTTTGTT-
1 TTTTTTT-TTG
87296609 TTTTTTTTTG
1 TTTTTTTTTG
87296619 TTTTTTTTTG
1 TTTTTTTTTG
87296629 TTT
1 TTT
87296632 AGGCAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 2 0.09
10 20 0.91
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:87303617 original size:40 final size:40
Alignment explanation
Indices: 87303450--87303604 Score: 170
Period size: 40 Copynumber: 3.9 Consensus size: 40
87303440 CCTTTGGGAT
* * *
87303450 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
87303489 TTAACCCGGATTTAGTAACTTGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
87303529 TTAACCCGGATATAA-CAACTCGCACGAATGCCTTCAGGTC
1 TTAACCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
87303569 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCG
1 TTAACCCGGATATAATCACTAGCACAAATGCCTTCG
87303605 CGACTTAGCC
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.04
40 90 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:87334298 original size:28 final size:28
Alignment explanation
Indices: 87334266--87334335 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
87334256 TATGGTACTC
*
87334266 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
87334294 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
87334322 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
87334336 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:87336340 original size:28 final size:28
Alignment explanation
Indices: 87336309--87336602 Score: 270
Period size: 28 Copynumber: 10.5 Consensus size: 28
87336299 GTGAACATAG
*
87336309 GCACTGTGTGTGTGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
87336337 GCACTGTGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
87336365 GGCACTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
87336394 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
87336422 GGCACTGTGTGTACGAGTTCCGTAA-CGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
87336450 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
87336478 GGCACTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* *
87336507 GTACTGTGTGTGCGAGTTTCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* ****
87336535 GCACTGT-TGTGCGAGAT-CGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* *
87336561 GGCACTGTGTGTGTGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
87336590 GCACTGTGTGTGC
1 GCACTGTGTGTGC
87336603 AAGATCGGTT
Statistics
Matches: 206, Mismatches: 53, Indels: 14
0.75 0.19 0.05
Matches are distributed among these distances:
26 5 0.02
27 35 0.17
28 99 0.48
29 67 0.33
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:87336376 original size:57 final size:57
Alignment explanation
Indices: 87336307--87336522 Score: 389
Period size: 57 Copynumber: 3.8 Consensus size: 57
87336297 AAGTGAACAT
* *
87336307 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
87336364 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
87336421 AGGCACTGTGTGTACGAGTTCCGTAA-CGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
87336477 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGTACTGTGTGTGCGAG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAG
87336523 TTTCGTAACC
Statistics
Matches: 153, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
56 55 0.36
57 98 0.64
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:87336506 original size:113 final size:114
Alignment explanation
Indices: 87336307--87336522 Score: 389
Period size: 113 Copynumber: 1.9 Consensus size: 114
87336297 AAGTGAACAT
**
87336307 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGGCACTG
1 AGGCACTGTGTGTACGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGGCACTG
87336372 TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
66 TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
87336421 AGGCACTGTGTGTACGAGTTCCGTAA-CGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
1 AGGCACTGTGTGTACGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGGCACTG
*
87336485 TGTGTGCGAGTTCCGTAACCGAGTACTGTGTGTGCGAG
66 TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAG
87336523 TTTCGTAACC
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
113 74 0.76
114 24 0.24
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (114 bp):
AGGCACTGTGTGTACGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTGAGGCACTG
TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:87336568 original size:55 final size:57
Alignment explanation
Indices: 87336509--87336632 Score: 171
Period size: 55 Copynumber: 2.2 Consensus size: 57
87336499 GTAACCGAGT
* * *
87336509 ACTGTGTGTGCGAGTTTCGTAACCGAGCACTGT-TGTGCGAGATC-GTTGTTGAGGC
1 ACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGGC
* *
87336564 ACTGTGTGTGTGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGGC
1 ACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGGC
87336621 ACTAAGTGTGTG
1 ACT--GTGTGTG
87336633 AAATGAGATC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
55 30 0.50
56 10 0.17
57 13 0.22
59 7 0.12
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.31
Consensus pattern (57 bp):
ACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGGC
Found at i:87336572 original size:57 final size:58
Alignment explanation
Indices: 87336511--87336632 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 58
87336501 AACCGAGTAC
* * * *
87336511 TGTGTGTGCGAGTTTCGTAACCGAGCACTGT-TGTGCGAGATC-GTTGTTGAGGCACTG
1 TGTGTGTG-GAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGGCACTA
*
87336568 TGTGTGT-GAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGGCACTA
1 TGTGTGTGGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGGCACTA
*
87336625 AGTGTGTG
1 TGTGTGTG
87336633 AAATGAGATC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
55 20 0.36
56 10 0.18
57 26 0.46
ACGTcount: A:0.17, C:0.16, G:0.35, T:0.31
Consensus pattern (58 bp):
TGTGTGTGGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAGGCACTA
Found at i:87341583 original size:28 final size:28
Alignment explanation
Indices: 87341551--87341620 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
87341541 TATGGTACTC
*
87341551 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
87341579 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
87341607 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
87341621 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:87345438 original size:47 final size:47
Alignment explanation
Indices: 87345227--87345454 Score: 162
Period size: 46 Copynumber: 4.8 Consensus size: 47
87345217 GGTAAGGTGT
* * * ****
87345227 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATTTGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATCTCAACGC
* * * *
87345277 CGATACCATGTCCTAGACATGGTCTTACACT-G-AC-ACATCTCGTA-GC
1 CGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTACATCTC-AACGC
* * *
87345323 CGAAGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAACGC
* * *
87345369 CGATGCATGTCCCAAACATGTCTTGCACTGGCTCT-CATTTCAACGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAACGC
* * *
87345415 CGTTGCCATGTCCTAGACATGTCTTACACTAGCTCATACA
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTC-TACA
87345455 AGTGACCCTA
Statistics
Matches: 145, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 61 0.42
47 27 0.19
48 1 0.01
49 3 0.02
50 28 0.19
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAACGC
Found at i:87353910 original size:43 final size:43
Alignment explanation
Indices: 87353809--87353932 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
87353799 GGTTACCGAG
* * *
87353809 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGAACAGTGGCATCGAT
* * * * * *
87353852 ATATGATTTCGTGTAAGACCCTGTCTGGAACAGTGGCTTTGAT
1 ATGTGATTACATGTAAGACCATGTCTGGAACAGTGGCATCGAT
* * *
87353895 ATGTGATAACATGTAAGACCATATCTGGAATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGAACAGTGGCAT
87353933 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 5 0.08
43 59 0.92
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGAACAGTGGCATCGAT
Found at i:87354722 original size:34 final size:34
Alignment explanation
Indices: 87354676--87354755 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
87354666 CTGAACAGTC
*
87354676 TGGG-CTTAAGCCCA-TATCAGTAGCAAT-ATCAATG
1 TGGGCCTT-AGCCCATTA-CAGTAGCAATAAT-AATA
*
87354710 TGGGCCTTAGCCCATTACAGTAGCAATAATAGTA
1 TGGGCCTTAGCCCATTACAGTAGCAATAATAATA
87354744 TGGGCCTTAGCC
1 TGGGCCTTAGCC
87354756 TAATTTAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 34 0.83
35 7 0.17
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAGCAATAATAATA
Found at i:87356150 original size:43 final size:44
Alignment explanation
Indices: 87356065--87356150 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
87356055 TGTGTCATAC
*
87356065 ATATCACGAACTCAAACACAACTCAATGAGTTCGGATGTCACAT
1 ATATCACGAACTCAAACACAACTCAATGAGTTCAGATGTCACAT
* * *
87356109 ATATCATGAACTCAGAC-CAACTCAATGAGTTCAGATTTCACA
1 ATATCACGAACTCAAACACAACTCAATGAGTTCAGATGTCACA
87356151 ACTCTTAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 23 0.61
44 15 0.39
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (44 bp):
ATATCACGAACTCAAACACAACTCAATGAGTTCAGATGTCACAT
Found at i:87357032 original size:33 final size:32
Alignment explanation
Indices: 87356985--87357057 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 32
87356975 TACAATCAAG
*
87356985 CTTGAAAAGTTGAAAACCCTAGCTATGGAACC
1 CTTGTAAAGTTGAAAACCCTAGCTATGGAACC
87357017 CTTTGTAAAGTTGAAAACCCTAGCTATGGAACC
1 C-TTGTAAAGTTGAAAACCCTAGCTATGGAACC
87357050 CTTGTAAA
1 CTTGTAAA
87357058 ATTCGGCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 8 0.21
33 31 0.79
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (32 bp):
CTTGTAAAGTTGAAAACCCTAGCTATGGAACC
Found at i:87360795 original size:20 final size:19
Alignment explanation
Indices: 87360772--87360815 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
87360762 TAATTTTTGA
* *
87360772 AAAATAAGTTGATTTTTTAG
1 AAAATAAGAT-ATCTTTTAG
*
87360792 AAAATATGATATCTTTTAG
1 AAAATAAGATATCTTTTAG
87360811 AAAAT
1 AAAAT
87360816 CTAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (19 bp):
AAAATAAGATATCTTTTAG
Found at i:87361197 original size:19 final size:21
Alignment explanation
Indices: 87361173--87361217 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
87361163 TTTTATACAA
87361173 ATTAAA-A-ATATTTGGAATG
1 ATTAAATAGATATTTGGAATG
*
87361192 ATTAAATATGATATTTGGGATG
1 ATTAAATA-GATATTTGGAATG
87361214 ATTA
1 ATTA
87361218 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
22 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (21 bp):
ATTAAATAGATATTTGGAATG
Found at i:87362394 original size:17 final size:18
Alignment explanation
Indices: 87362372--87362409 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
87362362 TATTTTTATC
87362372 ATAGTAATAAAT-TTTTT
1 ATAGTAATAAATATTTTT
*
87362389 ATAGTAATTAATATTTTT
1 ATAGTAATAAATATTTTT
87362407 ATA
1 ATA
87362410 AAATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
ATAGTAATAAATATTTTT
Found at i:87362406 original size:20 final size:20
Alignment explanation
Indices: 87362362--87362408 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
87362352 GTTTATAAAT
87362362 TATTTTTATCATAGTAATAA
1 TATTTTTATCATAGTAATAA
87362382 -ATTTTT-T-ATAGTAATTAA
1 TATTTTTATCATAGTAA-TAA
87362400 TATTTTTAT
1 TATTTTTAT
87362409 AAAATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 12 0.50
20 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTTTTATCATAGTAATAA
Found at i:87365536 original size:6 final size:6
Alignment explanation
Indices: 87365525--87365552 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
87365515 AGCGTCTTGA
87365525 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
87365553 TTAACAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:87370380 original size:43 final size:43
Alignment explanation
Indices: 87370319--87370480 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
87370309 AATGCTAACA
* *
87370319 TCCCACACGTGGTCTTACATGTAATCACATATCGATGCCATAG
1 TCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCATAG
*
87370362 TCCCAGACGTGGTCTTACACG-AATTTACATAT-GATGCCGAT-G
1 TCCCAGACGTGGTCTTACACGTAA-TCACATATCGATGCC-ATAG
* * *
87370404 TCCCAGACATGGTCTTACACGTAAATCACAAATCGATACCA-ACG
1 TCCCAGACGTGGTCTTACACGT-AATCACATATCGATGCCATA-G
* * *
87370448 TCCCAAACGTGGTCTTACTCGAAATCACATATC
1 TCCCAGACGTGGTCTTACACGTAATCACATATC
87370481 AGAATCCTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
42 29 0.29
43 45 0.45
44 26 0.26
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCATAG
Found at i:87370463 original size:86 final size:85
Alignment explanation
Indices: 87370319--87370479 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 85
87370309 AATGCTAACA
* * * * *
87370319 TCCCACACGTGGTCTTACATGTAATCACATATCGATGCCATAGTCCCAGACGTGGTCTTACACGA
1 TCCCACACATGGTCTTACACGTAATCACAAATCGATACCATAGTCCCAAACGTGGTCTTACACGA
* *
87370384 ATTTACATATGATGCCGATG
66 AATCACATATGATGCCGATG
* *
87370404 TCCCAGACATGGTCTTACACGTAAATCACAAATCGATACCA-ACGTCCCAAACGTGGTCTTACTC
1 TCCCACACATGGTCTTACACGT-AATCACAAATCGATACCATA-GTCCCAAACGTGGTCTTACAC
87370468 GAAATCACATAT
64 GAAATCACATAT
87370480 CAGAATCCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 20 0.31
86 45 0.69
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (85 bp):
TCCCACACATGGTCTTACACGTAATCACAAATCGATACCATAGTCCCAAACGTGGTCTTACACGA
AATCACATATGATGCCGATG
Found at i:87375717 original size:23 final size:23
Alignment explanation
Indices: 87375686--87375732 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
87375676 GTATAGCTTC
*
87375686 AGTCGAAACTCATTCCTAGGCAT
1 AGTCAAAACTCATTCCTAGGCAT
87375709 AGTCAAAACTCATTCCTAGGCAT
1 AGTCAAAACTCATTCCTAGGCAT
87375732 A
1 A
87375733 TCTCCTGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (23 bp):
AGTCAAAACTCATTCCTAGGCAT
Found at i:87381324 original size:42 final size:41
Alignment explanation
Indices: 87381278--87381429 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 41
87381268 TCACAGATGT
87381278 GGTCTTACATGAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGAATCACATATCGATGCCAC-GTCCCAGACAG
* * * *
87381320 GGTCTTACATGAA-CTCATAAACGATGCCGACGTCCTAGACAT
1 GGTCTTACATGAATCACAT-ATCGATGCC-ACGTCCCAGACAG
* * *
87381362 CGTCTTACATGTAAATCACAAATCGATGCCAACATCCCAGAC-G
1 GGTCTTACATG--AATCACATATCGATGCC-ACGTCCCAGACAG
*
87381405 TGGCCTTAC-TCGAAATCACATATCG
1 -GGTCTTACAT-G-AATCACATATCG
87381430 GAATCCTATG
Statistics
Matches: 88, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.05
42 40 0.45
43 15 0.17
44 26 0.30
45 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
GGTCTTACATGAATCACATATCGATGCCACGTCCCAGACAG
Found at i:87384526 original size:139 final size:140
Alignment explanation
Indices: 87384190--87384871 Score: 929
Period size: 140 Copynumber: 4.9 Consensus size: 140
87384180 ACACTATGCT
* ** * *
87384190 GACACTTTCCTAATTGTTGGGATAGACTTGTTGACATACGCGTTGGCTAACTCTTTGTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * * *
87384255 TTGGGATATGCATG-TTGAAGGCAATGCTTAAATAAGGGTCAGCTTTGTCCAACACTATACCAAC
66 TTGGGATATGCATGCCT-AAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAAC
87384319 ACTTTTGGGCC
130 ACTTTTGGGCC
* *
87384330 GACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATCAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGGG
* *
87384395 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACA-TATGCTAACA
66 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
87384459 CTTTTGGGCC
131 CTTTTGGGCC
* * * * * *
87384469 AACACTTTCATAAATGTTAGGATAGACTTGCCGACATACTCTTTAGCCAACTCTTTGTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * * * * *
87384534 TTGGGATAT-CATACTTAAGGTAACGTTTAAATAAGAGTCGACTTTGTCCAACATTATGCCGACA
66 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
*
87384598 CTTTTGGGTC
131 CTTTTGGGCC
* ** *
87384608 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATTCTTTGGCCAACTCTTTGCATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * *
87384673 TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTGCAACACTATGCCAACA
66 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
*
87384738 CTTTTGGGCT
131 CTTTTGGGCC
* * * *
87384748 GACACTTTCCTACGTGTTGGGATAGACTTGCTGACATACGATTTGGCCAACTCTTTGCATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * ** *
87384813 TTGAGATATGCATGCCTAATGCAACAATTAAATAAAAGTCGGCTTTGTCCAACACTATG
66 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATG
87384872 TCGACTTTTG
Statistics
Matches: 478, Mismatches: 61, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
138 38 0.08
139 169 0.35
140 270 0.56
141 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (140 bp):
GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGGG
TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
CTTTTGGGCC
Found at i:87384654 original size:278 final size:276
Alignment explanation
Indices: 87384051--87384876 Score: 1077
Period size: 278 Copynumber: 3.0 Consensus size: 276
87384041 TCCTAAGACA
*
87384051 ACACTTTTGGGCCGACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACT
* *
87384116 TTTTGTATAAGGGCTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
66 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
* * *
87384181 CACTATG-----C---T--G-ACACTTTCCTAATTGTTGGGATAGACTTGTTGACATACGCGTTG
131 CACTATGCAACACTTTTGGGCACACTTTCCTAAATGTTGGGATAGACTTGCTGACATACGCTTTG
* * * * *
87384235 GCTAACTCTTTGTATAAGGGTTGGGATATGCATGTTGAAGGCAATGCTTAAATAAGGGTC-AGCT
196 GCCAACTCTTTGTATAAGGGTTGGGATATGCATCTT-AAGGCAACGATTAAATAAGAGTCGA-CT
* *
87384299 TTGTCCAACACTATACCA
259 TTGTCCAACACTATGCCG
* * *
87384317 ACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGCTTTGGCCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACT
* *
87384382 CTTTGTATCAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAA
66 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
* * * *
87384447 CA-TATGCTAACACTTTTGGGCCAACACTTTCATAAATGTTAGGATAGACTTGCCGACATACTCT
131 CACTATGC-AACACTTTTGGG-C-ACACTTTCCTAAATGTTGGGATAGACTTGCTGACATACGCT
* * *
87384511 TTAGCCAACTCTTTGTATAAGGGTTGGGATAT-CATACTTAAGGTAACGTTTAAATAAGAGTCGA
193 TTGGCCAACTCTTTGTATAAGGGTTGGGATATGCAT-CTTAAGGCAACGATTAAATAAGAGTCGA
*
87384575 CTTTGTCCAACATTATGCCG
257 CTTTGTCCAACACTATGCCG
* *
87384595 ACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATTCTTTGGCCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACT
* * * *
87384660 CTTTGCATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTGCAA
66 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
** *
87384725 CACTATGCCAACACTTTTGGGCTGACACTTTCCTACGTGTTGGGATAGACTTGCTGACATACGAT
131 CACTATG-CAACACTTTTGGGC--ACACTTTCCTAAATGTTGGGATAGACTTGCTGACATACGCT
* * * * * * *
87384790 TTGGCCAACTCTTTGCATAAGGGTTGAGATATGCATGCCTAATGCAACAATTAAATAAAAGTCGG
193 TTGGCCAACTCTTTGTATAAGGGTTGGGATATGCAT-CTTAAGGCAACGATTAAATAAGAGTCGA
*
87384855 CTTTGTCCAACACTATGTCG
257 CTTTGTCCAACACTATGCCG
87384875 AC
1 AC
87384877 TTTTGTTATA
Statistics
Matches: 483, Mismatches: 57, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
265 4 0.01
266 124 0.26
271 1 0.00
274 1 0.00
276 1 0.00
278 161 0.33
279 146 0.30
280 45 0.09
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (276 bp):
ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACT
CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
CACTATGCAACACTTTTGGGCACACTTTCCTAAATGTTGGGATAGACTTGCTGACATACGCTTTG
GCCAACTCTTTGTATAAGGGTTGGGATATGCATCTTAAGGCAACGATTAAATAAGAGTCGACTTT
GTCCAACACTATGCCG
Found at i:87384815 original size:418 final size:406
Alignment explanation
Indices: 87384050--87384871 Score: 1069
Period size: 418 Copynumber: 2.0 Consensus size: 406
87384040 GTCCTAAGAC
* * * *
87384050 AACACTTTTGGGCCGACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAAC
1 AACACTTTTGGGCCAACACTTTTCTAAATGTTAGGATAGACTTGCCAACATATGCTTTAGCCAAC
* * *
87384115 TTTTTGTATAAGGGCTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
66 TCTTTGTATAAGGGCTGGGATATGCATACCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTCCA
* *** *
87384180 ACACTATGCTGACACTTTCCTAATTGTTGGGATAGACTTGTTGACATACGCGTTGGCTAACTCTT
131 ACACTATGCTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCGTTGGCCAACTCTT
* * ** *
87384245 TGTATAAGGGTTGGGATATGCATGTTGAAGGCAATGCTTAAATAAGGGTCAGCTTTGTCCAACAC
196 TGCATAAGGGTTGGGATATGCATGCTGAAGGCAACACTTAAATAAGAGTCAGCTTTGTCCAACAC
*
87384310 TATACCAACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGCTTTG
261 TATACCAACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGATTTG
* * * ** *
87384375 GCCAACTCTTTGTATCAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTT
326 GCCAACTCTTTGCATAAGGGTTGAGATATGCATGCCTAAGGCAACAATTAAATAAAAGTCGGCTT
87384440 TATCCAACA-TATGCT
391 TATCCAACACTATGCT
*
87384455 AACACTTTTGGGCCAACAC-TTTCATAAATGTTAGGATAGACTTGCCGACATACT-CTTTAGCCA
1 AACACTTTTGGGCCAACACTTTTC-TAAATGTTAGGATAGACTTGCCAACATA-TGCTTTAGCCA
* * * *
87384518 ACTCTTTGTATAAGGGTTGGGATAT-CATACTTAAGGTAACGTTTAAATAAGAGTCGACTTTGTC
64 ACTCTTTGTATAAGGGCTGGGATATGCATACCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTC
* *
87384582 CAACATTATGCCGACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
129 CAACACTAT---G---C-------T-GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* *
87384647 TCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGCATGCCT-AAGGCAACACTTAAATAAGAG
180 GCGTTGGCCAACTCTTTGCATAAGGGTTGGGATATGCATG-CTGAAGGCAACACTTAAATAAGAG
** * * * * *
87384711 TTGGCTTTGTGCAACACTATGCCAACACTTTTGGGCTGACACTTTCCTACGTGTTGGGATAGACT
244 TCAGCTTTGTCCAACACTATACCAACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACT
* *
87384776 TGCTGACATACGATTTGGCCAACTCTTTGCATAAGGGTTGAGATATGCATGCCTAATGCAACAAT
309 TGCCGACATACGATTTGGCCAACTCTTTGCATAAGGGTTGAGATATGCATGCCTAAGGCAACAAT
*
87384841 TAAATAAAAGTCGGCTTTGTCCAACACTATG
374 TAAATAAAAGTCGGCTTTATCCAACACTATG
87384872 TCGACTTTTG
Statistics
Matches: 356, Mismatches: 43, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
404 46 0.13
405 74 0.21
406 1 0.00
407 1 0.00
410 1 0.00
417 1 0.00
418 227 0.64
419 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (406 bp):
AACACTTTTGGGCCAACACTTTTCTAAATGTTAGGATAGACTTGCCAACATATGCTTTAGCCAAC
TCTTTGTATAAGGGCTGGGATATGCATACCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTCCA
ACACTATGCTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCGTTGGCCAACTCTT
TGCATAAGGGTTGGGATATGCATGCTGAAGGCAACACTTAAATAAGAGTCAGCTTTGTCCAACAC
TATACCAACACTTTTGGGCCGACACTTTCCTAAGTGTTAGGATAGACTTGCCGACATACGATTTG
GCCAACTCTTTGCATAAGGGTTGAGATATGCATGCCTAAGGCAACAATTAAATAAAAGTCGGCTT
TATCCAACACTATGCT
Found at i:87387902 original size:16 final size:16
Alignment explanation
Indices: 87387869--87387924 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
87387859 GAAACATTTT
*
87387869 TTTATTTTTTTAGCAG
1 TTTATTTTTTTAACAG
* *
87387885 TTTACTTTTTTAATAG
1 TTTATTTTTTTAACAG
87387901 TTTTTATTTTTTTAACAG
1 --TTTATTTTTTTAACAG
87387919 TTTATT
1 TTTATT
87387925 AATTTCACCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 19 0.58
18 14 0.42
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.66
Consensus pattern (16 bp):
TTTATTTTTTTAACAG
Found at i:87387906 original size:18 final size:18
Alignment explanation
Indices: 87387867--87387921 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
87387857 AGGAAACATT
* *
87387867 TTTTTATTTTTTTAGCAG
1 TTTTTACTTTTTTAACAG
*
87387885 --TTTACTTTTTTAATAG
1 TTTTTACTTTTTTAACAG
*
87387901 TTTTTATTTTTTTAACAG
1 TTTTTACTTTTTTAACAG
87387919 TTT
1 TTT
87387922 ATTAATTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 13 0.43
18 17 0.57
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTACTTTTTTAACAG
Found at i:87388901 original size:35 final size:36
Alignment explanation
Indices: 87388862--87389162 Score: 140
Period size: 35 Copynumber: 8.3 Consensus size: 36
87388852 TATCTATCCC
*
87388862 AACCTTTTTAAA-GTTGTCTTAGATGAGTTTATTCT
1 AACCTTTTTAAAGGTTGTCTTAGATAAGTTTATTCT
* *
87388897 AACC-TTTCAAATGTTG-CATTAGATAAGTTTA-TCTT
1 AACCTTTTTAAAGGTTGTC-TTAGATAAGTTTATTC-T
* *
87388932 AACTTTTTTAAAGGTTGTCTTAAATAAGGTTTA-TCT
1 AACCTTTTTAAAGGTTGTCTTAGATAA-GTTTATTCT
* * * * *
87388968 CAACCTTTTTTAAAGGTT-ACATCAGACAAAGTCTATCCT
1 -AACC-TTTTTAAAGGTTGTC-TTAGA-TAAGTTTATTCT
* * * * * *
87389007 AA-CTTTTTTAATGTTGTCTTAAACAAGTCTA-TCC
1 AACCTTTTTAAAGGTTGTCTTAGATAAGTTTATTCT
* * * * *
87389041 AAACTTTTTTAAGGTTGCCTTAGACT-GGTGTATTCT
1 AACCTTTTTAAAGGTTGTCTTAGA-TAAGTTTATTCT
** * * * *
87389077 AATTTTTTTTAAATGTTG-CTTTATACAAGGTTAATATC-
1 AA-CCTTTTTAAAGGTTGTC-TTAGATAA-GTTTAT-TCT
* *
87389115 AACCTTTTTAAA-GTTGTCTTAGATGAGTTTATCCT
1 AACCTTTTTAAAGGTTGTCTTAGATAAGTTTATTCT
87389150 AACCATTTTTAAA
1 AACC-TTTTTAAA
87389163 TATCGATCAT
Statistics
Matches: 199, Mismatches: 44, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
34 13 0.07
35 62 0.31
36 53 0.27
37 38 0.19
38 27 0.14
39 6 0.03
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (36 bp):
AACCTTTTTAAAGGTTGTCTTAGATAAGTTTATTCT
Found at i:87390210 original size:187 final size:187
Alignment explanation
Indices: 87389895--87390267 Score: 728
Period size: 187 Copynumber: 2.0 Consensus size: 187
87389885 CTTCTATCCA
*
87389895 ATTGCCATGCTCAAGTCCATCCGCATATTGTTATCCATTGCGGTGACTCTCGATTATGAGATTTG
1 ATTGCCATGCTCAAGTCCATCCGCATATTGTTATCCACTGCGGTGACTCTCGATTATGAGATTTG
87389960 GAAAATAAATGTCAAGACAACAGTATTAAACGACTATCTTGAATAAATCATCTATATGATGCAAC
66 GAAAATAAATGTCAAGACAACAGTATTAAACGACTATCTTGAATAAATCATCTATATGATGCAAC
87390025 CCATTGGATATAAAACTAAAGGAAATGAGTATAAAGTTTGCAATTCGCTTAGATATT
131 CCATTGGATATAAAACTAAAGGAAATGAGTATAAAGTTTGCAATTCGCTTAGATATT
87390082 ATTGCCATGCTCAAGTCCATCCGCATATTGTTATCCACTGCGGTGACTCTCGATTATGAGATTTG
1 ATTGCCATGCTCAAGTCCATCCGCATATTGTTATCCACTGCGGTGACTCTCGATTATGAGATTTG
*
87390147 GAAAATAAATGTCAAGACAACAGTATTAAACGACTATCTTGAATAAATCATTTATATGATGCAAC
66 GAAAATAAATGTCAAGACAACAGTATTAAACGACTATCTTGAATAAATCATCTATATGATGCAAC
87390212 CCATTGGATATAAAACTAAAGGAAATGAGTATAAAGTTTGCAATTCGCTTAGATAT
131 CCATTGGATATAAAACTAAAGGAAATGAGTATAAAGTTTGCAATTCGCTTAGATAT
87390268 ATGTATGAAC
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 184 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (187 bp):
ATTGCCATGCTCAAGTCCATCCGCATATTGTTATCCACTGCGGTGACTCTCGATTATGAGATTTG
GAAAATAAATGTCAAGACAACAGTATTAAACGACTATCTTGAATAAATCATCTATATGATGCAAC
CCATTGGATATAAAACTAAAGGAAATGAGTATAAAGTTTGCAATTCGCTTAGATATT
Found at i:87396081 original size:25 final size:25
Alignment explanation
Indices: 87396053--87396103 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
87396043 GTTAGCATTT
*
87396053 GCATCTTTGATTGTTTAATAGTGAA
1 GCATCTTCGATTGTTTAATAGTGAA
87396078 GCATCTTCGATTGTTTAATAGTGAA
1 GCATCTTCGATTGTTTAATAGTGAA
87396103 G
1 G
87396104 GTACTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (25 bp):
GCATCTTCGATTGTTTAATAGTGAA
Found at i:87396675 original size:12 final size:12
Alignment explanation
Indices: 87396658--87396682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87396648 TGTCTGCGAA
87396658 GCCTAGCTCAAT
1 GCCTAGCTCAAT
87396670 GCCTAGCTCAAT
1 GCCTAGCTCAAT
87396682 G
1 G
87396683 AGAAATATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (12 bp):
GCCTAGCTCAAT
Found at i:87397605 original size:30 final size:28
Alignment explanation
Indices: 87397569--87397627 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
87397559 CACCAGGGGA
87397569 CACACGGCC-GTGAAACATGACCGTGTGTCT
1 CACACGGCCAG-GAAACATG-CC-TGTGTCT
*
87397599 CACACGGCCAGGACACATGCCTGTGTCT
1 CACACGGCCAGGAAACATGCCTGTGTCT
87397627 C
1 C
87397628 TGCCTGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 2 0.07
30 16 0.59
31 1 0.04
ACGTcount: A:0.22, C:0.34, G:0.25, T:0.19
Consensus pattern (28 bp):
CACACGGCCAGGAAACATGCCTGTGTCT
Found at i:87398581 original size:26 final size:26
Alignment explanation
Indices: 87398540--87398599 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
87398530 AGCTATGAAT
* *
87398540 AGTAAGCTTCTTCTGAGCTAATAGAC
1 AGTAAGCTCCTCCTGAGCTAATAGAC
* *
87398566 AGTAAGCTCCTCCTGAGCTGATTGAC
1 AGTAAGCTCCTCCTGAGCTAATAGAC
87398592 AGTAAGCT
1 AGTAAGCT
87398600 TTATTGAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AGTAAGCTCCTCCTGAGCTAATAGAC
Found at i:87398670 original size:24 final size:26
Alignment explanation
Indices: 87398638--87398706 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 26
87398628 AAGTTGAATT
87398638 AGTAAGCTCATACGAGCTGAGA-A-C
1 AGTAAGCTCATACGAGCTGAGATATC
* * *
87398662 AGTAAGCTCTTACGAGCTAATATATC
1 AGTAAGCTCATACGAGCTGAGATATC
87398688 -GATAAGCTCATACGAGCTG
1 AG-TAAGCTCATACGAGCTG
87398707 CGATGAGTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 19 0.51
25 2 0.05
26 16 0.43
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
AGTAAGCTCATACGAGCTGAGATATC
Found at i:87398894 original size:46 final size:46
Alignment explanation
Indices: 87398841--87398937 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
87398831 ATTAATATTC
87398841 CAAGTATATCAATTACTC-AGTTATGCACATTCATTACAATTAAATA
1 CAAGTATATCAATTACTCGA-TTATGCACATTCATTACAATTAAATA
87398887 CAAGTATATCAATTACTCGATTATGCACATTCATTACAATTAAATA
1 CAAGTATATCAATTACTCGATTATGCACATTCATTACAATTAAATA
87398933 CAAGT
1 CAAGT
87398938 GTTTTAAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 49 0.98
47 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (46 bp):
CAAGTATATCAATTACTCGATTATGCACATTCATTACAATTAAATA
Found at i:87400208 original size:30 final size:30
Alignment explanation
Indices: 87400172--87400238 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
87400162 ACGCTACTCT
* *
87400172 TAAATATTATTCAATAAATTATAAACATTA
1 TAAATATCATTCAATAAATTATAAACATGA
*
87400202 TAAATATCATTCAATAAATTATCAACATGA
1 TAAATATCATTCAATAAATTATAAACATGA
87400232 TAAATAT
1 TAAATAT
87400239 AAAAATCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.37
Consensus pattern (30 bp):
TAAATATCATTCAATAAATTATAAACATGA
Found at i:87402014 original size:63 final size:64
Alignment explanation
Indices: 87401912--87402035 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 64
87401902 TCTAACTCTG
87401912 ATTATTCTAGGGATGTTTTTGTCACATTTTCACACGAAATTA-ATCATATAAATAGGACTTTCTT
1 ATTATTCTAGGGATGTTTTTGTCACATTTTCACACGAAATTAGAT-ATATAAATAGGACTTTCTT
* * * *
87401976 ATTATTCTAGGGAT-TTTTTTTCATATTTTCACATGAAATTAGGTATATAAATAGGACTTT
1 ATTATTCTAGGGATGTTTTTGTCACATTTTCACACGAAATTAGATATATAAATAGGACTTT
87402036 TAGAAGCCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
63 40 0.73
64 15 0.27
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (64 bp):
ATTATTCTAGGGATGTTTTTGTCACATTTTCACACGAAATTAGATATATAAATAGGACTTTCTT
Found at i:87403008 original size:27 final size:26
Alignment explanation
Indices: 87402959--87403014 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
87402949 TTGTTTTCAA
* *
87402959 GTTCTTAAACTCTATTTTCAAGATAT
1 GTTCTTAAACTATATTTTAAAGATAT
*
87402985 GTTCTTAAGCTATGATTTTAAAGATAT
1 GTTCTTAAACTAT-ATTTTAAAGATAT
87403012 GTT
1 GTT
87403015 TTACATGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.46
Consensus pattern (26 bp):
GTTCTTAAACTATATTTTAAAGATAT
Found at i:87403160 original size:31 final size:31
Alignment explanation
Indices: 87403124--87403188 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
87403114 AAGTGTTTTC
*
87403124 AAGCAAGCTCCCTATGTGAGCTCTCTGTGAT
1 AAGCAAGCTCCCTATGTGAGCTCTCTATGAT
*
87403155 AAGCAAGCTCCCTATGTGAGCTTTCTATGAT
1 AAGCAAGCTCCCTATGTGAGCTCTCTATGAT
87403186 AAG
1 AAG
87403189 TCTTTGTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (31 bp):
AAGCAAGCTCCCTATGTGAGCTCTCTATGAT
Found at i:87410249 original size:23 final size:25
Alignment explanation
Indices: 87410219--87410285 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 25
87410209 CAGTCCACGA
87410219 TTTTGTGGTTTTATTTTTTCC-A-T
1 TTTTGTGGTTTTATTTTTTCCGATT
*
87410242 TTTTGTGGTTTTA-TTTGTCCGTATT
1 TTTTGTGGTTTTATTTTTTCCG-ATT
87410267 TTTTGTGGTTTTTATTTTT
1 TTTTGTGG-TTTTATTTTT
87410286 CCCCCTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 6 0.16
23 13 0.35
24 1 0.03
25 9 0.24
26 5 0.14
27 3 0.08
ACGTcount: A:0.07, C:0.06, G:0.16, T:0.70
Consensus pattern (25 bp):
TTTTGTGGTTTTATTTTTTCCGATT
Found at i:87414558 original size:15 final size:16
Alignment explanation
Indices: 87414540--87414577 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
87414530 AATTGGAAAG
87414540 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
87414555 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
87414571 ATGAAAA
1 ATGAAAA
87414578 AGAAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:87417488 original size:15 final size:16
Alignment explanation
Indices: 87417452--87417481 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87417442 ACATATCATT
87417452 TATTTCATTATACCAA
1 TATTTCATTATACCAA
87417468 TATTTCA-TATACCA
1 TATTTCATTATACCA
87417482 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTCATTATACCAA
Found at i:87420681 original size:40 final size:40
Alignment explanation
Indices: 87420601--87420821 Score: 329
Period size: 40 Copynumber: 5.5 Consensus size: 40
87420591 ACCCAAGTTT
* * * *
87420601 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
87420640 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
87420680 CTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
87420720 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
87420760 CTTCGGGTCTTAGCCTGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
87420800 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
87420822 CATTCAAATG
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 154 0.93
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:87426489 original size:29 final size:29
Alignment explanation
Indices: 87426455--87426514 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
87426445 CAAGATTCAG
87426455 ACTTAGAACGAGGTTGAACAAGGTGAAGC
1 ACTTAGAACGAGGTTGAACAAGGTGAAGC
87426484 ACTTAGAACGAGGTTGAACAAGGTGAAGC
1 ACTTAGAACGAGGTTGAACAAGGTGAAGC
87426513 AC
1 AC
87426515 AGACTCGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (29 bp):
ACTTAGAACGAGGTTGAACAAGGTGAAGC
Found at i:87428732 original size:28 final size:28
Alignment explanation
Indices: 87428667--87428767 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
87428657 ATAGTGAATC
*
87428667 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
87428696 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
87428724 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
87428754 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87428768 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:87437563 original size:162 final size:162
Alignment explanation
Indices: 87437372--87437703 Score: 610
Period size: 162 Copynumber: 2.0 Consensus size: 162
87437362 CTAGCGAACC
87437372 ACATTTGTAATAGGCTTTATTATTTTTATTCCAGCATTCTCCAGAATGTCGCCTCCCACACTGCT
1 ACATTTGTAATAGGCTTTATTATTTTTATTCCAGCATTCTCCAGAATGTCGCCTCCCACACTGCT
*
87437437 GACACTCGGGTTTGTTGTCTCTCACACTGCCAACACTCGCTACTGATGTAGCTTGAGCTTTAGAA
66 GACACTCGAGTTTGTTGTCTCTCACACTGCCAACACTCGCTACTGATGTAGCTTGAGCTTTAGAA
87437502 CCTAAATATTGTTTTCTACAATCTCTGTTCGA
131 CCTAAATATTGTTTTCTACAATCTCTGTTCGA
* *
87437534 ACATTTGTAATAGGCTTTATTATTTTTATTCCAGCATTTTCCAGAATGTCTCCTCCCACACTGCT
1 ACATTTGTAATAGGCTTTATTATTTTTATTCCAGCATTCTCCAGAATGTCGCCTCCCACACTGCT
87437599 GACACTCGAGTTTGTTGTCTCTCACACTGCCAACACTCGCTACTGATGTAGCTTGAGCTTTAGAA
66 GACACTCGAGTTTGTTGTCTCTCACACTGCCAACACTCGCTACTGATGTAGCTTGAGCTTTAGAA
* *
87437664 CCTGAATATTGTTTTCTACGATCTCTGTTCGA
131 CCTAAATATTGTTTTCTACAATCTCTGTTCGA
*
87437696 ATATTTGT
1 ACATTTGT
87437704 TTGAAGCATT
Statistics
Matches: 164, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 164 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (162 bp):
ACATTTGTAATAGGCTTTATTATTTTTATTCCAGCATTCTCCAGAATGTCGCCTCCCACACTGCT
GACACTCGAGTTTGTTGTCTCTCACACTGCCAACACTCGCTACTGATGTAGCTTGAGCTTTAGAA
CCTAAATATTGTTTTCTACAATCTCTGTTCGA
Found at i:87443432 original size:39 final size:39
Alignment explanation
Indices: 87443333--87443523 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
87443323 CGAATGATGT
* * * * *
87443333 CCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTA-AA
* * *
87443373 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
87443412 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
87443451 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
87443492 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
87443524 CGTTATATCC
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:87443476 original size:79 final size:82
Alignment explanation
Indices: 87443332--87443516 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
87443322 TCGAATGATG
* * * *
87443332 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
87443396 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
87443412 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
87443474 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
87443492 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87443517 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:87449891 original size:14 final size:14
Alignment explanation
Indices: 87449874--87449931 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
87449864 TGTGTTTGTG
87449874 GTTTAAGGTTTAGA
1 GTTTAAGGTTTAGA
*
87449888 GTTTAGGGTTTAGA
1 GTTTAAGGTTTAGA
*
87449902 GTCTT-AGGTTTAGG
1 GT-TTAAGGTTTAGA
*
87449916 GTTTCAGGTTTAGA
1 GTTTAAGGTTTAGA
87449930 GT
1 GT
87449932 ATAATTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 2 0.05
14 34 0.89
15 2 0.05
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.43
Consensus pattern (14 bp):
GTTTAAGGTTTAGA
Found at i:87450010 original size:37 final size:37
Alignment explanation
Indices: 87449960--87450040 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
87449950 TTAGAAGATA
87449960 AATATAAATAAGATAAAAATATAAAAATTATTATTTT
1 AATATAAATAAGATAAAAATATAAAAATTATTATTTT
* *
87449997 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAAAATATAAAAATTATTATTTT
*
87450034 AAAATAA
1 AATATAA
87450041 TATATATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (37 bp):
AATATAAATAAGATAAAAATATAAAAATTATTATTTT
Found at i:87452667 original size:30 final size:30
Alignment explanation
Indices: 87452611--87452668 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
87452601 TACGAGTCTT
*
87452611 GGGGCAAAAGTGTAAATATGTGAAAGTTTA
1 GGGGCAAAAGTGTAAATATGTCAAAGTTTA
* *
87452641 GGGGCAAAA-TGGTAATTTTGTCAAAGTT
1 GGGGCAAAAGT-GTAAATATGTCAAAGTT
87452669 CGTACTAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGTCAAAGTTTA
Found at i:87462766 original size:106 final size:106
Alignment explanation
Indices: 87462506--87463787 Score: 2117
Period size: 106 Copynumber: 12.2 Consensus size: 106
87462496 ATTTTAAAAT
* * * *
87462506 TTTTATTTT-ATTTTTAAATTACCGAATTAGATTAAAATGTATTTAAAGTTTTATTTTGAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* **
87462570 TTATTTGATTTTAATTTAATCACGGAAAATA--TTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* * *
87462609 TTTTATTTTATTTTTTAAATTACCAAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
87462674 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* **
87462715 TTTTATTTTAATTTTCAAATTACCTAATTAAATTAAATTGTCCTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
87462780 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
87462821 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
87462886 TTA-TTGGATTTTAATTTAATCAC-AATAAATATTTTGTCTAC
66 TTACTT-GATTTTAATTTAATCACTAA-AAATATTTTGTCTAC
* *
87462927 TTTTATTTTATTTTTTAAATTACTTAATTAAATTAAATTGCT-TTTAAAGTTTTATTTTAAATAT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTG-TATTTAAAGTTTTATTTTAAATAT
87462991 TTTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
65 TTTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
87463033 TTTTATTTTAATTTTTAAATTACCTAATTAAATGAAATTGGATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
87463098 TTA-TTGGATTTTAATTTAATCA-TGAAAAATATTTTGTCTAC
66 TTACTT-GATTTTAATTTAATCACT-AAAAATATTTTGTCTAC
* * * *
87463139 TTTTATTTTACTTTTTAACTCACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* *
87463204 TTACTTGATTTTAATTTAATCATTAAAAATATATTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
*
87463245 TTTTATTTTAATTTTTAAATTGCCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
*
87463310 TTACTTGATTTTAATTTAATCACTAAATATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* * *
87463351 TTTTATTTTAATTTTTAAATGACCTAATTAGATTAAATTGTATTTAAATTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
87463416 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
87463457 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAACTTGTATTTAAATTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
*
87463522 TTACTTAATTTTAATTTAATCACT-AAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
*
87463562 -----TTTTAATTTTTAAATTACCTAATTAAATTAAATTGTGTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
87463622 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
87463663 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
*
87463728 TCACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
87463769 TTTTATTTTAA-TTTTAAAT
1 TTTTATTTTAATTTTTAAAT
87463788 ATTTTATTTT
Statistics
Matches: 1108, Mismatches: 52, Indels: 36
0.93 0.04 0.03
Matches are distributed among these distances:
100 80 0.07
101 16 0.01
103 9 0.01
104 77 0.07
105 31 0.03
106 887 0.80
107 8 0.01
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.54
Consensus pattern (106 bp):
TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
Found at i:87463921 original size:9 final size:9
Alignment explanation
Indices: 87463907--87464038 Score: 62
Period size: 9 Copynumber: 14.7 Consensus size: 9
87463897 TCCCATCAAC
87463907 AACTTACAT
1 AACTTACAT
87463916 AACTTACAT
1 AACTTACAT
87463925 AA--TACAT
1 AACTTACAT
* *
87463932 AAATATATATT
1 AACT-TACA-T
*
87463943 ATATCGTACAT
1 A-A-CTTACAT
*
87463954 AATTTACAT
1 AACTTACAT
87463963 AA-TT-CGGAT
1 AACTTAC--AT
87463972 AACTTACAT
1 AACTTACAT
*
87463981 AATTTACAT
1 AACTTACAT
*
87463990 AACTTATAT
1 AACTTACAT
87463999 AA--TACAT
1 AACTTACAT
* *
87464006 AA-ATATAT
1 AACTTACAT
* *
87464014 ATCATATCAT
1 AACTTA-CAT
87464024 AACTTACAT
1 AACTTACAT
87464033 AACTTA
1 AACTTA
87464039 ATTATACTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
7 14 0.15
8 7 0.07
9 53 0.56
10 12 0.13
11 5 0.05
12 4 0.04
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.37
Consensus pattern (9 bp):
AACTTACAT
Found at i:87469879 original size:31 final size:31
Alignment explanation
Indices: 87469829--87469894 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
87469819 TTATTTTTTT
* * *
87469829 ATGCTACATTTGCTGTTTTTGGTTGGATTTC
1 ATGCTACATTTACTATTTTTGGTTGGATTTA
*
87469860 ATGCTATATTTACTATTTTTGGTTGGATTTA
1 ATGCTACATTTACTATTTTTGGTTGGATTTA
87469891 ATGC
1 ATGC
87469895 AAGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.52
Consensus pattern (31 bp):
ATGCTACATTTACTATTTTTGGTTGGATTTA
Found at i:87476319 original size:49 final size:49
Alignment explanation
Indices: 87476243--87476549 Score: 532
Period size: 49 Copynumber: 6.3 Consensus size: 49
87476233 CCCTTCGGGA
*
87476243 CTTATCACAT-T-TATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87476290 TTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87476339 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
87476388 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87476437 CTTATCAC--ATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87476484 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87476533 CTTATCACATATATATA
1 CTTATCACATATATATA
87476550 TCTCATACAA
Statistics
Matches: 249, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
47 55 0.22
48 1 0.00
49 193 0.78
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87476471 original size:96 final size:96
Alignment explanation
Indices: 87476243--87476545 Score: 534
Period size: 96 Copynumber: 3.1 Consensus size: 96
87476233 CCCTTCGGGA
* * * *
87476243 CTTATCACATTTATACACTTTCGCATTCATCACATCGGCCATTAGGCTTTATCACATATATATAC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
87476308 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
87476339 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
87476404 ACACTTTCACATTCTTCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
87476437 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
87476502 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
87476533 CTTATCACATATA
1 CTTATCACATATA
87476546 TATATCTCAT
Statistics
Matches: 197, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
96 107 0.54
98 90 0.46
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87476493 original size:22 final size:22
Alignment explanation
Indices: 87476419--87476493 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
87476409 TTCACATTCT
87476419 TCACATCGGCCATTAGGCCTTA
1 TCACATCGGCCATTAGGCCTTA
*** *** *
87476441 TCACATATACACACTTTCACATTCA
1 TCACATCGGC-CA-TTAGGCCTT-A
87476466 TCACATCGGCCATTAGGCCTTA
1 TCACATCGGCCATTAGGCCTTA
87476488 TCACAT
1 TCACAT
87476494 ATATATACAC
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 14 0.39
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
TCACATCGGCCATTAGGCCTTA
Found at i:87476506 original size:145 final size:146
Alignment explanation
Indices: 87476243--87476547 Score: 526
Period size: 145 Copynumber: 2.1 Consensus size: 146
87476233 CCCTTCGGGA
* * * *
87476243 CTTATCACAT-T-TATACACTTTCGCATTCATCACATCGGCCATTAGGCTTTATCACATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAC
87476306 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
65 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCAT
87476371 CACATCGGCCATTAGGC
130 CACATCGGCCATTAGGC
*
87476388 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCAC-ATATACA
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACA
*
87476452 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATC
87476517 ACATCGGCCATTAGGC
131 ACATCGGCCATTAGGC
87476533 CTTATCACATATATA
1 CTTATCACATATATA
87476548 TATCTCATAC
Statistics
Matches: 152, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
145 111 0.73
146 1 0.01
147 40 0.26
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (146 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATC
ACATCGGCCATTAGGC
Found at i:87481922 original size:17 final size:17
Alignment explanation
Indices: 87481900--87481934 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87481890 CAACCACCTC
87481900 GCCCAGATCTTTGAGAT
1 GCCCAGATCTTTGAGAT
87481917 GCCCAGATCTTTGAGAT
1 GCCCAGATCTTTGAGAT
87481934 G
1 G
87481935 AGTTGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (17 bp):
GCCCAGATCTTTGAGAT
Found at i:87483690 original size:28 final size:26
Alignment explanation
Indices: 87483628--87483690 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
87483618 AAAGTAACCC
** * *
87483628 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
87483654 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
87483682 TAGGGGTAT
1 TAGGGGTAT
87483691 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:87491437 original size:55 final size:55
Alignment explanation
Indices: 87491363--87491472 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
87491353 GAAAGAACTG
*
87491363 GACCTGTTGCACATAGGTTAGATGTACCACCAGAACTTGATCAG-ATTCATAATGT
1 GACCTGTTGCACATAGGTTAGATGTACCACCAAAACTTGAT-AGAATTCATAATGT
* * *
87491418 GACCTGTTGCATATTGGTTAGATGTACCACCAAAACTTGATTGAATTCATAATGT
1 GACCTGTTGCACATAGGTTAGATGTACCACCAAAACTTGATAGAATTCATAATGT
87491473 TCTTCATGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.02
55 49 0.98
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (55 bp):
GACCTGTTGCACATAGGTTAGATGTACCACCAAAACTTGATAGAATTCATAATGT
Found at i:87517349 original size:40 final size:40
Alignment explanation
Indices: 87517264--87517414 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
87517254 AATTGAATGA
* * *
87517264 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
87517304 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
87517345 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
87517384 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
87517415 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:87517428 original size:40 final size:40
Alignment explanation
Indices: 87517301--87517430 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
87517291 ATGCTGGAAA
* * * *
87517301 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
87517341 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
87517381 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
87517421 TTATATCCGG
1 TTATATCCGG
87517431 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:87527551 original size:28 final size:28
Alignment explanation
Indices: 87527486--87527586 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
87527476 ATAGTGAATC
*
87527486 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
87527515 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
87527543 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
87527573 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87527587 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:87531107 original size:42 final size:42
Alignment explanation
Indices: 87531052--87531247 Score: 257
Period size: 42 Copynumber: 4.6 Consensus size: 42
87531042 TGAGATTACA
* *
87531052 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
* * * *
87531094 TGTAAAACTATATCTGGGATATGTCATCGATATGAGACTTAG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
* *
87531136 TGTAAGACCATATCTGGGATATAGCATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
* * * * * *
87531178 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGGGATTTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTTCG
87531221 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
87531248 TGGTACGGTA
Statistics
Matches: 132, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 98 0.74
43 34 0.26
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
Found at i:87532728 original size:93 final size:93
Alignment explanation
Indices: 87532619--87532789 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
87532609 GCCCCTAAGT
* * *
87532619 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87532684 CGAGTTCGGATGCCTATTTACATTTCAC
66 CGAGTTCGGATGCCTATTTACATTTCAC
*
87532712 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87532777 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87532790 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTATTTACATTTCAC
Found at i:87532786 original size:46 final size:46
Alignment explanation
Indices: 87532614--87532786 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
87532604 AACCCGCCCC
* * *
87532614 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* ** *
87532660 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTATTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTCGCATCCA
* *
87532708 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
87532753 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87532787 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:87539830 original size:93 final size:93
Alignment explanation
Indices: 87539718--87539888 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
87539708 GCCCCTAAGT
* *
87539718 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTAGCATCCATAAGTGAACTCAGACTCAACTCA
87539782 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
87539811 GAACTCGGACTCAACTCAACGAGTTCGGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAA
87539876 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87539889 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:87539884 original size:46 final size:47
Alignment explanation
Indices: 87539713--87539885 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 47
87539703 AACCCGCCCC
* * *
87539713 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTAGCATCCA
* *
87539759 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTAGCATCCA
* *
87539807 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTAGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTAGCATCCA
87539852 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87539886 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.54
47 30 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTAGCATCCA
Found at i:87541295 original size:13 final size:13
Alignment explanation
Indices: 87541277--87541340 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
87541267 AGTTTGGCAA
87541277 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
87541290 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
87541303 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
87541316 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
87541329 TGCTTTTGAAAA
1 TGCTTTTGAAAA
87541341 TTTTGGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:87542857 original size:13 final size:13
Alignment explanation
Indices: 87542810--87542857 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
87542800 CTCAGTATTG
*
87542810 AGCACATGGCCTA
1 AGCACACGGCCTA
*
87542823 AGCACACTGCCTA
1 AGCACACGGCCTA
*
87542836 AGCATACGGCCTA
1 AGCACACGGCCTA
87542849 AGCACACGG
1 AGCACACGG
87542858 GCGTGTGTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.12
Consensus pattern (13 bp):
AGCACACGGCCTA
Found at i:87543200 original size:21 final size:21
Alignment explanation
Indices: 87543176--87543217 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
87543166 CTTGTGTATA
87543176 ACTCGTACCCTATTTCGATGT
1 ACTCGTACCCTATTTCGATGT
87543197 ACTCGTACCCTATTTCGATGT
1 ACTCGTACCCTATTTCGATGT
87543218 TGGATACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (21 bp):
ACTCGTACCCTATTTCGATGT
Found at i:87543696 original size:206 final size:206
Alignment explanation
Indices: 87543342--87543816 Score: 627
Period size: 206 Copynumber: 2.3 Consensus size: 206
87543332 TTCACACTTA
* * * * *
87543342 TAAGATCAAGGCTTGTAGGTGAAAAGCTAT-AACCCCCAAAATAGTTAGCAAGAGCAAAGCTCCT
1 TAAGATCAAGGCTCGTAGGTGAAAAG-TTTCAGCCCTCAAAACAGTTAGCAAGAGCAAAGCTCCT
* * * *
87543406 AGCTATAAGATTAGGGCTTACAGGCAAAGAGCTACAACTTCCAAACCAGTTAGTGAGAGCAAAGA
65 AACTATAAGATCAGGGCTTACAGGCAAAGAGCCACAACTCCCAAACCAGTTAGTGAGAGCAAAGA
* * *
87543471 TCCCAACCCTAAGATCAAGGTTCACAAGCGAAGAGTCACTGGCCTAGAATAGTTAGCAAGAGCAA
130 TCCCAACCCTAAGATCAAGGCTCACAAGCGAAGAGCCACTGCCCTAGAATAGTTAGCAAGAGCAA
* *
87543536 AGCT-TCTGGTTG
195 AGCTCT-TAGCTG
* **
87543548 TAAGATCAAGGCTGGTAGGCAAAAAGTTTCAGCCCTCAAAACAGTTAGCAAGAGCAAAGCTCCTA
1 TAAGATCAAGGCTCGTAGGTGAAAAGTTTCAGCCCTCAAAACAGTTAGCAAGAGCAAAGCTCCTA
* * * *
87543613 ACTATAAGATCAGGGCTTGCAGGCAAAGAGCCGCAAC-CCCTAAACCAGTTAGTGAGATCAAAGC
66 ACTATAAGATCAGGGCTTACAGGCAAAGAGCCACAACTCCC-AAACCAGTTAGTGAGAGCAAAGA
*** * *
87543677 TCCCAATTGTAAGATCAAGGCTCACAGGCGAAGAGCCACTGCCCTAGAATAGTTAGCGAGAGCAA
130 TCCCAACCCTAAGATCAAGGCTCACAAGCGAAGAGCCACTGCCCTAGAATAGTTAGCAAGAGCAA
87543742 AGCTCTTAGCTG
195 AGCTCTTAGCTG
*
87543754 TAAGATCAAGGCTCGTAGGTGAAAAGTTTCAGTCCCT-AAAACAATTAG-AGAGAGCAAAGCTCC
1 TAAGATCAAGGCTCGTAGGTGAAAAGTTTCAG-CCCTCAAAACAGTTAGCA-AGAGCAAAGCTCC
87543817 CAATTGTAAT
Statistics
Matches: 235, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
205 5 0.02
206 225 0.96
207 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (206 bp):
TAAGATCAAGGCTCGTAGGTGAAAAGTTTCAGCCCTCAAAACAGTTAGCAAGAGCAAAGCTCCTA
ACTATAAGATCAGGGCTTACAGGCAAAGAGCCACAACTCCCAAACCAGTTAGTGAGAGCAAAGAT
CCCAACCCTAAGATCAAGGCTCACAAGCGAAGAGCCACTGCCCTAGAATAGTTAGCAAGAGCAAA
GCTCTTAGCTG
Found at i:87543883 original size:206 final size:206
Alignment explanation
Indices: 87543342--87543905 Score: 503
Period size: 206 Copynumber: 2.7 Consensus size: 206
87543332 TTCACACTTA
* ** * * * * * *
87543342 TAAGATCAAGGCTTGTAGGTGAAAAGCTAT-AACCCCCAAAATAGTTAGCAAGAGCAAAGCTCCT
1 TAAGATCAAGGCTCGTAGGCAAAAAG-TTTCAGCCCTCAAAACAATTAGCAAGAGCAAAGCTCCC
* * * * * ** * * **
87543406 AGCTATAAGATTAGGGCTTACAGGCAAAGAGCTACAACTTCC-AAACCAGTTAGTGAGAGCAAAG
65 AACTATAAGATCAAGACTCACAGGCAAAGAGCCGCAAC-CCCTAAACCAATTAGCAAGAGCAAAG
* * * *
87543470 ATCCCAACCCTAAGATCAAGGTTCACAAGCGAAGAGTCACTGGCCTAGAATAGTTAGCAAGAGCA
129 CTCCCAACCCTAAGATCAAGGCTCACAAGCGAAGAGCCACTGCCCTAGAATAGTTAGCAAGAGCA
* *
87543535 AAGCTTCTGGTTG
194 AAGCTTCTAGCTG
* * *
87543548 TAAGATCAAGGCTGGTAGGCAAAAAGTTTCAGCCCTCAAAACAGTTAGCAAGAGCAAAGCTCCTA
1 TAAGATCAAGGCTCGTAGGCAAAAAGTTTCAGCCCTCAAAACAATTAGCAAGAGCAAAGCTCCCA
* * ** * ** *
87543613 ACTATAAGATCAGGGCTTGCAGGCAAAGAGCCGCAACCCCTAAACCAGTTAGTGAGATCAAAGCT
66 ACTATAAGATCAAGACTCACAGGCAAAGAGCCGCAACCCCTAAACCAATTAGCAAGAGCAAAGCT
*** * *
87543678 CCCAATTGTAAGATCAAGGCTCACAGGCGAAGAGCCACTGCCCTAGAATAGTTAGCGAGAGCAAA
131 CCCAACCCTAAGATCAAGGCTCACAAGCGAAGAGCCACTGCCCTAGAATAGTTAGCAAGAGCAAA
87543743 GC-TCTTAGCTG
196 GCTTC-TAGCTG
**
87543754 TAAGATCAAGGCTCGTAGGTGAAAAGTTTCAGTCCCT-AAAACAATTAG-AGAGAGCAAAGCTCC
1 TAAGATCAAGGCTCGTAGGCAAAAAGTTTCAG-CCCTCAAAACAATTAGCA-AGAGCAAAGCTCC
* * ** * * ** *
87543817 CAATTGTAATCTCAAGACTCACAGGCGAAGAGTCGCGGCCTCC-AGAA-TAATTAGCAAGAGCAA
64 CAACTATAAGATCAAGACTCACAGGCAAAGAGCCGCAACC-CCTA-AACCAATTAGCAAGAGCAA
* ***
87543880 AGCTCCCAGCAAAAAGATCAAGGCTC
127 AGCTCCCAACCCTAAGATCAAGGCTC
87543906 GTAGGTGAAG
Statistics
Matches: 299, Mismatches: 52, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
205 7 0.02
206 284 0.95
207 8 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (206 bp):
TAAGATCAAGGCTCGTAGGCAAAAAGTTTCAGCCCTCAAAACAATTAGCAAGAGCAAAGCTCCCA
ACTATAAGATCAAGACTCACAGGCAAAGAGCCGCAACCCCTAAACCAATTAGCAAGAGCAAAGCT
CCCAACCCTAAGATCAAGGCTCACAAGCGAAGAGCCACTGCCCTAGAATAGTTAGCAAGAGCAAA
GCTTCTAGCTG
Found at i:87543933 original size:138 final size:137
Alignment explanation
Indices: 87543592--87543970 Score: 366
Period size: 137 Copynumber: 2.8 Consensus size: 137
87543582 CTCAAAACAG
* * * * * * * * * **
87543592 TTAGCAAGAGCAAAGCTCCTAACTATAAGATCAGGGCTTGCAGG-CAAAGAGCCGCAACCCCTAA
1 TTAGCAAGAGCAAAGCTCCCAGCAAAAAGATCAAGGCTCGTAGGTGAAA-AGCCACAGTCCCTAA
* * * * * * *
87543656 ACCAGTTAGTGAGATCAAAGCTCCCAATTGTAAGATCAAGGCTCACAGGCGAAGAGCCACTGCCC
65 AACAATTAGAGAGAGCAAAGCTCCCAATTGTAATATCAAGACTCACAGGCGAAGAGCCACGGCCC
* *
87543721 TAGAATAG
130 CAGAATAA
* ** *** ***
87543729 TTAGCGAGAGCAAAGCTCTTAGCTGTAAGATCAAGGCTCGTAGGTGAAAAGTTTCAGTCCCTAAA
1 TTAGCAAGAGCAAAGCTCCCAGCAAAAAGATCAAGGCTCGTAGGTGAAAAGCCACAGTCCCTAAA
* * *
87543794 ACAATTAGAGAGAGCAAAGCTCCCAATTGTAATCTCAAGACTCACAGGCGAAGAGTCGCGGCCTC
66 ACAATTAGAGAGAGCAAAGCTCCCAATTGTAATATCAAGACTCACAGGCGAAGAGCCACGGCC-C
87543859 CAGAATAA
130 CAGAATAA
* *
87543867 TTAGCAAGAGCAAAGCTCCCAGCAAAAAGATCAAGGCTCGTAGGTGAAGAGCCACAG-CCTTCAA
1 TTAGCAAGAGCAAAGCTCCCAGCAAAAAGATCAAGGCTCGTAGGTGAAAAGCCACAGTCCCT-AA
** * * *
87543931 AACAGCTAGCGAGAGCAAATCTCCCAACTGTAATATCAAG
65 AACAATTAGAGAGAGCAAAGCTCCCAATTGTAATATCAAG
87543971 CGCAAAGCTC
Statistics
Matches: 197, Mismatches: 42, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
137 104 0.53
138 93 0.47
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (137 bp):
TTAGCAAGAGCAAAGCTCCCAGCAAAAAGATCAAGGCTCGTAGGTGAAAAGCCACAGTCCCTAAA
ACAATTAGAGAGAGCAAAGCTCCCAATTGTAATATCAAGACTCACAGGCGAAGAGCCACGGCCCC
AGAATAA
Found at i:87543969 original size:69 final size:69
Alignment explanation
Indices: 87543342--87543970 Score: 316
Period size: 69 Copynumber: 9.1 Consensus size: 69
87543332 TTCACACTTA
* * * * * * * * * * *
87543342 TAAGATCAAGGCTTGTAGGTGAAAAGCTATAACCCCCAAAATAGTTAGCAAGAGCAAAGCTCCTA
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
* *
87543407 GCTA
66 ACTG
* * ** * * * * * * *
87543411 TAAGATTAGGGCTTACAGGCAAAGAGCTACA-ACTTCCAAACCAGTTAGTGAGAGCAAAGATCCC
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCT-CAAAACAGTTAGCGAGAGCAAAGCTCCC
**
87543475 AACCC
65 AACTG
* * * * * * * * * * **
87543480 TAAGATCAAGGTTCACAAGCGAAGAGTCACTGGCCT-AGAATAGTTAGCAAGAGCAAAGCTTCTG
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
**
87543544 GTTG
66 ACTG
* * * * *** * *
87543548 TAAGATCAAGGCTGGTAGGCAAAAAGTTTCAGCCCTCAAAACAGTTAGCAAGAGCAAAGCTCCTA
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
*
87543613 ACTA
66 ACTG
* * * * * * * *
87543617 TAAGATCAGGGCTTGCAGGCAAAGAGCCGCAACCC-CTAAACCAGTTAGTGAGATCAAAGCTCCC
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTC-AAAACAGTTAGCGAGAGCAAAGCTCCC
*
87543681 AATTG
65 AACTG
* * * * **
87543686 TAAGATCAAGGCTCACAGGCGAAGAGCCACTGCCCT-AGAATAGTTAGCGAGAGCAAAGCTCTTA
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
*
87543750 GCTG
66 ACTG
* * * *** * *
87543754 TAAGATCAAGGCTCGTAGGTGAAAAGTTTCAGTCCCT-AAAACAATTAGAGAGAGCAAAGCTCCC
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAG-CCCTCAAAACAGTTAGCGAGAGCAAAGCTCCC
*
87543818 AATTG
65 AACTG
** * * * * * * * * *
87543823 TAATCTCAAGACTCACAGGCGAAGAGTCGC-GGCCTCCAGAATAATTAGCAAGAGCAAAGCTCCC
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCT-CAAAACAGTTAGCGAGAGCAAAGCTCCC
* **
87543887 AGCAA
65 AACTG
* * * * * *
87543892 AAAGATCAAGGCTCGTAGGTGAAGAGCCACAGCCTTCAAAACAGCTAGCGAGAGCAAATCTCCCA
1 TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
87543957 ACTG
66 ACTG
*
87543961 TAATATCAAG
1 TAAGATCAAG
87543971 CGCAAAGCTC
Statistics
Matches: 402, Mismatches: 149, Indels: 18
0.71 0.26 0.03
Matches are distributed among these distances:
67 3 0.01
68 94 0.23
69 300 0.75
70 5 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (69 bp):
TAAGATCAAGGCTCGCAGGCGAAGAGCCACAGCCCTCAAAACAGTTAGCGAGAGCAAAGCTCCCA
ACTG
Found at i:87544081 original size:58 final size:58
Alignment explanation
Indices: 87544000--87544169 Score: 209
Period size: 58 Copynumber: 2.9 Consensus size: 58
87543990 ATATCAGTAT
* * * **
87544000 AAAACAGACCGAGAATTGATATTCCTAGCTTATAATTTTGAGAAAAATATCTATGTAA
1 AAAACAGAACGCGAATTCATATTCCTAGCTTATAATTTTGAGAAAAATATCTAAATAA
* *
87544058 AAAATAGAACGCGAATTCATATT-CTCAGCTTATAATTTTGAGAAAAATCA-CTAAATAG
1 AAAACAGAACGCGAATTCATATTCCT-AGCTTATAATTTTGAGAAAAAT-ATCTAAATAA
* * * *
87544116 AAAACAGATCGCGAATTCATGTTCCTAGCTTATAATTTCGAGAAAAATCTCTAA
1 AAAACAGAACGCGAATTCATATTCCTAGCTTATAATTTTGAGAAAAATATCTAA
87544170 GTATTAGACG
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 2 0.02
58 91 0.95
59 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (58 bp):
AAAACAGAACGCGAATTCATATTCCTAGCTTATAATTTTGAGAAAAATATCTAAATAA
Found at i:87546321 original size:30 final size:30
Alignment explanation
Indices: 87546287--87546347 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
87546277 GAACCCAACC
87546287 TTCAAGGCATGCAGTGGCAAAAGGAAGCTA
1 TTCAAGGCATGCAGTGGCAAAAGGAAGCTA
87546317 TTCAAGGCATGCAGTGGCAAAAGGAAGCTA
1 TTCAAGGCATGCAGTGGCAAAAGGAAGCTA
87546347 T
1 T
87546348 CATCCATCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (30 bp):
TTCAAGGCATGCAGTGGCAAAAGGAAGCTA
Found at i:87549304 original size:4 final size:4
Alignment explanation
Indices: 87549295--87549323 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
87549285 CCAAACTTTT
87549295 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
87549324 AGGAGGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:87549709 original size:29 final size:30
Alignment explanation
Indices: 87549646--87549717 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
87549636 AGTTTAAAAC
* *
87549646 TATAAATAAATTTTTATTTAATGTATAATAT
1 TATATATAAATTTTGATTT-ATGTATAATAT
* *
87549677 TATATATAAATTTTGATTT-TGTGTAATTT
1 TATATATAAATTTTGATTTATGTATAATAT
87549706 TATATATTAAAT
1 TATATA-TAAAT
87549718 GTTAGTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 14 0.39
30 5 0.14
31 17 0.47
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (30 bp):
TATATATAAATTTTGATTTATGTATAATAT
Found at i:87554942 original size:2 final size:2
Alignment explanation
Indices: 87554906--87554934 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87554896 AAAAACATAA
87554906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87554935 AAATATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87556197 original size:31 final size:31
Alignment explanation
Indices: 87556160--87556223 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
87556150 ATAGGATACT
87556160 AAGAATTTCTGAAAATTCAAAAAATAAATAA
1 AAGAATTTCTGAAAATTCAAAAAATAAATAA
87556191 AAGAATTTCTGAAAATTCAAAAAATAAATAA
1 AAGAATTTCTGAAAATTCAAAAAATAAATAA
87556222 AA
1 AA
87556224 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (31 bp):
AAGAATTTCTGAAAATTCAAAAAATAAATAA
Found at i:87556226 original size:19 final size:19
Alignment explanation
Indices: 87556202--87556256 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
87556192 AGAATTTCTG
87556202 AAAATTCAAAAAATAAATA
1 AAAATTCAAAAAATAAATA
* * *
87556221 AAAATTTAAAAAACACATA
1 AAAATTCAAAAAATAAATA
*
87556240 AAAGTTCAAAAAATAAA
1 AAAATTCAAAAAATAAA
87556257 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATTCAAAAAATAAATA
Found at i:87562682 original size:40 final size:37
Alignment explanation
Indices: 87562596--87562727 Score: 157
Period size: 35 Copynumber: 3.6 Consensus size: 37
87562586 TTTTCCTCAT
*
87562596 TGAAATACCATACCTACATTT-TACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCT-CAACTCAGTATGGA
* *
87562632 -GAAATGCCATACCTACATTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCTCAACTCAGTATGGA
*
87562668 TTTGATAATACCATACCTACATTTCACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCTCAACTCAGTATGGA
87562708 TG--ATACCATACCTACATTTC
1 TGAAATACCATACCTACATTTC
87562728 ACATTTTGCC
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
35 48 0.57
36 1 0.01
38 2 0.02
39 2 0.02
40 31 0.37
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCTCAACTCAGTATGGA
Found at i:87569669 original size:40 final size:35
Alignment explanation
Indices: 87569586--87569716 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
87569576 TCTTATTGAA
* * * *
87569586 ATACCATACCTACATTTTACAACTCGGTGTGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
** **
87569621 ATGGCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
87569658 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
87569696 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
87569717 CTTCGCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.04
35 44 0.56
38 2 0.03
40 29 0.37
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:87569728 original size:35 final size:35
Alignment explanation
Indices: 87569625--87569716 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 35
87569615 TGGGAAATGG
** *
87569625 CATACCTACATTTCTTAACTCAGTATGGATTTGATAATAC
1 CATACCTACATTTCACAACTCAGCATGGA--TG---ATAC
*
87569665 CATACCTACATTTCACAACTCAGTATGGATGATAC
1 CATACCTACATTTCACAACTCAGCATGGATGATAC
87569700 CATACCTACATTTCACA
1 CATACCTACATTTCACA
87569717 CTTCGCCATG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
35 21 0.42
38 2 0.04
40 27 0.54
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.33
Consensus pattern (35 bp):
CATACCTACATTTCACAACTCAGCATGGATGATAC
Found at i:87582689 original size:29 final size:29
Alignment explanation
Indices: 87582632--87582763 Score: 104
Period size: 29 Copynumber: 4.6 Consensus size: 29
87582622 AATTTAAGCC
* *** *
87582632 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
** *
87582661 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
* **
87582690 TGCACACATAGTGTTATATTTTTCCAGCAT
1 CGCACACATAGTGCCATATTTTTCCAGC-T
* * * *
87582720 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCT
*
87582748 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
87582764 ATCTCATCAC
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
29 81 0.99
30 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCT
Found at i:87583412 original size:143 final size:143
Alignment explanation
Indices: 87583245--87583539 Score: 572
Period size: 143 Copynumber: 2.1 Consensus size: 143
87583235 TATACCCCAT
87583245 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
87583310 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
* *
87583375 GAAGATAACATGC
131 GAAAACAACATGC
87583388 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
87583453 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
87583518 GAAAACAACATGC
131 GAAAACAACATGC
87583531 ATGGCCGAA
1 ATGGCCGAA
87583540 ATTTAACTCA
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 150 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (143 bp):
ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACATGC
Found at i:87586900 original size:40 final size:40
Alignment explanation
Indices: 87586845--87587054 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
87586835 AACATTGGAA
87586845 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87586885 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87586925 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
87586965 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
87587004 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
87587045 CTATATCCGG
1 ATATATCCGG
87587055 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:87595013 original size:40 final size:40
Alignment explanation
Indices: 87594958--87595163 Score: 269
Period size: 40 Copynumber: 5.2 Consensus size: 40
87594948 AACATTGGAA
87594958 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87594998 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87595038 ATATATCCGGGCTAAGA---GAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
87595075 ATATATCCGGGCTAAGA-CCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
87595113 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
87595154 CTATATCCGG
1 ATATATCCGG
87595164 TTAAATCCCG
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
37 37 0.26
38 2 0.01
39 26 0.18
40 79 0.55
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:87603305 original size:28 final size:27
Alignment explanation
Indices: 87603242--87603311 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
87603232 ATAGTGAGTC
*
87603242 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
87603269 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
87603297 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87603312 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:87617498 original size:18 final size:18
Alignment explanation
Indices: 87617458--87617499 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
87617448 TCTCCTACAC
87617458 TTTTTTATTTTTCAATTT
1 TTTTTTATTTTTCAATTT
*
87617476 ATTTTTATTTTTC-ATTCT
1 TTTTTTATTTTTCAATT-T
87617494 TTTTTT
1 TTTTTT
87617500 CACTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTTTCAATTT
Found at i:87617499 original size:30 final size:32
Alignment explanation
Indices: 87617465--87617537 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
87617455 CACTTTTTTA
87617465 TTTTTCAATTTATTTTTATTTTTC-AT-TCTT
1 TTTTTCAATTTATTTTTATTTTTCAATCTCTT
* * *
87617495 TTTTTCACTTTCTTTTTCTTTTTCAATCTCTT
1 TTTTTCAATTTATTTTTATTTTTCAATCTCTT
*
87617527 TTTCTCAATTT
1 TTTTTCAATTT
87617538 CGTAATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 21 0.58
31 2 0.06
32 13 0.36
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (32 bp):
TTTTTCAATTTATTTTTATTTTTCAATCTCTT
Found at i:87617526 original size:18 final size:18
Alignment explanation
Indices: 87617495--87617531 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
87617485 TTTCATTCTT
* *
87617495 TTTTTCACTTTCTTTTTC
1 TTTTTCAATCTCTTTTTC
87617513 TTTTTCAATCTCTTTTTC
1 TTTTTCAATCTCTTTTTC
87617531 T
1 T
87617532 CAATTTCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTCAATCTCTTTTTC
Found at i:87620235 original size:24 final size:22
Alignment explanation
Indices: 87620195--87620249 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
87620185 TGGACACAAA
* *
87620195 AAAAAGCATGATAACAATATGACT
1 AAAAA-CATGAAAACAAAAT-ACT
*
87620219 AAAAACATGAAATACAAAATATT
1 AAAAACATGAAA-ACAAAATACT
87620242 AAAAACAT
1 AAAAACAT
87620250 ACATAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.62, C:0.11, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAACATGAAAACAAAATACT
Found at i:87623376 original size:27 final size:28
Alignment explanation
Indices: 87623290--87623389 Score: 139
Period size: 27 Copynumber: 3.5 Consensus size: 28
87623280 CATGAGATTG
* * *
87623290 GCACTAAGTGTGCGGGTTTAAAATTTGTATA
1 GCACTAAGTGTGCGAGTTT--GA-TTATATA
87623321 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87623349 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87623376 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
87623390 GACTCACTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
27 25 0.38
28 22 0.33
29 1 0.02
31 18 0.27
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87633758 original size:22 final size:22
Alignment explanation
Indices: 87633726--87633769 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
87633716 TAGTTGAGAA
87633726 TATGGCCAGAGTTGAATATCAG
1 TATGGCCAGAGTTGAATATCAG
*
87633748 TATGGCTAGAGTTGAATATCAG
1 TATGGCCAGAGTTGAATATCAG
87633770 AAAAGTGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (22 bp):
TATGGCCAGAGTTGAATATCAG
Found at i:87653789 original size:40 final size:40
Alignment explanation
Indices: 87653730--87653871 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
87653720 AAATTGAATG
* * *
87653730 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
87653770 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
87653810 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
87653850 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
87653872 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:87653872 original size:40 final size:39
Alignment explanation
Indices: 87653769--87653897 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
87653759 TGCTGGAAAT
* * *
87653769 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
87653809 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
87653849 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
87653889 TATATCCGG
1 TATATCCGG
87653898 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:87658334 original size:40 final size:40
Alignment explanation
Indices: 87658226--87658435 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
87658216 CGGGATTTAA
* * * * *
87658226 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
87658266 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87658306 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87658346 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87658386 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87658426 CCGGATATAT
1 CCGGATATAT
87658436 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:87666469 original size:40 final size:40
Alignment explanation
Indices: 87666361--87666570 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
87666351 CGGGATTTAA
* * * * *
87666361 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
87666401 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87666441 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87666481 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87666521 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87666561 CCGGATATAT
1 CCGGATATAT
87666571 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:87674934 original size:26 final size:25
Alignment explanation
Indices: 87674878--87674934 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
87674868 TATTTTAAAT
* *
87674878 TATTATTCATTTTAAATTTTATATA
1 TATTATTCATTTTAAATCTTATACA
** *
87674903 CGTTATTGATTTTAAACTCTTATACA
1 TATTATTCATTTTAAA-TCTTATACA
87674929 TATTAT
1 TATTAT
87674935 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (25 bp):
TATTATTCATTTTAAATCTTATACA
Found at i:87675242 original size:26 final size:28
Alignment explanation
Indices: 87675194--87675246 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
87675184 TGTTTTTGTA
*
87675194 TATTATTTATTTTAAATTTCTCTTTTACT
1 TATTATTTATTTTAAA-TGCTCTTTTACT
87675223 TATTATTTATTTT-AA-GCTCTTTTA
1 TATTATTTATTTTAAATGCTCTTTTA
87675247 TATGTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
28 2 0.09
29 13 0.57
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTATTTATTTTAAATGCTCTTTTACT
Found at i:87675483 original size:26 final size:23
Alignment explanation
Indices: 87675434--87675483 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 23
87675424 TGTTATCTAT
*
87675434 TTTAAATTTTTTATCTTGTTTAC
1 TTTAAATTTTTTATCTTGTATAC
*
87675457 TTTAAATTGCTTTTTTCTTCGTATAC
1 TTTAAATT--TTTTATCTT-GTATAC
87675483 T
1 T
87675484 ATTTTACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTAAATTTTTTATCTTGTATAC
Found at i:87677676 original size:30 final size:29
Alignment explanation
Indices: 87677582--87677683 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
87677572 TATAGTGAAT
* * * *
87677582 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTGTAAATTTTAAAC
* *
87677611 TCGCACACTTAGTGCTGTATAA--TCAAAC
1 CCGCACACTTAGTGCTGTA-AATTTTAAAC
*
87677639 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTGTA-AATTTTAAAC
87677669 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
87677684 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 24 0.39
29 17 0.28
30 20 0.33
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTGTAAATTTTAAAC
Found at i:87685551 original size:30 final size:30
Alignment explanation
Indices: 87685496--87685655 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
87685486 ATAGTGAATC
87685496 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
87685525 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
87685555 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
87685584 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
87685612 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
87685642 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87685656 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:87685588 original size:59 final size:57
Alignment explanation
Indices: 87685496--87685655 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
87685486 ATAGTGAATC
*
87685496 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
87685555 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
87685612 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
87685656 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:87692183 original size:28 final size:28
Alignment explanation
Indices: 87692141--87692240 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
87692131 CGATGTCTAG
* * * * *
87692141 CACACTATGTACCATACTCGATACCTCA
1 CACACTAAGTGCCATTCTCGATACTTTA
* *
87692169 CACGCTAAGTGCCATTCTCGATACTTTT
1 CACACTAAGTGCCATTCTCGATACTTTA
*
87692197 CACACTAAGTGCCATTCTCGATACTTTG
1 CACACTAAGTGCCATTCTCGATACTTTA
87692225 CACACTAAGTGCCATT
1 CACACTAAGTGCCATT
87692241 TATATATAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCGATACTTTA
Found at i:87692315 original size:40 final size:39
Alignment explanation
Indices: 87692251--87692336 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
87692241 TATATATAGA
* *
87692251 TAGCCGAAGCTATCTCGAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCCAACTGCACACCAAGTGCCA-TTT
* *
87692291 TAGCCGAAGCTATTTCCAACTGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCCAACTGCACACCAAGTGCCATTT
87692330 TAGCCGA
1 TAGCCGA
87692337 TAAGTCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCCAACTGCACACCAAGTGCCATTT
Found at i:87694154 original size:20 final size:20
Alignment explanation
Indices: 87694116--87694163 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
87694106 TAAAATCTAA
* **
87694116 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
87694136 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
87694156 AAA-ATAAA
1 AAAGATAAA
87694164 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:87694188 original size:27 final size:26
Alignment explanation
Indices: 87694158--87694220 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
87694148 AGATAATTAA
87694158 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
87694185 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
87694212 AATATAAAT
1 AATA-AAAT
87694221 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:87694207 original size:15 final size:15
Alignment explanation
Indices: 87694187--87694216 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87694177 ATAATCCTAA
*
87694187 TAATTATCTTAATAT
1 TAATTATCCTAATAT
87694202 TAATTATCCTAATAT
1 TAATTATCCTAATAT
87694217 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Done.