Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 23 of 120
Found at i:6188887 original size:20 final size:21
Alignment explanation
Indices: 6188864--6188906 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6188854 CCTAAACTCC
*
6188864 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6188884 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6188905 AA
1 AA
6188907 TACTCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6189108 original size:20 final size:20
Alignment explanation
Indices: 6189078--6189171 Score: 73
Period size: 20 Copynumber: 4.5 Consensus size: 20
6189068 CTTAAAGCTA
6189078 AAACCCT-AAACATAAACAT
1 AAACCCTAAAACATAAACAT
*
6189097 AAACCCTAAAACCTTAAACCTTAAT
1 AAACCCTAAAA-CATAAA-C---AT
** * *
6189122 GAAAAACTAAACCATAAGCAT
1 -AAACCCTAAAACATAAACAT
*
6189143 AAACCCTAAAACATAAGCAT
1 AAACCCTAAAACATAAACAT
6189163 AAACCCTAA
1 AAACCCTAA
6189172 TTATATCCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
19 7 0.12
20 29 0.49
21 7 0.12
22 1 0.02
24 1 0.02
25 6 0.10
26 8 0.14
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (20 bp):
AAACCCTAAAACATAAACAT
Found at i:6189186 original size:684 final size:666
Alignment explanation
Indices: 6188470--6189776 Score: 2104
Period size: 684 Copynumber: 1.9 Consensus size: 666
6188460 AAAACTGAAC
*
6188470 CATAAGCATAAACCCTAATTATATCGTAAACCATAACCTCAAACACTAAACACTAAACCTTAAAT
1 CATAAGCATAAACCCTAATTATATCCTAAACCATAACCTCAAACACTAAACACTAAACCTTAAAT
6188535 TATAAAC-CTAAACCCTAAACCTTAAAACCATAAAAATAAATCTTCAGCCCTACAATTAAACATA
66 TATAAACTCTAAACCCTAAACCTTAAAACCATAAAAA-AAATCTTCAGCCCTACAATTAAACATA
6188599 AACCCTAAAACTATAATCCTAAA-CCTTAAACCCTAAATATAAGTAACAAATCAAGAATTATAAA
130 AACCCTAAAACTATAATCCTAAACCCTT-AACCCTAAATATAAGTAACAAATCAAGAATTATAAA
*
6188663 CCCTAAATATAGAATCACAAAAACTAAACCTAAACATTAAACCCTATATTTAAATCATAAACCAT
194 CCCTAAATATAGAATCACAAAAACTAAACCTAAACATTAAACACTATATTTAAATCATAAACCAT
*
6188728 AAACCCTAAACTCTAATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAAC
259 AAACCCTAAAATCTAATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAAC
6188793 CCTAAAACCAAAATCACAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTA
324 CCTAAAACCAAAATCACAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTA
*
6188858 AACTCCAACCATCAACCCTAAATATAAACCATAAATCCTAAATTATAAATACTCAAACTTAAACC
389 AACTCCAACCAT-----C---A-AT--ACCATAAATCCTAAATTATAAATACTAAAACTTAAACC
* * *
6188923 CTAAAACTAAAATCAGAAACAAAAAACCCAACAATTAAATTCTACCTAACTTTAAACCTTAAAAC
443 CTAAAACTAAAATCAAAAACAAAAAACCCAACAATTAAATTCTA---AACCTTAAACCCT-AAA-
*
6188988 CTAAAA-TAAAATTACAAACCCTAAACATAAAACCTAAACTCTAAATCTAAACTTTAAA-CC-T-
503 CTAAAACT---A-T--AAACCCTAAACATAAAACCTAAACACTAAATCTAAACTTTAAACCCATA
*
6189049 TAAACTATAAATTATAAACCTTAAAGCTAAAACCCTAAACATAAACATAAACCCTAAAACCTTAA
562 TAAACTATAAATTATAAACCTTAAAACTAAAACCCTAAACATAAACATAAACCCTAAAACCTTAA
6189114 ACCTTAATGAAAAACTAAACCATAAGCATAAACCCTAAAA
627 ACCTTAATGAAAAACTAAACCATAAGCATAAACCCTAAAA
*
6189154 CATAAGCATAAACCCTAATTATATCCTAAACCATAACCTTAAACACTAAACACTAAACCTTAAAT
1 CATAAGCATAAACCCTAATTATATCCTAAACCATAACCTCAAACACTAAACACTAAACCTTAAAT
*
6189219 TATAAACTCTAAACCCTAAACTTTAAAACCATAAAAAAAATCTTCAGCCCTACAATTAAACATAA
66 TATAAACTCTAAACCCTAAACCTTAAAACCATAAAAAAAATCTTCAGCCCTACAATTAAACATAA
* * * * *
6189284 ACCTTAAAACTATAATCTTAAACCCTTACCCCTAAATATAAGTAATAAATCTAGAATTATAAACC
131 ACCCTAAAACTATAATCCTAAACCCTTAACCCTAAATATAAGTAACAAATCAAGAATTATAAACC
* *
6189349 CTAAATATAGAATCACAAAAACTAAACCTAAACATTAAACATTATATTTAAATCATAAACGATAA
196 CTAAATATAGAATCACAAAAACTAAACCTAAACATTAAACACTATATTTAAATCATAAACCATAA
*
6189414 ACCCTAAAATCTAATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAATATTAAACCC
261 ACCCTAAAATCTAATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCC
*
6189479 TAAAACCAAAATCACAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAGA
326 TAAAACCAAAATCACAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAA
6189544 CTCCAACCATCAATACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAAT
391 CTCCAACCATCAATACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAAT
*
6189609 TAAAAACAAAAAACCCAACAATTAAATTCTAAACCTTAAACCCTAAACTAAAACTATAAACCCTA
456 CAAAAACAAAAAACCCAACAATTAAATTCTAAACCTTAAACCCTAAACTAAAACTATAAACCCTA
*
6189674 AACATAAAACCTAAACACTAAATCTAAACTTTAAACCCTAAATTATAAATTATAAATTATAAACC
521 AACATAAAACCTAAACACTAAATCTAAACTTTAAACCC---A-TATAAACTATAAATTATAAACC
* *
6189739 TTAAAATTAAAACCCTAAACATAAACTTAAACCCTAAA
582 TTAAAACTAAAACCCTAAACATAAACATAAACCCTAAA
6189777 CACAAATCAT
Statistics
Matches: 589, Mismatches: 24, Indels: 34
0.91 0.04 0.05
Matches are distributed among these distances:
663 42 0.07
664 2 0.00
665 1 0.00
666 1 0.00
668 6 0.01
669 5 0.01
670 65 0.11
673 79 0.13
675 2 0.00
676 1 0.00
679 1 0.00
684 352 0.60
685 32 0.05
ACGTcount: A:0.52, C:0.23, G:0.01, T:0.24
Consensus pattern (666 bp):
CATAAGCATAAACCCTAATTATATCCTAAACCATAACCTCAAACACTAAACACTAAACCTTAAAT
TATAAACTCTAAACCCTAAACCTTAAAACCATAAAAAAAATCTTCAGCCCTACAATTAAACATAA
ACCCTAAAACTATAATCCTAAACCCTTAACCCTAAATATAAGTAACAAATCAAGAATTATAAACC
CTAAATATAGAATCACAAAAACTAAACCTAAACATTAAACACTATATTTAAATCATAAACCATAA
ACCCTAAAATCTAATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCC
TAAAACCAAAATCACAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAA
CTCCAACCATCAATACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAAT
CAAAAACAAAAAACCCAACAATTAAATTCTAAACCTTAAACCCTAAACTAAAACTATAAACCCTA
AACATAAAACCTAAACACTAAATCTAAACTTTAAACCCATATAAACTATAAATTATAAACCTTAA
AACTAAAACCCTAAACATAAACATAAACCCTAAAACCTTAAACCTTAATGAAAAACTAAACCATA
AGCATAAACCCTAAAA
Found at i:6189214 original size:21 final size:20
Alignment explanation
Indices: 6189003--6189239 Score: 64
Period size: 20 Copynumber: 11.6 Consensus size: 20
6188993 ATAAAATTAC
*
6189003 AAACCCTAAACATAAA-ACCT
1 AAACCTTAAACATAAACA-CT
**
6189023 AAA-CTCTAAATC-TAAACTTT
1 AAACCT-TAAA-CATAAACACT
*
6189043 AAACCTTAAACTATAAATTA-T
1 AAACCTTAAAC-ATAAA-CACT
*
6189064 AAACCTTAAAGC-TAAAACCCT
1 AAACCTTAAA-CAT-AAACACT
* *
6189085 AAA-CATAAACATAAACCCT
1 AAACCTTAAACATAAACACT
*
6189104 AAAACCTTAAACCTTAATGAAAAACT
1 -AAACCTTAAA-C---AT-AAACACT
* * *
6189130 AAACCATAAGCATAAACCCT
1 AAACCTTAAACATAAACACT
* * * *
6189150 AAAACATAAGCATAAACCCT
1 AAACCTTAAACATAAACACT
* *
6189170 -AA--TTATATCCTAAAC-C-
1 AAACCTTA-AACATAAACACT
6189186 ATAACCTTAAACACTAAACACT
1 A-AACCTTAAACA-TAAACACT
* *
6189208 AAACCTTAAATTATAAACTCT
1 AAACCTTAAA-CATAAACACT
*
6189229 AAACCCTAAAC
1 AAACCTTAAAC
6189240 TTTAAAACCA
Statistics
Matches: 165, Mismatches: 25, Indels: 54
0.68 0.10 0.22
Matches are distributed among these distances:
17 3 0.02
18 9 0.05
19 14 0.08
20 61 0.37
21 58 0.35
22 4 0.02
24 1 0.01
25 10 0.06
26 5 0.03
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.23
Consensus pattern (20 bp):
AAACCTTAAACATAAACACT
Found at i:6189662 original size:20 final size:20
Alignment explanation
Indices: 6189639--6189715 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
6189629 ATTAAATTCT
6189639 AAACCTTAAACCCTAAACTA
1 AAACCTTAAACCCTAAACTA
6189659 AAA-CTATAAACCCTAAACATA
1 AAACCT-TAAACCCTAAAC-TA
*
6189680 AAACC-TAAACACTAAATCT-
1 AAACCTTAAACCCTAAA-CTA
*
6189699 AAACTTTAAACCCTAAA
1 AAACCTTAAACCCTAAA
6189716 TTATAAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
19 6 0.12
20 36 0.73
21 6 0.12
22 1 0.02
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACCTTAAACCCTAAACTA
Found at i:6189683 original size:14 final size:14
Alignment explanation
Indices: 6189639--6189695 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
6189629 ATTAAATTCT
*
6189639 AAACCTTAAACCCT-
1 AAACC-TAAACACTA
6189653 AAA-CTAAA-ACTA
1 AAACCTAAACACTA
6189665 TAAACCCTAAACA-TA
1 -AAA-CCTAAACACTA
6189680 AAACCTAAACACTA
1 AAACCTAAACACTA
6189694 AA
1 AA
6189696 TCTAAACTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
11 2 0.06
12 4 0.11
13 12 0.33
14 10 0.28
15 7 0.19
16 1 0.03
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCTAAACACTA
Found at i:6189716 original size:20 final size:21
Alignment explanation
Indices: 6189631--6189716 Score: 83
Period size: 20 Copynumber: 4.2 Consensus size: 21
6189621 ACCCAACAAT
*
6189631 TAAATTCT-AAACCTTAAACCC
1 TAAA-TCTAAAACTTTAAACCC
*
6189652 TAAA-CTAAAACTATAAACCC
1 TAAATCTAAAACTTTAAACCC
* *
6189672 TAAA-CATAAAAC-CTAAACAC
1 TAAATC-TAAAACTTTAAACCC
6189692 TAAATCT-AAACTTTAAACCC
1 TAAATCTAAAACTTTAAACCC
6189712 TAAAT
1 TAAAT
6189717 TATAAATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
19 6 0.11
20 38 0.69
21 11 0.20
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATCTAAAACTTTAAACCC
Found at i:6189722 original size:7 final size:7
Alignment explanation
Indices: 6189712--6189736 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6189702 CTTTAAACCC
6189712 TAAATTA
1 TAAATTA
6189719 TAAATTA
1 TAAATTA
6189726 TAAATTA
1 TAAATTA
6189733 TAAA
1 TAAA
6189737 CCTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:6189722 original size:14 final size:14
Alignment explanation
Indices: 6189663--6189757 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 14
6189653 AAACTAAAAC
6189663 TATAAACCCTAAA-
1 TATAAACCCTAAAT
* *
6189676 CATAAAACCTAAA-
1 TATAAACCCTAAAT
* *
6189689 CACTAAA-TCTAAACT
1 TA-TAAACCCTAAA-T
6189704 T-TAAACCCTAAAT
1 TATAAACCCTAAAT
***
6189717 TATAAATTATAAAT
1 TATAAACCCTAAAT
*
6189731 TATAAACCTTAAAAT
1 TATAAACCCT-AAAT
6189746 TA-AAACCCTAAA
1 TATAAACCCTAAA
6189758 CATAAACTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
13 27 0.42
14 31 0.48
15 6 0.09
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (14 bp):
TATAAACCCTAAAT
Found at i:6189763 original size:20 final size:20
Alignment explanation
Indices: 6189646--6189778 Score: 78
Period size: 20 Copynumber: 6.6 Consensus size: 20
6189636 TCTAAACCTT
*
6189646 AAACCCTAAAC-TAAAACTA
1 AAACCCTAAACATAAAATTA
*
6189665 TAAACCCTAAACATAAAACCT-
1 -AAACCCTAAACATAAAA-TTA
* * *
6189686 AAACACTAAATC-TAAACTTT
1 AAACCCTAAA-CATAAAATTA
*
6189706 AAACCCTAAA-TTATAAATTA
1 AAACCCTAAACATA-AAATTA
*** *
6189726 TAAATTATAAACCTTAAAATTA
1 -AAACCCTAAA-CATAAAATTA
*
6189748 AAACCCTAAACATAAACTT-
1 AAACCCTAAACATAAAATTA
6189767 AAACCCTAAACA
1 AAACCCTAAACA
6189779 CAAATCATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
19 15 0.17
20 44 0.49
21 20 0.22
22 8 0.09
23 3 0.03
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (20 bp):
AAACCCTAAACATAAAATTA
Found at i:6189996 original size:20 final size:20
Alignment explanation
Indices: 6189967--6190046 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
6189957 CACTAAATGA
*
6189967 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
6189987 TAAACAATAAACCCTAAA-T
1 TAAACAATAAACCCTAAACT
* * *
6190006 ATAAACCATAAATCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
* *
6190028 TAAACACTAAACCTTAAAC
1 TAAACAATAAACCCTAAAC
6190047 CCTAAACCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 34 0.69
21 14 0.29
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6190055 original size:7 final size:7
Alignment explanation
Indices: 6189974--6190058 Score: 66
Period size: 7 Copynumber: 12.4 Consensus size: 7
6189964 TGATAAACTA
6189974 TAAACCC
1 TAAACCC
*
6189981 TAAA-CT
1 TAAACCC
**
6189987 TAAACAA
1 TAAACCC
6189994 TAAACCC
1 TAAACCC
**
6190001 TAAA-TA
1 TAAACCC
*
6190007 TAAACCA
1 TAAACCC
*
6190014 TAAATCC
1 TAAACCC
*
6190021 TAAATCC
1 TAAACCC
*
6190028 TAAACAC
1 TAAACCC
*
6190035 TAAACCT
1 TAAACCC
6190042 TAAACCC
1 TAAACCC
6190049 TAAACCC
1 TAAACCC
6190056 TAA
1 TAA
6190059 TCATAATAGT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
6 9 0.15
7 52 0.85
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:6190094 original size:21 final size:19
Alignment explanation
Indices: 6190078--6190129 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
6190068 TAAACTATAC
6190078 ACATAAACCCTAAAACTAGA
1 ACATAAACCCTAAAACTA-A
* *
6190098 ATTAAAAACCCTAAAACCTAA
1 A-CATAAACCCTAAAA-CTAA
6190119 ACATAAACCCT
1 ACATAAACCCT
6190130 CATTATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (19 bp):
ACATAAACCCTAAAACTAA
Found at i:6190128 original size:20 final size:20
Alignment explanation
Indices: 6189967--6190129 Score: 66
Period size: 20 Copynumber: 7.7 Consensus size: 20
6189957 CACTAAATGA
*
6189967 TAAACTATAAACCCT-AAACT
1 TAAAC-ATAAACCCTAAAACC
6189987 TAAACAATAAACCCTAAATA--
1 TAAAC-ATAAACCCTAAA-ACC
* *
6190007 TAAACCATAAATCCTAAATCC
1 TAAA-CATAAACCCTAAAACC
* *
6190028 TAAACACTAAACCTTAAACCC
1 TAAACA-TAAACCCTAAAACC
* * * *
6190049 TAAACCCT-AATCATAATAGTAAAC
1 TAAA-CATAAACCCT-A-A--AACC
6190073 TATACACATAAACCCTAAAA-C
1 TA-A-ACATAAACCCTAAAACC
* *
6190094 TAGAATTAAAAACCCTAAAACC
1 TA-AA-CATAAACCCTAAAACC
6190116 TAAACATAAACCCT
1 TAAACATAAACCCT
6190130 CATTATATCA
Statistics
Matches: 108, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
20 44 0.41
21 42 0.39
22 8 0.07
24 5 0.05
25 4 0.04
26 5 0.05
ACGTcount: A:0.52, C:0.26, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAACATAAACCCTAAAACC
Found at i:6190167 original size:14 final size:13
Alignment explanation
Indices: 6190138--6190172 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
6190128 CTCATTATAT
*
6190138 CATAAACCATAAC
1 CATAAACCAAAAC
6190151 CATAAACACAAAAC
1 CATAAAC-CAAAAC
6190165 CATAAACC
1 CATAAACC
6190173 CTTAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.31, G:0.00, T:0.11
Consensus pattern (13 bp):
CATAAACCAAAAC
Found at i:6190263 original size:13 final size:13
Alignment explanation
Indices: 6190245--6190270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6190235 ACTAAGCATT
6190245 AAACCCTAAACAC
1 AAACCCTAAACAC
6190258 AAACCCTAAACAC
1 AAACCCTAAACAC
6190271 TATAATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.38, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACCCTAAACAC
Found at i:6190291 original size:40 final size:40
Alignment explanation
Indices: 6190244--6190348 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
6190234 CACTAAGCAT
* *
6190244 TAAACCCTAAACACAAACCCTAAACACTATAATTATATCA
1 TAAACCCTAAATATAAACCCTAAACACTATAATTATATCA
* * *
6190284 TAGACCCTAAATATAAACCTTTAACACTATAATTATATCA
1 TAAACCCTAAATATAAACCCTAAACACTATAATTATATCA
* *
6190324 TAAACCATAAATATAATCCCTAAAC
1 TAAACCCTAAATATAAACCCTAAAC
6190349 CCTAATAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.27
Consensus pattern (40 bp):
TAAACCCTAAATATAAACCCTAAACACTATAATTATATCA
Found at i:6190349 original size:20 final size:20
Alignment explanation
Indices: 6190324--6190403 Score: 76
Period size: 20 Copynumber: 4.1 Consensus size: 20
6190314 AATTATATCA
* *
6190324 TAAACCATAAATATAATCCC
1 TAAACCATAAACATAAACCC
* *
6190344 TAAACCCTAATA-A-AAA-AC
1 TAAACCATAA-ACATAAACCC
*
6190362 TAAACCATAAACATAGACCC
1 TAAACCATAAACATAAACCC
*
6190382 TAAAACATAAACATAAACCC
1 TAAACCATAAACATAAACCC
6190402 TA
1 TA
6190404 GTTATATCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.02
18 11 0.23
19 4 0.08
20 31 0.65
21 1 0.02
ACGTcount: A:0.55, C:0.25, G:0.01, T:0.19
Consensus pattern (20 bp):
TAAACCATAAACATAAACCC
Found at i:6190478 original size:21 final size:21
Alignment explanation
Indices: 6190433--6190472 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6190423 CCTCAAACAC
*
6190433 TAAACACTAAACCTTAAATTA
1 TAAACACTAAACCTTAAACTA
*
6190454 TAAACCCTAAACCTTAAAC
1 TAAACACTAAACCTTAAAC
6190473 CTTAAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACACTAAACCTTAAACTA
Found at i:6190635 original size:21 final size:20
Alignment explanation
Indices: 6190596--6190635 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6190586 AACCATCAAC
*
6190596 CCTAAATATAAACAGTAAAT
1 CCTAAATATAAACACTAAAT
*
6190616 CCTAAATTATAAATACTAAA
1 CCTAAA-TATAAACACTAAA
6190636 CCTTAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (20 bp):
CCTAAATATAAACACTAAAT
Found at i:6190698 original size:14 final size:14
Alignment explanation
Indices: 6190679--6190710 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6190669 ACCCTAGAAT
6190679 TAAATTCTAAACCC
1 TAAATTCTAAACCC
*
6190693 TAAATTCTAAACCT
1 TAAATTCTAAACCC
6190707 TAAA
1 TAAA
6190711 CTAAAACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATTCTAAACCC
Found at i:6190728 original size:21 final size:20
Alignment explanation
Indices: 6190704--6190770 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
6190694 AAATTCTAAA
6190704 CCTTAAACTAAAACTACAAAC
1 CCTTAAACTAAAACTA-AAAC
* *
6190725 CCTTAAATTATAAATTATAAA-
1 CCTTAAACTA-AAACTA-AAAC
*
6190746 TCTTAAACCTAAAACCTAAAAC
1 CCTTAAA-CTAAAA-CTAAAAC
6190768 CCT
1 CCT
6190771 AAATATAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
CCTTAAACTAAAACTAAAAC
Found at i:6190752 original size:42 final size:41
Alignment explanation
Indices: 6190693--6190779 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 41
6190683 TTCTAAACCC
*
6190693 TAAATTCTAAACCTTAAA-CTAAAA-CTACAAACCCTTAAATTA
1 TAAATTATAAACCTTAAACCTAAAACCTA-AAACCC-TAAA-TA
*
6190735 TAAATTATAAATCTTAAACCTAAAACCTAAAACCCTAAATA
1 TAAATTATAAACCTTAAACCTAAAACCTAAAACCCTAAATA
6190776 TAAA
1 TAAA
6190780 CCCAAAAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
41 6 0.15
42 20 0.49
43 12 0.29
44 3 0.07
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (41 bp):
TAAATTATAAACCTTAAACCTAAAACCTAAAACCCTAAATA
Found at i:6190910 original size:15 final size:14
Alignment explanation
Indices: 6190892--6190947 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
6190882 TACCAAATCT
6190892 TAAACCTTTAAACCC
1 TAAACC-TTAAACCC
6190907 TAAAACCTTAAACCC
1 T-AAACCTTAAACCC
* **
6190922 TAAA-ATTAAACAT
1 TAAACCTTAAACCC
*
6190935 TAAACCATAAACC
1 TAAACCTTAAACC
6190948 ATGCTCTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.30
14 8 0.24
15 10 0.30
16 5 0.15
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:6191011 original size:20 final size:20
Alignment explanation
Indices: 6190983--6191062 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
6190973 CCCTAAATGA
*
6190983 TAAACAATAAACCTTAAACT
1 TAAACAATAAACCCTAAACT
*
6191003 TAAATAATAAACCCTAAA-T
1 TAAACAATAAACCCTAAACT
* * *
6191022 ATAAACCATAAATCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
*
6191044 TAAA-AACTAAACCTTAAAC
1 TAAACAA-TAAACCCTAAAC
6191063 CCTAAACCCT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 33 0.70
21 13 0.28
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6191020 original size:7 final size:7
Alignment explanation
Indices: 6191010--6191074 Score: 51
Period size: 7 Copynumber: 9.4 Consensus size: 7
6191000 ACTTAAATAA
6191010 TAAACCC
1 TAAACCC
**
6191017 TAAA-TA
1 TAAACCC
*
6191023 TAAACCA
1 TAAACCC
*
6191030 TAAATCC
1 TAAACCC
*
6191037 TAAATCC
1 TAAACCC
**
6191044 TAAAAAC
1 TAAACCC
*
6191051 TAAACCT
1 TAAACCC
6191058 TAAACCC
1 TAAACCC
6191065 TAAACCC
1 TAAACCC
6191072 TAA
1 TAA
6191075 TCACAAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
6 4 0.09
7 42 0.91
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:6191020 original size:14 final size:14
Alignment explanation
Indices: 6191003--6191061 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
6190993 ACCTTAAACT
6191003 TAAATAATAAACCC
1 TAAATAATAAACCC
*
6191017 TAAAT-ATAAACCA
1 TAAATAATAAACCC
** *
6191030 TAAATCCTAAATCC
1 TAAATAATAAACCC
*
6191044 TAAA-AACTAAACCT
1 TAAATAA-TAAACCC
6191058 TAAA
1 TAAA
6191062 CCCTAAACCC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 12 0.34
14 23 0.66
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAATAATAAACCC
Found at i:6191220 original size:27 final size:27
Alignment explanation
Indices: 6191190--6191288 Score: 65
Period size: 27 Copynumber: 3.7 Consensus size: 27
6191180 ACCTAAGATA
* * *
6191190 AAACTAGAAATCTTAAACCCTAAACTC
1 AAACCAGAAACCTTAAACCATAAACTC
**
6191217 AAACCCTAAACCTTAAACCATAAACTC
1 AAACCAGAAACCTTAAACCATAAACTC
* ** * * *
6191244 TAACCTTAAACCCTAAA-CTTAAACCC
1 AAACCAGAAACCTTAAACCATAAACTC
**
6191270 TAAACCTTAAACCTTAAAC
1 -AAACCAGAAACCTTAAAC
6191289 ACCAACCTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
26 7 0.12
27 51 0.88
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.22
Consensus pattern (27 bp):
AAACCAGAAACCTTAAACCATAAACTC
Found at i:6191227 original size:7 final size:7
Alignment explanation
Indices: 6191203--6191319 Score: 91
Period size: 7 Copynumber: 17.1 Consensus size: 7
6191193 CTAGAAATCT
6191203 TAAACCC
1 TAAACCC
*
6191210 TAAACTC
1 TAAACCC
6191217 -AAACCC
1 TAAACCC
*
6191223 TAAACCT
1 TAAACCC
*
6191230 TAAACCA
1 TAAACCC
*
6191237 TAAACTC
1 TAAACCC
*
6191244 T-AACCT
1 TAAACCC
6191250 TAAACCC
1 TAAACCC
*
6191257 TAAA-CT
1 TAAACCC
6191263 TAAACCC
1 TAAACCC
*
6191270 TAAACCT
1 TAAACCC
*
6191277 TAAACCT
1 TAAACCC
6191284 TAAACACC
1 TAAAC-CC
*
6191292 --AACCT
1 TAAACCC
6191297 TAAACCC
1 TAAACCC
*
6191304 TAAAACCT
1 T-AAACCC
6191312 TAAACCC
1 TAAACCC
6191319 T
1 T
6191320 GATGAAAAAC
Statistics
Matches: 86, Mismatches: 17, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
5 1 0.01
6 17 0.20
7 61 0.71
8 7 0.08
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:6191228 original size:20 final size:20
Alignment explanation
Indices: 6191204--6191281 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
6191194 TAGAAATCTT
* *
6191204 AAACCCTAAACTC-AAACCC
1 AAACCCTAAACCCTAAACTC
* *
6191223 TAAACCTTAAACCATAAACTC
1 -AAACCCTAAACCCTAAACTC
* * *
6191244 TAACCTTAAACCCTAAACTT
1 AAACCCTAAACCCTAAACTC
*
6191264 AAACCCTAAACCTTAAAC
1 AAACCCTAAACCCTAAAC
6191282 CTTAAACACC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 42 0.89
21 5 0.11
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACCCTAAACCCTAAACTC
Found at i:6191252 original size:47 final size:47
Alignment explanation
Indices: 6191201--6191307 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
6191191 AACTAGAAAT
* *
6191201 CTTAAACCCTAAACTCAAACCCTAAACCTTAAACCATAAACTCTAAC
1 CTTAAACCCTAAACTCAAACCCTAAACCTTAAACCATAAACACCAAC
* *
6191248 CTTAAACCCTAAACTTAAACCCTAAACCTTAAACCTTAAACACCAAC
1 CTTAAACCCTAAACTCAAACCCTAAACCTTAAACCATAAACACCAAC
6191295 CTTAAACCCTAAA
1 CTTAAACCCTAAA
6191308 ACCTTAAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (47 bp):
CTTAAACCCTAAACTCAAACCCTAAACCTTAAACCATAAACACCAAC
Found at i:6191259 original size:13 final size:13
Alignment explanation
Indices: 6191201--6191282 Score: 68
Period size: 13 Copynumber: 6.6 Consensus size: 13
6191191 AACTAGAAAT
*
6191201 CTTAAACCCTAAA
1 CTTAAACCCTAAC
*
6191214 CTCAAACCCTAAAC
1 CTTAAACCCT-AAC
6191228 CTTAAA-CC--A-
1 CTTAAACCCTAAC
*
6191237 --TAAACTCTAAC
1 CTTAAACCCTAAC
*
6191248 CTTAAACCCTAAA
1 CTTAAACCCTAAC
6191261 CTTAAACCCTAAAC
1 CTTAAACCCT-AAC
6191275 CTTAAACC
1 CTTAAACC
6191283 TTAAACACCA
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
7 4 0.07
8 1 0.02
10 2 0.04
13 30 0.56
14 17 0.31
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (13 bp):
CTTAAACCCTAAC
Found at i:6191418 original size:14 final size:15
Alignment explanation
Indices: 6191401--6191446 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
6191391 CCTCAAACTC
6191401 TAAA-CACTAAACCT
1 TAAATCACTAAACCT
* *
6191415 TAAATTA-TAAACCC
1 TAAATCACTAAACCT
6191429 TAAATC-CTAAACCT
1 TAAATCACTAAACCT
6191443 TAAA
1 TAAA
6191447 ACCATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCACTAAACCT
Found at i:6191446 original size:21 final size:20
Alignment explanation
Indices: 6191422--6191514 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 20
6191412 CCTTAAATTA
*
6191422 TAAACCCTAAATCCTAAACCT
1 TAAACCCTAAA-ACTAAACCT
* *
6191443 TAAAACCATAAAAATAAACCT
1 T-AAACCCTAAAACTAAACCT
* * * *
6191464 TCAACCCTACAATTAAA-CA
1 TAAACCCTAAAACTAAACCT
6191483 TAAACCCTAAAACTATAATCC-
1 TAAACCCTAAAACTA-AA-CCT
6191504 TAAACCCTAAA
1 TAAACCCTAAA
6191515 CTCTAAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 13 0.23
20 14 0.25
21 20 0.35
22 10 0.18
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACCCTAAAACTAAACCT
Found at i:6191555 original size:21 final size:21
Alignment explanation
Indices: 6191482--6191563 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
6191472 ACAATTAAAC
* * *
6191482 ATAAACCCTAAAACTATAATC
1 ATAAACCCTAAATCTAGAATT
*
6191503 CTAAACCCTAAACTCTA-AATAT
1 ATAAACCCTAAA-TCTAGAAT-T
6191525 ATATAA---TAAATCTAGAATT
1 ATA-AACCCTAAATCTAGAATT
*
6191544 ATAAACCCTAAATGTAGAAT
1 ATAAACCCTAAATCTAGAAT
6191564 CAAAAAAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
18 2 0.04
19 8 0.16
20 7 0.14
21 25 0.51
22 5 0.10
23 2 0.04
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAAACCCTAAATCTAGAATT
Found at i:6191645 original size:122 final size:123
Alignment explanation
Indices: 6191444--6192033 Score: 294
Period size: 122 Copynumber: 4.7 Consensus size: 123
6191434 CCTAAACCTT
* * * * * * * * *
6191444 AAAACCATAAAAATAAACCTTCAACCCTACAATTAAA-CATAAACCCTAAA-ACTATAA-TCCTA
1 AAAAACATAAACATAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTACAACT-CTA
* * * * *
6191506 AACCCTAAACTCTAAATATATATAATAAATCTAGAA-TTATAAACCCTAAATGTAGAATCAA
65 AA-TCTAAACACAAAATATATACAATAAATCTA-AACTTATAAACCCTAAAT-TAAAATCAA
*
6191567 AAAAAC-TAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTA-AACTCTAA
1 AAAAACATAAACATAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTACAACTCTAA
* * * * * **
6191630 TTCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAATC-
66 ATCTAAACACAAAATATATACAATAAAT-CT-AA-ACT---TA-TAAACCCT-AAATTAAAATCA
6191694 A
123 A
* * * * * * *
6191695 CAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACTACCAAC
1 AAAAACATAAACATAAACATTAAACCCTATATTTAAATCATAAACCATAAA--CC--CTA-CAAC
* * * * * * ** * *
6191760 CCTAAATATAAACCCTAAACCT-TAAAACCATAAAAATAAACCT-TCAACCCTACAATTAAACAT
61 TCTAAATCTAAACAC-AAA-ATAT-ATACAATAAATCTAAACTTATAAACCCTA-AATTAAA-AT
6191823 -AA
121 CAA
* * * * * * * *
6191825 ACCCTAAAACTATAAAAATAAACCTTCAACCCTACAATTAAA-CATAAACCTTAAA-ACTATAA-
1 A----AAAAC-ATAAACATAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTACAAC
* * * * *
6191887 TCCTAAACCTTAAACTCTAAATATATGCAATAAATCTAGAA-TTATAAACCCTAAATATAGAATC
61 T-CTAAATC-TAAACACAAAATATATACAATAAATCTA-AACTTATAAACCCTAAAT-TAAAATC
*
6191951 AC
122 AA
*
6191953 AAAAAC-TAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTA-AACTCTAA
1 AAAAACATAAACATAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTACAACTCTAA
*
6192016 TTCTAAACACAAAATATA
66 ATCTAAACACAAAATATA
6192034 AACCACAAAT
Statistics
Matches: 345, Mismatches: 82, Indels: 81
0.68 0.16 0.16
Matches are distributed among these distances:
122 81 0.23
123 45 0.13
124 15 0.04
125 1 0.00
127 16 0.05
128 32 0.09
129 72 0.21
130 6 0.02
131 2 0.01
133 3 0.01
134 17 0.05
135 40 0.12
136 5 0.01
137 10 0.03
ACGTcount: A:0.52, C:0.24, G:0.01, T:0.23
Consensus pattern (123 bp):
AAAAACATAAACATAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTACAACTCTAA
ATCTAAACACAAAATATATACAATAAATCTAAACTTATAAACCCTAAATTAAAATCAA
Found at i:6191694 original size:129 final size:130
Alignment explanation
Indices: 6191561--6192132 Score: 385
Period size: 129 Copynumber: 4.4 Consensus size: 130
6191551 CTAAATGTAG
* *
6191561 AATCAAAAAAAC-TAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAAC
1 AATCAAAAAAACATAAACATAAACATTAAACCCTATACTTAAATCATAAACCATAAACCCTAAAC
*
6191625 T-CTAATTCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCA
66 TACTAATCCTAAACACAAAATATAAACCACAAATCCT-AATACTAAACATTAAACCCTAAAACCA
6191689 A
130 A
* * * * * *
6191690 AATC-ACAAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCC--AA
1 AATCAAAAAAACATAAACATAAACATTAAACCCTATACTTAAATCATAAACCATAAAC-CCTAAA
* * * * *** ** * * * * * * **
6191752 CTACCAACCCTAAATATAAACCCTAAACCTTAAAACCATAAAAATAAACCTTCAACCCTACAATT
65 CTACTAATCCTAAACACAAAATATAAACCACAAATCC-TAATACTAAACATTAAACCCTAAAACC
6191817 AA
129 AA
* * * * * * *
6191819 ACAT-AAACCCTAAAACTATAAAAATAAACCTTCAACCCTACAATTAAA-CATAAACCTTAAA-A
1 A-ATCAAA----AAAAC-ATAAACATAAACATTAAACCCTATACTTAAATCATAAACCATAAACC
* * * * ** * * *
6191881 CTATAA-TCCTAAACCTTAAACTCTAAATATATGCAATAAAT-CTAGA-A-T---TA-TAAACCC
60 CTA-AACTACTAATCC-TAAACACAAAATATAAACCACAAATCCTA-ATACTAAACATTAAACCC
* *
6191938 TAAATA-TAG
122 TAAA-ACCAA
* * *
6191947 AATCACAAAAAC-TAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAAC
1 AATCAAAAAAACATAAACATAAACATTAAACCCTATACTTAAATCATAAACCATAAACCCTAAAC
*
6192011 T-CTAATTCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCA
66 TACTAATCCTAAACACAAAATATAAACCACAAATCCT-AATACTAAACATTAAACCCTAAAACCA
6192075 A
130 A
* * * * *
6192076 AATC-ACAAACCATAAACATAAAAACTAAACCCTATACTTAAA-CTATAAACCCTAAAC
1 AATCAAAAAAACATAAACATAAACATTAAACCCTATACTTAAATC-ATAAACCATAAAC
6192133 TCCAACCATC
Statistics
Matches: 325, Mismatches: 86, Indels: 64
0.68 0.18 0.13
Matches are distributed among these distances:
122 43 0.13
123 22 0.07
124 11 0.03
125 1 0.00
127 2 0.01
128 30 0.09
129 143 0.44
130 6 0.02
132 2 0.01
133 3 0.01
134 23 0.07
135 39 0.12
ACGTcount: A:0.52, C:0.25, G:0.01, T:0.22
Consensus pattern (130 bp):
AATCAAAAAAACATAAACATAAACATTAAACCCTATACTTAAATCATAAACCATAAACCCTAAAC
TACTAATCCTAAACACAAAATATAAACCACAAATCCTAATACTAAACATTAAACCCTAAAACCAA
Found at i:6191826 original size:26 final size:26
Alignment explanation
Indices: 6191790--6191876 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
6191780 CTTAAAACCA
6191790 TAAAAATAAACCTTCAACCCTACAAT
1 TAAAAATAAACCTTCAACCCTACAAT
* * * *
6191816 TAAACATAAACCCT-AA---AACTA-
1 TAAAAATAAACCTTCAACCCTACAAT
6191837 TAAAAATAAACCTTCAACCCTACAAT
1 TAAAAATAAACCTTCAACCCTACAAT
*
6191863 TAAACATAAACCTT
1 TAAAAATAAACCTT
6191877 AAAACTATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
21 12 0.26
22 5 0.11
25 5 0.11
26 25 0.53
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (26 bp):
TAAAAATAAACCTTCAACCCTACAAT
Found at i:6191854 original size:386 final size:386
Alignment explanation
Indices: 6191436--6192164 Score: 1350
Period size: 386 Copynumber: 1.9 Consensus size: 386
6191426 CCCTAAATCC
*
6191436 TAAACCTTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACATAAACCCTAAAACTATAA
1 TAAACCCTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACATAAACCCTAAAACTATAA
* *
6191501 TCCTAAACCCTAAACTCTAAATATATATAATAAATCTAGAATTATAAACCCTAAATGTAGAATCA
66 TCCTAAACCCTAAACTCTAAATATATACAATAAATCTAGAATTATAAACCCTAAATATAGAATCA
6191566 AAAAAACTAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAACTCTAAT
131 AAAAAACTAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAACTCTAAT
6191631 TCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAATCAC
196 TCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAATCAC
* *
6191696 AAACCATAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACTACCAACC
261 AAACCATAAACATAAAAACTAAACCCTATACTTAAACTATAAACCCTAAACTCCAACCACCAACC
*
6191761 CTAAATATAAACCCTAAACCTTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACA
326 CTAAATATAAACCATAAACCTTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACA
* *
6191822 TAAACCCTAAAACTATAAAAATAAACCTTCAACCCTACAATTAAACATAAACCTTAAAACTATAA
1 TAAACCCTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACATAAACCCTAAAACTATAA
* *
6191887 TCCTAAACCTTAAACTCTAAATATATGCAATAAATCTAGAATTATAAACCCTAAATATAGAATCA
66 TCCTAAACCCTAAACTCTAAATATATACAATAAATCTAGAATTATAAACCCTAAATATAGAATCA
*
6191952 CAAAAACTAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAACTCTAAT
131 AAAAAACTAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAACTCTAAT
6192017 TCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAATCAC
196 TCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAATCAC
*
6192082 AAACCATAAACATAAAAACTAAACCCTATACTTAAACTATAAACCCTAAACTCCAACCATCAACC
261 AAACCATAAACATAAAAACTAAACCCTATACTTAAACTATAAACCCTAAACTCCAACCACCAACC
6192147 CTAAATATAAACCATAAA
326 CTAAATATAAACCATAAA
6192165 TCCTAAATTA
Statistics
Matches: 331, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
386 331 1.00
ACGTcount: A:0.52, C:0.25, G:0.01, T:0.23
Consensus pattern (386 bp):
TAAACCCTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACATAAACCCTAAAACTATAA
TCCTAAACCCTAAACTCTAAATATATACAATAAATCTAGAATTATAAACCCTAAATATAGAATCA
AAAAAACTAAACCTAAACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAACTCTAAT
TCTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAATCAC
AAACCATAAACATAAAAACTAAACCCTATACTTAAACTATAAACCCTAAACTCCAACCACCAACC
CTAAATATAAACCATAAACCTTAAAACCATAAAAATAAACCTTCAACCCTACAATTAAACA
Found at i:6191897 original size:47 final size:47
Alignment explanation
Indices: 6191756--6191886 Score: 210
Period size: 47 Copynumber: 2.8 Consensus size: 47
6191746 CTCCAACTAC
* *
6191756 CAACCCTA-AATATAAACCCTAAACCTTAAAACCATAAAAATAAACCTT
1 CAACCCTACAAT-TAAA-CATAAACCTTAAAACTATAAAAATAAACCTT
*
6191804 CAACCCTACAATTAAACATAAACCCTAAAACTATAAAAATAAACCTT
1 CAACCCTACAATTAAACATAAACCTTAAAACTATAAAAATAAACCTT
6191851 CAACCCTACAATTAAACATAAACCTTAAAACTATAA
1 CAACCCTACAATTAAACATAAACCTTAAAACTATAA
6191887 TCCTAAACCT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
47 63 0.81
48 12 0.15
49 3 0.04
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (47 bp):
CAACCCTACAATTAAACATAAACCTTAAAACTATAAAAATAAACCTT
Found at i:6192159 original size:20 final size:21
Alignment explanation
Indices: 6192101--6192178 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 21
6192091 ACATAAAAAC
* * *
6192101 TAAACCCTATACT-TAAACTA
1 TAAACCCTAAATTATAAACCA
* **
6192121 TAAACCCTAAACT-CCAACCA
1 TAAACCCTAAATTATAAACCA
*
6192141 TCAACCCTAAA-TATAAACCA
1 TAAACCCTAAATTATAAACCA
*
6192161 TAAATCCTAAATTATAAA
1 TAAACCCTAAATTATAAA
6192179 TACTAAAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 40 0.85
21 6 0.13
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAATTATAAACCA
Found at i:6192590 original size:27 final size:27
Alignment explanation
Indices: 6192541--6192600 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
6192531 ATCTAAAATT
**
6192541 TTAAACCCTAAACTCAAGTCCATAAGC
1 TTAAACCCTAAACTCAAAACCATAAGC
**
6192568 TTAAACCCTAAACTCAAAACCATACTC
1 TTAAACCCTAAACTCAAAACCATAAGC
6192595 TTAAAC
1 TTAAAC
6192601 ACTTAAGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.23
Consensus pattern (27 bp):
TTAAACCCTAAACTCAAAACCATAAGC
Found at i:6193767 original size:29 final size:30
Alignment explanation
Indices: 6193746--6193803 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
6193736 TCATGTGTAT
6193746 AATTG-CATTAAATTAAAATTCATGTATCA
1 AATTGACATTAAATTAAAATTCATGTATCA
* *
6193775 AATTGCACATTGAATCAAAATTCATGTAT
1 AATTG-ACATTAAATTAAAATTCATGTAT
6193804 AATTTTGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (30 bp):
AATTGACATTAAATTAAAATTCATGTATCA
Found at i:6193807 original size:29 final size:27
Alignment explanation
Indices: 6193741--6193807 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 27
6193731 AAATTTCATG
*
6193741 TGTATAATTGCATTAAATTAAAATTCA
1 TGTATAATTGCATTAAATCAAAATTCA
*
6193768 TGTATCAAATTGCACATTGAATCAAAATTCA
1 TGTAT--AATTG--CATTAAATCAAAATTCA
6193799 TGTATAATT
1 TGTATAATT
6193808 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
29 9 0.26
31 20 0.59
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (27 bp):
TGTATAATTGCATTAAATCAAAATTCA
Found at i:6194103 original size:21 final size:20
Alignment explanation
Indices: 6194079--6194139 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
6194069 TCATGAATCT
6194079 TAAACCCTAAACCAAGAACAC
1 TAAACCCTAAACCAAGAA-AC
* * *
6194100 TAAACCTTAAATCAAGAATC
1 TAAACCCTAAACCAAGAAAC
*
6194120 TCAACCCTAAAACCAA-AAAC
1 TAAACCCT-AAACCAAGAAAC
6194140 CAAGAACCAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.52, C:0.30, G:0.03, T:0.15
Consensus pattern (20 bp):
TAAACCCTAAACCAAGAAAC
Found at i:6194323 original size:7 final size:7
Alignment explanation
Indices: 6194313--6194381 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
6194303 TCTTTAGCCT
*
6194313 AAACCCA
1 AAACCTA
*
6194320 AAACATA
1 AAACCTA
6194327 AAACCTA
1 AAACCTA
*
6194334 AAACCCA
1 AAACCTA
6194341 AAACCTA
1 AAACCTA
*
6194348 GAA-CTCA
1 AAACCT-A
6194355 AAACCTAA
1 AAACCT-A
6194363 AAACCTA
1 AAACCTA
* *
6194370 GAACCTT
1 AAACCTA
6194377 AAACC
1 AAACC
6194382 CTAACCCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
6 2 0.04
7 38 0.78
8 9 0.18
ACGTcount: A:0.55, C:0.30, G:0.03, T:0.12
Consensus pattern (7 bp):
AAACCTA
Found at i:6194357 original size:21 final size:21
Alignment explanation
Indices: 6194313--6194382 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
6194303 TCTTTAGCCT
* *
6194313 AAACCCAAAACATAAAACCTA
1 AAACCCAAAACCTAGAACCTA
6194334 AAACCCAAAACCTAGAA-CTCA
1 AAACCCAAAACCTAGAACCT-A
* *
6194355 AAACCTAAAAACCTAGAACCTT
1 AAACC-CAAAACCTAGAACCTA
6194377 AAACCC
1 AAACCC
6194383 TAACCCTAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 2 0.05
21 21 0.51
22 16 0.39
23 2 0.05
ACGTcount: A:0.54, C:0.31, G:0.03, T:0.11
Consensus pattern (21 bp):
AAACCCAAAACCTAGAACCTA
Found at i:6194486 original size:27 final size:27
Alignment explanation
Indices: 6194425--6194517 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
6194415 ATAAATAATA
* * **
6194425 AACCTTAAACCTT-AACTCTAACATAT
1 AACCATAAACCTTAAACTCAAACCCAT
* **
6194451 AACAATAAAGCC-TAAACTTGAACCCAT
1 AACCATAAA-CCTTAAACTCAAACCCAT
*
6194478 AACCCTAAACCTTAAACTCAAACCCAT
1 AACCATAAACCTTAAACTCAAACCCAT
*
6194505 TACCATAAACCTT
1 AACCATAAACCTT
6194518 TAAATTATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.24
Consensus pattern (27 bp):
AACCATAAACCTTAAACTCAAACCCAT
Found at i:6194798 original size:28 final size:28
Alignment explanation
Indices: 6194728--6194787 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
6194718 ACATAAATTG
*
6194728 AAACC-AAAACTCT-AAACATTGAACCAC
1 AAACCTAAAA-TCTAAAATATTGAACCAC
* *
6194755 AAACCTTAAATCTAAAATATTGAACCAT
1 AAACCTAAAATCTAAAATATTGAACCAC
6194783 AAACC
1 AAACC
6194788 AAATATGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.52, C:0.25, G:0.03, T:0.20
Consensus pattern (28 bp):
AAACCTAAAATCTAAAATATTGAACCAC
Found at i:6194861 original size:20 final size:21
Alignment explanation
Indices: 6194819--6194862 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
6194809 AACCCCATAA
*
6194819 CCATAACCCTTAAACTTAAAC
1 CCATAACCCTTAAACTCAAAC
6194840 CCATAACCC-TAAACTCAAAC
1 CCATAACCCTTAAACTCAAAC
6194860 CCA
1 CCA
6194863 AAACATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (21 bp):
CCATAACCCTTAAACTCAAAC
Found at i:6195702 original size:31 final size:29
Alignment explanation
Indices: 6195667--6195745 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
6195657 ATCTCAAAAC
6195667 TATACATGAACTTT-AGTCTAATGTGCAATTT
1 TATACATGAACTTTGA-T-T-ATGTGCAATTT
* *
6195698 TATACATGTACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTATGTGCAATTT
* *
6195727 TATGCATGAAATTTTGATT
1 TATACATG-AACTTTGATT
6195746 TGGTCAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 17 0.41
30 9 0.22
31 14 0.34
32 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (29 bp):
TATACATGAACTTTGATTATGTGCAATTT
Found at i:6195747 original size:29 final size:29
Alignment explanation
Indices: 6195688--6195746 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6195678 TTTAGTCTAA
*
6195688 TGTGCAATTTTATACATGTACTTTGATTT
1 TGTGCAATTTTATACATGAACTTTGATTT
* *
6195717 TGTGCAATTTTATGCATGAAATTTTGATTT
1 TGTGCAATTTTATACATG-AACTTTGATTT
6195747 GGTCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.51
Consensus pattern (29 bp):
TGTGCAATTTTATACATGAACTTTGATTT
Found at i:6195896 original size:31 final size:30
Alignment explanation
Indices: 6195861--6195957 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 30
6195851 GTTTCTTTAA
*
6195861 ATATATATGATTGAATCAAAATTAAAGTTTC
1 ATATATATAATTGAATCAAAATTAAA-TTTC
* * * *
6195892 ATATATACATTTGAACCACAATCTAAATTTC
1 ATATATATAATTGAATCAAAAT-TAAATTTC
* * * *
6195923 ATGTGTATAATTGCATC-AAATTAAAATTC
1 ATATATATAATTGAATCAAAATTAAATTTC
6195952 ATATAT
1 ATATAT
6195958 CAAATTGCAC
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 11 0.22
30 3 0.06
31 32 0.64
32 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.38
Consensus pattern (30 bp):
ATATATATAATTGAATCAAAATTAAATTTC
Found at i:6196314 original size:28 final size:28
Alignment explanation
Indices: 6196283--6196350 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
6196273 CCTAAAACCA
* *
6196283 TAAACCAAAAACACTAAGCCCTAAGCCC
1 TAAACCATAAACACTAAACCCTAAGCCC
* * * *
6196311 TAAAACTTAAACACTAAACCCTTAGCCT
1 TAAACCATAAACACTAAACCCTAAGCCC
6196339 TAAACCATAAAC
1 TAAACCATAAAC
6196351 CATAAACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (28 bp):
TAAACCATAAACACTAAACCCTAAGCCC
Found at i:6196351 original size:7 final size:7
Alignment explanation
Indices: 6196339--6196610 Score: 62
Period size: 7 Copynumber: 39.6 Consensus size: 7
6196329 CCCTTAGCCT
6196339 TAAACCA
1 TAAACCA
6196346 TAAACCA
1 TAAACCA
6196353 TAAA-CA
1 TAAACCA
*
6196359 TATAAACA
1 TA-AACCA
*
6196367 TAAACCT
1 TAAACCA
6196374 TAAA-C-
1 TAAACCA
*
6196379 TCAAACCC
1 T-AAACCA
6196387 TAAATCC-
1 TAAA-CCA
6196394 TAAACCA
1 TAAACCA
*
6196401 TAAA-CT
1 TAAACCA
6196407 TAAACCCA
1 TAAA-CCA
*
6196415 T-ATCCA
1 TAAACCA
*
6196421 TAAACTCT
1 TAAAC-CA
*
6196429 TAAGCCA
1 TAAACCA
*
6196436 TAAACCC
1 TAAACCA
*
6196443 TAAA-TA
1 TAAACCA
* * *
6196449 AAAATCT
1 TAAACCA
6196456 TAAACC-
1 TAAACCA
6196462 TAAACCCA
1 TAAA-CCA
6196470 -AAA-CA
1 TAAACCA
6196475 TAAAACCA
1 T-AAACCA
6196483 TAAACACA
1 TAAAC-CA
6196491 -AAACC-
1 TAAACCA
*
6196496 TAAAACCT
1 T-AAACCA
*
6196504 TAATTCC-
1 TAA-ACCA
6196511 T-AA-CA
1 TAAACCA
* *
6196516 CTAAGCCC
1 -TAAACCA
*
6196524 TAAAACA
1 TAAACCA
*
6196531 TAAAACA
1 TAAACCA
*
6196538 TAAACCC
1 TAAACCA
*
6196545 TAAATCA
1 TAAACCA
*
6196552 TAAACAA
1 TAAACCA
6196559 TAAAGCC-
1 TAAA-CCA
6196566 TAAACTC-
1 TAAAC-CA
6196573 TAAA-CA
1 TAAACCA
6196579 TTAAATCC-
1 -TAAA-CCA
6196587 TAAACCA
1 TAAACCA
*
6196594 -AAAACA
1 TAAACCA
*
6196600 TAAACCC
1 TAAACCA
6196607 TAAA
1 TAAA
6196611 ACCCAAAACA
Statistics
Matches: 196, Mismatches: 35, Indels: 68
0.66 0.12 0.23
Matches are distributed among these distances:
4 1 0.01
5 4 0.02
6 37 0.19
7 129 0.66
8 24 0.12
9 1 0.01
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:6196397 original size:27 final size:27
Alignment explanation
Indices: 6196365--6196431 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
6196355 AACATATAAA
6196365 CATAAACCTTAAACTCAAACCCTAAATC
1 CATAAACCTTAAACTCAAACCC-AAATC
* * *
6196393 C-TAAACCATAAACTTAAACCCATATC
1 CATAAACCTTAAACTCAAACCCAAATC
6196419 CATAAACTCTTAA
1 CATAAAC-CTTAA
6196432 GCCATAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.15
27 23 0.70
28 5 0.15
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (27 bp):
CATAAACCTTAAACTCAAACCCAAATC
Found at i:6196486 original size:21 final size:20
Alignment explanation
Indices: 6196457--6196633 Score: 88
Period size: 21 Copynumber: 8.5 Consensus size: 20
6196447 TAAAAATCTT
*
6196457 AAACCTAAACCCAAAACATA
1 AAACCTAAACACAAAACATA
*
6196477 AAACCATAAACACAAAACCTA
1 AAACC-TAAACACAAAACATA
* ** **
6196498 AAACCTTAATTCCTAACACTA
1 AAACCTAAACACAAAACA-TA
** *
6196519 AGCCCTAAAACATAAAACATA
1 AAACCT-AAACACAAAACATA
* *
6196540 AACCCTAAATCA-TAAACAATA
1 AAACCTAAA-CACAAAAC-ATA
* * *
6196561 AAGCCTAAACTCTAAACATTA
1 AAACCTAAACACAAAACA-TA
*
6196582 AATCCTAAAC-CAAAAACATA
1 AAACCTAAACAC-AAAACATA
* *
6196602 AACCCTAAAACCCAAAACATTA
1 AAACCT-AAACACAAAACA-TA
*
6196624 AATCCTAAAC
1 AAACCTAAAC
6196634 TCTAAACACT
Statistics
Matches: 122, Mismatches: 24, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
20 29 0.24
21 79 0.65
22 14 0.11
ACGTcount: A:0.55, C:0.27, G:0.01, T:0.17
Consensus pattern (20 bp):
AAACCTAAACACAAAACATA
Found at i:6196568 original size:42 final size:42
Alignment explanation
Indices: 6196512--6196641 Score: 124
Period size: 42 Copynumber: 3.1 Consensus size: 42
6196502 CTTAATTCCT
* * *
6196512 AACACTAAGCCCTAAAACATAAAACA-TAAACCCTAAATCATA
1 AACAATAAACCCTAAAAC-TAAAACATTAAATCCTAAATCATA
* * * *
6196554 AACAATAAAGCCT-AAACTCTAAACATTAAATCCTAAACCAAA
1 AACAATAAACCCTAAAACT-AAAACATTAAATCCTAAATCATA
*
6196596 AAC-ATAAACCCTAAAACCCAAAACATTAAATCCTAAACTC-TA
1 AACAATAAACCCTAAAA-CTAAAACATTAAATCCTAAA-TCATA
6196638 AACA
1 AACA
6196642 CTGAACCATA
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
40 1 0.01
41 17 0.24
42 50 0.71
43 2 0.03
ACGTcount: A:0.55, C:0.26, G:0.02, T:0.18
Consensus pattern (42 bp):
AACAATAAACCCTAAAACTAAAACATTAAATCCTAAATCATA
Found at i:6196640 original size:21 final size:20
Alignment explanation
Indices: 6196533--6196641 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 20
6196523 CTAAAACATA
6196533 AAACATAAACCCTAAA-TCAT
1 AAACATAAACCCTAAACTC-T
*
6196553 AAACAATAAAGCCTAAACTCT
1 AAAC-ATAAACCCTAAACTCT
* *
6196574 AAACATTAAATCCTAAAC-CAA
1 AAACA-TAAACCCTAAACTC-T
* *
6196595 AAACATAAACCCTAAAACCCA
1 AAACATAAACCCT-AAACTCT
*
6196616 AAACATTAAATCCTAAACTCT
1 AAACA-TAAACCCTAAACTCT
6196637 AAACA
1 AAACA
6196642 CTGAACCATA
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
20 13 0.17
21 52 0.69
22 10 0.13
ACGTcount: A:0.55, C:0.26, G:0.01, T:0.18
Consensus pattern (20 bp):
AAACATAAACCCTAAACTCT
Found at i:6196681 original size:7 final size:7
Alignment explanation
Indices: 6196256--6196687 Score: 51
Period size: 7 Copynumber: 62.1 Consensus size: 7
6196246 CTAGAATCTC
6196256 AACCCTAA
1 AACCCT-A
6196264 AACCC-A
1 AACCCTA
6196270 TAA-CCTAA
1 -AACCCT-A
*
6196278 AACCATA
1 AACCCTA
**
6196285 AACCAAA
1 AACCCTA
*
6196292 AACACTA
1 AACCCTA
*
6196299 AGCCCTA
1 AACCCTA
*
6196306 AGCCCTA
1 AACCCTA
* *
6196313 AAACTTA
1 AACCCTA
*
6196320 AACACTA
1 AACCCTA
*
6196327 AACCCTT
1 AACCCTA
* *
6196334 AGCCTTA
1 AACCCTA
*
6196341 AACCATA
1 AACCCTA
*
6196348 AACCATA
1 AACCCTA
*
6196355 AA-CATA
1 AACCCTA
* *
6196361 TAAACATA
1 -AACCCTA
*
6196369 AACCTTA
1 AACCCTA
*
6196376 AACTC-A
1 AACCCTA
6196382 AACCCTA
1 AACCCTA
*
6196389 AATCCTA
1 AACCCTA
*
6196396 AACCATA
1 AACCCTA
*
6196403 AA-CTTA
1 AACCCTA
6196409 AACCC-A
1 AACCCTA
* *
6196415 TATCCATA
1 -AACCCTA
*
6196423 AACTCTTA
1 AAC-CCTA
* *
6196431 AGCCATA
1 AACCCTA
6196438 AACCCTA
1 AACCCTA
***
6196445 AA-TAAA
1 AACCCTA
* *
6196451 AATCTTA
1 AACCCTA
6196458 AA-CCTA
1 AACCCTA
6196464 AACCC-A
1 AACCCTA
* *
6196470 AAACATAA
1 AACCCT-A
*
6196478 AACCATA
1 AACCCTA
*
6196485 AACAC-A
1 AACCCTA
*
6196491 AAACCTAA
1 AACCCT-A
*
6196499 AACCTTA
1 AACCCTA
**
6196506 ATTCCT-
1 AACCCTA
*
6196512 AACACTA
1 AACCCTA
*
6196519 AGCCCTA
1 AACCCTA
* *
6196526 AAACATA
1 AACCCTA
* *
6196533 AAACATA
1 AACCCTA
6196540 AACCCTA
1 AACCCTA
* *
6196547 AATCATA
1 AACCCTA
**
6196554 AACAATA
1 AACCCTA
*
6196561 AAGCCTA
1 AACCCTA
*
6196568 AACTCTA
1 AACCCTA
**
6196575 AACATTA
1 AACCCTA
*
6196582 AATCCTA
1 AACCCTA
*
6196589 AA-CCAA
1 AACCCTA
* *
6196595 AAACATA
1 AACCCTA
6196602 AACCCTAA
1 AACCCT-A
*
6196610 AACCCAA
1 AACCCTA
**
6196617 AACATTA
1 AACCCTA
*
6196624 AATCCTA
1 AACCCTA
*
6196631 AACTCTA
1 AACCCTA
* *
6196638 AACACTG
1 AACCCTA
*
6196645 AACCATA
1 AACCCTA
6196652 AACCCTA
1 AACCCTA
* * *
6196659 TATCTTA
1 AACCCTA
* *
6196666 AATCTTA
1 AACCCTA
6196673 AACCCTA
1 AACCCTA
*
6196680 AAACCTA
1 AACCCTA
6196687 A
1 A
6196688 TATATAAACC
Statistics
Matches: 296, Mismatches: 108, Indels: 41
0.67 0.24 0.09
Matches are distributed among these distances:
6 42 0.14
7 219 0.74
8 35 0.12
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:6196705 original size:20 final size:20
Alignment explanation
Indices: 6196680--6196727 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
6196670 TTAAACCCTA
6196680 AAACC-TAATATATAAACCAT
1 AAACCTTAAT-TATAAACCAT
* *
6196700 AAACCTTAATTTTAAACCTT
1 AAACCTTAATTATAAACCAT
6196720 AAA-CTTAA
1 AAACCTTAA
6196728 GCACATAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (20 bp):
AAACCTTAATTATAAACCAT
Found at i:6196940 original size:13 final size:13
Alignment explanation
Indices: 6196922--6196964 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
6196912 CCATAACCAT
6196922 AAACCCTAAACTC
1 AAACCCTAAACTC
* *
6196935 AAACCCATAACCTT
1 AAACCC-TAAACTC
6196949 AAACCCTAAACTC
1 AAACCCTAAACTC
6196962 AAA
1 AAA
6196965 TTTGTACCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACCCTAAACTC
Found at i:6196954 original size:14 final size:14
Alignment explanation
Indices: 6196912--6196954 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6196902 AAACTTGAAG
*
6196912 CCATAACCATAAAC
1 CCATAACCTTAAAC
* *
6196926 CC-TAAACTCAAAC
1 CCATAACCTTAAAC
6196939 CCATAACCTTAAAC
1 CCATAACCTTAAAC
6196953 CC
1 CC
6196955 TAAACTCAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (14 bp):
CCATAACCTTAAAC
Found at i:6196980 original size:27 final size:27
Alignment explanation
Indices: 6196912--6196964 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
6196902 AAACTTGAAG
6196912 CCATAACCATAAACCCTAAACTCAAAC
1 CCATAACCATAAACCCTAAACTCAAAC
*
6196939 CCATAACCTTAAACCCTAAACTCAAA
1 CCATAACCATAAACCCTAAACTCAAA
6196965 TTTGTACCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (27 bp):
CCATAACCATAAACCCTAAACTCAAAC
Found at i:6197123 original size:7 final size:7
Alignment explanation
Indices: 6197111--6197148 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
6197101 GAATTCTTTT
6197111 AACCATA
1 AACCATA
6197118 AACCATA
1 AACCATA
6197125 AACCATA
1 AACCATA
6197132 AACC-TA
1 AACCATA
*
6197138 AACCTTA
1 AACCATA
6197145 AACC
1 AACC
6197149 CATACTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCATA
Found at i:6197141 original size:13 final size:14
Alignment explanation
Indices: 6197111--6197148 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
6197101 GAATTCTTTT
6197111 AACCATAAACCATA
1 AACCATAAACCATA
6197125 AACCATAAACC-TA
1 AACCATAAACCATA
*
6197138 AACCTTAAACC
1 AACCATAAACC
6197149 CATACTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCATAAACCATA
Found at i:6199237 original size:20 final size:20
Alignment explanation
Indices: 6199212--6199251 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6199202 TCAATGTGAG
6199212 ATTGTGCTTTTCTTTTGCAT
1 ATTGTGCTTTTCTTTTGCAT
6199232 ATTGTGCTTTTCTTTTGCAT
1 ATTGTGCTTTTCTTTTGCAT
6199252 TACCAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.60
Consensus pattern (20 bp):
ATTGTGCTTTTCTTTTGCAT
Found at i:6201632 original size:51 final size:50
Alignment explanation
Indices: 6201559--6201655 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 50
6201549 AATTCTAGAG
* *
6201559 GAGGATGTGTAGCCTACGGGATTGGCACTTAGTGCCTAGGCGTGTTTTTA
1 GAGGATGTGTAGCCTACGGGATTGGCACTTAGTGCCCAGACGTGTTTTTA
* * *
6201609 GAGGAATGTTTAGCCTATGGGATTGGCATTTAGTGCCCAGACGTGTT
1 GAGG-ATGTGTAGCCTACGGGATTGGCACTTAGTGCCCAGACGTGTT
6201656 CTTGGATGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 4 0.10
51 37 0.90
ACGTcount: A:0.20, C:0.15, G:0.33, T:0.32
Consensus pattern (50 bp):
GAGGATGTGTAGCCTACGGGATTGGCACTTAGTGCCCAGACGTGTTTTTA
Found at i:6214018 original size:22 final size:23
Alignment explanation
Indices: 6213976--6214019 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
6213966 ATAAAAAATT
*
6213976 CATATAATATTATATTTTACATA
1 CATATAATATTATATTATACATA
6213999 CATAT-ATATTAT-TTAATACAT
1 CATATAATATTATATT-ATACAT
6214020 TAGTGGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 12 0.63
23 5 0.26
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (23 bp):
CATATAATATTATATTATACATA
Found at i:6214205 original size:2 final size:2
Alignment explanation
Indices: 6214198--6214232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6214188 ATACGCGCAC
6214198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6214233 AAAGTTATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6222358 original size:13 final size:13
Alignment explanation
Indices: 6222309--6222374 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
6222299 GACTAATTTA
6222309 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
6222322 TGCTGTAGAAAAG
1 TGCTTTTGAAAAG
** * *
6222335 TGCACTAGAGAAG
1 TGCTTTTGAAAAG
* *
6222348 TGCTTTTGAGAAT
1 TGCTTTTGAAAAG
*
6222361 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
6222374 T
1 T
6222375 TTAGTTTAAG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:6230283 original size:49 final size:49
Alignment explanation
Indices: 6230206--6230302 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
6230196 AGGATAGAAA
*
6230206 GCATGTGACTTGAAATTAACCTGTCTTCATTAATAACAAATGTAGATAT
1 GCATGTGACTTGAAATTAACCTGACTTCATTAATAACAAATGTAGATAT
* * *
6230255 GCATGTGATTTGAAATTAATCTGACTTCATTAATAACAAATGTTGATA
1 GCATGTGACTTGAAATTAACCTGACTTCATTAATAACAAATGTAGATA
6230303 CAATATTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (49 bp):
GCATGTGACTTGAAATTAACCTGACTTCATTAATAACAAATGTAGATAT
Found at i:6234318 original size:63 final size:62
Alignment explanation
Indices: 6234205--6234348 Score: 154
Period size: 63 Copynumber: 2.4 Consensus size: 62
6234195 AGGAATAATT
* * * *
6234205 GTGCGTGT-TGTGGTGCTTGTGTAAAATAAACTGGTACTAAATGTGTTGATGTAGGGAATGA
1 GTGCGTGTGTGTGGTGGTTGTGTAAAATAAACTGGTACTAAAGGTGATGATGCAGGGAATGA
* * *
6234266 TTGCGTGTGCTGTGGTGGTTGTGTAAAATAAA-TCGGATA-TGAAGGTGATGATGCGGGGAATGA
1 GTGCGTGTG-TGTGGTGGTTGTGTAAAATAAACT-GG-TACTAAAGGTGATGATGCAGGGAATGA
*
6234329 GTGTGTGTGTGT-GT-GTTGTG
1 GTGCGTGTGTGTGGTGGTTGTG
6234349 ATGTTTGTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
60 6 0.09
61 9 0.13
62 4 0.06
63 49 0.70
64 2 0.03
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.35
Consensus pattern (62 bp):
GTGCGTGTGTGTGGTGGTTGTGTAAAATAAACTGGTACTAAAGGTGATGATGCAGGGAATGA
Found at i:6236144 original size:28 final size:28
Alignment explanation
Indices: 6236104--6236178 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
6236094 AAAATAAAAA
6236104 AGAATTGAGAATTTAGAAT-AAAAAATCG
1 AGAATTGAGAATTTAGAATCAAAAAAT-G
* * *
6236132 AGAATTGACAATTGAGAATCAAAAAGTG
1 AGAATTGAGAATTTAGAATCAAAAAATG
*
6236160 AGAATTTAGAATTTAGAAT
1 AGAATTGAGAATTTAGAAT
6236179 TAAGTTGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 34 0.85
29 6 0.15
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.27
Consensus pattern (28 bp):
AGAATTGAGAATTTAGAATCAAAAAATG
Found at i:6238247 original size:27 final size:28
Alignment explanation
Indices: 6238216--6238302 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 28
6238206 TAAGATGACT
6238216 ATATAAAAAATTTTAATAAA-TAAAATA
1 ATATAAAAAATTTTAATAAATTAAAATA
* *
6238243 ATATATAAAATATTAAATATTAAATTAAAATA
1 ATATA-AAAA-ATT--TTAATAAATTAAAATA
* *
6238275 ATATAAATATTTTTAAAATAAATTAAAA
1 ATATAAAAAATTTT--AATAAATTAAAA
6238303 ATTAATATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 5 0.11
28 5 0.11
29 3 0.06
30 13 0.28
31 9 0.19
32 12 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATAAAAAATTTTAATAAATTAAAATA
Found at i:6238281 original size:30 final size:32
Alignment explanation
Indices: 6238230--6238302 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
6238220 AAAAAATTTT
6238230 AATAAA-TAAAATAATATATAAA-A-TATTAA
1 AATAAATTAAAATAATATATAAATATTATTAA
*
6238259 ATATTAAATTAAAAT-A-ATATAAATATTTTTAA
1 A-A-TAAATTAAAATAATATATAAATATTATTAA
6238291 AATAAATTAAAA
1 AATAAATTAAAA
6238303 ATTAATATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 1 0.03
30 18 0.47
31 7 0.18
32 12 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAAATTAAAATAATATATAAATATTATTAA
Found at i:6240547 original size:2 final size:2
Alignment explanation
Indices: 6240540--6240579 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
6240530 ACTCTACCCC
6240540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6240580 CGATAGGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6246452 original size:13 final size:13
Alignment explanation
Indices: 6246434--6246463 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6246424 AAGCATACAC
6246434 CATAACATAATAT
1 CATAACATAATAT
6246447 CATAACATAATAT
1 CATAACATAATAT
6246460 CATA
1 CATA
6246464 GTTCCAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (13 bp):
CATAACATAATAT
Found at i:6246665 original size:33 final size:33
Alignment explanation
Indices: 6246628--6246694 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
6246618 ATCTTCTGGA
6246628 AACATAAGCAACTTCATTATTAGTAGGACATAT
1 AACATAAGCAACTTCATTATTAGTAGGACATAT
6246661 AACATAAGCAACTTCATTATTAGTAGGACATAT
1 AACATAAGCAACTTCATTATTAGTAGGACATAT
6246694 A
1 A
6246695 CTTCTCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (33 bp):
AACATAAGCAACTTCATTATTAGTAGGACATAT
Found at i:6247119 original size:11 final size:10
Alignment explanation
Indices: 6247085--6247118 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6247075 TAAAATCATT
6247085 AAAATTATAA
1 AAAATTATAA
6247095 AAAATGTAT-A
1 AAAAT-TATAA
6247105 AAAATTATAA
1 AAAATTATAA
6247115 AAAA
1 AAAA
6247119 AATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.14
10 16 0.73
11 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:6247619 original size:15 final size:15
Alignment explanation
Indices: 6247599--6247628 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6247589 TCAATTGTTA
*
6247599 AATATATATAATATT
1 AATATAGATAATATT
6247614 AATATAGATAATATT
1 AATATAGATAATATT
6247629 TTAGATTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AATATAGATAATATT
Found at i:6248555 original size:7 final size:7
Alignment explanation
Indices: 6248543--6248611 Score: 79
Period size: 7 Copynumber: 9.6 Consensus size: 7
6248533 AAAAAATTCA
6248543 AATATAT
1 AATATAT
6248550 AATATAT
1 AATATAT
6248557 AATATAT
1 AATATAT
6248564 AATATAT
1 AATATAT
6248571 AATATAT
1 AATATAT
6248578 AAATGATAT
1 -AAT-ATAT
*
6248587 AATACATT
1 AATATA-T
6248595 AAT-T-T
1 AATATAT
6248600 AATAATAT
1 AAT-ATAT
6248608 AATA
1 AATA
6248612 AAAATTTCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
5 4 0.07
7 32 0.59
8 14 0.26
9 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (7 bp):
AATATAT
Found at i:6248563 original size:16 final size:16
Alignment explanation
Indices: 6248544--6248611 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
6248534 AAAAATTCAA
6248544 ATATATAATATAT-A-
1 ATATATAATATATAAT
6248558 ATATATAATATATAAT
1 ATATATAATATATAAT
6248574 ATATA-AATGATATAAT
1 ATATATAAT-ATATAAT
*
6248590 ACAT-TAAT-T-TAAT
1 ATATATAATATATAAT
6248603 A-ATATAATA
1 ATATATAATA
6248612 AAAATTTCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
12 2 0.04
13 9 0.19
14 14 0.30
15 4 0.09
16 18 0.38
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
ATATATAATATATAAT
Found at i:6249262 original size:28 final size:28
Alignment explanation
Indices: 6249228--6249285 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
6249218 ATGGGATAAA
6249228 AACCTAATTAAGGAAAAAAAGAATACAC
1 AACCTAATTAAGGAAAAAAAGAATACAC
6249256 AACCTAATTAAGGAAAAAAAGAATACAC
1 AACCTAATTAAGGAAAAAAAGAATACAC
6249284 AA
1 AA
6249286 TCTCTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (28 bp):
AACCTAATTAAGGAAAAAAAGAATACAC
Found at i:6252493 original size:3 final size:3
Alignment explanation
Indices: 6252485--6252510 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6252475 TATTTTTTAC
6252485 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6252511 ACATGAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6254072 original size:50 final size:50
Alignment explanation
Indices: 6253980--6254075 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
6253970 AAATGAAAGG
* * * ***
6253980 ACCATATCGTGTAAGACCATAGCTGGTGGGCTATGGTGTCATATGGAAAC
1 ACCATATCGTATAAGACCATAACTGGTGGACTATGACATCATATGGAAAC
* *
6254030 ACCATATCGTATAAGACTATAACTGGTGGATTATGACATCATATGG
1 ACCATATCGTATAAGACCATAACTGGTGGACTATGACATCATATGG
6254076 GAAGAACTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (50 bp):
ACCATATCGTATAAGACCATAACTGGTGGACTATGACATCATATGGAAAC
Found at i:6254115 original size:17 final size:17
Alignment explanation
Indices: 6254093--6254128 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6254083 TAAAGAAAGG
*
6254093 TTATTATCGAATGTGGT
1 TTATTATCGAATGGGGT
6254110 TTATTATCGAATGGGGT
1 TTATTATCGAATGGGGT
6254127 TT
1 TT
6254129 CGACGTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.47
Consensus pattern (17 bp):
TTATTATCGAATGGGGT
Found at i:6255307 original size:76 final size:76
Alignment explanation
Indices: 6255181--6255333 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
6255171 ATTGTATATG
6255181 AGTATGATTTATATATTCTTGTAAGACCTTGCTGAGAGAAAAATTTTGTTCAGTAGTTGTAAGTA
1 AGTATGATTTATATATTCTTGTAAGACCTTGCTGAGAGAAAAATTTTGTTCAGTAGTTGTAAGTA
6255246 CACCAATGTAT
66 CACCAATGTAT
6255257 AGTATGATTTATATATTCTTGTAAGACCTTGCTGAGAGAAAAATTTTGTTCAGTAGTTGTAAGTA
1 AGTATGATTTATATATTCTTGTAAGACCTTGCTGAGAGAAAAATTTTGTTCAGTAGTTGTAAGTA
6255322 CACCAATGTAT
66 CACCAATGTAT
6255333 A
1 A
6255334 CCTAGACATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (76 bp):
AGTATGATTTATATATTCTTGTAAGACCTTGCTGAGAGAAAAATTTTGTTCAGTAGTTGTAAGTA
CACCAATGTAT
Found at i:6263022 original size:42 final size:42
Alignment explanation
Indices: 6262970--6263322 Score: 219
Period size: 43 Copynumber: 8.1 Consensus size: 42
6262960 TCCATTTTGG
* *
6262970 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTTCA
1 TTTTAGAGGCCTAGTTGTGAGGTCCATTTACATTTTATTGCA
* * *
6263012 TTTTAAAGGCCTAGTTGTGAGATCCATTT-TATGTTTCCATTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTCCATTTACAT-TTT--ATTGCA
* * **
6263056 TTTTAGAGACCTAATTGTGAGGTCCATTTACATTTTGCTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTCCATTTACATTTTATTGCA
* * * ** *** *
6263098 CTTTAGAGGCCTAGTTGTGTGATCTTTTTTTGTTTTTGTTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTC-CATTTACATTTTATTGCA
* **
6263141 TTTTAAAAACCTAGTTGTGAGGTCCAATTTTCATTTGCATTTT-TGCTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTCC-A-TTT-A----CATTTTAT--TGCA
* * *
6263191 -TTTAGAGGCCTAGTTGTGAGATCCATCTACATTTTTGTTGCA
1 TTTTAGAGGCCTAGTTGTGAGGTCCATTTACA-TTTTATTGCA
* * * *
6263233 TTTT-GAAGGCTTAGTTGTGAGGTTCGTTTACATTTCTATTGCG
1 TTTTAG-AGGCCTAGTTGTGAGGTCCATTTACATTT-TATTGCA
* * * * * *
6263276 TTTTAGTGACTTAGTTGTGAAGTCCATTTTCATTTCTATTGTA
1 TTTTAGAGGCCTAGTTGTGAGGTCCATTTACATTT-TATTGCA
6263319 TTTT
1 TTTT
6263323 TGTTTCAAAG
Statistics
Matches: 237, Mismatches: 54, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
41 2 0.01
42 62 0.26
43 100 0.42
44 38 0.16
45 2 0.01
46 1 0.00
47 2 0.01
48 2 0.01
49 24 0.10
50 4 0.02
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (42 bp):
TTTTAGAGGCCTAGTTGTGAGGTCCATTTACATTTTATTGCA
Found at i:6263113 original size:86 final size:85
Alignment explanation
Indices: 6262970--6263216 Score: 262
Period size: 86 Copynumber: 2.8 Consensus size: 85
6262960 TCCATTTTGG
* * ** * *
6262970 TTTTAGAGGCCTAGTTGTGAGGTTCATTTACATTTTATTTCATTTTAAAGGCCTAGTTGTGAGAT
1 TTTTAGAGACCTAGTTGTGAGGTCCATTTACATTTTGCTGCA-TTTAGAGGCCTAGTTGTGAGAT
6263035 CCATTTTATGTTTCCATTGCA
65 CCATTTTATGTTTCCATTGCA
* *
6263056 TTTTAGAGACCTAATTGTGAGGTCCATTTACATTTTGCTGCACTTTAGAGGCCTAGTTGTGTGAT
1 TTTTAGAGACCTAGTTGTGAGGTCCATTTACATTTTGCTGCA-TTTAGAGGCCTAGTTGTGAGAT
* * ***
6263121 -CTTTTTTTGTTTTTGTTGCA
65 CCATTTTATGTTTCCATTGCA
* *
6263141 TTTTAAAAACCTAGTTGTGAGGTCCAATTTTCATTTGCATTTTTGCTGCATTTAGAGGCCTAGTT
1 TTTTAGAGACCTAGTTGTGAGGTCC-A-TTT-A----CA-TTTTGCTGCATTTAGAGGCCTAGTT
6263206 GTGAGATCCAT
58 GTGAGATCCAT
6263217 CTACATTTTT
Statistics
Matches: 133, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
85 37 0.28
86 57 0.43
87 3 0.02
88 1 0.01
92 23 0.17
93 12 0.09
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (85 bp):
TTTTAGAGACCTAGTTGTGAGGTCCATTTACATTTTGCTGCATTTAGAGGCCTAGTTGTGAGATC
CATTTTATGTTTCCATTGCA
Found at i:6263248 original size:92 final size:92
Alignment explanation
Indices: 6263080--6263255 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
6263070 TTGTGAGGTC
* ** * ***
6263080 CATTTACATTTTGCTGCACTTTAGAGGCCTAGTTGTGTGATCTTTTTTTGTTTTTGTTGCATTTT
1 CATTTACATTTTGCTGCACTTTAGAGGCCTAGTTGTGAGATCCATCTACATTTTTGTTGCATTTT
6263145 AAAAACCTAGTTGTGAGGTCCAATTTT
66 AAAAACCTAGTTGTGAGGTCCAATTTT
*
6263172 CATTTGCATTTTTGCTGCA-TTTAGAGGCCTAGTTGTGAGATCCATCTACATTTTTGTTGCATTT
1 CATTTACA-TTTTGCTGCACTTTAGAGGCCTAGTTGTGAGATCCATCTACATTTTTGTTGCATTT
* ** *
6263236 TGAAGGCTTAGTTGTGAGGT
65 TAAAAACCTAGTTGTGAGGT
6263256 TCGTTTACAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 61 0.86
93 10 0.14
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.45
Consensus pattern (92 bp):
CATTTACATTTTGCTGCACTTTAGAGGCCTAGTTGTGAGATCCATCTACATTTTTGTTGCATTTT
AAAAACCTAGTTGTGAGGTCCAATTTT
Found at i:6265021 original size:200 final size:200
Alignment explanation
Indices: 6264677--6265055 Score: 677
Period size: 200 Copynumber: 1.9 Consensus size: 200
6264667 TTAGGGTTAT
*
6264677 TTATAGGGTTATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCCGCTTTTTGCAGAAAA
1 TTATAGGGTTATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCCGCCTTTTGCAGAAAA
* * *
6264742 GGATCGCCGTATGGACTAATTGCAGTTCTCGTTTCTCTGCTTTTGATTTCTCCCCGATTTTGAAA
66 GGATCGCCGCATGGACTAATTGCAGTTCTCGTCTCTCTGCTTTTGAATTCTCCCCGATTTTGAAA
* *
6264807 TTTCAGGGAAATTAATTGCCAAATAGGTCCTCTGCTTCTTACATTTTTTTATCCTATTGATTTAG
131 TTTCAGGCAAATTAATTGCCAAATAGGTACTCTGCTTCTTACATTTTTTTATCCTATTGATTTAG
6264872 ATTTC
196 ATTTC
*
6264877 TTATAGGGTTATGTAAAGGGATATTTTCTACATAATTCTTTCTACGTCCCGCCTTTTGCAGAAAA
1 TTATAGGGTTATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCCGCCTTTTGCAGAAAA
*
6264942 GGATCGCCGCATGGACTAATTGCAGTTCTCGTCTCTCTGCTTTTTAATTCTCCCCGATTTTGAAA
66 GGATCGCCGCATGGACTAATTGCAGTTCTCGTCTCTCTGCTTTTGAATTCTCCCCGATTTTGAAA
*
6265007 TTTCAGGCAAATTAATTGCCAAATAGGTACTCTGTTTCTTACATTTTTT
131 TTTCAGGCAAATTAATTGCCAAATAGGTACTCTGCTTCTTACATTTTTT
6265056 CTTAACTGCT
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
200 170 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (200 bp):
TTATAGGGTTATGTAAAGGGATATTTTCTACATAATTCCTTCTACGTCCCGCCTTTTGCAGAAAA
GGATCGCCGCATGGACTAATTGCAGTTCTCGTCTCTCTGCTTTTGAATTCTCCCCGATTTTGAAA
TTTCAGGCAAATTAATTGCCAAATAGGTACTCTGCTTCTTACATTTTTTTATCCTATTGATTTAG
ATTTC
Found at i:6266912 original size:253 final size:250
Alignment explanation
Indices: 6266453--6266959 Score: 700
Period size: 251 Copynumber: 2.0 Consensus size: 250
6266443 GCTTATTTTG
* *
6266453 AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGCATTGTGTATTTTATCATAGGTTAGCTTCTTT
1 AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGAATTGTGTATTTTATCATAGGTTAGCTTATTT
* *
6266518 TTGAATTTCACACTTTAATTTTTTTTATATTAGGTTTTAAATTAGTTCATTTTAGGATCTTGGAT
66 TTGAATTTCACACTTTAATTTTTTTTATATTAGGTTCTAAATTAGTTCATTTTAGGATCTTAGAT
6266583 CTAAATATTAGGTTTATTTTGGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATTGTAGG
131 CTAAATATTAGGTTTATTTTGGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATTGTAGG
***
6266648 TTTTAAAATTTTTATGTTAAGTTACATATAA-GATTCTATTTTTTAAAAATTAAATT
196 TTTTAAAA-TTTTATGTTAAGTTACATATAATG-TTCTATTTAAAAAAAATTAAATT
* * * ** *
6266704 AAGTATTGGGATTATTTGAGGTTTTCTCTTTAGAATTGTGTACTTTTTTTATGGTTGGTTAGCTT
1 AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGAATTGTGTA----TTTTATCATAGGTTAGCTT
* * *
6266769 ATTTTTGAATTTCA-TC-TTAA-TTTTTTT-TATTAGGTTCTAAATTTGTTCATTTTAGGATTTT
62 ATTTTTGAATTTCACACTTTAATTTTTTTTATATTAGGTTCTAAATTAGTTCATTTTAGGATCTT
* * * **
6266830 AGATTTGAATATTAGGCTTTTTTTTCGGTTAAATTTCTAGAAATTAGATTTTAGGACTTTTAGAT
127 AGATCTAAATATTAGG-TTTATTTT-GGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGAT
* *
6266895 TGTAGGTTTTAAAATTTTATGTTAAGTTACATTTAATGTTTTATTTAAAAAAAATTAAATT
190 TGTAGGTTTTAAAATTTTATGTTAAGTTACATATAATGTTCTATTTAAAAAAAATTAAATT
6266956 AAGT
1 AAGT
6266960 CTTTTAAACT
Statistics
Matches: 226, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
251 82 0.36
252 58 0.26
253 56 0.25
254 1 0.00
255 29 0.13
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (250 bp):
AAGTATTAGGATTATTTAAAGTTTTCTCTTTAGAATTGTGTATTTTATCATAGGTTAGCTTATTT
TTGAATTTCACACTTTAATTTTTTTTATATTAGGTTCTAAATTAGTTCATTTTAGGATCTTAGAT
CTAAATATTAGGTTTATTTTGGTTAAATTTCTAGAAATTAGATTTTAACACTTTTAGATTGTAGG
TTTTAAAATTTTATGTTAAGTTACATATAATGTTCTATTTAAAAAAAATTAAATT
Found at i:6269633 original size:43 final size:43
Alignment explanation
Indices: 6269494--6269700 Score: 181
Period size: 43 Copynumber: 4.8 Consensus size: 43
6269484 GCGTCGCTAT
* * *
6269494 CTTTAGCGGCGC-TTTCACCACAAACG-TCGCTAAAGGTCATGAT
1 CTTTAGCGGCGCTTTTC-CGACAAACGCT-GCTAAAGGACATGAC
** * * * **
6269537 CTTTAGCGGTACTTTTCCTAGAAACGCTGCTAAAGGTCATGGT
1 CTTTAGCGGCGCTTTTCCGACAAACGCTGCTAAAGGACATGAC
* *
6269580 CTTTAGCGGCGCTTTTCCGACAAACGCTGTTAAAGGACATGGC
1 CTTTAGCGGCGCTTTTCCGACAAACGCTGCTAAAGGACATGAC
* * *
6269623 CTTTAGCGGCGC-TTACCAAACAAACGCCGCTAAA-GACAATGAC
1 CTTTAGCGGCGCTTTTCC-GACAAACGCTGCTAAAGGAC-ATGAC
* *
6269666 CTTTAGCGGCGCTTCTCCAGA-AAACGCCGCTAAAG
1 CTTTAGCGGCGCTTTTCC-GACAAACGCTGCTAAAG
6269701 ACCCTGATCG
Statistics
Matches: 138, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
42 7 0.05
43 121 0.88
44 10 0.07
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCGACAAACGCTGCTAAAGGACATGAC
Found at i:6275540 original size:25 final size:25
Alignment explanation
Indices: 6275506--6275625 Score: 143
Period size: 25 Copynumber: 4.8 Consensus size: 25
6275496 GCTATGTAAG
*
6275506 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
*
6275531 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTATGTA
* *
6275556 TTATGTAAGTTATTTAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
* * * *
6275581 TTATGTAAGTCATGTAGGCTATGTA
1 TTATGTAAGTTATATAAGTTATGTA
6275606 TTATGTAAGTTATAATAAGT
1 TTATGTAAGTTAT-ATAAGT
6275626 AAGTTATGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
25 74 0.95
26 4 0.05
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTATGTA
Found at i:6275561 original size:50 final size:50
Alignment explanation
Indices: 6275494--6275625 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 50
6275484 AAGTATAATT
*
6275494 AAGCTATGTAAGTTATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGA
1 AAGCTATGT-A-TTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGA
* * * *
6275546 AAGTTATGTATTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGT
1 AAGCTATGTATTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGA
*
6275596 AGGCTATGTATTATGTAAGTTATAATAAGT
1 AAGCTATGTATTATGTAAGTTAT-ATAAGT
6275626 AAGTTATGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 57 0.80
51 6 0.08
52 8 0.11
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.43
Consensus pattern (50 bp):
AAGCTATGTATTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGA
Found at i:6275649 original size:34 final size:34
Alignment explanation
Indices: 6275610--6275686 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 34
6275600 TATGTATTAT
6275610 GTAAGTTATA-ATAAGTAAGTTATGAAAGTTATATA
1 GTAAGTTATATAT-A-TAAGTTATGAAAGTTATATA
*
6275645 -TAAGTT-TATATATAAGTTATGTAAGTTATATA
1 GTAAGTTATATATATAAGTTATGAAAGTTATATA
6275677 TGTAAGTTAT
1 -GTAAGTTAT
6275687 GTGTTGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
32 19 0.51
33 3 0.08
34 14 0.38
35 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.43
Consensus pattern (34 bp):
GTAAGTTATATATATAAGTTATGAAAGTTATATA
Found at i:6275656 original size:10 final size:11
Alignment explanation
Indices: 6275635--6275677 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
6275625 TAAGTTATGA
6275635 AAGTTATATAT
1 AAGTTATATAT
6275646 AAGTTTATATAT
1 AAG-TTATATAT
*
6275658 AAG-T-TATGT
1 AAGTTATATAT
6275667 AAGTTATATAT
1 AAGTTATATAT
6275678 GTAAGTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 7 0.26
12 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:6275680 original size:13 final size:13
Alignment explanation
Indices: 6275662--6275686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6275652 ATATATAAGT
6275662 TATGTAAGTTATA
1 TATGTAAGTTATA
6275675 TATGTAAGTTAT
1 TATGTAAGTTAT
6275687 GTGTTGTGTA
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATGTAAGTTATA
Found at i:6275688 original size:9 final size:9
Alignment explanation
Indices: 6275493--6275673 Score: 107
Period size: 9 Copynumber: 20.9 Consensus size: 9
6275483 TAAGTATAAT
*
6275493 TAAGCTATG
1 TAAGTTATG
6275502 TAAGTTATG
1 TAAGTTATG
*
6275511 TAAGTTATA
1 TAAGTTATG
*
6275520 TAAGTTGTG
1 TAAGTTATG
*
6275529 T-A-TAATG
1 TAAGTTATG
6275536 TAAGTTATG
1 TAAGTTATG
*
6275545 AAAGTTATG
1 TAAGTTATG
6275554 T-A-TTATG
1 TAAGTTATG
*
6275561 TAAGTTATT
1 TAAGTTATG
*
6275570 TAAGTTGTG
1 TAAGTTATG
6275579 T-A-TTATG
1 TAAGTTATG
*
6275586 TAAGTCATG
1 TAAGTTATG
* *
6275595 TAGGCTATG
1 TAAGTTATG
6275604 T-A-TTATG
1 TAAGTTATG
6275611 TAAGTTA--
1 TAAGTTATG
*
6275618 TAA--TAAG
1 TAAGTTATG
6275625 TAAGTTATG
1 TAAGTTATG
* *
6275634 AAAGTTATATA
1 TAAG-T-TATG
*
6275645 TAAGTTTATATA
1 TAAG--T-TATG
6275657 TAAGTTATG
1 TAAGTTATG
6275666 TAAGTTAT
1 TAAGTTAT
6275674 ATATGTAAGT
Statistics
Matches: 133, Mismatches: 24, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
5 2 0.02
7 26 0.20
8 7 0.05
9 79 0.59
10 2 0.02
11 6 0.05
12 11 0.08
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:6275740 original size:9 final size:9
Alignment explanation
Indices: 6275728--6275788 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
6275718 CAAGTTATGA
6275728 ATGTAAGTT
1 ATGTAAGTT
6275737 ATGTAAG-T
1 ATGTAAGTT
*
6275745 AGTGT--GTA
1 A-TGTAAGTT
6275753 ATGTAAGTT
1 ATGTAAGTT
6275762 ATGT-A-TT
1 ATGTAAGTT
6275769 ATGTAAGTT
1 ATGTAAGTT
*
6275778 ATTTAAGTT
1 ATGTAAGTT
6275787 AT
1 AT
6275789 TTNNNNNNNN
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 10 0.23
8 5 0.12
9 28 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:6275772 original size:16 final size:16
Alignment explanation
Indices: 6275735--6275779 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
6275725 TGAATGTAAG
*
6275735 TTATGTAAG-TAGTGTG
1 TTATGTAAGTTA-TGTA
*
6275751 TAATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
6275767 TTATGTAAGTTAT
1 TTATGTAAGTTAT
6275780 TTAAGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:6279909 original size:88 final size:89
Alignment explanation
Indices: 6279792--6279954 Score: 292
Period size: 88 Copynumber: 1.8 Consensus size: 89
6279782 CCTCAAACCC
* *
6279792 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCTT
1 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCT
6279857 AAACCCTAACTTGACCCCAAATCT
66 AAACCCTAACTTGACCCCAAATCT
*
6279881 CTAACCTCTAA-CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCT
1 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCT
6279945 AAACCCTAAC
66 AAACCCTAAC
6279955 CCCTAACCCC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 61 0.86
89 10 0.14
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (89 bp):
CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCT
AAACCCTAACTTGACCCCAAATCT
Found at i:6279974 original size:70 final size:69
Alignment explanation
Indices: 6279881--6280025 Score: 245
Period size: 70 Copynumber: 2.1 Consensus size: 69
6279871 CCCCAAATCT
* *
6279881 CTAACCTCTAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTA
1 CTAACCCCTAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
6279946 AACC
66 AACC
*
6279950 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCT
1 CTAACCCCTAA-CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCT
*
6280015 AAACT
65 AAACC
6280020 CTAACC
1 CTAACC
6280026 TAACACTAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
69 10 0.14
70 61 0.86
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (69 bp):
CTAACCCCTAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
AACC
Found at i:6280079 original size:14 final size:14
Alignment explanation
Indices: 6280062--6280092 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6280052 TCCTAACTTT
*
6280062 TAACCTCTAACCCA
1 TAACCACTAACCCA
6280076 TAACCACTAACCCA
1 TAACCACTAACCCA
6280090 TAA
1 TAA
6280093 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (14 bp):
TAACCACTAACCCA
Found at i:6280136 original size:14 final size:15
Alignment explanation
Indices: 6280119--6280151 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6280109 CTTAAATCAG
6280119 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
6280133 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
6280148 AATC
1 AATC
6280152 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:6280697 original size:81 final size:82
Alignment explanation
Indices: 6280538--6280744 Score: 292
Period size: 81 Copynumber: 2.5 Consensus size: 82
6280528 AAATGTTTTT
* * * ** * * *
6280538 GCGGTGCTTTTTCAAAAACGCCGTTAAATCTCGGAGCATTAGCGGCGCTTCTCCAAAAACACCGC
1 GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACTTCTCCAAAAACACCGC
6280603 TAAAGATCTGAGCATTA
66 TAAAGATCTGAGCATTA
*
6280620 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACTTCT-CAAAAA-AGCCG
1 GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACTTCTCCAAAAACA-CCG
6280683 CTAAAGATCTGAGCATTA
65 CTAAAGATCTGAGCATTA
* *
6280701 GCGGCGCTTTTACAAAAACGCTGCTAAAGATCTGGGCATTAGCG
1 GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTAGCG
6280745 GCGCTTTTTT
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 68 0.60
82 44 0.39
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (82 bp):
GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACTTCTCCAAAAACACCGC
TAAAGATCTGAGCATTA
Found at i:6280751 original size:41 final size:41
Alignment explanation
Indices: 6280538--6280769 Score: 295
Period size: 41 Copynumber: 5.7 Consensus size: 41
6280528 AAATGTTTTT
* * * ** *
6280538 GCGGTGCTTTTTCAAAAACGCCGTTAAATCTCGGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
6280579 GCGGCGCTTCTCCAAAAACACCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
6280620 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
6280661 GCGACACTTCT-CAAAAAAGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
6280701 GCGGCGCTTTTACAAAAACGCTGCTAAAGATCTGGGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
***
6280742 GCGGCGCTTTTTTTAAAACGCCGCTAAA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAA
6280770 TCCCCAAAAG
Statistics
Matches: 166, Mismatches: 24, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 36 0.22
41 130 0.78
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:6282240 original size:32 final size:32
Alignment explanation
Indices: 6282204--6282277 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
6282194 GAGACACGAT
* *
6282204 CGTGTGTGCCACACGGGCT-AGGCCGAAT-TGGG
1 CGTGTGGGCCACACGGG-TAAGGCC-AATCTGAG
*
6282236 CGTGTGGGCCATACGGGTAAGGCCAATCTGAG
1 CGTGTGGGCCACACGGGTAAGGCCAATCTGAG
6282268 CGTGTGGGCC
1 CGTGTGGGCC
6282278 TAGACGGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.16, C:0.24, G:0.41, T:0.19
Consensus pattern (32 bp):
CGTGTGGGCCACACGGGTAAGGCCAATCTGAG
Found at i:6286553 original size:129 final size:124
Alignment explanation
Indices: 6286272--6286578 Score: 323
Period size: 129 Copynumber: 2.4 Consensus size: 124
6286262 AATAAAGACC
* * * * *
6286272 TTTAGCGGCGCTTTT-ATAAAAACGCCGCTAAAAGTCATGTCCTTTAGCGGCGCTCTTCCAACAA
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAGAG-CATG-ACTTTAGCGGCGCTCTCCCAACAA
* **
6286336 ACGCCGCTATAGACCAAGACTAGTGGCGCTACTCCCTAAAATGCCACTATAGATCACGACT
64 ACGCCGCTATAGACCAAGACTAGTAGCGCTACTCCCTAAAACACCACTATAGATCACGACT
* * *
6286397 TTTAGCGGTGCCTTTCCCACAAACGCCGCTATAGAGCATGACTTTTAGCGGCGCTTCTCCCAA-A
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTA-AGAGCATGAC-TTTAGCGGCGC-TCTCCCAACA
* * ** * *
6286461 AACGCCGCTATAGATCATGACTTTTAGCAGC-ACTTCTCCTACAAACACCGCTATAGATCATGAC
63 AACGCCGCTATAGACCAAGACTAGTAGC-GCTAC-TC-CCTA-AAACACCACTATAGATCACGAC
6286525 T
124 T
* *
6286526 TTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAACATGAACTTTAGCGGCG
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCT-AAGAGCATG-ACTTTAGCGGCG
6286579 TTTTTCAAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
125 14 0.09
126 53 0.35
127 14 0.09
128 4 0.03
129 62 0.41
130 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (124 bp):
TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAGAGCATGACTTTAGCGGCGCTCTCCCAACAAAC
GCCGCTATAGACCAAGACTAGTAGCGCTACTCCCTAAAACACCACTATAGATCACGACT
Found at i:6286584 original size:43 final size:43
Alignment explanation
Indices: 6286291--6286577 Score: 244
Period size: 43 Copynumber: 6.7 Consensus size: 43
6286281 GCTTTTATAA
* * * * * *
6286291 AAACGCCGCTA-AAAGTCATGTCCTTTAGCGGCGCTCTTCCAAC
1 AAACGCCGCTATAGA-TCATGACTTTTAGCGGCACTTTTCCCAC
* * * * **
6286334 AAACGCCGCTATAGACCAAGAC---TAGTGGCGCTACTCCCTA-
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCC-AC
* * * ** *
6286374 AAATGCCACTATAGATCACGACTTTTAGCGGTGCCTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCCAC
* * * *
6286417 AAACGCCGCTATAGAGCATGACTTTTAGCGGCGCTTCTCCCAA
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCCAC
* * *
6286460 AAACGCCGCTATAGATCATGACTTTTAGCAGCACTTCTCCTAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCCAC
* *
6286503 AAACACCGCTATAGATCATGACTTTTAGCGGCACTTTTCCTAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCCAC
* *
6286546 AAACGCCGCTAAAGAACATGAAC-TTTAGCGGC
1 AAACGCCGCTATAGATCATG-ACTTTTAGCGGC
6286578 GTTTTTCAAA
Statistics
Matches: 201, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
40 30 0.15
41 1 0.00
42 1 0.00
43 165 0.82
44 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCACTTTTCCCAC
Found at i:6286935 original size:21 final size:21
Alignment explanation
Indices: 6286879--6286936 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
6286869 TCCTCTGCTT
* *
6286879 TGCTTCCCTCACTGCAGCCTC
1 TGCTTCCTTCACTGCTGCCTC
* *
6286900 TGC-TGCTCTCGCTGCTGCCTC
1 TGCTTCCT-TCACTGCTGCCTC
*
6286921 TGCTTCCTTCCCTGCT
1 TGCTTCCTTCACTGCT
6286937 ACATCAGCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.03, C:0.45, G:0.17, T:0.34
Consensus pattern (21 bp):
TGCTTCCTTCACTGCTGCCTC
Found at i:6292324 original size:9 final size:9
Alignment explanation
Indices: 6292310--6292902 Score: 209
Period size: 9 Copynumber: 64.7 Consensus size: 9
6292300 TATGTATTAA
6292310 GTAAGTTAT
1 GTAAGTTAT
6292319 GTAAGTTAT
1 GTAAGTTAT
6292328 GT-A-TTAT
1 GTAAGTTAT
*
6292335 ATAAGTTAT
1 GTAAGTTAT
6292344 GTAAGTTAT
1 GTAAGTTAT
6292353 GT-A-TTAT
1 GTAAGTTAT
6292360 GTAAGTTAT
1 GTAAGTTAT
*
6292369 GTAAGTTGT
1 GTAAGTTAT
*
6292378 GTACAATGTAAT
1 GT--AA-GTTAT
6292390 -TAAGTTAT
1 GTAAGTTAT
6292398 GTAAG-T-T
1 GTAAGTTAT
*
6292405 GTATG-TATT
1 GTAAGTTA-T
*
6292414 GTAACTTAT
1 GTAAGTTAT
*
6292423 GTGAGTTAT
1 GTAAGTTAT
* *
6292432 TTAAGTAAT
1 GTAAGTTAT
*
6292441 GGTATGATATAT
1 -GTAAG-T-TAT
*
6292453 ATAAGTTATTAT
1 GTAAG---TTAT
6292465 GTAAGTTAT
1 GTAAGTTAT
*
6292474 GTGAGTTAT
1 GTAAGTTAT
* *
6292483 TTAAGTAAT
1 GTAAGTTAT
*
6292492 GGTATAATATAT
1 -GTA-AGT-TAT
*
6292504 ATAAGTTATTAT
1 GTAAG---TTAT
6292516 GTAAGTTAT
1 GTAAGTTAT
*
6292525 GTGAGTTAT
1 GTAAGTTAT
6292534 GTATA-TTAT
1 GTA-AGTTAT
* *
6292543 GTGATTTAT
1 GTAAGTTAT
*
6292552 TTAAGTTAT
1 GTAAGTTAT
6292561 G---GTT-T
1 GTAAGTTAT
6292566 G-ATA-TATAT
1 GTA-AGT-TAT
*
6292575 ATAAGTTAT
1 GTAAGTTAT
6292584 -TAAGTTAT
1 GTAAGTTAT
6292592 GTAAGTTAT
1 GTAAGTTAT
*
6292601 GTGAGTTAT
1 GTAAGTTAT
* *
6292610 TTAAGTAAT
1 GTAAGTTAT
*
6292619 GGTATGATATAT
1 -GTAAG-T-TAT
*
6292631 ATAAGTTATTGT
1 GTAAGTTA---T
6292643 GTAAGTTAT
1 GTAAGTTAT
*
6292652 GTGAGTTAT
1 GTAAGTTAT
6292661 GTATA-TTAT
1 GTA-AGTTAT
* *
6292670 GTGATTTAT
1 GTAAGTTAT
*
6292679 TTAAGTTAT
1 GTAAGTTAT
6292688 G---GTT-T
1 GTAAGTTAT
6292693 GATATA-TATAT
1 G-TA-AGT-TAT
* *
6292704 ATAAGTTGT
1 GTAAGTTAT
6292713 -TAAGTTAT
1 GTAAGTTAT
6292721 GTAAGTTAT
1 GTAAGTTAT
* *
6292730 CTGAGTTAT
1 GTAAGTTAT
6292739 GT-AGATTAT
1 GTAAG-TTAT
* *
6292748 GATATGGTGCAT
1 G-TA-AGT-TAT
*
6292760 ATAAGTTAT
1 GTAAGTTAT
*
6292769 -TAAGTTAG
1 GTAAGTTAT
6292777 GTAAGTTAT
1 GTAAGTTAT
*
6292786 GCAAGTTAT
1 GTAAGTTAT
6292795 GTAAGTTAT
1 GTAAGTTAT
*
6292804 GATATA-TATAA
1 G-TA-AGT-TAT
*
6292815 GT-TGTTAT
1 GTAAGTTAT
6292823 GTAAGTTAT
1 GTAAGTTAT
*
6292832 GTGAGTTAT
1 GTAAGTTAT
6292841 GT-AGATTAT
1 GTAAG-TTAT
*
6292850 GATATGATATAT
1 G-TAAG-T-TAT
*
6292862 ATAAGTTAT
1 GTAAGTTAT
*
6292871 -TAAGTTAG
1 GTAAGTTAT
6292879 GTAAGTTAT
1 GTAAGTTAT
*
6292888 GTGAGTTAT
1 GTAAGTTAT
*
6292897 TTAAGT
1 GTAAGT
6292903 AATGGTATGA
Statistics
Matches: 436, Mismatches: 83, Indels: 130
0.67 0.13 0.20
Matches are distributed among these distances:
5 4 0.01
6 6 0.01
7 18 0.04
8 49 0.11
9 261 0.60
10 29 0.07
11 29 0.07
12 37 0.08
13 3 0.01
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:6292330 original size:25 final size:25
Alignment explanation
Indices: 6292299--6292431 Score: 137
Period size: 25 Copynumber: 5.2 Consensus size: 25
6292289 TAATATATAT
6292299 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
6292324 TTATGTATTATA-TAAGTTATGTAAG
1 TTATGTATTA-AGTAAGTTATGTAAG
*
6292349 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
6292374 TTGTGTACAATGTAATTAAGTTATGTAAG
1 TTATGT---AT-TAAGTAAGTTATGTAAG
* *
6292403 TTGTATGTATT--GTAACTTATGTGAG
1 -T-TATGTATTAAGTAAGTTATGTAAG
6292428 TTAT
1 TTAT
6292432 TTAAGTAATG
Statistics
Matches: 92, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 62 0.67
26 1 0.01
27 1 0.01
28 4 0.04
29 15 0.16
30 1 0.01
31 4 0.04
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:6292474 original size:51 final size:51
Alignment explanation
Indices: 6292413--6292942 Score: 273
Period size: 51 Copynumber: 10.2 Consensus size: 51
6292403 TTGTATGTAT
* *
6292413 TGTAACTTATGTGAGTTATTTAAGTAATGGTATGATATATATAAGTTATTA
1 TGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTA
* *
6292464 TGTAAGTTATGTGAGTTATTTAAGTAATGGTATAATATATATAAGTTATTA
1 TGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTA
* * * *
6292515 TGTAAGTTATGTGAGTTATGTATA-TTAT-G--TGATTTATTTAAGTTATGGTT
1 TGTAAGTTATGTGAGTTATTTA-AGTTATGGTATGATATATATAAGTTAT--TA
* * * * *
6292565 TG-ATA-TATATATAAGTTA-TTAAGTTAT-GTAAG-T-TATGTGAGTTATTTA
1 TGTA-AGT-TATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTA-TTA
* * * * * *
6292613 AGTAATGGTA--TGA-TATATATAAGTTAT--TGTG-TA-AGT-TATGTGAGTTA
1 TGTAA-GTTATGTGAGT-TATTTAAGTTATGGTATGATATA-TATAAGTTA-TTA
* *
6292660 TGTATA-TTATGTGATTTATTTAAGTTATGGTTTGATATATATATATAAGTTGTTAAGTTA
1 TGTA-AGTTATGTGAGTTATTTAAGTTATGG--T-AT-GATATATATAA---GTT-A-TTA
* * * * **
6292720 TGTAAGTTATCTGAGTTATGT-AGATTATGATATGGTGCATATAAG---TTA
1 TGTAAGTTATGTGAGTTATTTAAG-TTATGGTATGATATATATAAGTTATTA
* * ** *
6292768 T-TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGATATATATAAGTTGTTA
1 TGTAAGTTATGTGAGTTATTTAAGTTATG---G-TATGATATATATAAGTTATTA
* *
6292822 TGTAAGTTATGTGAGTTATGT-AGATTATGATATGATATATATAAGTTATTAA
1 TGTAAGTTATGTGAGTTATTTAAG-TTATGGTATGATATATATAAGTTATT-A
*
6292874 GTTAGGTAAGTTATGTGAGTTATTTAAGTAATGGTATGATATTTATATAAGTTATTA
1 --T--GTAAGTTATGTGAGTTATTTAAGTTATGGTATGATA--TATATAAGTTATTA
6292931 TGTAAGTTATGT
1 TGTAAGTTATGT
6292943 ATATTATGTA
Statistics
Matches: 370, Mismatches: 56, Indels: 104
0.70 0.11 0.20
Matches are distributed among these distances:
46 3 0.01
47 38 0.10
48 48 0.13
49 22 0.06
50 16 0.04
51 105 0.28
52 3 0.01
53 13 0.04
54 7 0.02
55 25 0.07
56 40 0.11
57 5 0.01
58 14 0.04
59 5 0.01
60 26 0.07
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (51 bp):
TGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTA
Found at i:6292551 original size:27 final size:27
Alignment explanation
Indices: 6292510--6292952 Score: 113
Period size: 27 Copynumber: 16.3 Consensus size: 27
6292500 ATATATAAGT
*
6292510 TATTATGTAAGTTATGTGAGTTATGTA
1 TATTATGTAAGTTATGTAAGTTATGTA
* * *
6292537 TATTATGTGATTTATTTAAGTTATGGTTTGA
1 TATTATGTAAGTTATGTAAGTTAT-G--T-A
*
6292568 TATATATATAAGTTAT-TAAGTTATGTA
1 TAT-TATGTAAGTTATGTAAGTTATGTA
* * *
6292595 -AGTTATGTGAGTTATTTAAGTAATGGTA
1 TA-TTATGTAAGTTATGTAAGTTAT-GTA
*
6292623 TGATATATATAAGTTAT-T--G---TGTA
1 T-AT-TATGTAAGTTATGTAAGTTATGTA
*
6292646 -AGTTATGTGAGTTATGTATA-TTATGTGA
1 TA-TTATGTAAGTTATGTA-AGTTATGT-A
*
6292674 T-TTATTTAAGTTATG---GTT-TGATA
1 TATTATGTAAGTTATGTAAGTTATG-TA
* *
6292697 TATATATATAAGTTGT-TAAGTTATGTA
1 TAT-TATGTAAGTTATGTAAGTTATGTA
* *
6292724 -AGTTATCTGAGTTATGT-AGATTATG-A
1 TA-TTATGTAAGTTATGTAAG-TTATGTA
* *
6292750 TATGGTGCATATAAGTTAT-TAAGTTAGGTA
1 TAT--T--ATGTAAGTTATGTAAGTTATGTA
*
6292780 -AGTTATGCAAGTTATGTAAGTTATGATA
1 TA-TTATGTAAGTTATGTAAGTTATG-TA
* *
6292808 TATATAAGT-TGTTATGTAAGTTATGTGA
1 TAT-TATGTAAGTTATGTAAGTTATGT-A
*
6292836 -GTTATGT-AGATTATG--A--TATG-A
1 TATTATGTAAG-TTATGTAAGTTATGTA
* *
6292857 TA-TATATAAGTTAT-TAAGTTAGGTA
1 TATTATGTAAGTTATGTAAGTTATGTA
* * *
6292882 -AGTTATGTGAGTTATTTAAGTAATGGTATGA
1 TA-TTATGTAAGTTATGTAAGTTAT-G--T-A
*
6292913 TATTTATATAAGTTATTATGTAAGTTATGTA
1 TA-TTATGTAAG---TTATGTAAGTTATGTA
6292944 TATTATGTA
1 TATTATGTA
6292953 TATCATTGCT
Statistics
Matches: 306, Mismatches: 46, Indels: 125
0.64 0.10 0.26
Matches are distributed among these distances:
21 20 0.07
22 5 0.02
23 11 0.04
24 9 0.03
25 12 0.04
26 49 0.16
27 79 0.26
28 30 0.10
29 12 0.04
30 33 0.11
31 16 0.05
32 18 0.06
34 1 0.00
35 11 0.04
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (27 bp):
TATTATGTAAGTTATGTAAGTTATGTA
Found at i:6292552 original size:69 final size:74
Alignment explanation
Indices: 6292461--6292615 Score: 205
Period size: 69 Copynumber: 2.1 Consensus size: 74
6292451 ATATAAGTTA
6292461 TTATGTAAGTTATGTGAGTTATTTAAGTAATGGTAT-A-ATATATATAAG-TT-A-TTATGTAAG
1 TTATGTAAGTTATGTGAGTTATTTAAGTAATGGTATGATATATATATAAGTTTAAGTTATGTAAG
6292521 TTATGTGAG
66 TTATGTGAG
* * *
6292530 TTATGTATA-TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTATTAAGTTATGT
1 TTATGTA-AGTTATGTGAGTTATTTAAGTAATGGTATGATATATATATAAG-T-TTAAGTTATGT
6292594 AAGTTATGTGAG
63 AAGTTATGTGAG
*
6292606 TTATTTAAGT
1 TTATGTAAGT
6292616 AATGGTATGA
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
69 31 0.42
70 2 0.03
71 11 0.15
74 2 0.03
75 2 0.03
76 25 0.34
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (74 bp):
TTATGTAAGTTATGTGAGTTATTTAAGTAATGGTATGATATATATATAAGTTTAAGTTATGTAAG
TTATGTGAG
Found at i:6292611 original size:127 final size:126
Alignment explanation
Indices: 6292419--6292738 Score: 508
Period size: 127 Copynumber: 2.6 Consensus size: 126
6292409 GTATTGTAAC
* * *
6292419 TTATGTGAGTTATTTAAGTAATGGTATG--ATATATATAAG--TT-A-TTATGTAAGTTATGTGA
1 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTTTAAGTTATGTAAGTTATGTGA
6292478 GTTATTTAAGTAATGGTATAATATATATAAGTTATTATGTAAGTTATGTGAGTTATGTATA
66 GTTATTTAAGTAATGGTATAATATATATAAGTTATTATGTAAGTTATGTGAGTTATGTATA
6292539 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTATTAAGTTATGTAAGTTATGTG
1 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTT-TTAAGTTATGTAAGTTATGTG
* *
6292604 AGTTATTTAAGTAATGGTATGATATATATAAGTTATTGTGTAAGTTATGTGAGTTATGTATA
65 AGTTATTTAAGTAATGGTATAATATATATAAGTTATTATGTAAGTTATGTGAGTTATGTATA
*
6292666 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATATAAGTTGTTAAGTTATGTAAGTTATC
1 TTATGTGATTTATTTAAGTTATGGTTTG--ATATATATATAAGTT-TTAAGTTATGTAAGTTATG
6292731 TGAGTTAT
63 TGAGTTAT
6292739 GTAGATTATG
Statistics
Matches: 184, Mismatches: 7, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
120 25 0.14
122 11 0.06
125 2 0.01
126 1 0.01
127 104 0.57
129 41 0.22
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (126 bp):
TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTTTAAGTTATGTAAGTTATGTGA
GTTATTTAAGTAATGGTATAATATATATAAGTTATTATGTAAGTTATGTGAGTTATGTATA
Found at i:6292662 original size:69 final size:72
Alignment explanation
Indices: 6292576--6292741 Score: 162
Period size: 69 Copynumber: 2.3 Consensus size: 72
6292566 GATATATATA
* *
6292576 TAAGTTAT-TAAGTTATGTAAGTTATGTGAGTTATTTAAGTAATGGTAT-GATATATATAAGTTA
1 TAAGTTATGTGAGTTATGTAAGTTATGTGAGTTATTTAAGTAATGGTATAAATATATATAAGTTA
*
6292639 TT--GTG
66 TTAATTG
* * *
6292644 TAAGTTATGTGAGTTATGTATA-TTATGTGATTTATTTAAGTTATGGTTTGATATATATATATAA
1 TAAGTTATGTGAGTTATGTA-AGTTATGTGAGTTATTTAAGTAATGG--T-ATAAATATATATAA
*
6292708 GTTGTTAAGTTATG
62 GTTATTAA--T-TG
*
6292722 TAAGTTATCTGAGTTATGTA
1 TAAGTTATGTGAGTTATGTA
6292742 GATTATGATA
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
68 8 0.10
69 32 0.40
70 1 0.01
71 1 0.01
72 2 0.03
73 15 0.19
78 21 0.26
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (72 bp):
TAAGTTATGTGAGTTATGTAAGTTATGTGAGTTATTTAAGTAATGGTATAAATATATATAAGTTA
TTAATTG
Found at i:6292763 original size:56 final size:53
Alignment explanation
Indices: 6292696--6292930 Score: 209
Period size: 56 Copynumber: 4.4 Consensus size: 53
6292686 ATGGTTTGAT
* * *
6292696 ATATATATATAAGTTGTTAAGTTATGTAAGTTATCTGAGTTATGTAGATTATG
1 ATATGTATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGTAGATTATG
*
6292749 ATATGGTGCATATAAGTTATTAAGTTAGGTAAGTTATGC-AAGTTATGTA-AGTTATG
1 ATAT-GT--ATATAAGTTATTAAGTTAGGTAAGTTAT-CTGAGTTATGTAGA-TTATG
* *
6292805 ATA--TATATAAG---TT--GTTATGTAAGTTATGTGAGTTATGTAGATTATG
1 ATATGTATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGTAGATTATG
* *
6292851 ATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTGAGTTATTTAAGTAATGGTATG
1 ATATG---TATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGT-AG--AT--TATG
*
6292912 ATATTTATATAAGTTATTA
1 ATATGTATATAAGTTATTA
6292931 TGTAAGTTAT
Statistics
Matches: 150, Mismatches: 10, Indels: 39
0.75 0.05 0.20
Matches are distributed among these distances:
46 30 0.20
47 1 0.01
48 2 0.01
51 15 0.10
53 5 0.03
54 3 0.02
55 1 0.01
56 66 0.44
57 3 0.02
58 14 0.09
59 2 0.01
61 8 0.05
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (53 bp):
ATATGTATATAAGTTATTAAGTTAGGTAAGTTATCTGAGTTATGTAGATTATG
Done.