Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 152 of 311
Found at i:51794591 original size:20 final size:20
Alignment explanation
Indices: 51794448--51794593 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 20
51794438 CACATACGTG
* *
51794448 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGATA
* * * *
51794468 CCCCTGATTGCACATACG-TG
1 CCCCTGTTTGTAC-TTCGATA
* *
51794488 CCCTTGTTTGTACTTAGATA
1 CCCCTGTTTGTACTTCGATA
* * * *
51794508 CCCCTGATTGCACATACG-TG
1 CCCCTGTTTGTAC-TTCGATA
* * *
51794528 CCCCTGTTTATACTTTGGTA
1 CCCCTGTTTGTACTTCGATA
* ** * *
51794548 CCCCTGATTACACATAC-ATG
1 CCCCTGTTTGTAC-TTCGATA
51794568 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
51794588 CCCCTG
1 CCCCTG
51794594 AATGCACTTA
Statistics
Matches: 86, Mismatches: 34, Indels: 12
0.65 0.26 0.09
Matches are distributed among these distances:
19 6 0.07
20 74 0.86
21 6 0.07
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:51794611 original size:20 final size:20
Alignment explanation
Indices: 51794468--51794613 Score: 78
Period size: 20 Copynumber: 7.3 Consensus size: 20
51794458 TACTTCGGTA
* *
51794468 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACTTACATG
* * * * *
51794488 CCCTTGTTTGTACTTAGATA
1 CCCCTGATTGCACTTACATG
* *
51794508 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACTTACATG
* ** *** *
51794528 CCCCTGTTTATACTTTGGTA
1 CCCCTGATTGCACTTACATG
* *
51794548 CCCCTGATTACACATACATG
1 CCCCTGATTGCACTTACATG
* * *
51794568 CCCCTGTTTGTACTT-CGATA
1 CCCCTGATTGCACTTAC-ATG
*
51794588 CCCCTGAATGCACTTACATG
1 CCCCTGATTGCACTTACATG
51794608 CCCCTG
1 CCCCTG
51794614 TTTATACTCT
Statistics
Matches: 87, Mismatches: 37, Indels: 4
0.68 0.29 0.03
Matches are distributed among these distances:
19 1 0.01
20 85 0.98
21 1 0.01
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (20 bp):
CCCCTGATTGCACTTACATG
Found at i:51796562 original size:18 final size:17
Alignment explanation
Indices: 51796535--51796568 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51796525 GAATTGAGTT
*
51796535 GAAAAAATTATTTAATG
1 GAAAAAATTAATTAATG
51796552 GAAACAAATTAATTAAT
1 GAAA-AAATTAATTAAT
51796569 TTAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (17 bp):
GAAAAAATTAATTAATG
Found at i:51799306 original size:28 final size:28
Alignment explanation
Indices: 51799274--51799328 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
51799264 TTTTAAAAGG
51799274 AAGATTATGGGCGAGCAATACATGGAGT
1 AAGATTATGGGCGAGCAATACATGGAGT
*
51799302 AAGATTATGGGTGAGCAATACATGGAG
1 AAGATTATGGGCGAGCAATACATGGAG
51799329 CCAATATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.22
Consensus pattern (28 bp):
AAGATTATGGGCGAGCAATACATGGAGT
Found at i:51803931 original size:27 final size:27
Alignment explanation
Indices: 51803901--51803956 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
51803891 GTGGATTTCG
51803901 AGATTTTGAAGGAAAATAATGTTTCAA
1 AGATTTTGAAGGAAAATAATGTTTCAA
51803928 AGATTTTGAAGGAAAATAATGTTTCAA
1 AGATTTTGAAGGAAAATAATGTTTCAA
51803955 AG
1 AG
51803957 TGTTTTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.32
Consensus pattern (27 bp):
AGATTTTGAAGGAAAATAATGTTTCAA
Found at i:51804557 original size:22 final size:20
Alignment explanation
Indices: 51804518--51804570 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
51804508 CTTATTTAAT
* *
51804518 TTGTGAAATATGTGATTATGTA
1 TTGTGAAAT-TGAGATTAAG-A
51804540 TTGTGAAATTGAGAATTAAGA
1 TTGTGAAATTGAG-ATTAAGA
51804561 -TGTGAAATTG
1 TTGTGAAATTG
51804571 TGACATCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
21 4 0.14
22 14 0.50
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.40
Consensus pattern (20 bp):
TTGTGAAATTGAGATTAAGA
Found at i:51807377 original size:26 final size:26
Alignment explanation
Indices: 51807334--51807384 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
51807324 CTCTATTCTG
*
51807334 ACTGTGCACTTCGGTGCAATACTGTA
1 ACTGTGCACTTCGATGCAATACTGTA
* *
51807360 ACTGTGCATTTTGATGCAATACTGT
1 ACTGTGCACTTCGATGCAATACTGT
51807385 GAAAGTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
ACTGTGCACTTCGATGCAATACTGTA
Found at i:51807403 original size:27 final size:26
Alignment explanation
Indices: 51807348--51807409 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
51807338 TGCACTTCGG
*
51807348 TGCAATACTGTAACTGTGCATTTTGA
1 TGCAATACTGTAACTGTGCATTTTCA
*
51807374 TGCAATACTGTGAA-AGTTGCATTTTCA
1 TGCAATACTGT-AACTG-TGCATTTTCA
*
51807401 TGCATTACT
1 TGCAATACT
51807410 ATAATGTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (26 bp):
TGCAATACTGTAACTGTGCATTTTCA
Found at i:51809947 original size:28 final size:29
Alignment explanation
Indices: 51809916--51809975 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
51809906 AAAGTGATTT
*
51809916 TTGACAAAAATGTCAATT-AG-GGATTAAA
1 TTGACAAAAATGTAAATTGAGAGG-TTAAA
* *
51809944 TTGAGAAAAGTGTAAATTGAGAGGTTAAA
1 TTGACAAAAATGTAAATTGAGAGGTTAAA
51809973 TTG
1 TTG
51809976 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 10 0.37
30 2 0.07
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGAGGTTAAA
Found at i:51810511 original size:43 final size:43
Alignment explanation
Indices: 51810464--51810631 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
51810454 ATCAAGATGT
* *
51810464 GATTACATGTAAGACCATGTCTGGGACATTGACATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
** * * *
51810507 GATTATGTGTAAGACCATGTCTGGGACATTGGCATCATACAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TTGA
* * * * *
51810550 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * * *
51810593 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
51810632 GAGCTTATGT
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 9 0.09
43 90 0.90
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:51812062 original size:56 final size:55
Alignment explanation
Indices: 51811999--51812105 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
51811989 CTGACTTGTT
* * * **
51811999 CACACGGCCACAAGACACGCCCGTGTGCTTTGGCCGTGGTTGAATCTGACTTGGGC
1 CACACGGCCA-AACACACGCCCGTGTGCCTTGGCCGTAGTCCAATCTGACTTGGGC
* * *
51812055 CACACGGCTAACCACATGCCCGTGTGCCTTGGCCGTAGTCCAATCTGACTT
1 CACACGGCCAAACACACGCCCGTGTGCCTTGGCCGTAGTCCAATCTGACTT
51812106 ACAATTGTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
55 34 0.79
56 9 0.21
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.22
Consensus pattern (55 bp):
CACACGGCCAAACACACGCCCGTGTGCCTTGGCCGTAGTCCAATCTGACTTGGGC
Found at i:51816793 original size:18 final size:18
Alignment explanation
Indices: 51816770--51816806 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51816760 TATAGTTTGA
* *
51816770 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
51816788 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
51816806 T
1 T
51816807 CGAAAACTCA
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:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:51821817 original size:19 final size:21
Alignment explanation
Indices: 51821793--51821832 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
51821783 TACATCATTT
51821793 TAATATATTA-AATT-TTAAA
1 TAATATATTAGAATTATTAAA
51821812 TAATATATTAGAATTATTAAA
1 TAATATATTAGAATTATTAAA
51821833 AAACATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TAATATATTAGAATTATTAAA
Found at i:51829702 original size:20 final size:20
Alignment explanation
Indices: 51829674--51829712 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51829664 ATTAACAATT
51829674 TATAATTTT-TTAGATTTTTA
1 TATAATTTTATTA-ATTTTTA
*
51829694 TATACTTTTATTAATTTTT
1 TATAATTTTATTAATTTTT
51829713 GACTGATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TATAATTTTATTAATTTTTA
Found at i:51834290 original size:18 final size:18
Alignment explanation
Indices: 51834267--51834303 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51834257 GATAGTATAT
51834267 ACTGAAAACAGTAGCAAA
1 ACTGAAAACAGTAGCAAA
* *
51834285 ACTGAAAACTGTAGTAAA
1 ACTGAAAACAGTAGCAAA
51834303 A
1 A
51834304 TTGCGATTTG
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:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (18 bp):
ACTGAAAACAGTAGCAAA
Found at i:51845474 original size:43 final size:42
Alignment explanation
Indices: 51845396--51845476 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 42
51845386 AGTGTTGACT
* * * *
51845396 ACACGGGCTGAGACACGGTCGTGTGTCTTAACCGTGTGAGGG
1 ACACGGCCTGAGACACGGGCGTGTGGCCTAACCGTGTGAGGG
**
51845438 ACACGGCCTGAAGACACGGGCGTGTGGCCTGGCCGTGTG
1 ACACGGCCTG-AGACACGGGCGTGTGGCCTAACCGTGTG
51845477 GTTCGACTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 9 0.28
43 23 0.72
ACGTcount: A:0.17, C:0.25, G:0.40, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGAGACACGGGCGTGTGGCCTAACCGTGTGAGGG
Found at i:51847602 original size:48 final size:48
Alignment explanation
Indices: 51847531--51848009 Score: 521
Period size: 48 Copynumber: 10.0 Consensus size: 48
51847521 TGATACTATG
* *
51847531 GTTATGTGAGCTAGTGTAAGACCATGTTTGGAACGTGGCATCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * ** * *
51847579 GTTATGAGAGCTAGTGTAAGACCATGTTTGGGATATGTTATCAGCGTT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * * * *
51847627 AATATGTGAGCCAGTATAAGACCATGTTTGGAACATAGCATCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * *
51847675 GTTATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGTCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * *
51847723 AATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * *
51847771 GTTATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * * *
51847819 AATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
* * * * * *
51847867 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACAGGGCATTGGCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
** * * * * *
51847915 AATATGTGAG-TCAGTGTAAGATCATGATTGGAACATGGCATCGACTTT
1 GTTATGAGAGCT-AGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
*
51847963 GTTATGAGAGCTAGTGTAAGACCATGTCTGCG-ACATGGCATCGGCAT
1 GTTATGAGAGCTAGTGTAAGACCATGTTTG-GAACATGGCATCGGCAT
51848010 CTTACCCTTT
Statistics
Matches: 344, Mismatches: 84, Indels: 6
0.79 0.19 0.01
Matches are distributed among these distances:
47 1 0.00
48 341 0.99
49 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (48 bp):
GTTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
Found at i:51847697 original size:96 final size:96
Alignment explanation
Indices: 51847533--51848005 Score: 732
Period size: 96 Copynumber: 4.9 Consensus size: 96
51847523 ATACTATGGT
* *
51847533 TATGTGAGCTAGTGTAAGACCATGTTTGGAACGTGGCATCGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* ** * *
51847598 GACCATGTTTGGGATATGTTATC-AGCGTTAA
66 GACCATGTTTGGGACATGGCATCGA-CCTCAA
* *
51847629 TATGTGAGCCAGTATAAGACCATGTTTGGAACATAGCATCGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
*
51847694 GACCATGTTTGGGACATGGCATCGTCCTCAA
66 GACCATGTTTGGGACATGGCATCGACCTCAA
51847725 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
51847790 GACCATGTTTGGGACATGGCATCGACCTCAA
66 GACCATGTTTGGGACATGGCATCGACCTCAA
*
51847821 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* * * *
51847886 GACCATGTCTGGGACAGGGCATTGGCCTCAA
66 GACCATGTTTGGGACATGGCATCGACCTCAA
* * * * *
51847917 TATGTGAGTCAGTGTAAGATCATGATTGGAACATGGCATCGACTTTGTTATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
* *
51847982 GACCATGTCTGCGACATGGCATCG
66 GACCATGTTTGGGACATGGCATCG
51848006 GCATCTTACC
Statistics
Matches: 349, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 349 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAA
GACCATGTTTGGGACATGGCATCGACCTCAA
Found at i:51851981 original size:41 final size:41
Alignment explanation
Indices: 51851887--51852169 Score: 419
Period size: 41 Copynumber: 6.9 Consensus size: 41
51851877 TGTAAAACAT
* *
51851887 AGAGCAATAGCGGCGTTTTTGGT-AAACGCCGCTAAAAA-C
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
51851926 AGAGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
51851967 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * *
51852008 AGAGCATTCGCAGCGCTTTTGGTAAAACGCCGCTAAAAACT
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
51852049 AGAGCATTCGCGGCGCTTTTTGGTAAAATGCCGCTAAAAACC
1 AGAGCATTAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAACC
*
51852091 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
**
51852132 -GAAGCATTAGCGGCGCTTTCCGTAAAACGCCGCTAAAA
1 AG-AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
51852170 GTCATATAAC
Statistics
Matches: 225, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
39 22 0.10
40 15 0.07
41 150 0.67
42 38 0.17
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:51852090 original size:124 final size:122
Alignment explanation
Indices: 51851889--51852169 Score: 413
Period size: 124 Copynumber: 2.3 Consensus size: 122
51851879 TAAAACATAG
* * *
51851889 AGCAATAGCGGCGTTTTTGGT-AAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAA
1 AGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAA
*
51851953 CGCTGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC-A
66 CGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCGA
* * *
51852009 GAGCATTCGCAGCGCTTTTGGTAAAACGCCGCTAAAAACTAGAGCATTCGCGGCGCTTTTTGGTA
1 -AGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAAAC-AGAGCAATAGCGGCGC-TTTTGGTA
* *
51852074 AAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCGA
63 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCGA
* **
51852134 AGCATTAGCGGCGCTTTCCGTAAAACGCCGCTAAAA
1 AGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAA
51852170 GTCATATAAC
Statistics
Matches: 143, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
121 17 0.12
122 16 0.11
123 14 0.10
124 95 0.66
125 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (122 bp):
AGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAA
CGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCGA
Found at i:51852509 original size:15 final size:15
Alignment explanation
Indices: 51852473--51852505 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51852463 TATTTTAAGT
*
51852473 TTTATGGATTATGAG
1 TTTAGGGATTATGAG
51852488 TTTAGGGATTATG-G
1 TTTAGGGATTATGAG
51852502 TTTA
1 TTTA
51852506 AGGGTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATGAG
Found at i:51853347 original size:17 final size:18
Alignment explanation
Indices: 51853325--51853358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51853315 TATTTGTTTT
51853325 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
51853342 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
51853359 TTAAGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:51853480 original size:16 final size:16
Alignment explanation
Indices: 51853459--51853490 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51853449 GCGTTTTTAT
*
51853459 TAAAAATGCCACAAAA
1 TAAAAACGCCACAAAA
51853475 TAAAAACGCCACAAAA
1 TAAAAACGCCACAAAA
51853491 AATCTTACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.22, G:0.06, T:0.09
Consensus pattern (16 bp):
TAAAAACGCCACAAAA
Found at i:51858187 original size:19 final size:19
Alignment explanation
Indices: 51858164--51858210 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
51858154 ATTTAATCTA
*
51858164 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
51858182 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
51858202 ATTTTTATT
1 ATTTTTATT
51858211 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:51860481 original size:42 final size:43
Alignment explanation
Indices: 51860422--51860544 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
51860412 AATTAAGAAG
* * * * *
51860422 TCCGAACTCGTTGAGTGGTCCGGGTTCGTGATATATG-TGGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGCTAGCA
* * *
51860464 TCCGAGCTCGTTGAGTGGTCCGAGATCATTATGGATGCTAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGCTAGCA
* *
51860507 TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGC
51860545 GATACATGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 30 0.43
43 40 0.57
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGCTAGCA
Found at i:51860519 original size:43 final size:43
Alignment explanation
Indices: 51860461--51860544 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
51860451 GATATATGTG
*
51860461 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATTATGGATGCTA
1 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATAATGGATGCTA
*
51860504 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTTGAGTGGTCCGAGATCATAATGGATGC
51860545 GATACATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCGAGATCATAATGGATGCTA
Found at i:51865246 original size:29 final size:29
Alignment explanation
Indices: 51865213--51865295 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 29
51865203 AATTTCACAT
*
51865213 ACCTGTATCTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* *
51865242 ACCTGTATATGGTCCGTTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * * *
51865271 ACATTTATGTGGCCCATTAGTCCCA
1 ACCTGTATATGGCCCATTAGGCCCA
51865296 GTCAAATTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:51865679 original size:20 final size:20
Alignment explanation
Indices: 51865654--51865695 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
51865644 CTACAATCAA
51865654 TATCACTCAAAGATTAATCT
1 TATCACTCAAAGATTAATCT
51865674 TATCACTCAAAGATTAATCT
1 TATCACTCAAAGATTAATCT
51865694 TA
1 TA
51865696 CATACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (20 bp):
TATCACTCAAAGATTAATCT
Found at i:51867053 original size:46 final size:46
Alignment explanation
Indices: 51867000--51867172 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
51866990 TGGTTGAGCA
*
51867000 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
51867046 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
51867093 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
51867139 CCCGAGCTGGTTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51867173 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:51867156 original size:93 final size:93
Alignment explanation
Indices: 51866997--51867167 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
51866987 GGATGGTTGA
* * *
51866997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
51867062 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
51867090 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
51867155 TGAGTCCTAGTTC
66 TGAGTCCGAGTTC
51867168 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51873344 original size:43 final size:43
Alignment explanation
Indices: 51873281--51873540 Score: 246
Period size: 43 Copynumber: 6.1 Consensus size: 43
51873271 AAACCATATT
* * *
51873281 TGGGACATTGGCATTGATATGTGATTACGTGAAAGACCCTGTC
1 TGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCCTGTC
* ** *
51873324 TAGGACAGTAACATCGATATGTG-TTCTCGTGTAAGACCCTGTC
1 TGGGACAGTGGCATCGATATGTGATT-ACGTGTAAGACCCTGTC
* *
51873367 TGGGACAGTGGCATCGATATGTG-TTCTCGTGTAAGACAC-GTC
1 TGGGACAGTGGCATCGATATGTGATT-ACGTGTAAGACCCTGTC
* * *
51873409 TGGGAC-GTTGGCATCAATATGTGATTACGTGTAAAACCATGTC
1 TGGGACAG-TGGCATCGATATGTGATTACGTGTAAGACCCTGTC
* * ** * *
51873452 TAGGACA-TCG-ATATTATATTTGATTA-GTGTAAGACCCTATC
1 TGGGACAGTGGCAT-CGATATGTGATTACGTGTAAGACCCTGTC
* * *
51873493 TGGGATAGTGGCATCGATATGTGATTACATGTAAGACCATGTC
1 TGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCCTGTC
51873536 TGGGA
1 TGGGA
51873541 TGTTGGCATT
Statistics
Matches: 175, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
41 20 0.11
42 58 0.33
43 97 0.55
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGGGACAGTGGCATCGATATGTGATTACGTGTAAGACCCTGTC
Found at i:51873743 original size:19 final size:18
Alignment explanation
Indices: 51873719--51873762 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
51873709 GATACAAATT
51873719 ATATATGATGCAAATGAAA
1 ATATAT-ATGCAAATGAAA
* *
51873738 ATATATATGTATATGAAA
1 ATATATATGCAAATGAAA
51873756 AGTATAT
1 A-TATAT
51873763 TCGGCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (18 bp):
ATATATATGCAAATGAAA
Found at i:51878631 original size:46 final size:45
Alignment explanation
Indices: 51878581--51878756 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
51878571 TGTTTGGGCA
*
51878581 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
51878627 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
51878674 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
51878720 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51878757 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:51878736 original size:93 final size:93
Alignment explanation
Indices: 51878577--51878748 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
51878567 AGGATGTTTG
* * *
51878577 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51878642 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
51878670 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51878735 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51878749 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:51881442 original size:15 final size:15
Alignment explanation
Indices: 51881422--51881490 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
51881412 ATATCTTGGG
51881422 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
51881437 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
51881452 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
51881467 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
51881482 TTTCTTTAT
1 TTTCTTTAT
51881491 TTCGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:51881491 original size:30 final size:30
Alignment explanation
Indices: 51881413--51881491 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
51881403 CATAGTATCA
* * *
51881413 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
51881443 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
51881473 TATCTTGGATTTCTTTATT
1 TATCTTGGATTTCTTTATT
51881492 TCGTTTTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:51883934 original size:46 final size:45
Alignment explanation
Indices: 51883884--51884059 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
51883874 TGTTTGGGCA
51883884 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
51883930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
51883977 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
51884023 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51884060 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:51884039 original size:93 final size:93
Alignment explanation
Indices: 51883880--51884051 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
51883870 AGGATGTTTG
* *
51883880 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51883945 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
51883973 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51884038 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51884052 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:51887419 original size:43 final size:42
Alignment explanation
Indices: 51887372--51887569 Score: 172
Period size: 43 Copynumber: 4.6 Consensus size: 42
51887362 TGTGTTCTCA
* * *
51887372 TGTAAGACCACATCTGGGACGTTGGCATTGATATGTGATTACG
1 TGTAAGACC-CGTCTGGGAAGTTGGCATCGATATGTGATTACG
51887415 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATGTGATTACG
1 TGTAAGACCC-GTCTGGGA-AGTTGGCATCGATATGTGATTACG
* * * * *
51887458 TGTAAGACCTTGTCTAGGACA-TCGGTATCG-TATTTGATTA-G
1 TGTAAGACC-CGTCTGGGA-AGTTGGCATCGATATGTGATTACG
* *
51887499 TGTAAGACCCTATCTGGGATAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCC-GTCTGGGA-AGTTGGCATCGATATGTGATTACG
* * *
51887542 TGTAAGACCATGTTTGGGATGTTGGCAT
1 TGTAAGACC-CGTCTGGGAAGTTGGCAT
51887570 TGTACGATAT
Statistics
Matches: 124, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
41 23 0.19
42 20 0.16
43 80 0.65
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCGTCTGGGAAGTTGGCATCGATATGTGATTACG
Found at i:51887773 original size:18 final size:20
Alignment explanation
Indices: 51887742--51887782 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
51887732 ACAAATTATT
51887742 TATGATGCAAATGAAAA-TA
1 TATGATGCAAATGAAAAGTA
*
51887761 TATG-TGCATATGAAAAGTA
1 TATGATGCAAATGAAAAGTA
51887780 TAT
1 TAT
51887783 TAGGCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (20 bp):
TATGATGCAAATGAAAAGTA
Found at i:51891403 original size:13 final size:13
Alignment explanation
Indices: 51891385--51891409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51891375 TCCAAGCCAA
51891385 TTGCCACCCTTAT
1 TTGCCACCCTTAT
51891398 TTGCCACCCTTA
1 TTGCCACCCTTA
51891410 ACATGGCATA
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:0.16, C:0.40, G:0.08, T:0.36
Consensus pattern (13 bp):
TTGCCACCCTTAT
Found at i:51894626 original size:28 final size:28
Alignment explanation
Indices: 51894586--51894643 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
51894576 CAGCCGTGTG
51894586 ACCCTAGACTACACAACATCAATTTTTT
1 ACCCTAGACTACACAACATCAATTTTTT
51894614 ACCCTAGACTACACAACATCAATTTTTT
1 ACCCTAGACTACACAACATCAATTTTTT
51894642 AC
1 AC
51894644 ATTGTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (28 bp):
ACCCTAGACTACACAACATCAATTTTTT
Found at i:51902727 original size:3 final size:3
Alignment explanation
Indices: 51902721--51902759 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
51902711 CACAACAAGA
51902721 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
51902760 GGTAGTGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:51908961 original size:30 final size:30
Alignment explanation
Indices: 51908925--51908993 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
51908915 ATGGGGTAAG
*
51908925 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACAGCCTAGACACACGC
51908955 CCGTGTGTCACACACAGCCTAGACACACGC
1 CCGTGTGTCACACACAGCCTAGACACACGC
51908985 CCGTGTGTC
1 CCGTGTGTC
51908994 TACCCGTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.39, G:0.23, T:0.16
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCCTAGACACACGC
Found at i:51909855 original size:43 final size:42
Alignment explanation
Indices: 51909793--51909954 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 42
51909783 TACCATACCA
* ****
51909793 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* *
51909835 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * * * * *
51909878 ATGCCATATCACAGATATGGTCTTACGCGAAGTCGCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* *
51909920 ATGTCATATCCCAGATATGGTCTTACACATAATCT
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCT
51909955 TAGTAACCCT
Statistics
Matches: 97, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 62 0.64
43 35 0.36
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:51909917 original size:85 final size:84
Alignment explanation
Indices: 51909793--51909954 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 84
51909783 TACCATACCA
* * * * * *
51909793 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCACAGATATGGTCTTATACGGAATCGCATATAGATGCC-ATAGCCCAGATATGGTC
51909858 TTACACAAAATCTCATATCG
65 TTACACAAAATCTCATATCG
* *
51909878 ATGCCATATCACAGATATGGTC-T-TACGCGAAGTCGCATATAGATGTCATATCCCAGATATGGT
1 ATGCCATATCACAGATATGGTCTTATACG-GAA-TCGCATATAGATGCCATAGCCCAGATATGGT
*
51909941 CTTACACATAATCT
64 CTTACACAAAATCT
51909955 TAGTAACCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
83 3 0.05
84 30 0.45
85 33 0.50
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (84 bp):
ATGCCATATCACAGATATGGTCTTATACGGAATCGCATATAGATGCCATAGCCCAGATATGGTCT
TACACAAAATCTCATATCG
Found at i:51914923 original size:23 final size:23
Alignment explanation
Indices: 51914893--51915015 Score: 128
Period size: 23 Copynumber: 5.4 Consensus size: 23
51914883 CTGATGAACA
51914893 GTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCTATTGAGCTGAAATG
51914916 GTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCTATTGAGCTGAAATG
*
51914939 ATAAGCTCTATTGAGCTGAACA--
1 GTAAGCTCTATTGAGCTGAA-ATG
* *
51914961 GTAAGTTCT-TTCAAGCT-AAATCG
1 GTAAGCTCTATT-GAGCTGAAAT-G
* * * *
51914984 ATAAGCTCAAATGAGCTGAAATA
1 GTAAGCTCTATTGAGCTGAAATG
51915007 GTAAGCTCT
1 GTAAGCTCT
51915016 TCCGAGCTGT
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.01
21 4 0.05
22 11 0.14
23 59 0.73
24 6 0.07
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAATG
Found at i:51914964 original size:68 final size:68
Alignment explanation
Indices: 51914887--51915015 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
51914877 CCTGTGCTGA
* * * *
51914887 TGAACAGTAAGCTCTATT-GAGCTGAAAT-GGTAAGCTCTATTGAGCTGAAAT-GATAAGCTCTA
1 TGAACAGTAAGCTCT-TTCAAGCT-AAATCGATAAGCTCAAATGAGCTGAAATAG-TAAGCTCTA
51914949 TTGAGC
63 TTGAGC
*
51914955 TGAACAGTAAGTTCTTTCAAGCTAAATCGATAAGCTCAAATGAGCTGAAATAGTAAGCTCT
1 TGAACAGTAAGCTCTTTCAAGCTAAATCGATAAGCTCAAATGAGCTGAAATAGTAAGCTCT
51915016 TCCGAGCTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
67 6 0.11
68 46 0.87
69 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (68 bp):
TGAACAGTAAGCTCTTTCAAGCTAAATCGATAAGCTCAAATGAGCTGAAATAGTAAGCTCTATTG
AGC
Found at i:51914989 original size:45 final size:45
Alignment explanation
Indices: 51914894--51915015 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
51914884 TGATGAACAG
*
51914894 TAAGCTCTATTGAGCTGAAATGGTAAGCTCTATTGAGCTGAAATGA
1 TAAGCTCTATTGAGCTGAAA-GGTAAGCTCTATTAAGCTGAAATGA
*
51914940 TAAGCTCTATTGAGCTGAACA-GTAAGTTCT-TTCAAGCT-AAATCGA
1 TAAGCTCTATTGAGCTGAA-AGGTAAGCTCTATT-AAGCTGAAAT-GA
* * *
51914985 TAAGCTCAAATGAGCTGAAATAGTAAGCTCT
1 TAAGCTCTATTGAGCTGAAA-GGTAAGCTCT
51915016 TCCGAGCTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
44 7 0.11
45 31 0.47
46 27 0.41
47 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (45 bp):
TAAGCTCTATTGAGCTGAAAGGTAAGCTCTATTAAGCTGAAATGA
Found at i:51915967 original size:27 final size:27
Alignment explanation
Indices: 51915929--51915982 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
51915919 CTTACTTCAT
51915929 CTACAAGAATCTCCATTATTATAATCA
1 CTACAAGAATCTCCATTATTATAATCA
51915956 CTACAAGAATCTCCATTATTATAATCA
1 CTACAAGAATCTCCATTATTATAATCA
51915983 AACTCGCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (27 bp):
CTACAAGAATCTCCATTATTATAATCA
Found at i:51922773 original size:21 final size:21
Alignment explanation
Indices: 51922747--51922789 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51922737 GTGACTAATC
51922747 GTCACTGGTCTAGATTCAGTA
1 GTCACTGGTCTAGATTCAGTA
51922768 GTCACTGGTCTAGATTCAGTA
1 GTCACTGGTCTAGATTCAGTA
51922789 G
1 G
51922790 GCGCTGTCCC
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:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (21 bp):
GTCACTGGTCTAGATTCAGTA
Found at i:51928856 original size:42 final size:44
Alignment explanation
Indices: 51928778--51928878 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 44
51928768 CCAAGACGTA
*
51928778 GTCTTACATGT-AATCAAATATCGATGCCACTGTCCCAGACAGG
1 GTCTTACACGTAAATCAAATATCGATGCCACTGTCCCAGACAGG
* *
51928821 GTTTTACACG-AAATCAAATA-CGATGCCGA-TGTCCCAGACATG
1 GTCTTACACGTAAATCAAATATCGATGCC-ACTGTCCCAGACAGG
51928863 GTCTTACACGTAAATC
1 GTCTTACACGTAAATC
51928879 GTAAGTTGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
GTCTTACACGTAAATCAAATATCGATGCCACTGTCCCAGACAGG
Found at i:51928878 original size:43 final size:43
Alignment explanation
Indices: 51928758--51928878 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
51928748 AGCTGGTACA
* * * *
51928758 ATGCCAATGTCCAAGACGTAGTCTTACATGT-AATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
51928801 ATGCCACTGTCCCAGACAGGGTTTTACACG-AAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
51928843 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATC
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATC
51928879 GTAAGTTGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:51930485 original size:23 final size:23
Alignment explanation
Indices: 51930455--51930563 Score: 102
Period size: 23 Copynumber: 4.8 Consensus size: 23
51930445 TCGATGAACA
51930455 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
51930478 GTAAGCTCTATTGAGCTGAATA--
1 GTAAGCTCTATTGAGCTGAA-ACG
*
51930500 GTAAGATCT-TTCGAGCT-AAATCG
1 GTAAGCTCTATT-GAGCTGAAA-CG
* * * *
51930523 GTAAGCTCAAATGAGCCGAAACA
1 GTAAGCTCTATTGAGCTGAAACG
51930546 GTAAGCTCT-TCTGAGCTG
1 GTAAGCTCTAT-TGAGCTG
51930564 TAGTCAGTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.01
21 4 0.06
22 13 0.19
23 46 0.67
24 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:51930538 original size:45 final size:45
Alignment explanation
Indices: 51930449--51930563 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 45
51930439 CCTGAGTCGA
* * *
51930449 TGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAAGATCTATTGAGCTGAAACGGTAAGCTCAAATGAGC
*
51930494 TGAATAGTAAGATCT-TTCGAGCT-AAATCGGTAAGCTCAAATGAGC
1 TGAACAGTAAGATCTATT-GAGCTGAAA-CGGTAAGCTCAAATGAGC
* *
51930539 CGAAACAGTAAGCTCT-TCTGAGCTG
1 TG-AACAGTAAGATCTAT-TGAGCTG
51930564 TAGTCAGTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
44 5 0.09
45 35 0.60
46 17 0.29
47 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (45 bp):
TGAACAGTAAGATCTATTGAGCTGAAACGGTAAGCTCAAATGAGC
Found at i:51938292 original size:21 final size:24
Alignment explanation
Indices: 51938247--51938296 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
51938237 GAGACAAATG
*
51938247 AATTGGTATGCTTTTAGTCTATGA
1 AATTGGTATGCTTTTAGTATATGA
51938271 AATTGGTATGC-TTT-G-ATATGA
1 AATTGGTATGCTTTTAGTATATGA
51938292 AATTG
1 AATTG
51938297 ATTGGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 3 0.12
24 11 0.44
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (24 bp):
AATTGGTATGCTTTTAGTATATGA
Found at i:51944702 original size:25 final size:24
Alignment explanation
Indices: 51944674--51944725 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 24
51944664 CCAAAGATAG
51944674 CTTCCTTACTTCCCACTCATTATAA
1 CTTCCTTACTTCCCACTCATT-TAA
51944699 CTTCCTTACTTCCCACTCATTTAA
1 CTTCCTTACTTCCCACTCATTTAA
51944723 CTT
1 CTT
51944726 ATTTCGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (24 bp):
CTTCCTTACTTCCCACTCATTTAA
Found at i:51959024 original size:48 final size:48
Alignment explanation
Indices: 51958953--51959047 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
51958943 TTATCAAAAT
51958953 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATCAT-TTTCATTCTAA
1 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCAT-ATGTTTCATTCTAA
*
51959001 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATTTGTTTCATTCTA
1 AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATATGTTTCATTCTA
51959048 TCTTTCCATA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (48 bp):
AAGTCAAAATTAAAGAAAAGAAAATGGCTATCATATGTTTCATTCTAA
Found at i:51962050 original size:26 final size:26
Alignment explanation
Indices: 51961985--51962060 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
51961975 AAAAGCATCT
* *
51961985 AAATTACTATAATACCCTTATGTATGAA
1 AAATTACTATTATACCCTTA-G-GTGAA
*
51962013 AAATTACTATTATACCCTTAGGTGCA
1 AAATTACTATTATACCCTTAGGTGAA
* *
51962039 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCTTAGG
51962061 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.53
27 1 0.02
28 19 0.44
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATTACTATTATACCCTTAGGTGAA
Found at i:51962204 original size:27 final size:26
Alignment explanation
Indices: 51962164--51962329 Score: 179
Period size: 27 Copynumber: 6.2 Consensus size: 26
51962154 AGGAAGCGTC
* *
51962164 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
51962191 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
51962218 TTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
51962245 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
51962272 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * * *
51962300 CTAGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
51962326 CTGG
1 CTGG
51962330 CAGCCATGCT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
26 8 0.07
27 91 0.78
28 18 0.15
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:51962247 original size:54 final size:54
Alignment explanation
Indices: 51962164--51962329 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
51962154 AGGAAGCGTC
*
51962164 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
* *
51962218 TTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
51962272 CTGGTGGCTCTGCCACGATTATCTATATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACGATTATCTA-ATCTGGTGGCTCTGCCACATATATCTGTT
51962326 CTGG
1 CTGG
51962330 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 85 0.83
55 17 0.17
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:51962344 original size:81 final size:81
Alignment explanation
Indices: 51962190--51962351 Score: 177
Period size: 81 Copynumber: 2.0 Consensus size: 81
51962180 AATTATCTAA
* * * * **
51962190 TCTGGTGGCTCTGCCACATATATCTGTTTTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTC
1 TCTGGTGGCTCTGCCACATATATCTATTCTAGTGACTATGCCACGATTATCTGATCTGGCAGCTC
51962255 TGCCACATATATCTGT
66 TGCCACATATATCTGT
* * *
51962271 TCTGGTGGCTCTGCCACGAT-TATCTATATCTAGTGACTCTGTCAC-ATTATCTGTTCTGGCAGC
1 TCTGGTGGCTCTGCCAC-ATATATCTAT-TCTAGTGACTATGCCACGATTATCTGATCTGGCAGC
* *
51962334 -CATGCTACATATTTCTGT
64 TC-TGCCACATATATCTGT
51962352 GGTGTGTAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
80 1 0.01
81 52 0.78
82 14 0.21
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (81 bp):
TCTGGTGGCTCTGCCACATATATCTATTCTAGTGACTATGCCACGATTATCTGATCTGGCAGCTC
TGCCACATATATCTGT
Found at i:51966138 original size:38 final size:38
Alignment explanation
Indices: 51966090--51966288 Score: 346
Period size: 38 Copynumber: 5.3 Consensus size: 38
51966080 GGCTCAAAGG
* * *
51966090 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
51966128 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
51966166 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
51966204 CCCGGATATAATA-CAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
51966241 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
51966279 CCCGGATATA
1 CCCGGATATA
51966289 CATCGAATAT
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
37 35 0.23
38 118 0.77
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:51966260 original size:75 final size:76
Alignment explanation
Indices: 51966090--51966288 Score: 346
Period size: 75 Copynumber: 2.6 Consensus size: 76
51966080 GGCTCAAAGG
* * *
51966090 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
51966155 GCGGGATTTAA
66 GCGGGATTTAA
* *
51966166 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGATATAATA-CAGCACGAAGCTT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
51966230 GCGGGATTTAA
66 GCGGGATTTAA
51966241 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
51966289 CATCGAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 70 0.60
76 47 0.40
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:51973652 original size:27 final size:26
Alignment explanation
Indices: 51973620--51973768 Score: 172
Period size: 27 Copynumber: 5.5 Consensus size: 26
51973610 CTATGCTAGA
*
51973620 ATTATCTGATCTAGTGGCTCTGCCAC
1 ATTATCTGATCTGGTGGCTCTGCCAC
* *
51973646 ATATATCTGTTCTGGTGGCTATGCCAC
1 AT-TATCTGATCTGGTGGCTCTGCCAC
*
51973673 GATTATCTGATCTGGTGGCTCTGCCAT
1 -ATTATCTGATCTGGTGGCTCTGCCAC
* *
51973700 ATATATCTGTTATGGTGGCTCTGCCAC
1 AT-TATCTGATCTGGTGGCTCTGCCAC
* *
51973727 GATTATCTGTATCTGGTGGCTTTGTCAC
1 -ATTATCTG-ATCTGGTGGCTCTGCCAC
*
51973755 ATTATCTGTTCTGG
1 ATTATCTGATCTGG
51973769 CAGCCATGCT
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.09
27 77 0.74
28 18 0.17
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
ATTATCTGATCTGGTGGCTCTGCCAC
Found at i:51973685 original size:54 final size:54
Alignment explanation
Indices: 51973603--51973768 Score: 237
Period size: 54 Copynumber: 3.1 Consensus size: 54
51973593 AGGAAGCGTC
* *
51973603 CTGGTGGCTATGCTA-GAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACG-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
51973657 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
51973711 ATGGTGGCTCTGCCACGATTATCTGTATCTGGTGGCTTTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
51973765 CTGG
1 CTGG
51973769 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
54 83 0.82
55 18 0.18
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:51976791 original size:14 final size:14
Alignment explanation
Indices: 51976754--51976785 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
51976744 GTCAATTTCA
*
51976754 TATTTAATATTTAG
1 TATTTAGTATTTAG
51976768 TATTTAGTATTTAG
1 TATTTAGTATTTAG
51976782 TATT
1 TATT
51976786 ATGTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (14 bp):
TATTTAGTATTTAG
Found at i:51976856 original size:241 final size:237
Alignment explanation
Indices: 51976377--51976858 Score: 774
Period size: 241 Copynumber: 2.0 Consensus size: 237
51976367 TTAAATAAGT
* *
51976377 GGAACCATTTGTTGAGTTACGGGGGAATACCTATTGCTCTTGAAGATATACGACTTCTATTAGAC
1 GGAACCATTTGTTGAGTTACGAGGGAATACCTACTGCTCTTGAAGATATACGACTTCTATTAGAC
51976442 CAACGATTGGAAGCGCATGTAAGTATTTATTTCATTTTGAACTATATATACACATAACACAGTCA
66 CAACGATTGGAAGCGCATGTAAGTATTTATTTCATTTTGAACTATATATACACATAACACAGTCA
51976507 ATTTCATATTTAATATTTAGTATTTAGTATTATGTATATAACTAATATTTTATCACGTTTATATA
131 ATTTCATATTTAATATTTAGTATTTAGTATTATGTATATAACTAATATTTTATCACGTTTATATA
51976572 GTTTTAATGGAAACCATACGAGGATTCGGCAATTCGACAATTCGGG
196 GTTTTAATGGAAACCATACGA-GA-T-GG-AATTCGACAATTCGGG
*
51976618 GGAACCATTTGTTGAGTTACGAGGGAATACCTACTGCTCTTGAAGATATACGGCTTCTATTAGAC
1 GGAACCATTTGTTGAGTTACGAGGGAATACCTACTGCTCTTGAAGATATACGACTTCTATTAGAC
*
51976683 CAACGGTTGGAAGCGCATGTAAGTATTTATTTCATTTTGAACTATATATACACATAACACAGTCA
66 CAACGATTGGAAGCGCATGTAAGTATTTATTTCATTTTGAACTATATATACACATAACACAGTCA
*
51976748 ATTTCATATTTAATATTTAGTATTTAGTATTTAGTATTATGTATATAACTAATATTTTTATCATG
131 ATTTCATA-TT--TA---A-TATTTAGTATTTAGTATTATGTATATAACTAATA-TTTTATCACG
*
51976813 TTTATATAGTTTTAATGGAAACCATAC-A-A-GG-ATTCGGCAATTCGGG
188 TTTATATAGTTTTAATGGAAACCATACGAGATGGAATTCGACAATTCGGG
51976859 CAGTAAATAT
Statistics
Matches: 227, Mismatches: 6, Indels: 16
0.91 0.02 0.06
Matches are distributed among these distances:
241 148 0.65
242 2 0.01
243 2 0.01
244 2 0.01
246 1 0.00
247 1 0.00
248 35 0.15
249 36 0.16
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (237 bp):
GGAACCATTTGTTGAGTTACGAGGGAATACCTACTGCTCTTGAAGATATACGACTTCTATTAGAC
CAACGATTGGAAGCGCATGTAAGTATTTATTTCATTTTGAACTATATATACACATAACACAGTCA
ATTTCATATTTAATATTTAGTATTTAGTATTATGTATATAACTAATATTTTATCACGTTTATATA
GTTTTAATGGAAACCATACGAGATGGAATTCGACAATTCGGG
Found at i:51978774 original size:19 final size:19
Alignment explanation
Indices: 51978747--51978847 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 19
51978737 AATTTTAATT
51978747 AAAAA-ATATAAAATATTA
1 AAAAATATATAAAATATTA
51978765 AAAAATATATAAAAT-TCGTA
1 AAAAATATATAAAATAT--TA
* *
51978785 ATAAATATAAAAATATATTA
1 AAAAATATATAAA-ATATTA
*
51978805 AAAAAT-TATAAAATTTTA
1 AAAAATATATAAAATATTA
51978823 TAAAAATCATA-AAAA-ATTA
1 -AAAAAT-ATATAAAATATTA
*
51978842 TAAAAT
1 AAAAAT
51978848 TGCATAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
18 16 0.24
19 23 0.34
20 24 0.35
21 4 0.06
22 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATATATAAAATATTA
Found at i:51978780 original size:40 final size:37
Alignment explanation
Indices: 51978726--51978848 Score: 122
Period size: 39 Copynumber: 3.2 Consensus size: 37
51978716 TAAAAGTTAT
* *
51978726 AAAAGTTATTAAATTTTAATTAAAAAATATAAAATATTA
1 AAAAATTATAAAATTTTAA-T-AAAAATATAAAATATTA
* * *
51978765 AAAAATATATAAAATTCGTAATAAATATAAAAATATATTA
1 AAAAAT-TATAAAATT-TTAATAAAAATATAAA-ATATTA
*
51978805 AAAAATTATAAAATTTT-ATAAAAATCATAAAAAATTA
1 AAAAATTATAAAATTTTAATAAAAAT-ATAAAATATTA
*
51978842 TAAAATT
1 AAAAATT
51978849 GCATAAAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
37 18 0.26
38 5 0.07
39 23 0.33
40 21 0.30
41 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (37 bp):
AAAAATTATAAAATTTTAATAAAAATATAAAATATTA
Found at i:51978844 original size:10 final size:10
Alignment explanation
Indices: 51978746--51978846 Score: 63
Period size: 10 Copynumber: 10.5 Consensus size: 10
51978736 AAATTTTAAT
51978746 TAAAAAA-TA
1 TAAAAAATTA
*
51978755 TAAAATA-T-
1 TAAAAAATTA
51978763 TAAAAAA-TA
1 TAAAAAATTA
* *
51978772 TATAAAATTCG
1 TAAAAAATT-A
*
51978783 TAATAAA-TA
1 TAAAAAATTA
51978792 T-AAAAATATA
1 TAAAAAAT-TA
51978802 TTAAAAAATTA
1 -TAAAAAATTA
**
51978813 TAAAATTTTA
1 TAAAAAATTA
*
51978823 T-AAAAATCA
1 TAAAAAATTA
51978832 TAAAAAATTA
1 TAAAAAATTA
51978842 TAAAA
1 TAAAA
51978847 TTGCATAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
8 11 0.16
9 20 0.29
10 25 0.36
11 8 0.11
12 6 0.09
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:51978856 original size:19 final size:19
Alignment explanation
Indices: 51978743--51978859 Score: 75
Period size: 19 Copynumber: 6.2 Consensus size: 19
51978733 ATTAAATTTT
51978743 AATTA-AAAAAT-ATAAAA
1 AATTATAAAAATCATAAAA
* *
51978760 TATTA-AAAAAT-ATATAA
1 AATTATAAAAATCATAAAA
*
51978777 AATTCGTAATAAAT-AT-AAA
1 AATT-ATAA-AAATCATAAAA
*
51978796 AATATATTAAAAAATTATAAAA
1 AAT-TA-T-AAAAATCATAAAA
**
51978818 TTTTATAAAAATCATAAAA
1 AATTATAAAAATCATAAAA
*
51978837 AATTATAAAATTGCATAAAA
1 AATTATAAAAAT-CATAAAA
51978857 AAT
1 AAT
51978860 GCCCTTTAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
17 18 0.23
19 28 0.35
20 23 0.29
21 6 0.08
22 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AATTATAAAAATCATAAAA
Found at i:51979200 original size:10 final size:10
Alignment explanation
Indices: 51979132--51979205 Score: 50
Period size: 10 Copynumber: 7.8 Consensus size: 10
51979122 ATTTTGCAAT
51979132 TTTTTA-TAA
1 TTTTTATTAA
51979141 TTTTTAATTAA
1 TTTTT-ATTAA
51979152 -TTTTA--AA
1 TTTTTATTAA
*
51979159 TTTTAATTAA
1 TTTTTATTAA
** * *
51979169 AATTTAATCA
1 TTTTTATTAA
51979179 TTTTTA-TAA
1 TTTTTATTAA
*
51979188 TTTTTATTGA
1 TTTTTATTAA
51979198 TTTTTATT
1 TTTTTATT
51979206 TTTTACCATT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 14 0.29
10 26 0.53
11 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:51993069 original size:14 final size:14
Alignment explanation
Indices: 51993047--51993085 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
51993037 TGAATCATAA
*
51993047 AATAATATATTATT
1 AATAATATAATATT
*
51993061 AATATTATAATATT
1 AATAATATAATATT
51993075 -ATAATATAATA
1 AATAATATAATA
51993086 ATAAAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAATATAATATT
Found at i:51993073 original size:8 final size:8
Alignment explanation
Indices: 51993053--51993088 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
51993043 ATAAAATAAT
51993053 ATATTATTA
1 ATATTA-TA
51993062 ATATTATA
1 ATATTATA
51993070 ATATTATA
1 ATATTATA
*
51993078 ATATAATA
1 ATATTATA
51993086 ATA
1 ATA
51993089 AAAATCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATATTATA
Found at i:51993144 original size:22 final size:22
Alignment explanation
Indices: 51993114--51993170 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
51993104 TATATTTATT
* *
51993114 TATTATTTACTATTGTTAAATA
1 TATTTTTTACTATTCTTAAATA
**
51993136 TATTTTTTA-TATTCTTACTTA
1 TATTTTTTACTATTCTTAAATA
*
51993157 TATTTTTTTCTATT
1 TATTTTTTACTATT
51993171 ATGTTATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTTTTTACTATTCTTAAATA
Found at i:52004163 original size:39 final size:39
Alignment explanation
Indices: 52004109--52004186 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
52004099 TTAATACATC
*
52004109 TTATACATATACACTACATCAATTACACTATTTCATTCA
1 TTATACATATACACTACATCAATTACACCATTTCATTCA
*
52004148 TTATATATATACACTACATCAATTACACCATTTCATTCA
1 TTATACATATACACTACATCAATTACACCATTTCATTCA
52004187 AACGCACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (39 bp):
TTATACATATACACTACATCAATTACACCATTTCATTCA
Found at i:52008309 original size:57 final size:56
Alignment explanation
Indices: 52008240--52008375 Score: 166
Period size: 57 Copynumber: 2.4 Consensus size: 56
52008230 CTATTAGCAT
**
52008240 ATACCAATTTCACATAATTCATTCCT-ATATCAAATTCTATTATCAATCCATAAGTTC
1 ATACCAATTTCACATAATTCATT-CTAATATCAAATTCTATTATCAAT-CATAAACTC
* * *
52008297 ATACCAATTTCACATAATTCATTTTAATTTTAAATTCTATTATCAATCATAAACTC
1 ATACCAATTTCACATAATTCATTCTAATATCAAATTCTATTATCAATCATAAACTC
* * * *
52008353 ATACAAAATTCACGTATTTCATT
1 ATACCAATTTCACATAATTCATT
52008376 TCAATTTCAT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 27 0.39
57 42 0.61
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.40
Consensus pattern (56 bp):
ATACCAATTTCACATAATTCATTCTAATATCAAATTCTATTATCAATCATAAACTC
Found at i:52008395 original size:56 final size:57
Alignment explanation
Indices: 52008248--52008397 Score: 149
Period size: 56 Copynumber: 2.6 Consensus size: 57
52008238 ATATACCAAT
* * * * * ** * *
52008248 TTCACATAATTCATTCCTATATCAAATTCTATTATCAATCCATAAGTTCATACCAAT
1 TTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTCATACAAAA
* * * *
52008305 TTCACATAATTCATTTTAATTTTAAATTCTATTATCAAT-CATAAACTCATACAAAA
1 TTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTCATACAAAA
* * *
52008361 TTCACGTATTTCATTTCAATTTCATACTCCATTATCA
1 TTCACATAATTCATTTCAATTTCAAACTCCATTATCA
52008398 TTTTATAAGA
Statistics
Matches: 77, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
56 43 0.56
57 34 0.44
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (57 bp):
TTCACATAATTCATTTCAATTTCAAACTCCATTATCAATCCATAAACTCATACAAAA
Found at i:52008844 original size:38 final size:38
Alignment explanation
Indices: 52008793--52008868 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52008783 GGTTACTTCG
52008793 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
1 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
52008831 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
1 CATTTTTACATCCTAAATCATTCACATTCACATATTCA
52008869 TACTGTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (38 bp):
CATTTTTACATCCTAAATCATTCACATTCACATATTCA
Found at i:52011731 original size:5 final size:5
Alignment explanation
Indices: 52011723--52011753 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
52011713 GTTTCATTTA
*
52011723 AATTC AATTC AATTC AATTC AATCC AATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC A
52011754 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTC
Found at i:52014208 original size:25 final size:25
Alignment explanation
Indices: 52014160--52014208 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
52014150 CATAATTGAA
* * *
52014160 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
52014185 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
52014209 ATGCGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:52014651 original size:43 final size:43
Alignment explanation
Indices: 52014602--52014687 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
52014592 TATGTGATTG
52014602 ATATTGAAATGGA-AAAGATGAGAAATGAA-TATGAGATGAGAAA
1 ATATTGAAAT-GACAAAGATGAGAAAT-AATTATGAGATGAGAAA
*
52014645 ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATAATTATGAGATGAGAAA
52014688 TTAAATATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATAATTATGAGATGAGAAA
Found at i:52014685 original size:18 final size:19
Alignment explanation
Indices: 52014662--52014702 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
52014652 AATGACAAAT
* *
52014662 ATGAGAAA-TAATTATGAG
1 ATGAGAAATTAAATATGAA
52014680 ATGAGAAATTAAATATGAA
1 ATGAGAAATTAAATATGAA
52014699 ATGA
1 ATGA
52014703 TGAATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGAGAAATTAAATATGAA
Found at i:52015999 original size:15 final size:15
Alignment explanation
Indices: 52015956--52016005 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
52015946 CTGCCATTGC
52015956 ATATTATAATGTTATT
1 ATATTAT-ATGTTATT
52015972 AGTTAGTTTATATGTTATT
1 A--TA--TTATATGTTATT
52015991 ATATTATATGTTATT
1 ATATTATATGTTATT
52016006 CGTTAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 2 0.07
18 2 0.07
19 9 0.30
20 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (15 bp):
ATATTATATGTTATT
Found at i:52017702 original size:118 final size:118
Alignment explanation
Indices: 52017480--52017801 Score: 493
Period size: 118 Copynumber: 2.7 Consensus size: 118
52017470 CACAAATATG
*
52017480 AAACT-ATTTGACTAGTAATAATCCCAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
1 AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
* *
52017544 ACATATGAATTCTATGAAAATCACAAATATGAAAATAAATCAGTGCCAATTGC
66 ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
* *
52017597 AAAGTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTACTGAGTGTTCAAATTT
1 AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
52017662 ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
66 ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
* * * * * * *
52017715 AAACTGATTTGACTAATAGTAATCACAAATAAGGTCAGCACTTAGCAGTTGGTGAATGTTTAAAT
1 AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTA--ATTTGCTGAGTGTTCAAAT
* *
52017780 TTACATACGAATTCTCTGAAAA
64 TTACATATGAATTCTATGAAAA
52017802 GCATGAAGAA
Statistics
Matches: 186, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
117 4 0.02
118 148 0.80
120 34 0.18
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (118 bp):
AAACTGATTTGACTAGTAATAATCACAAATAAGGTTAGCACTTAATTTGCTGAGTGTTCAAATTT
ACATATGAATTCTATGAAAATCACAAATATAAAAAGAAATCAGTGCCAATTGC
Found at i:52020524 original size:15 final size:16
Alignment explanation
Indices: 52020504--52020533 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52020494 TATCCAAATA
52020504 CCAAAAAAAA-AAAAG
1 CCAAAAAAAACAAAAG
52020519 CCAAAAAAAACAAAA
1 CCAAAAAAAACAAAA
52020534 AAAAAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (16 bp):
CCAAAAAAAACAAAAG
Found at i:52027032 original size:30 final size:30
Alignment explanation
Indices: 52026973--52027032 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52026963 ATGTACGAGC
**
52026973 CTAAGGGCAAAACTGTAATTTTTGTAAAGT
1 CTAAGGGCAAAACTGTAATTTTTCCAAAGT
*
52027003 CTAAGGGCAAAA-TGGTCATTTTTCCAAAGT
1 CTAAGGGCAAAACT-GTAATTTTTCCAAAGT
52027033 ATAAATGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (30 bp):
CTAAGGGCAAAACTGTAATTTTTCCAAAGT
Found at i:52032274 original size:18 final size:18
Alignment explanation
Indices: 52032241--52032276 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52032231 TACCATTGAA
* *
52032241 GTTTAACACGAGCATCAT
1 GTTTAACACAACCATCAT
52032259 GTTTAACACAACCATCAT
1 GTTTAACACAACCATCAT
52032277 ATTCCCGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (18 bp):
GTTTAACACAACCATCAT
Found at i:52033323 original size:41 final size:40
Alignment explanation
Indices: 52033264--52033361 Score: 169
Period size: 41 Copynumber: 2.4 Consensus size: 40
52033254 TCTTTTTCAA
52033264 TTTTTCCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTT
1 TTTTTCCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTT
52033304 TTTTTACCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTT
1 TTTTT-CCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTT
* *
52033345 TTTTTCTTTCTTTTTTT
1 TTTTTCCTTGTTTTTTT
52033362 AACCTCAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 15 0.27
41 40 0.73
ACGTcount: A:0.05, C:0.22, G:0.04, T:0.68
Consensus pattern (40 bp):
TTTTTCCTTGTTTTTTTCTTTCTCTCGACCTCTCTTATTT
Found at i:52033956 original size:11 final size:11
Alignment explanation
Indices: 52033920--52033959 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
52033910 CATTACAATT
52033920 TTATCATTCTC
1 TTATCATTCTC
*
52033931 TTAT-ATGCTC
1 TTATCATTCTC
52033941 GTTATCATTCTC
1 -TTATCATTCTC
52033953 TTATCAT
1 TTATCAT
52033960 ACTAAGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.53
Consensus pattern (11 bp):
TTATCATTCTC
Found at i:52034558 original size:31 final size:31
Alignment explanation
Indices: 52034520--52034579 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
52034510 AATATTTATC
52034520 AAGATAATCACTTCAATATTAAATTAATATT
1 AAGATAATCACTTCAATATTAAATTAATATT
52034551 AAGATAATCACTTCAATATTAAATTAATA
1 AAGATAATCACTTCAATATTAAATTAATA
52034580 AAATACTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (31 bp):
AAGATAATCACTTCAATATTAAATTAATATT
Found at i:52039857 original size:27 final size:27
Alignment explanation
Indices: 52039827--52039879 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
52039817 GTCGGTAAGG
* *
52039827 CATTCCTTTCAGAGTGTGCCACAAAGC
1 CATTCCTTTCAAAGTGTGCCAAAAAGC
*
52039854 CATTCCTTTCAAAGTGTTCCAAAAAG
1 CATTCCTTTCAAAGTGTGCCAAAAAG
52039880 GTTAATAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
CATTCCTTTCAAAGTGTGCCAAAAAGC
Found at i:52044263 original size:17 final size:16
Alignment explanation
Indices: 52044214--52044308 Score: 50
Period size: 17 Copynumber: 5.8 Consensus size: 16
52044204 TCGTGGATGA
52044214 AAGTACATGTATCTTCC
1 AAGTACATGTATCTT-C
* *
52044231 TA-TGCGATGTATCTTC
1 AAGTAC-ATGTATCTTC
52044247 AAGTACATGTATCCTTC
1 AAGTACATGTAT-CTTC
* * * *
52044264 GAGTTCATGAATCCTC
1 AAGTACATGTATCTTC
* * *
52044280 -CGATGCAATGTATCTTT
1 AAG-TAC-ATGTATCTTC
52044297 AAGTACATGTAT
1 AAGTACATGTAT
52044309 GATCATTAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 13
0.67 0.18 0.15
Matches are distributed among these distances:
15 1 0.02
16 21 0.37
17 34 0.60
18 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (16 bp):
AAGTACATGTATCTTC
Found at i:52047275 original size:46 final size:45
Alignment explanation
Indices: 52047183--52047277 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 45
52047173 GGTTTAGTAA
*** *
52047183 CAGAAGCAATTTCAGTTCAGATTTAGAACAGATCAATTGCATATG
1 CAGAAGCAATTTCAGTTCAGAAACAGAACAGATCAATTGCAGATG
52047228 CAGAAGCAATTTCAGTTTCAGAAACAGAACATGA-CAGATT-CAGATG
1 CAGAAGCAATTTCAG-TTCAGAAACAGAACA-GATCA-ATTGCAGATG
52047274 CAGA
1 CAGA
52047278 TATTCCTACC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
45 15 0.35
46 23 0.53
47 5 0.12
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (45 bp):
CAGAAGCAATTTCAGTTCAGAAACAGAACAGATCAATTGCAGATG
Found at i:52048741 original size:23 final size:24
Alignment explanation
Indices: 52048715--52048761 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
52048705 CTTTTTTATA
52048715 TTTTTT-T-AATTTGAAAGAGTTT
1 TTTTTTCTAAATTTGAAAGAGTTT
52048737 TTTTTTCTAAATTTGAAAGAGTTT
1 TTTTTTCTAAATTTGAAAGAGTTT
52048761 T
1 T
52048762 AGAGAGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.26
23 1 0.04
24 16 0.70
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (24 bp):
TTTTTTCTAAATTTGAAAGAGTTT
Found at i:52053942 original size:26 final size:26
Alignment explanation
Indices: 52053913--52053996 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
52053903 TGGTACAAAT
52053913 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
52053939 TGATAATAGATTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
52053965 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52053991 TGATAA
1 TGATAA
52053997 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 51 0.94
27 3 0.06
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:52055503 original size:27 final size:26
Alignment explanation
Indices: 52055464--52055514 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
52055454 CTATGTATGG
*
52055464 AAAATTACTGTTATACCCCCTAGGTGC
1 AAAATTACCGTTATA-CCCCTAGGTGC
52055491 AAAATTACCGTTATACCCCTAGGT
1 AAAATTACCGTTATACCCCTAGGT
52055515 TTAATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (26 bp):
AAAATTACCGTTATACCCCTAGGTGC
Found at i:52055657 original size:27 final size:27
Alignment explanation
Indices: 52055616--52055728 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 27
52055606 GAGGAAGCGT
* * *
52055616 TCTGGTGGCTATGCCACAAATATTTGA
1 TCTGGTGACTCTGCCACAAATATCTGA
* *
52055643 TCTGGTGACTCTGCCACATATATCTGT
1 TCTGGTGACTCTGCCACAAATATCTGA
* * * *
52055670 TCTGGTGGCTCTGCCCCGATTATCTGTA
1 TCTGGTGACTCTGCCACAAATATCTG-A
* * *
52055698 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGACTCTGCCACAAATATCTGA
52055724 TCTGG
1 TCTGG
52055729 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 5 0.07
27 51 0.73
28 14 0.20
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGGTGACTCTGCCACAAATATCTGA
Found at i:52055721 original size:54 final size:54
Alignment explanation
Indices: 52055614--52055728 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
52055604 TGGAGGAAGC
*
52055614 GTTCTGGTGGCTATGCCACAAATATTTGATCTGGTGACTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
52055668 GTTCTGGTGGCTCTGCCCCGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
52055722 GTTCTGG
1 GTTCTGG
52055729 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.65
55 19 0.35
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:52057832 original size:19 final size:21
Alignment explanation
Indices: 52057797--52057835 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
52057787 ATTTTTTTCC
52057797 TCCTTCGTCCGTTCTTCATCT
1 TCCTTCGTCCGTTCTTCATCT
52057818 TCCTTC-TCC-TTCTTCATC
1 TCCTTCGTCCGTTCTTCATC
52057836 CAGGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.05, C:0.41, G:0.05, T:0.49
Consensus pattern (21 bp):
TCCTTCGTCCGTTCTTCATCT
Found at i:52058681 original size:15 final size:14
Alignment explanation
Indices: 52058647--52058681 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
52058637 ACTGACTTAG
52058647 GTTATTATCCCCCT
1 GTTATTATCCCCCT
52058661 GATTATTATCCCCCT
1 G-TTATTATCCCCCT
52058676 AGTTAT
1 -GTTAT
52058682 CATTCCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 17 0.89
16 1 0.05
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (14 bp):
GTTATTATCCCCCT
Found at i:52062553 original size:41 final size:41
Alignment explanation
Indices: 52062508--52062647 Score: 192
Period size: 41 Copynumber: 3.4 Consensus size: 41
52062498 GGCATTTTTG
* ** * * *
52062508 GTAAAACGCCGCTAAAAAATAGAGCAATGGCAGTGCTTTCT
1 GTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGCTTTCT
* *
52062549 GTAAAACGCTGCTAAAAACCAGAGCATTAGCGGCGCTTTCG
1 GTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGCTTTCT
52062590 GTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGCTTT-T
1 GTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGCTTTCT
52062630 GATAAAACGCTGCTAAAA
1 G-TAAAACGCTGCTAAAA
52062648 TTCATATAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 87 0.99
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
GTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGCTTTCT
Found at i:52062636 original size:82 final size:82
Alignment explanation
Indices: 52062493--52062647 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 82
52062483 AAATAGGGCT
* * * * *
52062493 TTAGCGGCATTTTTGGTAAAACGCCGCTAAAAAATAGAGCAATGGCAGTGCTTTCTGTAAAACGC
1 TTAGCGGCACTTTCGGTAAAACGCCGCTAAAAAACAGAGCAATAGCAGCGCTTTCTGTAAAACGC
52062558 TGCTAAAAACCAGAGCA
66 TGCTAAAAACCAGAGCA
* * * *
52062575 TTAGCGGCGCTTTCGGTAAAACGCTGCTAAAAACCAGAGCATTAGCAGCGCTTT-TGATAAAACG
1 TTAGCGGCACTTTCGGTAAAACGCCGCTAAAAAACAGAGCAATAGCAGCGCTTTCTG-TAAAACG
52062639 CTGCTAAAA
65 CTGCTAAAA
52062648 TTCATATAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 2 0.03
82 61 0.97
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (82 bp):
TTAGCGGCACTTTCGGTAAAACGCCGCTAAAAAACAGAGCAATAGCAGCGCTTTCTGTAAAACGC
TGCTAAAAACCAGAGCA
Found at i:52062683 original size:18 final size:18
Alignment explanation
Indices: 52062662--52062696 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52062652 TATAACCCCT
* *
52062662 AAAATCCTAAACCCTAAA
1 AAAATCATAAACACTAAA
52062680 AAAATCATAAACACTAA
1 AAAATCATAAACACTAA
52062697 TCTATAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATCATAAACACTAAA
Found at i:52062706 original size:47 final size:47
Alignment explanation
Indices: 52062652--52062789 Score: 141
Period size: 53 Copynumber: 2.8 Consensus size: 47
52062642 CTAAAATTCA
*
52062652 TATAACCCCTAAAATCCTAAACCCTAAAAAAATCATAAACACTAATC
1 TATAACCCCTAAAATCCTAAACCCTAAAAAAATCATAAACACTAAAC
* * * *
52062699 TATAACCCCTAAAATACTAAACCCTTAAACTTTAAAAACCCTAAACTCTAAAC
1 TATAACCCCTAAAATCCTAAACCC-T-AA----AAAAATCATAAACACTAAAC
* * *
52062752 TATAACCCTTAAAACCCTAAACCCCAAAAAACATCATA
1 TATAACCCCTAAAATCCTAAACCCTAAAAAA-ATCATA
52062790 TGGATGTTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
47 27 0.37
48 5 0.07
49 2 0.03
51 2 0.03
53 37 0.51
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (47 bp):
TATAACCCCTAAAATCCTAAACCCTAAAAAAATCATAAACACTAAAC
Found at i:52062743 original size:16 final size:17
Alignment explanation
Indices: 52062717--52062750 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
52062707 CTAAAATACT
*
52062717 AAACCCTTAAACTTTAA
1 AAACCCTTAAACTCTAA
52062734 AAACCC-TAAACTCTAA
1 AAACCCTTAAACTCTAA
52062750 A
1 A
52062751 CTATAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (17 bp):
AAACCCTTAAACTCTAA
Found at i:52063449 original size:66 final size:66
Alignment explanation
Indices: 52063367--52063496 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
52063357 TAACCCTTTA
* * * * *
52063367 AATCAACAACCCTTTAAACCCCAAATCTTAAATCTCTAATCATAAACCCTTAAAACTATAAACAC
1 AATCAACAACCCTTTAAACACCAAACCCTAAATATCAAATCATAAACCCTTAAAACTATAAACAC
52063432 T
66 T
* * * *
52063433 AATCAATAACTCTTTAAACACCAGACCCTAAATATCAAATCATAAACCCTTAAAACTCTAAACA
1 AATCAACAACCCTTTAAACACCAAACCCTAAATATCAAATCATAAACCCTTAAAACTATAAACA
52063497 ACAAACCTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.25
Consensus pattern (66 bp):
AATCAACAACCCTTTAAACACCAAACCCTAAATATCAAATCATAAACCCTTAAAACTATAAACAC
T
Found at i:52063551 original size:22 final size:22
Alignment explanation
Indices: 52063457--52063551 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
52063447 TAAACACCAG
*
52063457 ACCC-TAAATATCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
*
52063478 ACCCTTAAAACTCTAAA-CA-ACA
1 ACCCTTAAATCTC-AAATCATA-A
* * * *
52063500 AACCTT-AATCCCAACACCCTAA
1 ACCCTTAAATCTCAA-ATCATAA
*
52063522 ACTC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
52063543 ACCCTTAAA
1 ACCCTTAAA
52063552 ACTCCAACCC
Statistics
Matches: 54, Mismatches: 12, Indels: 15
0.67 0.15 0.19
Matches are distributed among these distances:
20 2 0.04
21 19 0.35
22 29 0.54
23 4 0.07
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
ACCCTTAAATCTCAAATCATAA
Found at i:52063566 original size:15 final size:15
Alignment explanation
Indices: 52063542--52063596 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
52063532 TCAAATCATA
* *
52063542 AACCCTTAAAACTCC
1 AACCCCTAAAACCCC
52063557 AACCCCT-AAACCCC
1 AACCCCTAAAACCCC
*
52063571 AACCTCT-AAACCCC
1 AACCCCTAAAACCCC
52063585 -ACACCCTAAAAC
1 AAC-CCCTAAAAC
52063597 AATGGTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.06
14 22 0.65
15 10 0.29
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.13
Consensus pattern (15 bp):
AACCCCTAAAACCCC
Found at i:52063572 original size:14 final size:14
Alignment explanation
Indices: 52063550--52063594 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
52063540 TAAACCCTTA
*
52063550 AAACTCCAACCCCT
1 AAACCCCAACCCCT
*
52063564 AAACCCCAACCTCT
1 AAACCCCAACCCCT
52063578 AAACCCC-ACACCCT
1 AAACCCCAAC-CCCT
52063592 AAA
1 AAA
52063595 ACAATGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 2 0.07
14 25 0.93
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCCCAACCCCT
Found at i:52063896 original size:21 final size:21
Alignment explanation
Indices: 52063866--52063918 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
52063856 AATAAAAAAT
52063866 AAACTCAAAAATTAAAAATTAA
1 AAACT-AAAAATTAAAAATTAA
*
52063888 AAATTAAAAATTAAAAATTAA
1 AAACTAAAAATTAAAAATTAA
52063909 AAACTAAAAA
1 AAACTAAAAA
52063919 ACTAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACTAAAAATTAAAAATTAA
Found at i:52063925 original size:14 final size:14
Alignment explanation
Indices: 52063854--52063926 Score: 78
Period size: 14 Copynumber: 5.3 Consensus size: 14
52063844 ACATTAAACC
52063854 AAAATAAAAAA-T-
1 AAAATAAAAAATTA
* *
52063866 AAACTCAAAAATTA
1 AAAATAAAAAATTA
*
52063880 AAAATTAAAAATTA
1 AAAATAAAAAATTA
*
52063894 AAAATTAAAAATTA
1 AAAATAAAAAATTA
*
52063908 AAAACTAAAAAACTA
1 AAAA-TAAAAAATTA
52063923 AAAA
1 AAAA
52063927 ATTTAAATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
12 9 0.17
13 1 0.02
14 30 0.58
15 12 0.23
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAAAAATTA
Found at i:52063925 original size:21 final size:22
Alignment explanation
Indices: 52063879--52063929 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
52063869 CTCAAAAATT
*
52063879 AAAAATTAAAAATTAAAAA-TT
1 AAAAATTAAAAATTAAAAACTA
*
52063900 AAAAATTAAAAACTAAAAAACTA
1 AAAAATTAAAAA-TTAAAAACTA
52063923 AAAAATT
1 AAAAATT
52063930 TAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 12 0.46
22 6 0.23
23 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAATTAAAAATTAAAAACTA
Found at i:52063926 original size:7 final size:7
Alignment explanation
Indices: 52063872--52063918 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
52063862 AAATAAACTC
52063872 AAAAATT
1 AAAAATT
52063879 AAAAATT
1 AAAAATT
52063886 AAAAATT
1 AAAAATT
52063893 AAAAATT
1 AAAAATT
52063900 AAAAATT
1 AAAAATT
*
52063907 AAAAACT
1 AAAAATT
52063914 AAAAA
1 AAAAA
52063919 ACTAAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:52063941 original size:14 final size:15
Alignment explanation
Indices: 52063924--52063953 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52063914 AAAAAACTAA
52063924 AAAATTTAA-ATTTT
1 AAAATTTAATATTTT
52063938 AAAATTTAATATTTT
1 AAAATTTAATATTTT
52063953 A
1 A
52063954 GTCCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATTTAATATTTT
Found at i:52068479 original size:43 final size:43
Alignment explanation
Indices: 52068418--52068522 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 43
52068408 TTTTAAATTT
52068418 CATGACCTTTAGCGGCGTTTGTGG-GAGAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGAGA-AAGCGCCGCTAAAGGC
*
52068461 CATGATCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGC
*
52068504 CATGACCTTTAGCAGCGTT
1 CATGACCTTTAGCGGCGTT
52068523 ATCTATAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGC
Found at i:52073492 original size:46 final size:46
Alignment explanation
Indices: 52073376--52073503 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
52073366 TAACCCGCCC
52073376 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * *
52073424 CTCA-CGAACTCGGACTTAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
52073467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52073504 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.41
47 28 0.41
48 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:52073522 original size:46 final size:45
Alignment explanation
Indices: 52073379--52073522 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
52073369 CCCGCCCCTA
52073379 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
52073426 CA-CGAACTCGGACTTAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
52073472 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
52073518 AGTGA
1 AGTGA
52073523 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:52081133 original size:27 final size:27
Alignment explanation
Indices: 52081088--52081148 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
52081078 AATTTTTATT
*
52081088 GTAATATAAAAGTATGTTTAAAACTAA
1 GTAATATAAAAGCATGTTTAAAACTAA
*
52081115 GTAATA-AAAAGCATGGTTTGAAACTAA
1 GTAATATAAAAGCAT-GTTTAAAACTAA
52081142 GTAATAT
1 GTAATAT
52081149 TAACACATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (27 bp):
GTAATATAAAAGCATGTTTAAAACTAA
Done.