Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 123 of 235
Found at i:42021426 original size:39 final size:39
Alignment explanation
Indices: 42021364--42021439 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
42021354 ATCGTGATCT
* * *
42021364 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACG
42021403 GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAA
1 GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAA
42021440 TTGAAACCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACATAAGTGCTAAACG
Found at i:42034775 original size:14 final size:14
Alignment explanation
Indices: 42034756--42034785 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42034746 TTAATATAAT
*
42034756 TATTTCTATTAAAA
1 TATTTCGATTAAAA
42034770 TATTTCGATTAAAA
1 TATTTCGATTAAAA
42034784 TA
1 TA
42034786 CTTATGCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TATTTCGATTAAAA
Found at i:42036389 original size:33 final size:30
Alignment explanation
Indices: 42036343--42036411 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
42036333 GGTCCCACCT
*
42036343 GCAGTTGTACCACCAACTATTGCTCCACTACCA
1 GCAGTTGTACCA-C--CTATTGCTCCAATACCA
* *
42036376 GCAGTTGTGCCACCTATTGCTCCAATACCT
1 GCAGTTGTACCACCTATTGCTCCAATACCA
42036406 GCAGTT
1 GCAGTT
42036412 CGCCCTCCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 21 0.64
32 1 0.03
33 11 0.33
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (30 bp):
GCAGTTGTACCACCTATTGCTCCAATACCA
Found at i:42052676 original size:154 final size:154
Alignment explanation
Indices: 42052396--42052703 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 154
42052386 TATTTGATAG
42052396 TAACTATGCCAGATATCTTGTTTGCTGTGAATATGTTATCAAGGTTTATGCATTGCTGTAATGTC
1 TAACTATGCCAGATATCTTGTTTGCTGTGAATATGTTATCAAGGTTTATGCATTGCTGTAATGTC
42052461 CAGCACTTTCAAGCAGCAAAGAAAGTGCTAAGGCACATCAAAGGCACTCTTGACTATGGTGTGTT
66 CAGCACTTTCAAGCAGCAAAGAAAGTGCTAAGGCACATCAAAGGCACTCTTGACTATGGTGTGTT
42052526 ATTCAACAAAGCTGAAAGTTTGAA
131 ATTCAACAAAGCTGAAAGTTTGAA
42052550 TAACTATGCCAGATATCTTGTTTGCTGTGAATATGTTATCAAGGTTTATGCATTGCTGTAATGTC
1 TAACTATGCCAGATATCTTGTTTGCTGTGAATATGTTATCAAGGTTTATGCATTGCTGTAATGTC
42052615 CAGCACTTTCAAGCAGCAAAGAAAGTGCTAAGGCACATCAAAGGCACTCTTGACTATGGTGTGTT
66 CAGCACTTTCAAGCAGCAAAGAAAGTGCTAAGGCACATCAAAGGCACTCTTGACTATGGTGTGTT
42052680 ATTCAACAAAGCTGAAAGTTTGAA
131 ATTCAACAAAGCTGAAAGTTTGAA
42052704 GTTGAGAGGC
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (154 bp):
TAACTATGCCAGATATCTTGTTTGCTGTGAATATGTTATCAAGGTTTATGCATTGCTGTAATGTC
CAGCACTTTCAAGCAGCAAAGAAAGTGCTAAGGCACATCAAAGGCACTCTTGACTATGGTGTGTT
ATTCAACAAAGCTGAAAGTTTGAA
Found at i:42054697 original size:20 final size:20
Alignment explanation
Indices: 42054674--42054711 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42054664 TGTGAATATT
42054674 ATTTGAATTTATGGATTTGA
1 ATTTGAATTTATGGATTTGA
*
42054694 ATTTGAATTTTTGGATTT
1 ATTTGAATTTATGGATTT
42054712 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (20 bp):
ATTTGAATTTATGGATTTGA
Found at i:42055828 original size:72 final size:72
Alignment explanation
Indices: 42055743--42055949 Score: 405
Period size: 72 Copynumber: 2.9 Consensus size: 72
42055733 TTACTCGCGC
42055743 AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAAATTGTAAT
1 AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAAATTGTAAT
42055808 AATTTAA
66 AATTTAA
42055815 AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAAATTGTAAT
1 AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAAATTGTAAT
42055880 AATTTAA
66 AATTTAA
42055887 AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAATATTGT
1 AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAA-ATTGT
42055950 GAAGCTAAAA
Statistics
Matches: 134, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 129 0.96
73 5 0.04
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (72 bp):
AGCCTTCACTAAAATAGTAATAATTTAAACTCTCTAACTCAAAATCGAGTGATTTAAATTGTAAT
AATTTAA
Found at i:42066061 original size:20 final size:20
Alignment explanation
Indices: 42066017--42066064 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
42066007 TTAAATGATT
42066017 AATAT-TTAATGTTTTCATG
1 AATATATTAATGTTTTCATG
**
42066036 TGTATATTAATGTTTT-ATG
1 AATATATTAATGTTTTCATG
42066055 AAATATATTA
1 -AATATATTA
42066065 TTATATTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (20 bp):
AATATATTAATGTTTTCATG
Found at i:42068434 original size:23 final size:22
Alignment explanation
Indices: 42068408--42068474 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 22
42068398 CCCTTTTTTT
42068408 TTTTACTTTTTTACTTTTTTGAC
1 TTTTACTTTTTTA-TTTTTTGAC
* *
42068431 TTTTGCTTTTTTATTATTTTTTGCC
1 TTTTAC--TTTT-TTATTTTTTGAC
42068456 TTTTACCTTTATTTATTTT
1 TTTTA-CTTT-TTTATTTT
42068475 ATTTTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
23 5 0.14
24 10 0.28
25 17 0.47
26 4 0.11
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTACTTTTTTATTTTTTGAC
Found at i:42068480 original size:10 final size:9
Alignment explanation
Indices: 42068463--42068497 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
42068453 GCCTTTTACC
42068463 TTTATTTAT
1 TTTATTTAT
42068472 TTTATTTTAT
1 TTTA-TTTAT
42068482 TTTATTTAT
1 TTTATTTAT
42068491 TATTATT
1 T-TTATT
42068498 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:42068527 original size:13 final size:13
Alignment explanation
Indices: 42068509--42068551 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
42068499 ACTTTAAAAA
42068509 ATTTAAAATATAT
1 ATTTAAAATATAT
42068522 ATTTAAAATA-AT
1 ATTTAAAATATAT
* *
42068534 TTATTAATATATAT
1 AT-TTAAAATATAT
42068548 ATTT
1 ATTT
42068552 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:42068545 original size:26 final size:25
Alignment explanation
Indices: 42068485--42068551 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 25
42068475 ATTTTATTTT
*
42068485 ATTTATTATTAT-TA-ACTTTAAAAA
1 ATTTATTAATATATATA-TTTAAAAA
42068509 ATTTA--AA-ATATATATTTAAAATA
1 ATTTATTAATATATATATTTAAAA-A
42068532 ATTTATTAATATATATATTT
1 ATTTATTAATATATATATTT
42068552 TTAAATTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 2 0.06
22 10 0.28
23 7 0.19
24 5 0.14
25 2 0.06
26 10 0.28
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATTAATATATATATTTAAAAA
Found at i:42068547 original size:24 final size:22
Alignment explanation
Indices: 42068501--42068572 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 22
42068491 TATTATTAAC
42068501 TTTAAAAAATTTAAAATATATA
1 TTTAAAAAATTTAAAATATATA
42068523 TTTAAAATAATTTATTAATATATATA
1 TTTAAAA-AATTTA--AA-ATATATA
** *
42068549 TTT-TTAAATTTTAAATATATA
1 TTTAAAAAATTTAAAATATATA
42068570 TTT
1 TTT
42068573 TGAAATTACT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
21 10 0.23
22 9 0.21
23 6 0.14
24 5 0.12
25 3 0.07
26 10 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAAAAAATTTAAAATATATA
Found at i:42068568 original size:21 final size:22
Alignment explanation
Indices: 42068537--42068579 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
42068527 AAATAATTTA
*
42068537 TTAATATATATATTTTTAAATT
1 TTAATATATATATTTTGAAATT
42068559 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
42068580 ACTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:42068587 original size:33 final size:31
Alignment explanation
Indices: 42068549--42068611 Score: 108
Period size: 33 Copynumber: 2.0 Consensus size: 31
42068539 AATATATATA
42068549 TTTTTAAATTTTAAATATATATTTTGAAATTAC
1 TTTTTAAATTTTAAATAT-TATTTT-AAATTAC
42068582 TTTTTAAATTTTAAATATTATTTTAAATTA
1 TTTTTAAATTTTAAATATTATTTTAAATTA
42068612 AAAATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 6 0.20
32 6 0.20
33 18 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (31 bp):
TTTTTAAATTTTAAATATTATTTTAAATTAC
Found at i:42068709 original size:9 final size:9
Alignment explanation
Indices: 42068695--42068779 Score: 61
Period size: 9 Copynumber: 9.9 Consensus size: 9
42068685 ACCATCTTTC
42068695 AATTTTTTT
1 AATTTTTTT
42068704 AATTTTTTT
1 AATTTTTTT
*
42068713 TATTTTTTT
1 AATTTTTTT
*
42068722 AAATTTTTT
1 AATTTTTTT
* *
42068731 -ATTGTCTT
1 AATTTTTTT
*
42068739 --TTTCTTT
1 AATTTTTTT
*
42068746 AAATTTTTT
1 AATTTTTTT
*
42068755 ACTTTTTTT
1 AATTTTTTT
* *
42068764 AAGTTTTAT
1 AATTTTTTT
42068773 -ATTTTTT
1 AATTTTTT
42068780 CTTATTTTAT
Statistics
Matches: 56, Mismatches: 18, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
7 4 0.07
8 10 0.18
9 42 0.75
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (9 bp):
AATTTTTTT
Found at i:42068712 original size:10 final size:10
Alignment explanation
Indices: 42068697--42068730 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
42068687 CATCTTTCAA
42068697 TTTTTTTAAT
1 TTTTTTTAAT
42068707 TTTTTTT-AT
1 TTTTTTTAAT
*
42068716 TTTTTTAAAT
1 TTTTTTTAAT
42068726 TTTTT
1 TTTTT
42068731 ATTGTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:42068753 original size:42 final size:41
Alignment explanation
Indices: 42068697--42068775 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
42068687 CATCTTTCAA
* *
42068697 TTTTTTTAATTTTTTTTA-TTTTTTTAAATTTTTTATTGTCT
1 TTTTTTTAA-ATTTTTTACTTTTTTTAAATTTTATATTGTCT
*
42068738 TTTTCTTTAAATTTTTTACTTTTTTTAAGTTTTATATT
1 TTTT-TTTAAATTTTTTACTTTTTTTAAATTTTATATT
42068776 TTTTCTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 11 0.33
42 22 0.67
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (41 bp):
TTTTTTTAAATTTTTTACTTTTTTTAAATTTTATATTGTCT
Found at i:42068853 original size:23 final size:23
Alignment explanation
Indices: 42068827--42068903 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
42068817 TTTGTTATTA
*
42068827 ATTTTAAAAAATTTAAAATTTAT
1 ATTTTAAAAAATTTAAAATATAT
* *** *
42068850 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAAAAATTTAAAATATAT
*
42068873 ATTTTTAAAAAATTTTAAATAT-T
1 A-TTTTAAAAAATTTAAAATATAT
42068896 ATTTTAAA
1 ATTTTAAA
42068904 TTATATTTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
22 7 0.17
23 20 0.49
24 14 0.34
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATTTTAAAAAATTTAAAATATAT
Found at i:42068934 original size:22 final size:20
Alignment explanation
Indices: 42068896--42068954 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
42068886 TTTAAATATT
42068896 ATTTTAAATTATATTTTAAA
1 ATTTTAAATTATATTTTAAA
*
42068916 ATTTTGAATATTATTTTTTAAA
1 ATTTT-AA-ATTATATTTTAAA
42068938 CA--TTAAATATATATTTT
1 -ATTTTAAAT-TATATTTT
42068955 TAATAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 2 0.06
20 14 0.42
21 4 0.12
22 12 0.36
23 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTAAATTATATTTTAAA
Found at i:42068956 original size:21 final size:21
Alignment explanation
Indices: 42068899--42068957 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
42068889 AAATATTATT
* **
42068899 TTAAAT-TATATTTTAAAATT
1 TTAAATATATATTTTTAAACA
*
42068919 TTGAATAT-TATTTTTTAAACA
1 TTAAATATATA-TTTTTAAACA
42068940 TTAAATATATATTTTTAA
1 TTAAATATATATTTTTAA
42068958 TAATATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.23
21 22 0.71
22 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAAATATATATTTTTAAACA
Found at i:42069061 original size:21 final size:21
Alignment explanation
Indices: 42069022--42069061 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42069012 TTTTTTAATA
*
42069022 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
42069043 TTTTATAATATT-TTAAATT
1 TTTTA-AATATTATTAAATT
42069062 ATGATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:42069071 original size:29 final size:30
Alignment explanation
Indices: 42069005--42069068 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
42068995 TTCAAATTTA
* * *
42069005 TTATTAGTTTTTTAATATTTTAAATATTAT
1 TTATTTGTTTTATAATATTTTAAATATGAT
42069035 TTAATTTGTTTTATAATATTTTAAATTATGAT
1 TT-ATTTGTTTTATAATATTTTAAA-TATGAT
42069067 TT
1 TT
42069069 TTGAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 20 0.69
32 7 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (30 bp):
TTATTTGTTTTATAATATTTTAAATATGAT
Found at i:42069381 original size:19 final size:20
Alignment explanation
Indices: 42069359--42069402 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
42069349 AAATAAAAAA
42069359 TATTTGTTAAAAAAAG-ATT
1 TATTTGTTAAAAAAAGAATT
*
42069378 TATTTGTTAAAAAATGAATT
1 TATTTGTTAAAAAAAGAATT
42069398 TATTT
1 TATTT
42069403 AAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (20 bp):
TATTTGTTAAAAAAAGAATT
Found at i:42069911 original size:20 final size:20
Alignment explanation
Indices: 42069879--42069954 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
42069869 ATGTGTTGAT
*
42069879 TATA-ATTTTTAAATTTTAG
1 TATACATTTATAAATTTTAG
*
42069898 TACACATTTATAAATTTATA-
1 TATACATTTATAAATTT-TAG
* *
42069918 TATTA-ATTTTTTAATTTTAG
1 TA-TACATTTATAAATTTTAG
*
42069938 TATACATTCATAAATTT
1 TATACATTTATAAATTT
42069955 ATGTATTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
19 7 0.16
20 34 0.77
21 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
TATACATTTATAAATTTTAG
Found at i:42069925 original size:40 final size:40
Alignment explanation
Indices: 42069881--42069961 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
42069871 GTGTTGATTA
*
42069881 TAATTTTTAAATTTTAGTACACATTTATAAATTTATATAT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATAT
* * *
42069921 TAATTTTTTAATTTTAGTATACATTCATAAATTTATGTAT
1 TAATTTTTAAATTTTAGTACACATTCATAAATTTATATAT
42069961 T
1 T
42069962 TAATATATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (40 bp):
TAATTTTTAAATTTTAGTACACATTCATAAATTTATATAT
Found at i:42069976 original size:40 final size:40
Alignment explanation
Indices: 42069890--42069976 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
42069880 ATAATTTTTA
* * *
42069890 AATTTTAGTACACATTTATAAATTTATATATTAATTTTTT
1 AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
* *
42069930 AATTTTAGTATACATTCATAAATTTATGTATTTAA-TATAT
1 AATTTTAGTACACATTCATAAATTTATATA-TTAATTATAT
*
42069970 AGTTTTA
1 AATTTTA
42069977 ATAGATAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (40 bp):
AATTTTAGTACACATTCATAAATTTATATATTAATTATAT
Found at i:42070145 original size:70 final size:72
Alignment explanation
Indices: 42070035--42070175 Score: 196
Period size: 70 Copynumber: 2.0 Consensus size: 72
42070025 ACTTAAAGAT
* * * * * * *
42070035 ATTAACTATATTAAAAAATGTTATGTATAGCGAATTTTAAAATTTTAATATATTTAATGTA-TTT
1 ATTAAATATATTAAAAAATGTTAAGTATAACGAATATTAAAATTATAATATATTCAATATATTTT
42070099 TTAAAAG
66 TTAAAAG
*
42070106 ATTAAATATATT-AAAAATGTTAAGTATAACTAATATTAAAATTATAATATATTCAATATATTTT
1 ATTAAATATATTAAAAAATGTTAAGTATAACGAATATTAAAATTATAATATATTCAATATATTTT
42070170 TTAAAA
66 TTAAAA
42070176 TATGTTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 41 0.67
71 20 0.33
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (72 bp):
ATTAAATATATTAAAAAATGTTAAGTATAACGAATATTAAAATTATAATATATTCAATATATTTT
TTAAAAG
Found at i:42072406 original size:30 final size:30
Alignment explanation
Indices: 42072370--42072446 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
42072360 GTCTCAGAGT
** *
42072370 AGTTCATATCACCTGGACATAGGCGGTTCA
1 AGTTCATATCACCCAGACATAGGCAGTTCA
*
42072400 AGTTCATATCACCCAGACATAGGCAGTTCG
1 AGTTCATATCACCCAGACATAGGCAGTTCA
*
42072430 AGTTCATTTCACCCAGA
1 AGTTCATATCACCCAGA
42072447 GCAACCACCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGGCAGTTCA
Found at i:42075720 original size:8 final size:7
Alignment explanation
Indices: 42075692--42075721 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
42075682 CACCAAAATA
42075692 AAATATT
1 AAATATT
42075699 AAATATT
1 AAATATT
42075706 AAATATT
1 AAATATT
42075713 AAATTATT
1 AAA-TATT
42075721 A
1 A
42075722 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:42075913 original size:31 final size:32
Alignment explanation
Indices: 42075868--42075928 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
42075858 TTATAATTTA
* *
42075868 TAAAAATTATATTTAAGAT-TTAAAAAATATT
1 TAAAAATTAAATTTAAAATATTAAAAAATATT
* *
42075899 TAAAATTTAAATTTAAAATATTATAAAATA
1 TAAAAATTAAATTTAAAATATTAAAAAATA
42075929 AATAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (32 bp):
TAAAAATTAAATTTAAAATATTAAAAAATATT
Found at i:42075937 original size:22 final size:21
Alignment explanation
Indices: 42075891--42075937 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
42075881 TAAGATTTAA
*
42075891 AAAATATTTAAAATTTAAATTT
1 AAAATATTTAAAA-TTAAATAT
42075913 AAAATATTATAAAA-TAAATAAT
1 AAAATATT-TAAAATTAAAT-AT
42075935 AAA
1 AAA
42075938 TTTCAAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATTTAAAATTAAATAT
Found at i:42076075 original size:57 final size:56
Alignment explanation
Indices: 42075897--42076079 Score: 146
Period size: 57 Copynumber: 3.2 Consensus size: 56
42075887 TTAAAAAATA
*
42075897 TTTAAAATTTAAATTTAAAATATTATAAAA-TAAATAATAAATTTCAAAGGTCATATC
1 TTTAAAATATAAATTTAAAATATTATAAAACT-AATAATAAATTT-AAAGGTCATATC
* * * *
42075954 TTTAAAAATAATATATTTTAAATAATT-TAAAAATCATAATTAAAAAAATTATAAA--ACA-A--
1 TTT-AAAAT-ATAAATTTAAAAT-ATTAT-AAAA-C-TAA-T-AATAAATT-TAAAGGTCATATC
* *
42076013 ATTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATC
1 TTTAAAATATAAATTTAAAATATTATAAAACTAATAATAAATTT-AAAGGTCATATC
42076070 TTTAAAATAT
1 TTTAAAATAT
42076080 TTAAATGTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 34
0.69 0.08 0.24
Matches are distributed among these distances:
51 1 0.01
52 10 0.10
53 1 0.01
54 5 0.05
55 2 0.02
56 7 0.07
57 24 0.24
58 10 0.10
59 13 0.13
60 7 0.07
61 1 0.01
62 4 0.04
63 2 0.02
64 10 0.10
65 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (56 bp):
TTTAAAATATAAATTTAAAATATTATAAAACTAATAATAAATTTAAAGGTCATATC
Found at i:42076190 original size:11 final size:11
Alignment explanation
Indices: 42076137--42076191 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
42076127 TATTTAAATT
42076137 TTTAAACAATAA
1 TTTAAA-AATAA
42076149 TTTAAAAATAA
1 TTTAAAAATAA
*
42076160 TATTTAAAAT--
1 T-TTAAAAATAA
*
42076170 TTAGAAAAATAA
1 TT-TAAAAATAA
42076182 TTTAAAAATA
1 TTTAAAAATA
42076192 TATATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
9 1 0.03
10 6 0.17
11 13 0.37
12 15 0.43
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:42076197 original size:34 final size:32
Alignment explanation
Indices: 42076111--42076213 Score: 145
Period size: 33 Copynumber: 3.1 Consensus size: 32
42076101 AAATATGTTT
* *
42076111 AATAA-TTAGAAAATAATATTTAAATTTTTAAAC
1 AATAATTTA-AAAATAATATTTAAA-ATTTAAAA
42076144 AATAATTTAAAAATAATATTTAAAATTTAGAAA
1 AATAATTTAAAAATAATATTTAAAATTTA-AAA
42076177 AATAATTTAAAAATATATATTTAAAATTTAAAA
1 AATAATTTAAAAATA-ATATTTAAAATTTAAAA
42076210 AATA
1 AATA
42076214 TATATTATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
32 4 0.06
33 44 0.68
34 17 0.26
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (32 bp):
AATAATTTAAAAATAATATTTAAAATTTAAAA
Found at i:42076204 original size:21 final size:23
Alignment explanation
Indices: 42076180--42076225 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
42076170 TTAGAAAAAT
42076180 AATTT-AAAAATATATATT-TAA
1 AATTTAAAAAATATATATTATAA
42076201 AATTTAAAAAATATATATTATAA
1 AATTTAAAAAATATATATTATAA
42076224 AA
1 AA
42076226 CATTTCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 5 0.22
22 13 0.57
23 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTTAAAAAATATATATTATAA
Found at i:42076281 original size:18 final size:17
Alignment explanation
Indices: 42076254--42076317 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
42076244 CAAGTTTTTT
*
42076254 AAAATTAATAATAAAATA
1 AAAATAAATAA-AAAATA
42076272 AAAATAAATAAATAAATA
1 AAAATAAATAAA-AAATA
* *
42076290 AAGATAAAGAAAAAATA
1 AAAATAAATAAAAAATA
*
42076307 AATA-AAATAAA
1 AAAATAAATAAA
42076318 TAAACATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 25 0.62
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAATAAATAAAAAATA
Found at i:42076282 original size:4 final size:4
Alignment explanation
Indices: 42076273--42076321 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
42076263 AATAAAATAA
*
42076273 AAAT AAAT AAAT AAAT AAAGAT AAAG AAA- AAAT AAAT AAAAT AAAT AAA
1 AAAT AAAT AAAT AAAT -AA-AT AAAT AAAT AAAT AAAT -AAAT AAAT AAA
42076322 CATTTCAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
3 3 0.08
4 27 0.68
5 8 0.20
6 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:42076373 original size:14 final size:13
Alignment explanation
Indices: 42076350--42076410 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
42076340 TAAAAATTTC
*
42076350 AAAATTAATAACAA
1 AAAATAAATAA-AA
*
42076364 AAAATAAATAAAT
1 AAAATAAATAAAA
42076377 AAAATAAATAAAA
1 AAAATAAATAAAA
*
42076390 TAAAAT-AAGAAAA
1 -AAAATAAATAAAA
*
42076403 AATATAAA
1 AAAATAAA
42076411 ACTTAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 4 0.10
13 21 0.52
14 15 0.38
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:42076380 original size:13 final size:13
Alignment explanation
Indices: 42076350--42076397 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
42076340 TAAAAATTTC
* *
42076350 AAAATTAATAACAA
1 AAAATAAATAA-AT
42076364 AAAATAAATAAAT
1 AAAATAAATAAAT
42076377 AAAATAAATAAAAT
1 AAAATAAAT-AAAT
42076391 AAAATAA
1 AAAATAA
42076398 GAAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:42076442 original size:20 final size:20
Alignment explanation
Indices: 42076416--42076469 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
42076406 ATAAAACTTA
*
42076416 AAAAAAGAAAAAAATTTAA-
1 AAAAAAGAAAAAAAGTTAAT
*
42076435 AGAAAAAG-ATAAAAGTTAAT
1 A-AAAAAGAAAAAAAGTTAAT
42076455 AAAAAAGTAAAAAAA
1 AAAAAAG-AAAAAAA
42076470 AAGTGAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 16 0.57
20 7 0.25
21 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (20 bp):
AAAAAAGAAAAAAAGTTAAT
Found at i:42076517 original size:18 final size:17
Alignment explanation
Indices: 42076488--42076532 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
42076478 TTTGAATTAA
42076488 TAAAAAAA-ATATTTGT
1 TAAAAAAATATATTTGT
42076504 TAAAAAATATATATTTGT
1 TAAAAAA-ATATATTTGT
42076522 TAAAAAAATAT
1 TAAAAAAATAT
42076533 GATGTGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.26
17 5 0.19
18 15 0.56
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
TAAAAAAATATATTTGT
Found at i:42076565 original size:7 final size:7
Alignment explanation
Indices: 42076555--42076590 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
42076545 TATATTATAT
42076555 ATTTTTA
1 ATTTTTA
42076562 ATTTTTA
1 ATTTTTA
*
42076569 A-TTTCA
1 ATTTTTA
42076575 ATTTTTA
1 ATTTTTA
42076582 ATTTTTA
1 ATTTTTA
42076589 AT
1 AT
42076591 ATATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:42076579 original size:13 final size:13
Alignment explanation
Indices: 42076561--42076585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42076551 ATATATTTTT
42076561 AATTTTTAATTTC
1 AATTTTTAATTTC
42076574 AATTTTTAATTT
1 AATTTTTAATTT
42076586 TTAATATATA
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:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTTTAATTTC
Found at i:42076598 original size:20 final size:20
Alignment explanation
Indices: 42076550--42076602 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
42076540 CTAGTTATAT
42076550 TATATATTTTTAATTTTTAA
1 TATATATTTTTAATTTTTAA
*
42076570 TTTCA-ATTTTTAATTTTTAA
1 TAT-ATATTTTTAATTTTTAA
42076590 TATATATTTTTAA
1 TATATATTTTTAA
42076603 ATAAATTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATATTTTTAATTTTTAA
Found at i:42076627 original size:21 final size:19
Alignment explanation
Indices: 42076601--42076639 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
42076591 ATATATTTTT
42076601 AAATAAATTCATTTTTTTAAC
1 AAATAAA-TC-TTTTTTTAAC
42076622 AAATAAATCTTTTTTTAA
1 AAATAAATCTTTTTTTAA
42076640 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATAAATCTTTTTTTAAC
Found at i:42076856 original size:20 final size:19
Alignment explanation
Indices: 42076831--42076890 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
42076821 AAATATTTAC
42076831 ATATTTTATAATATTAAAAA
1 ATATTTTATAAT-TTAAAAA
*
42076851 ATATTTAAT-ATTTAAAAA
1 ATATTTTATAATTTAAAAA
*
42076869 ATAATATTTAAAATTTAAAAA
1 AT-AT-TTTATAATTTAAAAA
42076890 A
1 A
42076891 ATAATTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 4 0.12
20 11 0.32
21 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATTTTATAATTTAAAAA
Found at i:42076876 original size:21 final size:22
Alignment explanation
Indices: 42076846--42076903 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
42076836 TTATAATATT
*
42076846 AAAA-AATATTTAATATTT-AA
1 AAAATAATATTTAAAATTTAAA
42076866 AAAATAATATTTAAAATTTAAA
1 AAAATAATATTTAAAATTTAAA
*
42076888 AAAATAAT-TTCAAAAT
1 AAAATAATATTTAAAAT
42076904 ATATATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 4 0.12
21 20 0.59
22 10 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATAATATTTAAAATTTAAA
Found at i:42086614 original size:19 final size:20
Alignment explanation
Indices: 42086580--42086619 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
42086570 TCGGTTTAAT
* *
42086580 TAAAAAATTATTAAAA-AAA
1 TAAAAAATGATAAAAAGAAA
42086599 TAAAAAATGATAAAAAGAAA
1 TAAAAAATGATAAAAAGAAA
42086619 T
1 T
42086620 TTTAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAAAATGATAAAAAGAAA
Found at i:42086625 original size:13 final size:13
Alignment explanation
Indices: 42086609--42086634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42086599 TAAAAAATGA
42086609 TAAAAAGAAATTT
1 TAAAAAGAAATTT
42086622 TAAAAAGAAATTT
1 TAAAAAGAAATTT
42086635 GATTTAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
TAAAAAGAAATTT
Found at i:42090079 original size:26 final size:28
Alignment explanation
Indices: 42090048--42090103 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
42090038 GCCTTCTCAA
42090048 ATATCAA-GAATTT-TTTTTCTT-AAAAT
1 ATATCAATGAATTTATTTTT-TTCAAAAT
*
42090074 ATATCAATTAATTTATTTTTTTCAAAAT
1 ATATCAATGAATTTATTTTTTTCAAAAT
42090102 AT
1 AT
42090104 CTTTTAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 7 0.27
28 12 0.46
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (28 bp):
ATATCAATGAATTTATTTTTTTCAAAAT
Found at i:42090104 original size:26 final size:25
Alignment explanation
Indices: 42090046--42090104 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
42090036 TAGCCTTCTC
42090046 AAATATCAAGAATTTTTTTTCTTAA
1 AAATATCAAGAATTTTTTTTCTTAA
* *
42090071 AATATATCAATTAATTTATTTTT-TTCA
1 AA-ATATCAA-GAATTT-TTTTTCTTAA
42090098 AAATATC
1 AAATATC
42090105 TTTTAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 12 0.41
27 10 0.34
28 5 0.17
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (25 bp):
AAATATCAAGAATTTTTTTTCTTAA
Found at i:42103647 original size:27 final size:27
Alignment explanation
Indices: 42103609--42103664 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
42103599 CTAAGATTTA
42103609 AATCTATCTGTAAGATCAAACTCTGAG
1 AATCTATCTGTAAGATCAAACTCTGAG
42103636 AATCTATCTGTAAGATCAAACTCTGAG
1 AATCTATCTGTAAGATCAAACTCTGAG
42103663 AA
1 AA
42103665 ATGGAACTAT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
AATCTATCTGTAAGATCAAACTCTGAG
Found at i:42106160 original size:3 final size:3
Alignment explanation
Indices: 42106152--42106177 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42106142 GTACACTTAT
42106152 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
42106178 TGTGGGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:42109245 original size:16 final size:16
Alignment explanation
Indices: 42109224--42109291 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
42109214 TTTGGTTCGC
*
42109224 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
42109240 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
*
42109256 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
*
42109272 TGTATTGGAATAGATG
1 TGTATTGGAATAGAGG
42109288 TGTA
1 TGTA
42109292 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:42109260 original size:32 final size:32
Alignment explanation
Indices: 42109224--42109291 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
42109214 TTTGGTTCGC
42109224 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
1 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
*
42109256 TGTATTGGATTAGAGGTGTATTGGAATAGATG
1 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
42109288 TGTA
1 TGTA
42109292 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGAATAGAGG
Found at i:42109328 original size:45 final size:44
Alignment explanation
Indices: 42109272--42109362 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
42109262 GGATTAGAGG
* * *
42109272 TGTATTGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
42109317 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
42109361 TG
1 TG
42109363 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:42109554 original size:14 final size:15
Alignment explanation
Indices: 42109515--42109556 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42109505 TTTTAACATA
*
42109515 ATTATTATTAAATAT
1 ATTATAATTAAATAT
42109530 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
42109544 A-TATAATTTAATA
1 ATTATAATTAAATA
42109557 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:42109866 original size:24 final size:27
Alignment explanation
Indices: 42109815--42109867 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
42109805 TATATGTAAT
*
42109815 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
42109842 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
42109866 AT
1 AT
42109868 GCAGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:42119948 original size:17 final size:17
Alignment explanation
Indices: 42119928--42119971 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
42119918 AAAATAAAAA
**
42119928 AAGAAAGAAAAGGAGAG
1 AAGAAAGAAAAACAGAG
42119945 AAGAAAGAAGAAACAGAG
1 AAGAAAGAA-AAACAGAG
42119963 AA-AAAGAAA
1 AAGAAAGAAA
42119972 GAAAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 15 0.62
18 8 0.33
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAACAGAG
Found at i:42119953 original size:21 final size:19
Alignment explanation
Indices: 42119925--42119976 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
42119915 GAAAAAATAA
*
42119925 AAAAAGAAAGAAAAGGAGAG
1 AAAAAGAAAGAAAA-CAGAG
42119945 AAGAAAG-AAG-AAACAGAG
1 AA-AAAGAAAGAAAACAGAG
42119963 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
42119977 TTTTCCCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 6 0.21
20 5 0.18
21 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGAAAACAGAG
Found at i:42120719 original size:17 final size:17
Alignment explanation
Indices: 42120691--42120725 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
42120681 TTTGTAATTT
42120691 ATGAATTGTG-AATAAA
1 ATGAATTGTGAAATAAA
42120707 ATGAATATGTGAAATAAA
1 ATGAAT-TGTGAAATAAA
42120725 A
1 A
42120726 ATGTAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (17 bp):
ATGAATTGTGAAATAAA
Found at i:42123068 original size:32 final size:32
Alignment explanation
Indices: 42123022--42123089 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
42123012 AAGGTGCACA
* * *
42123022 ACATGACATTTCTTCAACTTCCATCCGCTATT
1 ACATGACATATCTTCAACTTCCATCCACCATT
42123054 ACATGACATATCTTCAACTTCCATCCACCATT
1 ACATGACATATCTTCAACTTCCATCCACCATT
42123086 ACAT
1 ACAT
42123090 ACCTCCACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.32, G:0.04, T:0.34
Consensus pattern (32 bp):
ACATGACATATCTTCAACTTCCATCCACCATT
Found at i:42124288 original size:197 final size:197
Alignment explanation
Indices: 42123953--42124348 Score: 659
Period size: 197 Copynumber: 2.0 Consensus size: 197
42123943 GTTCTTTATC
* * *
42123953 ATAATATTTCCCACTAAAGTAAATGCTCAGTTCTAATTTAACGAAACTAATAGTTGAAATCTGAC
1 ATAATATTTCCCACTAAAGCAAATCCTCAGTTCTAATGTAACGAAACTAATAGTTGAAATCTGAC
42124018 CAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTTT
66 CAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTTT
* *
42124083 ATAATTAGATACCTAGAATTACTGTTGTACTTATCCTTTAACATTTTTGGGTGTGACATAAGTGT
131 ATAATTAGATACCCAAAATTACTGTTGTACTTATCCTTTAACATTTTTGGGTGTGACATAAGTGT
42124148 TT
196 TT
*
42124150 ATAATATTTCCCACTAAAGCAAATACCT-AGTTCTAATGTAACGAAACTAATAGTTGAAATCTGG
1 ATAATATTTCCCACTAAAGCAAAT-CCTCAGTTCTAATGTAACGAAACTAATAGTTGAAATCTGA
** * * *
42124214 CCAATTACCAAATCAGTTAGCAAGATTCATGTAATTACACTAATACCCTTATAAATAGGAAGTTT
65 CCAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTT
* *
42124279 TATAATTAGATACCCAAAATTACTGTTGTACTTCTCTTTTAACATTTTTGGGTGTGACATAAGTG
130 TATAATTAGATACCCAAAATTACTGTTGTACTTATCCTTTAACATTTTTGGGTGTGACATAAGTG
42124344 TTT
195 TTT
42124347 AT
1 AT
42124349 GTTATGTTTG
Statistics
Matches: 185, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
197 183 0.99
198 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (197 bp):
ATAATATTTCCCACTAAAGCAAATCCTCAGTTCTAATGTAACGAAACTAATAGTTGAAATCTGAC
CAATTACCAAATCAGTTAGCAAGATTCACATAATTACACTAAGACCCTTATAAACAGAAAGTTTT
ATAATTAGATACCCAAAATTACTGTTGTACTTATCCTTTAACATTTTTGGGTGTGACATAAGTGT
TT
Found at i:42126290 original size:27 final size:25
Alignment explanation
Indices: 42126252--42126320 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
42126242 CATCGCGACC
*
42126252 CACAGCTCATGTGAGCAGGCCAATTTT
1 CACAGCTCATGTGAGCA--CCAATATT
* **
42126279 CACAGCTCATGTAAGCACTTATATT
1 CACAGCTCATGTGAGCACCAATATT
*
42126304 CACAGCTCGTGTGAGCA
1 CACAGCTCATGTGAGCA
42126321 ACTCTATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 20 0.56
27 16 0.44
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (25 bp):
CACAGCTCATGTGAGCACCAATATT
Found at i:42134732 original size:6 final size:6
Alignment explanation
Indices: 42134695--42134730 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
42134685 GGCGTCGGCT
* *
42134695 CCTTCC CCTTCC CCTTCC CCTTCC TCTTCC TCTTCC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC
42134731 TCCGTGGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
CCTTCC
Found at i:42135940 original size:13 final size:13
Alignment explanation
Indices: 42135922--42135950 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42135912 TTAGTTCCTT
42135922 TCTCATTTATGTG
1 TCTCATTTATGTG
42135935 TCTCATTTATGTG
1 TCTCATTTATGTG
42135948 TCT
1 TCT
42135951 GTGTTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (13 bp):
TCTCATTTATGTG
Found at i:42138393 original size:16 final size:16
Alignment explanation
Indices: 42138350--42138393 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
42138340 GATTGGGGTA
* *
42138350 AATGGAATAGAGCTGT
1 AATGGAATAGAGATGC
* *
42138366 AATAGAAAAGAGATGC
1 AATGGAATAGAGATGC
42138382 AATGGAATAGAG
1 AATGGAATAGAG
42138394 TTATAATCAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.30, T:0.18
Consensus pattern (16 bp):
AATGGAATAGAGATGC
Found at i:42138437 original size:78 final size:78
Alignment explanation
Indices: 42138350--42138526 Score: 345
Period size: 78 Copynumber: 2.3 Consensus size: 78
42138340 GATTGGGGTA
42138350 AATGGAATAGAGCTGTAATAGAAAAGAGATGCAATGGAATAGAGTTATAATCAATAATTCAATTG
1 AATGGAATAGAGCTGTAATAGAAAAGAGATGCAATGGAATAGAGTTATAATCAATAATTCAATTG
42138415 TTTGGTACAATGG
66 TTTGGTACAATGG
*
42138428 AATGGAATAGAGCTGTAATAGAAAAGAGATGTAATGGAATAGAGTTATAATCAATAATTCAATTG
1 AATGGAATAGAGCTGTAATAGAAAAGAGATGCAATGGAATAGAGTTATAATCAATAATTCAATTG
42138493 TTTGGTACAATGG
66 TTTGGTACAATGG
42138506 AATGGAATAGAGCTGTAATAG
1 AATGGAATAGAGCTGTAATAG
42138527 TATTCTTTTA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 98 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (78 bp):
AATGGAATAGAGCTGTAATAGAAAAGAGATGCAATGGAATAGAGTTATAATCAATAATTCAATTG
TTTGGTACAATGG
Found at i:42138478 original size:16 final size:16
Alignment explanation
Indices: 42138428--42138471 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
42138418 GGTACAATGG
*
42138428 AATGGAATAGAGCTGT
1 AATGGAATAGAGATGT
* *
42138444 AATAGAAAAGAGATGT
1 AATGGAATAGAGATGT
42138460 AATGGAATAGAG
1 AATGGAATAGAG
42138472 TTATAATCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.30, T:0.20
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Found at i:42138705 original size:58 final size:59
Alignment explanation
Indices: 42138625--42138775 Score: 184
Period size: 58 Copynumber: 2.6 Consensus size: 59
42138615 TTTTAATAAG
* * *
42138625 ATTATTATTGAATATAATTTAATAAAAATAATAAATAAATTTAAT-A-TTTTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAAT-AATTTAATAACATTCTTAACATA
** *
42138683 ATTATTATTAAATATAATTTAAT-AAAATAATGTATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTTAACATA
*
42138741 ATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAA
42138776 TATATAATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
56 8 0.10
57 11 0.14
58 40 0.51
59 11 0.14
60 9 0.11
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:42138784 original size:58 final size:58
Alignment explanation
Indices: 42138617--42138784 Score: 168
Period size: 58 Copynumber: 2.9 Consensus size: 58
42138607 TTATTAAATT
* * *
42138617 TTAATA-AGATTATTATTGAATATAATTTAATAAAAATAATAA-ATA-AATTTAATATTTT
1 TTAATATA-ATTATTATTAAATATAATTTAATAAAAATAATAATATATAA--TAACATTTC
* * *
42138675 TTAACATAATTATTATTAAATATAATTTAAT-AAAATAATGTATAATTTAATAACA-TTC
1 TTAATATAATTATTATTAAATATAATTTAATAAAAATAAT-AAT-ATATAATAACATTTC
*
42138733 TTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAATATATAATA
1 TTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAATAATATATAATA
42138785 TTAGAAAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
57 8 0.09
58 53 0.58
59 18 0.20
60 11 0.12
61 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (58 bp):
TTAATATAATTATTATTAAATATAATTTAATAAAAATAATAATATATAATAACATTTC
Found at i:42140948 original size:41 final size:40
Alignment explanation
Indices: 42140814--42141037 Score: 326
Period size: 40 Copynumber: 5.6 Consensus size: 40
42140804 AACCCAAGTA
* * * *
42140814 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42140853 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42140893 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
42140934 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42140974 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
42141015 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42141038 CATCCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 12 0.07
40 96 0.56
41 62 0.36
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42141038 original size:81 final size:81
Alignment explanation
Indices: 42140814--42141038 Score: 348
Period size: 81 Copynumber: 2.8 Consensus size: 81
42140804 AACCCAAGTA
* * * * *
42140814 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAA-TGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATAT
* *
42140876 AGTAACTCGCACAAATG
65 CGTAACTAGCACAAATG
42140893 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
*
42140958 GTCACTAGCACAAATG
66 GTAACTAGCACAAATG
42140974 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
42141039 ATCCGAATAA
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 12 0.09
80 19 0.14
81 104 0.77
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGGATATC
GTAACTAGCACAAATG
Found at i:42146183 original size:41 final size:40
Alignment explanation
Indices: 42146050--42146273 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
42146040 AACCCAAGTA
* * * *
42146050 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
42146089 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42146129 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* *
42146170 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42146210 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
42146251 CCTTCGGGTCTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATAT
42146274 CATCCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
39 12 0.07
40 95 0.57
41 60 0.36
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42146274 original size:81 final size:80
Alignment explanation
Indices: 42146050--42146274 Score: 328
Period size: 81 Copynumber: 2.8 Consensus size: 80
42146040 AACCCAAGTA
* * * * *
42146050 CCTTCGGGATTTAA-CCGGATATAG-CAAATCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
*
42146113 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
*
42146129 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
*
42146194 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
*
42146210 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGAATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
42146275 ATCCGAATAA
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 12 0.09
80 19 0.14
81 101 0.77
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:42156390 original size:46 final size:46
Alignment explanation
Indices: 42156338--42156657 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
42156328 AGTGTGCTCT
42156338 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
42156384 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
42156430 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
42156476 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
42156522 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
42156568 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
42156614 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
42156658 TCACGTCAAA
Statistics
Matches: 260, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 259 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:42156963 original size:23 final size:25
Alignment explanation
Indices: 42156918--42156964 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
42156908 AATAAATATA
*
42156918 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
42156943 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
42156965 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:42165783 original size:13 final size:13
Alignment explanation
Indices: 42165765--42165789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42165755 AATATGACTT
42165765 AATATAAAAATAA
1 AATATAAAAATAA
42165778 AATATAAAAATA
1 AATATAAAAATA
42165790 TATTTTTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATATAAAAATAA
Found at i:42167081 original size:18 final size:18
Alignment explanation
Indices: 42167058--42167115 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
42167048 TTTGTTTATT
42167058 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * * *
42167076 GTTATTTAGTATCAAACA
1 GTTATTCAATAACAATCA
42167094 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
42167108 GTTATTCA
1 GTTATTCA
42167116 GTCCAATAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
14 9 0.32
15 1 0.04
17 1 0.04
18 17 0.61
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:42167404 original size:44 final size:44
Alignment explanation
Indices: 42167321--42167405 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
42167311 GACACACAAG
* * **
42167321 GTGCCTCATCGACTCGAAGTTGAAGTAACAGTACGACACTTATA
1 GTGCCTCATCGACTCGAAGTCGAAGTAACACTAAAACACTTATA
* *
42167365 GTGCCTCATCGACTC-AAGGTCGAAGTATCCCTAAAACACTT
1 GTGCCTCATCGACTCGAA-GTCGAAGTAACACTAAAACACTT
42167406 CCAATCCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (44 bp):
GTGCCTCATCGACTCGAAGTCGAAGTAACACTAAAACACTTATA
Found at i:42168611 original size:19 final size:20
Alignment explanation
Indices: 42168587--42168628 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
42168577 TTTAATTTTT
42168587 TTTAATAATAT-AATCATAA
1 TTTAATAATATAAATCATAA
*
42168606 TTTAATAATATAAATTATAA
1 TTTAATAATATAAATCATAA
42168626 TTT
1 TTT
42168629 GATAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAATAATATAAATCATAA
Found at i:42168653 original size:16 final size:16
Alignment explanation
Indices: 42168608--42168657 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
42168598 AATCATAATT
*
42168608 TAATAAT-ATAAATTA
1 TAATAATGATAAATAA
*
42168623 TAAT-TTGATAGAATAA
1 TAATAATGATA-AATAA
42168639 TAATAATGATAAATAA
1 TAATAATGATAAATAA
42168655 TAA
1 TAA
42168658 ATATCTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TAATAATGATAAATAA
Found at i:42168783 original size:16 final size:16
Alignment explanation
Indices: 42168764--42168818 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
42168754 TTAATTTAAT
42168764 TTAATTATATTTATAA
1 TTAATTATATTTATAA
42168780 TTAATTA-A-TT-TAA
1 TTAATTATATTTATAA
42168793 -TAA-TATATTTTATAA
1 TTAATTATA-TTTATAA
42168808 TTAAATTATAT
1 TT-AATTATAT
42168819 ATATTTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
11 2 0.06
12 4 0.12
13 3 0.09
14 4 0.12
15 4 0.12
16 8 0.25
17 3 0.09
18 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTATATTTATAA
Found at i:42168805 original size:28 final size:26
Alignment explanation
Indices: 42168754--42168811 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
42168744 ACATTTGACT
42168754 TTAATTTAATTTAATTATATTTATAA
1 TTAATTTAATTTAATTATATTTATAA
42168780 TTAA-TTAATTTAATAATATATTTTATAA
1 TTAATTTAATTTAAT--TATA-TTTATAA
42168808 TTAA
1 TTAA
42168812 ATTATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.34
26 4 0.14
27 4 0.14
28 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAATTTAATTTAATTATATTTATAA
Found at i:42168808 original size:20 final size:22
Alignment explanation
Indices: 42168781--42168835 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
42168771 TATTTATAAT
*
42168781 TAATTAATTTAATAATATATTTTA
1 TAATTAAATT-AT-ATATATTTTA
42168805 TAATTAAATTATATATATTTTCA
1 TAATTAAATTATATATATTTT-A
*
42168828 TGATTAAA
1 TAATTAAA
42168836 ATCTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTAAATTATATATATTTTA
Found at i:42169394 original size:24 final size:24
Alignment explanation
Indices: 42169365--42169412 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
42169355 ATCGGTACTT
42169365 GATTTGTAGGTATTGATATTTGGG
1 GATTTGTAGGTATTGATATTTGGG
42169389 GATTTGTAGGTATTGATATTTGGG
1 GATTTGTAGGTATTGATATTTGGG
42169413 CTGCAAGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (24 bp):
GATTTGTAGGTATTGATATTTGGG
Found at i:42171451 original size:75 final size:75
Alignment explanation
Indices: 42171328--42171484 Score: 314
Period size: 75 Copynumber: 2.1 Consensus size: 75
42171318 CCCCAAGCCT
42171328 AATTTTTTCATTTACGTTTATTGAATTTTTAACTGTGGAATTAAGATTATGACATATTATATTTA
1 AATTTTTTCATTTACGTTTATTGAATTTTTAACTGTGGAATTAAGATTATGACATATTATATTTA
42171393 TTTATTTTTA
66 TTTATTTTTA
42171403 AATTTTTTCATTTACGTTTATTGAATTTTTAACTGTGGAATTAAGATTATGACATATTATATTTA
1 AATTTTTTCATTTACGTTTATTGAATTTTTAACTGTGGAATTAAGATTATGACATATTATATTTA
42171468 TTTATTTTTA
66 TTTATTTTTA
42171478 AATTTTT
1 AATTTTT
42171485 GTAATTATTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (75 bp):
AATTTTTTCATTTACGTTTATTGAATTTTTAACTGTGGAATTAAGATTATGACATATTATATTTA
TTTATTTTTA
Found at i:42172676 original size:22 final size:23
Alignment explanation
Indices: 42172650--42172718 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
42172640 GATATTTTGA
*
42172650 ATATTTTAT-TTAATTAAATAAT
1 ATATTTTATAATAATTAAATAAT
* *
42172672 ATA-TTAATAATAATTAAATTAT
1 ATATTTTATAATAATTAAATAAT
* *
42172694 ATATTTTTATAATATTTTAATAAT
1 ATA-TTTTATAATAATTAAATAAT
42172718 A
1 A
42172719 AAATGATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.11
22 17 0.46
24 16 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTTTATAATAATTAAATAAT
Found at i:42175786 original size:28 final size:28
Alignment explanation
Indices: 42175744--42175808 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
42175734 TCAGTGTACG
*
42175744 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
42175772 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
42175800 AAATATTGA
1 AAATATTGA
42175809 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:42175959 original size:39 final size:40
Alignment explanation
Indices: 42175886--42176109 Score: 190
Period size: 39 Copynumber: 5.7 Consensus size: 40
42175876 TATAATGGTG
** **
42175886 TTATATCCGGG-TT-AAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTTAAAGTCCCGCAGGC-TTCGTGCTGGAA
* *
42175925 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTAGAA
1 TTATATCCGGGCTTAAAGTCCCGCAGGCTTCGTGCTGGAA
* * *
42175964 TTGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTGGAA
1 TTATATCCGGGCTTAAAGTCCCGCAGGCTTCGTGCTGGAA
* * * * **
42176003 TTGTATCCGGACTTAAGGT-CTGCAAACTTCGTGCTGGAA
1 TTATATCCGGGCTTAAAGTCCCGCAGGCTTCGTGCTGGAA
* * * *
42176042 TTGTATCCGGGCTTAAAGACCCGCAGGCAAT-ATGCTGGAA
1 TTATATCCGGGCTTAAAGTCCCGCAGGC-TTCGTGCTGGAA
* * *
42176082 TTATATCCAGGCTTAAAGACCCGTAGGC
1 TTATATCCGGGCTTAAAGTCCCGCAGGC
42176110 ATTGTGTTGG
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 100 0.65
40 54 0.35
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TTATATCCGGGCTTAAAGTCCCGCAGGCTTCGTGCTGGAA
Found at i:42176089 original size:40 final size:40
Alignment explanation
Indices: 42176034--42176110 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
42176024 GCAAACTTCG
* *
42176034 TGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCAATA
1 TGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCAATA
*
42176074 TGCTGGAATTATATCCAGGCTTAAAGACCCGTAGGCA
1 TGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCA
42176111 TTGTGTTGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
TGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCAATA
Found at i:42182326 original size:39 final size:39
Alignment explanation
Indices: 42182272--42182553 Score: 393
Period size: 39 Copynumber: 7.0 Consensus size: 39
42182262 AAGACACTGA
42182272 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
42182311 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
42182350 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
42182389 AAATGTATCCGGGCTAAACTCCCACAGGCTTCATGCTGGAAATATATGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTC--G-T-G------CTGG
*
42182438 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
42182477 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
42182516 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
42182554 ATAATATAAT
Statistics
Matches: 217, Mismatches: 16, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
39 179 0.82
41 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
49 32 0.15
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:42182466 original size:49 final size:49
Alignment explanation
Indices: 42182386--42182480 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
42182376 GGCTTCGTGC
*
42182386 TGGAAATGTATCCGGGCTAAACTCCCACAGGCTTCATGCTGGAAATATA
1 TGGAAATGTATCCGGACTAAACTCCCACAGGCTTCATGCTGGAAATATA
* * *
42182435 TGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAAT
1 TGGAAATGTATCCGGACTAAACTCCCACAGGCTTCATGCTGGAAAT
42182481 GTATCCGGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (49 bp):
TGGAAATGTATCCGGACTAAACTCCCACAGGCTTCATGCTGGAAATATA
Found at i:42182505 original size:88 final size:88
Alignment explanation
Indices: 42182347--42182519 Score: 283
Period size: 88 Copynumber: 2.0 Consensus size: 88
42182337 GGCTTCGTGC
* *
42182347 TGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAACTCCC
1 TGGAAATATATCCGGACCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAACTCCC
42182412 ACAGGCTTCATGCTGGAAATATA
66 ACAGGCTTCATGCTGGAAATATA
* * *
42182435 TGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCC
1 TGGAAATATATCCGGACCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAACTCCC
* *
42182500 GCAGGCTTCGTGCTGGAAAT
66 ACAGGCTTCATGCTGGAAAT
42182520 GTATCCGGGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (88 bp):
TGGAAATATATCCGGACCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAACTCCC
ACAGGCTTCATGCTGGAAATATA
Found at i:42182544 original size:127 final size:127
Alignment explanation
Indices: 42182308--42182546 Score: 433
Period size: 127 Copynumber: 1.9 Consensus size: 127
42182298 GGCTTCGTGC
*
42182308 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCC
1 TGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCC
42182373 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAACTCCCACAGGCTTCATGCTGGAAATATA
66 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAACTCCCACAGGCTTCATGCTGGAAATATA
*
42182435 TGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCC
1 TGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCC
* * *
42182500 GCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTT
66 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAACTCCCACAGGCTT
42182547 TGTGCTGATA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 107 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (127 bp):
TGGAAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCC
GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAACTCCCACAGGCTTCATGCTGGAAATATA
Found at i:42184876 original size:20 final size:20
Alignment explanation
Indices: 42184838--42184880 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
42184828 AAAAACTTCA
*
42184838 ATTTATAATAATTTTTAAAT
1 ATTTATAATAATTTATAAAT
42184858 ATTT-TAATAATTTAATAAAT
1 ATTTATAATAATTT-ATAAAT
42184878 ATT
1 ATT
42184881 AATATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTATAATAATTTATAAAT
Found at i:42184894 original size:15 final size:18
Alignment explanation
Indices: 42184843--42184888 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
42184833 CTTCAATTTA
*
42184843 TAATAATTT-TTAAATATTT
1 TAATAATTTAATAAATA--T
42184862 TAATAATTTAATAAATAT
1 TAATAATTTAATAAATAT
42184880 TAAT-ATTTA
1 TAATAATTTA
42184889 TAATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 9 0.36
20 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATAATTTAATAAATAT
Found at i:42184898 original size:19 final size:18
Alignment explanation
Indices: 42184841--42184898 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
42184831 AACTTCAATT
*
42184841 TATAATAAT-TTTTAA-A
1 TATATTAATATTTTAATA
* *
42184857 TATTTTAATAATTTAATA
1 TATATTAATATTTTAATA
*
42184875 AATATTAATATTTATAATA
1 TATATTAATATTT-TAATA
42184894 TATAT
1 TATAT
42184899 AAAATGAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 7 0.22
17 5 0.16
18 11 0.34
19 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATTAATATTTTAATA
Found at i:42198533 original size:20 final size:20
Alignment explanation
Indices: 42198485--42198532 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
42198475 TAATTGTTTG
* *
42198485 TAAAATTTAATTTAAATATA
1 TAAAATATATTTTAAATATA
*
42198505 TAAACTATATTTTAAATAT-
1 TAAAATATATTTTAAATATA
42198524 TAAAA-ATAT
1 TAAAATATAT
42198533 AACCATTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATATATTTTAAATATA
Found at i:42202005 original size:16 final size:17
Alignment explanation
Indices: 42201977--42202008 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42201967 AATATTATTT
42201977 ATTAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
42201994 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
42202009 CAACCCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:42205434 original size:21 final size:21
Alignment explanation
Indices: 42205410--42205473 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
42205400 CTCCAGCTTC
42205410 TATTCCTTGAATCCAATTTGA
1 TATTCCTTGAATCCAATTTGA
* ** *
42205431 TATT-C-T-AAACCAGCTT-C
1 TATTCCTTGAATCCAATTTGA
42205448 TATTCCTTGAATCCAATTTGA
1 TATTCCTTGAATCCAATTTGA
42205469 TATTC
1 TATTC
42205474 TAACTCCCCA
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 4 0.13
18 8 0.26
19 2 0.06
20 8 0.26
21 9 0.29
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (21 bp):
TATTCCTTGAATCCAATTTGA
Found at i:42205447 original size:38 final size:38
Alignment explanation
Indices: 42205402--42205476 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
42205392 TCTCTCTCCT
42205402 CCAGCTTCTATTCCTTGAATCCAATTTGATATTCTAAA
1 CCAGCTTCTATTCCTTGAATCCAATTTGATATTCTAAA
42205440 CCAGCTTCTATTCCTTGAATCCAATTTGATATTCTAA
1 CCAGCTTCTATTCCTTGAATCCAATTTGATATTCTAA
42205477 CTCCCCATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (38 bp):
CCAGCTTCTATTCCTTGAATCCAATTTGATATTCTAAA
Found at i:42205690 original size:11 final size:11
Alignment explanation
Indices: 42205674--42205698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42205664 TTATATATAC
42205674 TAATAAAATAA
1 TAATAAAATAA
42205685 TAATAAAATAA
1 TAATAAAATAA
42205696 TAA
1 TAA
42205699 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:42206941 original size:27 final size:28
Alignment explanation
Indices: 42206885--42206966 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 28
42206875 ATTTTTTAAA
* *
42206885 ATTTAAAAAATAAAAAATA-CAAAATCT
1 ATTTAAAAAATTAAAATTATCAAAATCT
* *
42206912 ATTTAAAAAATTAAAATTATTAACAT-T
1 ATTTAAAAAATTAAAATTATCAAAATCT
* * *
42206939 ATTTTAGAAAGTCTAAAATTATAAAAAT
1 A-TTTAAAAAAT-TAAAATTATCAAAAT
42206967 ATTTTTTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 19 0.43
28 12 0.27
29 13 0.30
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (28 bp):
ATTTAAAAAATTAAAATTATCAAAATCT
Found at i:42212546 original size:205 final size:205
Alignment explanation
Indices: 42212216--42212593 Score: 596
Period size: 205 Copynumber: 1.8 Consensus size: 205
42212206 CCCAATTGTC
* * * ** *
42212216 AGAGTTGGTTACCATTCTAAAGCATTACTCTTCTATCTGAATGTGACTTTTCATAGCTGCTTGGC
1 AGAGTTAGTTACCATTCCAAAGCATTACTCATCTATCTGAACATGACTCTTCATAGCTGCTTGGC
* * * * *
42212281 TACCAAGATTCTCCCAAACTCGCATGTTATGATTTTACTTCGATTATGATATCTTTTCATTGTGG
66 TACCAAGATGCTCACAAACTCACATGTTATGATTTTACTTCGATTATGATATCCTTTCATTGTGA
42212346 GTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTAATTCAAGTTTCTTAGTTCGAGG
131 GTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTAATTCAAGTTTCTTAGTTCGAGG
42212411 TCTGGGTGTA
196 TCTGGGTGTA
* * *
42212421 AGAGTTAGTTATCATTCCAAAGCTTTACTCATCTATCTGAACATGACTCTTCATTGCTGCTTGG-
1 AGAGTTAGTTACCATTCCAAAGCATTACTCATCTATCTGAACATGACTCTTCATAGCTGCTTGGC
* *
42212485 TAATCAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTG
66 T-ACCAAGATGCTCACAAACTCACATGTTATGATTTTACTTCGATTATGATATCCTTTCATTGTG
42212550 AGTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTA
130 AGTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTA
42212594 GTTATCATTC
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
204 1 0.01
205 155 0.99
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (205 bp):
AGAGTTAGTTACCATTCCAAAGCATTACTCATCTATCTGAACATGACTCTTCATAGCTGCTTGGC
TACCAAGATGCTCACAAACTCACATGTTATGATTTTACTTCGATTATGATATCCTTTCATTGTGA
GTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTAATTCAAGTTTCTTAGTTCGAGG
TCTGGGTGTA
Found at i:42212698 original size:166 final size:166
Alignment explanation
Indices: 42212424--42212925 Score: 977
Period size: 166 Copynumber: 3.0 Consensus size: 166
42212414 GGGTGTAAGA
* *
42212424 GTTAGTTATCATTCCAAAGCTTTACTCATCTATCTGAACATGACTCTTCATTGCTGCTTGGTAAT
1 GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
42212489 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
66 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
42212554 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
131 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
42212590 GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
1 GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
42212655 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
66 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
42212720 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
131 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
42212756 GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
1 GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
*
42212821 CAAGATGCTCACAAACTCACATGTTATGATTTTTCTTTGATTATGATATCCTTTCATTGTGAGTG
66 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
42212886 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
131 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
42212922 GTTA
1 GTTA
42212926 ATTCAAGCTC
Statistics
Matches: 333, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 333 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (166 bp):
GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
Found at i:42214648 original size:216 final size:216
Alignment explanation
Indices: 42214272--42214923 Score: 1214
Period size: 216 Copynumber: 3.0 Consensus size: 216
42214262 TTGAACCTAA
*
42214272 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTCTCCAA
1 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
*
42214337 AAGACTTGATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
66 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
*
42214402 ATTATCCTTCCAATCTAAATTAGGTTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
131 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
42214467 TCTGAAACCTAAACTGATGTC
196 TCTGAAACCTAAACTGATGTC
* *
42214488 TCTAGTTTAGAGGAGTCATCTGTTTTCCATATCATAAAACAATTAGTTTATCATCTGTTTTCCAA
1 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
*
42214553 AAGACTTAATATTTTAACTTTGTGCCATCTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
66 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
*
42214618 ATTATCCTTTCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
131 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
42214683 TCTGAAACCTAAACTGATGTC
196 TCTGAAACCTAAACTGATGTC
**
42214704 TCTAGTTTAGAGGAGTCATCTGTTTAACATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
1 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
42214769 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
66 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
42214834 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
131 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
*
42214899 TTTGAAACCTAAACTGATGTC
196 TCTGAAACCTAAACTGATGTC
42214920 TCTA
1 TCTA
42214924 ATCTATTGGT
Statistics
Matches: 422, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 422 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (216 bp):
TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
TCTGAAACCTAAACTGATGTC
Found at i:42220636 original size:35 final size:35
Alignment explanation
Indices: 42220597--42220666 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
42220587 CTTTCTTCTC
42220597 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
1 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
42220632 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
1 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
42220667 AAACGATTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (35 bp):
TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
Found at i:42237797 original size:55 final size:55
Alignment explanation
Indices: 42237685--42237798 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 55
42237675 CAAGATTTTT
* * * * *
42237685 CACATGGTCTATGACACGGCCGTGTGACCATATTTCGAATACACACATGGTTTGG
1 CACATGGTCTACGACACAGCCATGTGACCATATTTCGAATACACACACGGTTGGG
* * *
42237740 CACATGGTCTGCGACACAGCCATGTGACCTTATTTCGAATACTCACACGAG-TGGG
1 CACATGGTCTACGACACAGCCATGTGACCATATTTCGAATACACACACG-GTTGGG
42237795 CACA
1 CACA
42237799 CGGGCTAGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
55 49 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (55 bp):
CACATGGTCTACGACACAGCCATGTGACCATATTTCGAATACACACACGGTTGGG
Found at i:42245518 original size:2 final size:2
Alignment explanation
Indices: 42245511--42245537 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42245501 CAGCTTTCTT
42245511 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
42245538 GTTTCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42246790 original size:12 final size:14
Alignment explanation
Indices: 42246760--42246803 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
42246750 TTATACATGT
*
42246760 TTAAAAAATTTTAA
1 TTAAAAAATTATAA
42246774 TTAAAAAATTAT-A
1 TTAAAAAATTATAA
42246787 -T--AAAATTATAA
1 TTAAAAAATTATAA
42246798 TTAAAA
1 TTAAAA
42246804 TGATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
10 8 0.32
11 1 0.04
12 2 0.08
13 1 0.04
14 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAAAAAATTATAA
Found at i:42246809 original size:22 final size:23
Alignment explanation
Indices: 42246764--42246809 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
42246754 ACATGTTTAA
* *
42246764 AAAATTTTAATTAAAAAATTATAT
1 AAAATTATAATT-AAAAATGATAT
42246788 AAAATTATAATT-AAAATGATAT
1 AAAATTATAATTAAAAATGATAT
42246810 TTTTTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATTATAATTAAAAATGATAT
Found at i:42251374 original size:21 final size:22
Alignment explanation
Indices: 42251348--42251394 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
42251338 CTCTGCTCAA
*
42251348 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
42251369 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
42251391 ACTC
1 ACTC
42251395 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:42256762 original size:18 final size:18
Alignment explanation
Indices: 42256739--42256773 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42256729 CTCTTGTTCT
42256739 TCTTCTTCGTCGGCGTCG
1 TCTTCTTCGTCGGCGTCG
*
42256757 TCTTCTTCGTCGTCGTC
1 TCTTCTTCGTCGGCGTC
42256774 ATCGTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.34, G:0.23, T:0.43
Consensus pattern (18 bp):
TCTTCTTCGTCGGCGTCG
Found at i:42257984 original size:17 final size:17
Alignment explanation
Indices: 42257952--42257984 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42257942 AAAAAACATA
42257952 TACTAAATATATAATAC
1 TACTAAATATATAATAC
42257969 TACTATAATATA-AATA
1 TACTA-AATATATAATA
42257985 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTAAATATATAATAC
Found at i:42263360 original size:49 final size:49
Alignment explanation
Indices: 42263284--42263383 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
42263274 TAATCGATTA
* * *
42263284 TATCTTTAAAAAGTTGATTATAGTTTTATACATTACCGAATAATTTAGT
1 TATCTTTAAAAAGTTGATAATAATTTTATACATTACCAAATAATTTAGT
* *
42263333 TATCTTTAAACAGTTGATAATAATTTTATACATTATCAAATAATTTAGT
1 TATCTTTAAAAAGTTGATAATAATTTTATACATTACCAAATAATTTAGT
42263382 TA
1 TA
42263384 GATGTAAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (49 bp):
TATCTTTAAAAAGTTGATAATAATTTTATACATTACCAAATAATTTAGT
Found at i:42275092 original size:24 final size:23
Alignment explanation
Indices: 42275028--42275098 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 23
42275018 TAATCCTTTA
* *
42275028 AAAATTATAAAAATATATACTATT
1 AAAATCATAAAAATATATA-TTTT
*
42275052 AAAATGAT-AAAAT-TATATTTT
1 AAAATCATAAAAATATATATTTT
* *
42275073 AACTATCATAAAAATATATAATTT
1 AA-AATCATAAAAATATATATTTT
42275097 AA
1 AA
42275099 TTTCAATCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 5 0.13
22 8 0.21
23 10 0.26
24 16 0.41
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (23 bp):
AAAATCATAAAAATATATATTTT
Found at i:42276130 original size:12 final size:12
Alignment explanation
Indices: 42276113--42276151 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
42276103 AATATGTAAT
42276113 TTTATTATTTTA
1 TTTATTATTTTA
*
42276125 TTTATT-TTTAA
1 TTTATTATTTTA
*
42276136 ATTATTATTTTA
1 TTTATTATTTTA
42276148 TTTA
1 TTTA
42276152 AATTTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:42276143 original size:23 final size:24
Alignment explanation
Indices: 42276096--42276166 Score: 90
Period size: 23 Copynumber: 2.9 Consensus size: 24
42276086 CACAATTGTA
*
42276096 TTATTTAAATATGTAATTTTATTATT
1 TTATTTAAAT-T-TAAATTTATTATT
**
42276122 TTATTTATTTTTAAA-TTATTATT
1 TTATTTAAATTTAAATTTATTATT
42276145 TTATTTAAATTTAAATTTATTA
1 TTATTTAAATTTAAATTTATTA
42276167 ATATTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 21 0.54
24 9 0.23
25 1 0.03
26 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATTTAAATTTAAATTTATTATT
Found at i:42276298 original size:5 final size:5
Alignment explanation
Indices: 42276288--42276313 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
42276278 AAATATGTTA
42276288 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
42276314 TATATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Done.