Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 416 of 438
Found at i:129139025 original size:23 final size:22
Alignment explanation
Indices: 129138989--129139045 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
129138979 TAAAGAAAAC
129138989 AAAAATAACTAAAAGAAGAAATTTA
1 AAAAATAA--AAAAGAA-AAATTTA
* *
129139014 AAAAATAAAAAATAAATATTTA
1 AAAAATAAAAAAGAAAAATTTA
129139036 AAACAATAAA
1 AAA-AATAAA
129139046 TAAATAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 9 0.31
23 12 0.41
25 8 0.28
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAAATAAAAAAGAAAAATTTA
Found at i:129139173 original size:32 final size:32
Alignment explanation
Indices: 129139137--129139205 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
129139127 CAACAAATTC
*
129139137 AATTAATAGCTCTAATCAACCATCCAAGAAAT
1 AATTAATAGCTCTAATCAACCATCCAAAAAAT
* *
129139169 AATTAATGGCTCTAATCAACCATCTAAAAAAT
1 AATTAATAGCTCTAATCAACCATCCAAAAAAT
129139201 AATTA
1 AATTA
129139206 TTGACAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.28
Consensus pattern (32 bp):
AATTAATAGCTCTAATCAACCATCCAAAAAAT
Found at i:129140449 original size:19 final size:19
Alignment explanation
Indices: 129140425--129140466 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
129140415 TAAAATTTGA
129140425 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
129140444 AATAAAAACTAATAAATAT
1 AATAAAAAATAATAAATAT
129140463 AATA
1 AATA
129140467 TTGGACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:129146531 original size:93 final size:93
Alignment explanation
Indices: 129146419--129146590 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
129146409 CGCCCATAAG
***
129146419 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
129146484 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
129146512 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
129146577 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
129146591 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:129146587 original size:46 final size:46
Alignment explanation
Indices: 129146412--129146587 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
129146402 TGTAACCCGC
* ***
129146412 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
129146458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
129146508 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
129146551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
129146588 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:129151041 original size:23 final size:23
Alignment explanation
Indices: 129151011--129151061 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
129151001 AATTTTTTAT
129151011 AATTTTTA-AACATTTTTTAAATA
1 AATTTTTATAACA-TTTTTAAATA
**
129151034 AATTTTTATATGATTTTTAAATA
1 AATTTTTATAACATTTTTAAATA
129151057 AATTT
1 AATTT
129151062 AATATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTTTTATAACATTTTTAAATA
Found at i:129151072 original size:22 final size:23
Alignment explanation
Indices: 129151023--129151073 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
129151013 TTTTTAAACA
*
129151023 TTTTTTAAATAAATTTTTATATG
1 TTTTTTAAATAAATTTTAATATG
*
129151046 ATTTTTAAATAAA-TTTAATAT-
1 TTTTTTAAATAAATTTTAATATG
129151067 TTTTTTA
1 TTTTTTA
129151074 CACTTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTTAAATAAATTTTAATATG
Found at i:129154664 original size:46 final size:46
Alignment explanation
Indices: 129154614--129154923 Score: 431
Period size: 46 Copynumber: 6.7 Consensus size: 46
129154604 TGCCATACTG
* * ** * * *
129154614 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
** * *
129154660 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*** *** * *
129154706 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
129154752 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
129154798 TCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
129154844 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
129154890 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
129154924 AGAGCACACT
Statistics
Matches: 242, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 242 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:129156133 original size:46 final size:46
Alignment explanation
Indices: 129156081--129156397 Score: 400
Period size: 46 Copynumber: 6.9 Consensus size: 46
129156071 TTTGACATGA
* * * ** * * *
129156081 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTTTTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* ** * *
129156127 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *** *** * *
129156173 TGCCATGGTATCTTTCAACCATGATCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129156219 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129156265 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129156311 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129156357 TGCCATGGTATCTTTCAACAATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
129156398 TAGAGAGCAC
Statistics
Matches: 242, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 242 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:129157610 original size:46 final size:46
Alignment explanation
Indices: 129157558--129157874 Score: 391
Period size: 46 Copynumber: 6.9 Consensus size: 46
129157548 TTTGACATGA
* * * ** * * *
129157558 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTTTTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* ** * *
129157604 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *** *** * *
129157650 TGCCATGGTATCTTTCAACCATGATCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129157696 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
129157742 TGCCATGGTATCTTTCAACCATGGTCTAACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129157788 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129157834 TGCCATGGTATCTTTCAACAATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
129157875 TAGAGAGCAC
Statistics
Matches: 240, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 240 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:129159350 original size:46 final size:46
Alignment explanation
Indices: 129159035--129159354 Score: 388
Period size: 46 Copynumber: 7.0 Consensus size: 46
129159025 TTTGACATGA
* * * * ** * * *
129159035 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
** * * *
129159081 TGCCATGGTATCTTTCAACCATGGTCTTATTCATGTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *** *** * *
129159127 TGCCATGGTATATTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* * *
129159173 TACTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129159219 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129159265 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
129159311 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
129159355 AGAGCACACT
Statistics
Matches: 240, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 240 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:129160572 original size:46 final size:46
Alignment explanation
Indices: 129160522--129160783 Score: 326
Period size: 46 Copynumber: 5.7 Consensus size: 46
129160512 CCATAGTGTG
* * ** *
129160522 TTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGGTATC
** * * *
129160568 TTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATAGTATC
1 TTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGGTATC
*** ** *
129160614 TTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGGTATC
* * *
129160660 TTTCAACCATTGTCTTACACATTTCATATCAGGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGGTATC
* *
129160706 TTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGGTATC
*
129160752 TTTCAACCATGGTCTTACACATTTCATATCAG
1 TTTCAACCATGGTCTTACACATTTCATGTCAG
129160784 AGAGCACACT
Statistics
Matches: 190, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 190 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACACATTTCATGTCAGGTTGCCATGGTATC
Found at i:129160783 original size:92 final size:92
Alignment explanation
Indices: 129160510--129160783 Score: 377
Period size: 92 Copynumber: 3.0 Consensus size: 92
129160500 TTTGACATGA
* * * **
129160510 TGCCATAGTGTGTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
** * *
129160575 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTACACATTTCATATCAGGC
* * **
129160602 TGCCATAGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
*
129160667 CATTGTCTTACACATTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
* * * * *
129160694 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
129160759 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
129160784 AGAGCACACT
Statistics
Matches: 159, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 159 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:129161633 original size:46 final size:46
Alignment explanation
Indices: 129161573--129161892 Score: 406
Period size: 46 Copynumber: 7.0 Consensus size: 46
129161563 TTTGACATGA
* * * * ** * *
129161573 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
* ** *
129161619 TGCCATGGTATCTTTCAACGATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
*** * * *
129161665 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
*
129161711 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
* * *
129161757 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
* *
129161803 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
* *
129161849 TGCCATGGTATCTTTCAACCGTGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAG
129161893 AGAGCACACT
Statistics
Matches: 248, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 248 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGC
Found at i:129166078 original size:46 final size:46
Alignment explanation
Indices: 129166013--129166240 Score: 303
Period size: 46 Copynumber: 5.0 Consensus size: 46
129166003 TTATCTTTGA
* * * * **
129166013 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
129166059 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * **
129166105 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
129166151 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
129166197 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
129166241 ATCAGAGAGC
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 161 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:129167445 original size:46 final size:46
Alignment explanation
Indices: 129167393--129167755 Score: 483
Period size: 46 Copynumber: 7.9 Consensus size: 46
129167383 TTTGACATGA
* * * ** * *
129167393 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** * * *
129167439 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
129167485 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
129167531 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
129167577 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
129167623 TGCCATGGTATCTTTCAAGCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
129167669 TGCCATGGTATCTTTCAAGCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
129167715 TGCCATGGTATCTTTCAACAATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
129167756 TAGAGAGCAC
Statistics
Matches: 289, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 289 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:129169120 original size:46 final size:46
Alignment explanation
Indices: 129168916--129169231 Score: 406
Period size: 46 Copynumber: 7.0 Consensus size: 46
129168906 TTTGACATGA
* * * * * * * *
129168916 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
** * *
129168961 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCATGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** *
129169006 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129169051 T-TCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129169096 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
129169142 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
129169188 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
129169232 AGAGCACACT
Statistics
Matches: 246, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
44 37 0.15
45 70 0.28
46 139 0.57
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:129171392 original size:18 final size:20
Alignment explanation
Indices: 129171377--129171413 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
129171367 TAATAATAAA
*
129171377 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
129171397 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
129171414 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:129184008 original size:76 final size:80
Alignment explanation
Indices: 129183883--129184031 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 80
129183873 ATTTGATGTG
* *
129183883 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATATCCGAG-TTAAA-TCTCGCAGGC
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTACATCCGAGTTTAAAGTCCCGCAGGC
129183946 TTCGTGCTGGTATTA
66 TTCGTGCTGGTATTA
* * * * * *
129183961 TATCCGGG-TTAAA-TCCCGCAGGCCTA-GTGCTGGTATTACATCTGAGTTTAAAGTCCCGTAGG
1 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTAGAATTACATCCGAGTTTAAAGTCCCGCAGG
129184023 CTTCGTGCT
65 CTTCGTGCT
129184032 AGTGTTATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
76 23 0.38
77 13 0.22
78 24 0.40
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (80 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTACATCCGAGTTTAAAGTCCCGCAGGC
TTCGTGCTGGTATTA
Found at i:129184031 original size:40 final size:38
Alignment explanation
Indices: 129183884--129184031 Score: 127
Period size: 38 Copynumber: 3.8 Consensus size: 38
129183874 TTTGATGTGT
* * * * *
129183884 ATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATTAT
1 ATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTAC
* * *
129183924 ATCCGAGTTAAATCTCGCAGGCTTCGTGCTGGTATTAT
1 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAC
* *
129183962 ATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTAC
1 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAC
* * *
129184000 ATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 ATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCT
129184032 AGTGTTATGT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 56 0.63
39 11 0.12
40 21 0.24
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAC
Found at i:129190852 original size:111 final size:111
Alignment explanation
Indices: 129190653--129190875 Score: 356
Period size: 111 Copynumber: 2.0 Consensus size: 111
129190643 CTATCATCCT
* * * *
129190653 ATCTCTCTAAAGTTGTAGTGGAATAGGCTGAAGATTGTAGATCTTATTTCTCTGAAGTTGCAGTG
1 ATCTCCCTAAAGTTGTAGTAGAATAGGCTAAAGATTGTAGATCTTATTTCCCTGAAGTTGCAGTG
*
129190718 GAGCAGATCGAAGACGGCAAATCTTGTCTTCCTGAAGTTGCAGTGA
66 GACCAGATCGAAGACGGCAAATCTTGTCTTCCTGAAGTTGCAGTGA
* *
129190764 ATCTCCCTAAAGTTGTAGTAGAGTAGGCTAAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTG
1 ATCTCCCTAAAGTTGTAGTAGAATAGGCTAAAGATTGTAGATCTTATTTCCCTGAAGTTGCAGTG
* * *
129190829 GACCAGATCGAAGATGGCGAATCTTGTCTTCCTGAAGTTGCGGTGA
66 GACCAGATCGAAGACGGCAAATCTTGTCTTCCTGAAGTTGCAGTGA
129190875 A
1 A
129190876 ACAGATTTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 102 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (111 bp):
ATCTCCCTAAAGTTGTAGTAGAATAGGCTAAAGATTGTAGATCTTATTTCCCTGAAGTTGCAGTG
GACCAGATCGAAGACGGCAAATCTTGTCTTCCTGAAGTTGCAGTGA
Found at i:129193634 original size:25 final size:25
Alignment explanation
Indices: 129193582--129193696 Score: 126
Period size: 25 Copynumber: 4.6 Consensus size: 25
129193572 ATATTCGGGA
* * *
129193582 AAGCTCATACGAGCACATA-AATGGG
1 AAGCTCATGCGAGC-CATATAACGAG
* *
129193607 AAGCTCTTTCGAGCCATATAACGAG
1 AAGCTCATGCGAGCCATATAACGAG
* *
129193632 AAGCTCATGTGAGCCATGTAACGAG
1 AAGCTCATGCGAGCCATATAACGAG
* *
129193657 AAGCTCATGCGAGCCGTA-ATCGAG
1 AAGCTCATGCGAGCCATATAACGAG
129193681 AAGCTCATGCGAGCCA
1 AAGCTCATGCGAGCCA
129193697 GTATCGGGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
24 24 0.32
25 52 0.68
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.18
Consensus pattern (25 bp):
AAGCTCATGCGAGCCATATAACGAG
Found at i:129193702 original size:24 final size:24
Alignment explanation
Indices: 129193606--129193735 Score: 111
Period size: 25 Copynumber: 5.3 Consensus size: 24
129193596 ACATAAATGG
* *
129193606 GAAGCTCTTTCGAGCCA-TATAACGA
1 GAAGCTCATGCGAGCCAGTAT--CGA
* *
129193631 GAAGCTCATGTGAGCCATGTAACGA
1 GAAGCTCATGCGAGCCA-GTATCGA
129193656 GAAGCTCATGCGAGCC-GTAATCGA
1 GAAGCTCATGCGAGCCAGT-ATCGA
*
129193680 GAAGCTCATGCGAGCCAGTATCGG
1 GAAGCTCATGCGAGCCAGTATCGA
* ** * *
129193704 GAAGGTTCAAACGAGCCAATATCGG
1 GAA-GCTCATGCGAGCCAGTATCGA
129193729 GAAGCTC
1 GAAGCTC
129193736 CGGAGAGCTA
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
23 2 0.02
24 30 0.34
25 54 0.61
27 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (24 bp):
GAAGCTCATGCGAGCCAGTATCGA
Found at i:129194469 original size:18 final size:18
Alignment explanation
Indices: 129194446--129194484 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
129194436 CGGGCCCATA
129194446 AAAAATAAAAAAAAAACC
1 AAAAATAAAAAAAAAACC
*
129194464 AAAAATAAAAATAAAACC
1 AAAAATAAAAAAAAAACC
129194482 AAA
1 AAA
129194485 CAAAACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAATAAAAAAAAAACC
Found at i:129207445 original size:53 final size:53
Alignment explanation
Indices: 129207295--129207445 Score: 144
Period size: 53 Copynumber: 2.8 Consensus size: 53
129207285 GGAAAGGAAA
* * **
129207295 CCAAAGTGAAAACCCTCAAATGGCGCTTTGAGACTTTAAAAAAAAAAGGGGAGGGGG
1 CCAAAGTGAAAA-CCTCAAAGGGCGCTTTGAGAC--T-AAATAAAAAGGGGAAAGGG
* * * *
129207352 CCAAAGCGAAAACCCGCCAAGGGCGCTTTGAGAAC-AAATAAAAA-TGGAAAGGG
1 CCAAAGTGAAAA-CCTCAAAGGGCGCTTTGAG-ACTAAATAAAAAGGGGAAAGGG
*
129207405 CCAAAGTGAAAACCTACAAAGGGCGCTTTGAGACTCAATAA
1 CCAAAGTGAAAACCT-CAAAGGGCGCTTTGAGACTAAATAA
129207446 TAAAAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
52 4 0.05
53 37 0.47
54 8 0.10
57 28 0.35
58 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (53 bp):
CCAAAGTGAAAACCTCAAAGGGCGCTTTGAGACTAAATAAAAAGGGGAAAGGG
Found at i:129209397 original size:93 final size:93
Alignment explanation
Indices: 129209285--129209455 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
129209275 GCCCATAAGT
* *
129209285 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
129209350 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
129209378 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
129209443 CGAGTTCGGATGC
66 CGAGTTCGGATGC
129209456 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:129209471 original size:46 final size:46
Alignment explanation
Indices: 129209277--129209457 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
129209267 TGTAACCCGC
* * *
129209277 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
129209323 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
129209373 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
129209416 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
129209458 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:129211875 original size:30 final size:30
Alignment explanation
Indices: 129211831--129211919 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
129211821 CAAAGATAAC
129211831 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
129211860 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
129211890 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
129211920 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:129211879 original size:15 final size:15
Alignment explanation
Indices: 129211831--129211910 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
129211821 CAAAGATAAC
*
129211831 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
129211845 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
129211860 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
129211875 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
129211890 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
129211905 AAGAAA
1 AAGAAA
129211911 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:129211919 original size:15 final size:15
Alignment explanation
Indices: 129211842--129211919 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
129211832 AGAAAACCGA
129211842 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
129211857 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
129211871 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
129211886 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
129211902 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
129211917 ATA
1 ATA
129211920 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:129214970 original size:93 final size:93
Alignment explanation
Indices: 129214858--129215029 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
129214848 GCCCATAAGT
* *
129214858 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
129214923 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
129214951 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
129215016 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
129215030 AATATCCTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:129215025 original size:46 final size:46
Alignment explanation
Indices: 129214850--129215025 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
129214840 TGTAACCCGC
* * *
129214850 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
129214896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
129214946 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
129214989 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
129215026 TGCCAATATC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:129217587 original size:14 final size:15
Alignment explanation
Indices: 129217570--129217604 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
129217560 TAAATGTACG
129217570 AATATTACATATA-T
1 AATATTACATATATT
129217584 AATA-TACATATATT
1 AATATTACATATATT
129217598 AATATTA
1 AATATTA
129217605 ATAATGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.42
14 9 0.47
15 2 0.11
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATTACATATATT
Found at i:129219901 original size:136 final size:137
Alignment explanation
Indices: 129219645--129219930 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
129219635 CATTGGGCCT
** *
129219645 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
129219710 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
129219775 CATATGC
131 CATATGC
129219782 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGG-CTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
129219846 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
129219911 CATATGC
131 CATATGC
129219918 AAGCCCATTTGGG
1 AAGCCCATTTGGG
129219931 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 88 0.60
137 58 0.40
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:129221750 original size:26 final size:26
Alignment explanation
Indices: 129221714--129221794 Score: 144
Period size: 26 Copynumber: 3.1 Consensus size: 26
129221704 GATATTCTTG
*
129221714 TCATGAAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
129221740 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
129221766 TCATGGAACATTTACCTAACCTATTA
1 TCATGGAACATTTACCTAACCCATTA
129221792 TCA
1 TCA
129221795 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:129223871 original size:3 final size:3
Alignment explanation
Indices: 129223863--129223944 Score: 69
Period size: 3 Copynumber: 27.0 Consensus size: 3
129223853 ACATTTTGTC
* * * *
129223863 ATT ATT ATT ATT ATT ATT CTC ATT ATT ATT ATT GTT ATTT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* *
129223909 CATT ATT ATTT ATT -TT TTT ATT TTT A-T ATT ATT ATT
1 -ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
129223945 TAATTAGTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
2 4 0.06
3 51 0.81
4 8 0.13
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:129223938 original size:23 final size:25
Alignment explanation
Indices: 129223855--129223945 Score: 97
Period size: 26 Copynumber: 3.8 Consensus size: 25
129223845 TATTTTGCAC
129223855 ATTTTGTCATTATTATTA--TTA-TT
1 ATTTT-TCATTATTATTATTTTATTT
*
129223878 A-TTCTCATTATTATTATTGTTATTT
1 ATTTTTCATTATTATTATT-TTATTT
129223903 ATTTTTCATTATTATTTATTTT-TTT
1 ATTTTTCATTATTA-TTATTTTATTT
129223928 ATTTTT-A-TATTATTATTT
1 ATTTTTCATTATTATTATTT
129223946 AATTAGTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
21 12 0.20
22 8 0.13
23 6 0.10
24 4 0.07
25 12 0.20
26 13 0.22
27 5 0.08
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTTCATTATTATTATTTTATTT
Found at i:129233524 original size:42 final size:43
Alignment explanation
Indices: 129233467--129233583 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
129233457 TGTTTTACGC
* * *
129233467 GTAAGACCACT-TCTAGGACGTTGGCATCGTATTTGATTTCGT
1 GTAAGACCACTGTCTAGGAAGTTGGCATCGTATTTGATTACAT
*
129233509 GTAAGACC-CTGTCTAGGATAG-TGGCAACGATATTTGATTACAT
1 GTAAGACCACTGTCTAGGA-AGTTGGCATCG-TATTTGATTACAT
* * *
129233552 GTAAGACCAC-GTCTGGGATGTTGGCATTGTAT
1 GTAAGACCACTGTCTAGGAAGTTGGCATCGTAT
129233584 GAGCTTTCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
41 2 0.03
42 26 0.42
43 33 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GTAAGACCACTGTCTAGGAAGTTGGCATCGTATTTGATTACAT
Found at i:129238167 original size:174 final size:175
Alignment explanation
Indices: 129237865--129238195 Score: 433
Period size: 174 Copynumber: 1.9 Consensus size: 175
129237855 ATGTTGAAAC
* * *
129237865 TTTTGTTAAAAAATAGAAAATGTTTCTTGTGAAGTCATTCAAACACTAAAATATATAAGTTTTTT
1 TTTTGTTAAAAAATAGAAAATGTTTCTTGTGAAATCATTCAAACACTAAAAAATATAAGTCTTTT
* ** * * *
129237930 TTAAATCAAACTTATTTTTTAATAATCATTTTACTGAAAGCTATTTTCAATTAAACAAACACAAT
66 TAAAAAAAAACTTATTTTTCAATAATAATTTTACTGAAAGCTATTTTCAATCAAACAAACACAAT
*
129237995 -TTTCTATTTCTAATTTTACACATTCATAGCAACAAAAATATAAAA
131 CTTT-AATTTCTAATTTTACACATTCATAGCAACAAAAATATAAAA
* *
129238040 TTTTGTT-GAAAATAGAAAATGTTT-TATGTGAAATCATTTAAACACTAAAAAATATAAG-CTTT
1 TTTTGTTAAAAAATAGAAAATGTTTCT-TGTGAAATCATTCAAACACTAAAAAATATAAGTCTTT
* *
129238102 TTAAGAAAAATAATTTATTTTTCAATAATAAATTTT-TTGATAA-CTATTTTCAATCAAAC-AAC
65 TTAA-AAAAA-AACTTATTTTTCAATAAT-AATTTTACTGA-AAGCTATTTTCAATCAAACAAAC
129238164 ACAATCTTTAATTTCTAATTTTACACATTCAT
126 ACAATCTTTAATTTCTAATTTTACACATTCAT
129238196 GTGATTCATG
Statistics
Matches: 136, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
173 7 0.05
174 78 0.57
175 44 0.32
176 7 0.05
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (175 bp):
TTTTGTTAAAAAATAGAAAATGTTTCTTGTGAAATCATTCAAACACTAAAAAATATAAGTCTTTT
TAAAAAAAAACTTATTTTTCAATAATAATTTTACTGAAAGCTATTTTCAATCAAACAAACACAAT
CTTTAATTTCTAATTTTACACATTCATAGCAACAAAAATATAAAA
Found at i:129239251 original size:23 final size:24
Alignment explanation
Indices: 129239221--129239270 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
129239211 ATAAAAATTT
*
129239221 TAAAAATAATAATAATGA-AA-AA
1 TAAAAATAACAATAATGAGAATAA
129239243 TAAATAATAACAATAATGAGAATAA
1 TAAA-AATAACAATAATGAGAATAA
129239268 TAA
1 TAA
129239271 GAAGAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 13 0.54
24 2 0.08
25 5 0.21
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (24 bp):
TAAAAATAACAATAATGAGAATAA
Found at i:129240924 original size:45 final size:45
Alignment explanation
Indices: 129240875--129240985 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
129240865 TGCTCTGCTG
* *
129240875 CAACTTCAGGGAGATAATATTCACTA-CGTTCAATCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTCACTATC-TTCAATCTACTCCAATA
* * * *
129240920 CAACTTCATGGAGATAAGATTTATTATCTTCAATCTACTCCAATG
1 CAACTTCAGGGAGATAAGATTCACTATCTTCAATCTACTCCAATA
*
129240965 CAACTTCAGGGAAATAAGATT
1 CAACTTCAGGGAGATAAGATT
129240986 TGTGACTTGC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGATTCACTATCTTCAATCTACTCCAATA
Found at i:129240986 original size:45 final size:44
Alignment explanation
Indices: 129240872--129241858 Score: 319
Period size: 44 Copynumber: 21.5 Consensus size: 44
129240862 ATTTGCTCTG
* * * *
129240872 CTGCAACTTCAGGGAGATAATATTCACTACGTTCAATCTACTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTAC-TTCAATCTACTCCA
* * *
129240917 CTACAACTTCATGGAGATAAGATTTATTATCTTCAATCTACTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
* ** *
129240962 ATGCAACTTCAGGGAAATAAGATTTGTGACTTGCAGCTTTTATCTATTCCA
1 CTGCAACTTCAGGGAAATAAGA-TT-T-A-TT--A-CTTCAATCTACTCCA
* * * *
129241013 CTGCAACTTCAGGGAAATAAGATTT-GTAGCCTCAACCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
** * * * * * **
129241057 CAACAACTTCAGAGAGATAAG--GT-TCACTTTAATCTGTTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTACTTCAATCTACTCCA
* * * * **
129241098 CTGCAACTTCA-AGAATGTAAGATTTGTAACTTGAAGCTTTAATTTGTTCCA
1 CTGCAACTTCAGGGAA-ATAAGA-TT-T-A-TT--A-CTTCAATCTACTCCA
* * * * **
129241149 CTACAACATT-AGGGAAATACGATTTGCTATA-TTTAATCTGTTCCA
1 CTGCAAC-TTCAGGGAAATAAGATTT-AT-TACTTCAATCTACTCCA
** * * * * **
129241194 CTATAACTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTTTTTCCA
1 CTGCAACTTCAGGGAAATAAGA-TT-T-A--T-TA-CTTCAA-TCTACTCCA
* * * ** *
129241246 CTGCAACTTTAGGGAAATAAGATTT-GTAGCTTCAACCCGCTTCA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
** * *
129241290 CTGCAACTTCA-GGAAGATAAGATTTGCTATCTACAATCTGCTCCA
1 CTGCAACTTCAGGGAA-ATAAGATTTATTA-CTTCAATCTACTCCA
* * * * * *
129241335 TTGCAACTTTAGGGAGATATGGTTT-TTGACTTTAATCTACTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATT-ACTTCAATCTACTCCA
* * *
129241379 CTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAAT-T-CGTCCCA
1 CTGCAACTTCAGGGAAATAAGATT------TATTACTTCAATCTAC-T-CCA
** * * * *
129241429 CTGCAACTTCAGGGGTATAGGATTTGTAACTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTACTTCAATCTACTCCA
* * * * ** * *
129241473 CAGCAACTTTAGAGAGATAAGATTTGCTATCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
* * * * * *
129241518 CTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTACTTCAATCTACTCCA
* * * * * ** * *
129241562 CTGTAATTTTAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTACTTCAATCTACTCCA
* ** * * * *
129241606 TTGCAACTTCAAAGAGATAAGATTCACTATTTTCAATCTACTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
* * * *
129241651 CTGCAACTTTAGGGAGATAAGATTTACTATCTTCAATCTACTCGA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
* ** * **
129241696 CTACAACTTCAGGGGGATAAGATTTGCAACTTGTATCTTTAATCTGTTCCA
1 CTGCAACTTCAGGGAAATAAGATTT---A--T-TA-CTTCAATCTACTCCA
* * *
129241747 CTGCAACTTCAGGTAAATAAGATTT-GTAGCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATTA-CTTCAATCTACTCCA
* * * * *
129241791 CTGCAACTTTAGGGAGATAAGATTT-TTGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAAATAAGATTTATT-ACTTCAATCTACTCCA
* * *
129241835 CTACAACTTTAGGGAGATAAGATT
1 CTGCAACTTCAGGGAAATAAGATT
129241859 CTTCATGATG
Statistics
Matches: 725, Mismatches: 164, Indels: 107
0.73 0.16 0.11
Matches are distributed among these distances:
40 3 0.00
41 24 0.03
42 2 0.00
43 4 0.01
44 261 0.36
45 235 0.32
46 10 0.01
47 3 0.00
48 5 0.01
49 10 0.01
50 37 0.05
51 102 0.14
52 29 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (44 bp):
CTGCAACTTCAGGGAAATAAGATTTATTACTTCAATCTACTCCA
Found at i:129241215 original size:96 final size:96
Alignment explanation
Indices: 129241084--129241271 Score: 272
Period size: 96 Copynumber: 1.9 Consensus size: 96
129241074 TAAGGTTCAC
*
129241084 TTTAATCTGTTCCACTGCAACTTCAAGAATGTAAGATTTGTAACTTGAAGCTTTAA-TTTGTTCC
1 TTTAATCTGTTCCACTACAACTTCAAGAA-GTAAGATTTGTAACTTGAAGCTTTAATTTTGTTCC
*
129241148 ACTACAACATTAGGGAAATACGATTTGCTATA
65 ACTACAACATTAGGGAAATAAGATTTGCTATA
* * *
129241180 TTTAATCTGTTCCACTATAACTTC-AGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTTTTTC
1 TTTAATCTGTTCCACTACAACTTCAAGA-AG-TAAGATTTGTAACTTGAAGCTTTAATTTTGTTC
* *
129241244 CACTGCAACTTTAGGGAAATAAGATTTG
64 CACTACAACATTAGGGAAATAAGATTTG
129241272 TAGCTTCAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
95 4 0.05
96 47 0.57
97 31 0.38
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (96 bp):
TTTAATCTGTTCCACTACAACTTCAAGAAGTAAGATTTGTAACTTGAAGCTTTAATTTTGTTCCA
CTACAACATTAGGGAAATAAGATTTGCTATA
Found at i:129241266 original size:52 final size:51
Alignment explanation
Indices: 129241083--129241273 Score: 173
Period size: 52 Copynumber: 3.8 Consensus size: 51
129241073 ATAAGGTTCA
* * * *
129241083 CTTTAATCTGTTCCACTGCAACTTCA-AGAATGTAAGATTTGTAACTTGAAG
1 CTTTAATTTGTTCCACTACAACTTCAGAGAA-ATAAGATTTGTAACTTGTAG
* * *
129241134 CTTTAATTTGTTCCACTACAACATT-AGGGAAATACGATTTG---C-TATA-
1 CTTTAATTTGTTCCACTACAAC-TTCAGAGAAATAAGATTTGTAACTTGTAG
* * *
129241180 -TTTAATCTGTTCCACTATAACTTCAGAGAGATAAGATTTGTAACTTGTAG
1 CTTTAATTTGTTCCACTACAACTTCAGAGAAATAAGATTTGTAACTTGTAG
* * * *
129241230 CTTTAATTTTTTTCCACTGCAACTTTAGGGAAATAAGATTTGTA
1 CTTTAA-TTTGTTCCACTACAACTTCAGAGAAATAAGATTTGTA
129241274 GCTTCAACCC
Statistics
Matches: 110, Mismatches: 20, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
44 2 0.02
45 32 0.29
47 2 0.02
48 2 0.02
49 3 0.03
51 34 0.31
52 35 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (51 bp):
CTTTAATTTGTTCCACTACAACTTCAGAGAAATAAGATTTGTAACTTGTAG
Found at i:129241298 original size:96 final size:96
Alignment explanation
Indices: 129241092--129241315 Score: 260
Period size: 96 Copynumber: 2.3 Consensus size: 96
129241082 ACTTTAATCT
129241092 GTTCCACTGCAACTTCA-AGA-ATGTAAGATTTGTAACTTGAAGCTTTAATTTGTTCCACTACAA
1 GTTCCACTGCAACTTCAGAGAGA--TAAGATTTGTAACTTGAAGCTTTAATTTGTTCCACTACAA
* * * * *
129241155 CATTAGGGAAATACGATTTGCTATATTTAATCT
64 CATTAGGGAAATAAGATTTGCTAGATTCAACCC
** * * *
129241188 GTTCCACTATAACTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTTTTTCCACTGCAAC
1 GTTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGAAGCTTTAA-TTTGTTCCACTACAAC
* *
129241253 TTTAGGGAAATAAGATTTG-TAGCTTCAACCC
65 ATTAGGGAAATAAGATTTGCTAGATTCAACCC
129241284 GCTT-CACTGCAACTTCAG-GAAGATAAGATTTG
1 G-TTCCACTGCAACTTCAGAG-AGATAAGATTTG
129241316 CTATCTACAA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
95 1 0.01
96 71 0.65
97 36 0.33
98 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (96 bp):
GTTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGAAGCTTTAATTTGTTCCACTACAACA
TTAGGGAAATAAGATTTGCTAGATTCAACCC
Found at i:129241387 original size:44 final size:44
Alignment explanation
Indices: 129241242--129241858 Score: 442
Period size: 44 Copynumber: 13.6 Consensus size: 44
129241232 TTAATTTTTT
* * * * *
129241242 TCCACTGCAACTTTAGGGAAATAAGATTTGT-AGCTTCAACCCGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTGA-CTTTAATCTGC
* * **
129241286 TTCACTGCAACTTCAGGAAGATAAGATTTGCT-ATCTACAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TGA-CTTTAATCTGC
* * * * * *
129241331 TCCATTGCAACTTTAGGGAGATATGGTTTTTGACTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGC
** *
129241375 TCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAAT-T-C
1 TCCACTGCAACTTCAGGGAGATAAGATT------TGTGACTTTAATCTGC
* * *
129241423 GTCCCACTGCAACTTCAGGG-GTATAGGATTTGTAACTTCAATCTGC
1 -T-CCACTGCAACTTCAGGGAG-ATAAGATTTGTGACTTTAATCTGC
* * *
129241469 TCCACAGCAACTTTAGAGAGATAAGATTTGCT-ATCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TGA-CTTTAATCTGC
* * * *
129241514 TCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGC
* * * *
129241558 TCCACTGTAATTTTAGGGAGATAAGATTTGTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGC
* ** ** * *
129241602 TCCATTGCAACTTCAAAGAGATAAGATTCACT-ATTTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATT-TGTGACTTT-AATCTGC
* * * *
129241647 TCCACTGCAACTTTAGGGAGATAAGATTTACT-ATCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTT-GTGA-CTTTAATCTGC
* * * *
129241692 TCGACTACAACTTCAGGGGGATAAGATTTGCAACTTGTATCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-----TG-A-CTTTAATCTGC
* * *
129241743 TCCACTGCAACTTCAGGTAAATAAGATTTGT-AGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTGA-CTTTAATCTGC
* * *
129241787 TCCACTGCAACTTTAGGGAGATAAGATTTTTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGC
* *
129241831 TCCACTACAACTTTAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
129241859 CTTCATGATG
Statistics
Matches: 457, Mismatches: 87, Indels: 58
0.76 0.14 0.10
Matches are distributed among these distances:
44 238 0.52
45 142 0.31
46 4 0.01
48 1 0.00
49 4 0.01
50 33 0.07
51 35 0.08
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGC
Found at i:129241398 original size:89 final size:89
Alignment explanation
Indices: 129241242--129241858 Score: 519
Period size: 89 Copynumber: 6.8 Consensus size: 89
129241232 TTAATTTTTT
* * * * * * * * *
129241242 TCCACTGCAACTTTAGGGAAATAAGATTTGT-AGCTTCAACCCGCTTCACTGCAACTTCAGGAAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTGA-CTTTAATCTGCTCCACTGCAACTTTAGGGAG
*
129241306 ATAAGATTTGCTATCTACAATCTGC
65 ATAAGATTTGCTATCTTCAATCTGC
* * * * * *
129241331 TCCATTGCAACTTTAGGGAGATATGGTTTTTGACTTTAATCTACTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTGACTTTAATCTGCTCCACTGCAACTTTAGGGAGA
** *
129241396 TAAGATTCACCACAATGACTTCAAT-T-C
66 TAAGATT---TGCTAT--CTTCAATCTGC
* * * * * *
129241423 GTCCCACTGCAACTTCAGGG-GTATAGGATTTGTAACTTCAATCTGCTCCACAGCAACTTTAGAG
1 -T-CCACTGCAACTTCAGGGAG-ATAAGATTTTTGACTTTAATCTGCTCCACTGCAACTTTAGGG
*
129241487 AGATAAGATTTGCTATCTTTAATCTGC
63 AGATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
129241514 TCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCACTGTAATTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTGACTTTAATCTGCTCCACTGCAACTTTAGGGAGA
** *
129241579 TAAGATTTG-TGGCTTTAATCTGC
66 TAAGATTTGCTATCTTCAATCTGC
* ** ** * *
129241602 TCCATTGCAACTTCAAAGAGATAAGATTCACT-ATTTTCAATCTACTCCACTGCAACTTTAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATT-TTTGACTTT-AATCTGCTCCACTGCAACTTTAGGGA
* *
129241666 GATAAGATTTACTATCTTCAATCTAC
64 GATAAGATTTGCTATCTTCAATCTGC
* * * * *
129241692 TCGACTACAACTTCAGGGGGATAAGATTTGCAACTTGTATCTTTAATCTGTTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGATAAGATTT-----TTG-A-CTTTAATCTGCTCCACTGCAACTTT
* * *
129241757 AGGTAAATAAGATTTG-TAGCTTCAATCTGC
59 AGGGAGATAAGATTTGCTATCTTCAATCTGC
* * *
129241787 TCCACTGCAACTTTAGGGAGATAAGATTTTTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTGACTTTAATCTGCTCCACTGCAACTTTAGGGAGA
129241852 TAAGATT
66 TAAGATT
129241859 CTTCATGATG
Statistics
Matches: 424, Mismatches: 81, Indels: 47
0.77 0.15 0.09
Matches are distributed among these distances:
88 74 0.17
89 163 0.38
90 39 0.09
91 4 0.01
92 4 0.01
93 3 0.01
94 65 0.15
95 37 0.09
96 32 0.08
97 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTTTGACTTTAATCTGCTCCACTGCAACTTTAGGGAGA
TAAGATTTGCTATCTTCAATCTGC
Found at i:129241454 original size:139 final size:139
Alignment explanation
Indices: 129241288--129241541 Score: 343
Period size: 139 Copynumber: 1.8 Consensus size: 139
129241278 CAACCCGCTT
* ** *
129241288 CACTGCAACTTCAGGAAGATAAGATTTGCTATCTACAATCTGCTCCATTGCAACTTTAGGGAGAT
1 CACTGCAACTTCAGGAAGATAAGATTTG-TAACTACAATCTGCTCCACAGCAACTTTAGAGAGAT
* * * * *
129241353 ATGGTTT-TTGA-CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACT
65 AAGATTTGCT-ATCTTTAATCTACTCCACTACAACTTCAGAGAGATAAGATTCACCACAATGACT
129241416 TCAATTCGTCC
129 TCAATTCGTCC
* * *
129241427 CACTGCAACTTCAGG-GGTATAGGATTTGTAACTTCAATCTGCTCCACAGCAACTTTAGAGAGAT
1 CACTGCAACTTCAGGAAG-ATAAGATTTGTAACTACAATCTGCTCCACAGCAACTTTAGAGAGAT
*
129241491 AAGATTTGCTATCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATT
65 AAGATTTGCTATCTTTAATCTACTCCACTACAACTTCAGAGAGATAAGATT
129241542 TGTAACTTCA
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 38 0.38
139 61 0.62
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (139 bp):
CACTGCAACTTCAGGAAGATAAGATTTGTAACTACAATCTGCTCCACAGCAACTTTAGAGAGATA
AGATTTGCTATCTTTAATCTACTCCACTACAACTTCAGAGAGATAAGATTCACCACAATGACTTC
AATTCGTCC
Found at i:129241481 original size:183 final size:183
Alignment explanation
Indices: 129241243--129241585 Score: 445
Period size: 183 Copynumber: 1.9 Consensus size: 183
129241233 TAATTTTTTT
* * * *
129241243 CCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTCAACCCGCTTCACTGCAACTTCAG-GAAGA
1 CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAACCCGCTCCACAGCAACTTCAGAG-AGA
* * * * * * * * *
129241307 TAAGATTTGCTATCTACAATCTGCTCCATTGCAACTTTAGGGAGATATGGTTTTTGACTTTAATC
65 TAAGATTTGCTATCTACAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATC
129241372 TACTCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAATTCGTC
130 TACTCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAATTCGTC
** * * * *
129241426 CCACTGCAACTTCAGGGGTATAGGATTTGTAACTTCAATCTGCTCCACAGCAACTTTAGAGAGAT
1 CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAACCCGCTCCACAGCAACTTCAGAGAGAT
**
129241491 AAGATTTGCTATCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCT
66 AAGATTTGCTATCTACAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCT
* * * *
129241556 GCTCCACTGTAATTTTAGGGAGATAAGATT
131 ACTCCACTGCAACTTCAGGGAGATAAGATT
129241586 TGTGGCTTTA
Statistics
Matches: 134, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
183 133 0.99
184 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (183 bp):
CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAACCCGCTCCACAGCAACTTCAGAGAGAT
AAGATTTGCTATCTACAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCT
ACTCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAATTCGTC
Found at i:129244743 original size:40 final size:40
Alignment explanation
Indices: 129244713--129244806 Score: 179
Period size: 40 Copynumber: 2.4 Consensus size: 40
129244703 TATTCCAATT
129244713 CACACACTAAGTGCTGTATATAGCCAAAGCTATCTCGAAG
1 CACACACTAAGTGCTGTATATAGCCAAAGCTATCTCGAAG
*
129244753 CACACACTAAGTGCTGTATATAGCCGAAGCTATCTCGAAG
1 CACACACTAAGTGCTGTATATAGCCAAAGCTATCTCGAAG
129244793 CACACACTAAGTGC
1 CACACACTAAGTGC
129244807 CAAACATAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (40 bp):
CACACACTAAGTGCTGTATATAGCCAAAGCTATCTCGAAG
Found at i:129256963 original size:44 final size:45
Alignment explanation
Indices: 129256882--129256981 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
129256872 CTGCAACTTT
* * *** *
129256882 AGGGAGATAAAATCTACCATTTTCAGTTTGCTTCCTTGCTACCTC
1 AGGGAGATAAGATCTACAATTTTCAACCTGCTCCCTTGCTACCTC
*
129256927 AGGGAGATAAGA-CTACAATTTTCAACCTGCTCCCTTGTTACCTC
1 AGGGAGATAAGATCTACAATTTTCAACCTGCTCCCTTGCTACCTC
129256971 AGGGAGATAAG
1 AGGGAGATAAG
129256982 GCTAATGGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 37 0.77
45 11 0.23
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
AGGGAGATAAGATCTACAATTTTCAACCTGCTCCCTTGCTACCTC
Found at i:129257102 original size:45 final size:44
Alignment explanation
Indices: 129257034--129257159 Score: 128
Period size: 44 Copynumber: 2.8 Consensus size: 44
129257024 AGAGTCGCCG
* * * **
129257034 TCTTCGATCTGCTC-CACTGCTATCTTAGGGAGATGAGATCTTTAA
1 TCTTCAATCTGCTCTC-TTGCTATCTTAGGGAGATAAGA-CTACAA
* * * * *
129257079 TCTTCAGTCTGTTTTCTTGCTATCTGAGGAAGATAAGACTACAA
1 TCTTCAATCTGCTCTCTTGCTATCTTAGGGAGATAAGACTACAA
*
129257123 TCTTCAATCTGCTCTCTTGCTACCTTAGGGAGATAAG
1 TCTTCAATCTGCTCTCTTGCTATCTTAGGGAGATAAG
129257160 GCTAGTGGCT
Statistics
Matches: 64, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
44 35 0.55
45 28 0.44
46 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (44 bp):
TCTTCAATCTGCTCTCTTGCTATCTTAGGGAGATAAGACTACAA
Found at i:129257115 original size:178 final size:178
Alignment explanation
Indices: 129256910--129257964 Score: 1477
Period size: 178 Copynumber: 5.9 Consensus size: 178
129256900 ATTTTCAGTT
* * * *
129256910 TGCTTCCTTGCTACCTCAGGGAGATAAGACTACAATTTTCAACCTGCTCCCTTGTTACCTCAGGG
1 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
* * *
129256975 AGATAAGGCTAATGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAA-ATAAGAGTCGCCGTCTTC
66 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTC-GGAAAGATAAGATTCGCCGTCTTC
* * *
129257039 GATCTGCTCCACTGCTATCTTAGGGAGATGAGATCTTTAATCTTCAGTC
130 GATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATC
* * * * ** * *
129257088 TGTTTTCTTGCTATCTGAGGAAGATAAGACTACAATCTTCAATCTGCTCTCTTGCTACCTTAGGG
1 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
*
129257153 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAACATAAGATTCGCCGTCTTCG
66 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCGCCGTCTTCG
* * * *
129257218 ATCTGCTCCACTGCCATCTTAGGGAGATAAGATCTTCAATCTTCAGTC
131 ATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATC
* * * * * * * *
129257266 TACTTCCTTGCTACTTCAAGAAGATAAGGCTACAATCTTCGGCCTGCTCTCTTACTACCTTAGGG
1 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
* *
129257331 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGG-AAGATAAGATTCACCGTCTTC
66 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACC-TCGGAAAGATAAGATTCGCCGTCTTC
* * *
129257395 GATTTGCTCCACTGCTATCTCAGAGAAATGAGATCTTCAATCTTCAATC
130 GATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATC
* * * *
129257444 TTCTTCCTTGCTGCCTCAGGAAAATAAGATTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
1 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
* * * *
129257509 AGAGAAGGCTAGTTGCTAAAATCTGCTCCCCTGCTATCTCGGAAAGATAAGATTCGCCGTTTTCG
66 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCGCCGTCTTCG
* *
129257574 ATCTGCTCCACTCCTATCTCAGGGAGATGAGACCTTCAATCTTCAATC
131 ATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATC
* * *
129257622 TGCTTCCTTGCTACCTCAGGAAGATAAGACCACAATCTTCAGCCTGCTCCTTTGCTACCTCATGG
1 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
* *
129257687 AGATAAGGCTAGTGACTAAAATCTGCTCCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCG
66 AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCGCCGTCTTCG
** *
129257752 ATCTGCTCCACTGCTATCTCAAAGAGATGAGATCTTTAATCTTCAATC
131 ATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATC
* * * *
129257800 TGCTTCCTTGCTACCTCAGGAAGATAAAACCACAATCTTCAGCCTGCTCCATTGCTACCTTAGGG
1 TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
* * * * *
129257865 AAATAAGGCTAGTGGCTAAAATC-GACTCCCCTTCTACCTCGGGAAGATAAGATTCACTGTCTTC
66 AGATAAGGCTAGTGGCTAAAATCTG-CTCCCCTGCTACCTCGGAAAGATAAGATTCGCCGTCTTC
* *
129257929 AATCTGCTCCACTGCTATCTCAGGGAGATAAGATCT
130 GATCTGCTCCACTGCTATCTCAGGGAGATGAGATCT
129257965 GTGAATTCAC
Statistics
Matches: 781, Mismatches: 92, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
177 9 0.01
178 769 0.98
179 3 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (178 bp):
TGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGG
AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCGCCGTCTTCG
ATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATC
Found at i:129257640 original size:45 final size:44
Alignment explanation
Indices: 129257591--129257693 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
129257581 CCACTCCTAT
* * *
129257591 CTCAGGGAGATGAGACCTTCAATCTTCAATCTGCTTCC-TTGCTAC
1 CTCAGGGAGATAAGACC-ACAATCTTCAACCTGC-TCCTTTGCTAC
* *
129257636 CTCAGGAAGATAAGACCACAATCTTCAGCCTGCTCCTTTGCTAC
1 CTCAGGGAGATAAGACCACAATCTTCAACCTGCTCCTTTGCTAC
*
129257680 CTCATGGAGATAAG
1 CTCAGGGAGATAAG
129257694 GCTAGTGACT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.06
44 32 0.64
45 15 0.30
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (44 bp):
CTCAGGGAGATAAGACCACAATCTTCAACCTGCTCCTTTGCTAC
Found at i:129258927 original size:18 final size:18
Alignment explanation
Indices: 129258904--129258989 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
129258894 GAACGATTAT
* *
129258904 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
129258922 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
129258940 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
129258958 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
129258977 TTATTCAGTAACA
1 TTATTCAGTAACA
129258990 GTCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:129258945 original size:36 final size:37
Alignment explanation
Indices: 129258904--129258992 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
129258894 GAACGATTAT
* *
129258904 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * *
129258940 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
129258977 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
129258993 GATCTTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 28 0.64
37 16 0.36
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:129259186 original size:47 final size:47
Alignment explanation
Indices: 129259117--129259223 Score: 153
Period size: 47 Copynumber: 2.3 Consensus size: 47
129259107 TAGTAATAGT
* *
129259117 AACAGTAGCAATACGGTACACAGAGTACCTCATCAGAACAAATCCAG-
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAAT-CAGA
** *
129259164 AACAGTAACAGTACGGTACACAGAGTACCTCATTGGAACAAATCTGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCAGA
129259211 AACAGTAACAGTA
1 AACAGTAACAGTA
129259224 ACAGTAACAG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.04
47 52 0.96
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCAGA
Found at i:129259222 original size:6 final size:6
Alignment explanation
Indices: 129259211--129259238 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
129259201 ACAAATCTGA
129259211 AACAGT AACAGT AACAGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACA
129259239 ATATTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (6 bp):
AACAGT
Found at i:129259281 original size:12 final size:12
Alignment explanation
Indices: 129259264--129259288 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
129259254 AGTGCCGAAT
129259264 CGGTAACAGTAA
1 CGGTAACAGTAA
129259276 CGGTAACAGTAA
1 CGGTAACAGTAA
129259288 C
1 C
129259289 AGTAGTGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:129259437 original size:16 final size:16
Alignment explanation
Indices: 129259408--129259445 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
129259398 TGATTCACTT
129259408 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
129259424 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
129259440 TT-AATT
1 TTCAATT
129259446 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 12 0.57
17 5 0.24
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:129259461 original size:20 final size:21
Alignment explanation
Indices: 129259413--129259461 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
129259403 CACTTTTCAA
129259413 TTTTCAATTAATTCATATTTT
1 TTTTCAATTAATTCATATTTT
**
129259434 AATT-AATTAATT-ATATTTT
1 TTTTCAATTAATTCATATTTT
129259453 TTTTCAATT
1 TTTTCAATT
129259462 CAATATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTCAATTAATTCATATTTT
Found at i:129261075 original size:31 final size:32
Alignment explanation
Indices: 129261019--129261081 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
129261009 CACACTTGTC
*
129261019 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
129261051 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
129261082 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:129261207 original size:5 final size:5
Alignment explanation
Indices: 129261199--129261254 Score: 87
Period size: 5 Copynumber: 11.0 Consensus size: 5
129261189 ATTTATTTCG
129261199 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TTAATA TTAAT-
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA -TAATA -TAATA
129261250 TAATA
1 TAATA
129261255 ATTATACCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.08
5 35 0.71
6 10 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:129263312 original size:44 final size:44
Alignment explanation
Indices: 129263249--129263336 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
129263239 AATAACTACT
129263249 ACTTCCGAATCAGGTATCAAATAATTCTTCCCATGTGATTCTAA
1 ACTTCCGAATCAGGTATCAAATAATTCTTCCCATGTGATTCTAA
129263293 ACTTCCGAATCAGGTATCAAATAATTCTTCCCATGTGATTCTAA
1 ACTTCCGAATCAGGTATCAAATAATTCTTCCCATGTGATTCTAA
129263337 CATTTCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (44 bp):
ACTTCCGAATCAGGTATCAAATAATTCTTCCCATGTGATTCTAA
Found at i:129265896 original size:25 final size:25
Alignment explanation
Indices: 129265868--129265987 Score: 195
Period size: 25 Copynumber: 4.8 Consensus size: 25
129265858 CTCTTTTAAT
* *
129265868 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
129265893 AACTAGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
129265918 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
129265943 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
129265968 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
129265988 AGCACTTCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 87 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:129266222 original size:27 final size:27
Alignment explanation
Indices: 129266192--129266432 Score: 285
Period size: 27 Copynumber: 9.0 Consensus size: 27
129266182 GGGGCAAAAT
* * * *
129266192 GATAATTTTACCCCACATGGGTATCTC
1 GATAATTCTACCCTACAGGGGTATTTC
*
129266219 GATAATTCTACCCTATAGGGGTATTTC
1 GATAATTCTACCCTACAGGGGTATTTC
* *
129266246 GATATTTCTACCCTACAAGGG--TTTC
1 GATAATTCTACCCTACAGGGGTATTTC
129266271 GATAATTCTACCCTACAGGGGTATTTC
1 GATAATTCTACCCTACAGGGGTATTTC
*
129266298 -AGTAATTCTACCCTATAGGGGTATTTC
1 GA-TAATTCTACCCTACAGGGGTATTTC
*
129266325 GATAATTCTACCTTACAGGGGTATTTC
1 GATAATTCTACCCTACAGGGGTATTTC
129266352 -AGTAATTCTACCCTACAGGGGTATTTC
1 GA-TAATTCTACCCTACAGGGGTATTTC
* * * *
129266379 GGTATTTCTACCTTACAAGGGTATTTC
1 GATAATTCTACCCTACAGGGGTATTTC
* *
129266406 -AGTAATTCTACCTTACAAGGGTATTTC
1 GA-TAATTCTACCCTACAGGGGTATTTC
129266433 AGTATTTTAG
Statistics
Matches: 187, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
25 23 0.12
26 2 0.01
27 161 0.86
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GATAATTCTACCCTACAGGGGTATTTC
Found at i:129266401 original size:81 final size:81
Alignment explanation
Indices: 129266194--129266436 Score: 323
Period size: 81 Copynumber: 3.0 Consensus size: 81
129266184 GGCAAAATGA
* * * * * * *
129266194 TAATTTTACCCCACATGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCGATATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCT
129266259 TACAAGGG--TTTC-G
66 TACAAGGGTATTTCAG
*
129266272 ATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACC
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACC
*
129266337 TTACAGGGGTATTTCAG
65 TTACAAGGGTATTTCAG
* * * *
129266354 TAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCTTACAAGGGTATTTC-AGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGA-TAATTCTACC
129266418 TTACAAGGGTATTTCAG
65 TTACAAGGGTATTTCAG
129266435 TA
1 TA
129266437 TTTTAGAAAT
Statistics
Matches: 145, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 64 0.44
80 1 0.01
81 79 0.54
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCT
TACAAGGGTATTTCAG
Found at i:129266481 original size:27 final size:27
Alignment explanation
Indices: 129266421--129266547 Score: 112
Period size: 27 Copynumber: 4.7 Consensus size: 27
129266411 TTCTACCTTA
** * *
129266421 CAAGGGTATTTCAGT-ATTTTAGAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
129266447 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
129266474 CAAAGGTATTTTAGTAATTTTACAAAAC
1 CAAGGGTATTTTGGTAATTTTAC-AAAC
* * * ** *
129266502 CAGGGGTATTTTTGTAAATTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
129266529 CGAGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
129266548 CTGTAAATCG
Statistics
Matches: 80, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
26 12 0.15
27 45 0.56
28 23 0.29
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:129266510 original size:28 final size:27
Alignment explanation
Indices: 129266424--129266524 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
129266414 TACCTTACAA
* * *
129266424 GGGTATTTCAGT-ATTTTAGAAATCAG
1 GGGTATTTTAGTAATTTTACAAACCAG
* *
129266450 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAG
*
129266477 AGGTATTTTAGTAATTTTACAAAACCAG
1 GGGTATTTTAGTAATTTTAC-AAACCAG
* *
129266505 GGGTATTTTTGTAAATTTAC
1 GGGTATTTTAGTAATTTTAC
129266525 TGATCGAGGG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
26 10 0.16
27 29 0.47
28 23 0.37
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAG
Found at i:129266537 original size:55 final size:54
Alignment explanation
Indices: 129266421--129266547 Score: 139
Period size: 55 Copynumber: 2.4 Consensus size: 54
129266411 TTCTACCTTA
* * * *
129266421 CAAGGGTATTTCAGT-ATTTTAGAAATCAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTAAAAACCAGGGGTATTTTGGTAAATTTACAAAC
* * ** *
129266474 CAAAGGTATTTTAGTAATTTTACAAAACCAGGGGTATTTTTGTAAATTTACTGAT
1 CAAGGGTATTTTAGTAATTTTA-AAAACCAGGGGTATTTTGGTAAATTTACAAAC
* *
129266529 CGAGGGTATTTTGGTAATT
1 CAAGGGTATTTTAGTAATT
129266548 CTGTAAATCG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 13 0.22
54 6 0.10
55 41 0.68
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTAAAAACCAGGGGTATTTTGGTAAATTTACAAAC
Found at i:129266557 original size:27 final size:27
Alignment explanation
Indices: 129266540--129266668 Score: 204
Period size: 27 Copynumber: 4.8 Consensus size: 27
129266530 GAGGGTATTT
129266540 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
129266567 TGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
129266594 TGGTAATTCTGTAAATCAAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
129266621 TGGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
** *
129266648 CAGTAATTCTATAAATCGAGG
1 TGGTAATTCTGTAAATCGAGG
129266669 ATATTTGGGA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:129266706 original size:81 final size:81
Alignment explanation
Indices: 129266531--129266711 Score: 202
Period size: 81 Copynumber: 2.2 Consensus size: 81
129266521 TTACTGATCG
* * ** *
129266531 AGGGTATTTTGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAATG
* * *
129266596 GTAATTCTGTAAATCA
66 GGAATTCTATAAACCA
** **
129266612 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGAT-ATTTG
1 AGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAATG
* *
129266676 GGAAGTTTTATAAACCG
66 GGAA-TTCTATAAACCA
* *
129266693 GGGGTACTTTGGTAATTTT
1 AGGGTAATTTGGTAATTTT
129266712 ACAACTGGGG
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 6 0.07
81 75 0.93
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.34
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAATG
GGAATTCTATAAACCA
Found at i:129266711 original size:27 final size:26
Alignment explanation
Indices: 129266650--129266712 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
129266640 GGGTAAAACA
* *
129266650 GTAATTCTATAAATCGAGGATATTTG
1 GTAATTTTATAAACCGAGGATATTTG
* * *
129266676 GGAAGTTTTATAAACCGGGGGTACTTTG
1 GTAA-TTTTATAAACCGAGGATA-TTTG
129266704 GTAATTTTA
1 GTAATTTTA
129266713 CAACTGGGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 19 0.66
28 7 0.24
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (26 bp):
GTAATTTTATAAACCGAGGATATTTG
Found at i:129268622 original size:18 final size:18
Alignment explanation
Indices: 129268599--129268684 Score: 64
Period size: 18 Copynumber: 4.7 Consensus size: 18
129268589 GAATGATTAT
* * *
129268599 TTATTCAGTAACAGTTAG
1 TTATTCAGTAACAATCAA
*
129268617 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
129268635 TTATTCAATAATACTCAG
1 TTATTCAGTAACAATCAA
* * *
129268653 TTGTTTAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
129268672 TTATTCAGTAACA
1 TTATTCAGTAACA
129268685 GTCGATCTTT
Statistics
Matches: 49, Mismatches: 18, Indels: 1
0.72 0.26 0.01
Matches are distributed among these distances:
18 36 0.73
19 13 0.27
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:129268640 original size:36 final size:37
Alignment explanation
Indices: 129268599--129268687 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 37
129268589 GAATGATTAT
* * *
129268599 TTATTCAGTAACAGTTAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * * * *
129268635 TTATTCAATAATACTCAGTTGTTTAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
129268672 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
129268688 GATCTTTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 25 0.61
37 16 0.39
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:129268913 original size:47 final size:47
Alignment explanation
Indices: 129268812--129268915 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
129268802 CAGTAACAGT
* * * * **
129268812 AACAGTAGCAATATGGTACACAGAGTACCTCATTGGAACAAATCTGG
1 AACAGTAACAATACGATACACAGAGTACCTCATCGGAACAAATCTAA
*
129268859 AATAGTAACAATACGATACACAGAGTACCTCATCGGAACAAAT-TCAA
1 AACAGTAACAATACGATACACAGAGTACCTCATCGGAACAAATCT-AA
129268906 AACAGTAACA
1 AACAGTAACA
129268916 GTAATGGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 47 0.98
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (47 bp):
AACAGTAACAATACGATACACAGAGTACCTCATCGGAACAAATCTAA
Found at i:129269133 original size:16 final size:16
Alignment explanation
Indices: 129269104--129269141 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
129269094 TGATTCACTT
129269104 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
129269120 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
129269136 TT-AATT
1 TTCAATT
129269142 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 12 0.57
17 5 0.24
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:129269157 original size:20 final size:21
Alignment explanation
Indices: 129269109--129269157 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
129269099 CACTTTTCAA
129269109 TTTTCAATTAATTCATATTTT
1 TTTTCAATTAATTCATATTTT
**
129269130 AATT-AATTAATT-ATATTTT
1 TTTTCAATTAATTCATATTTT
129269149 TTTTCAATT
1 TTTTCAATT
129269158 CAATATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTCAATTAATTCATATTTT
Found at i:129270768 original size:31 final size:32
Alignment explanation
Indices: 129270712--129270774 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
129270702 CATACTTGTC
*
129270712 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
129270744 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
129270775 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:129272960 original size:21 final size:20
Alignment explanation
Indices: 129272936--129272975 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
129272926 TGACCTTTGC
129272936 TTTATTACTTTTATTCTTCTT
1 TTTATTACTTTTATT-TTCTT
*
129272957 TTTATTATTTTTATTTTCT
1 TTTATTACTTTTATTTTCT
129272976 GTACTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTATTACTTTTATTTTCTT
Found at i:129278143 original size:2 final size:2
Alignment explanation
Indices: 129278136--129278162 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
129278126 ATTCGAAAAG
129278136 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
129278163 ATAATATGAA
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:129278280 original size:14 final size:16
Alignment explanation
Indices: 129278257--129278294 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
129278247 AATGACACGT
129278257 ATAA-AGAAATTTTA-
1 ATAATAGAAATTTTAC
129278271 A-AATAGAAATTTTAC
1 ATAATAGAAATTTTAC
129278286 ATAATAGAA
1 ATAATAGAA
129278295 CTAATAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 1 0.05
16 7 0.33
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (16 bp):
ATAATAGAAATTTTAC
Found at i:129280109 original size:20 final size:20
Alignment explanation
Indices: 129280084--129280127 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
129280074 CCCGTGTGGC
*
129280084 GTAGAGGTACGGCCATGGGA
1 GTAGAGGCACGGCCATGGGA
129280104 GTAGAGGCACGGCCATGGGA
1 GTAGAGGCACGGCCATGGGA
129280124 GTAG
1 GTAG
129280128 GCCGTGTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.45, T:0.14
Consensus pattern (20 bp):
GTAGAGGCACGGCCATGGGA
Found at i:129280875 original size:13 final size:13
Alignment explanation
Indices: 129280847--129280885 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
129280837 AAGAACGTCC
129280847 AAAAATAACCAAAAT
1 AAAAATAA--AAAAT
*
129280862 AGAAATAAAAAAT
1 AAAAATAAAAAAT
129280875 AAAAATAAAAA
1 AAAAATAAAAA
129280886 TAATCACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 15 0.68
15 7 0.32
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:129283246 original size:17 final size:17
Alignment explanation
Indices: 129283224--129283258 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
129283214 CGTACGGACG
129283224 TGTTGTCTTCCACTTTA
1 TGTTGTCTTCCACTTTA
129283241 TGTTGTCTTCCACTTTA
1 TGTTGTCTTCCACTTTA
129283258 T
1 T
129283259 CAAGAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.54
Consensus pattern (17 bp):
TGTTGTCTTCCACTTTA
Found at i:129284818 original size:3 final size:3
Alignment explanation
Indices: 129284810--129284900 Score: 55
Period size: 3 Copynumber: 30.7 Consensus size: 3
129284800 ATACTAATTG
* * *
129284810 AAT AAT AAT -AT AGAA AATT AA- AAT AAAT AA- AAT AAA AAA AAT -AT
1 AAT AAT AAT AAT A-AT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * * *
129284854 AAA AAT AAT AAT AAC AAT AAT AAC AAT AAT GAG AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
129284901 CAAAATGTAC
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
2 8 0.12
3 52 0.78
4 7 0.10
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:129287205 original size:2 final size:2
Alignment explanation
Indices: 129287198--129287224 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
129287188 TATTTTAATA
129287198 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
129287225 ATTTTAAAGG
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:129291442 original size:13 final size:13
Alignment explanation
Indices: 129291426--129291450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
129291416 ATTCCCTTTA
129291426 TTTTTTCCCCAAC
1 TTTTTTCCCCAAC
129291439 TTTTTTCCCCAA
1 TTTTTTCCCCAA
129291451 ATTAGTTCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTTTCCCCAAC
Found at i:129291600 original size:15 final size:15
Alignment explanation
Indices: 129291580--129291608 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
129291570 TTTTTTTTCA
129291580 TTTTTTTATTGTTAT
1 TTTTTTTATTGTTAT
129291595 TTTTTTTATTGTTA
1 TTTTTTTATTGTTA
129291609 AGTGAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTTTTTATTGTTAT
Found at i:129293464 original size:24 final size:24
Alignment explanation
Indices: 129293375--129293516 Score: 92
Period size: 24 Copynumber: 5.8 Consensus size: 24
129293365 GTCCCGATAT
*
129293375 ATGGCTTTTCATGAGCTTCCCAATTA
1 ATGGCTCTT-ATGAGCTTCCC-ATTA
* *
129293401 AAGGCTCTT-TGTAAGCTTCCTAATTA
1 ATGGCTCTTATG--AGCTTCC-CATTA
* *
129293427 ATGACTCTCCA-GAGCTTCCCATTA
1 ATGGCTCT-TATGAGCTTCCCATTA
* * *
129293451 ATGGCTCTTAAGAGCTACCCGTTA
1 ATGGCTCTTATGAGCTTCCCATTA
* * * *
129293475 TTGGCGCGTATGAGCTTCCCGA-CA
1 ATGGCTCTTATGAGCTTCCC-ATTA
129293499 ATGGCTCTTATGAGCTTC
1 ATGGCTCTTATGAGCTTC
129293517 TTGTTATGCA
Statistics
Matches: 88, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
23 1 0.01
24 55 0.62
25 7 0.08
26 24 0.27
27 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (24 bp):
ATGGCTCTTATGAGCTTCCCATTA
Found at i:129293983 original size:27 final size:28
Alignment explanation
Indices: 129293944--129294003 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 28
129293934 TCATACGAAC
129293944 TTATTAAGCATTAAATGCTTACTCTGTT
1 TTATTAAGCATTAAATGCTTACTCTGTT
129293972 TTATT-AGCATTAAATGCTTACTCTGTT
1 TTATTAAGCATTAAATGCTTACTCTGTT
129293999 TTATT
1 TTATT
129294004 TCTTCTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (28 bp):
TTATTAAGCATTAAATGCTTACTCTGTT
Found at i:129295955 original size:22 final size:22
Alignment explanation
Indices: 129295930--129295973 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
129295920 TAGTCATATA
129295930 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
129295952 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
129295974 TATTTAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:129296033 original size:16 final size:16
Alignment explanation
Indices: 129295997--129296033 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
129295987 AATTTTATTT
*
129295997 TAATAATAATTTTTAA
1 TAATAATAATTTTGAA
*
129296013 AAATAATAATTTTGAA
1 TAATAATAATTTTGAA
129296029 TAATA
1 TAATA
129296034 TTATTCACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATAATAATTTTGAA
Found at i:129298265 original size:32 final size:33
Alignment explanation
Indices: 129298227--129298298 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
129298217 AACTTTTATG
129298227 AAATATTTTA-A-AGAAATC-TACCAAACAACAGA
1 AAATATTTTACACAG-AATCAT-CCAAACAACAGA
* *
129298259 AAATATTTTACACAGATTCATCCAAACACCAGA
1 AAATATTTTACACAGAATCATCCAAACAACAGA
129298292 AAATATT
1 AAATATT
129298299 AGCTTTTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 10 0.29
33 22 0.63
34 3 0.09
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (33 bp):
AAATATTTTACACAGAATCATCCAAACAACAGA
Found at i:129298826 original size:89 final size:89
Alignment explanation
Indices: 129298675--129298852 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
129298665 TGCTTCCTAG
129298675 GGTTTAGCAATTATTGGGTCTTAGCTAGCTTCTTTAGTTTCCCATTATGGTGTTAGATGAACACA
1 GGTTTAGCAATTATTGGGTCTTAGCTAGCTTCTTTAGTTTCCCATTATGGTGTTAGATGAACACA
129298740 AAGCTTCTCTGGATTTCTTCTACC
66 AAGCTTCTCTGGATTTCTTCTACC
129298764 GGTTTAGCAATTATTGGGTCTTAGCTAGCTTCTTTAGTTTCCCATTATGGTGTTAGATGAACACA
1 GGTTTAGCAATTATTGGGTCTTAGCTAGCTTCTTTAGTTTCCCATTATGGTGTTAGATGAACACA
129298829 AAGCTTCTCTGGATTTCTTCTACC
66 AAGCTTCTCTGGATTTCTTCTACC
129298853 TTCCATTTTG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (89 bp):
GGTTTAGCAATTATTGGGTCTTAGCTAGCTTCTTTAGTTTCCCATTATGGTGTTAGATGAACACA
AAGCTTCTCTGGATTTCTTCTACC
Found at i:129300345 original size:44 final size:44
Alignment explanation
Indices: 129300297--129300770 Score: 154
Period size: 44 Copynumber: 10.2 Consensus size: 44
129300287 CTCTGAACTA
* * *
129300297 GCAGTGGAGCAAATTGAAGTTGTCGATCTTATCTCCTTGAAGTT
1 GCAGTGGAGCAGATTGAAGATGCCGATCTTATCTCCTTGAAGTT
* * * * * *
129300341 GCAGTGGAGTAGATCGAAGATGGCGAATATTTTTTCC-TGAAGTT
1 GCAGTGGAGCAGATTGAAGATGCCG-ATCTTATCTCCTTGAAGTT
*** * *
129300385 GCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTGAAGTT
1 GCAGTGGAGCAGATTGAAGATGCCGATCTTATCTCCTTGAAGTT
* * *** * * *
129300429 GTAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGATGTT
1 GCAGTGGAGCAGATTGAAGATGCCG-ATCTTATCTCCTTGAAGTT
* * *
129300474 GCAGTGGAACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCC-TGAAGTT
1 GCAGTGGAGCAGATT---G-----AA-GATGCCG-ATCTTATC-TCCTTGAAGTT
*** *
129300528 GCAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCTTGAAGTT
1 GCAGTGGAGCAGATTGAAGATGCCGA-TCTTATCTCCTTGAAGTT
* * ** * * * * *
129300572 GCAGCGGAGTAGCCTGAAGACAG-TGAATCTTATTTCCCTGATGTT
1 GCAGTGGAGCAGATTGAAGA-TGCCG-ATCTTATCTCCTTGAAGTT
** * *
129300617 GCAGTGGAATAGGTTAAAGCTACAAGTTATGGCGAATCTTATCTTCC-TGAAGTT
1 GCAGTGGAGCAGATT---G----AAG--ATGCCG-ATCTTATC-TCCTTGAAGTT
* * * *
129300671 GCAGTGAAGCAGATTGAAGCA-ACC-AGCCTTATCTCCCTGAAGTT
1 GCAGTGGAGCAGATTGAAG-ATGCCGA-TCTTATCTCCTTGAAGTT
* * * * *
129300715 GCAGCGGAGCAGACTGAAGATAG-CGAATCTCATTTCCCTGAAGTT
1 GCAGTGGAGCAGATTGAAGAT-GCCG-ATCTTATCTCCTTGAAGTT
129300760 GCAGTGGAGCA
1 GCAGTGGAGCA
129300771 AATTAAAGCT
Statistics
Matches: 315, Mismatches: 80, Indels: 69
0.68 0.17 0.15
Matches are distributed among these distances:
43 16 0.05
44 130 0.41
45 87 0.28
46 5 0.02
47 3 0.01
48 2 0.01
51 2 0.01
52 3 0.01
53 3 0.01
54 58 0.18
55 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
GCAGTGGAGCAGATTGAAGATGCCGATCTTATCTCCTTGAAGTT
Found at i:129300401 original size:88 final size:89
Alignment explanation
Indices: 129300324--129300964 Score: 238
Period size: 89 Copynumber: 6.9 Consensus size: 89
129300314 AGTTGTCGAT
* * *** *
129300324 CTTATCTCCTTGAAGTTGCAGTGGAGTAGATCGAAGATGGCGAATATT-TTTTCCTGAAGTTGCA
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAGACAACGAATATTATTTCCCTGAAGTTGCA
129300388 GTGGAGCAGATTGAAGCCACCAAC
66 GTGGAGCAGATTGAAGCCACCAAC
* * * *
129300412 CTTATCTCCTTGAAGTTGTAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGATGTTGCA
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAGACAACGAATATTATTTCCCTGAAGTTGCA
* * * *
129300477 GTGGAACAGATTAAAGCTACAAATTATGGCGAAT
66 GTGGAGCAGATTGAAGC--C-----A---CCAAC
* * * * *** * *
129300511 CTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCCTTATCTCCTTGAAGTTGC
1 CTTATC-TCCTTGAAGTTGCAGCGGAGCAGATCGAAGACAACGAATATTATTTCCCTGAAGTTGC
* * ** * ** *
129300574 AGCGGAGTAGCCTGAAGACAGTGAAT
65 AGTGGAGCAGATTGAAGCCA-CCAAC
* * * * ** * ** *
129300600 CTTATTTCCCTGATGTTGCAGTGGAATAGGTTAAAGCTACAAGTTATGGCGAATCTTATCTT-CC
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAG--AC-A---A---CGAATATTAT-TTCCC
* * *
129300664 TGAAGTTGCAGTGAAGCAGATTGAAGCAACCAGC
56 TGAAGTTGCAGTGGAGCAGATTGAAGCCACCAAC
* * * * *
129300698 CTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAATCTCATTTCCCTGAAGTTGC
1 CTTATCTCCTTGAAGTTGCAGCGGAGCAGATC-GAAGACAACGAATATTATTTCCCTGAAGTTGC
* * * **
129300762 AGTGGAGCAAATTAAAGCTAAAAGTTAC
65 AGTGGAGCAGATTGAAGCCACCA---AC
* * * * * * * * *
129300790 GAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGA-CTAAAGATAGCGAATCTTATTTCTCTAAA
1 ----CTTATCTCCTTGAAGTTGCAG-CGGAGCAGATC-GAAGACAACGAATATTATTTCCCTGAA
* * * * *
129300854 GTTACAGTGAAGTAGA-AGAAGCCACCAGC
60 GTTGCAGTGGAGCAGATTGAAGCCACCAAC
* * ** * *
129300883 CTTATCT-CTCTGAAGTTGCAGCGGAGTAGA-CTGAAGATAGTGAATCTCATTTCCCTGAAGTTG
1 CTTATCTCCT-TGAAGTTGCAGCGGAGCAGATC-GAAGACAACGAATATTATTTCCCTGAAGTTG
*
129300946 CAGTGGAGTAGATTGAAGC
64 CAGTGGAGCAGATTGAAGC
129300965 TAAAAGTTGC
Statistics
Matches: 417, Mismatches: 100, Indels: 71
0.71 0.17 0.12
Matches are distributed among these distances:
88 91 0.22
89 119 0.29
91 2 0.00
92 2 0.00
93 1 0.00
95 1 0.00
96 30 0.07
97 45 0.11
98 59 0.14
99 63 0.15
100 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (89 bp):
CTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAGACAACGAATATTATTTCCCTGAAGTTGCA
GTGGAGCAGATTGAAGCCACCAAC
Found at i:129300634 original size:143 final size:143
Alignment explanation
Indices: 129300360--129300824 Score: 670
Period size: 143 Copynumber: 3.3 Consensus size: 143
129300350 TAGATCGAAG
* * *
129300360 ATGGCGAATATT-TTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCTTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
* * *
129300424 AAGTTGTAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGATGTTGCAGTGGAACAGATT
66 AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGATGTTGCAGTGGAACAGATT
129300489 AAAGCTACAAATT
131 AAAGCTACAAATT
129300502 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
* * * * *
129300567 AAGTTGCAGCGGAGTAGCCTGAAGACAGTGAATCTTATTTCCCTGATGTTGCAGTGGAATAGGTT
66 AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGATGTTGCAGTGGAACAGATT
*
129300632 AAAGCTACAAGTT
131 AAAGCTACAAATT
* * *
129300645 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCAACCAGCCTTATCTCCCTG
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
* * * * *
129300710 AAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATT
66 AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGATGTTGCAGTGGAACAGATT
129300775 AAAGCTA-AAAGTT
131 AAAGCTACAAA-TT
* * *
129300788 A---CGAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGA
1 ATGGCGAATCTTATCTTCCTGAAGTTGCAGT-GGAGCAGA
129300825 CTAAAGATAG
Statistics
Matches: 290, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
140 24 0.08
141 7 0.02
142 13 0.04
143 246 0.85
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (143 bp):
ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGATGTTGCAGTGGAACAGATT
AAAGCTACAAATT
Found at i:129300762 original size:45 final size:45
Alignment explanation
Indices: 129300648--129301060 Score: 269
Period size: 45 Copynumber: 8.9 Consensus size: 45
129300638 ACAAGTTATG
* *
129300648 GCGAATCTTATCTT-CCTGAAGTTGCAGTGAAGCAGATTGAAGCA-A
1 GCGAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATA
* ** * *
129300693 -CCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * *
129300737 GCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAAA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG---ATA
* * * *
129300785 GTTACGAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGACTAAAGATA
1 G---CGAATCTTATTTCCCTGAAGTTGCAGT-GGAGCAGACTGAAGATA
* * * * * * **
129300834 GCGAATCTTATTTCTCTAAAGTTACAGTGAAGTAGA-AGAAGCCA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* ** * * * *
129300878 -CCAGCCTTATCTCTCTGAAGTTGCAGCGGAGTAGACTGAAGATA
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * *
129300922 GTGAATCTCATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAAAAGTT
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-----A-TA
* * * *
129300973 GCGAGTCTTATCTCCCTAAAGTTGCAGTAGGAGCAGACTAAAGATA
1 GCGAATCTTATTTCCCTGAAGTTGCAGT-GGAGCAGACTGAAGATA
* *
129301019 GCGAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAG
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
129301061 TTACAAGTTA
Statistics
Matches: 277, Mismatches: 72, Indels: 38
0.72 0.19 0.10
Matches are distributed among these distances:
43 29 0.10
44 42 0.15
45 82 0.30
46 46 0.17
47 1 0.00
48 3 0.01
49 3 0.01
50 1 0.00
51 47 0.17
52 23 0.08
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
GCGAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
Found at i:129300898 original size:185 final size:185
Alignment explanation
Indices: 129300648--129301060 Score: 648
Period size: 185 Copynumber: 2.2 Consensus size: 185
129300638 ACAAGTTATG
* *
129300648 GCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCAACCAGCCTTATCTCCCTGAAG
1 GCGAATCTTAT-TTCCTGAAGTTACAGTGAAGCAGATAGAAGCAACCAGCCTTATCTCCCTGAAG
129300713 TTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAA
65 TTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAA
* *
129300778 GCTAAAAGTTACGAGTCTTATCTCCCTGAAGTTGTAGTAGGAGCAGACTAAAGATA
130 GCTAAAAGTTACGAGTCTTATCTCCCTAAAGTTGCAGTAGGAGCAGACTAAAGATA
* * * *
129300834 GCGAATCTTATTTCTCTAAAGTTACAGTGAAGTAGA-AGAAGCCACCAGCCTTATCTCTCTGAAG
1 GCGAATCTTATTTC-CTGAAGTTACAGTGAAGCAGATAGAAGCAACCAGCCTTATCTCCCTGAAG
* * * * *
129300898 TTGCAGCGGAGTAGACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGCAGTGGAGTAGATTGAA
65 TTGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAA
*
129300963 GCTAAAAGTTGCGAGTCTTATCTCCCTAAAGTTGCAGTAGGAGCAGACTAAAGATA
130 GCTAAAAGTTACGAGTCTTATCTCCCTAAAGTTGCAGTAGGAGCAGACTAAAGATA
* *
129301019 GCGAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAG
1 GCGAATCTTATTT-CCTGAAGTTACAGTGAAGCAGATAGAAG
129301061 TTACAAGTTA
Statistics
Matches: 206, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
185 172 0.83
186 34 0.17
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (185 bp):
GCGAATCTTATTTCCTGAAGTTACAGTGAAGCAGATAGAAGCAACCAGCCTTATCTCCCTGAAGT
TGCAGCGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAAATTAAAG
CTAAAAGTTACGAGTCTTATCTCCCTAAAGTTGCAGTAGGAGCAGACTAAAGATA
Found at i:129301048 original size:97 final size:97
Alignment explanation
Indices: 129300883--129301098 Score: 283
Period size: 97 Copynumber: 2.2 Consensus size: 97
129300873 AGCCACCAGC
* * * * * *
129300883 CTTATCTCTCTGAAGTTGCAG-CGGAGTAGACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGC
1 CTTATCTCTCTAAAGTTGCAGTAGGAGCAGACTAAAGATAGCGAATCTCATTTCCCTGAAGTTAC
* *
129300947 AGTGGAGTAGATTGAAGCTAAAAGTTGC-GAGT
66 AGTGGAGCAGATTGAAGCTAAAAGTTACGGA-T
* *
129300979 CTTATCTCCCTAAAGTTGCAGTAGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTAC
1 CTTATCTCTCTAAAGTTGCAGTAGGAGCAGACTAAAGATAGCGAATCTCATTTCCCTGAAGTTAC
* *
129301044 AGTGGAGCAGATTGAAGTTACAAGTTACGGAT
66 AGTGGAGCAGATTGAAGCTAAAAGTTACGGAT
* *
129301076 CTTATATCTCTAAAGTAGCAGTA
1 CTTATCTCTCTAAAGTTGCAGTA
129301099 AAGCAGGTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
96 19 0.18
97 82 0.80
98 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (97 bp):
CTTATCTCTCTAAAGTTGCAGTAGGAGCAGACTAAAGATAGCGAATCTCATTTCCCTGAAGTTAC
AGTGGAGCAGATTGAAGCTAAAAGTTACGGAT
Found at i:129302700 original size:2 final size:2
Alignment explanation
Indices: 129302656--129302690 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
129302646 TTTATCTATT
129302656 TA TA TA TA 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 TA TA TA TA T
129302691 CTTTTATATA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:129302846 original size:28 final size:28
Alignment explanation
Indices: 129302782--129302846 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
129302772 CATAATATTC
*
129302782 ATTTATTTTTTTAGTATTTGGTTCTTTT
1 ATTTATTTTTTTAGTATTTGGTTCTTTA
129302810 ATTTATTTTTTTAGTATTTGG-T-TTTA
1 ATTTATTTTTTTAGTATTTGGTTCTTTA
129302836 ACTTTATTTTT
1 A-TTTATTTTT
129302847 CTTTAGCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 4 0.11
27 10 0.29
28 21 0.60
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (28 bp):
ATTTATTTTTTTAGTATTTGGTTCTTTA
Found at i:129302990 original size:14 final size:14
Alignment explanation
Indices: 129302971--129303000 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
129302961 TACAACAAAT
129302971 TTGTGTTACAATAA
1 TTGTGTTACAATAA
129302985 TTGTGTTACAATAA
1 TTGTGTTACAATAA
129302999 TT
1 TT
129303001 TTCACTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (14 bp):
TTGTGTTACAATAA
Found at i:129304043 original size:14 final size:14
Alignment explanation
Indices: 129304024--129304062 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
129304014 CCAGAAAAGT
129304024 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
129304038 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
129304052 AAGTCATTTTC
1 AAATCATTTTC
129304063 AGTGAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:129304604 original size:51 final size:50
Alignment explanation
Indices: 129304528--129304642 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 50
129304518 CTGTTAAATG
* *
129304528 TAATGGCTGCTTTTGAAAATGAATCAATATTTAATTAATTAAACTTTTAAT
1 TAATGGCTGC-TTTGAAAAAGAATCAATATTTAATTAATCAAACTTTTAAT
*
129304579 TAATGGCTGCTTTGAAAAAAGAATCAATATTTAATTAATCAAGCTTTTAAT
1 TAATGGCTGCTTTG-AAAAAGAATCAATATTTAATTAATCAAACTTTTAAT
129304630 TAATGGCTGCTTT
1 TAATGGCTGCTTT
129304643 TTCATTTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 4 0.07
51 56 0.93
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (50 bp):
TAATGGCTGCTTTGAAAAAGAATCAATATTTAATTAATCAAACTTTTAAT
Found at i:129305047 original size:2 final size:2
Alignment explanation
Indices: 129305040--129305069 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
129305030 ATAAGGCCTC
129305040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
129305070 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129307382 original size:25 final size:25
Alignment explanation
Indices: 129307324--129307418 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
129307314 CACACGAGTA
* *
129307324 CATA-AACGGGAAGCTCTCTCTCAAGC
1 CATATAACGGGAAGCTC-ATCT-GAGC
*
129307350 CATATAACGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATCTGAGC
* *
129307375 CATGTAACGGGAAGCTTATCTGAGC
1 CATATAACGGGAAGCTCATCTGAGC
**
129307400 TGTATAACGGGAAGCTCAT
1 CATATAACGGGAAGCTCAT
129307419 AAGAAACATA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 40 0.69
26 6 0.10
27 12 0.21
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATCTGAGC
Found at i:129308839 original size:3 final size:3
Alignment explanation
Indices: 129308831--129308888 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
129308821 TTACTAATTA
* * * *
129308831 AAT AAT AAT GAAA AAT AAAT AAT AAC AAT AAT AAT AAT GAG AAT AAT
1 AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
129308878 AAT AAT AAT AA
1 AAT AAT AAT AA
129308889 CAAAATGTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 40 0.89
4 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:129308968 original size:4 final size:4
Alignment explanation
Indices: 129308943--129308988 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
129308933 ATACAAAAAG
* * * *
129308943 AATA AATG AATC AATG AATA AATA AATA CATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
129308989 AACTTTCATG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:129309853 original size:15 final size:14
Alignment explanation
Indices: 129309829--129309858 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
129309819 TGAACTTTAA
129309829 TATTTTATTTTATT
1 TATTTTATTTTATT
129309843 TATTATTATTTTATT
1 TATT-TTATTTTATT
129309858 T
1 T
129309859 TGGCCCGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:129314132 original size:25 final size:25
Alignment explanation
Indices: 129314069--129314132 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
129314059 TTCCCCAACG
*
129314069 TCTGTTGCATCGT-CGTTAGCAACCC
1 TCTGCTGCATC-TCCGTTAGCAACCC
* *
129314094 TCTGCTACACCTCCGTTAGCAACCC
1 TCTGCTGCATCTCCGTTAGCAACCC
129314119 TCTGCTGCATCTCC
1 TCTGCTGCATCTCC
129314133 ATCGGCAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.16, C:0.39, G:0.16, T:0.30
Consensus pattern (25 bp):
TCTGCTGCATCTCCGTTAGCAACCC
Found at i:129315973 original size:26 final size:26
Alignment explanation
Indices: 129315931--129316029 Score: 98
Period size: 26 Copynumber: 3.9 Consensus size: 26
129315921 ACACACCACA
* *
129315931 GCTCTT-ATGAACGTCCCGATATAAG
1 GCTCTTCATGAGCTTCCCGATATAAG
129315956 GCTCTTCATGAGCTTCCCGAT-TAAAG
1 GCTCTTCATGAGCTTCCCGATAT-AAG
** * *
129315982 GCTCTTTGTGAGCTTCCTGATATTA-
1 GCTCTTCATGAGCTTCCCGATATAAG
*
129316007 GCTCTCCA-GAGCTTCCCGATATA
1 GCTCTTCATGAGCTTCCCGATATA
129316030 GCTTGCTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
24 13 0.22
25 12 0.20
26 34 0.57
27 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATATAAG
Found at i:129316547 original size:15 final size:15
Alignment explanation
Indices: 129316527--129316556 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
129316517 AATGTAAATG
129316527 AATGGTAAGTTTATT
1 AATGGTAAGTTTATT
129316542 AATGGTAAGTTTATT
1 AATGGTAAGTTTATT
129316557 TCCTGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
AATGGTAAGTTTATT
Found at i:129319126 original size:56 final size:58
Alignment explanation
Indices: 129319022--129319139 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 58
129319012 ATAGAATGAA
* *
129319022 GTAAACAATTTGTATTACTCTTCTTCTTCCAATGTATATACATTAAACTTCCTAGAGTT
1 GTAAACAATTTGTATTAC-CTTCTTCTTCCAACGTATATACATTAAACTTCCTAGAATT
* *
129319081 GTAAACAATTTGTATTA-C-TCTTCTTCCACCGTATATACATTAAACTTTCTAGAATT
1 GTAAACAATTTGTATTACCTTCTTCTTCCAACGTATATACATTAAACTTCCTAGAATT
129319137 GTA
1 GTA
129319140 CATATATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 37 0.67
57 1 0.02
59 17 0.31
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (58 bp):
GTAAACAATTTGTATTACCTTCTTCTTCCAACGTATATACATTAAACTTCCTAGAATT
Found at i:129324052 original size:25 final size:25
Alignment explanation
Indices: 129324018--129324085 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
129324008 CTCTCAAGCT
*
129324018 ATATAACGGGAAGCTCATGTGAGCC
1 ATATAACGGGAAGCTCATCTGAGCC
* * *
129324043 ATGTAACGGGAAGCTTATCTGGGCC
1 ATATAACGGGAAGCTCATCTGAGCC
* *
129324068 GTATAACAGGAAGCTCAT
1 ATATAACGGGAAGCTCAT
129324086 AAGAACCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATCTGAGCC
Found at i:129324190 original size:25 final size:25
Alignment explanation
Indices: 129324130--129324197 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
129324120 AACATGTAGC
129324130 TCCGAAGAGCCAT-TAATCGGGAAGCT
1 TCCG-AGAGCCATAT-ATCGGGAAGCT
* *
129324156 TCAGATAGCCATATATCGGGAAG-T
1 TCCGAGAGCCATATATCGGGAAGCT
129324180 TCCGAGGAGCCATATATC
1 TCCGA-GAGCCATATATC
129324198 AGAACGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.14
25 27 0.75
26 4 0.11
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (25 bp):
TCCGAGAGCCATATATCGGGAAGCT
Found at i:129332835 original size:19 final size:19
Alignment explanation
Indices: 129332794--129332834 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
129332784 AAACTTTCTA
* *
129332794 TTTTGTTGACATGTTGTTG
1 TTTTGTTGACATCTCGTTG
129332813 TTTTGTTGACATCTCGTT-
1 TTTTGTTGACATCTCGTTG
129332831 TTTT
1 TTTT
129332835 TTTTTTGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (19 bp):
TTTTGTTGACATCTCGTTG
Found at i:129335317 original size:4 final size:4
Alignment explanation
Indices: 129335308--129335338 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
129335298 TTTAAACTGT
129335308 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
129335339 TGTTTATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:129335772 original size:2 final size:2
Alignment explanation
Indices: 129335765--129335795 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
129335755 TTCTAAAATT
129335765 TA TA 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 TA TA T
129335796 CATCTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.