Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 61 of 82
Found at i:21982426 original size:4 final size:4
Alignment explanation
Indices: 21982419--21982461 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
21982409 ATACATTATA
*
21982419 TATG TATG CATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
21982462 CAGGTAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:21988859 original size:24 final size:24
Alignment explanation
Indices: 21988810--21988859 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
21988800 AAAAATGATG
* *
21988810 AGATAAGAAAAAGCAATGCATAGA
1 AGATAAGAAAAACCAATGAATAGA
*
21988834 AGATAAGCAAAACCAATGGAAT-GA
1 AGATAAGAAAAACCAAT-GAATAGA
21988858 AG
1 AG
21988860 TAGATTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.56, C:0.10, G:0.22, T:0.12
Consensus pattern (24 bp):
AGATAAGAAAAACCAATGAATAGA
Found at i:21991384 original size:11 final size:11
Alignment explanation
Indices: 21991368--21991396 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21991358 AGATGAGTTA
21991368 AGAAAAAAAAG
1 AGAAAAAAAAG
21991379 AGAAAAAAAAG
1 AGAAAAAAAAG
21991390 A-AAAAAA
1 AGAAAAAA
21991397 TAATTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:21991466 original size:33 final size:33
Alignment explanation
Indices: 21991428--21991504 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 33
21991418 AATTAAAAAA
21991428 GAAAAGAAAAATAATTCCCA-AACTTGAACTAAG
1 GAAAAGAAAAATAATT-CCAGAACTTGAACTAAG
* *
21991461 GAAAAGAAAAATAATTCCAGAATTTGAGCTAAG
1 GAAAAGAAAAATAATTCCAGAACTTGAACTAAG
21991494 GAAAAGAAAAA
1 GAAAAGAAAAA
21991505 GAAAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.17
Consensus pattern (33 bp):
GAAAAGAAAAATAATTCCAGAACTTGAACTAAG
Found at i:21991514 original size:39 final size:37
Alignment explanation
Indices: 21991424--21991546 Score: 137
Period size: 39 Copynumber: 3.4 Consensus size: 37
21991414 ACTAAATTAA
* * *
21991424 AAAAGAAAAGAAAAATAATTCCCAAACTTGAACTAAGG
1 AAAA-AAAAGAAAAATAATTCCAAAATTTGAGCTAAGG
*
21991462 ----AAAAGAAAAATAATTCCAGAATTTGAGCTAAGG
1 AAAAAAAAGAAAAATAATTCCAAAATTTGAGCTAAGG
* *
21991495 AAAAGAAAAAGAAAAATAATTCTAAAATTTGAGTTAAGG
1 -AAA-AAAAAGAAAAATAATTCCAAAATTTGAGCTAAGG
21991534 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
21991547 GAAAAGAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
33 29 0.40
37 10 0.14
38 3 0.04
39 30 0.42
ACGTcount: A:0.60, C:0.07, G:0.15, T:0.18
Consensus pattern (37 bp):
AAAAAAAAGAAAAATAATTCCAAAATTTGAGCTAAGG
Found at i:21991543 original size:114 final size:104
Alignment explanation
Indices: 21991422--21991675 Score: 274
Period size: 119 Copynumber: 2.3 Consensus size: 104
21991412 AGACTAAATT
* * *
21991422 AAAAAAGAAAAGAAAAATAATTCCCAAACTTGAACTAAGGAAAAGAAAAATAATTCCAGAATTTG
1 AAAAAAGAAAAGAAAAATAATTCCAAAACTTGAAC-----AAAAGAAAAAAAATTCCAAAATTTG
*
21991487 AGCTAAGGAAAAGAAAAAGAAAAATAATTCTAAAATTTGAGTTAAGGAAAAAA
61 AGCT-A--AAAA-AAAAAGAAAAA-AA-TCTAAAATTTGAGTTAACG---AAA
* *
21991540 AAGAAAAGAAAAGAAAAATAATTCCAAAATTTGAACAACAGAAAAAAAATTCCAAAATTTGAGCT
1 AA-AAAAGAAAAGAAAAATAATTCCAAAACTTGAACAAAAGAAAAAAAATTCCAAAATTTGAGCT
*
21991605 AAAAAAAAAGGAAAAAAATCTAAAATTTGAGTTAACGAAAA
65 AAAAAAAAAAGAAAAAAATCTAAAATTTGAGTTAACG-AAA
*
21991646 AAAGGAAAAAAAAGAAAAATAATTCCAAAA
1 AAA--AAAGAAAAGAAAAATAATTCCAAAA
21991676 TTTAGATTTA
Statistics
Matches: 125, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
105 1 0.01
106 6 0.05
107 24 0.19
108 18 0.14
109 2 0.02
110 10 0.08
111 4 0.03
113 1 0.01
114 26 0.21
118 2 0.02
119 31 0.25
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.17
Consensus pattern (104 bp):
AAAAAAGAAAAGAAAAATAATTCCAAAACTTGAACAAAAGAAAAAAAATTCCAAAATTTGAGCTA
AAAAAAAAAGAAAAAAATCTAAAATTTGAGTTAACGAAA
Found at i:21991584 original size:47 final size:48
Alignment explanation
Indices: 21991494--21991588 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 48
21991484 TTGAGCTAAG
* ** *
21991494 GAAAAGAAAAAGAAAAATAATTCTAAAATTTGAGTTAAGGAAAAAAAA
1 GAAAAGAAAAAGAAAAATAATTCCAAAATTTGAGACAAAGAAAAAAAA
21991542 GAAAAG-AAAAGAAAAATAATTCCAAAATTTGA-ACAACAGAAAAAAAA
1 GAAAAGAAAAAGAAAAATAATTCCAAAATTTGAGACAA-AGAAAAAAAA
21991589 TTCCAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 2 0.05
47 34 0.81
48 6 0.14
ACGTcount: A:0.66, C:0.05, G:0.13, T:0.16
Consensus pattern (48 bp):
GAAAAGAAAAAGAAAAATAATTCCAAAATTTGAGACAAAGAAAAAAAA
Found at i:21991612 original size:28 final size:27
Alignment explanation
Indices: 21991548--21991613 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
21991538 AAAAGAAAAG
*
21991548 AAAAGAAAAATAATTCCAAAATTTGAAC
1 AAAA-AAAAAAAATTCCAAAATTTGAAC
* *
21991576 AACAGAAAAAAAATTCCAAAATTTGAGC
1 AA-AAAAAAAAAATTCCAAAATTTGAAC
*
21991604 TAAAAAAAAA
1 AAAAAAAAAA
21991614 GGAAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.22
28 24 0.75
29 1 0.03
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.18
Consensus pattern (27 bp):
AAAAAAAAAAAATTCCAAAATTTGAAC
Found at i:21991620 original size:33 final size:34
Alignment explanation
Indices: 21991582--21991657 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
21991572 GAACAACAGA
21991582 AAAAAAATTCCAAAATTTGAGCTAA-AAAAAAAGG
1 AAAAAAA-TCCAAAATTTGAGCTAACAAAAAAAGG
* *
21991616 AAAAAAATCTAAAATTTGAGTTAACGAAAAAAAGG
1 AAAAAAATCCAAAATTTGAGCTAAC-AAAAAAAGG
21991651 AAAAAAA
1 AAAAAAA
21991658 AGAAAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 15 0.39
34 7 0.18
35 16 0.42
ACGTcount: A:0.64, C:0.07, G:0.12, T:0.17
Consensus pattern (34 bp):
AAAAAAATCCAAAATTTGAGCTAACAAAAAAAGG
Found at i:21991620 original size:35 final size:35
Alignment explanation
Indices: 21991580--21991658 Score: 108
Period size: 33 Copynumber: 2.3 Consensus size: 35
21991570 TTGAACAACA
21991580 GAAAAAAAATTCCAAAATTTGAGCTAA-AAAAAAAG
1 GAAAAAAAA-TCCAAAATTTGAGCTAACAAAAAAAG
* *
21991615 G-AAAAAAATCTAAAATTTGAGTTAACGAAAAAAAG
1 GAAAAAAAATCCAAAATTTGAGCTAAC-AAAAAAAG
21991650 GAAAAAAAA
1 GAAAAAAAA
21991659 GAAAAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 15 0.38
34 7 0.18
35 10 0.26
36 7 0.18
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (35 bp):
GAAAAAAAATCCAAAATTTGAGCTAACAAAAAAAG
Found at i:21991665 original size:35 final size:33
Alignment explanation
Indices: 21991593--21991665 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
21991583 AAAAAATTCC
* *
21991593 AAAATTTGAGCTAAAAAAAAAGGAAAAAAATCT
1 AAAATTTGAGCTAAAAAAAAAGGAAAAAAAACA
* *
21991626 AAAATTTGAGTTAACGAAAAAAAGGAAAAAAAAGA
1 AAAATTTGAGCTAA--AAAAAAAGGAAAAAAAACA
21991661 AAAAT
1 AAAAT
21991666 AATTCCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 13 0.38
35 21 0.62
ACGTcount: A:0.66, C:0.04, G:0.14, T:0.16
Consensus pattern (33 bp):
AAAATTTGAGCTAAAAAAAAAGGAAAAAAAACA
Found at i:21995651 original size:22 final size:22
Alignment explanation
Indices: 21995624--21995670 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21995614 TAAAACTCCC
*
21995624 AAAGAAAAAACGGATAAAAAAG
1 AAAGAAAAAACGGAGAAAAAAG
** *
21995646 AAAGAAGGAACGGAGAAAAGAG
1 AAAGAAAAAACGGAGAAAAAAG
21995668 AAA
1 AAA
21995671 AATGGAGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.68, C:0.04, G:0.26, T:0.02
Consensus pattern (22 bp):
AAAGAAAAAACGGAGAAAAAAG
Found at i:22000450 original size:34 final size:34
Alignment explanation
Indices: 22000403--22000474 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
22000393 AAGCTTTAAT
*
22000403 TGTTTTGTATATTGATTGATTCATGGGTTATTGG
1 TGTTTTGTATATTGATTGATTCACGGGTTATTGG
*
22000437 TGTTTTGTGTATTGATTGATTCACGGGTTATTGG
1 TGTTTTGTATATTGATTGATTCACGGGTTATTGG
22000471 TGTT
1 TGTT
22000475 CTCATTTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.15, C:0.04, G:0.28, T:0.53
Consensus pattern (34 bp):
TGTTTTGTATATTGATTGATTCACGGGTTATTGG
Found at i:22004450 original size:2 final size:2
Alignment explanation
Indices: 22004443--22004469 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22004433 AAAACAAATA
22004443 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22004470 ACAACAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22004502 original size:53 final size:52
Alignment explanation
Indices: 22004439--22004540 Score: 163
Period size: 53 Copynumber: 1.9 Consensus size: 52
22004429 TTCAAAAACA
22004439 AATAATATATATATATATATATATATATAT-AACA-ACAAAAATAAAGTAAATT
1 AATAATATATATATATATATATATATATATAAACACA-AAAAAT-AAGTAAATT
22004491 NAATAATATATATATATATATATATATATATAAACACAAAAAATAAGTAA
1 -AATAATATATATATATATATATATATATATAAACACAAAAAATAAGTAA
22004541 TAAAAAGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
53 36 0.77
54 10 0.21
55 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (52 bp):
AATAATATATATATATATATATATATATATAAACACAAAAAATAAGTAAATT
Found at i:22004503 original size:2 final size:2
Alignment explanation
Indices: 22004496--22004522 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22004486 AAATTNAATA
22004496 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22004523 AACACAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22016125 original size:24 final size:24
Alignment explanation
Indices: 22016094--22016173 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
22016084 TTCAGTGCTT
* * *
22016094 GTGGTGGTGCTTGTGCTAACAATG
1 GTGGTGGTACTTGTGCTGACACTG
*
22016118 GTGGTGGTACTTGTGCTGGCACTG
1 GTGGTGGTACTTGTGCTGACACTG
*
22016142 GTGTTGGTACTTGTGCTGACACTG
1 GTGGTGGTACTTGTGCTGACACTG
*
22016166 GTGCTGGT
1 GTGGTGGT
22016174 GCAGGCGCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.11, C:0.15, G:0.39, T:0.35
Consensus pattern (24 bp):
GTGGTGGTACTTGTGCTGACACTG
Found at i:22016171 original size:12 final size:12
Alignment explanation
Indices: 22016116--22016172 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
22016106 GTGCTAACAA
* *
22016116 TGGTGGTGGTAC
1 TGGTGCTGGCAC
*
22016128 TTGTGCTGGCAC
1 TGGTGCTGGCAC
* *
22016140 TGGTGTTGGTAC
1 TGGTGCTGGCAC
* *
22016152 TTGTGCTGACAC
1 TGGTGCTGGCAC
22016164 TGGTGCTGG
1 TGGTGCTGG
22016173 TGCAGGCGCT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.09, C:0.16, G:0.40, T:0.35
Consensus pattern (12 bp):
TGGTGCTGGCAC
Found at i:22021785 original size:19 final size:20
Alignment explanation
Indices: 22021735--22021803 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
22021725 TTTTGATAGT
22021735 AATATTCATTATAAATATTAA
1 AATATT-ATTATAAATATTAA
* *
22021756 AA-AATATT-TATATAATTAA
1 AATATTATTATAAAT-ATTAA
*
22021775 AATATTATTATTAAATAGTAA
1 AATATTATTA-TAAATATTAA
*
22021796 TATATTAT
1 AATATTAT
22021804 ACTAAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 4 0.11
19 10 0.26
20 7 0.18
21 13 0.34
22 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (20 bp):
AATATTATTATAAATATTAA
Found at i:22025777 original size:30 final size:30
Alignment explanation
Indices: 22025742--22025805 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
22025732 ATCCACTTCA
*
22025742 TCATGATTTCTATGCTCATTTTGAATCTCT
1 TCATGATTTCTATGATCATTTTGAATCTCT
* *
22025772 TCATGATTTCTATGATTATTTTGAATCTTT
1 TCATGATTTCTATGATCATTTTGAATCTCT
22025802 TCAT
1 TCAT
22025806 TAACTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (30 bp):
TCATGATTTCTATGATCATTTTGAATCTCT
Found at i:22030338 original size:26 final size:25
Alignment explanation
Indices: 22030307--22030355 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
22030297 AAAGACATTA
* *
22030307 AATATATATATATATATTATATATAT
1 AATATAAATAAATATATTA-ATATAT
*
22030333 AATATAAATAAATATTTTAATAT
1 AATATAAATAAATATATTAATAT
22030356 TTTNNNNNCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATAAATAAATATATTAATATAT
Found at i:22030343 original size:9 final size:9
Alignment explanation
Indices: 22030307--22030347 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
22030297 AAAGACATTA
22030307 AATATATAT
1 AATATATAT
22030316 -ATATATAT
1 AATATATAT
*
22030324 TATATATAT
1 AATATATAT
*
22030333 AATATAAAT
1 AATATATAT
22030342 AA-ATAT
1 AATATAT
22030348 TTTAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 11 0.39
9 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATATATAT
Found at i:22030347 original size:15 final size:16
Alignment explanation
Indices: 22030305--22030347 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22030295 TTAAAGACAT
22030305 TAAATATATATATATA
1 TAAATATATATATATA
*
22030321 T-ATTATATATATAATA
1 TAAATATATATAT-ATA
*
22030337 TAAATAAATAT
1 TAAATATATAT
22030348 TTTAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATATATATATA
Found at i:22030379 original size:2 final size:2
Alignment explanation
Indices: 22030368--22030404 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
22030358 TNNNNNCATT
22030368 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22030405 ATAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22030956 original size:41 final size:41
Alignment explanation
Indices: 22030899--22030983 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
22030889 ATCTTGTAAA
*
22030899 AAGGATTTGTTAGCATCCAACTGAAATATTTCAAGATCAAT
1 AAGGATTTGTTAGCATCCAACTAAAATATTTCAAGATCAAT
22030940 AAGGATTTGTTAGCATCCAACTAAAATATTTCAAGATCAAT
1 AAGGATTTGTTAGCATCCAACTAAAATATTTCAAGATCAAT
22030981 AAG
1 AAG
22030984 CCCATTGAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (41 bp):
AAGGATTTGTTAGCATCCAACTAAAATATTTCAAGATCAAT
Found at i:22036923 original size:119 final size:119
Alignment explanation
Indices: 22036708--22036936 Score: 413
Period size: 119 Copynumber: 1.9 Consensus size: 119
22036698 TTTTTTTTAG
22036708 TTTCTATATATTTATATGCAACAAGTTTTTTATTTATATTTTTTATTGCTAGTATTCTATATTTT
1 TTTCTATATATTTATATGCAACAAGTTTTTTATTTATATTTTTTATTGCTAGTATTCTATATTTT
*
22036773 AATAAATTCACTCTTAGTAAAATTTTTAAAATTCATCATCTATGTGTAAGATAA
66 AATAAATTCACTCTTAGTAAAATTTTAAAAATTCATCATCTATGTGTAAGATAA
* *
22036827 TTTCTATATATTTATATGCAACAAGTTTTTTATTTATTTTTTTTATTGTTAGTATTCTATATTTT
1 TTTCTATATATTTATATGCAACAAGTTTTTTATTTATATTTTTTATTGCTAGTATTCTATATTTT
**
22036892 TGTAAATTCACTCTTAGTAAAATTTTAAAAATTCATCATCTATGT
66 AATAAATTCACTCTTAGTAAAATTTTAAAAATTCATCATCTATGT
22036937 ATCAGACAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 105 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (119 bp):
TTTCTATATATTTATATGCAACAAGTTTTTTATTTATATTTTTTATTGCTAGTATTCTATATTTT
AATAAATTCACTCTTAGTAAAATTTTAAAAATTCATCATCTATGTGTAAGATAA
Found at i:22041906 original size:22 final size:22
Alignment explanation
Indices: 22041889--22041931 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22041879 ATAAAACATA
*
22041889 CAAATGAATAAATAAAAAAAAT
1 CAAATAAATAAATAAAAAAAAT
*
22041911 CAAATAAATAAGTAAAAAAAA
1 CAAATAAATAAATAAAAAAAA
22041932 AAGAGGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (22 bp):
CAAATAAATAAATAAAAAAAAT
Found at i:22042597 original size:21 final size:21
Alignment explanation
Indices: 22042573--22042618 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22042563 CAAAGGGAGT
22042573 GAAAAAAAAGGAAG-GA-AAAAA
1 GAAAAAAAA--AAGAGAGAAAAA
22042594 GAAAAAAAAAAGAGAGAAAAA
1 GAAAAAAAAAAGAGAGAAAAA
22042615 GAAA
1 GAAA
22042619 CAGAAGGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 2 0.09
21 18 0.78
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAAAGAGAGAAAAA
Found at i:22042732 original size:55 final size:55
Alignment explanation
Indices: 22042629--22042741 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 55
22042619 CAGAAGGTGC
* * * * *
22042629 CGGTGAGGAAGAAAAGAGAGAAAGAAGAGAGACGTTGACAAGAGAGGAATGACGT
1 CGGTGAGAAAGAAAAAAGAGAAAGAAGAGAGACGTCGACAAGAAAGGAACGACGT
* * * **
22042684 CGGTGAGAAAGAAAAAAGAGAAAGAAGATAGGCGTCGGCGGGAAAGGAACGACGT
1 CGGTGAGAAAGAAAAAAGAGAAAGAAGAGAGACGTCGACAAGAAAGGAACGACGT
22042739 CGG
1 CGG
22042742 GAAGAAGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.43, C:0.10, G:0.39, T:0.08
Consensus pattern (55 bp):
CGGTGAGAAAGAAAAAAGAGAAAGAAGAGAGACGTCGACAAGAAAGGAACGACGT
Found at i:22042788 original size:29 final size:29
Alignment explanation
Indices: 22042746--22042846 Score: 166
Period size: 29 Copynumber: 3.5 Consensus size: 29
22042736 CGTCGGGAAG
**
22042746 AAGAAAGAGAGAAATGAGAGCTGTAGGCC
1 AAGAAAGAGAGAAATGAGAGCTGCGGGCC
22042775 AAGAAAGAGAGAAATGAGAGCTGCGGGCC
1 AAGAAAGAGAGAAATGAGAGCTGCGGGCC
* *
22042804 AAGAAAGAAAGAAATGAGAGCTGCGGGTC
1 AAGAAAGAGAGAAATGAGAGCTGCGGGCC
22042833 AAGAAAGAGAGAAA
1 AAGAAAGAGAGAAA
22042847 GAAAAAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.48, C:0.10, G:0.35, T:0.08
Consensus pattern (29 bp):
AAGAAAGAGAGAAATGAGAGCTGCGGGCC
Found at i:22042865 original size:16 final size:15
Alignment explanation
Indices: 22042844--22042883 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22042834 AGAAAGAGAG
22042844 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
22042859 AAA-AGAAAAAAAAGA
1 AAAGA-AAAAAAAAGA
*
22042874 AGAGAAAAAA
1 AAAGAAAAAA
22042884 TAGAGAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:22042871 original size:20 final size:20
Alignment explanation
Indices: 22042842--22042882 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22042832 CAAGAAAGAG
*
22042842 AGAAAGAAAAAAAAAGAAAA
1 AGAAAAAAAAAAAAAGAAAA
* *
22042862 AGAAAAAAAAGAAGAGAAAA
1 AGAAAAAAAAAAAAAGAAAA
22042882 A
1 A
22042883 ATAGAGAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAAAAAGAAAA
Found at i:22042890 original size:13 final size:14
Alignment explanation
Indices: 22042845--22042894 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
22042835 GAAAGAGAGA
22042845 AAGA-AAAAAAAAG
1 AAGAGAAAAAAAAG
*
22042858 AAAAAGAAAAAAAAG
1 -AAGAGAAAAAAAAG
*
22042873 AAGAGAAAAAATAG
1 AAGAGAAAAAAAAG
22042887 -AGAGAAAA
1 AAGAGAAAA
22042895 GAGAGCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.25
14 15 0.47
15 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAGAGAAAAAAAAG
Found at i:22043325 original size:3 final size:3
Alignment explanation
Indices: 22043319--22043353 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22043309 AAAAAAACCA
22043319 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22043354 GTGAATGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22043909 original size:228 final size:223
Alignment explanation
Indices: 22043424--22043881 Score: 629
Period size: 228 Copynumber: 2.0 Consensus size: 223
22043414 AGATATTCAT
*
22043424 AAATATAATAAAT-AAAAATACATGATGTAAATATAATTATTATAAAAAATGAAATAATTATTTT
1 AAATATAATAAATAAAAAATACATGATATAAATATAATTATTATAAAAAATGAAATAATTATTTT
* * * *
22043488 GAGTGATTCGATGATAGAATTTCACTTAAAAAGAGAAAAATGTTACCTCTTTCAAGTGGATTTCT
66 GAGTGATCCGATGATAGAATTCCACTTAAAAAGAGAAAAAAGTTACCTCTTTCAAGTGGATTTCG
** * * * **
22043553 TAGGTTTAGAGTTCGAGACGGATTTTCACCGAAGCGTCAAGATGAATTTGAACTCTAAACTCCAA
131 TAGGTAAAGAATTCGAGACGGATTTTCACCGAAGCATCAAGATAAATCCGAACTCTAAACTCCAA
*
22043618 TACCTGTTAACTCAAATAATCATTGTTA
196 TACCTATTAACTCAAATAATCATTGTTA
*
22043646 AAATATAATAAATAAAAAATACATGATGTAAATATAATTATTATAAAAAAATAATGAAATGAA-T
1 AAATATAATAAATAAAAAATACATGATATAAATATAATTATTAT---AAAA-AATGAAAT-AATT
*
22043710 ATTTTGAGTGATCCGATGATAGAATTCCACTTAAAAAG-GATAAAAAGTTACCTCTTTCGAGGTG
61 ATTTTGAGTGATCCGATGATAGAATTCCACTTAAAAAGAGA-AAAAAGTTACCTCTTTC-AAGTG
* * ** *
22043774 GATTTCGTAGGTAAAGAATTTGAGACGGATTTTCACTGAAGCATCGGGATAAATCCGAACTCTAT
124 GATTTCGTAGGTAAAGAATTCGAGACGGATTTTCACCGAAGCATCAAGATAAATCCGAACTCTAA
*
22043839 ACTCCGATACCTATTAACTCAAATAATCATTG-TA
189 ACTCCAATACCTATTAACTCAAATAATCATTGTTA
22043873 AAA-ATAATA
1 AAATATAATA
22043882 TACATTAGAA
Statistics
Matches: 209, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
222 13 0.06
223 30 0.14
226 12 0.06
227 66 0.32
228 88 0.42
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (223 bp):
AAATATAATAAATAAAAAATACATGATATAAATATAATTATTATAAAAAATGAAATAATTATTTT
GAGTGATCCGATGATAGAATTCCACTTAAAAAGAGAAAAAAGTTACCTCTTTCAAGTGGATTTCG
TAGGTAAAGAATTCGAGACGGATTTTCACCGAAGCATCAAGATAAATCCGAACTCTAAACTCCAA
TACCTATTAACTCAAATAATCATTGTTA
Found at i:22047463 original size:93 final size:93
Alignment explanation
Indices: 22047341--22047527 Score: 358
Period size: 93 Copynumber: 2.0 Consensus size: 93
22047331 GGTAGATACA
22047341 AATTTGAGTTCTTAAAAATTTTGAACTCAATCCATCAATATGAAAATTGAAAAAATACAAAAAAA
1 AATTTGAGTTCTTAAAAATTTTGAACTCAATCCATCAATATGAAAATTGAAAAAATACAAAAAAA
22047406 AAAAGAAAAAAAGG-AGAAAGAAAAAGT
66 AAAAGAAAAAAAGGAAGAAAGAAAAAGT
22047433 NAATTTGAGTTCTTAAAAATTTTGAACTCAATCCATCAATATGAAAATTGAAAAAATACAAAAAA
1 -AATTTGAGTTCTTAAAAATTTTGAACTCAATCCATCAATATGAAAATTGAAAAAATACAAAAAA
22047498 AAAAAGAAAAAAAGGAAGAAAGAAAAAGT
65 AAAAAGAAAAAAAGGAAGAAAGAAAAAGT
22047527 A
1 A
22047528 TAGAAGGGAA
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
93 80 0.86
94 13 0.14
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.21
Consensus pattern (93 bp):
AATTTGAGTTCTTAAAAATTTTGAACTCAATCCATCAATATGAAAATTGAAAAAATACAAAAAAA
AAAAGAAAAAAAGGAAGAAAGAAAAAGT
Found at i:22049211 original size:21 final size:20
Alignment explanation
Indices: 22049156--22049213 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
22049146 TTTTTTTTTT
*
22049156 CTAAAACCTCCGAGTACATC
1 CTAAAACCTCCGGGTACATC
* *
22049176 TTCAAAACCTTCGGGTACATTC
1 CT-AAAACCTCCGGGTACA-TC
22049198 CTAAAACCTCCGGGTA
1 CTAAAACCTCCGGGTA
22049214 ATTAGTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.87
22 3 0.10
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (20 bp):
CTAAAACCTCCGGGTACATC
Found at i:22049304 original size:21 final size:21
Alignment explanation
Indices: 22049280--22049326 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
22049270 CTTTTCTTTT
22049280 AAAACCTCCGGGTACA-TCTTC
1 AAAACCTCCGGGTACATTC-TC
*
22049301 AAAACCTCTGGGTACATTCTC
1 AAAACCTCCGGGTACATTCTC
22049322 AAAAC
1 AAAAC
22049327 TTTCAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (21 bp):
AAAACCTCCGGGTACATTCTC
Found at i:22049337 original size:122 final size:122
Alignment explanation
Indices: 22049099--22049508 Score: 524
Period size: 122 Copynumber: 3.3 Consensus size: 122
22049089 AACTACTTTC
* * *
22049099 AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGAAACAACTTTTTTTTTTCTAAAACC
1 AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGGAACAAC-CTTTTCTTT-TAAAACC
* * *
22049164 TCCGAGTACATCTTCAAAACCT-TCGGGTACATTC-CTAAAACCTCCGGGTAATTAGTTGT
64 TCCGAGTACATCTTCAAAACCTCT-GGGTACATTCTCTAAAACTTTCAGGTAATTAGTT-T
22049223 AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGGAACAACCTTTTCTTTTAAAACCTC
1 AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGGAACAACCTTTTCTTTTAAAACCTC
* *
22049288 CGGGTACATCTTCAAAACCTCTGGGTACATTCTC-AAAACTTTCAAGTAATTAGTTT
66 CGAGTACATCTTCAAAACCTCTGGGTACATTCTCTAAAACTTTCAGGTAATTAGTTT
* * * * *
22049344 CAATATTTCTTTAAAATTATGTAGCCTCATTTTGAGATGAGGAACAACC-TTTCTTCTAAAACCT
1 -AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGGAACAACCTTTTCTTTTAAAACCT
* * ** *
22049408 CCGAGTACATCTTCAAAACCTCTAGGTATATTCTCTAAAA-TTTTTGGATAATTAACTTT
65 CCGAGTACATCTTCAAAACCTCTGGGTACATTCTCTAAAACTTTCAGG-TAATT-AGTTT
** * *
22049467 AAGATTTCTTTTAAGTTACATAGCCTCCTTTTGAGATGAGGA
1 AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGGA
22049509 GTTTTTCTTA
Statistics
Matches: 254, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
121 51 0.20
122 144 0.57
123 13 0.05
124 46 0.18
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (122 bp):
AAGATTTCTTCAAAGTTACGTAGCCTCATTTTGAGATGAGGAACAACCTTTTCTTTTAAAACCTC
CGAGTACATCTTCAAAACCTCTGGGTACATTCTCTAAAACTTTCAGGTAATTAGTTT
Found at i:22049669 original size:9 final size:9
Alignment explanation
Indices: 22049656--22049697 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
22049646 AAATATAATT
22049656 AATAAATCA
1 AATAAATCA
* *
22049665 TATAAAT-G
1 AATAAATCA
22049673 AATAAATCA
1 AATAAATCA
22049682 AATAAATCA
1 AATAAATCA
22049691 AATAAAT
1 AATAAAT
22049698 AAGTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (9 bp):
AATAAATCA
Found at i:22049678 original size:17 final size:17
Alignment explanation
Indices: 22049645--22049688 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
22049635 CCAAGAGCCC
*
22049645 CAAATATAATTAATAAAT
1 CAAATA-AATGAATAAAT
*
22049663 CATATAAATGAATAAAT
1 CAAATAAATGAATAAAT
22049680 CAAATAAAT
1 CAAATAAAT
22049689 CAAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (17 bp):
CAAATAAATGAATAAAT
Found at i:22051505 original size:226 final size:221
Alignment explanation
Indices: 22051105--22051560 Score: 619
Period size: 226 Copynumber: 2.0 Consensus size: 221
22051095 AGATATTCAT
*
22051105 AAATATAATAAATAAAAATACATGATGTAAATATAATTATTATAAAAAATGAAATGATTATTTTG
1 AAATATAATAAATAAAAATACATGATGTAAATATAATTATTATAAAAAATGAAATGAATATTTTG
* * * * * * * * *
22051170 AATTATTCGATGATAGAATTTCACTTAAAAAGGGAAAATAGTTGTCTTTTTCGGGTGGATTTCTT
66 AATGATCCGATGATAAAATTCCACTTAAAAAGAGAAAAGAGTTGACCTTTTCGGGTGAATTTCTT
** * *
22051235 AGGTTCGGAGTTCGAGACGGATTTTCACCGAAGCATCAGGATAAATCTAAACTCTAAACTCCAAT
131 AGGTGAGGAATTCGAGACGGATTTTCACCGAAGCATCAGGATAAATCCAAACTCTAAACTCCAAT
*
22051300 ACCCATTAACTCAAATAATCGTTGTTA
196 ACCCATTAACTCAAATAATCATTG-TA
22051327 AAATATAATAAATAAAAAATACATGATGTAAATATAATTATTATAAAAAAATAATGAAATGAATA
1 AAATATAATAAAT-AAAAATACATGATGTAAATATAATTATTAT---AAAA-AATGAAATGAATA
* *
22051392 TTTTGAGTGATCCGATGATAAAATTCCACTTAAAAAGAGCAAAGAGTT-ACCTTTTCGGGTGAAT
61 TTTTGAATGATCCGATGATAAAATTCCACTTAAAAAGAGAAAAGAGTTGACCTTTTCGGGTGAAT
* * * * *
22051456 TTCTTAGGTGAGGAATTCGAGACGGATTTTCACTGAAGCGTCGGGATAAATCCGAACTCTATACT
126 TTCTTAGGTGAGGAATTCGAGACGGATTTTCACCGAAGCATCAGGATAAATCCAAACTCTAAACT
* * *
22051521 CCGATGCCTATTAACTCAAATAATCATTGTA
191 CCAATACCCATTAACTCAAATAATCATTGTA
22051552 AAA-ATAATA
1 AAATATAATA
22051561 TACATTAGAA
Statistics
Matches: 204, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
222 13 0.06
223 30 0.15
224 6 0.03
225 5 0.02
226 98 0.48
227 52 0.25
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (221 bp):
AAATATAATAAATAAAAATACATGATGTAAATATAATTATTATAAAAAATGAAATGAATATTTTG
AATGATCCGATGATAAAATTCCACTTAAAAAGAGAAAAGAGTTGACCTTTTCGGGTGAATTTCTT
AGGTGAGGAATTCGAGACGGATTTTCACCGAAGCATCAGGATAAATCCAAACTCTAAACTCCAAT
ACCCATTAACTCAAATAATCATTGTA
Found at i:22068532 original size:23 final size:23
Alignment explanation
Indices: 22068506--22068573 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
22068496 TCACTCAACT
22068506 TTATATTTT-TTTA-ATTTATATTA
1 TTAT-TTTTGTTTATATTTAT-TTA
22068529 TTATTTTTGTTTATATTTATTTA
1 TTATTTTTGTTTATATTTATTTA
* *
22068552 TT-TTTTTATTTCTATTCTATTT
1 TTATTTTTGTTTATATT-TATTT
22068574 GTTCATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
22 16 0.40
23 18 0.45
24 6 0.15
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (23 bp):
TTATTTTTGTTTATATTTATTTA
Found at i:22068535 original size:18 final size:19
Alignment explanation
Indices: 22068509--22068555 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
22068499 CTCAACTTTA
*
22068509 TATTTTTTTAATTTATA-T
1 TATTATTTTAATTTATATT
**
22068527 TATTATTTTTGTTTATATT
1 TATTATTTTAATTTATATT
22068546 TATTTATTTT
1 TA-TTATTTT
22068556 TTTATTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 14 0.58
19 3 0.12
20 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTATTTTAATTTATATT
Found at i:22068549 original size:22 final size:22
Alignment explanation
Indices: 22068509--22068572 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
22068499 CTCAACTTTA
22068509 TATTTTTTTAATTTATA-T-TAT
1 TATTTTTTT-ATTTATATTCTAT
*
22068530 TA--TTTTTGTTTATATT-TATT
1 TATTTTTTTATTTATATTCTA-T
*
22068550 TATTTTTTTATTTCTATTCTAT
1 TATTTTTTTATTTATATTCTAT
22068572 T
1 T
22068573 TGTTCATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
18 6 0.17
19 8 0.23
20 3 0.09
21 2 0.06
22 14 0.40
23 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTTTTTTATTTATATTCTAT
Found at i:22068559 original size:18 final size:19
Alignment explanation
Indices: 22068520--22068573 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
22068510 ATTTTTTTAA
22068520 TTTATA-TTA-TTATTTTTG
1 TTTATATTTATTTA-TTTTG
22068538 TTTATATTTATTTATTTT-
1 TTTATATTTATTTATTTTG
22068556 TTTAT-TTCTATTCTATTT
1 TTTATATT-TATT-TATTT
22068574 GTTCATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.06
18 15 0.47
19 12 0.38
20 3 0.09
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATATTTATTTATTTTG
Found at i:22068730 original size:15 final size:15
Alignment explanation
Indices: 22068709--22068743 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22068699 TATGTTACAT
*
22068709 AAATTTTATTTTTTA
1 AAATTTTAATTTTTA
*
22068724 TAATTTTAATTTTTA
1 AAATTTTAATTTTTA
22068739 AAATT
1 AAATT
22068744 AATAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AAATTTTAATTTTTA
Found at i:22072623 original size:4 final size:4
Alignment explanation
Indices: 22072614--22072671 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
22072604 ATAACATATG
*
22072614 AATA AATA AA-A TAA-A AATA AATA AATA AACA AAT- -ATA AATA AATA
1 AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
22072659 TAATA ATATA AAT
1 -AATA A-ATA AAT
22072672 TAAAAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 2 0.04
3 3 0.07
4 33 0.72
5 8 0.17
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:22072641 original size:14 final size:14
Alignment explanation
Indices: 22072614--22072670 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
22072604 ATAACATATG
22072614 AATAAATAAAATAAA
1 AATAAAT-AAATAAA
22072629 AATAAATAAATAAA
1 AATAAATAAATAAA
*
22072643 CAA-ATATAAATAAA
1 -AATAAATAAATAAA
*
22072657 TAT-AATAATATAAA
1 AATAAATAA-ATAAA
22072671 TTAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 5 0.14
14 22 0.61
15 9 0.25
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:22072653 original size:18 final size:17
Alignment explanation
Indices: 22072615--22072671 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
22072605 TAACATATGA
*
22072615 ATAAATAAA-ATAAAA-
1 ATAAATAAATAAAAAAT
22072630 ATAAATAAATAAACAAAT
1 ATAAATAAATAAA-AAAT
*
22072648 ATAAATAAATATAATAAT
1 ATAAATAAATA-AAAAAT
22072666 ATAAAT
1 ATAAAT
22072672 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 9 0.25
16 2 0.06
17 3 0.08
18 20 0.56
19 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATAAATAAAAAAT
Found at i:22073988 original size:22 final size:24
Alignment explanation
Indices: 22073960--22074007 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22073950 TTTTCCATAG
22073960 TATATT-AAATT-TTAAA-TATATA
1 TATATTAAAATTATTAAACT-TATA
22073982 TATATTAAAATTATTAAACTTATA
1 TATATTAAAATTATTAAACTTATA
22074006 TA
1 TA
22074008 AAATCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 5 0.22
24 11 0.48
25 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTAAAATTATTAAACTTATA
Found at i:22082444 original size:30 final size:28
Alignment explanation
Indices: 22082410--22082494 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 28
22082400 GGCTCTTAGT
*
22082410 TCAAAATAAAAGTATAAAAATTTATTAGA
1 TCAAAATAAAAATATAAAAATTTATT-GA
* *
22082439 CTCAAAACAAAAATATAAAGATTTAATTGA
1 -TCAAAATAAAAATATAAAAATTT-ATTGA
* * *
22082469 ACATAATAAAAAAATAAAAATTTATT
1 TCAAAATAAAAATATAAAAATTTATT
22082495 TAAATGTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 3 0.07
29 18 0.39
30 22 0.48
31 3 0.07
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (28 bp):
TCAAAATAAAAATATAAAAATTTATTGA
Found at i:22086667 original size:20 final size:20
Alignment explanation
Indices: 22086642--22086683 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
22086632 TCAAGTGTTA
22086642 CACACTGTCTCTTTAGCCAT
1 CACACTGTCTCTTTAGCCAT
22086662 CACACTGTCTCTTTAGCCAT
1 CACACTGTCTCTTTAGCCAT
22086682 CA
1 CA
22086684 TTCTGGTAAA
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:0.21, C:0.36, G:0.10, T:0.33
Consensus pattern (20 bp):
CACACTGTCTCTTTAGCCAT
Found at i:22096550 original size:10 final size:12
Alignment explanation
Indices: 22096524--22096557 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
22096514 ATTTTTGGTC
22096524 GCAGAATCAACT
1 GCAGAATCAACT
22096536 GCAGAA-CAA-T
1 GCAGAATCAACT
22096546 GCAGAATCAACT
1 GCAGAATCAACT
22096558 TATGAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.35
11 6 0.30
12 7 0.35
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (12 bp):
GCAGAATCAACT
Found at i:22101270 original size:9 final size:9
Alignment explanation
Indices: 22101258--22101292 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
22101248 AGGCAGCACA
22101258 AAAAGCAAT
1 AAAAGCAAT
22101267 AAAAGCAAT
1 AAAAGCAAT
22101276 AAAAGCAAT
1 AAAAGCAAT
22101285 AAACAGCA
1 AAA-AGCA
22101293 GTGAAGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.66, C:0.14, G:0.11, T:0.09
Consensus pattern (9 bp):
AAAAGCAAT
Found at i:22101553 original size:111 final size:110
Alignment explanation
Indices: 22101411--22101748 Score: 482
Period size: 111 Copynumber: 3.1 Consensus size: 110
22101401 CCAACTCTAT
** * * * *
22101411 TTCCTTTCCACAATTCAATTCCGGTGCAATGAGCTTATTCTCCATTGCTAGCTCTGCCAGGTTGG
1 TTCCTTTCCACAATTTGATTCCTGTGCAATGAGCTCATTCTCTATTGCTAGCTCTGCCTGGTTGG
*
22101476 AATTAGTCTTGGCTTCTGTTTCTCCATCTTCACAACCAGCATCAAG
66 AATTAGTCTTGGCTTCTGTTTCTCC-TCTTCACAACCAGCAGCAAG
* **
22101522 TTCCTTTCCACAATTTGATTCCTGTGCAATGAGCTCATCCTCTATTGCTAGAGCTGCCTGGTTGG
1 TTCCTTTCCACAATTTGATTCCTGTGCAATGAGCTCATTCTCTATTGCTAGCTCTGCCTGGTTGG
*
22101587 AATTAGT-TGTGGCTTCTGTTTCTCCCTCTTCACAACCAGCAGAAAG
66 AATTAGTCT-TGGCTTCTGTTTCT-CCTCTTCACAACCAGCAGCAAG
* * *
22101633 TTCCTTTCCGCAATTTGATTCTTGTGTAATGAGCTCATTCTCTATTGCTAGCTCTGCCTGGTTGG
1 TTCCTTTCCACAATTTGATTCCTGTGCAATGAGCTCATTCTCTATTGCTAGCTCTGCCTGGTTGG
* *
22101698 AATTAGTCCTGGCTTCTGTTTCTTCCTCTTCATAACCAGCAGCAAG
66 AATTAGTCTTGGCTTCTGTTTC-TCCTCTTCACAACCAGCAGCAAG
22101744 -TCCTT
1 TTCCTT
22101749 CAGAGAAGCT
Statistics
Matches: 203, Mismatches: 20, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
110 6 0.03
111 194 0.96
112 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (110 bp):
TTCCTTTCCACAATTTGATTCCTGTGCAATGAGCTCATTCTCTATTGCTAGCTCTGCCTGGTTGG
AATTAGTCTTGGCTTCTGTTTCTCCTCTTCACAACCAGCAGCAAG
Found at i:22103668 original size:105 final size:105
Alignment explanation
Indices: 22103545--22103751 Score: 324
Period size: 105 Copynumber: 2.0 Consensus size: 105
22103535 AAAAGTCCAC
* * *
22103545 CAGGAATGGCTAAATTGCCATCTTGTACCAAACCTGAAGTTGGCATCATCATACTGTTCGACATG
1 CAGGAATGGCTAAATTGCCATCTTGCACCAAACCCGAAGTTGGCATCACCATACTGTTCGACATG
* *
22103610 AATGAGGGAGTAGGATTTACATTAAGAACTTTTAAAGCAT
66 AACGAGGGAGTAGGATTTACATTAAGAACTTTGAAAGCAT
* * * * *
22103650 CAGGAATGGCTAAGTTGCCATCTTGCACCAAGCCCGAAGTTGGCATCACCATTCTGTTGGGCATG
1 CAGGAATGGCTAAATTGCCATCTTGCACCAAACCCGAAGTTGGCATCACCATACTGTTCGACATG
22103715 AACGAGGGAGTAGGATTTACATTAAGAACTTTGAAAG
66 AACGAGGGAGTAGGATTTACATTAAGAACTTTGAAAG
22103752 GGTACTCCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 92 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (105 bp):
CAGGAATGGCTAAATTGCCATCTTGCACCAAACCCGAAGTTGGCATCACCATACTGTTCGACATG
AACGAGGGAGTAGGATTTACATTAAGAACTTTGAAAGCAT
Found at i:22113304 original size:47 final size:46
Alignment explanation
Indices: 22113264--22113360 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 46
22113254 AGAAAATTGA
*
22113264 AGGAACGAATCTTAATCGAATTTTC-CCAAAGGAAAAGAGAAAGAGAG
1 AGGAACGAATCTTAATCGAA-ATTCGCCAAAGG-AAAGAGAAAGAGAG
*
22113311 AGGAACGAATCTTAATCTAAATTCGCCAAAGGAAAGAGAAAGAGA-
1 AGGAACGAATCTTAATCGAAATTCGCCAAAGGAAAGAGAAAGAGAG
22113356 AGGAA
1 AGGAA
22113361 AACTACGCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
45 5 0.11
46 16 0.34
47 26 0.55
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.15
Consensus pattern (46 bp):
AGGAACGAATCTTAATCGAAATTCGCCAAAGGAAAGAGAAAGAGAG
Found at i:22120856 original size:2 final size:2
Alignment explanation
Indices: 22120849--22120883 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22120839 TATTTGTGCC
22120849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22120884 AAAAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22124293 original size:17 final size:17
Alignment explanation
Indices: 22124263--22124313 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
22124253 NNNNNNNNNN
*
22124263 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
22124279 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
22124296 AAAAGTATTAGTATATAT
1 TAAAGTA-TA-TATATAT
22124314 ATAATACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 2 0.07
19 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:22124743 original size:14 final size:12
Alignment explanation
Indices: 22124703--22124742 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
22124693 TTTAACTAAT
*
22124703 TATATTT-TAAA
1 TATATTTATCAA
22124714 TATATTTATCAA
1 TATATTTATCAA
*
22124726 TATATTTGTCAA
1 TATATTTATCAA
22124738 TATAT
1 TATAT
22124743 ACCAAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (12 bp):
TATATTTATCAA
Found at i:22124891 original size:18 final size:18
Alignment explanation
Indices: 22124868--22124904 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22124858 CGGAATCCTG
22124868 TTAAACAATAATATAAAA
1 TTAAACAATAATATAAAA
22124886 TTAAACAATAATATAAAA
1 TTAAACAATAATATAAAA
22124904 T
1 T
22124905 ATATAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAACAATAATATAAAA
Found at i:22131370 original size:19 final size:19
Alignment explanation
Indices: 22131334--22131372 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22131324 AGTATGAAAT
* **
22131334 TAAAATAGTATTTTAATAA
1 TAAAATAATATTAAAATAA
22131353 TAAAATAATATTAAAATAA
1 TAAAATAATATTAAAATAA
22131372 T
1 T
22131373 GATAGAGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TAAAATAATATTAAAATAA
Found at i:22134145 original size:62 final size:63
Alignment explanation
Indices: 22134012--22134153 Score: 163
Period size: 62 Copynumber: 2.3 Consensus size: 63
22134002 TGAGTACTAA
* * *
22134012 GATATTTGGTGGA-GT-GGGGAGTTTTCACGAGTAGTTATAAGGGAGATGTGAAGTCCCGACTT
1 GATATTTGGT-GATGTGGGGGAGTTCTCACGAGTAGGTATAAGGGAGATGTGAAGGCCCGACTT
22134074 GATATTTGGTGATGTGGGGGAGTTCTCACGAGTAGGTATAAAGGG-GA-G-GAGAGGCCTCGACT
1 GATATTTGGTGATGTGGGGGAGTTCTCACGAGTAGGTAT-AAGGGAGATGTGA-AGGCC-CGACT
22134136 T
63 T
22134137 -AT-TATTGGTGATGTGGG
1 GATAT-TTGGTGATGTGGG
22134154 AAGTCTTACG
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
61 5 0.07
62 32 0.45
63 29 0.41
64 5 0.07
ACGTcount: A:0.23, C:0.09, G:0.38, T:0.30
Consensus pattern (63 bp):
GATATTTGGTGATGTGGGGGAGTTCTCACGAGTAGGTATAAGGGAGATGTGAAGGCCCGACTT
Found at i:22141115 original size:39 final size:40
Alignment explanation
Indices: 22141071--22141153 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 40
22141061 AAAAAAAGAA
22141071 TTTAAAATGAAAAAGTTTAAAATTA-TAAAAAATAAATAT
1 TTTAAAATGAAAAAGTTTAAAATTACTAAAAAATAAATAT
** * ** *
22141110 TTT-AAATTTAAAATTTTAAAATTACTAAAATTTTAATAT
1 TTTAAAATGAAAAAGTTTAAAATTACTAAAAAATAAATAT
22141149 TTTAA
1 TTTAA
22141154 TCATAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
38 18 0.50
39 17 0.47
40 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (40 bp):
TTTAAAATGAAAAAGTTTAAAATTACTAAAAAATAAATAT
Found at i:22141154 original size:8 final size:8
Alignment explanation
Indices: 22141081--22141153 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
22141071 TTTAAAATGA
*
22141081 AAAAGTTT
1 AAAATTTT
*
22141089 AAAATTAT
1 AAAATTTT
**
22141097 AAAA-AAT
1 AAAATTTT
22141104 AAATATTTT
1 AAA-ATTTT
22141113 -AAA-TTT
1 AAAATTTT
22141119 AAAATTTT
1 AAAATTTT
*
22141127 AAAATTACT
1 AAAATT-TT
22141136 AAAATTTT
1 AAAATTTT
*
22141144 AATATTTT
1 AAAATTTT
22141152 AA
1 AA
22141154 TCATAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
6 3 0.06
7 9 0.17
8 32 0.62
9 8 0.15
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (8 bp):
AAAATTTT
Found at i:22141211 original size:16 final size:17
Alignment explanation
Indices: 22141179--22141212 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22141169 AATCATACAT
*
22141179 AAAATATTAATATTTTA
1 AAAATATTAATAGTTTA
22141196 AAAATATTAAT-GTTTA
1 AAAATATTAATAGTTTA
22141212 A
1 A
22141213 CTTATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAAATATTAATAGTTTA
Found at i:22141284 original size:20 final size:20
Alignment explanation
Indices: 22141243--22141285 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22141233 TTAAATTTTT
*
22141243 AATGAAAATATGAATTAAAA
1 AATGAAAATATGAAATAAAA
22141263 AATGAAAAT-TGCAAATAGAAA
1 AATGAAAATATG-AAATA-AAA
22141284 AA
1 AA
22141286 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.21
Consensus pattern (20 bp):
AATGAAAATATGAAATAAAA
Found at i:22141501 original size:21 final size:21
Alignment explanation
Indices: 22141477--22141524 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
22141467 GTTTAAATTT
22141477 TTAATTATAT-ATTATAAAAAA
1 TTAATTATATAATT-TAAAAAA
* *
22141498 TTAA-TATTTAATTTTAAAAA
1 TTAATTATATAATTTAAAAAA
22141518 TTAATTA
1 TTAATTA
22141525 AAATTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTATATAATTTAAAAAA
Found at i:22141567 original size:17 final size:17
Alignment explanation
Indices: 22141534--22141567 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22141524 AAAATTATGT
*
22141534 TAATATTTTAATCATAA
1 TAATATTTAAATCATAA
*
22141551 TAATATTTAAATTATAA
1 TAATATTTAAATCATAA
22141568 ATAAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTAAATCATAA
Found at i:22141654 original size:20 final size:21
Alignment explanation
Indices: 22141617--22141659 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
22141607 TAAATAAAAA
22141617 ATTAATATTTGAAAATTAATT
1 ATTAATATTTGAAAATTAATT
22141638 ATTAATATTTG-AAATTAATT
1 ATTAATATTTGAAAATTAATT
22141658 AT
1 AT
22141660 AAATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTAATATTTGAAAATTAATT
Found at i:22141690 original size:27 final size:27
Alignment explanation
Indices: 22141634--22141690 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
22141624 TTTGAAAATT
* * *
22141634 AATTATTAATATTTGAAATTAATTATA
1 AATTATTAATATTTAAAAATAAATATA
22141661 AATTATTAATATTTAAAAATACAATA-A
1 AATTATTAATATTTAAAAATA-AATATA
22141688 AAT
1 AAT
22141691 AAAACAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTATTAATATTTAAAAATAAATATA
Found at i:22143664 original size:20 final size:18
Alignment explanation
Indices: 22143639--22143686 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
22143629 AAAAAAAAAG
22143639 AAAAAAAGAACAAAGAGAA
1 AAAAAAAGAACAAAG-GAA
*
22143658 TAAAAAACA-AATAAAGGAA
1 -AAAAAA-AGAACAAAGGAA
22143677 AAAAAAAGAA
1 AAAAAAAGAA
22143687 GGGAAATCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 3 0.12
20 12 0.48
21 1 0.04
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.04
Consensus pattern (18 bp):
AAAAAAAGAACAAAGGAA
Found at i:22143668 original size:16 final size:15
Alignment explanation
Indices: 22143625--22143686 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
22143615 TCATTTTCTT
22143625 AAATAAAAAA-AAAG
1 AAATAAAAAACAAAG
22143639 AAA-AAAAGAACAAAG
1 AAATAAAA-AACAAAG
*
22143654 AGAATAAAAAACAAAT
1 A-AATAAAAAACAAAG
*
22143670 AAAGGAAAAAA-AAAG
1 AAA-TAAAAAACAAAG
22143685 AA
1 AA
22143687 GGGAAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 4 0.10
14 5 0.12
15 12 0.30
16 15 0.38
17 4 0.10
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (15 bp):
AAATAAAAAACAAAG
Found at i:22146934 original size:22 final size:22
Alignment explanation
Indices: 22146908--22146951 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22146898 TTTAAGATCT
22146908 TTCTCATACAATTCTTTCACAA
1 TTCTCATACAATTCTTTCACAA
22146930 TTCTCATACAATTCTTTCACAA
1 TTCTCATACAATTCTTTCACAA
22146952 CTTCAAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (22 bp):
TTCTCATACAATTCTTTCACAA
Found at i:22151134 original size:23 final size:23
Alignment explanation
Indices: 22151108--22151151 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22151098 TAGAGTTTGG
* *
22151108 GAAACGGCATGTTGGGAATGTAT
1 GAAACGACATGGTGGGAATGTAT
22151131 GAAACGACATGGTGGGAATGT
1 GAAACGACATGGTGGGAATGT
22151152 GTGACGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.36, T:0.23
Consensus pattern (23 bp):
GAAACGACATGGTGGGAATGTAT
Found at i:22151214 original size:23 final size:23
Alignment explanation
Indices: 22151188--22151266 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
22151178 TTAGAGTTTA
22151188 TGACATGCCATGGAGGGAATATG
1 TGACATGCCATGGAGGGAATATG
*
22151211 TGACATGACTCA--AAGGGAATATG
1 TGACATG-C-CATGGAGGGAATATG
* * * * *
22151234 TGAGATGACATGGTGAGAATGTG
1 TGACATGCCATGGAGGGAATATG
22151257 TGACATGCCA
1 TGACATGCCA
22151267 GTGTGAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.05
23 38 0.88
24 1 0.02
25 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.23
Consensus pattern (23 bp):
TGACATGCCATGGAGGGAATATG
Found at i:22151428 original size:47 final size:48
Alignment explanation
Indices: 22151355--22151790 Score: 327
Period size: 47 Copynumber: 9.3 Consensus size: 48
22151345 TATGACACGA
* * * *
22151355 CTGTGAGACGGCAGGGTTC-AGAGTTTGTGACATGTCATGGAGGGAAT
1 CTGTGACACGACAGAGTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* *
22151402 CTGTGACACGACAGAGTTCAAG-GTTTGTGACA-GCCATTGAAGGAAT
1 CTGTGACACGACAGAGTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* * * * * * *
22151448 CTGTGACATGACGGGGTT-TAGAGTTTGTGACACGTCATGGAAGGAAT
1 CTGTGACACGACAGAGTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* * * *
22151495 C-GATGACACGATAGTGTT-TAGAGTTTGTGACATGCCATGGAAGGAAT
1 CTG-TGACACGACAGAGTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* * *
22151542 TTGTGACACTG-CAG-GATTGAA-AGTTTGTGACACGCCATGGAGGGAAT
1 CTGTGACAC-GACAGAG-TTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* * * *
22151589 CTGTGATACGGCA-ACGTT-TAGAGTTTGTGAAATGCCATGGAGGGAAT
1 CTGTGACACGACAGA-GTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* * * * *
22151636 TTGTAACATGGA-A-ATGTTC-AGAGTTTGTGAAATGCCATGGAAGGAAT
1 CTGTGACA-CGACAGA-GTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* *
22151683 CTGTGATATGGTA-AGA-TTCAA-AGTTTGTGACATGCCATGGAGGGAA-
1 CTGTGACA-CG-ACAGAGTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
* * *
22151729 CTTGTGACATGACA-AGGTTCAA-AGTTTGTCAGATGCCATGGAGGGAAT
1 C-TGTGACACGACAGA-GTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
*
22151777 TTGTGACACGACAG
1 CTGTGACACGACAG
22151791 GATTTAAAAT
Statistics
Matches: 320, Mismatches: 46, Indels: 45
0.78 0.11 0.11
Matches are distributed among these distances:
45 4 0.01
46 43 0.13
47 262 0.82
48 10 0.03
49 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (48 bp):
CTGTGACACGACAGAGTTCAAGAGTTTGTGACATGCCATGGAGGGAAT
Found at i:22151545 original size:23 final size:23
Alignment explanation
Indices: 22151518--22151594 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
22151508 GTGTTTAGAG
22151518 TTTGTGACATGCCATGGAAGGAA
1 TTTGTGACATGCCATGGAAGGAA
* *
22151541 TTTGTGACACTG-CA-GGATTGAAA
1 TTTGTGACA-TGCCATGGA-AGGAA
* *
22151564 GTTTGTGACACGCCATGGAGGGAA
1 -TTTGTGACATGCCATGGAAGGAA
*
22151588 TCTGTGA
1 TTTGTGA
22151595 TACGGCAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 3 0.07
23 21 0.49
24 16 0.37
25 3 0.07
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (23 bp):
TTTGTGACATGCCATGGAAGGAA
Found at i:22151659 original size:141 final size:139
Alignment explanation
Indices: 22151370--22151787 Score: 441
Period size: 141 Copynumber: 3.0 Consensus size: 139
22151360 AGACGGCAGG
* * *
22151370 GTTCAGAGTTTGTGACATGTCATGGAGGGAATCTGTGACAC-GACAGAGTTCAAGGTTTGTGACA
1 GTTCAGAGTTTGTGACATGCCATGGAAGGAATCTGTGACACTG-CAGA-TTCAAAGTTTGTGACA
* * ** * * * * *
22151434 GCCATTGAAGGAATCTGTGACATGACGGGGTTTAGAGTTTGTGACACGTCATGGAAGGAA-TCGA
64 GCCATGGAGGGAATCTGTGACATGACAAGGTTTAGAGTTTGTGAAATGCCATGGAGGGAATTTG-
* *
22151498 TGACACGATAGT
128 TAACACGATAAT
* * *
22151510 GTTTAGAGTTTGTGACATGCCATGGAAGGAATTTGTGACACTGCAGGATTGAAAGTTTGTGACAC
1 GTTCAGAGTTTGTGACATGCCATGGAAGGAATCTGTGACACTGCA-GATTCAAAGTTTGTGACA-
* * * *
22151575 GCCATGGAGGGAATCTGTGATACGGCAACGTTTAGAGTTTGTGAAATGCCATGGAGGGAATTTGT
64 GCCATGGAGGGAATCTGTGACATGACAAGGTTTAGAGTTTGTGAAATGCCATGGAGGGAATTTGT
*
22151640 AACATGGA-AAT
129 AACA-CGATAAT
* * *
22151651 GTTCAGAGTTTGTGAAATGCCATGGAAGGAATCTGTGATA-TGGTAAGATTCAAAGTTTGTGACA
1 GTTCAGAGTTTGTGACATGCCATGGAAGGAATCTGTGACACT-G-CAGATTCAAAGTTTGTGACA
* * * *
22151715 TGCCATGGAGGGAA-CTTGTGACATGACAAGGTTCAAAGTTTGTCAGATGCCATGGAGGGAATTT
64 -GCCATGGAGGGAATC-TGTGACATGACAAGGTTTAGAGTTTGTGAAATGCCATGGAGGGAATTT
*
22151779 GTGACACGA
127 GTAACACGA
22151788 CAGGATTTAA
Statistics
Matches: 231, Mismatches: 39, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
140 57 0.25
141 169 0.73
142 5 0.02
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.28
Consensus pattern (139 bp):
GTTCAGAGTTTGTGACATGCCATGGAAGGAATCTGTGACACTGCAGATTCAAAGTTTGTGACAGC
CATGGAGGGAATCTGTGACATGACAAGGTTTAGAGTTTGTGAAATGCCATGGAGGGAATTTGTAA
CACGATAAT
Found at i:22151806 original size:94 final size:94
Alignment explanation
Indices: 22151369--22151808 Score: 401
Period size: 94 Copynumber: 4.7 Consensus size: 94
22151359 GAGACGGCAG
* * *
22151369 GGTTCAGAGTTTGTGACATGTCATGGAGGGAATCTGTGACACGACA-GAGTTCAAGGTTTGTGAC
1 GGTTCAGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGACAGGA-TTTAAAGTTTGTGAC
* * **
22151433 A-GCCATTGAAGGAATCTGTGACATGACGG
65 ATGCCATGGAAGGAATTTGTGACATGACAA
* * * * * *
22151462 GGTTTAGAGTTTGTGACACGTCATGGAAGGAATC-GATGACACGATAGTG-TTTAGAGTTTGTGA
1 GGTTCAGAGTTTGTGACATGCCATGGAGGGAATCTG-TGACACGACAG-GATTTAAAGTTTGTGA
22151525 CATGCCATGGAAGGAATTTGTGACACTG-C-A
64 CATGCCATGGAAGGAATTTGTGACA-TGACAA
* * * * * * *
22151555 GGATTGAAAGTTTGTGACACGCCATGGAGGGAATCTGTGATACGGCAACG-TTTAGAGTTTGTGA
1 GG-TTCAGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGAC-AGGATTTAAAGTTTGTGA
* * *
22151619 AATGCCATGGAGGGAATTTGTAACATGGA-AA
64 CATGCCATGGAAGGAATTTGTGACAT-GACAA
* * * * * ** * *
22151650 TGTTCAGAGTTTGTGAAATGCCATGGAAGGAATCTGTGATATGGTAAGATTCAAAGTTTGTGACA
1 GGTTCAGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGACAGGATTTAAAGTTTGTGACA
* *
22151715 TGCCATGGAGGGAACTTGTGACATGACAA
66 TGCCATGGAAGGAATTTGTGACATGACAA
* * * * * *
22151744 GGTTCAAAGTTTGTCAGATGCCATGGAGGGAATTTGTGACACGACAGGATTTAAAATGTGTGACA
1 GGTTCAGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGACAGGATTTAAAGTTTGTGACA
22151809 CAGCATGGCT
Statistics
Matches: 285, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
92 1 0.00
93 60 0.21
94 217 0.76
95 7 0.02
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (94 bp):
GGTTCAGAGTTTGTGACATGCCATGGAGGGAATCTGTGACACGACAGGATTTAAAGTTTGTGACA
TGCCATGGAAGGAATTTGTGACATGACAA
Found at i:22152485 original size:31 final size:31
Alignment explanation
Indices: 22152445--22152768 Score: 422
Period size: 31 Copynumber: 10.5 Consensus size: 31
22152435 GTGTCAACGT
*
22152445 TGGCGTGTAACAACATTTGACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
*
22152476 TGGTGTGTAACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* * *
22152507 TGGAGTGTAACAATATTTTATTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
** *
22152538 T-GCGTGTAATGACATTTGACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* *
22152568 TGGCGTGTAACAACATTTTACGTT-ATCTACA
1 TGGCGTGTAACAACATTTTAC-TTGATATGCA
* * **
22152599 TGACGTGTAACAACATTTGACTTGATACACA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
* *
22152630 TGGCGTATAACAACATTTTACGTT-ATAAGCA
1 TGGCGTGTAACAACATTTTAC-TTGATATGCA
*
22152661 TGGCGTGAAACAACATTTTACGTT-ATATGCA
1 TGGCGTGTAACAACATTTTAC-TTGATATGCA
*
22152692 TGACGTGTAACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
*
22152723 TGGCATGTAACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTTACTTGATATGCA
22152754 TGGCGTGTAACAACA
1 TGGCGTGTAACAACA
22152769 CTTATTTCTT
Statistics
Matches: 255, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
30 28 0.11
31 223 0.87
32 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (31 bp):
TGGCGTGTAACAACATTTTACTTGATATGCA
Found at i:22154521 original size:144 final size:145
Alignment explanation
Indices: 22154213--22154549 Score: 414
Period size: 144 Copynumber: 2.3 Consensus size: 145
22154203 GTAAAGACAA
* * * *
22154213 TTCTAACGATTTGTGTTCAATAATTCCATATGTGATTATCGAATAACATATTTGTGTTTGTAGTT
1 TTCTAACGATTTGTGTTCAACAATTCCATATGTAATTATCGAATAACATATCTGTGTTTGCAGTT
* * * *
22154278 GGATCATGCGACGATAGCTCCATAACCATCGAAAGGTCTTCCTTAGACGCATAATGCTAACGAGC
66 GGACCATGCGACGACAGCTCCATAACCACCGAAAGGTCCTCCTTAGACGCATAATGCTAACGAGC
*
22154343 CGTCGGTAAGATCAG
131 CGTCGATAAGATCAG
* *
22154358 TTCTAACGATTTATGTTCAACAATTCCATCTGTAATTATCGAATAACATATCTGTGTTTGCAGTT
1 TTCTAACGATTTGTGTTCAACAATTCCATATGTAATTATCGAATAACATATCTGTGTTTGCAGTT
* * ** *
22154423 GGACCATGCGAC-ACAGCT-CTTCAACCACCGAGAGGTCCT-CTTCAGACGCATGGTGTTAACGA
66 GGACCATGCGACGACAGCTCCAT-AACCACCGAAAGGTCCTCCTT-AGACGCATAATGCTAACGA
22154485 GCCGTCGATAAGATCAG
129 GCCGTCGATAAGATCAG
* * * * *
22154502 TTCTAATGGTTTGTATTCAACATTTTCACATATGT--TTATCGAGTAACA
1 TTCTAACGATTTGTGTTCAACA-ATTC-CATATGTAATTATCGAATAACA
22154550 CAGTAATTTT
Statistics
Matches: 165, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
143 5 0.03
144 81 0.49
145 73 0.44
146 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (145 bp):
TTCTAACGATTTGTGTTCAACAATTCCATATGTAATTATCGAATAACATATCTGTGTTTGCAGTT
GGACCATGCGACGACAGCTCCATAACCACCGAAAGGTCCTCCTTAGACGCATAATGCTAACGAGC
CGTCGATAAGATCAG
Found at i:22154841 original size:66 final size:66
Alignment explanation
Indices: 22154722--22154855 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 66
22154712 TATATGTTAT
* * * *
22154722 TACAATTGACCCATTTGATAAGAGTCAATGACGGAGTAGTCATGAAGCGTCAACTGCGACGGATC
1 TACAATTGACCCATTCGACAAGAGTCAATGACGGAGTAGTCATGAAGCATCAACTGCAACGGATC
22154787 A
66 A
* *
22154788 TACAGTTGACCCATTCGACAAGAGTCAATGACGGAGTAGTCATTAAGCATCAACTGCAACGGATC
1 TACAATTGACCCATTCGACAAGAGTCAATGACGGAGTAGTCATGAAGCATCAACTGCAACGGATC
22154853 A
66 A
22154854 TA
1 TA
22154856 TGCTAGCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (66 bp):
TACAATTGACCCATTCGACAAGAGTCAATGACGGAGTAGTCATGAAGCATCAACTGCAACGGATC
A
Found at i:22155292 original size:75 final size:75
Alignment explanation
Indices: 22155213--22155377 Score: 267
Period size: 75 Copynumber: 2.2 Consensus size: 75
22155203 GCTGATGAAG
* * * *
22155213 ACCCTATTCTTGAGGCTAATTTGGATGATGCTGTGGTAGGGGATGTGACCCTTCAATCAGATGAT
1 ACCCTATTCTTGAGGCCAATTTGGATGATGCTATGGCAGGGGATATGACCCTTCAATCAGATGAT
22155278 GCTGAAGGAA
66 GCTGAAGGAA
*
22155288 ACCCTATTCTTGAGGCCGATTTGGATGATGCTATGGCAGGGGATATGACCCTTCAATCAGATGAT
1 ACCCTATTCTTGAGGCCAATTTGGATGATGCTATGGCAGGGGATATGACCCTTCAATCAGATGAT
22155353 GCTGAAGGAA
66 GCTGAAGGAA
* *
22155363 ACCTTGTTCTTGAGG
1 ACCCTATTCTTGAGG
22155378 TTGATTCGGT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (75 bp):
ACCCTATTCTTGAGGCCAATTTGGATGATGCTATGGCAGGGGATATGACCCTTCAATCAGATGAT
GCTGAAGGAA
Found at i:22157035 original size:31 final size:31
Alignment explanation
Indices: 22156995--22157067 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
22156985 TGCAACAAGC
* * * *
22156995 CAGCGTGTCACGCCATAAGTCTGC-ATCCACT
1 CAGCATGTCACACCATAAATCTACTA-CCACT
*
22157026 CAGCATGTCACACCATAAATTTACTACCACT
1 CAGCATGTCACACCATAAATCTACTACCACT
22157057 CAGCATGTCAC
1 CAGCATGTCAC
22157068 CACAAGATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (31 bp):
CAGCATGTCACACCATAAATCTACTACCACT
Found at i:22157233 original size:85 final size:85
Alignment explanation
Indices: 22157090--22157255 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
22157080 CTGACATATG
** * *
22157090 ACAATTGGGGCATGGCGTGTCACCCTACAATATTGGAAAAGTCAGCGTGCCATGCCATAAATCTG
1 ACAATTGGGGCATGGCGTGTCACCCTACAATATTACAAAAGTCAGCGTGCCACGCCATAAATCTA
*
22157155 CTT-TCACTCAGCGTGTTACC
66 CTTCT-ACTCAACGTGTTACC
** *
22157175 ACAATTGGGGTGTGGCGTGTCACCC-ACAATATTACAACAAGTCAGCGTGTCACGCCATAAATCT
1 ACAATTGGGGCATGGCGTGTCACCCTACAATATTACAA-AAGTCAGCGTGCCACGCCATAAATCT
22157239 ACTTCTACTCAACGTGT
65 ACTTCTACTCAACGTGT
22157256 CACGTCATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
84 10 0.14
85 60 0.85
86 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (85 bp):
ACAATTGGGGCATGGCGTGTCACCCTACAATATTACAAAAGTCAGCGTGCCACGCCATAAATCTA
CTTCTACTCAACGTGTTACC
Found at i:22157287 original size:31 final size:31
Alignment explanation
Indices: 22157216--22157287 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
22157206 TTACAACAAG
* *
22157216 TCAGCGTGTCACGCCATAAATCTACTTCTAC
1 TCAGCGTGTCACGCCATAAATCTACTACCAC
* * * *
22157247 TCAACGTGTCACGTCATAAATTTGCTACCAC
1 TCAGCGTGTCACGCCATAAATCTACTACCAC
*
22157278 TCAGTGTGTC
1 TCAGCGTGTC
22157288 GCCACAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (31 bp):
TCAGCGTGTCACGCCATAAATCTACTACCAC
Found at i:22157302 original size:222 final size:223
Alignment explanation
Indices: 22156882--22157395 Score: 681
Period size: 222 Copynumber: 2.3 Consensus size: 223
22156872 TCCACCCAGT
* * * * * *
22156882 GTGTCACCCCACAATACTGCAATAAGTCAGCGTTTCACGCCATAAATCTGC-TTCTACTTAACGT
1 GTGTCACCCTACAATACTGGAA-AAGTCAGCGTGTCATGCCATAAATCTGCTTTC-ACTCAGCGT
*
22156946 GTCACCACAACTGGGGCATGGCGTGTCACCCCACAATACTGCAACAAGCCAGCGTGTCACGCCAT
64 GTCACCACAACTGGGGCATGGCGTGTCACCCCACAATACTACAACAAGCCAGCGTGTCACGCCAT
* * * *
22157011 AAGTCTGCATCCACTCAGCATGTCACACCATAAATTTACTACCACTCAGCATGTCACCACAAGAT
129 AAATCTACATCCACTCAACATGTCACACCATAAATTTACTACCACTCAGCATGTCACCACAAAAT
**
22157076 GACACTGACATATGACAATTGGGGCATGGC
194 GACACCAACATATGACAATTGGGGCATGGC
* *
22157106 GTGTCACCCTACAATATTGGAAAAGTCAGCGTGCCATGCCATAAATCTGCTTTCACTCAGCGTGT
1 GTGTCACCCTACAATACTGGAAAAGTCAGCGTGTCATGCCATAAATCTGCTTTCACTCAGCGTGT
* * ** * *
22157171 TACCACAATTGGGGTGTGGCGTGTCA-CCCACAATATTACAACAAGTCAGCGTGTCACGCCATAA
66 CACCACAACTGGGGCATGGCGTGTCACCCCACAATACTACAACAAGCCAGCGTGTCACGCCATAA
* * * ** * ** *
22157235 ATCTACTTCTACTCAACGTGTCACGTCATAAATTTGCTACCACTCAGTGTGTCGCCACAAAATGA
131 ATCTACATCCACTCAACATGTCACACCATAAATTTACTACCACTCAGCATGTCACCACAAAATGA
*
22157300 CACCAACATATGACAATTGGGGCGTGGC
196 CACCAACATATGACAATTGGGGCATGGC
** * *
22157328 GTGTCACTTTACAATACTGGAAAAGTTAGCGTGTCATGCCATAAATCTGCTTCCACTCAGCGTGT
1 GTGTCACCCTACAATACTGGAAAAGTCAGCGTGTCATGCCATAAATCTGCTTTCACTCAGCGTGT
22157393 CAC
66 CAC
22157396 GCCATAAATC
Statistics
Matches: 251, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
222 173 0.69
223 56 0.22
224 22 0.09
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (223 bp):
GTGTCACCCTACAATACTGGAAAAGTCAGCGTGTCATGCCATAAATCTGCTTTCACTCAGCGTGT
CACCACAACTGGGGCATGGCGTGTCACCCCACAATACTACAACAAGCCAGCGTGTCACGCCATAA
ATCTACATCCACTCAACATGTCACACCATAAATTTACTACCACTCAGCATGTCACCACAAAATGA
CACCAACATATGACAATTGGGGCATGGC
Found at i:22157393 original size:31 final size:31
Alignment explanation
Indices: 22157355--22157487 Score: 148
Period size: 31 Copynumber: 4.3 Consensus size: 31
22157345 TGGAAAAGTT
*
22157355 AGCGTGTCATGCCATAAATCTGCTTCCACTC
1 AGCGTGTCACGCCATAAATCTGCTTCCACTC
22157386 AGCGTGTCACGCCATAAATCTGCTTCCACTC
1 AGCGTGTCACGCCATAAATCTGCTTCCACTC
* *** * *
22157417 AGCGTGTCA--CCTTACAATACTAG--AGAAGTT
1 AGCGTGTCACGCCATA-AAT-CT-GCTTCCACTC
22157447 AGCGTGTCACGCCATAAATCTGCTTCCACTC
1 AGCGTGTCACGCCATAAATCTGCTTCCACTC
22157478 AGCGTGTCAC
1 AGCGTGTCAC
22157488 CAGAAGATGT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
29 5 0.06
30 16 0.20
31 56 0.68
32 5 0.06
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (31 bp):
AGCGTGTCACGCCATAAATCTGCTTCCACTC
Found at i:22157424 original size:137 final size:137
Alignment explanation
Indices: 22157175--22157424 Score: 349
Period size: 137 Copynumber: 1.8 Consensus size: 137
22157165 GCGTGTTACC
* *
22157175 ACAATTGGGGTGTGGCGTGTCACCCACAATATTACAACAAGTCAGCGTGTCACGCCATAAATCTA
1 ACAATTGGGGCGTGGCGTGTCACCCACAATACTACAACAAGTCAGCGTGTCACGCCATAAATCTA
* * * *
22157240 CTTCTACTCAACGTGTCACGTCATAAATTTGCTACCACTCAGTGTGTCGCCACAAAATGACACCA
66 CTTCCACTCAACGTGTCACGCCATAAATCTGCTACCACTCAGCGTGTCGCCACAAAATGACACCA
22157305 ACATATG
131 ACATATG
** ** * *
22157312 ACAATTGGGGCGTGGCGTGTCACTTTACAATACTGGAA-AAGTTAGCGTGTCATGCCATAAATCT
1 ACAATTGGGGCGTGGCGTGTCAC-CCACAATACTACAACAAGTCAGCGTGTCACGCCATAAATCT
* * *
22157376 GCTTCCACTCAGCGTGTCACGCCATAAATCTGCTTCCACTCAGCGTGTC
65 ACTTCCACTCAACGTGTCACGCCATAAATCTGCTACCACTCAGCGTGTC
22157425 ACCTTACAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
137 88 0.91
138 9 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (137 bp):
ACAATTGGGGCGTGGCGTGTCACCCACAATACTACAACAAGTCAGCGTGTCACGCCATAAATCTA
CTTCCACTCAACGTGTCACGCCATAAATCTGCTACCACTCAGCGTGTCGCCACAAAATGACACCA
ACATATG
Found at i:22157801 original size:23 final size:23
Alignment explanation
Indices: 22157765--22157820 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
22157755 TTGGTCATTT
22157765 TAAATT-ATTTTTGTAAAAATGA
1 TAAATTAATTTTTGTAAAAATGA
*
22157787 TAAATTAATTTTTGTGAAAATGA
1 TAAATTAATTTTTGTAAAAATGA
22157810 TAAATTAATTT
1 TAAATTAATTT
22157821 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (23 bp):
TAAATTAATTTTTGTAAAAATGA
Found at i:22161272 original size:22 final size:22
Alignment explanation
Indices: 22161247--22161394 Score: 100
Period size: 22 Copynumber: 6.6 Consensus size: 22
22161237 TTAGTCATGT
*
22161247 TGTTACACGCCATTTTAAAAAA
1 TGTTACACGCCATTTCAAAAAA
* *
22161269 TGTTACACGCCATGTCCAAAAA
1 TGTTACACGCCATTTCAAAAAA
* ** * *
22161291 TTTTACACGTAAGTTCAAAAAT
1 TGTTACACGCCATTTCAAAAAA
* *
22161313 TGTTACATGCCTTGTTC-AAAAA
1 TGTTACACGCCAT-TTCAAAAAA
* * * * *
22161335 TGTTGCACACAAGTTCAAAAAT
1 TGTTACACGCCATTTCAAAAAA
* *
22161357 TGTTACACACCATGTTAAATAAAAA
1 TGTTACACGCCAT-TT-CA-AAAAA
22161382 TGTTACACGCCAT
1 TGTTACACGCCAT
22161395 GTGCTAACAC
Statistics
Matches: 91, Mismatches: 30, Indels: 7
0.71 0.23 0.05
Matches are distributed among these distances:
21 3 0.03
22 66 0.73
23 5 0.05
24 1 0.01
25 16 0.18
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (22 bp):
TGTTACACGCCATTTCAAAAAA
Found at i:22161299 original size:44 final size:44
Alignment explanation
Indices: 22161247--22161371 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
22161237 TTAGTCATGT
* * * *
22161247 TGTTACACGCCATTTTAAAAAATGTTACACGCCATGTCCAAAAA
1 TGTTACACGCAAGTTCAAAAATTGTTACACGCCATGTCCAAAAA
* * * * *
22161291 TTTTACACGTAAGTTCAAAAATTGTTACATGCCTTGTTCAAAAA
1 TGTTACACGCAAGTTCAAAAATTGTTACACGCCATGTCCAAAAA
* * *
22161335 TGTTGCACACAAGTTCAAAAATTGTTACACACCATGT
1 TGTTACACGCAAGTTCAAAAATTGTTACACGCCATGT
22161372 TAAATAAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (44 bp):
TGTTACACGCAAGTTCAAAAATTGTTACACGCCATGTCCAAAAA
Found at i:22161710 original size:63 final size:63
Alignment explanation
Indices: 22161628--22161750 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 63
22161618 CCACAGCTCG
* *
22161628 ATGACGATGGTGCTCAACAGAGAGTTGATAGAGCTCATACAGTTCAGAGAGCTGAGAGAGCTA
1 ATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCATACAATTCAGAGAGCTGAGAGAGCTA
* * * * * *
22161691 ATGACGATGGTGTTTAACAGAGAGTTGACAGAGTTGATACAATTTAGAGAGTTGAGAGAG
1 ATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCATACAATTCAGAGAGCTGAGAGAG
22161751 AAAGATGAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (63 bp):
ATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCATACAATTCAGAGAGCTGAGAGAGCTA
Found at i:22170371 original size:11 final size:12
Alignment explanation
Indices: 22170343--22170371 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22170333 TAATATATAA
22170343 TATAATTATTTT
1 TATAATTATTTT
22170355 TATAATTATTTT
1 TATAATTATTTT
22170367 T-TAAT
1 TATAAT
22170372 CACTTCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATAATTATTTT
Found at i:22180635 original size:27 final size:26
Alignment explanation
Indices: 22180578--22180635 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
22180568 CTTGCTTTTT
* *
22180578 TTAAAAAATAAAATAAAGTAAAGTAA
1 TTAAAAAATAAAATAAAGGAAAGCAA
* * *
22180604 ATAAAAAATAAAATTAAAGGAAGGCGA
1 TTAAAAAATAAAA-TAAAGGAAAGCAA
22180631 TTAAA
1 TTAAA
22180636 TCTATCGGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.21
Consensus pattern (26 bp):
TTAAAAAATAAAATAAAGGAAAGCAA
Found at i:22182228 original size:16 final size:18
Alignment explanation
Indices: 22182197--22182230 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
22182187 TCACTAAGTA
22182197 CCAAATTGCGACAAATTC
1 CCAAATTGCGACAAATTC
22182215 CCAAATT-C-ACAAATTC
1 CCAAATTGCGACAAATTC
22182231 TGTTCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (18 bp):
CCAAATTGCGACAAATTC
Found at i:22189826 original size:14 final size:14
Alignment explanation
Indices: 22189785--22189830 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
22189775 TTCTTAAAAC
*
22189785 AACTTTAAAACCAAA
1 AACTTTAAAATC-AA
22189800 AACTTTAAAAATCAA
1 AACTTT-AAAATCAA
*
22189815 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
22189829 AA
1 AA
22189831 TCTCTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.33
15 13 0.48
16 5 0.19
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:22191047 original size:13 final size:13
Alignment explanation
Indices: 22191029--22191053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22191019 TTTCAGAAAA
22191029 TTTATAAAATCAT
1 TTTATAAAATCAT
22191042 TTTATAAAATCA
1 TTTATAAAATCA
22191054 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:22199206 original size:211 final size:200
Alignment explanation
Indices: 22198956--22199342 Score: 594
Period size: 200 Copynumber: 1.9 Consensus size: 200
22198946 TCACCCTAAT
*
22198956 TAAAAAGAAATTATCACCAATCTTTTTTATTTAAGTGTGATTGACCATTGTAATTGAATTTATCC
1 TAAAAAGAAATCATCACCAATCTTTTTTATTTAAGTGTGATTGACCATTGTAATTGAATTTATCC
*
22199021 TTTCTAATTAGATCCTAAATTTAACTTAAATTCATTAAAAAGGGTAGGTTTAAGTCTATAAATCA
66 TTTCT-A--AG--------TTTAACTTAAATTCATTAAAAAGGATAGGTTTAAGTCTATAAATCA
*
22199086 AAATTGGAATCAAAAGTACAATTAAACGTAAAAAAAGTACCAACACCTTCGCAACATCTGCTCAA
120 AAATTGGAATCAAAAGTACAATTAAACGTAAAAAAAGTACCAACACCTTCACAACATCTGCTCAA
22199151 AATAATAGCCACTCAA
185 AATAATAGCCACTCAA
*
22199167 TAAAAAGAAATCATCACCAATCTTTTTTATTTAAGTGTGATTGGCCATTGTAATTGAATTTATCC
1 TAAAAAGAAATCATCACCAATCTTTTTTATTTAAGTGTGATTGACCATTGTAATTGAATTTATCC
*
22199232 TTTCTAAGTTTAACTTAAATTCATTAAAAAGGATAGGTTTAAGTCTATAAATCAAAATTGGGATC
66 TTTCTAAGTTTAACTTAAATTCATTAAAAAGGATAGGTTTAAGTCTATAAATCAAAATTGGAATC
* * * *
22199297 AAAAGTACAATTAAGCGTCAAAAAAGTATCAGCACCTTCACAACAT
131 AAAAGTACAATTAAACGTAAAAAAAGTACCAACACCTTCACAACAT
22199343 TCATTCAAAA
Statistics
Matches: 167, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
200 96 0.57
208 2 0.01
210 1 0.01
211 68 0.41
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (200 bp):
TAAAAAGAAATCATCACCAATCTTTTTTATTTAAGTGTGATTGACCATTGTAATTGAATTTATCC
TTTCTAAGTTTAACTTAAATTCATTAAAAAGGATAGGTTTAAGTCTATAAATCAAAATTGGAATC
AAAAGTACAATTAAACGTAAAAAAAGTACCAACACCTTCACAACATCTGCTCAAAATAATAGCCA
CTCAA
Found at i:22199959 original size:17 final size:16
Alignment explanation
Indices: 22199943--22200004 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
22199933 TTGTTATTTA
*
22199943 TATTTTATGTATTTTT
1 TATTTTATATATTTTT
** *
22199959 ATACCTGATATATTTTT
1 -TATTTTATATATTTTT
*
22199976 TATTTT-TATTCTTTTT
1 TATTTTATA-TATTTTT
22199992 TATTTTATATATT
1 TATTTTATATATT
22200005 ATTCTTTCTT
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
15 2 0.06
16 18 0.53
17 14 0.41
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTTATATATTTTT
Found at i:22202934 original size:54 final size:53
Alignment explanation
Indices: 22202852--22203015 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 53
22202842 CAAGGGCAGG
* * * *
22202852 AGGTCTCCCTTGGTCTAAAGAAGCCGACGGATAGTAACCTTTCCTCTTTTCTAT
1 AGGTCTCCTTTGGTCTAAAGGAGCCGACGGAT-GTCACCTTTCCTCTTTTCTAA
22202906 AGGTCTCCTTTGGTCTAAAGGAGCCGACGGATTGTCACCTTTCCTCTTTTCTAA
1 AGGTCTCCTTTGGTCTAAAGGAGCCGACGGA-TGTCACCTTTCCTCTTTTCTAA
* *
22202960 AGGTCTCCTTTGGTCTAAAGGAGCCGACGGGCTGTCACGTTTCCTCTTTTCTAA
1 AGGTCTCCTTTGGTCTAAAGGAGCCGAC-GGATGTCACCTTTCCTCTTTTCTAA
22203014 AG
1 AG
22203016 TCTAAATAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
54 99 0.97
55 3 0.03
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (53 bp):
AGGTCTCCTTTGGTCTAAAGGAGCCGACGGATGTCACCTTTCCTCTTTTCTAA
Found at i:22207520 original size:15 final size:15
Alignment explanation
Indices: 22207502--22207539 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22207492 TATATATATA
22207502 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
22207517 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
22207533 TTATAAT
1 TTATAAT
22207540 GTTAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:22213464 original size:27 final size:27
Alignment explanation
Indices: 22213413--22213464 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
22213403 ATGTCCTGAT
*
22213413 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
*
22213440 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
22213465 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:22213535 original size:20 final size:20
Alignment explanation
Indices: 22213510--22213555 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
22213500 CTTCTAAACC
22213510 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
22213530 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
22213550 TCAAAT
1 TCAAAT
22213556 GGGGACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:22218896 original size:22 final size:22
Alignment explanation
Indices: 22218853--22218896 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22218843 TTTAAAACAA
* *
22218853 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
22218875 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
22218897 ACCAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:22222228 original size:10 final size:10
Alignment explanation
Indices: 22222215--22222240 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22222205 ATCATTCAAA
22222215 AAATAATAAT
1 AAATAATAAT
22222225 AAATAATAAT
1 AAATAATAAT
22222235 AAATAA
1 AAATAA
22222241 ACAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:22222260 original size:2 final size:2
Alignment explanation
Indices: 22222253--22222299 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
22222243 AAATAATAGG
** **
22222253 TA TA TA TA TA TA TA T- TA TA TA TA TA TA CG TA GG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22222294 TA TA TA
1 TA TA TA
22222300 AACGGGTATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22222273 original size:13 final size:13
Alignment explanation
Indices: 22222255--22222279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22222245 ATAATAGGTA
22222255 TATATATATATAT
1 TATATATATATAT
22222268 TATATATATATA
1 TATATATATATA
22222280 CGTAGGTATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:22222307 original size:20 final size:22
Alignment explanation
Indices: 22222263--22222308 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22222253 TATATATATA
*
22222263 TATATTATATATATATACGTAGG
1 TATATTATATATATAAACG-AGG
22222286 TATA-TATATATATAAACG-GG
1 TATATTATATATATAAACGAGG
22222306 TAT
1 TAT
22222309 TAGGATCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (22 bp):
TATATTATATATATAAACGAGG
Found at i:22223554 original size:59 final size:59
Alignment explanation
Indices: 22223486--22223932 Score: 477
Period size: 59 Copynumber: 7.5 Consensus size: 59
22223476 GGCATTAGAG
* * * * *
22223486 AATTTTTAAATTAAACCTGTTTTAATATAGGTCGAGCCTAGGACAAGTCTAGAAATTTT
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCTAGAAATTTC
* * *
22223545 AATTTTTAAATCAAACCTGTTTTGATATAAGTTGAGCCTAGGTTGAGTCTAGAAATTTC
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCTAGAAATTTC
* * *
22223604 AATTTTTAAATCGAACATGTTTTGATATAGGTCGAACCTAGGTCGAGTCTA-AGAATTTC
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCTAGA-AATTTC
* * * * * * * * *
22223663 AATTTGTAAATCGAACTTGTTCTAATATAGGTCAAGACTAGGTCGAGTCAAGGAATTTC
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCTAGAAATTTC
* * *
22223722 AATTTTTAAATCGAACCTGTTTTGATATAGGTCTAGCCTAAGTCGAGTCTAGAAATTTC
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCTAGAAATTTC
* * * * *
22223781 AATTTTTAAATCAAACCTATTTTGATATAGTTCGAACCTAGATCAAGTCTCA-AAATTTC
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCT-AGAAATTTC
** * * * * *
22223840 AATTTTTAAATTGAACCTATTTTGAGATAGGTCGAACCTAGATTC-AGTCTAGAAATTCTA
1 AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAG-GTCGAGTCTAGAAATT-TC
* * * *
22223900 AGATTTTTAAATTAAACCTATTTTCAGATAGGT
1 A-ATTTTTAAATCAAACCTGTTTTGATATAGGT
22223933 TTAACCTAAA
Statistics
Matches: 333, Mismatches: 48, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.01
59 297 0.89
60 5 0.02
61 29 0.09
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (59 bp):
AATTTTTAAATCAAACCTGTTTTGATATAGGTCGAGCCTAGGTCGAGTCTAGAAATTTC
Found at i:22225861 original size:15 final size:16
Alignment explanation
Indices: 22225826--22225867 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
22225816 AACGAAAAGA
*
22225826 AATAATAAAGTAATGAT
1 AATAATAAA-TAATAAT
22225843 AATAATAAAT-ATAAT
1 AATAATAAATAATAAT
22225858 AATAATAAAT
1 AATAATAAAT
22225868 GCAAAAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 1 0.04
17 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:22227584 original size:63 final size:63
Alignment explanation
Indices: 22227509--22227664 Score: 285
Period size: 63 Copynumber: 2.4 Consensus size: 63
22227499 AAGTAATAGT
22227509 ATACCACATGATTTTGAAATTAAATTCAATAAAAATTTACTGAATGTTTAATTTTTAATAGCA
1 ATACCACATGATTTTGAAATTAAATTCAATAAAAATTTACTGAATGTTTAATTTTTAATAGCA
*
22227572 ATACCACATGATTTTGAAATTAAATTCAATAAAAATTTACTGAATGTTTAATTTTTAATAGTA
1 ATACCACATGATTTTGAAATTAAATTCAATAAAAATTTACTGAATGTTTAATTTTTAATAGCA
22227635 ATACCACATGATTTTGAAAATATAAATTCA
1 ATACCACATGATTTTG-AAAT-TAAATTCA
22227665 GTACTAATAT
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
63 78 0.87
64 4 0.04
65 8 0.09
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.39
Consensus pattern (63 bp):
ATACCACATGATTTTGAAATTAAATTCAATAAAAATTTACTGAATGTTTAATTTTTAATAGCA
Found at i:22233634 original size:22 final size:22
Alignment explanation
Indices: 22233588--22233662 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
22233578 AGTTTTTGTG
* *
22233588 ATTTTTTGGCATTACAT-AATCA
1 ATTTTTAGGCATTACATGACT-A
*
22233610 ATTTTTAGGCATTAGATGACTA
1 ATTTTTAGGCATTACATGACTA
** * *
22233632 ATTTTTATACATTACATGATTG
1 ATTTTTAGGCATTACATGACTA
22233654 ATTTTTAGG
1 ATTTTTAGG
22233663 TATTGCGTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
22 40 0.95
23 2 0.05
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
ATTTTTAGGCATTACATGACTA
Found at i:22233703 original size:22 final size:22
Alignment explanation
Indices: 22233675--22233745 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
22233665 TTGCGTAACC
*
22233675 AGTTGATATGACA-TACGTGACT
1 AGTTGATA-GACATTACGTGACA
*
22233697 AGTTGATAGGCATTACGTGACA
1 AGTTGATAGACATTACGTGACA
* *
22233719 AGTT-AGTAAGGCATTGCGTGACA
1 AGTTGA-T-AGACATTACGTGACA
22233742 AGTT
1 AGTT
22233746 AGATGACTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.09
22 21 0.49
23 18 0.42
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (22 bp):
AGTTGATAGACATTACGTGACA
Found at i:22233738 original size:23 final size:23
Alignment explanation
Indices: 22233688--22233747 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
22233678 TGATATGACA
*
22233688 TACGTGACTAGTT-G-ATAGGCAT
1 TACGTGACAAGTTAGTA-AGGCAT
22233710 TACGTGACAAGTTAGTAAGGCAT
1 TACGTGACAAGTTAGTAAGGCAT
*
22233733 TGCGTGACAAGTTAG
1 TACGTGACAAGTTAG
22233748 ATGACTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 12 0.35
23 21 0.62
24 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (23 bp):
TACGTGACAAGTTAGTAAGGCAT
Found at i:22240677 original size:116 final size:115
Alignment explanation
Indices: 22240506--22240715 Score: 384
Period size: 116 Copynumber: 1.8 Consensus size: 115
22240496 GTTTTGCTTC
*
22240506 TTTTTTTTTTTTTCTGGATGCTTCTTCCTTCATGGGTTCTTATCTACATGTGTTGTAAATTTTTA
1 TTTTTTTTTTTTTCTGGATGCTTCTTCCTTCATGAGTTCTTATCTACATGTGTTGTAAATTTTTA
22240571 TTAAATTGACCACTGTTACTCTATTCAATATGAAGTTNTCTTGAGTTTTCT
66 TTAAATTGACCACTGTTACTCTATTCAATATGAAGTT-TCTTGAGTTTTCT
*
22240622 TTTTTTTTTTTTTCTGGATGCTTCTTCCTTCATGAGTTCTTATCTGCATGTGTTGTAAATTTTTA
1 TTTTTTTTTTTTTCTGGATGCTTCTTCCTTCATGAGTTCTTATCTACATGTGTTGTAAATTTTTA
*
22240687 TTAAATTGACTACTGTTACTCTATTCAAT
66 TTAAATTGACCACTGTTACTCTATTCAAT
22240716 GAAGTTAGTC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 91 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.53
Consensus pattern (115 bp):
TTTTTTTTTTTTTCTGGATGCTTCTTCCTTCATGAGTTCTTATCTACATGTGTTGTAAATTTTTA
TTAAATTGACCACTGTTACTCTATTCAATATGAAGTTTCTTGAGTTTTCT
Found at i:22241262 original size:23 final size:23
Alignment explanation
Indices: 22241236--22241281 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
22241226 TAGAATAACA
22241236 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
*
22241259 ATTCTTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
22241282 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:22242041 original size:22 final size:22
Alignment explanation
Indices: 22242015--22242099 Score: 64
Period size: 22 Copynumber: 3.9 Consensus size: 22
22242005 AGTTTTTTTT
22242015 ATTTTTAGGCATTACGTAATCA
1 ATTTTTAGGCATTACGTAATCA
* * *
22242037 ATTTTTGGGCATTAGGTGA-CTA
1 ATTTTTAGGCATTACGTAATC-A
* * * **
22242059 GTTTTTAGCCATTACGTGATTG
1 ATTTTTAGGCATTACGTAATCA
* *
22242081 ATTTTTAGGTATTGCGTAA
1 ATTTTTAGGCATTACGTAA
22242100 CTGGTTGATA
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (22 bp):
ATTTTTAGGCATTACGTAATCA
Done.