Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 170 of 770
Found at i:50584325 original size:50 final size:50
Alignment explanation
Indices: 50584264--50584487 Score: 197
Period size: 50 Copynumber: 4.5 Consensus size: 50
50584254 TGAATACACG
* * **
50584264 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATATTG-TTAAGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATTAAGTCACA
* * ** *
50584314 TGTGTAGTACTAAGCGCAGGCTACTATGCATACTCA-ATGACTT-CGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGA-TTAAG-TCACA
* * * * *
50584365 TGTGTAGTACTAAGTGCAGGCCACTACGTGTATTAGATGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAAGTCACA
* * * *
50584415 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG-TTGA-TCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATTAAGTCACA
*
50584464 TGTGTAGTACAAAGTGCAGGCTAC
1 TGTGTAGTACTAAGTGCAGGCTAC
50584488 AATACGTATC
Statistics
Matches: 140, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
49 28 0.20
50 70 0.50
51 42 0.30
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAAGTCACA
Found at i:50590460 original size:12 final size:12
Alignment explanation
Indices: 50590443--50590467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50590433 CATTTGAAAT
50590443 TGTAAATGTGTA
1 TGTAAATGTGTA
50590455 TGTAAATGTGTA
1 TGTAAATGTGTA
50590467 T
1 T
50590468 AGGGATTTTG
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:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTAAATGTGTA
Found at i:50600759 original size:48 final size:48
Alignment explanation
Indices: 50600707--50600840 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
50600697 AGTATATGTG
*
50600707 ATACATTGAGTTGGCTTCAGGCCATGATATTGGCACTTCGAGTTCGAC
1 ATACATTGAGTTGGCTTCAGGCCATGATATTGGCACTTCGAGTGCGAC
* *
50600755 ATACATTGAGTTGGCTTC-GAGCCATGATATTGGCACTTCGGGTGCGAG
1 ATACATTGAGTTGGCTTCAG-GCCATGATATTGGCACTTCGAGTGCGAC
* * *
50600803 ACACATTGAGTTGGCTTCAGGCCATGATGTTTGCACTT
1 ATACATTGAGTTGGCTTCAGGCCATGATATTGGCACTT
50600841 ATTGTGTGAG
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
47 1 0.01
48 76 0.97
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (48 bp):
ATACATTGAGTTGGCTTCAGGCCATGATATTGGCACTTCGAGTGCGAC
Found at i:50611067 original size:29 final size:29
Alignment explanation
Indices: 50611034--50611107 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
50611024 GTGACGAGAT
50611034 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50611063 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
50611092 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50611108 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50611123 original size:29 final size:29
Alignment explanation
Indices: 50611091--50611166 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
50611081 CTGGAAATAT
* *
50611091 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
50611120 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
50611149 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
50611167 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:50611134 original size:58 final size:58
Alignment explanation
Indices: 50611034--50611166 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
50611024 GTGACGAGAT
* * * * * *
50611034 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
50611092 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
50611150 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
50611167 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:50618945 original size:29 final size:29
Alignment explanation
Indices: 50618912--50618985 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
50618902 GTGACGAGAT
50618912 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
50618941 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
50618970 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50618986 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50619001 original size:29 final size:28
Alignment explanation
Indices: 50618969--50619043 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
50618959 CTGGAAATAT
* *
50618969 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
50618998 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
50619026 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
50619044 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:50619012 original size:58 final size:57
Alignment explanation
Indices: 50618912--50619043 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
50618902 GTGACGAGAT
* * * * * *
50618912 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
50618970 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
50619027 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
50619044 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:50628145 original size:26 final size:26
Alignment explanation
Indices: 50628110--50628162 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50628100 AAGTTTATTT
*
50628110 GTATATGGCTTCCTAAGCTTTTGAAA
1 GTATACGGCTTCCTAAGCTTTTGAAA
50628136 GTATACGGCTTCCTAAGCTTTTGAAA
1 GTATACGGCTTCCTAAGCTTTTGAAA
50628162 G
1 G
50628163 CTTACTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (26 bp):
GTATACGGCTTCCTAAGCTTTTGAAA
Found at i:50631473 original size:30 final size:30
Alignment explanation
Indices: 50631438--50631494 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
50631428 TTTACGAGCG
50631438 TAGGGGCAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAAATGTAATTTTGACAAAGTT
* *
50631468 TAGGGGCAAAATTGTAATTTTGCCAAA
1 TAGGGGCAAAAATGTAATTTTGACAAA
50631495 ATATGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTTTGACAAAGTT
Found at i:50642000 original size:93 final size:93
Alignment explanation
Indices: 50641888--50642058 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50641878 GCCCATAAGT
* *
50641888 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50641953 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50641981 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50642046 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50642059 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50642055 original size:46 final size:46
Alignment explanation
Indices: 50641880--50642055 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
50641870 TGTAACCCGC
* * *
50641880 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50641926 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
50641976 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
50642019 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50642056 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50644469 original size:30 final size:30
Alignment explanation
Indices: 50644425--50644513 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
50644415 CAAAGATAAC
50644425 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
50644454 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
50644484 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
50644514 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:50644473 original size:15 final size:15
Alignment explanation
Indices: 50644425--50644504 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
50644415 CAAAGATAAC
*
50644425 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
50644439 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
50644454 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
50644469 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
50644484 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
50644499 AAGAAA
1 AAGAAA
50644505 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:50644513 original size:15 final size:15
Alignment explanation
Indices: 50644436--50644513 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
50644426 AGAAAACCGA
50644436 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
50644451 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
50644465 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
50644480 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
50644496 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
50644511 ATA
1 ATA
50644514 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:50647623 original size:27 final size:28
Alignment explanation
Indices: 50647555--50647625 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
50647545 TGAAGCTAGA
*
50647555 ACATATTAAAAATATGTAATAGACCAAG
1 ACATATTAAAAACATGTAATAGACCAAG
* * * * *
50647583 ACAAATTAATAACATGTACTA-ACTATG
1 ACATATTAAAAACATGTAATAGACCAAG
50647610 ACATATTAAAAACATG
1 ACATATTAAAAACATG
50647626 CATTAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (28 bp):
ACATATTAAAAACATGTAATAGACCAAG
Found at i:50651501 original size:44 final size:44
Alignment explanation
Indices: 50651407--50651523 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 44
50651397 AATGATGCTG
* * * *
50651407 ATGTCCCAGACATGGTCTTACACATGAATCTCAAATCGATGCCA
1 ATGTCCCAGAAATGGTCTTACACATAAATCTAAAATCAATGCCA
* * *
50651451 ACGTCCCAGAAATGGTCTTACACGTAAATC-AAAAGTCAATTCCA
1 ATGTCCCAGAAATGGTCTTACACATAAATCTAAAA-TCAATGCCA
** *
50651495 ATGTCCCAGATGTGGTCTTATACA-AAATC
1 ATGTCCCAGAAATGGTCTTACACATAAATC
50651524 ACATATCGGA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 8 0.13
44 52 0.87
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (44 bp):
ATGTCCCAGAAATGGTCTTACACATAAATCTAAAATCAATGCCA
Found at i:50658292 original size:17 final size:19
Alignment explanation
Indices: 50658272--50658309 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50658262 CAGGGGAAGG
50658272 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
50658289 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
50658308 AA
1 AA
50658310 TTGAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:50660463 original size:25 final size:25
Alignment explanation
Indices: 50660429--50660586 Score: 200
Period size: 25 Copynumber: 6.4 Consensus size: 25
50660419 GACTTCAGCA
50660429 TGCTCTCTGAT-TATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGCCAG
50660454 TGCTCTCTGA-ATATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACGCCAG
*
50660479 TGCTCTTTGATATTTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAG
*
50660504 TGCTCGCTGATATTTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAG
****
50660529 TGCTCTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACGCCAG
*
50660551 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACGCCAG
50660576 TGCTCTCTGAT
1 TGCTCTCTGAT
50660587 TAGCACATTT
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
22 17 0.15
23 1 0.01
24 1 0.01
25 96 0.82
26 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (25 bp):
TGCTCTCTGATATTTAGCACGCCAG
Found at i:50660545 original size:22 final size:23
Alignment explanation
Indices: 50660429--50660628 Score: 163
Period size: 25 Copynumber: 8.4 Consensus size: 23
50660419 GACTTCAGCA
50660429 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGA--ATTAGCACGCCAG
50660454 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTG-A-ATTAGCACGCCAG
*
50660479 TGCTCTTTGATATTTAGCACGCCAG
1 TGCTCTCTGA-A-TTAGCACGCCAG
*
50660504 TGCTCGCTGATATTTAGCACGCCAG
1 TGCTCTCTGA-A-TTAGCACGCCAG
****
50660529 TGCTCTCTG-ATTAGCACATTTG
1 TGCTCTCTGAATTAGCACGCCAG
*
50660551 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGA-A-TTAGCACGCCAG
****
50660576 TGCTCTCTG-ATTAGCACATTTG
1 TGCTCTCTGAATTAGCACGCCAG
* **
50660598 TGCTCTCTGTA-TAGCACTTCAG
1 TGCTCTCTGAATTAGCACGCCAG
50660620 TGCTCTCTG
1 TGCTCTCTG
50660629 TTCTTTAGTG
Statistics
Matches: 152, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
22 52 0.34
23 3 0.02
24 4 0.03
25 92 0.61
26 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (23 bp):
TGCTCTCTGAATTAGCACGCCAG
Found at i:50660561 original size:47 final size:47
Alignment explanation
Indices: 50660453--50660628 Score: 207
Period size: 47 Copynumber: 3.7 Consensus size: 47
50660443 TAGCACGCCA
* ****
50660453 GTGCTCTCTGA-ATATTAGCACGCCAGTGCTCTTTGATATTTAGCACGCCA
1 GTGCTCTCTGATAT-TTAGCACGCCAGTGCTCTCTG--A-TTAGCACATTT
*
50660503 GTGCTCGCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTT
*
50660550 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTT
**
50660597 GTGCTCTCTG-TA--TAGCACTTCAGTGCTCTCTG
1 GTGCTCTCTGATATTTAGCACGCCAGTGCTCTCTG
50660629 TTCTTTAGTG
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
44 19 0.16
46 2 0.02
47 62 0.53
48 1 0.01
50 30 0.26
51 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (47 bp):
GTGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTAGCACATTT
Found at i:50663071 original size:17 final size:19
Alignment explanation
Indices: 50663051--50663088 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50663041 CAGGAGAAGG
50663051 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
50663068 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
50663087 AA
1 AA
50663089 TTGAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:50666040 original size:71 final size:71
Alignment explanation
Indices: 50665951--50666114 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
50665941 GAGATGTATC
50665951 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTCA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTCA
50666016 AGGACA
66 AGGACA
* *
50666022 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTCA
50666087 AGGACA
66 AGGACA
50666093 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50666115 AGACAAATTG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTCA
AGGACA
Found at i:50677838 original size:56 final size:56
Alignment explanation
Indices: 50677776--50677889 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
50677766 GGTAAATATT
* *
50677776 ACTCGACTCAAACCATATTTTAATAATAGAATTGACCGCAAGAAAGAGGAGTTTTG
1 ACTCGACTCAAACCATAATTTAATAATAGAATTGACCACAAGAAAGAGGAGTTTTG
50677832 ACTCGACTCAAACCATAATTTAATAATAGAATTGACCACAAGAAAGAGGAGTTTTG
1 ACTCGACTCAAACCATAATTTAATAATAGAATTGACCACAAGAAAGAGGAGTTTTG
50677888 AC
1 AC
50677890 ATGCGAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (56 bp):
ACTCGACTCAAACCATAATTTAATAATAGAATTGACCACAAGAAAGAGGAGTTTTG
Found at i:50680142 original size:30 final size:30
Alignment explanation
Indices: 50680087--50680217 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50680077 ATAGTGAATC
*
50680087 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
50680116 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
50680146 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
50680174 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
50680204 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50680218 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:50680197 original size:58 final size:58
Alignment explanation
Indices: 50680086--50680217 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
50680076 TATAGTGAAT
* * * * *
50680086 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
50680145 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
50680203 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50680218 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:50688089 original size:30 final size:30
Alignment explanation
Indices: 50688034--50688164 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50688024 ATAGTGAATC
*
50688034 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
50688063 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
50688093 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
50688121 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
50688151 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50688165 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:50688144 original size:58 final size:58
Alignment explanation
Indices: 50688033--50688164 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
50688023 TATAGTGAAT
* * * * *
50688033 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
50688092 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
50688150 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50688165 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:50690100 original size:3 final size:3
Alignment explanation
Indices: 50690092--50690189 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
50690082 TCAACTTCTT
* *
50690092 TTA TTA TTA ATA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
50690140 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50690188 TT
1 TT
50690190 TATATCCATT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:50699464 original size:19 final size:19
Alignment explanation
Indices: 50699440--50699481 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
50699430 TCCCCGAGTG
50699440 GCTTCACTAGGATTAGTAA
1 GCTTCACTAGGATTAGTAA
50699459 GCTTCACTAGGATTAGTAA
1 GCTTCACTAGGATTAGTAA
50699478 GCTT
1 GCTT
50699482 ACAAGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (19 bp):
GCTTCACTAGGATTAGTAA
Found at i:50699867 original size:46 final size:47
Alignment explanation
Indices: 50699761--50699881 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 47
50699751 TGTCTTCGAC
** * *
50699761 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
50699811 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
50699857 ATGGACTTACATGGCTCATTTCTGT
1 ATGGACTTACATGGCTCATTCCTGT
50699882 TCTGTCCTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:50714802 original size:37 final size:36
Alignment explanation
Indices: 50714749--50714837 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 36
50714739 TATAAAAGAA
50714749 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
50714786 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
* *
50714822 GTCTCACCCGAACATA
1 GTCTTACCCGGACATA
50714838 TTCCAAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
36 14 0.29
37 34 0.71
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:50714988 original size:49 final size:49
Alignment explanation
Indices: 50714933--50715147 Score: 358
Period size: 49 Copynumber: 4.4 Consensus size: 49
50714923 TTTTACATTA
50714933 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
50714982 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
50715031 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * * *
50715080 GCCTTTAGGTCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
50715129 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
50715148 CATATATGTA
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 156 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:50726249 original size:21 final size:20
Alignment explanation
Indices: 50726221--50726260 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
50726211 CCATTCAGTC
*
50726221 GTGTACAATAATACACGGGT
1 GTGTACAATAAAACACGGGT
50726241 GTGTGACAATAAAACACGGG
1 GTGT-ACAATAAAACACGGG
50726261 CGTGGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.20
Consensus pattern (20 bp):
GTGTACAATAAAACACGGGT
Found at i:50728217 original size:20 final size:20
Alignment explanation
Indices: 50728192--50728235 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
50728182 ATCCTCCTAT
50728192 TTTTTTTATTCTTATTTTTA
1 TTTTTTTATTCTTATTTTTA
* *
50728212 TTTTTTTATTTTTATTTTTC
1 TTTTTTTATTCTTATTTTTA
50728232 TTTT
1 TTTT
50728236 GATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTATTCTTATTTTTA
Found at i:50728242 original size:7 final size:6
Alignment explanation
Indices: 50728194--50728252 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
50728184 CCTCCTATTT
* * *
50728194 TTTTTA TTCTTA TTTTTA TTTTTTTA TTTTTA TTTTTC TTTTGA TTTTTA
1 TTTTTA TTTTTA TTTTTA --TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
50728244 TTTTCA TTT
1 TTTTTA TTT
50728253 CAATTTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 38 0.86
8 6 0.14
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:50739839 original size:18 final size:18
Alignment explanation
Indices: 50739816--50739854 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50739806 TCCAAATCTC
*
50739816 ATACATTTATACATTCA-T
1 ATACATATAT-CATTCAGT
50739834 ATACATATATCATTCAGT
1 ATACATATATCATTCAGT
50739852 ATA
1 ATA
50739855 ATCATATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (18 bp):
ATACATATATCATTCAGT
Found at i:50741691 original size:40 final size:40
Alignment explanation
Indices: 50741647--50741872 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
50741637 GCTACTCGTT
* * *
50741647 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
50741687 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
50741727 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
50741767 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
50741807 CAATTGCCTTCGGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
50741848 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
50741873 CATCATTCGA
Statistics
Matches: 172, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 157 0.91
41 12 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:50749871 original size:40 final size:40
Alignment explanation
Indices: 50749827--50750048 Score: 264
Period size: 39 Copynumber: 5.7 Consensus size: 40
50749817 GCTACTCGTT
* * *
50749827 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
50749867 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
50749907 CAAATGCCTTCGGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
50749946 -AAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
50749985 C-AATGCCTTCGGATCTTAGTCCGGATTTAGT-ACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
50750024 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
50750049 CATCATTCGA
Statistics
Matches: 167, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
38 24 0.14
39 86 0.51
40 55 0.33
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:50749945 original size:39 final size:40
Alignment explanation
Indices: 50749855--50750048 Score: 269
Period size: 39 Copynumber: 5.0 Consensus size: 40
50749845 AGCCCGGTTA
*
50749855 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
50749895 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
50749934 TAGTAACTCGCA-AAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
50749973 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
50750012 TAGT-ACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
50750049 CATCATTCGA
Statistics
Matches: 144, Mismatches: 3, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
38 24 0.17
39 86 0.60
40 33 0.23
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:50752631 original size:40 final size:40
Alignment explanation
Indices: 50752587--50752782 Score: 238
Period size: 40 Copynumber: 4.9 Consensus size: 40
50752577 GCTACTCGTT
* * *
50752587 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
50752627 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
50752667 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
50752707 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGAA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
50752747 CAATTGCCTTC-GGATCTTAGTCCGGATTTTGTAACT
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACT
50752783 TAGCATGTGA
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 140 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50752705 original size:80 final size:80
Alignment explanation
Indices: 50752615--50752782 Score: 268
Period size: 80 Copynumber: 2.1 Consensus size: 80
50752605 AGCCCGGTTA
* *
50752615 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCGAACAAATGCCTTC
50752678 GGATCTTAGTCCGGATT
64 GGATCTTAGTCCGGATT
*
50752695 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGAACAATTGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGAACAAATGCCTTCGG
50752760 ATCTTAGTCCGGATT
66 ATCTTAGTCCGGATT
*
50752775 TTGTAACT
1 TAGTAACT
50752783 TAGCATGTGA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
79 3 0.04
80 78 0.95
81 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGAACAAATGCCTTCGG
ATCTTAGTCCGGATT
Found at i:50754675 original size:40 final size:40
Alignment explanation
Indices: 50754567--50754677 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 40
50754557 TCGAATGATG
*
50754567 TCCGG-CTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
50754606 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50754646 TCAGGGA-TAAGTCCCGAAGGCATTTGTGCGAG
1 TC-CGGACTAAGTCCCGAAGGCATTTGTGCGAG
50754678 CTGCTATAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
39 6 0.10
40 47 0.75
41 10 0.16
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50761435 original size:40 final size:39
Alignment explanation
Indices: 50761308--50761437 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 39
50761298 ATGCTGGAAA
* * *
50761308 TTATAT-CGGGTTAAGACCCGAAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCG-AAGGCATTTGTGC-A-CAGC
* * *
50761349 -TATATCCGGGCTAAGACCCAAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
50761387 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
50761428 TTATATCCGG
1 TTATATCCGG
50761438 TTATATTCCG
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 55 0.76
41 14 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:50770067 original size:2 final size:2
Alignment explanation
Indices: 50770060--50770085 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50770050 TCTAGCATAC
50770060 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
50770086 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50770893 original size:40 final size:40
Alignment explanation
Indices: 50770832--50771037 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
50770822 TGAATGATAC
* *
50770832 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
50770871 CCGGGCTAAGACTCGAAGGCATTTGT-CGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
50770910 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
50770950 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
50770990 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50771030 CC-GGCTAA
1 CCGGGCTAA
50771038 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
39 47 0.32
40 99 0.68
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:50770973 original size:79 final size:80
Alignment explanation
Indices: 50770828--50771037 Score: 311
Period size: 79 Copynumber: 2.7 Consensus size: 80
50770818 GCATTGAATG
* * *
50770828 ATACCCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACTCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
50770891 ATTTGT-CGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
50770906 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
50770971 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
50770986 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
50771038 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 12 0.10
79 55 0.46
80 52 0.44
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:50775053 original size:43 final size:44
Alignment explanation
Indices: 50774992--50775084 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
50774982 TCCTAATTGG
50774992 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
50775035 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
50775079 -AAAATA
1 GAAAATA
50775085 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:50775128 original size:19 final size:18
Alignment explanation
Indices: 50775106--50775145 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
50775096 TGAATAAAAC
50775106 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
50775125 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
50775143 TTA
1 TTA
50775146 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:50779791 original size:42 final size:44
Alignment explanation
Indices: 50779723--50779814 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
50779713 TCCTAATTGG
50779723 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
50779766 GAAAATAGTT-CCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
50779809 -AAAATA
1 GAAAATA
50779815 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 35 0.76
43 11 0.24
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:50784165 original size:5 final size:5
Alignment explanation
Indices: 50784155--50784191 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
50784145 TATCCAACTC
50784155 GAATT GAATT GAATT GAATT GAATT GAATT GAATT GA
1 GAATT GAATT GAATT GAATT GAATT GAATT GAATT GA
50784192 GTTTCGCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (5 bp):
GAATT
Found at i:50796578 original size:22 final size:22
Alignment explanation
Indices: 50796550--50796607 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
50796540 TCAATTGTTT
50796550 AATTAGGGTCTAGCATTTATTA
1 AATTAGGGTCTAGCATTTATTA
***
50796572 AATTAGGG-CTATTGTTTATTA
1 AATTAGGGTCTAGCATTTATTA
*
50796593 AATTAAGGGTTTAGC
1 AATT-AGGGTCTAGC
50796608 GTTTTATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 14 0.50
22 12 0.43
23 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (22 bp):
AATTAGGGTCTAGCATTTATTA
Found at i:50796691 original size:21 final size:21
Alignment explanation
Indices: 50796666--50796730 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
50796656 GGAAAAATAA
50796666 TTATTATTAGGGTTTTGGGTT
1 TTATTATTAGGGTTTTGGGTT
*
50796687 TTATTATTAAGGTTTTGGG-T
1 TTATTATTAGGGTTTTGGGTT
* *
50796707 TTA-T-TTAGAGTTTAGGGTT
1 TTATTATTAGGGTTTTGGGTT
50796726 TTATT
1 TTATT
50796731 GTTATAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 10 0.26
19 5 0.13
20 5 0.13
21 18 0.47
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (21 bp):
TTATTATTAGGGTTTTGGGTT
Found at i:50803081 original size:40 final size:39
Alignment explanation
Indices: 50803028--50803320 Score: 387
Period size: 40 Copynumber: 7.4 Consensus size: 39
50803018 GATGATAACC
*
50803028 GGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCC-
1 GGCTAAGTCCCGAAGGCATTTTGCG--AGTTACTA-TATCCG
* * *
50803068 GGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACATCCG
1 GGCTAAGTCCCGAAGGCATTT-TGCGAGTTACTATATCCG
50803108 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTT-TGCGAGTTACTATATCCG
*
50803148 GGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTTGCGAGTTACTATATCCG
50803187 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTT-TGCGAGTTACTATATCCG
*
50803227 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGC-ATTTTGCGAGTTACTATATCCG
* **
50803267 GGCTATGTCCCGAAGGCATTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTTGCGAGTTA-CTATATCCG
* *
50803305 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
50803321 TACTTGGCTT
Statistics
Matches: 232, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
38 15 0.06
39 64 0.28
40 147 0.63
41 6 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTTGCGAGTTACTATATCCG
Found at i:50803196 original size:79 final size:78
Alignment explanation
Indices: 50803028--50803320 Score: 414
Period size: 79 Copynumber: 3.7 Consensus size: 78
50803018 GATGATAACC
* *
50803028 GGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGCTAAGTCCCGAAGGCATTTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGCTAAGTCCCGAAGGCA-TTGT
* *
50803091 GCGAGTTATTACATCCG
62 GCGAGTTACTATATCCG
50803108 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTGTGCG
50803173 AGTTACTATATCCG
65 AGTTACTATATCCG
50803187 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAATTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGC-ATTGTGC
50803252 GAGTTACTATATCCG
64 GAGTTACTATATCCG
* * * *
50803267 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
50803321 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
78 17 0.09
79 101 0.50
80 78 0.39
81 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGTGCGA
GTTACTATATCCG
Found at i:50803240 original size:119 final size:118
Alignment explanation
Indices: 50803028--50803320 Score: 437
Period size: 119 Copynumber: 2.5 Consensus size: 118
50803018 GATGATAACC
* *
50803028 GGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCCGGCTAAGTCCCGAAGGCATTTGCG
1 GGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTA-TATCCGGCTAAGTCCCGAAGGCATTTGCG
* *
50803092 CGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
63 CGAGTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCG
*
50803148 GGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTTGCGCG
*
50803213 AGTTACTATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCG
65 AGTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCG
* * * *
50803267 GGCTATGTCCCGAAGGCATTGAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGGCATTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
50803321 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
117 1 0.01
118 26 0.16
119 109 0.68
120 24 0.15
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (118 bp):
GGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGCGCGA
GTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCG
Found at i:50811256 original size:40 final size:40
Alignment explanation
Indices: 50811172--50811389 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
50811162 TGGATGATAA
* * *
50811172 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-ATTGCGCGAGTTACTA-TAT
* * *
50811213 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCAATTGCGCGAGTTACTATAT
*
50811253 CCGGGCTAAGTCCCAAAGGCAATTGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGCGCGAGTTACTATAT
*
50811293 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGCGCGAGTTACTATAT
* *
50811333 CCGGGCTATGTCCCGAAGGC-ATTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGCGCGAGTTA-CTATAT
* *
50811372 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50811390 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 15 0.09
39 17 0.11
40 107 0.67
41 21 0.13
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGCGCGAGTTACTATAT
Found at i:50822169 original size:30 final size:30
Alignment explanation
Indices: 50822135--50822192 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
50822125 TTTTCGGGCA
* * *
50822135 TAGGGGTAAAATTGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
50822165 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
50822193 ACGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:50822680 original size:46 final size:46
Alignment explanation
Indices: 50822533--50822706 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 46
50822523 TGACTTGTGC
* * * * *
50822533 GCCAGTGTAAGATATGTCTGGGACAT-GCATCGGCCACATTATTATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATC-GCCATACTATGATG
* * * * * * *
50822579 GCCAATGTAAGACTATGTCTAGGACATGGCATCGACATCCAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGCCATAC-TATGATG
* *
50822627 GCTAGTGTAAGACATATCTGGGACAT-GCATCTGCCATACTATGATG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATC-GCCATACTATGATG
*
50822673 GCCAGTGTAAGACCATGTCTGAGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
50822707 ATACAGAGAT
Statistics
Matches: 98, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
46 31 0.32
47 44 0.45
48 23 0.23
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGCCATACTATGATG
Found at i:50822699 original size:94 final size:94
Alignment explanation
Indices: 50822536--50822707 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
50822526 CTTGTGCGCC
* * * * *
50822536 AGTGTAAGATATGTCTGGGACATGCATCGGCCACATTATTATAGCCAATGTAAGACTATGTCTAG
1 AGTGTAAGACATATCTGGGACATGCATCGGCCACACTATGATAGCCAATGTAAGACCATGTCTAG
50822601 GACATGGCATCGACATCCAGACGAGGGCT
66 GACATGGCATCGACATCCAGACGAGGGCT
* * * *
50822630 AGTGTAAGACATATCTGGGACATGCATCTGCCATACTATGATGGCCAGTGTAAGACCATGTCT-G
1 AGTGTAAGACATATCTGGGACATGCATCGGCCACACTATGATAGCCAATGTAAGACCATGTCTAG
50822694 AGACATGGCATCGA
66 -GACATGGCATCGA
50822708 TACAGAGATA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 1 0.01
94 67 0.99
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATATCTGGGACATGCATCGGCCACACTATGATAGCCAATGTAAGACCATGTCTAG
GACATGGCATCGACATCCAGACGAGGGCT
Found at i:50822725 original size:94 final size:94
Alignment explanation
Indices: 50822536--50822735 Score: 242
Period size: 94 Copynumber: 2.1 Consensus size: 94
50822526 CTTGTGCGCC
* * * * *
50822536 AGTGTAAGATATGTCTGGGACATGCATCGGCCACATTATTATAGCCAATGTAAGACTATGTCTAG
1 AGTGTAAGACATATCTGGGACATGCATCGGCCACACTATGATAGCCAATGTAAGACCATGTCTAG
*
50822601 GACATGGCATCGACATCCAGACGAGGGCT
66 GACATGGCATCGACATCCAGACAAGGGCT
* * * *
50822630 AGTGTAAGACATATCTGGGACATGCATCTGCCATACTATGATGGCCAGTGTAAGACCATGTCT-G
1 AGTGTAAGACATATCTGGGACATGCATCGGCCACACTATGATAGCCAATGTAAGACCATGTCTAG
* * * *
50822694 AGACATGGCATCGATA-CAGAGATAAGTGCT
66 -GACATGGCATCGACATC-CAGACAAGGGCT
50822724 AGTGTAAGACAT
1 AGTGTAAGACAT
50822736 GGCATCGGCA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
93 2 0.02
94 88 0.98
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATATCTGGGACATGCATCGGCCACACTATGATAGCCAATGTAAGACCATGTCTAG
GACATGGCATCGACATCCAGACAAGGGCT
Found at i:50822741 original size:36 final size:36
Alignment explanation
Indices: 50822694--50822772 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
50822684 ACCATGTCTG
*
50822694 AGACATGGCATCGATACAGAGATAAGTGCTAGTGTA
1 AGACATGGCATCGACACAGAGATAAGTGCTAGTGTA
* *
50822730 AGACATGGCATCGGCACAGAGATGAGTGCTAGTGTA
1 AGACATGGCATCGACACAGAGATAAGTGCTAGTGTA
50822766 AGACATG
1 AGACATG
50822773 TCTAAGGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (36 bp):
AGACATGGCATCGACACAGAGATAAGTGCTAGTGTA
Found at i:50823889 original size:19 final size:19
Alignment explanation
Indices: 50823867--50823945 Score: 158
Period size: 19 Copynumber: 4.2 Consensus size: 19
50823857 GAGACACGAG
50823867 CGTGTCCCTGGCACACGGT
1 CGTGTCCCTGGCACACGGT
50823886 CGTGTCCCTGGCACACGGT
1 CGTGTCCCTGGCACACGGT
50823905 CGTGTCCCTGGCACACGGT
1 CGTGTCCCTGGCACACGGT
50823924 CGTGTCCCTGGCACACGGT
1 CGTGTCCCTGGCACACGGT
50823943 CGT
1 CGT
50823946 ATGTTCTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 60 1.00
ACGTcount: A:0.10, C:0.37, G:0.32, T:0.22
Consensus pattern (19 bp):
CGTGTCCCTGGCACACGGT
Found at i:50829938 original size:21 final size:21
Alignment explanation
Indices: 50829914--50829978 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
50829904 AAAAGGGTAG
50829914 TCCTATACATTAACCAAAATA
1 TCCTATACATTAACCAAAATA
* * * ***
50829935 TCCTCT-CACT-ACTAGTCTA
1 TCCTATACATTAACCAAAATA
*
50829954 TTCTATACATTAACCAAAATA
1 TCCTATACATTAACCAAAATA
50829975 TCCT
1 TCCT
50829979 CTCACTACTA
Statistics
Matches: 28, Mismatches: 14, Indels: 4
0.61 0.30 0.09
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 13 0.46
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.34
Consensus pattern (21 bp):
TCCTATACATTAACCAAAATA
Found at i:50829962 original size:40 final size:40
Alignment explanation
Indices: 50829916--50830003 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
50829906 AAGGGTAGTC
50829916 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
1 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
50829956 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
1 CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
50829996 CTATACAT
1 CTATACAT
50830004 GCCATAAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (40 bp):
CTATACATTAACCAAAATATCCTCTCACTACTAGTCTATT
Found at i:50830798 original size:47 final size:47
Alignment explanation
Indices: 50830729--50830879 Score: 185
Period size: 47 Copynumber: 3.2 Consensus size: 47
50830719 CTTCGGGACT
* * * * *
50830729 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
50830776 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* **
50830823 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCTT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
50830872 TATCACAT
1 TATCACAT
50830880 CACTTCGGCC
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 47 0.51
49 45 0.49
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:50830853 original size:49 final size:48
Alignment explanation
Indices: 50830727--50830879 Score: 197
Period size: 49 Copynumber: 3.2 Consensus size: 48
50830717 CCCTTCGGGA
* * * * *
50830727 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
50830773 CCCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 -CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
50830820 TCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 -CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
50830869 CTTTATCACAT
1 C-TTATCACAT
50830880 CACTTCGGCC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
46 1 0.01
47 44 0.47
48 1 0.01
49 47 0.51
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:50830880 original size:27 final size:27
Alignment explanation
Indices: 50830850--50830906 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
50830840 CTTTCACATT
*
50830850 CATCACATCGGCCATTAGGCTTTATCA
1 CATCACATCGGCCATTAGGCCTTATCA
*
50830877 CATCACTTCGGCCATTAGGCCTTATCA
1 CATCACATCGGCCATTAGGCCTTATCA
50830904 CAT
1 CAT
50830907 ATATATACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.30
Consensus pattern (27 bp):
CATCACATCGGCCATTAGGCCTTATCA
Found at i:50830888 original size:76 final size:76
Alignment explanation
Indices: 50830801--50830955 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
50830791 CTTTCACATT
*
50830801 CATCACATCGGCCATTAGGTCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
*
50830866 AGGCTTTATCA
66 AGGCCTTATCA
* *
50830877 CATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
50830942 AGGCCTTATCA
66 AGGCCTTATCA
50830953 CAT
1 CAT
50830956 ATATATACGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (76 bp):
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCTTATCA
Found at i:50830904 original size:49 final size:48
Alignment explanation
Indices: 50830877--50831370 Score: 736
Period size: 49 Copynumber: 10.1 Consensus size: 48
50830867 GGCTTTATCA
*
50830877 CATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
50830926 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
50830975 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
*
50831024 CATCACTTCGGCCATTAGGCCTTATCACATATGTATACGCTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
* * *
50831073 CATCACATCAGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
*
50831122 CATCACTTCGGCCATTAGGCCTTATCACATATGTATACGCTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
* * *
50831171 CATCACATCGGCCATTAGGCCTTATCATATATATATACACTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
* *
50831220 CATCACTTCGACCATTAGGCCTTATCACATATGTATACGCTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
* *
50831269 CATCACTTAGGCCATTAGGCCTTATCACATATGTATACGCTTTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
* * * * *
50831318 CATCACATCGGCCATTAGGCCTTATCTCATATCTATACACATTCACATT
1 CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACA-T
50831367 CATC
1 CATC
50831371 GCGTAAAATC
Statistics
Matches: 418, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 418 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (48 bp):
CATCACTTCGGCCATTAGGCCTTATCACATATATATACGCTTTCACAT
Found at i:50831029 original size:147 final size:147
Alignment explanation
Indices: 50830877--50831370 Score: 853
Period size: 147 Copynumber: 3.4 Consensus size: 147
50830867 GGCTTTATCA
*
50830877 CATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATT
50830942 AGGCCTTATCACATATATATACGCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
66 AGGCCTTATCACATATATATACGCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
*
50831007 ATATACGCTTTCACATT
131 GTATACGCTTTCACATT
* * * * *
50831024 CATCACTTCGGCCATTAGGCCTTATCACATATGTATACGCTTTCACATTCATCACATCAGCCATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATT
*
50831089 AGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
66 AGGCCTTATCACATATATATACGCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
50831154 GTATACGCTTTCACATT
131 GTATACGCTTTCACATT
* *
50831171 CATCACATCGGCCATTAGGCCTTATCATATATATATACACTTTCACATTCATCACTTCGACCATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATT
* *
50831236 AGGCCTTATCACATATGTATACGCTTTCACATTCATCACTTAGGCCATTAGGCCTTATCACATAT
66 AGGCCTTATCACATATATATACGCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
50831301 GTATACGCTTTCACATT
131 GTATACGCTTTCACATT
* * *
50831318 CATCACATCGGCCATTAGGCCTTATCTCATATCTATACACATTCACATTCATC
1 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
50831371 GCGTAAAATC
Statistics
Matches: 327, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 327 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (147 bp):
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATT
AGGCCTTATCACATATATATACGCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
GTATACGCTTTCACATT
Found at i:50834327 original size:30 final size:30
Alignment explanation
Indices: 50834272--50834402 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50834262 ATAGTGAATC
*
50834272 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
50834301 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
50834331 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
50834359 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
50834389 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50834403 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:50834382 original size:58 final size:58
Alignment explanation
Indices: 50834271--50834402 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
50834261 TATAGTGAAT
* * * * *
50834271 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
50834330 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
50834388 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50834403 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:50842112 original size:30 final size:30
Alignment explanation
Indices: 50842057--50842187 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50842047 ATAGTGAATC
*
50842057 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
50842086 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
50842116 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
50842144 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
50842174 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50842188 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:50842167 original size:58 final size:58
Alignment explanation
Indices: 50842056--50842187 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
50842046 TATAGTGAAT
* * * * *
50842056 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
50842115 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
50842173 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50842188 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:50845475 original size:140 final size:140
Alignment explanation
Indices: 50845223--50845503 Score: 481
Period size: 140 Copynumber: 2.0 Consensus size: 140
50845213 CTCTTCGTAA
*
50845223 CCGATGCCTTCTTTCTATGTGTAACCTTTCCCTACAAGTCTAGCTTTGTGTGCTTCTATTTTCCC
1 CCGATGCCTTCTTTCTATGTGCAACCTTTCCCTACAAGTCTAGCTTTGTGTGCTTCTATTTTCCC
* * *
50845288 GTCCGCATTTCTCTTCTTCTTGTAGGTTCACTTACACCCTATGAGTTTAATCTTAATTAGTAAGT
66 GTCCGCATTTCCCTTCTTCTTGTAGATTCACTTACACCCTATGAGTTTAATCCTAATTAGTAAGT
50845353 CTATAAGTTC
131 CTATAAGTTC
* *
50845363 CCGATGCCTTCTTTCTATGTGCAACCTTTCCCTACAAGTCTAGCTTTGTGTGTTTCTATTTTTCC
1 CCGATGCCTTCTTTCTATGTGCAACCTTTCCCTACAAGTCTAGCTTTGTGTGCTTCTATTTTCCC
* *
50845428 TTTCGCATTTCCCTTCTTCTTGTAGATTCACTTACACCCTATGAGTTTAATCCTAATTAGTAAGT
66 GTCCGCATTTCCCTTCTTCTTGTAGATTCACTTACACCCTATGAGTTTAATCCTAATTAGTAAGT
*
50845493 TTATAAGTTC
131 CTATAAGTTC
50845503 C
1 C
50845504 TACACTATAT
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 132 1.00
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (140 bp):
CCGATGCCTTCTTTCTATGTGCAACCTTTCCCTACAAGTCTAGCTTTGTGTGCTTCTATTTTCCC
GTCCGCATTTCCCTTCTTCTTGTAGATTCACTTACACCCTATGAGTTTAATCCTAATTAGTAAGT
CTATAAGTTC
Found at i:50847791 original size:19 final size:20
Alignment explanation
Indices: 50847756--50847797 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
50847746 CATTAATTAC
50847756 TATTTTTGTATTAAGCAA-A
1 TATTTTTGTATTAAGCAACA
*
50847775 TATTTTT-TATTTCAGCAACA
1 TATTTTTGTA-TTAAGCAACA
50847795 TAT
1 TAT
50847798 AAAGAATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.70
20 4 0.20
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TATTTTTGTATTAAGCAACA
Found at i:50849761 original size:26 final size:26
Alignment explanation
Indices: 50849732--50849810 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
50849722 TAATCACTTT
50849732 AATATTAAATTAATATAATATTTATC
1 AATATTAAATTAATATAATATTTATC
* * *
50849758 AATATTAGATTAATTTTAATATTAAATC
1 AATATTAAATTAA-TATAATATT-TATC
* * *
50849786 -TTATTAAAATAATAGAATATTTATC
1 AATATTAAATTAATATAATATTTATC
50849811 TTTTAGATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.07
26 19 0.45
27 17 0.40
28 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (26 bp):
AATATTAAATTAATATAATATTTATC
Found at i:50849844 original size:53 final size:54
Alignment explanation
Indices: 50849729--50849851 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 54
50849719 ACTTAATCAC
* * * * *
50849729 TTTAATATTAAATTAATATAATATTTATCAATATTAGATTAATTTTAATATTAAA
1 TTTAATATTAAAATAATAGAATATTTATC-ATATTAGATAAAATTAAATATTAAA
* *
50849784 TCT--TATTAAAATAATAGAATATTTATC-TTTTAGATAAACATTAAAT-TTAAA
1 TTTAATATTAAAATAATAGAATATTTATCATATTAGATAAA-ATTAAATATTAAA
*
50849835 TTTAATATTAAGATAAT
1 TTTAATATTAAAATAAT
50849852 CACTTTAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
51 16 0.29
52 5 0.09
53 33 0.59
55 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (54 bp):
TTTAATATTAAAATAATAGAATATTTATCATATTAGATAAAATTAAATATTAAA
Found at i:50850133 original size:22 final size:19
Alignment explanation
Indices: 50850108--50850155 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
50850098 TACCATTTCG
50850108 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
50850130 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
50850148 ATTAAATT
1 ATTAAATT
50850156 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:50860748 original size:50 final size:50
Alignment explanation
Indices: 50860671--50860781 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
50860661 ACTCATTTAA
* * *
50860671 CCGAATACACAATATCAAATATAACATCACATATG-TACATACCTATGTGG
1 CCGAATATACAAGATCAAATATAACATCACATATGCT-CAAACCTATGTGG
* *
50860721 CTGAATATACAAGATCAAATATAACATCACATATGCTCAAACCTGTGTGG
1 CCGAATATACAAGATCAAATATAACATCACATATGCTCAAACCTATGTGG
*
50860771 CCAAATATACA
1 CCGAATATACA
50860782 TGGTCATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (50 bp):
CCGAATATACAAGATCAAATATAACATCACATATGCTCAAACCTATGTGG
Found at i:50864063 original size:21 final size:21
Alignment explanation
Indices: 50864037--50864091 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
50864027 CCAAGTATTC
50864037 GTTGAAAATAAGTTTGGGGGA
1 GTTGAAAATAAGTTTGGGGGA
50864058 GTTGAAAATAAGTTTGGGGGA
1 GTTGAAAATAAGTTTGGGGGA
50864079 GTTGAAAATAAGT
1 GTTGAAAATAAGT
50864092 ATAAAATGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.35, T:0.29
Consensus pattern (21 bp):
GTTGAAAATAAGTTTGGGGGA
Found at i:50869740 original size:13 final size:13
Alignment explanation
Indices: 50869700--50869741 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
50869690 TATGATTAAA
50869700 AATATTTGAAAAT
1 AATATTTGAAAAT
50869713 AATATCTAT-AAAAT
1 AATAT-T-TGAAAAT
50869727 AATATTTGAAAAT
1 AATATTTGAAAAT
50869740 AA
1 AA
50869742 AAATATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 13 0.50
14 11 0.42
15 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (13 bp):
AATATTTGAAAAT
Found at i:50869751 original size:27 final size:27
Alignment explanation
Indices: 50869700--50869752 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50869690 TATGATTAAA
* *
50869700 AATATTTGAAAATAATATCTATAAAAT
1 AATATTTGAAAATAAAATATATAAAAT
50869727 AATATTTGAAAATAAAA-ATATTAAAA
1 AATATTTGAAAATAAAATATA-TAAAA
50869753 ATTATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (27 bp):
AATATTTGAAAATAAAATATATAAAAT
Found at i:50872164 original size:5 final size:5
Alignment explanation
Indices: 50872134--50872200 Score: 93
Period size: 5 Copynumber: 13.8 Consensus size: 5
50872124 AGTTATAAAT
* * *
50872134 TTAT- TTATT TTAAA TTATA ATA-A TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
50872182 TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTAT
50872201 GAAATAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
4 7 0.12
5 49 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:50872311 original size:21 final size:21
Alignment explanation
Indices: 50872285--50872324 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50872275 ATACATATAT
50872285 TTATTATTAAATAGATATTTA
1 TTATTATTAAATAGATATTTA
* *
50872306 TTATTATTTAATTGATATT
1 TTATTATTAAATAGATATT
50872325 AAATTATAAA
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:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATTATTAAATAGATATTTA
Found at i:50872622 original size:10 final size:11
Alignment explanation
Indices: 50872603--50872633 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
50872593 AAATAGATAT
50872603 TTATTATTATA
1 TTATTATTATA
50872614 TTA-TATTATA
1 TTATTATTATA
50872624 TTATTATTAT
1 TTATTATTAT
50872634 TATTGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:50872642 original size:3 final size:3
Alignment explanation
Indices: 50872636--50872661 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50872626 ATTATTATTA
50872636 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
50872662 AACTAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:50872709 original size:21 final size:20
Alignment explanation
Indices: 50872685--50872724 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
50872675 AAAATAAAGT
*
50872685 AAAATAAAAAAAGAAAGAAAC
1 AAAACAAAAAAAG-AAGAAAC
*
50872706 AAAACAAACAAAGAAGAAA
1 AAAACAAAAAAAGAAGAAA
50872725 AGAAACAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (20 bp):
AAAACAAAAAAAGAAGAAAC
Found at i:50873419 original size:3 final size:3
Alignment explanation
Indices: 50873413--50873471 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
50873403 ATGAGGTAAG
50873413 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50873461 TAA TAA TAA TA
1 TAA TAA TAA TA
50873472 TATTATTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:50873478 original size:3 final size:3
Alignment explanation
Indices: 50873472--50873499 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50873462 AATAATAATA
50873472 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50873500 GATGAGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:50873844 original size:21 final size:20
Alignment explanation
Indices: 50873814--50873881 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
50873804 TTATCGGCTT
50873814 TGTCG-ATCAGACACTTTATG
1 TGTCGTATCAGACACTTT-TG
**
50873834 TGTCGTATCAGACACCTCGTG
1 TGTCGTATCAGACA-CTTTTG
* *
50873855 TGTTGTATCAGGCACCTTTTG
1 TGTCGTATCAGACA-CTTTTG
50873876 TGTCGT
1 TGTCGT
50873882 TTTGGGCACT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 5 0.13
21 32 0.82
22 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTCGTATCAGACACTTTTG
Found at i:50874114 original size:13 final size:13
Alignment explanation
Indices: 50874073--50874119 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
50874063 GCTATTGAAA
50874073 TGAAA-TGAGAAAT
1 TGAAATTGAG-AAT
50874086 TG-AATTGAGAAT
1 TGAAATTGAGAAT
50874098 TGAAATTGAG-AT
1 TGAAATTGAGAAT
50874110 ATGAAATTGA
1 -TGAAATTGA
50874120 AAGCATCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.29
13 22 0.71
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
TGAAATTGAGAAT
Found at i:50875023 original size:39 final size:40
Alignment explanation
Indices: 50874979--50875054 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
50874969 AATGATAAAA
* *
50874979 AATAAAAATAAATAAAAGTTA-AAAAAATTATTAAATTTT
1 AATAAAAATAAATAAAAATTAGAAAAAATTATAAAATTTT
* **
50875018 AATAAATATATTTAAAAATTAGAAAAAATTATAAAAT
1 AATAAAAATAAATAAAAATTAGAAAAAATTATAAAAT
50875055 ATATAGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 17 0.55
40 14 0.45
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AATAAAAATAAATAAAAATTAGAAAAAATTATAAAATTTT
Found at i:50875051 original size:29 final size:31
Alignment explanation
Indices: 50875019--50875092 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
50875009 TTAAATTTTA
*
50875019 ATAAATATATTTAAAAAT-TAG-AAAAAATT
1 ATAAATATATATAAAAATGTAGAAAAAAATT
*
50875048 ATAAA-ATATATAGAAATGTAGAAAAAAATT
1 ATAAATATATATAAAAATGTAGAAAAAAATT
* * *
50875078 AAAAATTTTTATAAA
1 ATAAATATATATAAA
50875093 GTCGTAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 10 0.28
29 8 0.22
30 12 0.33
31 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (31 bp):
ATAAATATATATAAAAATGTAGAAAAAAATT
Found at i:50875055 original size:30 final size:29
Alignment explanation
Indices: 50875020--50875083 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
50875010 TAAATTTTAA
* *
50875020 TAAATATATTTAAAAAT-TAG-AAAAAAT
1 TAAAAATATATAAAAATGTAGAAAAAAAT
*
50875047 TATAAAATATATAGAAATGTAGAAAAAAAT
1 TA-AAAATATATAAAAATGTAGAAAAAAAT
50875077 TAAAAAT
1 TAAAAAT
50875084 TTTTATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.06
28 12 0.39
29 8 0.26
30 9 0.29
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (29 bp):
TAAAAATATATAAAAATGTAGAAAAAAAT
Found at i:50875348 original size:18 final size:18
Alignment explanation
Indices: 50875314--50875365 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
50875304 GGTAAATGAC
50875314 CTTTTTGATGCATTTTATAA
1 CTTTTT-ATG-ATTTTATAA
50875334 CTTTTTATGATTTTATAA
1 CTTTTTATGATTTTATAA
*
50875352 -TATTTTATAATTTT
1 CT-TTTTATGATTTT
50875366 TTTACGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 1 0.03
18 20 0.67
19 3 0.10
20 6 0.20
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.62
Consensus pattern (18 bp):
CTTTTTATGATTTTATAA
Found at i:50875366 original size:19 final size:19
Alignment explanation
Indices: 50875326--50875453 Score: 74
Period size: 18 Copynumber: 6.8 Consensus size: 19
50875316 TTTTGATGCA
*
50875326 TTTTATAACT-TTTTATGA-
1 TTTTATAA-TATTTTATAAT
50875344 TTTTATAATATTTTATAAT
1 TTTTATAATATTTTATAAT
* *
50875363 TTTTTTACGATTTTTTATAAT
1 TTTTATA--ATATTTTATAAT
* *
50875384 TTTTAATAAAATTTAAT-AT
1 TTTT-ATAATATTTTATAAT
50875403 TTTTATTAA-ATTTTATTAA-
1 TTTTA-TAATATTTTA-TAAT
*
50875422 TTTTAT--TGATTTTAT-TT
1 TTTTATAAT-ATTTTATAAT
*
50875439 TTTTATAATTTTTTA
1 TTTTATAATATTTTA
50875454 CCACATGTCA
Statistics
Matches: 87, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
17 8 0.09
18 33 0.38
19 22 0.25
20 7 0.08
21 15 0.17
22 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATATTTTATAAT
Found at i:50875386 original size:9 final size:9
Alignment explanation
Indices: 50875326--50875451 Score: 64
Period size: 9 Copynumber: 13.4 Consensus size: 9
50875316 TTTTGATGCA
50875326 TTTTATAACT
1 TTTTATAA-T
*
50875336 TTTTATGA-
1 TTTTATAAT
50875344 TTTTATAAT
1 TTTTATAAT
50875353 ATTTTATAAT
1 -TTTTATAAT
*
50875363 TTTTTTACGATT
1 TTTTATA--A-T
50875375 TTTTATAAT
1 TTTTATAAT
*
50875384 TTTTAATAAA
1 TTTT-ATAAT
*
50875394 ATTTA-ATAT
1 TTTTATA-AT
*
50875403 TTTTATTAAA
1 TTTTA-TAAT
50875413 TTTTATTAA-
1 TTTTA-TAAT
*
50875422 TTTTATTGA-
1 TTTTA-TAAT
*
50875431 TTTTAT-TT
1 TTTTATAAT
50875439 TTTTATAAT
1 TTTTATAAT
50875448 TTTT
1 TTTT
50875452 TACCACATGT
Statistics
Matches: 93, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
8 15 0.16
9 35 0.38
10 34 0.37
11 2 0.02
12 7 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:50880710 original size:3 final size:3
Alignment explanation
Indices: 50880702--50880786 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
50880692 AATAACAAAC
50880702 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
50880750 ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
50880787 CAAAGGAAGT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:50892870 original size:11 final size:11
Alignment explanation
Indices: 50892854--50892882 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
50892844 TCACTCTGAG
50892854 TATTTCTGTAT
1 TATTTCTGTAT
50892865 TATTTCTGTAT
1 TATTTCTGTAT
50892876 TATTTCT
1 TATTTCT
50892883 TTCTCTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.66
Consensus pattern (11 bp):
TATTTCTGTAT
Found at i:50894696 original size:44 final size:44
Alignment explanation
Indices: 50894648--50894734 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
50894638 GTAACAATAG
* * *
50894648 CAGTACGACACACATGGTGCCTTATCGACTCGAA-GTCGAAGTAA
1 CAGTACAACACACATAGTGCCTCATCGACTC-AAGGTCGAAGTAA
**
50894692 CAGTACAACACTTATAGTGCCTCATCGACTCAAGGTCGAAGTA
1 CAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGAAGTA
50894735 TCCCTGAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (44 bp):
CAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGAAGTAA
Found at i:50895671 original size:8 final size:8
Alignment explanation
Indices: 50895660--50895694 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
50895650 TGTTTTATTA
50895660 TATTATAT
1 TATTATAT
50895668 TATTATAT
1 TATTATAT
*
50895676 TAATATAT
1 TATTATAT
50895684 TATTATAT
1 TATTATAT
50895692 TAT
1 TAT
50895695 ATACTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:50895672 original size:13 final size:13
Alignment explanation
Indices: 50895654--50895696 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
50895644 ATTTTATGTT
50895654 TTATTATATTATA
1 TTATTATATTATA
50895667 TTATTATATTAATATA
1 TTATTATA-T--TATA
50895683 TTATTATATTATA
1 TTATTATATTATA
50895696 T
1 T
50895697 ACTTAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:50898963 original size:2 final size:2
Alignment explanation
Indices: 50898956--50898982 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50898946 AAATTTACTT
50898956 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50898983 TGTAGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50899363 original size:11 final size:11
Alignment explanation
Indices: 50899349--50899377 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
50899339 ATAAGTATAT
50899349 AATAATTTAAA
1 AATAATTTAAA
50899360 AATAA-TTAAA
1 AATAATTTAAA
50899370 AATAATTT
1 AATAATTT
50899378 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:50902117 original size:31 final size:30
Alignment explanation
Indices: 50902056--50902113 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
50902046 AACATCAATC
*
50902056 GGTCAAGAGTTGGGAATAAGGGAAAAAATA
1 GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
50902086 GGTCAAGAGTTGGGAAAAAGGGAAAAAA
1 GGTCAAGAGTTGGGAAAAAGGGAAAAAA
50902114 ATAGCTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.34, T:0.14
Consensus pattern (30 bp):
GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
Found at i:50902320 original size:46 final size:46
Alignment explanation
Indices: 50902251--50902354 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
50902241 TAGATTATGA
**
50902251 ATGTT-ATTTTTTTTTGTTTTTGATTTATTTTACAAATAGTTCTTT
1 ATGTTGATTTTTACTTGTTTTTGATTTATTTTACAAATAGTTCTTT
50902296 ATGTTGATTTTTACTTGTTTTTGATTTATTTTACAAATAGTTCTTT
1 ATGTTGATTTTTACTTGTTTTTGATTTATTTTACAAATAGTTCTTT
50902342 ATGTTGATTTTTA
1 ATGTTGATTTTTA
50902355 TTGAGATTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 5 0.09
46 51 0.91
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (46 bp):
ATGTTGATTTTTACTTGTTTTTGATTTATTTTACAAATAGTTCTTT
Found at i:50904607 original size:46 final size:43
Alignment explanation
Indices: 50904503--50904631 Score: 156
Period size: 46 Copynumber: 3.0 Consensus size: 43
50904493 CTTTTATTCA
* * * *
50904503 TTCACCGGCATTTCGCCTGTTAGGCTCG--AGGCCCGATATCAT
1 TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGA-ATAAT
50904545 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
1 TTCACCGGCA-TATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
50904589 GTCTCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 -T-TCACCGGCAT-ATAGCCTGCTAGGCTCGAAAGGCCCGAATA
50904632 TAATACCAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
42 10 0.13
43 15 0.19
44 4 0.05
45 23 0.30
46 25 0.32
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (43 bp):
TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
Found at i:50904672 original size:38 final size:38
Alignment explanation
Indices: 50904624--50904773 Score: 246
Period size: 38 Copynumber: 3.9 Consensus size: 38
50904614 GGCTCAAAGG
* * *
50904624 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
50904662 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
50904700 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
50904738 CCCGGTTATATTACCAGCACGAAGCCTGCGGGATTT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
50904774 TAAGCCCAGA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 107 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:50915680 original size:21 final size:22
Alignment explanation
Indices: 50915640--50915680 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50915630 ATATTTTCTA
* *
50915640 AATTATTAAAATTTTTAATTAG
1 AATTATTAAAATATTAAATTAG
50915662 AATT-TTAAAATATTAAATT
1 AATTATTAAAATATTAAATT
50915681 TTATGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTATTAAAATATTAAATTAG
Found at i:50916121 original size:263 final size:262
Alignment explanation
Indices: 50915593--50916122 Score: 1006
Period size: 262 Copynumber: 2.0 Consensus size: 262
50915583 ACATATAAAT
*
50915593 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAATTTTTAA
1 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
50915658 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAATTATTATACAAAAAATT
66 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAATTATTATACAAAAAATT
*
50915723 CTAGAATAGTCTGCCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
131 CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
*
50915788 TTTTAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTCC
196 TTTAAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTCC
50915853 CA
261 CA
50915855 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
1 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
50915920 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAATTATTATACAAAAAATT
66 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAATTATTATACAAAAAATT
*
50915985 CTAGAATAGTCTACCTCATGGCATGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
131 CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
*
50916050 TTTAAAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACGTCTC
196 TTT-AAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTC
50916115 CCA
260 CCA
50916118 TTATT
1 TTATT
50916123 CTATTGTGTC
Statistics
Matches: 262, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
262 195 0.74
263 67 0.26
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (262 bp):
TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAATTATTATACAAAAAATT
CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
TTTAAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTCC
CA
Found at i:50921064 original size:46 final size:46
Alignment explanation
Indices: 50921011--50921186 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
50921001 TATTTGGGCA
50921011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50921057 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* **
50921104 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50921150 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50921187 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:50921166 original size:93 final size:93
Alignment explanation
Indices: 50921007--50921179 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
50920997 GGGATATTTG
* *
50921007 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
50921072 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
50921100 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50921165 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
50921180 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:50923977 original size:41 final size:41
Alignment explanation
Indices: 50923925--50924006 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
50923915 AATTGATGAG
50923925 AGAATACGTAAGATATTATGTTTCTGTTTCTTCTACTTGAT
1 AGAATACGTAAGATATTATGTTTCTGTTTCTTCTACTTGAT
50923966 AGAATACGTAAGATATTATGTTTCTGTTTCTTCTACTTGAT
1 AGAATACGTAAGATATTATGTTTCTGTTTCTTCTACTTGAT
50924007 GCTTCATCTG
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:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (41 bp):
AGAATACGTAAGATATTATGTTTCTGTTTCTTCTACTTGAT
Found at i:50924202 original size:15 final size:15
Alignment explanation
Indices: 50924180--50924250 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
50924170 ATATCTTGGG
*
50924180 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
50924195 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
50924210 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
50924225 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
50924240 TTTCTTTATTC
1 TTTCTTTATTC
50924251 AGTTTTCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.09
15 39 0.83
16 4 0.09
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:50924249 original size:30 final size:30
Alignment explanation
Indices: 50924171--50924250 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
50924161 CATAGTATCA
* * *
50924171 TATCTTGGGTTTCTTTATCCTGGATCTTTT
1 TATCTTGGATTTCTTTATTCTGGATCTTTC
*
50924201 TAT-TCTGGATTTCTTTATTCTGGGT-TTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTT-TC
50924231 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
50924251 AGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 3 0.07
30 39 0.91
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTTTC
Found at i:50927749 original size:40 final size:41
Alignment explanation
Indices: 50927690--50927881 Score: 277
Period size: 40 Copynumber: 4.8 Consensus size: 41
50927680 CGGATGATAA
* * *
50927690 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
50927730 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
50927770 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
**
50927810 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
50927850 CCGGGC-AGAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTA-AGTCCCGAAGGCATTTGTGCGAGT
50927882 GGCTATATCC
Statistics
Matches: 140, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.03
40 135 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
Found at i:50930210 original size:46 final size:46
Alignment explanation
Indices: 50930157--50930332 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
50930147 TATTTGGGCA
50930157 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50930203 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
50930250 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
50930296 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50930333 GCAGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Done.