Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 224 of 427
Found at i:63303492 original size:48 final size:48
Alignment explanation
Indices: 63303396--63304042 Score: 1027
Period size: 48 Copynumber: 13.4 Consensus size: 48
63303386 TGTAGTGAAT
* *
63303396 ATGTGAAATATGTATGAGAAAGGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATA--TGTATATGTGGTAAAGCCGAATGGCTA
*
63303446 ATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
63303494 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
63303542 ATGTGAAATATGCATGAGA-ATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
63303591 ATGTGAAATATGTAT-ATG-TA--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGA-GATATGTATATGTGGTAAAGCCGAATGGCTA
*
63303636 ATGTGAAATATGCATGAGA-ATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
*
63303685 ATGTGAAATATGCATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
63303733 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
63303781 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
63303829 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
63303879 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
63303927 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
63303975 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
63304023 GTGTGAAATATATAGGAGAT
1 ATGTGAAATATGTATGAGAT
63304043 GTGTGTATAT
Statistics
Matches: 563, Mismatches: 21, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
45 41 0.07
46 1 0.00
47 3 0.01
48 363 0.64
49 85 0.15
50 70 0.12
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:63303898 original size:194 final size:194
Alignment explanation
Indices: 63303396--63304033 Score: 1049
Period size: 194 Copynumber: 3.3 Consensus size: 194
63303386 TGTAGTGAAT
* *
63303396 ATGTGAAATATGTATGAGAAAGGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGATA--TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* * * *
63303461 GAGATATG--TATATGTGGCAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGT
64 GAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT
*
63303524 GGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGA-ATGTATATATGTGGTAAAGCCGAATGG
129 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGG
63303588 CTA
192 CTA
*
63303591 ATGTGAAATATGTAT-ATG-TA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATG
1 ATGTGAAATATGTATGA-GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
63303652 AG-AATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGATATGTATATGTG
65 AGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
* *
63303716 GTAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
130 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
63303781 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
63303846 GAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
66 GAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
63303911 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
131 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
63303975 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
63304034 ATAGGAGATG
Statistics
Matches: 415, Mismatches: 19, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
189 3 0.01
190 81 0.20
191 88 0.21
192 3 0.01
193 42 0.10
194 182 0.44
195 16 0.04
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (194 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:63305705 original size:27 final size:27
Alignment explanation
Indices: 63305417--63305702 Score: 378
Period size: 27 Copynumber: 10.7 Consensus size: 27
63305407 TACCAAAGTT
*
63305417 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
63305444 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
63305471 CCCTCGATTTATAGAATTACCG-TTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
63305497 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
**
63305524 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
63305551 CCCTTGACTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
63305578 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* **
63305605 CCCTCTATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
63305632 CCCTCGACTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
63305659 CCCTCAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
63305686 CCCTCGATTTATA-AATT
1 CCCTCGATTTATAGAATT
63305703 TACTGAAATA
Statistics
Matches: 221, Mismatches: 37, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 27 0.12
27 194 0.88
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:63305706 original size:81 final size:81
Alignment explanation
Indices: 63305417--63305702 Score: 459
Period size: 81 Copynumber: 3.6 Consensus size: 81
63305407 TACCAAAGTT
* * *
63305417 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTA
63305482 TAGAATTACCG-TTTA
66 TAGAATTACCGTTTTA
* * *
63305497 CCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGACTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTA
*
63305562 TAGAATTATCGTTTTA
66 TAGAATTACCGTTTTA
*
63305578 CCCTCGATTTACAGAATTACCGTTTTACCCTCTATTTATAGAATTACTATTTTACCCTCGACTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTA
* *
63305643 CAAAATTACCGTTTTA
66 TAGAATTACCGTTTTA
*
63305659 CCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATA-AATT
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATT
63305703 TACTGAAATA
Statistics
Matches: 189, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 73 0.39
81 116 0.61
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGACTTA
TAGAATTACCGTTTTA
Found at i:63305714 original size:27 final size:27
Alignment explanation
Indices: 63305684--63305928 Score: 180
Period size: 27 Copynumber: 9.2 Consensus size: 27
63305674 ATTACCGTTT
* **
63305684 TACCCTCGATTTATAAATTTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
63305711 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
63305738 TACACTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
*
63305765 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * *
63305792 TACCC-CTGGTTTGT-AAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
*
63305818 TA-CCTCTAGTTTATAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * *
63305845 TACCCTAG-CTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * * * *
63305871 TCCCCTTGATTTGTGAAATTATCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
63305898 TACTCTCGATTTGTAAAA-TATCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
63305924 TACCC
1 TACCC
63305929 CTGTAGGGTA
Statistics
Matches: 174, Mismatches: 36, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 54 0.31
27 114 0.66
28 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:63305746 original size:54 final size:52
Alignment explanation
Indices: 63305687--63305928 Score: 145
Period size: 53 Copynumber: 4.5 Consensus size: 52
63305677 ACCGTTTTAC
* * *
63305687 CCTCGATTTATAAATTTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA
1 CCTCGATTTATAAA-TTACTAAAATACCCTTAGTTTATAAAATTACCAAAATA
* * * * *
63305740 CACTCGA-TCAGTAAAATTACCAAAATACCC-TCGATCAGTAAAATTACCAAAATA
1 C-CTCGATTTA-T-AAATTACTAAAATACCCTTAGTTTA-TAAAATTACCAAAATA
* * *
63305794 CCCCTGGTTTGTAAATTACTAAAATA-CCTCTAGTTTATAAAATTACCAAAATA
1 CCTC-GATTTATAAATTACTAAAATACCCT-TAGTTTATAAAATTACCAAAATA
* * * * * * * *
63305847 CCCTAGCTTGTA-AAATTACCAAAATCCCCTT-GATTTGTGAAATTATCGAAATA
1 -CCTCGATT-TATAAATTACTAAAATACCCTTAG-TTTATAAAATTACCAAAATA
* *
63305900 CTCTCGATTTGTAAAATA-TCAAAATACCC
1 C-CTCGATTTATAAATTACT-AAAATACCC
63305929 CTGTAGGGTA
Statistics
Matches: 143, Mismatches: 31, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
52 5 0.03
53 88 0.62
54 46 0.32
55 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (52 bp):
CCTCGATTTATAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATA
Found at i:63305769 original size:81 final size:79
Alignment explanation
Indices: 63305708--63305876 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 79
63305698 AAATTTACTG
*
63305708 AAATACCCTTGGTTTACAAAATTACCAAAATACACTC-GATCAGTAAAATTACCAAAATACCCTC
1 AAATACCCCTGGTTT-CAAAATTACCAAAATAC-CTCAGATCA-TAAAATTACCAAAATACCCTC
63305772 GATCAGTAAAATTACCA
63 GATCAGTAAAATTACCA
** * * * * *
63305789 AAATACCCCTGGTTTGTAAATTACTAAAATACCTCTAGTTTATAAAATTACCAAAATACCCTAGC
1 AAATACCCCTGGTTTCAAAATTACCAAAATACCTC-AGATCATAAAATTACCAAAATACCCTCGA
*
63305854 T-TGTAAAATTACCA
65 TCAGTAAAATTACCA
63305868 AAAT-CCCCT
1 AAATACCCCT
63305877 TGATTTGTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
78 5 0.06
79 19 0.25
80 36 0.47
81 17 0.22
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (79 bp):
AAATACCCCTGGTTTCAAAATTACCAAAATACCTCAGATCATAAAATTACCAAAATACCCTCGAT
CAGTAAAATTACCA
Found at i:63305890 original size:53 final size:53
Alignment explanation
Indices: 63305725--63305930 Score: 166
Period size: 53 Copynumber: 3.8 Consensus size: 53
63305715 CTTGGTTTAC
* * * * * **
63305725 AAAATTACCAAAATACACTCGATCAGTAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTAGAT-TGTAAAATTACCAAAATCCCCTAGATTTGT
* * * * *
63305779 AAAATTACCAAAATACCCCTGGTTTGT-AAATTACTAAAATACCTCTAG-TTTAT
1 AAAATTACCAAAATA-CCCTAGATTGTAAAATTACCAAAAT-CCCCTAGATTTGT
* *
63305832 AAAATTACCAAAATACCCTAGCTTGTAAAATTACCAAAATCCCCTTGATTTGT
1 AAAATTACCAAAATACCCTAGATTGTAAAATTACCAAAATCCCCTAGATTTGT
* * * * * *
63305885 GAAATTATCGAAATACTCTCGATTTGTAAAA-TATCAAAATACCCCT
1 AAAATTACCAAAATACCCTAGA-TTGTAAAATTACCAAAAT-CCCCT
63305931 GTAGGGTAGA
Statistics
Matches: 122, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
52 14 0.11
53 69 0.57
54 34 0.28
55 5 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGATTGTAAAATTACCAAAATCCCCTAGATTTGT
Found at i:63305960 original size:27 final size:27
Alignment explanation
Indices: 63305921--63306134 Score: 263
Period size: 27 Copynumber: 7.9 Consensus size: 27
63305911 TAAAATATCA
63305921 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
63305948 AAATACCCGTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* **
63305975 AAATAACCCTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
*
63306002 AAATACCCCTGTATGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
63306029 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
*
63306056 AAATACCCTTGTAGGGTAGAAATGT-C-G
1 AAATACCCCTGTAGGGTAG-AAT-TACTG
* * *
63306083 AAATACCCCTATAGGGTAGAATAACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
63306110 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
63306135 CATTCTGTCC
Statistics
Matches: 161, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
26 5 0.03
27 152 0.94
28 3 0.02
29 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:63306375 original size:24 final size:25
Alignment explanation
Indices: 63306339--63306406 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
63306329 GGAAGTGCTA
* *
63306339 AAAGGGCTATGCCCCAGTTTA-CCG
1 AAAGGGCTTTGCCCCAGTTTATCAG
* *
63306363 AAAGGGCTTTGCCTCAGTTTATCAT
1 AAAGGGCTTTGCCCCAGTTTATCAG
*
63306388 AAAGGGCTTTGCCCTAGTT
1 AAAGGGCTTTGCCCCAGTT
63306407 ATTAAAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:63311994 original size:22 final size:22
Alignment explanation
Indices: 63311967--63312041 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
63311957 TACATATATG
63311967 TGTGATAAGGCTGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
* *
63311989 TGTGATGAATG-TGAAAGTG-CATA
1 TGTGAT-AAGGCTGAATG-GCCA-A
*
63312012 TGTGTGATAAGGCTGTATGGCCAA
1 --TGTGATAAGGCTGAATGGCCAA
63312036 TGTGAT
1 TGTGAT
63312042 GAATGTGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 19 0.46
23 5 0.12
24 5 0.12
25 12 0.29
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (22 bp):
TGTGATAAGGCTGAATGGCCAA
Found at i:63312112 original size:49 final size:48
Alignment explanation
Indices: 63311967--63312232 Score: 378
Period size: 49 Copynumber: 5.5 Consensus size: 48
63311957 TACATATATG
* *
63311967 TGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTGTATTATA
*
63312014 TGTGATAAGG-CTGTATGGCCAATGTGATGAATGTGAAAGTGTA-TATA
1 TGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTGTATTATA
*
63312061 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
*
63312110 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
* * *
63312159 TGTGATAAGGCCTAAAGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
*
63312208 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
63312233 AAAATATATG
Statistics
Matches: 203, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 82 0.40
48 2 0.01
49 119 0.59
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
Found at i:63312379 original size:37 final size:37
Alignment explanation
Indices: 63312328--63312449 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
63312318 GGAAAATATT
*
63312328 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
* *
63312365 TCGGGTCAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
63312402 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
63312439 CCGGGTAAGAC
1 CCGGGTAAGAC
63312450 TTCGTAATAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 80 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:63316489 original size:42 final size:42
Alignment explanation
Indices: 63316434--63316516 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
63316424 GCACAGAGGC
* *
63316434 GTGTATGGCTATTTCGAGAGTTACACGGCCTGACACACGGGT
1 GTGTATGGATATTTCGAGAGTTACACAGCCTGACACACGGGT
* * *
63316476 GTGTGTGGATATTTTGAGAGTTACACAGCCTGGCACACGGG
1 GTGTATGGATATTTCGAGAGTTACACAGCCTGACACACGGG
63316517 CATGTGTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.27
Consensus pattern (42 bp):
GTGTATGGATATTTCGAGAGTTACACAGCCTGACACACGGGT
Found at i:63319878 original size:36 final size:36
Alignment explanation
Indices: 63319825--63319898 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
63319815 TTTCCATACT
63319825 TTGATAACCTTTTAAATTAATCCCCCAAATAGATAG
1 TTGATAACCTTTTAAATTAATCCCCCAAATAGATAG
63319861 TTGATAA-CTTTTCAAATTAATCCCCCAAATAGATAG
1 TTGATAACCTTTT-AAATTAATCCCCCAAATAGATAG
63319897 TT
1 TT
63319899 TAAGCTATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (36 bp):
TTGATAACCTTTTAAATTAATCCCCCAAATAGATAG
Found at i:63322397 original size:20 final size:20
Alignment explanation
Indices: 63322372--63322409 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
63322362 CTGCTTAATG
63322372 TTGGTTAGCACTCTTCTGTA
1 TTGGTTAGCACTCTTCTGTA
63322392 TTGGTTAGCACTCTTCTG
1 TTGGTTAGCACTCTTCTG
63322410 CACCCTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (20 bp):
TTGGTTAGCACTCTTCTGTA
Found at i:63329234 original size:28 final size:28
Alignment explanation
Indices: 63329169--63329269 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
63329159 ATAGTGAATC
*
63329169 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
63329198 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
63329226 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
63329256 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63329270 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:63331318 original size:27 final size:27
Alignment explanation
Indices: 63331242--63331331 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
63331232 TTTAGTTTAC
* *
63331242 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
63331269 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
63331296 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
63331323 TAAAATTAC
1 TAAAATTAC
63331332 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:63331341 original size:54 final size:54
Alignment explanation
Indices: 63331242--63331348 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
63331232 TTTAGTTTAC
* * *
63331242 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
63331296 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
63331349 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:63331356 original size:27 final size:27
Alignment explanation
Indices: 63331326--63331386 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
63331316 CGACTTGTAA
63331326 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
63331353 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
63331380 AATTACC
1 AATTACC
63331387 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:63331389 original size:27 final size:27
Alignment explanation
Indices: 63331337--63331547 Score: 262
Period size: 27 Copynumber: 7.8 Consensus size: 27
63331327 ATTACCAAAG
* *
63331337 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
63331364 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
63331391 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
63331418 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
63331445 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
63331472 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
63331499 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
63331526 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
63331548 TAAAATACCC
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:63331556 original size:27 final size:27
Alignment explanation
Indices: 63331418--63331749 Score: 122
Period size: 27 Copynumber: 12.2 Consensus size: 27
63331408 ATTATCGTTT
* * ****
63331418 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* ***
63331445 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
63331472 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
63331499 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
63331526 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
63331553 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
63331580 TACCC-CTAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* * *** **
63331607 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
63331634 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
63331661 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
63331688 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
63331717 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
63331744 TACCCT
1 TACCCT
63331750 TAGTTGTAGA
Statistics
Matches: 253, Mismatches: 36, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
26 3 0.01
27 223 0.88
28 8 0.03
29 19 0.08
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:63331557 original size:81 final size:81
Alignment explanation
Indices: 63331283--63331558 Score: 227
Period size: 81 Copynumber: 3.4 Consensus size: 81
63331273 AATACTGAAA
** * * * * * *** *
63331283 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
63331348 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* * ***** * * *
63331364 TACCCCCGATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTA-TCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGA
*
63331427 CTTACAGAATTACTGTTT
64 TTTACAGAATTACTGTTT
* *** * *
63331445 TACCCTCGATTTACAGAATTAC-AGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTCGATTTATAAAATTACTATTTTACCCTCGAT
*
63331509 TTACAGAATTACTATTT
65 TTACAGAATTACTGTTT
63331526 TACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACTAAAATACCCT
63331559 TAGTTTGTAA
Statistics
Matches: 155, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
80 1 0.01
81 150 0.97
82 4 0.03
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
TACAGAATTACTGTTT
Found at i:63331584 original size:54 final size:54
Alignment explanation
Indices: 63331526--63331665 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
63331516 ATTACTATTT
* **
63331526 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
63331580 TACCC-CTAGTTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAAAA
*
63331634 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACTAAAATACCC
63331666 CTGATTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 70 0.96
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:63331688 original size:54 final size:54
Alignment explanation
Indices: 63331526--63331693 Score: 148
Period size: 54 Copynumber: 3.1 Consensus size: 54
63331516 ATTACTATTT
* ** * *
63331526 TACCCTCGATTTACAAAATTACTAAAATA-CCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGA-TTTG-ACAAATTA-CAGAAA
* * * * ** *
63331580 TACCC-CTAGTTTGTAAAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTGACAAATTACAGAAA
63331634 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGACAAA-TTACAGAAA
63331688 TACCCT
1 TACCCT
63331694 TGACTTTCTA
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
53 5 0.06
54 81 0.90
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGACAAATTACAGAAA
Found at i:63331689 original size:81 final size:81
Alignment explanation
Indices: 63331541--63331695 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
63331531 TCGATTTACA
* * * *
63331541 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
63331606 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
63331622 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTATCA
63331684 GAAATACCCTTG
64 -AAATACCCTTG
63331696 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 56 0.85
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:63331872 original size:27 final size:27
Alignment explanation
Indices: 63331808--63331872 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63331798 ACCTCTATTA
* *
63331808 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
63331835 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63331862 GGTAAAATGAC
1 GGTAAAATGAC
63331873 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63333102 original size:9 final size:9
Alignment explanation
Indices: 63333090--63333146 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
63333080 TTTGATAAAC
63333090 ATGATATGT
1 ATGATATGT
*
63333099 ATGATATGCAC
1 ATGATATG--T
*
63333110 ATGACATGT
1 ATGATATGT
*
63333119 ATGATATGCAC
1 ATGATATG--T
63333130 ATGATATGT
1 ATGATATGT
63333139 ATGATATG
1 ATGATATG
63333147 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:63333113 original size:20 final size:20
Alignment explanation
Indices: 63333088--63333158 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
63333078 ATTTTGATAA
63333088 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63333108 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
63333128 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63333148 ACATGAGATGT
1 ACATGATATGT
63333159 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:63333135 original size:11 final size:11
Alignment explanation
Indices: 63333099--63333153 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
63333089 CATGATATGT
63333099 ATGATATGCAC
1 ATGATATGCAC
* *
63333110 ATGACATG--T
1 ATGATATGCAC
63333119 ATGATATGCAC
1 ATGATATGCAC
*
63333130 ATGATATG--T
1 ATGATATGCAC
63333139 ATGATATGCAC
1 ATGATATGCAC
63333150 ATGA
1 ATGA
63333154 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:63333233 original size:23 final size:23
Alignment explanation
Indices: 63333203--63333369 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
63333193 AGGAAGTGCA
63333203 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63333226 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
63333250 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
63333274 AAAGGGTTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63333297 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63333320 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63333343 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
63333367 AAA
1 AAA
63333370 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:63333258 original size:24 final size:23
Alignment explanation
Indices: 63333202--63333391 Score: 265
Period size: 24 Copynumber: 8.0 Consensus size: 23
63333192 GAGGAAGTGC
63333202 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
63333225 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
63333248 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
63333272 CAAAAGGGTTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
63333296 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
63333319 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
63333343 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
63333367 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
63333391 A
1 A
63333392 TGATAAAGCA
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 65 0.42
24 79 0.51
25 10 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:63333270 original size:47 final size:47
Alignment explanation
Indices: 63333201--63333369 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
63333191 GGAGGAAGTG
63333201 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
63333248 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGTTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
63333296 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
63333342 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
63333370 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 21 0.19
47 71 0.63
48 21 0.19
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:63333620 original size:31 final size:31
Alignment explanation
Indices: 63333582--63333645 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63333572 CCGTTTACGT
*
63333582 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
63333613 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
63333644 AA
1 AA
63333646 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:63336431 original size:27 final size:27
Alignment explanation
Indices: 63336355--63336444 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
63336345 TTTAGTTTAC
* *
63336355 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
63336382 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
63336409 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
63336436 TAAAATTAC
1 TAAAATTAC
63336445 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:63336454 original size:54 final size:53
Alignment explanation
Indices: 63336355--63336460 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
63336345 TTTAGTTTAC
* *
63336355 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCC-CGATTTG
* * *
63336409 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCGATTT
63336461 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCGATTTG
Found at i:63336584 original size:81 final size:81
Alignment explanation
Indices: 63336450--63336658 Score: 282
Period size: 81 Copynumber: 2.6 Consensus size: 81
63336440 ATTACCAAAG
* *
63336450 TACCC-CGATTTACAGAATTATCGTTTTACCC-CGATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCCTGATT
*
63336513 TACATAATTA-TCATTT
66 TACAGAATTACT-ATTT
* * * *
63336529 TACCCTCGACTTACAGAGTTATCGTTTTACCCTCGATTTACAGAATTACAGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCCTGATT
*
63336594 TATAGAATTACTATTT
66 TACAGAATTACTATTT
* *
63336610 TACCCTTGATTTACAGAATTA-CTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTATC-GTTTTACCCTCGATTTACAAAATTAC
63336659 TAAAATACCC
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 5 0.04
80 25 0.22
81 83 0.73
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCCTGATT
TACAGAATTACTATTT
Found at i:63336659 original size:27 final size:27
Alignment explanation
Indices: 63336450--63336660 Score: 220
Period size: 27 Copynumber: 7.9 Consensus size: 27
63336440 ATTACCAAAG
*
63336450 TACCC-CGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
* **
63336476 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
63336502 TACCC-CTGATTTACATAATTA-TCATTT
1 TACCCTC-GATTTACAGAATTACT-ATTT
* * *
63336529 TACCCTCGACTTACAGAGTTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
63336556 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAGAATTACTA-TTT
* *
63336583 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
63336610 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
63336637 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
63336661 AAATACCCTT
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
26 29 0.18
27 131 0.81
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:63336667 original size:27 final size:27
Alignment explanation
Indices: 63336556--63336860 Score: 113
Period size: 27 Copynumber: 11.2 Consensus size: 27
63336546 GTTATCGTTT
* ***
63336556 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * * ***
63336583 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
63336610 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
63336637 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
63336664 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
63336691 TACCC-CTAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* * *** **
63336718 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
63336745 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
63336772 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
63336799 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
63336828 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
63336855 TACCCT
1 TACCCT
63336861 TAGTTGTAGA
Statistics
Matches: 229, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.01
27 199 0.87
28 8 0.03
29 19 0.08
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:63336684 original size:81 final size:81
Alignment explanation
Indices: 63336396--63336685 Score: 225
Period size: 81 Copynumber: 3.6 Consensus size: 81
63336386 AATACTGAAA
** * * * * *** *
63336396 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCC-CGAT
1 TACCCTCGATTTACAAAATTACAGAAATACCCTT-GATTTATAAAATTACTATTTTACCCTCGAC
*
63336459 TTACAGAATTATCGTTT
65 TTACAGAATTATCATTT
* * *** * * *
63336476 TACCC-CGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTA-TCATTTTACCCTCGAC
1 TACCCTCGATTTACAAAATTACAGAAATACCCTTGATTTATAAAATTACT-ATTTTACCCTCGAC
* *
63336539 TTACAGAGTTATCGTTT
65 TTACAGAATTATCATTT
* *** * * *
63336556 TACCCTCGATTTACAGAATTACAGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACAGAAATACCCTTGATTTATAAAATTACTATTTTACCCTCGACT
63336621 TACAGAATTA-CTATTT
66 TACAGAATTATC-ATTT
*
63336637 TACCCTCGATTTACAAAATTACTA-AAATACCCTT-AGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTAC-AGAAATACCCTTGA-TTTATAAAATTAC
63336686 CAAAATACCC
Statistics
Matches: 169, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
79 32 0.19
80 34 0.20
81 101 0.60
82 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACAGAAATACCCTTGATTTATAAAATTACTATTTTACCCTCGACT
TACAGAATTATCATTT
Found at i:63336695 original size:54 final size:54
Alignment explanation
Indices: 63336637--63336776 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
63336627 ATTACTATTT
* **
63336637 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
63336691 TACCC-CTAGTTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAAAA
*
63336745 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACTAAAATACCC
63336777 CTGATTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 70 0.96
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:63336799 original size:54 final size:54
Alignment explanation
Indices: 63336637--63336804 Score: 148
Period size: 54 Copynumber: 3.1 Consensus size: 54
63336627 ATTACTATTT
* ** * *
63336637 TACCCTCGATTTACAAAATTACTAAAATA-CCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGA-TTTG-ACAAATTA-CAGAAA
* * * * ** *
63336691 TACCC-CTAGTTTGTAAAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTGACAAATTACAGAAA
63336745 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGACAAA-TTACAGAAA
63336799 TACCCT
1 TACCCT
63336805 TGACTTTCTA
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
53 5 0.06
54 81 0.90
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGACAAATTACAGAAA
Found at i:63336800 original size:81 final size:81
Alignment explanation
Indices: 63336652--63336806 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
63336642 TCGATTTACA
* * * *
63336652 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
63336717 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
63336733 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTATCA
63336795 GAAATACCCTTG
64 -AAATACCCTTG
63336807 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 56 0.85
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:63336982 original size:27 final size:27
Alignment explanation
Indices: 63336918--63336982 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63336908 TACCCTATTA
* *
63336918 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
63336945 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63336972 GGTAAAATGAC
1 GGTAAAATGAC
63336983 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63338208 original size:9 final size:9
Alignment explanation
Indices: 63338196--63338252 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
63338186 TTTGATAAAC
63338196 ATGATATGT
1 ATGATATGT
*
63338205 ATGATATGCAC
1 ATGATATG--T
*
63338216 ATGACATGT
1 ATGATATGT
*
63338225 ATGATATGCAC
1 ATGATATG--T
63338236 ATGATATGT
1 ATGATATGT
63338245 ATGATATG
1 ATGATATG
63338253 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:63338219 original size:20 final size:20
Alignment explanation
Indices: 63338194--63338264 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
63338184 ATTTTGATAA
63338194 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63338214 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
63338234 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63338254 ACATGAGATGT
1 ACATGATATGT
63338265 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:63338241 original size:11 final size:11
Alignment explanation
Indices: 63338205--63338259 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
63338195 CATGATATGT
63338205 ATGATATGCAC
1 ATGATATGCAC
* *
63338216 ATGACATG--T
1 ATGATATGCAC
63338225 ATGATATGCAC
1 ATGATATGCAC
*
63338236 ATGATATG--T
1 ATGATATGCAC
63338245 ATGATATGCAC
1 ATGATATGCAC
63338256 ATGA
1 ATGA
63338260 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:63338341 original size:23 final size:23
Alignment explanation
Indices: 63338311--63338476 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
63338301 AGGAAGTGCA
63338311 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63338334 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
63338358 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
63338382 AAAGGG-TTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63338404 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63338427 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63338450 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
63338474 AAA
1 AAA
63338477 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
22 6 0.04
23 79 0.58
24 52 0.38
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:63338378 original size:47 final size:47
Alignment explanation
Indices: 63338309--63338476 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
63338299 GGAGGAAGTG
63338309 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
63338356 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGG-TTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
63338403 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
63338449 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
63338477 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
45 6 0.05
46 37 0.33
47 64 0.57
48 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:63338433 original size:93 final size:95
Alignment explanation
Indices: 63338311--63338497 Score: 315
Period size: 93 Copynumber: 2.0 Consensus size: 95
63338301 AGGAAGTGCA
63338311 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
* *
63338376 TTATCAAAAG-GGTTATGCC-CCAGTTATT
66 TTATCAAAAGAGGCTAGGCCTCCAGTTATT
* *
63338404 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
*
63338469 TTATTAAAAGAGGCTAGGCCTCCAGTTAT
66 TTATCAAAAGAGGCTAGGCCTCCAGTTAT
63338498 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 72 0.83
94 7 0.08
95 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (95 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATCAAAAGAGGCTAGGCCTCCAGTTATT
Found at i:63338724 original size:31 final size:31
Alignment explanation
Indices: 63338689--63338752 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63338679 CGTTTACAGT
*
63338689 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
63338720 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
63338751 AA
1 AA
63338753 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:63340685 original size:29 final size:29
Alignment explanation
Indices: 63340653--63340730 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
63340643 ATACCCTCCG
** * *
63340653 AGCTCGCACACCCAGTGCCGTATTTTTTC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
63340682 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
63340711 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
63340731 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:63348527 original size:29 final size:29
Alignment explanation
Indices: 63348495--63348572 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
63348485 ATACCCTCCG
** *
63348495 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
63348524 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
63348553 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
63348573 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:63350131 original size:27 final size:27
Alignment explanation
Indices: 63350087--63350248 Score: 195
Period size: 27 Copynumber: 6.0 Consensus size: 27
63350077 GGATGTCACA
*
63350087 GTTTTACCC-CTGATTTACATAATTA-T
1 GTTTTACCCTC-GATTTACAGAATTACT
* *
63350113 CGTTTTACCCTCGACTTACAGAGTTA-T
1 -GTTTTACCCTCGATTTACAGAATTACT
*
63350140 CGTTTTACCCTCGATTTACAGAATTACA
1 -GTTTTACCCTCGATTTACAGAATTACT
*
63350168 GTTTTACCCTCGATTTATAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
* *
63350195 ATTTTACCCTTGATTTACAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
* *
63350222 ATTTTACCCTCGATTTACAAAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
63350249 AAAATACCCT
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 119 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
GTTTTACCCTCGATTTACAGAATTACT
Found at i:63350256 original size:27 final size:27
Alignment explanation
Indices: 63350145--63350448 Score: 120
Period size: 27 Copynumber: 11.2 Consensus size: 27
63350135 GTTATCGTTT
* ***
63350145 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
63350172 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
63350199 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
63350226 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
63350253 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
63350280 TACCCTAG-TTTGTAAAATTA-TCAAAA
1 TACCCTCGATTTACAAAATTACT-AAAA
* * *** **
63350306 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
63350333 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
63350360 TACCC-CTAATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
63350387 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
63350416 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
63350443 TACCCT
1 TACCCT
63350449 TAGTTGTAGA
Statistics
Matches: 229, Mismatches: 33, Indels: 30
0.78 0.11 0.10
Matches are distributed among these distances:
26 26 0.11
27 176 0.77
28 8 0.03
29 19 0.08
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:63350273 original size:54 final size:52
Alignment explanation
Indices: 63350161--63350364 Score: 137
Period size: 54 Copynumber: 3.8 Consensus size: 52
63350151 CGATTTACAG
* *** *
63350161 AATTACAGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT-TACA
1 AATTACA-TTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGTTTGTA-A
*
63350214 GAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAA
1 -AATTAC-ATTTTACCCTCGATTTATAAAATTACTAAAATACCCTT-GTTTGTAA
*** * * *
63350269 AATTACCAAAATACCCTAG-TTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGA
1 AATTA-CATTTTACCCTCGATTTATAAAATTACT-AAAATACCCTT-GTTTGTAA
** * * *
63350322 AATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AATTA-C-ATTTTACCCTCGATTTATAAAATTACTAAAATACCC
63350365 CTAATTTACA
Statistics
Matches: 125, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 43 0.34
54 73 0.58
55 6 0.05
56 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.36
Consensus pattern (52 bp):
AATTACATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGTTTGTAA
Found at i:63350318 original size:53 final size:53
Alignment explanation
Indices: 63350226--63350364 Score: 181
Period size: 53 Copynumber: 2.6 Consensus size: 53
63350216 ATTACTATTT
* **
63350226 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTAC-AAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
63350280 TACCCT-AGTTTGTAAAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAA
63350333 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTA-CAAAATACCC
63350365 CTAATTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 44 0.59
54 30 0.41
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:63350387 original size:54 final size:53
Alignment explanation
Indices: 63350226--63350475 Score: 168
Period size: 53 Copynumber: 4.6 Consensus size: 53
63350216 ATTACTATTT
* ** *
63350226 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAG-TT-TACAAATTA-CAGAAA
* * * ** *
63350280 TACCCT-AGTTTGTAAAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTT-ACAAATTACAGAAA
* *
63350333 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTACAAA-TTACAGAAA
* * * * * * *
63350387 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTAGTTTAC-AAATTACAGAAA
* * * * *
63350443 TACCCT-TAGTTGTAGATTTACCAAAACACCCTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTT
63350476 GTAGGATGAG
Statistics
Matches: 151, Mismatches: 35, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
51 1 0.01
52 3 0.02
53 53 0.35
54 50 0.33
55 8 0.05
56 33 0.22
57 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTACAAATTACAGAAA
Found at i:63350571 original size:27 final size:27
Alignment explanation
Indices: 63350507--63350571 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
63350497 ACCTCTATTA
* *
63350507 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
63350534 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63350561 GGTAAAATGAC
1 GGTAAAATGAC
63350572 GCATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63351802 original size:9 final size:9
Alignment explanation
Indices: 63351790--63351846 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
63351780 TTTGATAAAC
63351790 ATGATATGT
1 ATGATATGT
*
63351799 ATGATATGCAC
1 ATGATATG--T
*
63351810 ATGACATGT
1 ATGATATGT
*
63351819 ATGATATGCAC
1 ATGATATG--T
63351830 ATGATATGT
1 ATGATATGT
63351839 ATGATATG
1 ATGATATG
63351847 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:63351813 original size:20 final size:20
Alignment explanation
Indices: 63351788--63351858 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
63351778 ATTTTGATAA
63351788 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63351808 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
63351828 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63351848 ACATGAGATGT
1 ACATGATATGT
63351859 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:63351835 original size:11 final size:11
Alignment explanation
Indices: 63351799--63351853 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
63351789 CATGATATGT
63351799 ATGATATGCAC
1 ATGATATGCAC
* *
63351810 ATGACATG--T
1 ATGATATGCAC
63351819 ATGATATGCAC
1 ATGATATGCAC
*
63351830 ATGATATG--T
1 ATGATATGCAC
63351839 ATGATATGCAC
1 ATGATATGCAC
63351850 ATGA
1 ATGA
63351854 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:63351935 original size:23 final size:23
Alignment explanation
Indices: 63351905--63352070 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
63351895 AGGAAGTGCA
63351905 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63351928 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
63351952 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
63351976 AAAGGGTTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63351999 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63352022 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63352044 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
63352068 AAA
1 AAA
63352071 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
22 10 0.07
23 70 0.52
24 55 0.41
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:63351960 original size:24 final size:23
Alignment explanation
Indices: 63351904--63352092 Score: 256
Period size: 23 Copynumber: 8.0 Consensus size: 23
63351894 GAGGAAGTGC
63351904 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
63351927 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
63351950 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
63351974 CAAAAGGGTTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
63351998 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
63352021 TAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
63352044 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
63352068 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
63352092 A
1 A
63352093 TGATAAAGCA
Statistics
Matches: 152, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
22 8 0.05
23 68 0.45
24 66 0.43
25 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:63351972 original size:47 final size:47
Alignment explanation
Indices: 63351903--63352070 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
63351893 GGAGGAAGTG
63351903 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
63351950 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGTTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
63351998 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
63352043 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
63352071 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
45 9 0.08
46 36 0.32
47 46 0.41
48 21 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:63352320 original size:31 final size:31
Alignment explanation
Indices: 63352285--63352348 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63352275 CGTTTACCGT
*
63352285 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
63352316 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
63352347 AA
1 AA
63352349 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:63356053 original size:29 final size:29
Alignment explanation
Indices: 63356021--63356093 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
63356011 CTTCGAGCTC
*
63356021 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
63356050 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
63356079 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
63356094 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:63364098 original size:29 final size:29
Alignment explanation
Indices: 63364066--63364138 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
63364056 CTTCGAGCTC
*
63364066 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
63364095 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
63364124 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
63364139 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:63365483 original size:33 final size:33
Alignment explanation
Indices: 63365409--63365473 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
63365399 TTCATCATTT
63365409 CCCCTTTTTCCATTTCTTTAATGCTAGCTTTTC
1 CCCCTTTTTCCATTTCTTTAATGCTAGCTTTTC
63365442 CCCCTTTTTCCATTTCTTTAATGCTAGCTTTT
1 CCCCTTTTTCCATTTCTTTAATGCTAGCTTTT
63365474 TTTCTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.12, C:0.29, G:0.06, T:0.52
Consensus pattern (33 bp):
CCCCTTTTTCCATTTCTTTAATGCTAGCTTTTC
Found at i:63366861 original size:33 final size:34
Alignment explanation
Indices: 63366792--63366941 Score: 137
Period size: 33 Copynumber: 4.5 Consensus size: 34
63366782 CATCGTTAGT
*** *
63366792 CCAACCAAACACACCAGATGCTCACCTGAGCCAATC
1 CCAACC-AACACACCA-ATGCTCATAAGAGCTAATC
* ** *
63366828 CCTA-CAACACATTAATGCTCATAAGAGTTAAT-
1 CCAACCAACACACCAATGCTCATAAGAGCTAATC
*
63366860 CCAACCACCACACCAATGCTCATAAGAGCTAAT-
1 CCAACCAACACACCAATGCTCATAAGAGCTAATC
* * *
63366893 CCAGCCATCACACCAATGCTCATAAGAGCTAA-A
1 CCAACCAACACACCAATGCTCATAAGAGCTAATC
*
63366926 CCAACCATCACACCAA
1 CCAACCAACACACCAA
63366942 ACAGAGAGTA
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.03
33 82 0.85
34 7 0.07
35 1 0.01
36 3 0.03
ACGTcount: A:0.39, C:0.35, G:0.09, T:0.16
Consensus pattern (34 bp):
CCAACCAACACACCAATGCTCATAAGAGCTAATC
Found at i:63370378 original size:40 final size:40
Alignment explanation
Indices: 63370329--63370493 Score: 249
Period size: 40 Copynumber: 4.1 Consensus size: 40
63370319 CGATATATTT
63370329 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
63370369 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCCGGAAATA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
63370409 TATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATTTA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA--TA
* * * *
63370451 TATATCCAGGTTAAATCCCGCAGGCTTAGTACTGGTACTA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
63370491 TAT
1 TAT
63370494 CCGGGCTAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 78 0.69
42 35 0.31
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (40 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:63377400 original size:2 final size:2
Alignment explanation
Indices: 63377393--63377419 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63377383 TGCAATTACG
63377393 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
63377420 GTGCATTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63378286 original size:40 final size:40
Alignment explanation
Indices: 63378237--63378401 Score: 249
Period size: 40 Copynumber: 4.1 Consensus size: 40
63378227 CGATATATTT
63378237 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
63378277 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAAATA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
63378317 TATATCCGGGTTAAATCCCGCAGGCATCGTGCTGGTAATTTA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA--TA
* * * * *
63378359 TATATCCAGGTTAAATCCTGCAGGCTTAGTACTGGTACTA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
63378399 TAT
1 TAT
63378402 CCGGGCTAAA
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 80 0.70
42 34 0.30
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:63380128 original size:35 final size:35
Alignment explanation
Indices: 63380082--63380178 Score: 142
Period size: 35 Copynumber: 2.8 Consensus size: 35
63380072 TACACGGTTA
*
63380082 ACCATCTAGCACACTAGATGCTTATAAGAGCCAAT
1 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
63380117 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
1 ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
* * *
63380152 ACCAT-TCAGCATACCAAATGCTCATAA
1 ACCATCT-AGCACACTAGATGCTCATAA
63380179 AAGCTAGACC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
34 1 0.02
35 56 0.98
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (35 bp):
ACCATCTAGCACACTAGATGCTCATAAGAGCCAAT
Found at i:63382376 original size:26 final size:26
Alignment explanation
Indices: 63382347--63382424 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
63382337 ACTCCAAATA
63382347 AAGATCCGCTAATTTTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
* *
63382373 AAGATCCGTTAATTTTTCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
*
63382399 AAGATCCACTAATTTTCCCTGAAACT
1 AAGATCCGCTAATTTTCCCTGAAACT
63382425 GGACTCACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.33
Consensus pattern (26 bp):
AAGATCCGCTAATTTTCCCTGAAACT
Found at i:63385005 original size:16 final size:15
Alignment explanation
Indices: 63384979--63385013 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
63384969 TGATGTGAAT
63384979 AATATAAAATATTAA
1 AATATAAAATATTAA
*
63384994 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
63385010 AATA
1 AATA
63385014 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:63385185 original size:20 final size:20
Alignment explanation
Indices: 63385128--63385187 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
63385118 AATACTACAT
63385128 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
63385147 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
63385170 AAATATGTACATAATATA
1 AAATATGTACATAATATA
63385188 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:63385196 original size:25 final size:24
Alignment explanation
Indices: 63385168--63385225 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
63385158 TGATAATATT
*
63385168 AAAAATATGTACATAATATAGTGTA
1 AAAAATATGTACATAATATAAT-TA
**
63385193 AAAAATACATACATAATATAATTA
1 AAAAATATGTACATAATATAATTA
*
63385217 AAATATATG
1 AAAAATATG
63385226 CATAAGATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATGTACATAATATAATTA
Found at i:63385229 original size:22 final size:22
Alignment explanation
Indices: 63385194--63385235 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63385184 TATAGTGTAA
*
63385194 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
* *
63385216 AAAATATATGCATAAGATAA
1 AAAATACATACATAAGATAA
63385236 CATGTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:63385282 original size:25 final size:25
Alignment explanation
Indices: 63385254--63385384 Score: 91
Period size: 25 Copynumber: 5.5 Consensus size: 25
63385244 AATATATATT
* *
63385254 TATATAAATAATATAGTATTAAAGA
1 TATATACATAATATAATATTAAAGA
* *
63385279 TATATACATAAAATAATA-TAATATA
1 TATATACATAATATAATATTAA-AGA
* *
63385304 TATATACGTAATATAGA-ATT-TAGA
1 TATATACATAATATA-ATATTAAAGA
* *
63385328 -ATATACCTAATAT-AT-TAAAAGA
1 TATATACATAATATAATATTAAAGA
*
63385350 -ATATATATAATATAATATT-AAGA
1 TATATACATAATATAATATTAAAGA
*
63385373 AATATA-ATAATA
1 TATATACATAATA
63385385 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.02
22 14 0.17
23 24 0.29
24 11 0.13
25 31 0.37
26 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
TATATACATAATATAATATTAAAGA
Found at i:63385953 original size:30 final size:30
Alignment explanation
Indices: 63385863--63385961 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
63385853 GTAGTACAAG
*
63385863 TGGTGATGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
63385893 AGGTAGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
63385923 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
63385953 TGGTGGTGG
1 TGGTGGTGG
63385962 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.19, C:0.05, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:63386880 original size:96 final size:92
Alignment explanation
Indices: 63386651--63386985 Score: 305
Period size: 87 Copynumber: 3.7 Consensus size: 92
63386641 TTAAAAACAG
* * * * *
63386651 AAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TT
1 AAATTGAAAATACCTCGGCATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*** * *
63386714 TTT-A-AAACA-AAATT-TGTAAAACAG
65 TTTGACAAACATAAATTAAAAAAAAAAC
** * * *
63386738 ATTTTGAAAATACCTCGGTATGTGA-CTCGAGGCTCAACTCACCTCTCGTAGTATGAGTTGA-TT
1 AAATTGAAAATACCTCGGCATGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
63386801 TTTG-CAAAGCATAAAATTTTAAAAAAAAAAC
65 TTTGACAAA-CAT-AAA--TTAAAAAAAAAAC
* *
63386832 ATCAATTGAAAATACCTCGGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 A--AATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* *
63386897 TTTTTGACAAACATAAATTGAAAAAAAAAG
63 TTTTTGACAAACATAAATTAAAAAAAAAAC
* * * *
63386927 AAATTGAAAATACCTCAGCCTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAATTGA
1 AAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
63386986 AAAAAAAAAG
Statistics
Matches: 203, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
85 1 0.00
87 53 0.26
88 3 0.01
89 2 0.01
91 36 0.18
93 22 0.11
94 6 0.03
95 12 0.06
96 50 0.25
97 5 0.02
98 9 0.04
99 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (92 bp):
AAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGACAAACATAAATTAAAAAAAAAAC
Found at i:63386999 original size:69 final size:70
Alignment explanation
Indices: 63386912--63387051 Score: 203
Period size: 69 Copynumber: 2.0 Consensus size: 70
63386902 GACAAACATA
* * * *
63386912 AATTGAAAAAAAAAGAAATTGAAAATACCTCAGCCTGT-CCT-GAGGCTGAACTCACCTCTCGCA
1 AATTGAAAAAAAAAGAAATTGAAAATACCTCAGCCTGTGACTCAAGGCTCAACTCACCACTCGCA
63386975 ATATG
66 ATATG
* *
63386980 AATTGAAAAAAAAAAGAAATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGC
1 AATTG-AAAAAAAAAGAAATTGAAAATACCTCAGCCTGTGACTCAAGGCTCAACTCACCACTCGC
63387045 AATATG
65 AATATG
63387051 A
1 A
63387052 GCTGATTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
68 5 0.08
69 32 0.51
70 1 0.02
71 25 0.40
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (70 bp):
AATTGAAAAAAAAAGAAATTGAAAATACCTCAGCCTGTGACTCAAGGCTCAACTCACCACTCGCA
ATATG
Found at i:63387003 original size:162 final size:161
Alignment explanation
Indices: 63386816--63387241 Score: 429
Period size: 162 Copynumber: 2.6 Consensus size: 161
63386806 AAAGCATAAA
* *
63386816 ATTTTAAAAAAAAAACATCAATTGAAAATACCTCGGCGTGTGACCTGAAGCTCAACTCACCTCTC
1 ATTTGAAAAAAAAAAGA--AATTGAAAATACCTC-GCGTGTGACCTGAAGCTCAACTCACCTCTC
* * *
63386881 GCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAAGAAATTGAAAATACCTCAGC
63 GCAATATGAGTTGATTTTTTTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAG-
*
63386946 CTGTCCTGAGGCTGAACTCACCTCTCGCAATATGA-
127 C-GTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
63386981 A-TTGAAAAAAAAAAGAAATTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCG
1 ATTTGAAAAAAAAAAGAAATTGAAAATACCTC-GCGTGTGACCTGAA-GCTCAACTCACCTCTCG
* * * *
63387044 CAATATGAGCTGATTTTTTTGA-AACACAAAAATCG--AAGAACAGAAATGGAAAACACCTCAGC
64 CAATATGAGTTGATTTTTTTGACAA-ACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGC
* * *
63387106 GTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTG
128 GTCCTGAGGCTCAACTCACCTCTCGCAATATGA---G
**** * * ** * * * *
63387143 ATTTTTTTGAAAGATAGAAATTGAAAATACCTC-AATGTGTCTTGAGGCTGAACTCACCTCTCGC
1 A-TTTGAAAAAAAAAAGAAATTGAAAATACCTCGCGTGTGACCTGAAGCTCAACTCACCTCTCGC
63387207 AATATGAGTTGA--TTTTTGACAAACAAAAATTGAAA
65 AATATGAGTTGATTTTTTTGACAAACAAAAATTGAAA
63387242 TTACCTCAGC
Statistics
Matches: 216, Mismatches: 33, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
158 29 0.13
159 1 0.00
160 38 0.18
161 7 0.03
162 101 0.47
163 2 0.01
164 37 0.17
165 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (161 bp):
ATTTGAAAAAAAAAAGAAATTGAAAATACCTCGCGTGTGACCTGAAGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGCGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:63387206 original size:75 final size:73
Alignment explanation
Indices: 63387082--63387465 Score: 465
Period size: 73 Copynumber: 5.2 Consensus size: 73
63387072 AAAATCGAAG
* * * * * *
63387082 AACAGAAATGGAAAACACCTC-AGCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATT
1 AACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
63387146 TTTTTGAA
66 TTTTTGAA
* *
63387154 AGATAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTGAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAA-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
63387219 --TTTTTGACA
64 TTTTTTTGA-A
* * * * * *
63387228 AACAAAAATTGAAATTACCTC-AGCGTCTTGAGGTTTAACTCACCTCTCGCAATATGAGCTGATT
1 AACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
63387292 TTTTTGAA
66 TTTTTGAA
63387300 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAA-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
63387365 --TTTTTGACA
64 TTTTTTTGA-A
* * * * * * *
63387374 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAAGCTCAACTCACCTATCACAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCA-AGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
63387439 TTTTTTGAAA
65 TTTTTTG-AA
63387449 AACAGAAATTGAAAATA
1 AACAGAAATTGAAAATA
63387466 GAAATAGAAA
Statistics
Matches: 268, Mismatches: 30, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
71 36 0.13
72 4 0.01
73 128 0.48
74 6 0.02
75 93 0.35
76 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGAA
Found at i:63387362 original size:146 final size:146
Alignment explanation
Indices: 63387098--63387465 Score: 610
Period size: 146 Copynumber: 2.5 Consensus size: 146
63387088 AATGGAAAAC
* *
63387098 ACCTCAGCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAGATAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
* *
63387163 TTGAAAATACCTCAATGTGTCTTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
63387228 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
*
63387244 ACCTCAGCGTCTTGAGGTTTAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
63387309 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
63387374 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * * * * *
63387390 ACCTCAGCGTGTCCTGAAGCTCAACTCACCTATCACAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGA
63387455 AATTGAAAATA
64 AATTGAAAATA
63387466 GAAATAGAAA
Statistics
Matches: 207, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
146 149 0.72
148 58 0.28
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
AACAAAAATTGAAATT
Found at i:63387741 original size:77 final size:75
Alignment explanation
Indices: 63387600--63388017 Score: 447
Period size: 75 Copynumber: 5.4 Consensus size: 75
63387590 TGGCCCGAGA
* * *
63387600 CTCAACTCACCTCTCGTAATATGAGTTGATTCTTTTG-AAAAGTAGAAATTGAAAATATCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAAATAGAAATTGAAAATACCTCAGC
*
63387664 GTGTCCCGAGG
65 GTGTCCTGAGG
* *
63387675 CTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTTGATAAAAATAGAATTTGAAAATATCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAAAATAGAAATTGAAAATACCTCAG
63387740 CGTGTCCTGAGG
64 CGTGTCCTGAGG
* *
63387752 CTCAACTCACCTCTCGCAATATGAGTT-A-TTTTTGACAAACA-A-AAATTGAAATTACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAAAATAGAAATTGAAAATACCTCAGC
*
63387813 -T-TCTTGAGG
65 GTGTCCTGAGG
* * * * *
63387822 TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAGATAGAAATTGAAAATACCTTAAC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAATAGAAATTGAAAATACCTCAGC
*
63387886 GTGTCTTGAGG
65 GTGTCCTGAGG
** *
63387897 CTCAACTCAGTTCACGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAATGAAAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG-AA-A-AAA-T------A-G-AAATTG
63387962 AAAATACCTCAGCGTGTCCTGAGG
52 AAAATACCTCAGCGTGTCCTGAGG
63387986 CTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTT
63388018 GAAAAGAAGA
Statistics
Matches: 291, Mismatches: 28, Indels: 36
0.82 0.08 0.10
Matches are distributed among these distances:
70 32 0.11
71 6 0.02
72 17 0.06
73 23 0.08
74 12 0.04
75 65 0.22
76 11 0.04
77 62 0.21
78 1 0.00
79 1 0.00
80 2 0.01
81 1 0.00
87 4 0.01
88 1 0.00
89 53 0.18
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTGAAAATACCTCAGCG
TGTCCTGAGG
Found at i:63387820 original size:561 final size:560
Alignment explanation
Indices: 63387084--63388297 Score: 1518
Period size: 561 Copynumber: 2.1 Consensus size: 560
63387074 AATCGAAGAA
* * ** * * *
63387084 CAGAAATGGAAAACACCTCAGC--GTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* * * *
63387147 TTTTG-AAAGATAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTGAACTCACCTCTCGCAATA
65 TTTTGAAAAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
63387211 TGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTTAACTCACCTCTC
130 TGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTC
63387276 GCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
195 GCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
* * *
63387341 CTCACCTCTCGCAATATGAGTTGA-TTTTTG-AC-AAACA-AAAATTGAAATTACCTCAGCGTGT
260 CTCACCTCACGCAATATGAGTTGATTTTTTGAACAAAAAAGAAAATTGAAAATACCTCAGCGTGT
* * *
63387402 CCTGAAGCTCAACTCACCTATCACAATATGAGTTGATTT-TTTTGAAAAACAGAAATTG-AAAAT
325 CCTGAAGCTCAACTCACCTATCACAATATGAGTTGATTTAATTTGAAAAACAAAAATTGAAAAAC
* * *
63387465 AGAAATAGAAAACACCTCAGAGT-CTTGAGGTTCAACTCACTTCTCGCAATATGAGCTGATTTTT
390 AGAAATAGAAAACACCTCAGAGTCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTT
* * * * *
63387529 TTGAAACACATAAATTAA-AAAAAAAGAAATT-AAAAACAGAATTTGAAAGGACCTCGACGTGTG
453 TTGAAAAACA-AAA--AATAAAAAAAGAAATTGAAAAACAGAAATTAAAAAGACCTCG--GCGTG
* *
63387592 GCCCGAGACTCAACTCACCTCTCGTAATATGAGTTGATTCTTTTGAAAAG
513 CCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAG
* *
63387642 TAGAAATTGAAAATATCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* * *
63387707 TTTTGATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
65 TTTTGA-AAAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
63387772 ATGAGTT-ATTTTTGACAAACAAAAATTGAAATTACCTCAGCTTCTTGAGGTTCAACTCACCTCT
129 ATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCT
* *
63387836 CGCAATATGAGCTGATTTTTTTGAAAGATAGAAATTGAAAATACCTTAACGTGTCTTGAGGCTCA
194 CGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCA
**
63387901 ACTCAGTTCACGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAATGAAAATTGAAAA
259 ACTCACCTCACGCAATATGAGTTGA--TTTTTTG-AAC--------AAAAAA-GAAAATTGAAAA
* * *
63387966 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATT
312 TACCTCAGCGTGTCCTGAAGCTCAACTCACCTATCACAATATGAGTTGATTT---------AATT
* ** * ** *
63388031 TGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATGCCTCAGCGTGCCCTGAGGCTCAACTCACC
368 TGAAAAACAAAAATTGAAAAACAGAAATAGAAAACACCTCAGAGT-CCCTGAGGCTCAACTCACC
* **
63388096 TCTCGCAATATGAGTTGATTTTTGAAAAACAAAAAATAAAAGCAGAAATTGAAAAACAGAAATTA
432 TCTCGCAATATGAGCTGATTTTTGAAAAACAAAAAATAAAAAAAGAAATTGAAAAACAGAAATTA
* * *
63388161 AAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAG
497 AAAAGACCTCGGCGTGCCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAG
* * *
63388225 CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
63388290 TTTGAAAA
66 TTTGAAAA
63388298 CCATAAATTG
Statistics
Matches: 561, Mismatches: 60, Indels: 47
0.84 0.09 0.07
Matches are distributed among these distances:
558 18 0.03
560 40 0.07
561 140 0.25
562 58 0.10
564 6 0.01
566 2 0.00
575 4 0.01
577 59 0.11
581 3 0.01
582 8 0.01
583 67 0.12
584 1 0.00
585 39 0.07
586 11 0.02
587 38 0.07
588 35 0.06
590 32 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (560 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGAAAAAATAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCG
CAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
TCACCTCACGCAATATGAGTTGATTTTTTGAACAAAAAAGAAAATTGAAAATACCTCAGCGTGTC
CTGAAGCTCAACTCACCTATCACAATATGAGTTGATTTAATTTGAAAAACAAAAATTGAAAAACA
GAAATAGAAAACACCTCAGAGTCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAAAACAAAAAATAAAAAAAGAAATTGAAAAACAGAAATTAAAAAGACCTCGGCGTGCCCCGAGA
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAG
Found at i:63388155 original size:14 final size:13
Alignment explanation
Indices: 63388120--63388164 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
63388110 TTGATTTTTG
* *
63388120 AAAAACAAAAAAT
1 AAAAACAGAAATT
*
63388133 AAAAGCAGAAATT
1 AAAAACAGAAATT
63388146 GAAAAACAGAAATT
1 -AAAAACAGAAATT
63388160 AAAAA
1 AAAAA
63388165 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:63388187 original size:100 final size:101
Alignment explanation
Indices: 63387956--63388224 Score: 393
Period size: 100 Copynumber: 2.7 Consensus size: 101
63387946 AAAAAAATGA
*
63387956 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* ** * *
63388019 AAAAGAAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAAAGAAAAAAATGAAAAGCAAAAATTGAAAAACAG
*
63388055 AAATTGAAAATGCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
63388120 AAAA-ACAAAAAAT-AAAAGCAGAAATTGAAAAACAG
66 AAAAGA-AAAAAATGAAAAGCAAAAATTGAAAAACAG
* * * *
63388155 AAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
63388220 AAAAG
66 AAAAG
63388225 CATAAATTGA
Statistics
Matches: 153, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
99 57 0.37
100 84 0.55
101 12 0.08
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (101 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGAAAAAAATGAAAAGCAAAAATTGAAAAACAG
Found at i:63388242 original size:73 final size:74
Alignment explanation
Indices: 63388144--63388311 Score: 248
Period size: 73 Copynumber: 2.3 Consensus size: 74
63388134 AAAGCAGAAA
* * * *
63388144 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
63388209 GTTGA-TTT
66 GTTGATTTT
* * * *
63388217 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
63388282 GTTGATTTT
66 GTTGATTTT
*
63388291 TTGAAAACCATAAATTGAAAA
1 TTGAAAAACATAAATTGAAAA
63388312 AACGAAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 62 0.74
74 22 0.26
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:63388411 original size:91 final size:89
Alignment explanation
Indices: 63388228--63388397 Score: 252
Period size: 91 Copynumber: 1.9 Consensus size: 89
63388218 TGAAAAGCAT
* * *
63388228 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
63388293 GAAAACCATAAATTGAAAAAACGA
66 GAAAACCAGAAATTGAAAAAACGA
*
63388317 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCGATATGAGCTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCGCAATATGAGCTGA-TTT
63388382 TTTGAAAGA-CAGAAAT
63 TTTGAAA-ACCAGAAAT
63388398 AAAAACATCA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
89 22 0.31
91 33 0.46
92 16 0.22
93 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGCTGATTTTTT
GAAAACCAGAAATTGAAAAAACGA
Found at i:63403360 original size:16 final size:15
Alignment explanation
Indices: 63403334--63403368 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
63403324 TGATGTGAAT
63403334 AATATAAAATATTAA
1 AATATAAAATATTAA
*
63403349 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
63403365 AATA
1 AATA
63403369 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:63403507 original size:23 final size:23
Alignment explanation
Indices: 63403481--63403542 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
63403471 ATAATACTAC
63403481 ATAAATATGTACATATATAAATA
1 ATAAATATGTACATATATAAATA
* * *
63403504 ATAAATACGT-GATA-AT-ATTA
1 ATAAATATGTACATATATAAATA
63403524 A-AAATATGTACATAATATA
1 ATAAATATGTACAT-ATATA
63403543 GTGTAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 3 0.10
22 5 0.17
23 9 0.30
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (23 bp):
ATAAATATGTACATATATAAATA
Found at i:63403584 original size:22 final size:22
Alignment explanation
Indices: 63403549--63403590 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63403539 TATAGTGTAA
*
63403549 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
* *
63403571 AAAATATATGCATAAGATAA
1 AAAATACATACATAAGATAA
63403591 CATGTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:63403636 original size:25 final size:25
Alignment explanation
Indices: 63403608--63403739 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
63403598 AAAAATATAT
* *
63403608 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAATATTAAAG
* *
63403633 ATATATACATAAAATAATA-TAATAT
1 ATATATACATAATATAATATTAA-AG
* *
63403658 ATATATACGTAATATAGA-ATT-TAG
1 ATATATACATAATATA-ATATTAAAG
* *
63403682 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
63403704 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
63403727 AAATATA-ATAATA
1 ATATATACATAATA
63403740 ACAAAAAAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 14 0.16
23 24 0.28
24 11 0.13
25 32 0.38
26 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:63403650 original size:30 final size:29
Alignment explanation
Indices: 63403535--63403653 Score: 99
Period size: 30 Copynumber: 4.3 Consensus size: 29
63403525 AAATATGTAC
* *
63403535 ATAATATAGT-GTAAAA-A-ATACAT-AC
1 ATAATATAGTATTAAAATATATACATAAA
* *
63403560 ATAATATA--ATTAAAATATATGCATAAG
1 ATAATATAGTATTAAAATATATACATAAA
* ** *
63403587 ATAACAT-GTAAAAAAATATATATATATAA
1 ATAATATAGTATTAAAATATATACATA-AA
63403616 ATAATATAGTATTAAAGATATATACATAAA
1 ATAATATAGTATTAAA-ATATATACATAAA
63403646 ATAATATA
1 ATAATATA
63403654 ATATATATAT
Statistics
Matches: 72, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
24 5 0.07
25 9 0.12
26 5 0.07
27 7 0.10
28 13 0.18
29 7 0.10
30 16 0.22
31 10 0.14
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (29 bp):
ATAATATAGTATTAAAATATATACATAAA
Found at i:63403721 original size:50 final size:49
Alignment explanation
Indices: 63403606--63403722 Score: 116
Period size: 48 Copynumber: 2.4 Consensus size: 49
63403596 AAAAAAATAT
* * *
63403606 ATATATATAA-ATAATATAGTATTAAAGATATATACATAAAATAATATA
1 ATATATATAATATAATATAGAATTAAAGATATATACATAAAATAAAAGA
* *
63403654 ATATATAT-ATACGTAATATAGAATT-TAGA-ATATACCTAATATATTAAAAGA
1 ATATATATAATA--TAATATAGAATTAAAGATATATACATAA-A-A-TAAAAGA
63403705 ATATATATAATATAATAT
1 ATATATATAATATAATAT
63403723 TAAGAAATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
47 1 0.02
48 18 0.32
49 4 0.07
50 18 0.32
51 13 0.23
52 3 0.05
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (49 bp):
ATATATATAATATAATATAGAATTAAAGATATATACATAAAATAAAAGA
Found at i:63404265 original size:30 final size:30
Alignment explanation
Indices: 63404219--63404317 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
63404209 GTAGTACAAG
*
63404219 TGGTGGTGGGGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
63404249 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
63404279 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
63404309 TGGTGGTGG
1 TGGTGGTGG
63404318 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.16, C:0.05, G:0.52, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:63404307 original size:18 final size:17
Alignment explanation
Indices: 63404250--63404307 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
63404240 TAGTGGAGTA
63404250 GGTAGTGGAGCAAGTGT
1 GGTAGTGGAGCAAGTGT
63404267 GGCTAGT-G-G--AGT-T
1 GG-TAGTGGAGCAAGTGT
*
63404280 GGTGGTGGAGCAAGTGT
1 GGTAGTGGAGCAAGTGT
63404297 GGTTAGTGGAG
1 GG-TAGTGGAG
63404308 TTGGTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 13
0.68 0.04 0.28
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 4 0.12
16 4 0.12
17 6 0.19
18 11 0.34
ACGTcount: A:0.19, C:0.05, G:0.50, T:0.26
Consensus pattern (17 bp):
GGTAGTGGAGCAAGTGT
Found at i:63407208 original size:23 final size:23
Alignment explanation
Indices: 63407181--63407251 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
63407171 TAAAAAGAGA
63407181 GATTCGGTCTCGGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
*
63407204 GATTCGGTCTCAGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
* *
63407227 GATTTGGCCTCGGTTTACACCAT
1 GATTCGGTCTCGGTTTACACCAT
63407250 GA
1 GA
63407252 ACATGGCACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (23 bp):
GATTCGGTCTCGGTTTACACCAT
Found at i:63407969 original size:26 final size:27
Alignment explanation
Indices: 63407938--63407999 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
63407928 TCTCATCCCT
63407938 ATTTTACCCCCAGTAAAA-TTTTAACG
1 ATTTTACCCCCAGTAAAATTTTTAACG
* * *
63407964 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCCCAGTAAAATTTTTAACG
63407991 ATTTTACCC
1 ATTTTACCC
63408000 TAGGTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTTACCCCCAGTAAAATTTTTAACG
Found at i:63408007 original size:27 final size:27
Alignment explanation
Indices: 63407938--63408000 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
63407928 TCTCATCCCT
*
63407938 ATTTTACCCCCAGTAAAA-TTTTAACG
1 ATTTTACCCTCAGTAAAATTTTTAACG
* *
63407964 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCTCAGTAAAATTTTTAACG
63407991 ATTTTACCCT
1 ATTTTACCCT
63408001 AGGTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTCAGTAAAATTTTTAACG
Found at i:63408008 original size:26 final size:26
Alignment explanation
Indices: 63407938--63408011 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
63407928 TCTCATCCCT
* *
63407938 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTACCCTCAGTAAATTTTTAACG
* *
63407964 ATTTTACCCTCATTAAAATTTTTGACG
1 ATTTTACCCTCAGT-AAATTTTTAACG
63407991 ATTTTACCCT-AGGTAAATTTT
1 ATTTTACCCTCA-GTAAATTTT
63408012 CAAGAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTCAGTAAATTTTTAACG
Found at i:63411762 original size:31 final size:31
Alignment explanation
Indices: 63411718--63411797 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
63411708 TGATTTGGAG
63411718 GGTCACACA--CCCGTGTGGGTAGGCCGTGT
1 GGTCACACACGCCCGTGTGGGTAGGCCGTGT
* *
63411747 TGTCACACACGCCCGTGTGGGTAGGTCGTGT
1 GGTCACACACGCCCGTGTGGGTAGGCCGTGT
*
63411778 GGTCACACACGCCCTTGTGG
1 GGTCACACACGCCCGTGTGG
63411798 CTTGGGACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 8 0.18
31 37 0.82
ACGTcount: A:0.14, C:0.29, G:0.35, T:0.23
Consensus pattern (31 bp):
GGTCACACACGCCCGTGTGGGTAGGCCGTGT
Found at i:63413297 original size:20 final size:20
Alignment explanation
Indices: 63413272--63413309 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63413262 GTCACATATA
63413272 TCATGAACTCAGATCACAAC
1 TCATGAACTCAGATCACAAC
*
63413292 TCATGAGCTCAGATCACA
1 TCATGAACTCAGATCACA
63413310 TAGTTCCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (20 bp):
TCATGAACTCAGATCACAAC
Found at i:63414172 original size:13 final size:13
Alignment explanation
Indices: 63414154--63414178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63414144 TGGTCATCAT
63414154 GGTGTGAACACAA
1 GGTGTGAACACAA
63414167 GGTGTGAACACA
1 GGTGTGAACACA
63414179 TGATCAATAC
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:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:63414694 original size:30 final size:30
Alignment explanation
Indices: 63414660--63414742 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
63414650 TAAACTAAAA
* *
63414660 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
63414690 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
*
63414720 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGATTTAGCTCGTGAG
63414743 TTGAATATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:63417068 original size:30 final size:30
Alignment explanation
Indices: 63417012--63417096 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
63417002 TTCTTTTGTT
* *
63417012 TCAATTTCTTTTTCATCTTGTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
63417042 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
* * *
63417072 TCATTTTCTTTTTCATTTTTTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
63417097 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 11 0.25
30 20 0.45
31 13 0.30
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.66
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:63417114 original size:12 final size:12
Alignment explanation
Indices: 63417099--63417129 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
63417089 TTTTTTTTGC
63417099 TTTTCAAAGGCT
1 TTTTCAAAGGCT
*
63417111 TTTTCGAAGGCT
1 TTTTCAAAGGCT
63417123 TTTTCAA
1 TTTTCAA
63417130 GTTCTCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:63419253 original size:13 final size:13
Alignment explanation
Indices: 63419235--63419259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63419225 TGGTCATCAT
63419235 GGTGTGAACACAA
1 GGTGTGAACACAA
63419248 GGTGTGAACACA
1 GGTGTGAACACA
63419260 TGATCAATAC
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:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:63419777 original size:30 final size:30
Alignment explanation
Indices: 63419743--63419825 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
63419733 TAAACTAAAA
* *
63419743 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
63419773 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
*
63419803 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGATTTAGCTCGTGAG
63419826 TTGAATATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:63423247 original size:4 final size:4
Alignment explanation
Indices: 63423240--63423270 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
63423230 TCAACATATA
*
63423240 TATG TATG TATG TATG TTTG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
63423271 AAATTTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (4 bp):
TATG
Found at i:63426369 original size:22 final size:21
Alignment explanation
Indices: 63426329--63426369 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
63426319 CACTTGACAC
*
63426329 AGGGGCACACACCCGTGTGGG
1 AGGGGCACACACCCATGTGGG
*
63426350 AGGGGCAACACGCCCATGTG
1 AGGGGC-ACACACCCATGTG
63426370 AGCATTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.29, G:0.39, T:0.10
Consensus pattern (21 bp):
AGGGGCACACACCCATGTGGG
Found at i:63427551 original size:47 final size:48
Alignment explanation
Indices: 63427480--63427706 Score: 222
Period size: 47 Copynumber: 4.9 Consensus size: 48
63427470 GGTAAGGTGT
* * *
63427480 CGATGCCATGTCCTAGACACGGTCTTACACTAGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGC
*
63427527 CGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTC-AAGC
* * * * *
63427575 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATC-TCAAGC
* * *
63427621 CGATG-CATGTCCCAGACAT-GTTTTACACTAGC-CCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA-GC
* *
63427667 CGATGCCCTGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT
63427707 AATGTGGCTG
Statistics
Matches: 151, Mismatches: 18, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
45 2 0.01
46 61 0.40
47 66 0.44
48 21 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGC
Found at i:63427623 original size:46 final size:45
Alignment explanation
Indices: 63427527--63427743 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 45
63427517 TATCTCAAGT
*
63427527 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCG-AGGC
* *
63427575 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGC
* * * * * *
63427621 CGATGCATGTCCCAGACATGTTTTACACTAGCCCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGAGGC
* * *
63427667 CGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGC
* * *
63427715 TGAAGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
63427744 AACTCACACA
Statistics
Matches: 140, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 71 0.51
47 44 0.31
48 22 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGC
Found at i:63427734 original size:94 final size:92
Alignment explanation
Indices: 63427573--63427744 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
63427563 TCATCTCGTA
* ** * *
63427573 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGAAGCATGTCCCAAAC
*
63427638 ATGTTTTACACTAGCCCTCGTCTCAAT
66 ATGTCTTACACTAGCCCTCGTCTCAAT
* * *
63427665 GCCGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGAAGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAATGAGGCCGAAGCATGTCCCA
63427729 AACATGTCTTACACTA
63 AACATGTCTTACACTA
63427745 ACTCACACAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 47 0.69
95 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGAAGCATGTCCCAAAC
ATGTCTTACACTAGCCCTCGTCTCAAT
Found at i:63430153 original size:52 final size:52
Alignment explanation
Indices: 63430075--63430179 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
63430065 TAGATCATAA
63430075 GAGTTTTACATGTTATGCATATATATGTTCACGAAACCTGACCTTGGCAATT
1 GAGTTTTACATGTTATGCATATATATGTTCACGAAACCTGACCTTGGCAATT
63430127 GAGTTTTACATGTTATGCATATATATGTTCACGAAACCTGACCTTGGCAATT
1 GAGTTTTACATGTTATGCATATATATGTTCACGAAACCTGACCTTGGCAATT
63430179 G
1 G
63430180 TTGCTCTTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
GAGTTTTACATGTTATGCATATATATGTTCACGAAACCTGACCTTGGCAATT
Found at i:63431361 original size:7 final size:7
Alignment explanation
Indices: 63431349--63431397 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
63431339 TTTAAATATC
63431349 CCTAAAT
1 CCTAAAT
63431356 CCTAAAT
1 CCTAAAT
* *
63431363 CTTAAAC
1 CCTAAAT
*
63431370 CCTAAAA
1 CCTAAAT
63431377 CCTTAAAT
1 CC-TAAAT
*
63431385 CTTAAAT
1 CCTAAAT
63431392 CCTAAA
1 CCTAAA
63431398 ACTTTAAACC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (7 bp):
CCTAAAT
Found at i:63431383 original size:15 final size:15
Alignment explanation
Indices: 63431366--63431421 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
63431356 CCTAAATCTT
* * *
63431366 AAACCCTAAAACCTT
1 AAACCTTAAACCCTA
* *
63431381 AAATCTTAAATCCTA
1 AAACCTTAAACCCTA
*
63431396 AAACTTTAAACCCTA
1 AAACCTTAAACCCTA
63431411 AAACCTTAAAC
1 AAACCTTAAAC
63431422 GCTTTTAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACCTTAAACCCTA
Done.