Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 108 of 135
Found at i:36945425 original size:25 final size:25
Alignment explanation
Indices: 36945378--36945426 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
36945368 TGAGCCAAAT
*
36945378 AGAATTACGCTCTAACGAGCCAGAC
1 AGAATTACGCTCTAACAAGCCAGAC
*
36945403 AGAATTACGCTCTTACAAGCCAGA
1 AGAATTACGCTCTAACAAGCCAGA
36945427 ATCCAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATTACGCTCTAACAAGCCAGAC
Found at i:36951600 original size:28 final size:27
Alignment explanation
Indices: 36951562--36951619 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
36951552 TTCTTCTCTT
* *
36951562 TTTTTGTTACTGATTTTAGGTTATTTGG
1 TTTTGGTTACTGATTTCA-GTTATTTGG
*
36951590 TTTTGGTTACTGCTTTCAGTTATTTGG
1 TTTTGGTTACTGATTTCAGTTATTTGG
36951617 TTT
1 TTT
36951620 CGTAGGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.12, C:0.07, G:0.21, T:0.60
Consensus pattern (27 bp):
TTTTGGTTACTGATTTCAGTTATTTGG
Found at i:36952425 original size:26 final size:27
Alignment explanation
Indices: 36952381--36952431 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36952371 TTTTACCCCA
* *
36952381 ATAAAATTTTGACAAATTTTACCCTTG
1 ATAAAATTTTAACAAATTTAACCCTTG
*
36952408 ATAAAATTTTAAC-GATTTAACCCT
1 ATAAAATTTTAACAAATTTAACCCT
36952432 CAATCTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (27 bp):
ATAAAATTTTAACAAATTTAACCCTTG
Found at i:36956900 original size:23 final size:22
Alignment explanation
Indices: 36956874--36956918 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
36956864 AAAAAAAATG
36956874 TAAAAAATATATTTTAATTTTTA
1 TAAAAAATAT-TTTTAATTTTTA
*
36956897 TAAAAAATATTTTTATTTTTTA
1 TAAAAAATATTTTTAATTTTTA
36956919 CTTTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAAAAATATTTTTAATTTTTA
Found at i:36956906 original size:21 final size:22
Alignment explanation
Indices: 36956876--36956916 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
36956866 AAAAAATGTA
36956876 AAAAATATATTTTAATTTTTAT
1 AAAAATATATTTTAATTTTTAT
*
36956898 AAAAA-ATATTTTTATTTTT
1 AAAAATATATTTTAATTTTT
36956917 TACTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAAAATATATTTTAATTTTTAT
Found at i:36957624 original size:31 final size:29
Alignment explanation
Indices: 36957589--36957665 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
36957579 TTAACGGCTC
*
36957589 AGTGACTAAAATGTTACAACGCGATAACATA
1 AGTGACTAAAATGTAACAACGC-A-AACATA
* * ***
36957620 AGTGACTAGAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACGCAAACATA
36957649 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
36957666 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACGCAAACATA
Found at i:36970341 original size:18 final size:18
Alignment explanation
Indices: 36970318--36970360 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36970308 GAATATGTTT
36970318 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
36970336 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
36970354 TTAATTA
1 TTAATTA
36970361 TACTTTGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:36975312 original size:18 final size:18
Alignment explanation
Indices: 36975291--36975330 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
36975281 TATTTTAGAG
36975291 GCATTTACTTGTTAAGTT
1 GCATTTACTTGTTAAGTT
*
36975309 GCATTTGCTTGTTAAGTT
1 GCATTTACTTGTTAAGTT
36975327 GCAT
1 GCAT
36975331 CTATCTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (18 bp):
GCATTTACTTGTTAAGTT
Found at i:36975496 original size:24 final size:23
Alignment explanation
Indices: 36975436--36975496 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
36975426 AGAAATAATC
36975436 TTTGAGGTAAACTCTGTTTATTTG
1 TTTGA-GTAAACTCTGTTTATTTG
* * *
36975460 TTTCAATTGAACTCTGTTTATTTG
1 TTT-GAGTAAACTCTGTTTATTTG
36975484 TTTGAGTCAAACT
1 TTTGAGT-AAACT
36975497 TTTATTAGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
23 2 0.07
24 26 0.90
25 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.49
Consensus pattern (23 bp):
TTTGAGTAAACTCTGTTTATTTG
Found at i:36982848 original size:41 final size:43
Alignment explanation
Indices: 36982747--36982852 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
36982737 AACTCAATAT
* * *
36982747 TTAAATGGAAGACTCATGTCTCGGGTTGAGCATGAAAATTTATA
1 TTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAAAATTCATA
* * *
36982791 TTAAAAGAAGATTCATGTCTCGGGATGAGAATG-AGA-TCATA
1 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAAAATTCATA
36982832 TTAAAGGAAGACTCATGTCTC
1 TTAAAGGAAGACTCATGTCTC
36982853 AAAATGAGCG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 23 0.43
42 2 0.04
43 24 0.44
44 5 0.09
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (43 bp):
TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAAAATTCATA
Found at i:36982936 original size:40 final size:40
Alignment explanation
Indices: 36982878--36982974 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
36982868 TTTGTTTTTA
*
36982878 AAAAGGAACACTTATGACTTGGTAGAGCATAAGAGTGACT
1 AAAAGGAACACTTATGACTCGGTAGAGCATAAGAGTGACT
* * * *
36982918 AAAAGGAATACTTGTGACTCGGTAGAGCATAAGATTGATT
1 AAAAGGAACACTTATGACTCGGTAGAGCATAAGAGTGACT
*
36982958 AAAAGGAAGACTTATGA
1 AAAAGGAACACTTATGA
36982975 ACCTATGAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (40 bp):
AAAAGGAACACTTATGACTCGGTAGAGCATAAGAGTGACT
Found at i:36983659 original size:21 final size:21
Alignment explanation
Indices: 36983635--36983713 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
36983625 CTAGAGTTTT
36983635 TAGTATCGGTAGAAGTATAAC
1 TAGTATCGGTAGAAGTATAAC
* *
36983656 TAGTTTCGGTAGATGT-TACAC
1 TAGTATCGGTAGAAGTATA-AC
* * *
36983677 TTGTATCGGTAGAACTATCAC
1 TAGTATCGGTAGAAGTATAAC
* *
36983698 AAGTATCGATAGAAGT
1 TAGTATCGGTAGAAGT
36983714 CTACACTATT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.93
22 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (21 bp):
TAGTATCGGTAGAAGTATAAC
Found at i:36990069 original size:41 final size:41
Alignment explanation
Indices: 36989915--36990060 Score: 175
Period size: 41 Copynumber: 3.5 Consensus size: 41
36989905 AACTCGATAT
* * * * *
36989915 TTAAATGGAAGACTAATGTCTCGGGTTGAGCATGAGAATTTATA
1 TTAAA-GGAAGACTCATGTCTCGAGATGAGAATAAG-A-TTATA
*
36989959 TTAAAGGAAGACTCATGTCTCGAGATGAGAATAAGATCATA
1 TTAAAGGAAGACTCATGTCTCGAGATGAGAATAAGATTATA
* * *
36990000 TTAAAGTAAGACTCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCGAGATGAGAATAAGATTATA
*
36990041 TTAAAGGAAGATTCATGTCT
1 TTAAAGGAAGACTCATGTCT
36990061 TAAAATGAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 59 0.66
42 1 0.01
43 25 0.28
44 5 0.06
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.29
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGAGATGAGAATAAGATTATA
Found at i:36990153 original size:40 final size:40
Alignment explanation
Indices: 36990087--36990179 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
36990077 TTTGTTTTTA
36990087 AAAAGGAAGACTTTTGACTCGATAGAGCATAAGAGTGATT
1 AAAAGGAAGACTTTTGACTCGATAGAGCATAAGAGTGATT
* * *
36990127 AAAAGGAAGACTTGTT-ACTTGGTAGAGCATAAGATTGATT
1 AAAAGGAAGACTT-TTGACTCGATAGAGCATAAGAGTGATT
*
36990167 AACAGGAAGACTT
1 AAAAGGAAGACTT
36990180 ATGAACCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.26
Consensus pattern (40 bp):
AAAAGGAAGACTTTTGACTCGATAGAGCATAAGAGTGATT
Found at i:36992529 original size:12 final size:12
Alignment explanation
Indices: 36992512--36992540 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
36992502 TCGAAGTGAA
36992512 GCAAAAGAAGGT
1 GCAAAAGAAGGT
36992524 GCAAAAGAAGGT
1 GCAAAAGAAGGT
36992536 GCAAA
1 GCAAA
36992541 CAAGTCTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.31, T:0.07
Consensus pattern (12 bp):
GCAAAAGAAGGT
Found at i:36993538 original size:22 final size:22
Alignment explanation
Indices: 36993509--36993559 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
36993499 AGGCGGATGC
36993509 AGGC-GACGTTCTTTAAAGAAT
1 AGGCAGACGTTCTTTAAAGAAT
36993530 AGGCAGACGTTCTTTAAAGAAT
1 AGGCAGACGTTCTTTAAAGAAT
*
36993552 AGGTAGAC
1 AGGCAGAC
36993560 TTCATAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (22 bp):
AGGCAGACGTTCTTTAAAGAAT
Found at i:36995517 original size:34 final size:34
Alignment explanation
Indices: 36995462--36995526 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
36995452 CTGGGCGCTG
* *
36995462 CTTTCGTCAGTTTATCTGACTAGTGTTGGGCACA
1 CTTTCGTCAGTTTATCCGACTAGCGTTGGGCACA
* *
36995496 CTTTTGTCGGTTTATCCGACTAGCGTTGGGC
1 CTTTCGTCAGTTTATCCGACTAGCGTTGGGC
36995527 GTAATTATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (34 bp):
CTTTCGTCAGTTTATCCGACTAGCGTTGGGCACA
Found at i:37007455 original size:28 final size:30
Alignment explanation
Indices: 37007414--37007549 Score: 123
Period size: 36 Copynumber: 4.2 Consensus size: 30
37007404 CGATATCTGA
37007414 TTTACTCCCTGTTGACCCAAAGGTCATG-C
1 TTTACTCCCTGTTGACCCAAAGGTCATGCC
37007443 -TTACTCCCTGTTGACCCAAAGGTCATGATGCTC
1 TTTACTCCCTGTTGACCCAAAGGTC---ATGC-C
37007476 ATTTTACTCCCTGTTGACCCAAAGGTCATGATGCTC
1 --TTTACTCCCTGTTGACCCAAAGGTC---ATGC-C
* *
37007512 ATTTTACTACCTATTGACCCAAAGGTCATGCC
1 --TTTACTCCCTGTTGACCCAAAGGTCATGCC
37007544 TGTTAC
1 T-TTAC
37007550 CAGTATACGA
Statistics
Matches: 96, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
28 24 0.25
30 1 0.01
31 7 0.07
32 1 0.01
33 5 0.05
36 58 0.60
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (30 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGCC
Found at i:37007490 original size:36 final size:36
Alignment explanation
Indices: 37007443--37007541 Score: 180
Period size: 36 Copynumber: 2.8 Consensus size: 36
37007433 AAGGTCATGC
37007443 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
1 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
37007479 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
1 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
* *
37007515 TTACTACCTATTGACCCAAAGGTCATG
1 TTACTCCCTGTTGACCCAAAGGTCATG
37007542 CCTGTTACCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (36 bp):
TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
Found at i:37011209 original size:13 final size:13
Alignment explanation
Indices: 37011199--37011223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37011189 AAATTAAATA
37011199 AAGTAAATAAAAC
1 AAGTAAATAAAAC
37011212 AAGTAAATAAAA
1 AAGTAAATAAAA
37011224 TTGTATCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (13 bp):
AAGTAAATAAAAC
Found at i:37013018 original size:12 final size:13
Alignment explanation
Indices: 37012994--37013031 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
37012984 TTTTTTAAAC
37012994 AAAAATATATATT
1 AAAAATATATATT
37013007 AAAAATAT-TATT
1 AAAAATATATATT
*
37013019 -AAATTATATATT
1 AAAAATATATATT
37013031 A
1 A
37013032 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 6 0.27
12 8 0.36
13 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAAATATATATT
Found at i:37013704 original size:62 final size:62
Alignment explanation
Indices: 37013603--37013924 Score: 356
Period size: 62 Copynumber: 5.2 Consensus size: 62
37013593 TTGAATCAAA
* * * *
37013603 CAATGGTCGACACCCTCTTTTTCAGATAAAAAAAATTTCAAAATTTTTTGGTATTGGCCATA
1 CAATGGCCGACACCCCCTTTTTCAGATAAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATG
* * * * *
37013665 TAATGGCTGACACCCCCTTTTCTCAGAT-AAAAAATTTTCAAAATTTTTTTTGTGTTGGTCATG
1 CAATGGCCGACACCCCCTTTT-TCAGATAAAAAAAATTTCAAAA-TTTTTTGGTGTTGGCCATG
* * * *
37013728 CAATGGCCTACACCCCCTGTTTTCAGAT-AAAAAAATTTGAAAATTTTTTTGTGTTGACCATG
1 CAATGGCCGACACCCCCT-TTTTCAGATAAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATG
* *
37013790 CAATGGCCGACACCCCCTGTTTTCAGAT-AAAAAAATTTTAAATTTTTTTGGTGTTGGCCATG
1 CAATGGCCGACACCCCCT-TTTTCAGATAAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATG
* *
37013852 CAATGGCCGACACCCCCTTTTT-ATTGGGT--AAAAAA-TT--AAATTTTTTTGTGTTGGCCATG
1 CAATGGCCGACACCCCCTTTTTCA---GATAAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATG
*
37013911 TAATGGCCGACACC
1 CAATGGCCGACACC
37013925 AACATCCCCT
Statistics
Matches: 229, Mismatches: 25, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
59 33 0.14
60 1 0.00
61 6 0.03
62 129 0.56
63 57 0.25
64 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (62 bp):
CAATGGCCGACACCCCCTTTTTCAGATAAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATG
Found at i:37013762 original size:125 final size:122
Alignment explanation
Indices: 37013603--37013924 Score: 404
Period size: 125 Copynumber: 2.6 Consensus size: 122
37013593 TTGAATCAAA
* * * * *
37013603 CAATGGTCGACACCCTCTTTTTCAGATAAAAAAAATTTCAAAATTTTTTGGTATTGGCCATATAA
1 CAATGGCCGACACCCCCTTTTTCAGAT-AAAAAAATTT-AAAATTTTTTTGTGTTGGCCATGTAA
* * *
37013668 TGGCTGACACCCCCT-TTTCTCAGAT-AAAAAATTTTCAAAATTTTTTTTGTGTTGGTCATG
64 TGGCCGACACCCCCTGTTT-TCAGATAAAAAAATTTT--AAATTTTTTTGGTGTTGGCCATG
* * *
37013728 CAATGGCCTACACCCCCTGTTTTCAGATAAAAAAATTTGAAAATTTTTTTGTGTTGACCATGCAA
1 CAATGGCCGACACCCCCT-TTTTCAGATAAAAAAATTT-AAAATTTTTTTGTGTTGGCCATGTAA
37013793 TGGCCGACACCCCCTGTTTTCAGATAAAAAAATTTTAAATTTTTTTGGTGTTGGCCATG
64 TGGCCGACACCCCCTGTTTTCAGATAAAAAAATTTTAAATTTTTTTGGTGTTGGCCATG
*
37013852 CAATGGCCGACACCCCCTTTTT-ATTGGGT-AAAAAA-TT-AAATTTTTTTGTGTTGGCCATGTA
1 CAATGGCCGACACCCCCTTTTTCA---GATAAAAAAATTTAAAATTTTTTTGTGTTGGCCATGTA
37013913 ATGGCCGACACC
63 ATGGCCGACACC
37013925 AACATCCCCT
Statistics
Matches: 175, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
121 34 0.19
122 1 0.01
123 6 0.03
124 44 0.25
125 68 0.39
126 22 0.13
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (122 bp):
CAATGGCCGACACCCCCTTTTTCAGATAAAAAAATTTAAAATTTTTTTGTGTTGGCCATGTAATG
GCCGACACCCCCTGTTTTCAGATAAAAAAATTTTAAATTTTTTTGGTGTTGGCCATG
Found at i:37014767 original size:28 final size:28
Alignment explanation
Indices: 37014735--37014802 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
37014725 AAAAAATAAT
* *
37014735 AATTAGAATATATAAGAAATTAGAAAAA
1 AATTAAAATATACAAGAAATTAGAAAAA
*
37014763 AATTAAAATATACAAGAAATTGGAAATTAA
1 AATTAAAATATACAAGAAATTAGAAA--AA
*
37014793 ATTTAAAATA
1 AATTAAAATA
37014803 AAAACGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 23 0.68
30 11 0.32
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.28
Consensus pattern (28 bp):
AATTAAAATATACAAGAAATTAGAAAAA
Found at i:37014801 original size:30 final size:30
Alignment explanation
Indices: 37014741--37014830 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
37014731 TAATAATTAG
* *
37014741 AATATATAAGAAATTAGAAA--AAAATTAA
1 AATATAAAAGAAATTAGAAATTAAATTTAA
* *
37014769 AATATACAAGAAATTGGAAATTAAATTTAA
1 AATATAAAAGAAATTAGAAATTAAATTTAA
*
37014799 AATA-AAAACGAAATTACAAATTAAATTTAA
1 AATATAAAA-GAAATTAGAAATTAAATTTAA
37014829 AA
1 AA
37014831 AGTAAACGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.34
29 3 0.06
30 32 0.60
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (30 bp):
AATATAAAAGAAATTAGAAATTAAATTTAA
Found at i:37016011 original size:13 final size:13
Alignment explanation
Indices: 37015993--37016018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37015983 TATTTCGAAA
37015993 TTGTAAAAAATAT
1 TTGTAAAAAATAT
37016006 TTGTAAAAAATAT
1 TTGTAAAAAATAT
37016019 CATATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TTGTAAAAAATAT
Found at i:37016072 original size:19 final size:18
Alignment explanation
Indices: 37016033--37016074 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
37016023 TATTTTTTTT
37016033 AAAAATTTGAAAATATAA
1 AAAAATTTGAAAATATAA
*
37016051 AAAACATTTCGAAAATAGAA
1 AAAA-ATTT-GAAAATATAA
37016071 AAAA
1 AAAA
37016075 TTATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 4 0.19
20 13 0.62
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
AAAAATTTGAAAATATAA
Found at i:37016553 original size:170 final size:171
Alignment explanation
Indices: 37016271--37017237 Score: 1511
Period size: 170 Copynumber: 5.7 Consensus size: 171
37016261 GTCACCTATT
* *
37016271 AACACATTATTTGATAAAAA-TGTAATATAATAATAATATTTTTTATTTAAATATTTAAATTTTG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
*
37016335 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTGTTG
66 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTG
*
37016400 ATTTAAATATTTAAATTTAGTAAATAATGTATTATCAAATC
131 ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
*
37016441 AACACATTATTTGATAAAAATTGTAATATAAT-ATAAAATTGTTTATTTAAATATTTAAATTTAG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
37016505 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTG
66 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTG
37016570 ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
131 ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
* **
37016611 AACACATTATTTAATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTTAAATTTAG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
* * * * *
37016676 TAAATAATGTATTATCAAATCAACATATTATTTGATAAAAATTATAATATAATA-ATAATTGTTG
66 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTG
*
37016740 ATTTAAATATTTAAATTTAGTAAATAATATATTGTCAAATC
131 ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
* *
37016781 AACACATTATTTGATAAAAATTTTAATATAATAAT--AATTATTTATTTAAATATTTAAATTTAG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
* * * *
37016844 TAAATAATGTATTGTCAAATTAACACATTATTTGATAAAAATTTTAATATAATA-ATAATTATTT
66 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTG
*
37016908 ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATT
131 ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
*
37016949 AACACATTATTTGATAAAAATTGTAATATAATAAT--AATTATTTATTTAAATATTTAAATTTAG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
* ** *
37017012 TAAATAATGTGTTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATCTTTTT
66 TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAAT-ATAAAATTATT
* *
37017077 TATTTAAATATTTAAATTTAGTAAATAATATATTGTCAAATC
130 GATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
** **
37017119 AACACATTATTTGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATAAAAATTT-G
1 AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
* * * * * *
37017183 ATAAATAATGTCTTGTCAAATGAGCACAATATTTTATATAAATTGTAATATAATA
66 -TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATA
37017238 ATAATTTTTT
Statistics
Matches: 741, Mismatches: 49, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
168 234 0.32
169 1 0.00
170 345 0.47
171 93 0.13
172 68 0.09
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (171 bp):
AACACATTATTTGATAAAAATTGTAATATAATAATAAAATTTTTTATTTAAATATTTAAATTTAG
TAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTG
ATTTAAATATTTAAATTTAGTAAATAATGTATTGTCAAATC
Found at i:37016790 original size:84 final size:84
Alignment explanation
Indices: 37016271--37017267 Score: 1539
Period size: 84 Copynumber: 11.7 Consensus size: 84
37016261 GTCACCTATT
*
37016271 AACACATTATTTGATAAAAA-TGTAATATAATAATAATATTTTTTATTTAAATATTTAAATTTTG
1 AACACATTATTTGATAAAAATTGTAATATAATAAT-A-ATTTTTTATTTAAATATTTAAATTTAG
37016335 TAAATAATGTATTGTCAAATC
64 TAAATAATGTATTGTCAAATC
* * *
37016356 AACACATTATTTGATAAAAATTGTAATATAATATAAAATTGTTGATTTAAATATTTAAATTTAGT
1 AACACATTATTTGATAAAAATTGTAATATAATA-ATAATTTTTTATTTAAATATTTAAATTTAGT
*
37016421 AAATAATGTATTATCAAATC
65 AAATAATGTATTGTCAAATC
* *
37016441 AACACATTATTTGATAAAAATTGTAATATAATATAAAATTGTTTATTTAAATATTTAAATTTAGT
1 AACACATTATTTGATAAAAATTGTAATATAATA-ATAATTTTTTATTTAAATATTTAAATTTAGT
37016506 AAATAATGTATTGTCAAATC
65 AAATAATGTATTGTCAAATC
* * *
37016526 AACACATTATTTGATAAAAATTGTAATATAATATAAAATTATTGATTTAAATATTTAAATTTAGT
1 AACACATTATTTGATAAAAATTGTAATATAATA-ATAATTTTTTATTTAAATATTTAAATTTAGT
37016591 AAATAATGTATTGTCAAATC
65 AAATAATGTATTGTCAAATC
*
37016611 AACACATTATTTAATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTTAAATTTAG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAATATTTAAATTTAG
*
37016676 TAAATAATGTATTATCAAATC
64 TAAATAATGTATTGTCAAATC
* * * *
37016697 AACATATTATTTGATAAAAATTATAATATAATAATAATTGTTGATTTAAATATTTAAATTTAGTA
1 AACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTA
*
37016762 AATAATATATTGTCAAATC
66 AATAATGTATTGTCAAATC
* *
37016781 AACACATTATTTGATAAAAATTTTAATATAATAATAATTATTTATTTAAATATTTAAATTTAGTA
1 AACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTA
*
37016846 AATAATGTATTGTCAAATT
66 AATAATGTATTGTCAAATC
* *
37016865 AACACATTATTTGATAAAAATTTTAATATAATAATAATTATTTATTTAAATATTTAAATTTAGTA
1 AACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTA
*
37016930 AATAATGTATTGTCAAATT
66 AATAATGTATTGTCAAATC
*
37016949 AACACATTATTTGATAAAAATTGTAATATAATAATAATTATTTATTTAAATATTTAAATTTAGTA
1 AACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTA
*
37017014 AATAATGTGTTGTCAAATC
66 AATAATGTATTGTCAAATC
37017033 AACACATTATTTGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATTTAAATTTAG
1 AACACATTATTTGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAATATTTAAATTTAG
*
37017098 TAAATAATATATTGTCAAATC
64 TAAATAATGTATTGTCAAATC
**
37017119 AACACATTATTTGATAAAAATTGTAATATAATAATAATCTTTTTTATTTAAATATAAAAATTT-G
1 AACACATTATTTGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAATATTTAAATTTAG
* *
37017183 ATAAATAATGTCTTGTCAAATG
64 -TAAATAATGTATTGTCAAATC
* * * *
37017205 AGCACAATATTTTATATAAATTGTAATATAATAATAATTTTTTTATTTAAATAATGTTAAATT
1 AACACATTATTTGATAAAAATTGTAATATAATAATAA-TTTTTTATTTAAAT-AT-TTAAATT
37017268 AATTTTAAAT
Statistics
Matches: 858, Mismatches: 45, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
84 326 0.38
85 277 0.32
86 249 0.29
87 6 0.01
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (84 bp):
AACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTA
AATAATGTATTGTCAAATC
Found at i:37017393 original size:11 final size:12
Alignment explanation
Indices: 37017370--37017419 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 12
37017360 TAAACATGTT
37017370 AATTAATTTTCA
1 AATTAATTTTCA
*
37017382 AATTAATTTCAACTTA
1 AATTAATTT----TCA
37017398 AATTAATTTTCA
1 AATTAATTTTCA
37017410 AATTAATTTT
1 AATTAATTTT
37017420 TACACAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 21 0.66
16 11 0.34
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAATTTTCA
Found at i:37017417 original size:16 final size:16
Alignment explanation
Indices: 37017381--37017415 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
37017371 ATTAATTTTC
*
37017381 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
37017397 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
37017414 AA
1 AA
37017416 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:37017428 original size:28 final size:28
Alignment explanation
Indices: 37017370--37017428 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
37017360 TAAACATGTT
**
37017370 AATTAATTTTCAAATTAATTTCAACTTA
1 AATTAATTTTCAAATTAATTTCAACACA
**
37017398 AATTAATTTTCAAATTAATTTTTACACA
1 AATTAATTTTCAAATTAATTTCAACACA
37017426 AAT
1 AAT
37017429 ATTCTTCATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTAATTTTCAAATTAATTTCAACACA
Found at i:37019548 original size:59 final size:60
Alignment explanation
Indices: 37019470--37019601 Score: 167
Period size: 59 Copynumber: 2.2 Consensus size: 60
37019460 GGGTGTCGGT
* ** *
37019470 CATTGCATGACCAATACCAAAAAAA-TTTCAAATTTTTTTATCTGAGAACAGGGGTCCAC
1 CATTGCATGACCAACACCAAAAAAATTTTCAAAAATTTTTATCTGAGAAAAGGGGTCCAC
* * *
37019529 CATTGCATGGCCAACACCAAAAAAATTTTGAAAAATTTTTATCTGAGAAAAGGGGGTGTCGAC
1 CATTGCATGACCAACACCAAAAAAATTTTCAAAAATTTTTATCTGAGAAAA--GGG-GTCCAC
37019592 CATTGCATGA
1 CATTGCATGA
37019602 AAAAAGGGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 23 0.38
60 21 0.34
62 3 0.05
63 14 0.23
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (60 bp):
CATTGCATGACCAACACCAAAAAAATTTTCAAAAATTTTTATCTGAGAAAAGGGGTCCAC
Found at i:37019759 original size:61 final size:60
Alignment explanation
Indices: 37019601--37019992 Score: 351
Period size: 59 Copynumber: 6.6 Consensus size: 60
37019591 CCATTGCATG
* **
37019601 AAAAAA-GGGTGTCGACCATTGCATGGCCAACACTAAAAAGTTTTGAAA-TTTTTATCTGA
1 AAAAAAGGGGTGTCGGCCATTGCATGGCCAACACTAAAAAAATTT-AAATTTTTTATCTGA
* * * * *
37019660 AAAAGA-GGGTGTCGGCTATGGCATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGA
1 AAAAAAGGGGTGTCGGCCATTGCATGGCCAACACTAAAAAAATTT-AAA-TTTTTTATCTGA
* * *
37019721 GAACAAGGAGTGTCGGCCATTGCATGGCCAACA-TAAAAAAATTTGAAATTTTTTTATCTGA
1 AAAAAAGGGGTGTCGGCCATTGCATGGCCAACACTAAAAAAATTT-AAA-TTTTTTATCTGA
* * * ** *
37019782 GAAAAGGGGGTGTCAGCCATTGCATGGCCAACAC-CCAAAAA-TTAGATTTTTTATCTGATA
1 AAAAAAGGGGTGTCGGCCATTGCATGGCCAACACTAAAAAAATTTAAATTTTTTATCTG--A
* * * *
37019842 AAAAAAGGGGTGTCGGTCATTGCATGG-CAACACT--AAAAATTTGATTTTTTTATC-AA
1 AAAAAAGGGGTGTCGGCCATTGCATGGCCAACACTAAAAAAATTTAAATTTTTTATCTGA
* * * *
37019898 ATTAAAAAGGAGTGTTGGCCA-TGCAATAGCCAACAC-AAAAAAA-TTATATTTTTTATCTGA
1 A--AAAAAGGGGTGTCGGCCATTGC-ATGGCCAACACTAAAAAAATTTAAATTTTTTATCTGA
* *
37019958 CAAAAAAGGGGTGTCGACCATTGCATGGCTAACAC
1 -AAAAAAGGGGTGTCGGCCATTGCATGGCCAACAC
37019993 CCAAAAATTT
Statistics
Matches: 270, Mismatches: 46, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
56 2 0.01
57 3 0.01
58 34 0.13
59 99 0.37
60 35 0.13
61 75 0.28
62 22 0.08
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (60 bp):
AAAAAAGGGGTGTCGGCCATTGCATGGCCAACACTAAAAAAATTTAAATTTTTTATCTGA
Found at i:37019794 original size:207 final size:205
Alignment explanation
Indices: 37019401--37019807 Score: 545
Period size: 207 Copynumber: 2.0 Consensus size: 205
37019391 AGGAGAAGTT
* * *
37019401 GGTGTCGGCCATTACATGGCCAACACAAAAAAAATTTAATTTTTTACCAAATAAAAAGGGGGTGT
1 GGTGTCGACCATTACATGGCCAACACAAAAAAAATTTAAATTTTTACC--ATAAAAAGAGGGTGT
* * * *
37019466 CGGTCATTGCATGACCAATACCAAAAAAATTTCAAATTTTTTTATCTGAGAACAGGGGTCCACCA
64 CGGTCATGGCATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGAGAACAGGGGTCCACCA
37019531 TTGCATGGCCAACACCAAAAAAATTTTGAAAAATTTTTATCTGAGAAAAGGGGGTGTC-GACCAT
129 TTGCATGGCCAACACCAAAAAAATTTTGAAAAATTTTTATCTGAGAAAAGGGGGTGTCAG-CCAT
37019595 TGCATGAAAAAAG
193 TGCATGAAAAAAG
* * ** *
37019608 GGTGTCGACCATTGCATGGCCAACACTAAAAAGTTTTGAAATTTTTATC-TGAAAAAGAGGGTGT
1 GGTGTCGACCATTACATGGCCAACACAAAAAAAATTT-AAATTTTTACCAT-AAAAAGAGGGTGT
*
37019672 CGG-CTATGGCATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGAGAACAAGGAGTGTCG
64 CGGTC-ATGGCATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGAGAAC-AGG-G-GTCC
* * **
37019736 GCCATTGCATGGCCAACA-TAAAAAAA-TTTGAAATTTTTTTATCTGAGAAAAGGGGGTGTCAGC
125 ACCATTGCATGGCCAACACCAAAAAAATTTTGAAAAATTTTTATCTGAGAAAAGGGGGTGTCAGC
37019799 CATTGCATG
190 CATTGCATG
37019808 GCCAACACCC
Statistics
Matches: 176, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
205 2 0.01
206 59 0.34
207 77 0.44
208 18 0.10
209 20 0.11
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (205 bp):
GGTGTCGACCATTACATGGCCAACACAAAAAAAATTTAAATTTTTACCATAAAAAGAGGGTGTCG
GTCATGGCATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGAGAACAGGGGTCCACCATT
GCATGGCCAACACCAAAAAAATTTTGAAAAATTTTTATCTGAGAAAAGGGGGTGTCAGCCATTGC
ATGAAAAAAG
Found at i:37019833 original size:121 final size:118
Alignment explanation
Indices: 37019601--37019992 Score: 392
Period size: 121 Copynumber: 3.3 Consensus size: 118
37019591 CCATTGCATG
**
37019601 AAAAAA-GGGTGTCGACCATTGCATGGCCAACACTAAAAAGTTTTGAAA--TTTTTATCTGAAAA
1 AAAAAAGGGGTGTCGACCATTGCATGGCCAACACTAAAAAAATTTGAAATTTTTTTATCTGAAAA
* * * *
37019663 AGAGGGTGTCGGCTATGGCATGACCAACACAAAAAAAATTTAAAATTTTTTTATCTGA
66 AGGGGGTGTCGGCCATTGCATGGCCAACAC-AAAAAAA-TT--AA-TTTTTTATCTGA
* * * *
37019721 GAACAAGGAGTGTCGGCCATTGCATGGCCAACA-TAAAAAAATTTGAAATTTTTTTATCTGAGAA
1 AAAAAAGGGGTGTCGACCATTGCATGGCCAACACTAAAAAAATTTGAAATTTTTTTATCTGA-AA
* **
37019785 AAGGGGGTGTCAGCCATTGCATGGCCAACACCCAAAAATTAGATTTTTTATCTGATA
65 AAGGGGGTGTCGGCCATTGCATGGCCAACACAAAAAAATTA-ATTTTTTATCTG--A
** *
37019842 AAAAAAGGGGTGTCGGTCATTGCATGG-CAACACT--AAAAATTTG--ATTTTTTTATCAAATTA
1 AAAAAAGGGGTGTCGACCATTGCATGGCCAACACTAAAAAAATTTGAAATTTTTTTATC---TGA
* * *
37019902 AAAA-GGAGTGTTGGCCA-TGCAATAGCCAACACAAAAAAATTATATTTTTTATCTGA
63 AAAAGGGGGTGTCGGCCATTGC-ATGGCCAACACAAAAAAATTA-ATTTTTTATCTGA
*
37019958 CAAAAAAGGGGTGTCGACCATTGCATGGCTAACAC
1 -AAAAAAGGGGTGTCGACCATTGCATGGCCAACAC
37019993 CCAAAAATTT
Statistics
Matches: 230, Mismatches: 28, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
116 1 0.00
117 39 0.17
118 45 0.20
119 25 0.11
120 25 0.11
121 51 0.22
122 16 0.07
123 28 0.12
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (118 bp):
AAAAAAGGGGTGTCGACCATTGCATGGCCAACACTAAAAAAATTTGAAATTTTTTTATCTGAAAA
AGGGGGTGTCGGCCATTGCATGGCCAACACAAAAAAATTAATTTTTTATCTGA
Found at i:37037566 original size:21 final size:20
Alignment explanation
Indices: 37037540--37037589 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
37037530 CTCGTAGTAC
* *
37037540 CGGTAGAAGGATATGTTGTAT
1 CGGTAGAAGCAT-GGTTGTAT
*
37037561 CGGTAGATTGCATGGTTGTAT
1 CGGTAGA-AGCATGGTTGTAT
37037582 CGGTAGAA
1 CGGTAGAA
37037590 TTTTCCCAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (20 bp):
CGGTAGAAGCATGGTTGTAT
Found at i:37042609 original size:27 final size:27
Alignment explanation
Indices: 37042579--37042630 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
37042569 TATGGTGGAG
37042579 GGATATCAAATGGCAACACCAAAGGAA
1 GGATATCAAATGGCAACACCAAAGGAA
* *
37042606 GGATATCAAATGGCGACGCCAAAGG
1 GGATATCAAATGGCAACACCAAAGG
37042631 GTTTTTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (27 bp):
GGATATCAAATGGCAACACCAAAGGAA
Found at i:37042786 original size:25 final size:23
Alignment explanation
Indices: 37042756--37042812 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
37042746 TTATTTTAAG
*
37042756 TTATTTGTTTTGTTTAATTTAATTT
1 TTATTTGATTTG-TT-ATTTAATTT
37042781 TTATTTGATTTGTTATTTAATTT
1 TTATTTGATTTGTTATTTAATTT
37042804 TT-TTT-ATTT
1 TTATTTGATTT
37042813 AGTAGAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 11 0.35
24 2 0.06
25 11 0.35
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (23 bp):
TTATTTGATTTGTTATTTAATTT
Found at i:37047091 original size:358 final size:355
Alignment explanation
Indices: 37046432--37047128 Score: 1006
Period size: 352 Copynumber: 2.0 Consensus size: 355
37046422 TTAACATTTA
* * *
37046432 AGCTAAATAATTTACCATTAAACTTCAAAAACAAGTCATACTCATCAATGGCATAATCGAAAATA
1 AGCTAAATAATCTACCATTAAACTTCAAAAACAACTCATAC-CATCAATGACATAATCGAAAATA
** * * *
37046497 TTTAACAATTTTACGAAATAATCCCTAGGTTAGCTAGATCAAGCTCCCGGGATTACATAAACATA
65 TTTAACAATTTTACGAAATAATCCCTAAATTAGCTAGATCAAACTCCCGAGATTACAAAAACATA
* ** * ** * *
37046562 AAAATTATAAAAAACAAGCCAAAAAGGACTTACAAATTGGCAAGAATAGCTTGCCGTGAGCTAAA
130 AAAATTATAAAAAACAAGCAAAAAACAACTTAAAAATAAGCAAGAATAACTTGCCGTAAGCTAAA
** *
37046627 CCCTTTCCCTTTTTTTTCTTCGATTCACGCTGGAGAAGATGAAAGGAAATTTTTCTTTCTTTCTT
195 CCCTTTCCCTTTTTTTTCTTCGATTCACGCTGGAGAAGATGAAAGGAAATTTAACTTTCTTCCTT
*
37046692 TCTTTCTCTTCATGTTATATTATACAATAAACATATATAATATAATAATTATAAAATAAAATAAT
260 TCTTTCGCTTCATGTTATATTATACAATAAACATATATAATATAATAATTATAAAATAAAATAAT
37046757 CATATCTCAACTAATAATTATAGTCTTGCTT
325 CATATCTCAACTAATAATTATAGTCTTGCTT
* *
37046788 AGCTTAATAATCTACCATTAAACTTCAAAAACACCTCATA-C-TC-ATGACATAATCGAAAATAT
1 AGCTAAATAATCTACCATTAAACTTCAAAAACAACTCATACCATCAATGACATAATCGAAAATAT
* * * * **
37046850 TTAACAGTTTTATGAAATAATCCCTAAATTAGTTGGATCAAACTCTTGAGATTACAAAAACATAA
66 TTAACAATTTTACGAAATAATCCCTAAATTAGCTAGATCAAACTCCCGAGATTACAAAAACATAA
* *
37046915 AAATTATAAGAAAC-AGACAAAAAAAACAACTTAAAAATAAGCAAGAATAACTTGTCGTAAGCTA
131 AAATTATAAAAAACAAG-C--AAAAAACAACTTAAAAATAAGCAAGAATAACTTGCCGTAAGCTA
* *
37046979 AACCGTTTCTCCCTTTTTTTTTCTTCGGTTCACGCTGGAGAAGATGAAAGGAAATTTAACTTTCC
193 AACC-CTT-TCCC-TTTTTTTTCTTCGATTCACGCTGGAGAAGATGAAAGGAAATTTAACTTT-C
37047044 TTCCTTTCTTTCGCTTCATGTTATATTATACAATAAACATATATAATATAATAATTATAAAATAA
254 TTCCTTTCTTTCGCTTCATGTTATATTATACAATAAACATATATAATATAATAATTATAAAATAA
37047109 AATAATCATATCTCAACTAA
319 AATAATCATATCTCAACTAA
37047129 AAACCATTCC
Statistics
Matches: 302, Mismatches: 32, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
351 2 0.01
352 86 0.28
353 2 0.01
354 40 0.13
355 2 0.01
356 40 0.13
357 46 0.15
358 84 0.28
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (355 bp):
AGCTAAATAATCTACCATTAAACTTCAAAAACAACTCATACCATCAATGACATAATCGAAAATAT
TTAACAATTTTACGAAATAATCCCTAAATTAGCTAGATCAAACTCCCGAGATTACAAAAACATAA
AAATTATAAAAAACAAGCAAAAAACAACTTAAAAATAAGCAAGAATAACTTGCCGTAAGCTAAAC
CCTTTCCCTTTTTTTTCTTCGATTCACGCTGGAGAAGATGAAAGGAAATTTAACTTTCTTCCTTT
CTTTCGCTTCATGTTATATTATACAATAAACATATATAATATAATAATTATAAAATAAAATAATC
ATATCTCAACTAATAATTATAGTCTTGCTT
Found at i:37049836 original size:30 final size:29
Alignment explanation
Indices: 37049802--37049926 Score: 121
Period size: 30 Copynumber: 4.2 Consensus size: 29
37049792 GTAAATTTTG
37049802 AATTTTTGGAAAATGTAGGGGTCAAAACAT
1 AATTTTT-GAAAATGTAGGGGTCAAAACAT
*
37049832 AATTTTTGAAAA-GTTTGGGAGTCAAAACAT
1 AATTTTTGAAAATG-TAGGG-GTCAAAACAT
* * *
37049862 AATTTTTGGATA-GTTTGTGGGTCAAAACAT
1 AATTTTTGAAAATG-TAG-GGGTCAAAACAT
* *
37049892 AATTTTTGAAAAGTTTAGGAGTCAAAA-AT
1 AATTTTTGAAAA-TGTAGGGGTCAAAACAT
37049921 AATTTT
1 AATTTT
37049927 AAAATAAAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.01
29 17 0.21
30 60 0.73
31 4 0.05
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (29 bp):
AATTTTTGAAAATGTAGGGGTCAAAACAT
Found at i:37049866 original size:60 final size:59
Alignment explanation
Indices: 37049802--37049926 Score: 189
Period size: 60 Copynumber: 2.1 Consensus size: 59
37049792 GTAAATTTTG
*
37049802 AATTTTTGGAAAATGTAG-GGGTCAAAACATAATTTTTGAAAAGTTTGGGAGTCAAAACAT
1 AATTTTTGGAAAAT-TAGTGGGTCAAAACATAATTTTTGAAAAGTTTAGGAGTCAAAA-AT
* * *
37049862 AATTTTTGGATAGTTTGTGGGTCAAAACATAATTTTTGAAAAGTTTAGGAGTCAAAAAT
1 AATTTTTGGAAAATTAGTGGGTCAAAACATAATTTTTGAAAAGTTTAGGAGTCAAAAAT
37049921 AATTTT
1 AATTTT
37049927 AAAATAAAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
59 10 0.17
60 50 0.83
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (59 bp):
AATTTTTGGAAAATTAGTGGGTCAAAACATAATTTTTGAAAAGTTTAGGAGTCAAAAAT
Found at i:37051857 original size:39 final size:39
Alignment explanation
Indices: 37051774--37051984 Score: 173
Period size: 40 Copynumber: 5.4 Consensus size: 39
37051764 ATAACTTTAT
* *
37051774 GGGTAAAAGATTGGATGGCCTTCAATCTGCTCTCTGGTTA
1 GGGTAAAAGATTGGATGGCCTTCAATCTGC-CCCTGGTCA
* * * *
37051814 GGGTAAAAGATTGAATTG-CTTCAATCTGCCCCATAGTCG
1 GGGTAAAAGATTGGATGGCCTTCAATCTGCCCC-TGGTCA
* * *
37051853 GGGTAAAAGATTGGATGGTCTTCAATCTACCTTCT--T-A
1 GGGTAAAAGATTGGATGGCCTTCAATCTGCC-CCTGGTCA
*
37051890 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTC-
1 GGGTAAAAGATTGGATGGCCTTCAATCTGCCCC-TGGTCA
* * ** * *
37051928 GAGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGATTA
1 G-GGTAAAAGATTGGATGGCCTTCAATCTGCCC-CTGGTCA
*
37051969 AGGTAAAAGATTGGAT
1 GGGTAAAAGATTGGAT
37051985 TGTTGTAACT
Statistics
Matches: 137, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
35 1 0.01
36 12 0.09
37 17 0.12
38 5 0.04
39 43 0.31
40 57 0.42
41 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGGCCTTCAATCTGCCCCTGGTCA
Found at i:37051914 original size:76 final size:78
Alignment explanation
Indices: 37051774--37051986 Score: 286
Period size: 76 Copynumber: 2.7 Consensus size: 78
37051764 ATAACTTTAT
* * * *
37051774 GGGTAAAAGATTGGATGGCCTTCAATCTGCTCTCTGGTTAGGGTAAAAGATTGAATTGCTTCAAT
1 GGGTAAAAGATTGGATGGTCTTCAATCTAC-CTCTGATTAGGGTAAAAGATTGGATTGCTTCAAT
37051839 CTGCCCCATAGTCG
65 CTGCCCCATAGTCG
*
37051853 GGGTAAAAGATTGGATGGTCTTCAATCTACCT-T-CTTAGGGTAAAAGATTGGATTGCTTCAATC
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCTCTGATTAGGGTAAAAGATTGGATTGCTTCAATC
*
37051916 TGCCCCATGGTCG
66 TGCCCCATAGTCG
* * * * * *
37051929 AGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGGATTG
1 GGGTAAAAGATTGGATGGTCTTCAATCT-ACCTCTGATTAGGGTAAAAGATTGGATTG
37051987 TTGTAACTTC
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
76 64 0.54
77 4 0.03
78 3 0.03
79 48 0.40
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (78 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTACCTCTGATTAGGGTAAAAGATTGGATTGCTTCAATC
TGCCCCATAGTCG
Found at i:37051952 original size:40 final size:37
Alignment explanation
Indices: 37051774--37051960 Score: 141
Period size: 39 Copynumber: 4.8 Consensus size: 37
37051764 ATAACTTTAT
* * *
37051774 GGGTAAAAGATTGGATGGCCTTCAATCTGCTCTC-TGGTTA
1 GGGTAAAAGATTGGAT-GTCTTCAATCTGC-CCCAT-G-TC
*
37051814 GGGTAAAAGATTGAAT-TGCTTCAATCTGCCCCATAGTC
1 GGGTAAAAGATTGGATGT-CTTCAATCTGCCCCAT-GTC
* * *
37051852 GGGGTAAAAGATTGGATGGTCTTCAATCTACCTTC-T-TA
1 -GGGTAAAAGATTGGAT-GTCTTCAATCTGCC-CCATGTC
37051890 GGGTAAAAGATTGGAT-TGCTTCAATCTGCCCCATGGTC
1 GGGTAAAAGATTGGATGT-CTTCAATCTGCCCCAT-GTC
* *
37051928 GAGGTAAGAGATCGGATGATCTTCAATCTGCCC
1 G-GGTAAAAGATTGGATG-TCTTCAATCTGCCC
37051961 TCTGATTAAG
Statistics
Matches: 120, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
35 2 0.02
36 12 0.10
37 16 0.13
38 6 0.05
39 41 0.34
40 40 0.33
41 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (37 bp):
GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGTC
Found at i:37060360 original size:20 final size:20
Alignment explanation
Indices: 37060323--37060360 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37060313 CATTATTAAG
*
37060323 TTTAATTAACCATTTTTAGC
1 TTTAATTAACCATATTTAGC
37060343 TTTAATTAAACC-TATTTA
1 TTTAATT-AACCATATTTA
37060361 TAACTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAATTAACCATATTTAGC
Found at i:37065755 original size:21 final size:21
Alignment explanation
Indices: 37065731--37065770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37065721 GTACTTGTTC
37065731 TAATAATACCGATACAAGTAT
1 TAATAATACCGATACAAGTAT
**
37065752 TAATTCTACCGATACAAGT
1 TAATAATACCGATACAAGT
37065771 CATGCAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (21 bp):
TAATAATACCGATACAAGTAT
Found at i:37079859 original size:30 final size:29
Alignment explanation
Indices: 37079823--37079944 Score: 122
Period size: 30 Copynumber: 4.2 Consensus size: 29
37079813 GGAAAATTTG
37079823 AATTTTTGGAAAATTTAGGGGTCAAAACAT
1 AATTTTTGGAAAATTT-GGGGTCAAAACAT
* * * * *
37079853 ATTTTTTAGAAAGTTTAGGGGTTAAACCAT
1 AATTTTTGGAAAATTT-GGGGTCAAAACAT
* *
37079883 AATTTTTGGATAGTTTGGGGTC-AAA-AT
1 AATTTTTGGAAAATTTGGGGTCAAAACAT
* * *
37079910 AATTTTTGGACAACTTGGGGTCAAAAAAT
1 AATTTTTGGAAAATTTGGGGTCAAAACAT
37079939 AATTTT
1 AATTTT
37079945 AAAATAAAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
27 21 0.27
28 5 0.06
29 13 0.17
30 38 0.49
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (29 bp):
AATTTTTGGAAAATTTGGGGTCAAAACAT
Found at i:37079879 original size:29 final size:29
Alignment explanation
Indices: 37079793--37079944 Score: 116
Period size: 30 Copynumber: 5.2 Consensus size: 29
37079783 ATCAAATTTG
* **
37079793 AATTTTTGGAAAGTTT-GGAGGGAAAATTT
1 AATTTTTGGAAAGTTTAGG-GGTAAAACAT
*
37079822 GAATTTTTGGAAAATTTAGGGGTCAAAACAT
1 -AATTTTTGGAAAGTTTAGGGGT-AAAACAT
* * *
37079853 ATTTTTTAGAAAGTTTAGGGGTTAAACCAT
1 AATTTTTGGAAAGTTTAGGGG-TAAAACAT
* *
37079883 AATTTTTGGATAGTTT-GGGGTCAAA-AT
1 AATTTTTGGAAAGTTTAGGGGTAAAACAT
* *
37079910 AATTTTTGGACAA-CTT-GGGGTCAAAAAAT
1 AATTTTTGGA-AAGTTTAGGGGT-AAAACAT
37079939 AATTTT
1 AATTTT
37079945 AAAATAAAGC
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
27 19 0.19
28 7 0.07
29 12 0.12
30 54 0.54
31 8 0.08
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTAGGGGTAAAACAT
Found at i:37081175 original size:8 final size:9
Alignment explanation
Indices: 37081161--37081197 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
37081151 GATAATAAAG
37081161 TTTATTTTA
1 TTTATTTTA
37081170 -TTATTTTA
1 TTTATTTTA
37081178 TTTA-TTTA
1 TTTATTTTA
37081186 TTTA-TTTA
1 TTTATTTTA
37081194 TTTA
1 TTTA
37081198 CATTTACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 24 0.89
9 3 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:37081465 original size:22 final size:23
Alignment explanation
Indices: 37081424--37081485 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
37081414 GCAATCTGAG
*
37081424 GAAAAATAAAAG-AAACAGAATT
1 GAAAAATAAAAGAAAATAGAATT
37081446 -AAAAATAAAAGAAAATAGAATT
1 GAAAAATAAAAGAAAATAGAATT
* *
37081468 GAAAGA-AATAGAAAATAG
1 GAAAAATAAAAGAAAATAG
37081486 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.31
22 20 0.57
23 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.15, T:0.15
Consensus pattern (23 bp):
GAAAAATAAAAGAAAATAGAATT
Found at i:37083029 original size:104 final size:103
Alignment explanation
Indices: 37082905--37083099 Score: 248
Period size: 104 Copynumber: 1.9 Consensus size: 103
37082895 TTTTATTTTG
* *
37082905 TCAATTTTTTCTTTTTTTTTTCTT-TAAGAATACATTAGACCTTTTGACACGAAATGAAATGACA
1 TCAATTTTTTCTTCTCTTTTTCTTGTAA-AATACATTAGACCTTTTGACACGAAATGAAATGACA
* * *
37082969 CCCAAGCACTCCATCTCGGTTACTCAGCCCAACATGCTC
65 ACCAAGCACTCCACCTCGATTACTCAGCCCAACATGCTC
* *** * * *
37083008 TCAATTTTTTTCTTCTCTTTTTTTTGTAAAATGTGTTAGCCCTTTTGACGCGAAGTGAAATGACA
1 TCAA-TTTTTTCTTCTCTTTTTCTTGTAAAATACATTAGACCTTTTGACACGAAATGAAATGACA
*
37083073 ACCAAGCACTCCACCTCGATTATTCAG
65 ACCAAGCACTCCACCTCGATTACTCAG
37083100 TCTAACACAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
103 4 0.05
104 70 0.91
105 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (103 bp):
TCAATTTTTTCTTCTCTTTTTCTTGTAAAATACATTAGACCTTTTGACACGAAATGAAATGACAA
CCAAGCACTCCACCTCGATTACTCAGCCCAACATGCTC
Found at i:37083118 original size:104 final size:104
Alignment explanation
Indices: 37082939--37083136 Score: 238
Period size: 104 Copynumber: 1.9 Consensus size: 104
37082929 TAAGAATACA
* * * *
37082939 TTAGACCTTTTGACACGAAATGAAATGACACCCAAGCACTCCATCTCGGTTACTCAGCCCAACAT
1 TTAGACCTTTTGACACGAAATGAAATGACAACCAAGCACTCCACCTCGATTACTCAGCCCAACAC
* * *
37083004 GCTCTCAATTTTTTTCTTCTCT-TTTTTTTGTAAAATGTG
66 ACTCTCAATTTATTTATT-TCTATTTTTTTGTAAAATGTG
* * * * * *
37083043 TTAGCCCTTTTGACGCGAAGTGAAATGACAACCAAGCACTCCACCTCGATTATTCAGTCTAACAC
1 TTAGACCTTTTGACACGAAATGAAATGACAACCAAGCACTCCACCTCGATTACTCAGCCCAACAC
*
37083108 ATTC-CGAATTTATTTATTTCTATTTTTTT
66 ACTCTC-AATTTATTTATTTCTATTTTTTT
37083137 CGAGGTTACA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
103 4 0.05
104 74 0.95
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (104 bp):
TTAGACCTTTTGACACGAAATGAAATGACAACCAAGCACTCCACCTCGATTACTCAGCCCAACAC
ACTCTCAATTTATTTATTTCTATTTTTTTGTAAAATGTG
Found at i:37083549 original size:38 final size:38
Alignment explanation
Indices: 37083498--37083574 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
37083488 TAGAAATAAC
37083498 TCATGAGCATGAAATGGGACAAAATATACTTAAAAAAA
1 TCATGAGCATGAAATGGGACAAAATATACTTAAAAAAA
37083536 TCATGAGCATGAAATGGGACAAAATATACTTAAAAAAA
1 TCATGAGCATGAAATGGGACAAAATATACTTAAAAAAA
37083574 T
1 T
37083575 AAAACAGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (38 bp):
TCATGAGCATGAAATGGGACAAAATATACTTAAAAAAA
Found at i:37088604 original size:95 final size:95
Alignment explanation
Indices: 37088441--37088629 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 95
37088431 TCATATTCGG
37088441 GTTTAACCGTCTTTGTGCTTCACACCTCGATTTTGTGTTTTCCTCCAAAAAGATCTTATGAGTAC
1 GTTTAACCGTCTTTGTGCTTCACACCTCGATTTTGTGTTTTCCTCCAAAAAGATCTTATGAGTAC
37088506 ACGTCAAAGGACTTAACCCTTTTAAATCGT
66 ACGTCAAAGGACTTAACCCTTTTAAATCGT
**
37088536 GTTTAACCGTCTTTGTGCTTTTCACCTCGATTTTGTGTTTTCCTCCAAAAAGATCTTATGAGTAC
1 GTTTAACCGTCTTTGTGCTTCACACCTCGATTTTGTGTTTTCCTCCAAAAAGATCTTATGAGTAC
37088601 ACGTCAAAGGACTTAACCCTTTTAAATCG
66 ACGTCAAAGGACTTAACCCTTTTAAATCG
37088630 GCAATGGTCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (95 bp):
GTTTAACCGTCTTTGTGCTTCACACCTCGATTTTGTGTTTTCCTCCAAAAAGATCTTATGAGTAC
ACGTCAAAGGACTTAACCCTTTTAAATCGT
Found at i:37094575 original size:10 final size:10
Alignment explanation
Indices: 37094546--37094581 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
37094536 TTCTTTTTCA
37094546 CTCAAATCTCT
1 CTCAAA-CTCT
37094557 CTC-AACTCT
1 CTCAAACTCT
37094566 CTCAAACTCT
1 CTCAAACTCT
37094576 CTCAAA
1 CTCAAA
37094582 TCCACTACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.29
10 14 0.58
11 3 0.12
ACGTcount: A:0.31, C:0.39, G:0.00, T:0.31
Consensus pattern (10 bp):
CTCAAACTCT
Found at i:37099576 original size:21 final size:21
Alignment explanation
Indices: 37099552--37099594 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
37099542 AAAATATTTT
37099552 ATAAATAAATAAACCCTAAAA
1 ATAAATAAATAAACCCTAAAA
37099573 ATAAATAAATAAACCCTAAAA
1 ATAAATAAATAAACCCTAAAA
37099594 A
1 A
37099595 CCTTAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAATAAATAAACCCTAAAA
Found at i:37108565 original size:13 final size:12
Alignment explanation
Indices: 37108547--37108576 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
37108537 ACAATATCAT
37108547 AATAATCCTAAA
1 AATAATCCTAAA
37108559 CAATAATCCTAAA
1 -AATAATCCTAAA
37108572 AATAA
1 AATAA
37108577 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAATCCTAAA
Found at i:37109452 original size:27 final size:29
Alignment explanation
Indices: 37109419--37109477 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 29
37109409 TTAAGTCCAG
*
37109419 TTAAATTTTA-AATTTT-AAAATCC-ATA
1 TTAAAATTTACAATTTTCAAAATCCAATA
37109445 TTAAAATTTACAATTTTCAAAATCCAATA
1 TTAAAATTTACAATTTTCAAAATCCAATA
37109474 TTAA
1 TTAA
37109478 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.31
27 6 0.21
28 7 0.24
29 7 0.24
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (29 bp):
TTAAAATTTACAATTTTCAAAATCCAATA
Found at i:37109479 original size:27 final size:25
Alignment explanation
Indices: 37109419--37109477 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
37109409 TTAAGTCCAG
37109419 TTAAATTTTAAATTTTAAAATCCATA
1 TTAAA-TTTAAATTTTAAAATCCATA
37109445 TTAAAATTTACAATTTTCAAAATCCAATA
1 TT-AAATTTA-AATTTT-AAAATCC-ATA
37109474 TTAA
1 TTAA
37109478 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 6 0.21
27 9 0.31
28 9 0.31
29 5 0.17
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (25 bp):
TTAAATTTAAATTTTAAAATCCATA
Found at i:37109684 original size:14 final size:15
Alignment explanation
Indices: 37109667--37109704 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
37109657 AATTCAATTG
37109667 AATAAATTA-TTAAA
1 AATAAATTATTTAAA
**
37109681 AATAAAAAATTTAAA
1 AATAAATTATTTAAA
37109696 AATAAATTA
1 AATAAATTA
37109705 AAAACCGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATTATTTAAA
Found at i:37111972 original size:19 final size:18
Alignment explanation
Indices: 37111948--37111995 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
37111938 AGAACAAACT
37111948 AAAGAGAAAATATCAATAC
1 AAAGAGAAAATAT-AATAC
** *
37111967 AAAGAGGTAATATAATAG
1 AAAGAGAAAATATAATAC
37111985 AAAGA-AAAATA
1 AAAGAGAAAATA
37111996 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
19 11 0.46
ACGTcount: A:0.65, C:0.04, G:0.15, T:0.17
Consensus pattern (18 bp):
AAAGAGAAAATATAATAC
Found at i:37113713 original size:43 final size:43
Alignment explanation
Indices: 37113650--37113737 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
37113640 ATCATGGAGA
*** *
37113650 ATAAATTTGATCGTCAATAAAAGGTTTTATCACTTTGAGCAAG
1 ATAAATTTGATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
*
37113693 ATAAATTTGATCGTCGATAAAAGGAACTATCACTTTAAGCAAG
1 ATAAATTTGATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
37113736 AT
1 AT
37113738 TGTGCTGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (43 bp):
ATAAATTTGATCGTCAATAAAAGGAACTATCACTTTAAGCAAG
Found at i:37117403 original size:24 final size:24
Alignment explanation
Indices: 37117375--37117425 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
37117365 AGTTTGACTC
* *
37117375 AAACAAATAAATAGAATTTAATTG
1 AAACAAATAAACAGAATTTAACTG
*
37117399 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAATTTAACTG
37117423 AAA
1 AAA
37117426 GATTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAATTTAACTG
Found at i:37119923 original size:47 final size:47
Alignment explanation
Indices: 37119871--37119983 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
37119861 ATCACAGTAA
* * *
37119871 TGCAGATAAACTGCCACTTAGCAATATTGTGAACAAGCCACCACTTT
1 TGCAGATAAACTGCCACTTAACAAAATTGTGAACAAACCACCACTTT
* * * * *
37119918 TGCAGATAAATTGACACTTAATAAAATTGTGGACAAATCACCACTTT
1 TGCAGATAAACTGCCACTTAACAAAATTGTGAACAAACCACCACTTT
*
37119965 CGCAGATAAACTGCCACTT
1 TGCAGATAAACTGCCACTT
37119984 CTTCCTCCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (47 bp):
TGCAGATAAACTGCCACTTAACAAAATTGTGAACAAACCACCACTTT
Found at i:37122263 original size:25 final size:25
Alignment explanation
Indices: 37122235--37122299 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
37122225 AAGAATAATT
37122235 CTCCTACGAGCCAAACAAAATATCG
1 CTCCTACGAGCCAAACAAAATATCG
** * *
37122260 CTCCTACGAGCCCGATAGAATATCG
1 CTCCTACGAGCCAAACAAAATATCG
* *
37122285 CTCTTATGAGCCAAA
1 CTCCTACGAGCCAAA
37122300 GTTTAGAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (25 bp):
CTCCTACGAGCCAAACAAAATATCG
Found at i:37123652 original size:19 final size:20
Alignment explanation
Indices: 37123628--37123667 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
37123618 ATGGCAAGTT
* *
37123628 AGGGGATTATG-GAGTGAAA
1 AGGGGATGATGAGAATGAAA
37123647 AGGGGATGATGAGAATGAAA
1 AGGGGATGATGAGAATGAAA
37123667 A
1 A
37123668 TAGGGCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.17
Consensus pattern (20 bp):
AGGGGATGATGAGAATGAAA
Found at i:37135346 original size:23 final size:23
Alignment explanation
Indices: 37135288--37135351 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
37135278 TGGCTAAAAC
37135288 TATCTACAAATCATATC-TCTAA
1 TATCTACAAATCATATCTTCTAA
*
37135310 GAT-TACAAGAATCATATCTTCTAA
1 TATCTAC-A-AATCATATCTTCTAA
*
37135334 TATCTACATATCATATCT
1 TATCTACAAATCATATCT
37135352 AAGATTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 3 0.09
22 3 0.09
23 18 0.51
24 8 0.23
25 3 0.09
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (23 bp):
TATCTACAAATCATATCTTCTAA
Found at i:37140530 original size:6 final size:7
Alignment explanation
Indices: 37140513--37140537 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37140503 TTTCAATATT
37140513 AAAAAAC
1 AAAAAAC
37140520 AAAAAAC
1 AAAAAAC
37140527 AAAAAAC
1 AAAAAAC
37140534 AAAA
1 AAAA
37140538 GTAGAGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:37141680 original size:27 final size:27
Alignment explanation
Indices: 37141650--37141742 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 27
37141640 TTAATATAAC
37141650 ATTTGGTATCTAAATTTTTTTTACTCA
1 ATTTGGTATCTAAATTTTTTTTACTCA
* * *
37141677 ATTTGATA-CTTAATTTGATTTTTTTTTCTTA
1 ATTTGGTATC-TAA----ATTTTTTTTACTCA
* *
37141708 ATTTGGTATCTAAACTTTTTTGACTCA
1 ATTTGGTATCTAAATTTTTTTTACTCA
37141735 ATTTGGTA
1 ATTTGGTA
37141743 ATTGAATTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
26 1 0.02
27 28 0.54
31 22 0.42
32 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (27 bp):
ATTTGGTATCTAAATTTTTTTTACTCA
Found at i:37141712 original size:58 final size:58
Alignment explanation
Indices: 37141650--37141800 Score: 169
Period size: 58 Copynumber: 2.6 Consensus size: 58
37141640 TTAATATAAC
* * * ** *
37141650 ATTTGGTATCTAAATTTTTTTTACTCAATTTGATACTT-AATTTGATTTTTTTTTCTTA
1 ATTTGGTATCTAAACTTTTTTGACTCAATTTGATAATTGAATTTGA-CATTTTTTCCTA
*
37141708 ATTTGGTATCTAAACTTTTTTGACTCAATTTGGTAATTGAATTTGACATTTTTTCCTA
1 ATTTGGTATCTAAACTTTTTTGACTCAATTTGATAATTGAATTTGACATTTTTTCCTA
* * *
37141766 ATTTGGCACCTAAACATTGTTTTAGATTCAATTTG
1 ATTTGGTATCTAAAC-TT-TTTT-GACTCAATTTG
37141801 GTACCTAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
58 56 0.71
59 9 0.11
60 4 0.05
61 10 0.13
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (58 bp):
ATTTGGTATCTAAACTTTTTTGACTCAATTTGATAATTGAATTTGACATTTTTTCCTA
Found at i:37142091 original size:31 final size:31
Alignment explanation
Indices: 37142033--37142091 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
37142023 AACTTTTAAA
* * * *
37142033 AAAAAAGTGTCAAGTTTAGGTATCAAATTAG
1 AAAAAAGTATCAAGTTCAAGTACCAAATTAG
37142064 AAAAAAGTATCAAGTTCAAGTACCAAAT
1 AAAAAAGTATCAAGTTCAAGTACCAAAT
37142092 GTTATATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.25
Consensus pattern (31 bp):
AAAAAAGTATCAAGTTCAAGTACCAAATTAG
Found at i:37147131 original size:17 final size:18
Alignment explanation
Indices: 37147105--37147141 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
37147095 ATATTTAAAA
*
37147105 TTTTATTTAAAAATA-TT
1 TTTTACTTAAAAATACTT
37147122 TTTTACTTAAAAATACTT
1 TTTTACTTAAAAATACTT
37147140 TT
1 TT
37147142 AAAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTACTTAAAAATACTT
Found at i:37152777 original size:19 final size:20
Alignment explanation
Indices: 37152734--37152783 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
37152724 TATAGCCAAT
37152734 GTATCGATACCAAAGGGTCAG
1 GTATCGATACCAAAGGG-CAG
* *
37152755 GTATTGATATCAAAGGG-AG
1 GTATCGATACCAAAGGGCAG
37152774 GTATCGATAC
1 GTATCGATAC
37152784 TAAAATAGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
21 15 0.60
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (20 bp):
GTATCGATACCAAAGGGCAG
Found at i:37156161 original size:21 final size:21
Alignment explanation
Indices: 37156135--37156194 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
37156125 AATAGTGCAG
37156135 ACTTCTATCGATACAAGTGAC
1 ACTTCTATCGATACAAGTGAC
* *
37156156 AGTTCTATCGATACAAATGAC
1 ACTTCTATCGATACAAGTGAC
* * *
37156177 TCTTCTACCGAAACAAGT
1 ACTTCTATCGATACAAGT
37156195 CTTACTTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (21 bp):
ACTTCTATCGATACAAGTGAC
Found at i:37159732 original size:109 final size:109
Alignment explanation
Indices: 37159459--37159724 Score: 365
Period size: 109 Copynumber: 2.4 Consensus size: 109
37159449 CGTAATCCTT
*
37159459 GTCAAT-TAATCTGACTAGTGTTAGGCACATAAATTGTCGGTTTAAACCGACTAGCGCAGGGCGC
1 GTCAATAT-ATCTGACTAGTGTTAGGCACACAAATTGTCGGTTT-AACCGACTAGCGCAGGGCGC
* * **
37159523 AACATCATTGGTTTATCCAACTAGAGCTAGGCTCGTCCTTTATATC
64 AACATCATCGGCTTATCCAACTAGAGCTAGGCTCACCCTTTATATC
* *
37159569 GTCAATATATCTGACTAGTGCTAGGCACACAAATTGTCGGTTTAACCGACTAGCGCGGGGCGCAA
1 GTCAATATATCTGACTAGTGTTAGGCACACAAATTGTCGGTTTAACCGACTAGCGCAGGGCGCAA
**
37159634 CATTGTCGGCTTATCCAACTAGAGC-AGGGCTCACCCTTTATATC
66 CATCATCGGCTTATCCAACTAGAGCTA-GGCTCACCCTTTATATC
* * * * *
37159678 GTCAGTATATCTGACTAGTGTTGGGCACACCATTTGTTGGTTTAACC
1 GTCAATATATCTGACTAGTGTTAGGCACACAAATTGTCGGTTTAACC
37159725 AAATAGCGTT
Statistics
Matches: 139, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
108 1 0.01
109 98 0.71
110 39 0.28
111 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (109 bp):
GTCAATATATCTGACTAGTGTTAGGCACACAAATTGTCGGTTTAACCGACTAGCGCAGGGCGCAA
CATCATCGGCTTATCCAACTAGAGCTAGGCTCACCCTTTATATC
Found at i:37159781 original size:109 final size:106
Alignment explanation
Indices: 37159459--37159786 Score: 325
Period size: 109 Copynumber: 3.0 Consensus size: 106
37159449 CGTAATCCTT
* * * * *
37159459 GTCAAT-TAATCTGACTAGTGTTAGGCACATAAATTGTCGGTTTAAACCGACTAGCGCAGGGCGC
1 GTCAATAT-ATCTGACTAGTGCTAGGCACACAAATTGTCGGTTT-AACCAAATAGCGCGGGGCGC
** *
37159523 AACATCATTGGTTTATCCAACTAGAGCTAGGCTCGTCCTTTATATC
64 AACATTGTTGG-TTATCCAACTAGAG-TAGGCTC-ACCTTTATATC
* *
37159569 GTCAATATATCTGACTAGTGCTAGGCACACAAATTGTCGGTTTAACCGACTAGCGCGGGGCGCAA
1 GTCAATATATCTGACTAGTGCTAGGCACACAAATTGTCGGTTTAACCAAATAGCGCGGGGCGCAA
* *
37159634 CATTGTCGGCTTATCCAACTAGAGCAGGGCTCACCCTTTATATC
66 CATTGTTGG-TTATCCAACTAGAGTA-GGCTCA-CCTTTATATC
* * * * * * ** * *
37159678 GTCAGTATATCTGACTAGTGTTGGGCACACCATTTGTTGGTTTAACCAAATAGCGTTGGGTGTAA
1 GTCAATATATCTGACTAGTGCTAGGCACACAAATTGTCGGTTTAACCAAATAGCGCGGGGCGCAA
* *
37159743 TATTTGTTGGTATATCCAACTAGAGTTGGACTCACCTTTTATAT
66 CA-TTGTTGGT-TATCCAACTAGAGTAGG-CTCACC-TTTATAT
37159787 TGTTGGTTTA
Statistics
Matches: 186, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
108 1 0.01
109 115 0.62
110 69 0.37
111 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (106 bp):
GTCAATATATCTGACTAGTGCTAGGCACACAAATTGTCGGTTTAACCAAATAGCGCGGGGCGCAA
CATTGTTGGTTATCCAACTAGAGTAGGCTCACCTTTATATC
Found at i:37161745 original size:86 final size:86
Alignment explanation
Indices: 37161594--37161823 Score: 318
Period size: 86 Copynumber: 2.7 Consensus size: 86
37161584 ATTACCATCA
* * * * * * * *
37161594 CGATGTTGCTCACACAAGCTATCAAGAGTCCGCAAGATATGCAAGATCTCAGCCATTGAAGGGTC
1 CGATGTTGCTCACACAAGCTGTCAAGAATCCGCTACATATGTAGGATCTCAGCCATCGAACGGTC
37161659 CATAAATGTAACACCCACTCT
66 CATAAATGTAACACCCACTCT
* *
37161680 CGATGCTGCTCACACAAGCTGTCAAGAATCCGCTACATATGTAGGATCTTAGCCATCGAACGGTC
1 CGATGTTGCTCACACAAGCTGTCAAGAATCCGCTACATATGTAGGATCTCAGCCATCGAACGGTC
* *
37161745 CGTAAATGTAATACCCACTCT
66 CATAAATGTAACACCCACTCT
* *
37161766 CGATGTTGCTCACACAAGCTGTCAAGAATCCG-TAACATATGTAGAATCTCAACCATCG
1 CGATGTTGCTCACACAAGCTGTCAAGAATCCGCT-ACATATGTAGGATCTCAGCCATCG
37161824 CGTCGATTCA
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 1 0.01
86 126 0.99
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (86 bp):
CGATGTTGCTCACACAAGCTGTCAAGAATCCGCTACATATGTAGGATCTCAGCCATCGAACGGTC
CATAAATGTAACACCCACTCT
Found at i:37165295 original size:23 final size:23
Alignment explanation
Indices: 37165264--37165310 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
37165254 CAACTCTATC
*
37165264 CGAACGCATTATGTTTCAAATAT
1 CGAACGCATTATGATTCAAATAT
*
37165287 CGAATGCATTATGATTCAAATAT
1 CGAACGCATTATGATTCAAATAT
37165310 C
1 C
37165311 AAACTCATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (23 bp):
CGAACGCATTATGATTCAAATAT
Found at i:37166883 original size:3 final size:3
Alignment explanation
Indices: 37166875--37166920 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
37166865 ATTTTCTCTT
37166875 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37166921 ATTGCACACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37169383 original size:42 final size:42
Alignment explanation
Indices: 37169336--37169420 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
37169326 AAATTTATTG
37169336 ATAACTTAGAAAGAAAGTTACAATCTCTGAAAATTCTTGAAT
1 ATAACTTAGAAAGAAAGTTACAATCTCTGAAAATTCTTGAAT
*
37169378 ATAACTTAGAAAGAAAGTTACAATCTTTGAAAATTCTTGAAT
1 ATAACTTAGAAAGAAAGTTACAATCTCTGAAAATTCTTGAAT
37169420 A
1 A
37169421 CAAAAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (42 bp):
ATAACTTAGAAAGAAAGTTACAATCTCTGAAAATTCTTGAAT
Found at i:37178187 original size:41 final size:41
Alignment explanation
Indices: 37178142--37178223 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
37178132 CTTAACTCGA
37178142 ACAATTTCACTAGATTCGACTTGACTCGAATTTCATTTCAC
1 ACAATTTCACTAGATTCGACTTGACTCGAATTTCATTTCAC
37178183 ACAATTTCACTAGATTCGACTTGACTCGAATTTCATTTCAC
1 ACAATTTCACTAGATTCGACTTGACTCGAATTTCATTTCAC
37178224 TCGACTCGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (41 bp):
ACAATTTCACTAGATTCGACTTGACTCGAATTTCATTTCAC
Found at i:37179505 original size:10 final size:10
Alignment explanation
Indices: 37179452--37179501 Score: 75
Period size: 10 Copynumber: 4.9 Consensus size: 10
37179442 GCTTATCATG
37179452 TTATTAATTA
1 TTATTAATTA
37179462 TTATTACATTA
1 TTATTA-ATTA
37179473 TTATTAATTA
1 TTATTAATTA
37179483 TTATTACATTA
1 TTATTA-ATTA
37179494 TTA-TAATT
1 TTATTAATT
37179502 TATTTTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.08
10 18 0.47
11 17 0.45
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATTAATTA
Found at i:37179505 original size:21 final size:21
Alignment explanation
Indices: 37179452--37179501 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
37179442 GCTTATCATG
37179452 TTATTAATTATTATTACATTA
1 TTATTAATTATTATTACATTA
37179473 TTATTAATTATTATTACATTA
1 TTATTAATTATTATTACATTA
37179494 TTA-TAATT
1 TTATTAATT
37179502 TATTTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATTAATTATTATTACATTA
Found at i:37181263 original size:21 final size:18
Alignment explanation
Indices: 37181218--37181254 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37181208 CTTTAAGGAT
* *
37181218 ATTGCTAAAAAAATGTTA
1 ATTGATAAAAAAATATTA
37181236 ATTGATAAAAAAATATTA
1 ATTGATAAAAAAATATTA
37181254 A
1 A
37181255 ATTATGATAT
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:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (18 bp):
ATTGATAAAAAAATATTA
Found at i:37182459 original size:52 final size:52
Alignment explanation
Indices: 37182393--37182521 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 52
37182383 ACCAAATTTG
* * *
37182393 AAAAAAAAAATTTGAGTGTTGGTCATTAAATGATCTA-CATCAACTTTTTAAAT
1 AAAAAAAAATTTTGA-TGCTGGTCATTAAATGAAC-AGCATCAACTTTTTAAAT
** * *
37182446 -AAAAAAAATTTTGATGCTGACCATTAAATGAACAGTATCAATTTTTTAAAT
1 AAAAAAAAATTTTGATGCTGGTCATTAAATGAACAGCATCAACTTTTTAAAT
37182497 AAAAAAAAATTTTGATGCTGGTCAT
1 AAAAAAAAATTTTGATGCTGGTCAT
37182522 GGTCGACACC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 29 0.45
52 35 0.54
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (52 bp):
AAAAAAAAATTTTGATGCTGGTCATTAAATGAACAGCATCAACTTTTTAAAT
Found at i:37182713 original size:17 final size:17
Alignment explanation
Indices: 37182691--37182737 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
37182681 TCAAGTAATA
37182691 ATTTATCTTTGAAAATC
1 ATTTATCTTTGAAAATC
37182708 ATTTATCCTTT---AATC
1 ATTTAT-CTTTGAAAATC
37182723 ATTTATCTTTGAAAA
1 ATTTATCTTTGAAAA
37182738 GACCATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
17 8 0.31
18 4 0.15
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (17 bp):
ATTTATCTTTGAAAATC
Found at i:37182892 original size:16 final size:15
Alignment explanation
Indices: 37182871--37182901 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
37182861 TTTCATCTAT
37182871 TCCTTTAATTAATTTA
1 TCCTTTAATT-ATTTA
37182887 TCCTTTAATTATTTA
1 TCCTTTAATTATTTA
37182902 ATTTTTAATT
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:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (15 bp):
TCCTTTAATTATTTA
Found at i:37183951 original size:22 final size:22
Alignment explanation
Indices: 37183923--37183972 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
37183913 ATTTGTTTTT
37183923 TTTTGTCTAAAATATTTTGATA
1 TTTTGTCTAAAATATTTTGATA
37183945 TTTTGTCTAAAATATTTTGATA
1 TTTTGTCTAAAATATTTTGATA
37183967 TTTTGT
1 TTTTGT
37183973 AGTCATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.58
Consensus pattern (22 bp):
TTTTGTCTAAAATATTTTGATA
Found at i:37187562 original size:22 final size:23
Alignment explanation
Indices: 37187536--37187582 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
37187526 TCTTCAATAT
37187536 AGATTATATATATTTT-TTCAAA
1 AGATTATATATATTTTATTCAAA
*
37187558 AGATTCTATATATTTTCATTCAAA
1 AGATTATATATATTTT-ATTCAAA
37187582 A
1 A
37187583 TTTTCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (23 bp):
AGATTATATATATTTTATTCAAA
Found at i:37187769 original size:20 final size:20
Alignment explanation
Indices: 37187729--37187775 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
37187719 TATTCGGGTA
37187729 TTTAT-ACATATTATTACTG
1 TTTATGACATATTATTACTG
*
37187748 TTTATGACATGATT-TTATTG
1 TTTATGACAT-ATTATTACTG
*
37187768 TTCATGAC
1 TTTATGAC
37187776 TTGACCCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 3 0.12
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTATGACATATTATTACTG
Found at i:37191993 original size:27 final size:27
Alignment explanation
Indices: 37191947--37192005 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
37191937 TAAAAGTGAC
* * *
37191947 TATTTTTATAATTTATCCTAAATATATA
1 TATTTTTATAATATACCCTAAA-AAATA
37191975 TATTTTT-TAATATACCCTAAAAAATA
1 TATTTTTATAATATACCCTAAAAAATA
37192001 TATTT
1 TATTT
37192006 AAACAATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.32
27 12 0.43
28 7 0.25
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTTTTATAATATACCCTAAAAAATA
Found at i:37193522 original size:15 final size:15
Alignment explanation
Indices: 37193504--37193533 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37193494 TAAAAACTAA
37193504 TATTTTTAAAACATT
1 TATTTTTAAAACATT
*
37193519 TATTTTTACAACATT
1 TATTTTTAAAACATT
37193534 CAATTTTCTT
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:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTTTAAAACATT
Found at i:37195307 original size:20 final size:20
Alignment explanation
Indices: 37195229--37195329 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 20
37195219 ACTTGAAGCT
*
37195229 ATTTTGACTTGTTTAAAAAA
1 ATTTTGACTTGTTTAAAATA
* * *
37195249 TATTTTGA--AGTGTAAATATG
1 -ATTTTGACTTGTTTAAA-ATA
* * *
37195269 ATTTTGACCTGGTTGAAATA
1 ATTTTGACTTGTTTAAAATA
*
37195289 ATTTTGACTTGTTTAAAATC
1 ATTTTGACTTGTTTAAAATA
*
37195309 ATTTTAACTTGATTTTAAAAT
1 ATTTTGACTTG--TTTAAAAT
37195330 TGTTCTAAAC
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
19 13 0.21
20 29 0.48
21 11 0.18
22 8 0.13
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTTTGACTTGTTTAAAATA
Found at i:37200627 original size:25 final size:22
Alignment explanation
Indices: 37200571--37200629 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
37200561 TTAATATTCA
*
37200571 CGAACATGTTCATTAACTTAAT
1 CGAACATGTTCATGAACTTAAT
37200593 CGAACATGTTCATGAACGTATAAT
1 CGAACATGTTCATGAAC-T-TAAT
*
37200617 TGAAACATGTTCA
1 CG-AACATGTTCA
37200630 CGAAAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 16 0.50
23 1 0.03
24 5 0.16
25 10 0.31
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (22 bp):
CGAACATGTTCATGAACTTAAT
Found at i:37204320 original size:22 final size:23
Alignment explanation
Indices: 37204295--37204337 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37204285 TATTTTGTCA
37204295 ATTTTAACTTATAT-TCAAAAAC
1 ATTTTAACTTATATATCAAAAAC
* *
37204317 ATTTTAATTTTTATATCAAAA
1 ATTTTAACTTATATATCAAAA
37204338 TACTTTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTAACTTATATATCAAAAAC
Found at i:37205497 original size:57 final size:57
Alignment explanation
Indices: 37205409--37205522 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
37205399 GTAACGTGTC
*
37205409 GATCAAAGGCTCAATCCTAAGGGTATCGAATCAGAATCTAACACGTTGCATAGTAAG
1 GATCAAAGGCTCAATCCTAAGGGTATCGAATCAGAATCTAACAAGTTGCATAGTAAG
**
37205466 GATCAAAGGCTCAATCCTTCGGGTATCGAATCAGAATCTAACAAGTTGCATAGTAAG
1 GATCAAAGGCTCAATCCTAAGGGTATCGAATCAGAATCTAACAAGTTGCATAGTAAG
37205523 CCACGTAAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (57 bp):
GATCAAAGGCTCAATCCTAAGGGTATCGAATCAGAATCTAACAAGTTGCATAGTAAG
Found at i:37221904 original size:22 final size:21
Alignment explanation
Indices: 37221872--37221912 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
37221862 GCTAATATGT
*
37221872 GATTAATATTAACTTTTTAAAA
1 GATTAAAATTAA-TTTTTAAAA
37221894 GATTAAAATTAATTTTTAA
1 GATTAAAATTAATTTTTAA
37221913 TGAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
GATTAAAATTAATTTTTAAAA
Found at i:37225254 original size:65 final size:66
Alignment explanation
Indices: 37225118--37225264 Score: 269
Period size: 65 Copynumber: 2.2 Consensus size: 66
37225108 CTCACTGCTA
* *
37225118 CCTCCACTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTTGCTGCA
1 CCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTGCA
37225183 G
66 G
37225184 CCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATA-TTTTTTTGAGCCTCTGCTTCTCTCGCTGCA
1 CCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTGCA
37225248 G
66 G
37225249 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
37225265 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
65 46 0.58
66 33 0.42
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.42
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTAGGTGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTGCA
G
Found at i:37229369 original size:15 final size:17
Alignment explanation
Indices: 37229337--37229369 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
37229327 TTATTTGTTT
37229337 TTTTCTTTTAAATCTAA
1 TTTTCTTTTAAATCTAA
37229354 TTTT-TTTTAAAT-TAA
1 TTTTCTTTTAAATCTAA
37229369 T
1 T
37229370 CAAACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCTTTTAAATCTAA
Found at i:37230731 original size:41 final size:41
Alignment explanation
Indices: 37230552--37230712 Score: 220
Period size: 41 Copynumber: 3.9 Consensus size: 41
37230542 GCTTTTTTAA
* *
37230552 AAAGCGCCGCTAA--ATCCCTGACCTTTAGCGGCGCTT-ATTAG
1 AAAGCGCCGCTAATGA-CCC-GACCTTTAGCGACGCTTGGTT-G
*
37230593 AAAAGCGCCGCTAATGACCCGACCTTTAGCGATGCTTGGTTG
1 -AAAGCGCCGCTAATGACCCGACCTTTAGCGACGCTTGGTTG
*
37230635 AAAGCGCCGCTAATGACTCGACCTTTAGCGACGCTTGGTTG
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGACGCTTGGTTG
*
37230676 AAAGCGCCGCTAATGACCCAACCTTTAGCGACGCTTG
1 AAAGCGCCGCTAATGACCCGACCTTTAGCGACGCTTG
37230713 TGGGAAAGTG
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
41 74 0.68
42 29 0.27
43 5 0.05
44 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (41 bp):
AAAGCGCCGCTAATGACCCGACCTTTAGCGACGCTTGGTTG
Found at i:37235492 original size:15 final size:14
Alignment explanation
Indices: 37235472--37235536 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
37235462 ATCAAAACAA
37235472 CTTCTTATTCTTTTT
1 CTTCTT-TTCTTTTT
* *
37235487 CTTCTTTTTCCTTCT
1 CTTC-TTTTCTTTTT
* *
37235502 CTTCTCTTCCTTCTT
1 CTTCT-TTTCTTTTT
37235517 CTTCTCTTT-TTTTT
1 CTTCT-TTTCTTTTT
37235531 CTTCTT
1 CTTCTT
37235537 CAACACCCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
13 1 0.03
14 10 0.25
15 27 0.68
16 2 0.05
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTCTTTTCTTTTT
Found at i:37235534 original size:20 final size:20
Alignment explanation
Indices: 37235480--37235537 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
37235470 AACTTCTTAT
* *
37235480 TCTTTTTCTTCTTTTTCCTTC
1 TCTTTTTTTTCTTCTT-CTTC
* * *
37235501 TCTTCTCTTCCTTCTTCTTC
1 TCTTTTTTTTCTTCTTCTTC
37235521 TCTTTTTTTTCTTCTTC
1 TCTTTTTTTTCTTCTTC
37235538 AACACCCTCA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTTTTTTTCTTCTTCTTC
Found at i:37247070 original size:2 final size:2
Alignment explanation
Indices: 37247063--37247104 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
37247053 TTTAATAATT
37247063 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37247104 T
1 T
37247105 TTAAGAGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37249520 original size:31 final size:32
Alignment explanation
Indices: 37249452--37249521 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
37249442 TTTTTAAAAA
* * *
37249452 CGGTTCAACTACCGATTCAATCGATTTTTAGT
1 CGGTTCAACTACAGATTCAATCAATTTTTAAT
37249484 CGGTTCAACTACTAG-TTCAA-CAATTTTTAAT
1 CGGTTCAACTAC-AGATTCAATCAATTTTTAAT
*
37249515 TGGTTCA
1 CGGTTCA
37249522 GTCAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 15 0.45
32 17 0.52
33 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (32 bp):
CGGTTCAACTACAGATTCAATCAATTTTTAAT
Found at i:37249541 original size:21 final size:19
Alignment explanation
Indices: 37249494--37249543 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
37249484 CGGTTCAACT
37249494 ACTAGTTCAACAATTTTTA
1 ACTAGTTCAACAATTTTTA
* * *
37249513 ATTGGTTCAGTCAATTTTTTA
1 ACTAGTTCA-ACAA-TTTTTA
37249534 ACTAGTTCAA
1 ACTAGTTCAA
37249544 TTGGTTTGTG
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
19 7 0.30
20 3 0.13
21 13 0.57
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (19 bp):
ACTAGTTCAACAATTTTTA
Found at i:37250268 original size:24 final size:25
Alignment explanation
Indices: 37250240--37250286 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
37250230 ACCCTACTTC
37250240 TTTAACTAT-GAATTTTAATTTTGT
1 TTTAACTATAGAATTTTAATTTTGT
* * *
37250264 TTTAAGTATAGGATTTTTATTTT
1 TTTAACTATAGAATTTTAATTTT
37250287 TGATGGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.60
Consensus pattern (25 bp):
TTTAACTATAGAATTTTAATTTTGT
Found at i:37250775 original size:16 final size:16
Alignment explanation
Indices: 37250754--37250788 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
37250744 TTCATGTTAG
37250754 AACATATAAATTTGAA
1 AACATATAAATTTGAA
*
37250770 AACATATATATTTGAA
1 AACATATAAATTTGAA
37250786 AAC
1 AAC
37250789 CTTTTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
AACATATAAATTTGAA
Found at i:37251010 original size:17 final size:18
Alignment explanation
Indices: 37250961--37251021 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 18
37250951 TAATTTCTAA
*
37250961 AATTTTATAAATATTTTG
1 AATTTTAAAAATATTTTG
37250979 AATTTTAAAAAATATTTTG
1 AATTTT-AAAAATATTTTG
*
37250998 AATTTT-GAAATATTTTG
1 AATTTTAAAAATATTTTG
37251015 TAATTTT
1 -AATTTT
37251022 TGTTGAGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.26
18 12 0.31
19 17 0.44
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (18 bp):
AATTTTAAAAATATTTTG
Found at i:37251175 original size:23 final size:23
Alignment explanation
Indices: 37251149--37251197 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
37251139 CAAACTCAAA
37251149 ACTTGAATTACTTATTCGAGTTG
1 ACTTGAATTACTTATTCGAGTTG
37251172 ACTTGAATTACTTATTCGAGTTG
1 ACTTGAATTACTTATTCGAGTTG
37251195 ACT
1 ACT
37251198 CAAATAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (23 bp):
ACTTGAATTACTTATTCGAGTTG
Found at i:37259290 original size:19 final size:19
Alignment explanation
Indices: 37259243--37259302 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
37259233 AAATTATAAA
*
37259243 TAATAATAAATAATAAAT-T
1 TAATAA-AAATATTAAATAT
* *
37259262 TTAGAAAAATATTAAATAT
1 TAATAAAAATATTAAATAT
* *
37259281 TAATAAAAATATAAAAAAT
1 TAATAAAAATATTAAATAT
37259300 TAA
1 TAA
37259303 AATTTATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
18 10 0.30
19 23 0.70
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TAATAAAAATATTAAATAT
Found at i:37259303 original size:26 final size:27
Alignment explanation
Indices: 37259266--37259316 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
37259256 TAAATTTTAG
37259266 AAAAATATT-AAATATTAATAAAAATAT
1 AAAAATATTAAAAT-TTAATAAAAATAT
*
37259293 AAAAA-ATTAAAATTTATTAAAAAT
1 AAAAATATTAAAATTTAATAAAAAT
37259317 TAGAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAAATATTAAAATTTAATAAAAATAT
Found at i:37259643 original size:18 final size:16
Alignment explanation
Indices: 37259604--37259646 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
37259594 TTTTATAATT
37259604 TTTTTATAGTTCTACA
1 TTTTTATAGTTCTACA
*
37259620 TATTTTATAGTTTTTACGA
1 T-TTTTATAG-TTCTAC-A
37259639 TTTTTATA
1 TTTTTATA
37259647 AAATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 8 0.35
18 12 0.52
19 2 0.09
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (16 bp):
TTTTTATAGTTCTACA
Found at i:37261043 original size:16 final size:15
Alignment explanation
Indices: 37261022--37261053 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
37261012 ATAATAAATG
37261022 TTAATTTTATTATAAT
1 TTAATTTTATT-TAAT
37261038 TTAATTTTATTTAAT
1 TTAATTTTATTTAAT
37261053 T
1 T
37261054 CATTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTAAT
Found at i:37261981 original size:31 final size:30
Alignment explanation
Indices: 37261946--37262044 Score: 103
Period size: 30 Copynumber: 3.3 Consensus size: 30
37261936 CATTAAAATC
*
37261946 GGGTCAAATTTTGAATTTTTAGAAAA-TTT-G
1 GGGTCAAA-TTAGAATTTTT-GAAAAGTTTAG
37261976 AGGGTCAAATTAGAATTTTTGAAAAGTTTAG
1 -GGGTCAAATTAGAATTTTTGAAAAGTTTAG
** * * *
37262007 GGGTCAAAACATAATTTTTGGATAGTTTAG
1 GGGTCAAATTAGAATTTTTGAAAAGTTTAG
37262037 GGGTCAAA
1 GGGTCAAA
37262045 ACATAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 5 0.08
30 46 0.77
31 9 0.15
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (30 bp):
GGGTCAAATTAGAATTTTTGAAAAGTTTAG
Found at i:37262045 original size:30 final size:30
Alignment explanation
Indices: 37261959--37262054 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
37261949 TCAAATTTTG
** *
37261959 AATTTTTAGAAAA-TTT-GAGGGTCAAATTAG
1 AATTTTT-GAAAAGTTTAG-GGGTCAAAACAT
37261989 AATTTTTGAAAAGTTTAGGGGTCAAAACAT
1 AATTTTTGAAAAGTTTAGGGGTCAAAACAT
* *
37262019 AATTTTTGGATAGTTTAGGGGTCAAAACAT
1 AATTTTTGAAAAGTTTAGGGGTCAAAACAT
37262049 AATTTT
1 AATTTT
37262055 AAAGTAAAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
29 5 0.08
30 53 0.90
31 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTTTGAAAAGTTTAGGGGTCAAAACAT
Found at i:37263240 original size:8 final size:8
Alignment explanation
Indices: 37263227--37263262 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
37263217 ATAATAAAGT
37263227 TTATTTTA
1 TTATTTTA
37263235 TTATTTTA
1 TTATTTTA
37263243 TTATTTTA
1 TTATTTTA
37263251 TTTATTTATA
1 -TTATTT-TA
37263261 TT
1 TT
37263263 TATAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 16 0.62
9 8 0.31
10 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:37264122 original size:40 final size:39
Alignment explanation
Indices: 37264057--37264203 Score: 138
Period size: 39 Copynumber: 3.8 Consensus size: 39
37264047 CAGCTTTAGC
* * *
37264057 GGTAAAAGATTAGATTG-CTTTAATCTGCCACATGGTCGA
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCAC-TGGTCGA
* * * * *
37264096 GGTAAGAGATCGGATGGTCTTCAATCTGCCTTCTAGT-TA
1 GGTAAAAGATTGGATGGTCTTCAATCTGCC-ACTGGTCGA
* * * *
37264135 GGTAAAAGATTGGATTG-CTTCAATCTTCCCCTTGGTCGG
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCAC-TGGTCGA
37264174 GGTAAAAGATTGGATGGTCTTCAATCTGCC
1 GGTAAAAGATTGGATGGTCTTCAATCTGCC
37264204 CTCTGATTAG
Statistics
Matches: 85, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
37 1 0.01
38 14 0.16
39 44 0.52
40 25 0.29
41 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (39 bp):
GGTAAAAGATTGGATGGTCTTCAATCTGCCACTGGTCGA
Found at i:37264189 original size:78 final size:79
Alignment explanation
Indices: 37264052--37264303 Score: 276
Period size: 79 Copynumber: 3.2 Consensus size: 79
37264042 CTCTACAGCT
* * * * * *
37264052 TTAGCGGTAAAAGATTAGATTGCTTTAATCTGCCACATGGTCGAGGTAAGAGATCGGATGGTCTT
1 TTAG-GGTAAAAGATTAGATTGCTTCAATCTTCCCCATGGTCGGGGTAAAAGATTGGATGGTCTT
*
37264117 CAATCTGCCTTCT-A
65 CAATCTGCCCTCTGA
* *
37264131 GTTA-GGTAAAAGATTGGATTGCTTCAATCTTCCCCTTGGTCGGGGTAAAAGATTGGATGGTCTT
1 -TTAGGGTAAAAGATTAGATTGCTTCAATCTTCCCCATGGTCGGGGTAAAAGATTGGATGGTCTT
37264195 CAATCTGCCCTCTGA
65 CAATCTGCCCTCTGA
* * * * * *
37264210 TTAGGGTAAAAGATTCGATTGCTTCAAT-TTGCCCCATGGTTGGGGTGAAAGACTAGATGATCTT
1 TTAGGGTAAAAGATTAGATTGCTTCAATCTT-CCCCATGGTCGGGGTAAAAGATTGGATGGTCTT
** *
37264274 CAATCTATCCTCTAA
65 CAATCTGCCCTCTGA
* *
37264289 ATAGGGAAAAAGATT
1 TTAGGGTAAAAGATT
37264304 GGATGTGGTG
Statistics
Matches: 148, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 69 0.47
79 76 0.51
80 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (79 bp):
TTAGGGTAAAAGATTAGATTGCTTCAATCTTCCCCATGGTCGGGGTAAAAGATTGGATGGTCTTC
AATCTGCCCTCTGA
Found at i:37264217 original size:40 final size:40
Alignment explanation
Indices: 37264096--37264308 Score: 159
Period size: 39 Copynumber: 5.4 Consensus size: 40
37264086 ACATGGTCGA
* * *
37264096 GGTAAGAGATCGGATGGTCTTCAATCTGCCTTCT-AGTTA-
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA-TTAG
* * * **
37264135 GGTAAAAGATTGGATTG-CTTCAATCTTCCC-CTTGGTCGG
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGATTAG
37264174 GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAG
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAG
* * * * *
37264214 GGTAAAAGATTCGATTG-CTTCAATTTGCCC-CATGGTTGG
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGATTAG
* * * * ** * *
37264253 GGTGAAAGACTAGATGATCTTCAATCTATCCTCTAAATAG
1 GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAG
*
37264293 GGAAAAAGATTGGATG
1 GGTAAAAGATTGGATG
37264309 TGGTGACATC
Statistics
Matches: 132, Mismatches: 34, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
37 1 0.01
38 14 0.11
39 59 0.45
40 56 0.42
41 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (40 bp):
GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATTAG
Done.