Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 96 of 172
Found at i:32415847 original size:54 final size:54
Alignment explanation
Indices: 32415789--32416146 Score: 287
Period size: 54 Copynumber: 6.6 Consensus size: 54
32415779 ATTACTGTTT
* * *
32415789 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * *
32415843 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * * *
32415896 TACCC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * *
32415950 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACC-CTTAGTTTATAAAATTACCAAAA
* * * *
32416004 TACCCTCAATTTATAAAATTACCAAAATACCCCTGGTTTATAAAGTTA-CAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCA-AAA
* *** * * * **
32416058 TACCCTCGACTTTCTAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * * *
32416113 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTT
32416147 GTAGGATGAA
Statistics
Matches: 245, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
52 1 0.00
53 46 0.19
54 154 0.63
55 44 0.18
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
Found at i:32415996 original size:81 final size:81
Alignment explanation
Indices: 32415803--32416061 Score: 335
Period size: 81 Copynumber: 3.2 Consensus size: 81
32415793 CTCGATTTAC
* * ** * **
32415803 AAAATTACTAAAATACC-CTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
32415867 AAATA-CCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* * * *
32415883 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
32415948 AATACCCCTAGTTTGT
66 AATACCCCTAGTTTGT
* *
32415964 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTATAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
* *
32416029 AATACCCCTGGTTTAT
66 AATACCCCTAGTTTGT
*
32416045 AAAGTTA-CAGAAATACC
1 AAAATTACCA-AAATACC
32416062 CTCGACTTTC
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 61 0.38
81 98 0.62
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:32416096 original size:55 final size:53
Alignment explanation
Indices: 32415735--32416118 Score: 185
Period size: 54 Copynumber: 7.1 Consensus size: 53
32415725 ATTATCGTTT
* * *** * * * ***
32415735 TACCCTCAATTTATAGAATTACTATTTTACCATTGATTTATAGAATTACTGTTT
1 TACCCTCAATTTATAAAATTACCAAAATACCACTGGTTTATA-AATTACAGAAA
* * * * *
32415789 TACCCTCGATTTACAAAATTACTAAAATACC-CTTAGTTTACAAAATTACCA-AAA
1 TACCCTCAATTTATAAAATTACCAAAATACCAC-TGGTTTA-TAAATTA-CAGAAA
* * * * *
32415843 TACCCTCGA-TCAGTAAAATTACCAAAATACC-CTAGTTTGTAAAATTGCTA-AAA
1 TACCCTCAATTTA-TAAAATTACCAAAATACCACTGGTTTAT-AAATTAC-AGAAA
** * * ** *
32415896 TACCC-CTGGTTTGTAAAATTACCGAAATACC-CTCAATTTGTAAAATTACCA-AAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCACT-GGTTTAT-AAATTA-CAGAAA
* * *
32415950 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCA-AAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCACTGGTTTAT-AAATTA-CAGAAA
*
32416004 TACCCTCAATTTATAAAATTACCAAAATACCCCTGGTTTATAAAGTTACAGAAA
1 TACCCTCAATTTATAAAATTACCAAAATACCACTGGTTTATAAA-TTACAGAAA
* * *** * * *
32416058 TACCCTCGACTTTCTAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCACTGGTTTA-TAAATTACAGAAA
32416113 TACCCT
1 TACCCT
32416119 TGGTTTGTAG
Statistics
Matches: 270, Mismatches: 44, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.01
53 47 0.17
54 172 0.64
55 46 0.17
56 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTATAAAATTACCAAAATACCACTGGTTTATAAATTACAGAAA
Found at i:32416112 original size:27 final size:27
Alignment explanation
Indices: 32416073--32416124 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
32416063 TCGACTTTCT
32416073 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
32416100 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
32416125 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:32416208 original size:27 final size:27
Alignment explanation
Indices: 32416178--32416265 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
32416168 ACCCCTATTA
32416178 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
*
32416205 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
32416232 GGTAAAGTGACCATAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
32416259 GGTAAAA
1 GGTAAAA
32416266 TGACGAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:32417099 original size:26 final size:26
Alignment explanation
Indices: 32417070--32417244 Score: 228
Period size: 26 Copynumber: 6.8 Consensus size: 26
32417060 GAGGAAGTGC
**
32417070 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
32417096 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * ***
32417122 AAAAGGGCTTATGCCCTAATTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
32417148 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
32417174 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
32417200 AAAAAGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
32417225 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
32417245 ATTAAAGAGG
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 31 0.24
26 98 0.76
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:32417152 original size:52 final size:52
Alignment explanation
Indices: 32417070--32417250 Score: 264
Period size: 52 Copynumber: 3.5 Consensus size: 52
32417060 GAGGAAGTGC
* *
32417070 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
* *
32417122 AAAAGGGCTTATGCCCTAATTTATTAAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
32417174 AAAAGGGCTTATG-CCTCAGTTTATTGAAAAA-GGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCT-AGTTTATT-AAAAAGGGCTTATGCCCCAGTTTACCG
*
32417225 AAAAGGGCTT-TGCCCCAG-TTATTAAA
1 AAAAGGGCTTATGCCCTAGTTTATTAAA
32417251 GAGGCTAGGC
Statistics
Matches: 119, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
48 3 0.03
49 5 0.04
50 4 0.03
51 29 0.24
52 73 0.61
53 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:32417448 original size:42 final size:42
Alignment explanation
Indices: 32417389--32417480 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
32417379 TAGTCTCCCC
* ** *
32417389 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
32417431 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
32417473 AAATGGGC
1 AAATGGGC
32417481 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:32417581 original size:31 final size:31
Alignment explanation
Indices: 32417504--32417582 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
32417494 CGTTTACAGT
*
32417504 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
32417535 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
32417566 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
32417583 AACTATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:32423806 original size:38 final size:37
Alignment explanation
Indices: 32423733--32423806 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
32423723 TTCAGCTAAG
* *
32423733 GTTTTGTATAGGTAAATATATATGAATTGGCTGTTAT
1 GTTTTGTATAGGTAAATATATATAAAATGGCTGTTAT
32423770 GTTTTGATATAGGT-AATAATATATAAACATGG-TGTTA
1 GTTTTG-TATAGGTAAAT-ATATATAAA-ATGGCTGTTA
32423807 AATGATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 9 0.28
38 20 0.62
39 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (37 bp):
GTTTTGTATAGGTAAATATATATAAAATGGCTGTTAT
Found at i:32427220 original size:22 final size:22
Alignment explanation
Indices: 32427192--32427233 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
32427182 TCACTACAAA
32427192 TGTAGCTTGCGTCTTTGAACTT
1 TGTAGCTTGCGTCTTTGAACTT
*
32427214 TGTAGCTTGCTTCTTTGAAC
1 TGTAGCTTGCGTCTTTGAAC
32427234 CTGCATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (22 bp):
TGTAGCTTGCGTCTTTGAACTT
Found at i:32429401 original size:27 final size:27
Alignment explanation
Indices: 32429371--32429834 Score: 587
Period size: 27 Copynumber: 17.2 Consensus size: 27
32429361 AAAGTACTCC
*
32429371 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
32429398 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
32429425 CGATTTTTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
32429452 CAATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
32429479 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
32429506 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
32429533 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
32429560 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
32429587 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
32429614 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
32429641 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
32429668 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
32429695 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
32429722 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
32429749 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
32429776 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
32429803 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
32429830 TGATT
1 CGATT
32429835 GTGAAATTAC
Statistics
Matches: 383, Mismatches: 44, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 373 0.97
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:32429869 original size:27 final size:27
Alignment explanation
Indices: 32429839--32430006 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 27
32429829 TTGATTGTGA
32429839 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
32429866 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
32429893 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
32429920 AATTA-TCAAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
32429947 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
32429974 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
32430001 AATTAC
1 AATTAC
32430007 CATTTTGCCC
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:32430005 original size:81 final size:81
Alignment explanation
Indices: 32429847--32430005 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
32429837 GAAATTACTG
* * * *
32429847 AAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
*
32429912 TAGGATAGAATTATCA
66 TAGGATAAAATTATCA
* * * *
32429928 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTG
1 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
* *
32429993 TGGGGTAAAATTA
66 TAGGATAAAATTA
32430006 CCATTTTGCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
TAGGATAAAATTATCA
Found at i:32430267 original size:27 final size:26
Alignment explanation
Indices: 32430206--32430288 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
32430196 CGGAGGAAGC
* *
32430206 GTTCTAGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
32430233 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * * *
32430259 TTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
32430286 GTT
1 GTT
32430289 GACCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:32430408 original size:22 final size:22
Alignment explanation
Indices: 32430376--32430434 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
32430366 CCCGTTATTA
*
32430376 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
32430398 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
32430420 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
32430435 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:32430645 original size:27 final size:26
Alignment explanation
Indices: 32430599--32430672 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
32430589 TAGGTGGGTT
* * *
32430599 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATAGCTG-TTCTGGTGACTC
32430626 TGCCACAATAGCTGTATCTGGTGACTC
1 TGCCACAATAGCTGT-TCTGGTGACTC
* * *
32430653 TGTCACGATATCTGTTCTGG
1 TGCCACAATAGCTGTTCTGG
32430673 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
TGCCACAATAGCTGTTCTGGTGACTC
Found at i:32430799 original size:6 final size:6
Alignment explanation
Indices: 32430790--32430981 Score: 175
Period size: 6 Copynumber: 31.8 Consensus size: 6
32430780 TTGCATTCAC
* *
32430790 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG A-TCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
32430838 -TTACTA ATTCTG ATTATG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
32430886 ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
32430935 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
32430982 CATTTTGGTT
Statistics
Matches: 153, Mismatches: 16, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
5 16 0.10
6 123 0.80
7 11 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:32431002 original size:30 final size:30
Alignment explanation
Indices: 32430790--32430981 Score: 289
Period size: 30 Copynumber: 6.4 Consensus size: 30
32430780 TTGCATTCAC
*
32430790 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
32430821 A-TCTGATTCTGATTCTGTTACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
32430850 ATTATGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
32430880 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
32430911 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
32430941 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
32430971 ATTCTGATTCT
1 ATTCTGATTCT
32430982 CATTTTGGTT
Statistics
Matches: 148, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
29 10 0.07
30 109 0.74
31 29 0.20
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:32433035 original size:30 final size:30
Alignment explanation
Indices: 32433001--32433070 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
32432991 GCTGTCCCAA
* * *
32433001 CCCTTTTCATAGCTCGATAGTCGAAGCTAT
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
32433031 CCCTTTTCACAGCTCAATAGCCGAAGCTAG
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
32433061 GCCTTTTCAT
1 CCCTTTTCAT
32433071 TATTTGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (30 bp):
CCCTTTTCATAGCTCAATAGCCGAAGCTAG
Found at i:32433098 original size:30 final size:31
Alignment explanation
Indices: 32433064--32433137 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
32433054 AAGCTAGGCC
* *
32433064 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTATTTGATGGTCATCACCATCCCT
*
32433094 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTATTTGATGGTCATCACCATCCCT
*
32433124 TTTT-ATAATTTGAT
1 TTTTCATTATTTGAT
32433138 AACCAAAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTATTTGATGGTCATCACCATCCCT
Found at i:32433106 original size:29 final size:31
Alignment explanation
Indices: 32433064--32433127 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
32433054 AAGCTAGGCC
* * *
32433064 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
32433094 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
32433124 TTTT
1 TTTT
32433128 ATAATTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTAGTTGATGGTCATCACCATCCCT
Found at i:32446096 original size:3 final size:3
Alignment explanation
Indices: 32446088--32446117 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32446078 GAAGTTCCAA
32446088 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
32446118 TAGCTGTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:32446096 original size:24 final size:24
Alignment explanation
Indices: 32446062--32446298 Score: 158
Period size: 24 Copynumber: 9.5 Consensus size: 24
32446052 GTGGTGACGA
32446062 AGCTGCTGCTGCCGCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * * *
32446086 AACTGCTGCTGCTGCT---GCTGC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* ** *
32446107 TGCTGCTGCTGTAGCTGTAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * *
32446131 AACTGCTGCTGCCGCTGTAACTCTAGC
1 AGCTGCTGCTGCCGCTG-AAGT-T-CC
* * *
32446158 TGCTGCTGCTGCCGCTGTAA-CTCT
1 AGCTGCTGCTGCCGCTG-AAGTTCC
*
32446182 AGCTGCTGCTGCTGTCGCTGTAGTTCC
1 AGCTGCTGCTGC---CGCTGAAGTTCC
*
32446209 AGTTGCTGCTGTTGCCGCTGAAGTTCC
1 A---GCTGCTGCTGCCGCTGAAGTTCC
*
32446236 AGCTGCTGCTGCCTCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
32446260 AGCTGCTGCTGCTGTCGCTGAAGTTCC
1 AGCTGCTGCTGC---CGCTGAAGTTCC
* *
32446287 AACTGCCGCTGC
1 AGCTGCTGCTGC
32446299 TGTTGAAACT
Statistics
Matches: 164, Mismatches: 33, Indels: 29
0.73 0.15 0.13
Matches are distributed among these distances:
21 15 0.09
24 74 0.45
25 3 0.02
26 2 0.01
27 60 0.37
30 10 0.06
ACGTcount: A:0.11, C:0.31, G:0.27, T:0.30
Consensus pattern (24 bp):
AGCTGCTGCTGCCGCTGAAGTTCC
Found at i:32446099 original size:27 final size:27
Alignment explanation
Indices: 32446063--32446300 Score: 168
Period size: 27 Copynumber: 9.4 Consensus size: 27
32446053 TGGTGACGAA
32446063 GCTGCTGCTGCCGCTGAAGTTCCAACT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
32446090 GCTGCTGCTGCTGCT---G------CT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
** *
32446108 GCTGCTGCTGTAGCTGTAGTTCCAA--
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
* * *
32446133 -CTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * *
32446159 GCTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * **
32446186 GCTGCTGCTGTCGCTGTAGTTCCAGTT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
32446213 GCTGCTGTTGCCGCTGAAGTTCC-A--
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
* *
32446237 GCTGCTGCTGCCTCTGAAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
32446264 GCTGCTGCTGTCGCTGAAGTTCCAACT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
32446291 GCCGCTGCTG
1 GCTGCTGCTG
32446301 TTGAAACTGA
Statistics
Matches: 169, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
18 15 0.09
21 1 0.01
24 38 0.22
25 1 0.01
26 1 0.01
27 113 0.67
ACGTcount: A:0.11, C:0.31, G:0.28, T:0.30
Consensus pattern (27 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACT
Found at i:32446175 original size:51 final size:50
Alignment explanation
Indices: 32446063--32446298 Score: 214
Period size: 51 Copynumber: 4.7 Consensus size: 50
32446053 TGGTGACGAA
* *
32446063 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCTGCTG-----CTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGAATTCCAGCT
** * * *
32446108 GCTGCTGCTGTAGCTGTAGTTCCAACTGCTGCTGCCGCTGTAACTCTAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTG-AATTCCAGCT
* * * * *
32446159 GCTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCTGTCGCTGTAGTTCCAGTT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACTGCTGCTGC---CGCTG-AATTCCAGCT
* * *
32446213 GCTGCTGTTGCCGCTGAAGTTCCAGCTGCTGCTGCCTCTGAAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGAA-TTCCAGCT
* *
32446264 GCTGCTGCTGTCGCTGAAGTTCCAACTGCCGCTGC
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGC
32446299 TGTTGAAACT
Statistics
Matches: 153, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
45 36 0.24
50 1 0.01
51 72 0.47
52 1 0.01
53 2 0.01
54 41 0.27
ACGTcount: A:0.11, C:0.31, G:0.28, T:0.30
Consensus pattern (50 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGAATTCCAGCT
Found at i:32446216 original size:78 final size:76
Alignment explanation
Indices: 32446064--32446292 Score: 224
Period size: 78 Copynumber: 3.1 Consensus size: 76
32446054 GGTGACGAAG
* * * *
32446064 CTGCTGC-TGCCGCTGAAGTTCCAACTGCTGCTGCTGCT---GCT---GCTGCTGCTGCTGTAGC
1 CTGCTGCTTGCCGCTGAACTTCCAGCTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCTGTCGC
32446122 TGTAGTTCCAA
66 TGTAGTTCCAA
* * *
32446133 CTGCTGC-TGCCGCTGTAACTCTAGCTGCTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCTG
1 CTGCTGCTTGCCGCTG-AACT-T-CCAGCTGCTGCTGCCGCTG-AAGCTCCAGCTGCTGCTGCTG
*
32446196 TCGCTGTAGTTCCAG
62 TCGCTGTAGTTCCAA
* * * *
32446211 TTGCTGCTGTTGCCGCTGAAGTTCCAGCTGCTGCTGCCTCTGAAGTTCCAGCTGCTGCTGCTGTC
1 CTGCTGC--TTGCCGCTGAACTTCCAGCTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCTGTC
*
32446276 GCTGAAGTTCCAA
64 GCTGTAGTTCCAA
32446289 CTGC
1 CTGC
32446293 CGCTGCTGTT
Statistics
Matches: 129, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
69 15 0.12
70 3 0.02
71 1 0.01
72 14 0.11
75 2 0.02
77 2 0.02
78 80 0.62
79 1 0.01
80 3 0.02
81 8 0.06
ACGTcount: A:0.11, C:0.31, G:0.27, T:0.31
Consensus pattern (76 bp):
CTGCTGCTTGCCGCTGAACTTCCAGCTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCTGTCGC
TGTAGTTCCAA
Found at i:32461886 original size:19 final size:19
Alignment explanation
Indices: 32461862--32461901 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
32461852 TTCCAGGGAG
32461862 ATACTTTCAAGAATACTCT
1 ATACTTTCAAGAATACTCT
32461881 ATACTTTCAAGAATACTCT
1 ATACTTTCAAGAATACTCT
32461900 AT
1 AT
32461902 CTCCAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (19 bp):
ATACTTTCAAGAATACTCT
Found at i:32463796 original size:19 final size:19
Alignment explanation
Indices: 32463772--32463809 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32463762 TATCAAAATG
32463772 TCGTCAATAAACACAACGA
1 TCGTCAATAAACACAACGA
32463791 TCGTCAATAAACACAACGA
1 TCGTCAATAAACACAACGA
32463810 CAAACTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
TCGTCAATAAACACAACGA
Found at i:32476626 original size:49 final size:49
Alignment explanation
Indices: 32476554--32476651 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
32476544 AGGTGAATGG
*
32476554 AAATGTCGCCCAAGTATTGATATCCCAACCTACTTTAATCAAGAAATAA
1 AAATGTCGCCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
*
32476603 AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
1 AAATGTCGCCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
32476652 TGTTTCCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (49 bp):
AAATGTCGCCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
Found at i:32488614 original size:20 final size:20
Alignment explanation
Indices: 32488572--32488627 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
32488562 AAACCAGCTA
* *
32488572 AAAAACCGGTTGAATTGGGT
1 AAAAACCGGTTGAACTCGGT
* *
32488592 AAAAACCTGTTGAACTCGTT
1 AAAAACCGGTTGAACTCGGT
* *
32488612 AAAAATCGGTTAAACT
1 AAAAACCGGTTGAACT
32488628 GGGGTTTTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (20 bp):
AAAAACCGGTTGAACTCGGT
Found at i:32492207 original size:27 final size:27
Alignment explanation
Indices: 32492177--32492354 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
32492167 ATATTGAGTC
* *
32492177 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
32492204 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
32492231 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
32492259 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
32492286 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
32492313 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
32492340 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
32492355 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:32492316 original size:82 final size:81
Alignment explanation
Indices: 32492198--32492353 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
32492188 TGCTATATAA
* * *
32492198 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
32492263 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32492280 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
32492344 CACTTAGTGC
65 CACTTAGTGC
32492354 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:32496131 original size:30 final size:29
Alignment explanation
Indices: 32496063--32496137 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
32496053 GGCTACCTCA
* *
32496063 GTTAAAAGAGAGTCTTTGTGGTGATCTCT
1 GTTAAAAGAAAGTCTTTGTGGCGATCTCT
*
32496092 GTTAAAAGAAAGTCTTTGTGGCGATCTTT
1 GTTAAAAGAAAGTCTTTGTGGCGATCTCT
32496121 GTTAAAAAGAAAGTCTT
1 GTT-AAAAGAAAGTCTT
32496138 CATGGTTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 29 0.69
30 13 0.31
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (29 bp):
GTTAAAAGAAAGTCTTTGTGGCGATCTCT
Found at i:32496211 original size:29 final size:29
Alignment explanation
Indices: 32496053--32496253 Score: 99
Period size: 29 Copynumber: 6.9 Consensus size: 29
32496043 ACGCCTTTAT
* * *
32496053 GGCTACCTCAGTTAAAAGAGA-GTCTTTGT
1 GGCTATCTCTGTTAAAAG-GATGTCTTTGA
* * *
32496082 GG-TGATCTCTGTTAAAAGAAAGTCTTTGT
1 GGCT-ATCTCTGTTAAAAGGATGTCTTTGA
* * * * *
32496111 GGCGATCTTTGTTAAAAAGAAAGTC-TTCA
1 GGCTATCTCTGTT-AAAAGGATGTCTTTGA
* * ** * *
32496140 TGGTTATCTCTATTTTAAGGATGACTTTGT
1 -GGCTATCTCTGTTAAAAGGATGTCTTTGA
* *
32496170 GGCTATTTATGTTAAAAGGATGTCTTTGA
1 GGCTATCTCTGTTAAAAGGATGTCTTTGA
* *
32496199 GGCTATCTCTGTT-TAGGGAATGTCTTT-A
1 GGCTATCTCTGTTAAAAGG-ATGTCTTTGA
*
32496227 TGGATATCTCTGTT-AAAGGAATGTCTT
1 -GGCTATCTCTGTTAAAAGG-ATGTCTT
32496254 GTAGCAAATT
Statistics
Matches: 131, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
28 6 0.05
29 103 0.79
30 22 0.17
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (29 bp):
GGCTATCTCTGTTAAAAGGATGTCTTTGA
Found at i:32497526 original size:18 final size:18
Alignment explanation
Indices: 32497505--32497541 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32497495 TTGAGACAAA
32497505 ATTAATTAAATTAAAACT
1 ATTAATTAAATTAAAACT
32497523 ATTAATTAAATTAAAACT
1 ATTAATTAAATTAAAACT
32497541 A
1 A
32497542 CACCTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAATTAAATTAAAACT
Found at i:32500309 original size:17 final size:20
Alignment explanation
Indices: 32500268--32500309 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32500258 TTTTTTGGTC
*
32500268 TTTATTGTTCTTATCTTTGA
1 TTTATTATTCTTATCTTTGA
32500288 TTTATTATTC-TAT-TTT-A
1 TTTATTATTCTTATCTTTGA
32500305 TTTAT
1 TTTAT
32500310 CTTAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 3 0.14
20 9 0.43
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTATTATTCTTATCTTTGA
Found at i:32500318 original size:13 final size:13
Alignment explanation
Indices: 32500302--32500355 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
32500292 TTATTCTATT
*
32500302 TTATTTATCTTAG
1 TTATTTATCTTAA
*
32500315 TTATTTATTTTAA
1 TTATTTATCTTAA
* *
32500328 TTAATTATATTAA
1 TTATTTATCTTAA
*
32500341 TTTTTTATCTTAA
1 TTATTTATCTTAA
32500354 TT
1 TT
32500356 GGATTTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:32505630 original size:20 final size:20
Alignment explanation
Indices: 32505593--32505632 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32505583 CATTAAATAC
* *
32505593 TTCAAACTCTTTTTGTCAGT
1 TTCAAACTCTTGTGGTCAGT
32505613 TTCAAACTCTTGTGGTCAGT
1 TTCAAACTCTTGTGGTCAGT
32505633 AAAGATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
TTCAAACTCTTGTGGTCAGT
Found at i:32507409 original size:11 final size:11
Alignment explanation
Indices: 32507393--32507420 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32507383 CACAGCAGAG
32507393 TCCTTTTTCAT
1 TCCTTTTTCAT
32507404 TCCTTTTTCAT
1 TCCTTTTTCAT
32507415 TCCTTT
1 TCCTTT
32507421 ACTAGTGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (11 bp):
TCCTTTTTCAT
Found at i:32514357 original size:42 final size:42
Alignment explanation
Indices: 32514305--32514458 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
32514295 TGAGATTAGC
* * *
32514305 TGTAAAACCATATCTGGGATATGGCATCTATATGAGACTCCG
1 TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
* **
32514347 TGTAAGACCATATCTGGGATATGGAATCGATAAGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
* * * * *
32514389 TGTAAGACCATAGT-TAGGCTATTGGGATCGATACGAGA-TCCCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATAAGAGACT-CCG
32514432 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
32514459 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
Found at i:32519511 original size:254 final size:254
Alignment explanation
Indices: 32519062--32519570 Score: 1009
Period size: 254 Copynumber: 2.0 Consensus size: 254
32519052 TTCAATTCAT
32519062 ACTCTAACAATATCGACAACCACAAGGCACACATGTACCGCAATATACCATTCAATTCATTCCAA
1 ACTCTAACAATATCGACAACCACAAGGCACACATGTACCGCAATATACCATTCAATTCATTCCAA
32519127 TTCCACATTCTCAAGTCACCTAAATGATCATTTTCATTTATACATCTCATTACCTAAATCACAAT
66 TTCCACATTCTCAAGTCACCTAAATGATCATTTTCATTTATACATCTCATTACCTAAATCACAAT
32519192 CATACCATACTCCACAACTATTTATATAGCAATTACCAAGATGTATAACAAATTCCATTTACACA
131 CATACCATACTCCACAACTATTTATATAGCAATTACCAAGATGTATAACAAATTCCATTTACACA
*
32519257 CATATATATATACATAACCAAATCAACCAAAATAAGCCAAATCGCATGGCCAAAAACAA
196 CATATATATATACATAACCAAATCAACCAAAATAAGCCAAATCACATGGCCAAAAACAA
32519316 ACTCTAACAATATCGACAACCACAAGGCACACATGTACCGCAATATACCATTCAATTCATTCCAA
1 ACTCTAACAATATCGACAACCACAAGGCACACATGTACCGCAATATACCATTCAATTCATTCCAA
32519381 TTCCACATTCTCAAGTCACCTAAATGATCATTTTCATTTATACATCTCATTACCTAAATCACAAT
66 TTCCACATTCTCAAGTCACCTAAATGATCATTTTCATTTATACATCTCATTACCTAAATCACAAT
32519446 CATACCATACTCCACAACTATTTATATAGCAATTACCAAGATGTATAACAAATTCCATTTACACA
131 CATACCATACTCCACAACTATTTATATAGCAATTACCAAGATGTATAACAAATTCCATTTACACA
32519511 CATATATATATACATAACCAAATCAACCAAAATAAGCCAAATCACATGGCCAAAAACAA
196 CATATATATATACATAACCAAATCAACCAAAATAAGCCAAATCACATGGCCAAAAACAA
32519570 A
1 A
32519571 ACAAACCATT
Statistics
Matches: 254, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 254 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (254 bp):
ACTCTAACAATATCGACAACCACAAGGCACACATGTACCGCAATATACCATTCAATTCATTCCAA
TTCCACATTCTCAAGTCACCTAAATGATCATTTTCATTTATACATCTCATTACCTAAATCACAAT
CATACCATACTCCACAACTATTTATATAGCAATTACCAAGATGTATAACAAATTCCATTTACACA
CATATATATATACATAACCAAATCAACCAAAATAAGCCAAATCACATGGCCAAAAACAA
Found at i:32521114 original size:21 final size:20
Alignment explanation
Indices: 32521067--32521114 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
32521057 ATGATAGCTT
* * *
32521067 TTTTTGTTTTATTAATTTAC
1 TTTTTATTTTACTAAATTAC
*
32521087 TTATTATTTTACTAAATTACC
1 TTTTTATTTTACTAAATTA-C
32521108 TTTTTAT
1 TTTTTAT
32521115 CCTTATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATTTTACTAAATTAC
Found at i:32524916 original size:17 final size:17
Alignment explanation
Indices: 32524896--32524929 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32524886 AAATTGATAG
32524896 TTTTTCTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
*
32524913 TTTTTTTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
32524930 CCTGAGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTTTCTTAATTTGGTA
Found at i:32525912 original size:27 final size:27
Alignment explanation
Indices: 32525876--32525939 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
32525866 GCCTTTGAAT
32525876 TTTGATGAAATGAGCTATTTG-GGG-CTAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
32525904 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
32525932 ATTGTGAA
1 TTTGTGAA
32525940 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 8 0.25
28 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:32525914 original size:28 final size:28
Alignment explanation
Indices: 32525883--32525939 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
32525873 AATTTTGATG
*
32525883 AAATGAGCTATTTG-GGG-CTAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
32525911 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
32525939 A
1 A
32525940 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:32531203 original size:27 final size:27
Alignment explanation
Indices: 32531072--32531202 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
32531062 ATTACCAAAG
* *
32531072 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
32531099 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
32531126 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
32531153 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
32531180 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
32531203 AAAATACCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:32531210 original size:27 final size:27
Alignment explanation
Indices: 32531126--32531508 Score: 190
Period size: 27 Copynumber: 14.1 Consensus size: 27
32531116 ATTACCGTTT
* ****
32531126 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ***
32531153 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
32531180 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
32531207 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
32531234 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* * * *
32531261 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
32531287 TACCC-CTAGTTTGTAAAATTAC-AGAAA
1 TACCCTCGA-TTTATAAAATTACTA-AAA
* * *
32531314 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
32531341 TA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * *
32531368 TACCACT-GGTTTGTAAAATTA-TCGAAA
1 TACC-CTCGATTTATAAAATTACT-AAAA
* * *
32531395 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
32531422 TACCCTTGATTTACAAAGTTAC-AGAAA
1 TACCCTCGATTTATAAAATTACTA-AAA
* * *
32531449 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * *
32531478 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
32531505 TACC
1 TACC
32531509 ATTGGTTTGT
Statistics
Matches: 289, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
26 28 0.10
27 232 0.80
28 11 0.04
29 18 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:32531211 original size:54 final size:54
Alignment explanation
Indices: 32531106--32531266 Score: 162
Period size: 54 Copynumber: 3.0 Consensus size: 54
32531096 TTTTACCATC
* * * ****
32531106 GATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
*
32531160 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
* * *** * * *
32531214 GGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCCT
1 GATTTACAGAATTACCATTTTACCCTCGATTTA-CAAAATTACTAAAATACCCT
32531267 AGTCTGTAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (54 bp):
GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
Found at i:32531227 original size:81 final size:81
Alignment explanation
Indices: 32531080--32531228 Score: 181
Period size: 81 Copynumber: 1.8 Consensus size: 81
32531070 AGTACCCTCA
* * * **** * *
32531080 ATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAAT
32531145 TACTGTTTTACCCTTG
66 TACTGTTTTACCCTTG
* * * *
32531161 ATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAAT
1 ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAAT
32531226 TAC
66 TAC
32531229 CAAAATACCC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAAT
TACTGTTTTACCCTTG
Found at i:32531265 original size:81 final size:80
Alignment explanation
Indices: 32531180--32531456 Score: 301
Period size: 81 Copynumber: 3.4 Consensus size: 80
32531170 ATTACTATTT
** * *
32531180 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCTCAATT
*
32531245 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * *
32531261 TACCCTAG-TCTGTAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCTCAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACA-AAATACCCTCAATT
32531325 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * *
32531341 TA-CCTCTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTAAAATTATCGAAATACCCTCAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACC-CTTGGTTTGTAAAATTA-CAAAATACCCTCAA
32531404 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* *
32531422 TACCCTTGATTTACAAAGTTAC-AGAAATACCCTTG
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTTG
32531457 ACTTTCTAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
79 5 0.03
80 62 0.38
81 91 0.55
82 6 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:32531350 original size:54 final size:52
Alignment explanation
Indices: 32531194--32531427 Score: 254
Period size: 54 Copynumber: 4.4 Consensus size: 52
32531184 CTCGATTTAC
* * ** * **
32531194 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCTAG-TTTGT
* * *
32531248 AAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATA-CCCTAGTTTGT
*
32531301 AAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTAGTTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGTAAAATTACCAAAATACC-CTAGTTTGT
* * * *
32531355 AAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCT-AGTTTGT
32531409 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
32531428 TGATTTACAA
Statistics
Matches: 154, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.01
53 42 0.27
54 106 0.69
55 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (52 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTAGTTTGT
Found at i:32531449 original size:54 final size:54
Alignment explanation
Indices: 32531153--32531508 Score: 238
Period size: 54 Copynumber: 6.6 Consensus size: 54
32531143 ATTACTGTTT
* * *** * ** *
32531153 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * **
32531207 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * ** * * *
32531261 TACCCTAG-TCTGTAAAATTGCTAAAATACCC-CTAGTTTGTAAAATTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCA-AAA
** ** *
32531314 TACCCTCAATTTGTAAAATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAA
* ** * *
32531368 TACCAC-TGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * * * ***
32531422 TACCCTTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTTGATTTACAAAATTACCA-AAATACCC-TCAATTTGT-AAAATTACCAAAA
* * **
32531478 TACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGATTTACAAAATTACCAAAATACC
32531509 ATTGGTTTGT
Statistics
Matches: 242, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
52 3 0.01
53 41 0.17
54 150 0.62
55 13 0.05
56 35 0.14
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:32531600 original size:27 final size:27
Alignment explanation
Indices: 32531570--32531657 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
32531560 ACCCCTATTA
32531570 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* *
32531597 GGTAAAGAGACCGTAAAGCCCTTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** *
32531624 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
32531651 GGTAAAA
1 GGTAAAA
32531658 TGATGAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:32532532 original size:25 final size:26
Alignment explanation
Indices: 32532461--32532557 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
32532451 GAGGAAGTGC
32532461 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
32532487 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
32532513 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
32532538 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
32532558 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 33 0.49
26 35 0.51
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:32532541 original size:51 final size:51
Alignment explanation
Indices: 32532461--32532557 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
32532451 GAGGAAGTGC
*
32532461 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
32532513 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
32532558 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.23
51 24 0.55
52 10 0.23
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:32532761 original size:42 final size:42
Alignment explanation
Indices: 32532702--32532793 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
32532692 TAGTCTCCCC
** ** * *
32532702 AAATGGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
32532744 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
32532786 AAATGGGC
1 AAATGGGC
32532794 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
Found at i:32532852 original size:31 final size:31
Alignment explanation
Indices: 32532817--32532976 Score: 147
Period size: 31 Copynumber: 5.3 Consensus size: 31
32532807 CATTTACAGT
*
32532817 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
** * *
32532848 AAAGGCTTCAACCCAGT-A-ACTG-TTAAACG-
1 AAAGGCTTCGGCCCAGTGATA-TGATT-TATGA
32532877 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
** * *
32532908 AAAGGCTTCAACCCAGT-A-ACTG-TTAAACG-
1 AAAGGCTTCGGCCCAGTGATA-TGATT-TATGA
32532937 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
32532968 AAAGGCTTC
1 AAAGGCTTC
32532977 AACCCAGTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
29 36 0.36
30 20 0.20
31 44 0.44
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:32532890 original size:60 final size:60
Alignment explanation
Indices: 32532817--32533018 Score: 370
Period size: 60 Copynumber: 3.4 Consensus size: 60
32532807 CATTTACAGT
*
32532817 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
32532877 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
*
32532937 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
*
32532997 AAAGGCTTCGGCTCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
32533019 TCAAGACTAA
Statistics
Matches: 139, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
59 5 0.04
60 134 0.96
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (60 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
Found at i:32533014 original size:29 final size:29
Alignment explanation
Indices: 32532847--32533005 Score: 142
Period size: 29 Copynumber: 5.3 Consensus size: 29
32532837 ATGATTTATG
32532847 AAAAGGCTTCAACCCAGTAACTGTTAAAC
1 AAAAGGCTTCAACCCAGTAACTGTTAAAC
* ** * **
32532876 GAAAGGCTTCGGCCCAGTGATA-TGATTTATG
1 AAAAGGCTTCAACCCAGT-A-ACTG-TTAAAC
32532907 AAAAGGCTTCAACCCAGTAACTGTTAAAC
1 AAAAGGCTTCAACCCAGTAACTGTTAAAC
* ** * **
32532936 GAAAGGCTTCGGCCCAGTGATA-TGATTTATG
1 AAAAGGCTTCAACCCAGT-A-ACTG-TTAAAC
32532967 AAAAGGCTTCAACCCAGTAACTGTTAAAC
1 AAAAGGCTTCAACCCAGTAACTGTTAAAC
32532996 AAAAGGCTTC
1 AAAAGGCTTC
32533006 GGCTCAGTAT
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
29 48 0.49
30 12 0.12
31 38 0.39
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (29 bp):
AAAAGGCTTCAACCCAGTAACTGTTAAAC
Found at i:32535634 original size:79 final size:78
Alignment explanation
Indices: 32535534--32535750 Score: 249
Period size: 79 Copynumber: 2.7 Consensus size: 78
32535524 GCTACTCGTT
* **
32535534 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
*
32535599 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * * *
32535614 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
32535678 ATTAGTAACTCGCA
65 ATTAGTAACTCGCA
* * * * *
32535692 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
32535751 GCCCGGACAT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 34 0.29
79 57 0.49
80 25 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAA
TTAGTAACTCGCA
Found at i:32535654 original size:39 final size:40
Alignment explanation
Indices: 32535536--32535757 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
32535526 TACTCGTTCA
* * *
32535536 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACC
* * *
32535576 AATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
32535616 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* *
32535655 AATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* * * *
32535694 AATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACC
*
32535734 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32535758 CATCATTCGA
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.46
40 75 0.47
41 9 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:32537909 original size:43 final size:43
Alignment explanation
Indices: 32537802--32537982 Score: 129
Period size: 43 Copynumber: 4.2 Consensus size: 43
32537792 TTCTAAAGGA
* ** *
32537802 ACATTGACATC-TATCTGAGATATCGTGTAAGACCATGTCTAGG
1 ACATTGGCATCATATCTGATTTA-CGTGTAAGACCATGTCTGGG
* * ** *
32537845 ACATAGGCCTCGAT-TGAGATTTACGTATAAGACCATGTCTGGG
1 ACATTGGCATC-ATATCTGATTTACGTGTAAGACCATGTCTGGG
* *
32537888 ACATTGGCATCATATCTGATTT-CGTGTAAGACCCTGTCTGAG
1 ACATTGGCATCATATCTGATTTACGTGTAAGACCATGTCTGGG
** * * * * *
32537930 ACAGAGGCATCGATAT-TAAATTACATGTAAGACCACGTCCGGG
1 ACATTGGCATC-ATATCTGATTTACGTGTAAGACCATGTCTGGG
32537973 AC-TTCGGCAT
1 ACATT-GGCAT
32537983 TGTACTCGTG
Statistics
Matches: 105, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 32 0.30
43 67 0.64
44 5 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
ACATTGGCATCATATCTGATTTACGTGTAAGACCATGTCTGGG
Found at i:32537974 original size:85 final size:85
Alignment explanation
Indices: 32537802--32537982 Score: 190
Period size: 85 Copynumber: 2.1 Consensus size: 85
32537792 TTCTAAAGGA
* * * *
32537802 ACATTGACATCTATCTGAGATATCGTGTAAGACCATGTCTAGGACATAGGCCTCGATTGAGATTT
1 ACATTGGCATCTATCT-AGATATCGTGTAAGACCATGTCTAGGACAGAGGCATCGATTGAGAATT
* * *
32537867 ACGTATAAGACCATGTCTGGG
65 ACATATAAGACCACGTCCGGG
* * *
32537888 ACATTGGCATCATATCT-GATTTCGTGTAAGACCCTGTCT-GAGACAGAGGCATCGATATTA-AA
1 ACATTGGCATC-TATCTAGATATCGTGTAAGACCATGTCTAG-GACAGAGGCATCGAT-TGAGAA
*
32537950 TTACATGTAAGACCACGTCCGGG
63 TTACATATAAGACCACGTCCGGG
32537973 AC-TTCGGCAT
1 ACATT-GGCAT
32537983 TGTACTCGTG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
84 3 0.04
85 60 0.75
86 12 0.15
87 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (85 bp):
ACATTGGCATCTATCTAGATATCGTGTAAGACCATGTCTAGGACAGAGGCATCGATTGAGAATTA
CATATAAGACCACGTCCGGG
Found at i:32540496 original size:30 final size:29
Alignment explanation
Indices: 32540441--32540503 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
32540431 ATATTTAAAA
*
32540441 TATAAAATTTTAATAATGTTATTTTATATT
1 TATAAAATTTTAATAA-GTTATTTTATAAT
*
32540471 TATAAATATTTTAATTAA-TTGTTTTATAAT
1 TATAAA-ATTTTAA-TAAGTTATTTTATAAT
32540501 TAT
1 TAT
32540504 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 19 0.66
31 7 0.24
32 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (29 bp):
TATAAAATTTTAATAAGTTATTTTATAAT
Found at i:32544084 original size:18 final size:18
Alignment explanation
Indices: 32544063--32544114 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
32544053 AAAATGTGAG
*
32544063 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
32544081 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
32544099 AAATGATGTTCACATT
1 AAATGATGTTCACATT
32544115 GATAGAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:32544634 original size:72 final size:72
Alignment explanation
Indices: 32544539--32544802 Score: 372
Period size: 72 Copynumber: 3.7 Consensus size: 72
32544529 CAATGCTAAA
* *
32544539 CTAGTTTTATCAATTGTTATTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
32544604 GTGTAAT
66 GTGTAAT
* * * * *
32544611 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTTTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
32544676 GTGTAAT
66 GTGTAAT
* *
32544683 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
* *
32544748 ACT-AAAT
66 -GTGTAAT
* * *
32544755 -TAGTTTTATCAATAGTTGTTTATATAT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTAT
32544803 TCACAGGTGA
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
70 18 0.10
71 25 0.14
72 129 0.75
73 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:32547929 original size:43 final size:43
Alignment explanation
Indices: 32547819--32547929 Score: 188
Period size: 42 Copynumber: 2.6 Consensus size: 43
32547809 CTGGCATTAC
*
32547819 GCCTGCTAGGCACGAAGGCCCGAATACAGATCACCGGAACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGAACGAA
* *
32547862 GCCTGC-AGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGAACGAA
32547904 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
32547930 TAATACCAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
42 39 0.61
43 25 0.39
ACGTcount: A:0.31, C:0.32, G:0.27, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGAACGAA
Found at i:32547965 original size:38 final size:38
Alignment explanation
Indices: 32547922--32548005 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
32547912 GGCACGAAGG
* * *
32547922 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
32547960 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
32547998 CCTGAATA
1 CCCGAATA
32548006 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:32555031 original size:41 final size:40
Alignment explanation
Indices: 32554977--32555063 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 40
32554967 CGAAGGAGAA
*
32554977 AAAAAATTACAACAAAACTCTATTCTAAAGAAAATAAAAG
1 AAAAAATTACAACAAAAATCTATTCTAAAGAAAATAAAAG
*
32555017 AAAAAATCTACAACAAAAATCTATTCTAACGAAAATAAAAG
1 AAAAAAT-TACAACAAAAATCTATTCTAAAGAAAATAAAAG
32555058 AAAAAA
1 AAAAAA
32555064 AAAACCTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 7 0.16
41 37 0.84
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (40 bp):
AAAAAATTACAACAAAAATCTATTCTAAAGAAAATAAAAG
Found at i:32557930 original size:109 final size:109
Alignment explanation
Indices: 32557722--32558104 Score: 597
Period size: 109 Copynumber: 3.5 Consensus size: 109
32557712 CCAGCTTACA
* * * * * * ** ** *
32557722 ATGCTGCTCACACAAGCTGTAGAGAATCCGCAATAGATGTACGATCTCAAGCCATCGTTACAGTC
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCT-TAGCCATTTTTATGGTT
* * *
32557787 TGTATCACCGGTATAT-GATACCTACTAAATAATCATCGGGTCACG
65 TATATCACGGGTATATAG-TACCTACTAAATAATCATCAGGTCACG
*
32557832 ATGCTGCCCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTATGGTTT
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTATGGTTT
32557897 ATATCACGGGTATATAGTACCTACTAAATAATCATCAGGTCACG
66 ATATCACGGGTATATAGTACCTACTAAATAATCATCAGGTCACG
32557941 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTATGGTTT
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTATGGTTT
32558006 ATATCACGGGTATATAGTACCTACTAAATAATCATCAGGTCACG
66 ATATCACGGGTATATAGTACCTACTAAATAATCATCAGGTCACG
*
32558050 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATT
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATT
32558105 GCTACGGTCT
Statistics
Matches: 255, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
109 213 0.84
110 42 0.16
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (109 bp):
ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTATGGTTT
ATATCACGGGTATATAGTACCTACTAAATAATCATCAGGTCACG
Found at i:32558195 original size:40 final size:40
Alignment explanation
Indices: 32558143--32558227 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
32558133 CTGGTAGACA
*
32558143 ACACTAGCAAAAAGCTTGCTAGGCACAATGCCCGATAAAC
1 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
*
32558183 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAT
1 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
32558223 ACACT
1 ACACT
32558228 GATCACGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.15
Consensus pattern (40 bp):
ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
Found at i:32561467 original size:13 final size:13
Alignment explanation
Indices: 32561449--32561475 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32561439 TTTACCCTGT
32561449 TATCGCACGGTCG
1 TATCGCACGGTCG
32561462 TATCGCACGGTCG
1 TATCGCACGGTCG
32561475 T
1 T
32561476 GTTTCCCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (13 bp):
TATCGCACGGTCG
Found at i:32574660 original size:20 final size:20
Alignment explanation
Indices: 32574622--32574728 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
32574612 CGAATGTGTG
*
32574622 ATCAGGGGAACCA-AAGTGCA
1 ATCAGGGGTA-CAGAAGTGCA
* *
32574642 AACAGGGGTACAGACGTGCA
1 ATCAGGGGTACAGAAGTGCA
* * * *
32574662 TTTAGGGGTACCGAAGTACA
1 ATCAGGGGTACAGAAGTGCA
* * *
32574682 ACCAGGGGCACATAAGTGCA
1 ATCAGGGGTACAGAAGTGCA
* *
32574702 ATCAGGGGTACCGAAGTACA
1 ATCAGGGGTACAGAAGTGCA
*
32574722 AGCAGGG
1 ATCAGGG
32574729 ACATGTAAGT
Statistics
Matches: 64, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
19 2 0.03
20 62 0.97
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.13
Consensus pattern (20 bp):
ATCAGGGGTACAGAAGTGCA
Found at i:32574701 original size:40 final size:40
Alignment explanation
Indices: 32574622--32574728 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
32574612 CGAATGTGTG
* * * * *
32574622 ATCAGGGGAACCAAAGTGCAAACAGGGGTACAGACGTGCA
1 ATCAGGGGTACCGAAGTACAAACAGGGGCACAGAAGTGCA
* * * *
32574662 TTTAGGGGTACCGAAGTACAACCAGGGGCACATAAGTGCA
1 ATCAGGGGTACCGAAGTACAAACAGGGGCACAGAAGTGCA
*
32574702 ATCAGGGGTACCGAAGTACAAGCAGGG
1 ATCAGGGGTACCGAAGTACAAACAGGG
32574729 ACATGTAAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.13
Consensus pattern (40 bp):
ATCAGGGGTACCGAAGTACAAACAGGGGCACAGAAGTGCA
Found at i:32574738 original size:40 final size:40
Alignment explanation
Indices: 32574665--32574743 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
32574655 ACGTGCATTT
*
32574665 AGGGGTACCGAAGTACAACCAGGGGCACATAAGTGCAATC
1 AGGGGTACCGAAGTACAACCAGGGACACATAAGTGCAATC
* **
32574705 AGGGGTACCGAAGTACAAGCAGGGACATGTAAGTGCAAT
1 AGGGGTACCGAAGTACAACCAGGGACACATAAGTGCAAT
32574744 AATTTAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.14
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAACCAGGGACACATAAGTGCAATC
Found at i:32575507 original size:20 final size:20
Alignment explanation
Indices: 32575479--32575516 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32575469 AACTATCATG
*
32575479 TTTTCTTTATGTTATTAACC
1 TTTTATTTATGTTATTAACC
*
32575499 TTTTATTTATTTTATTAA
1 TTTTATTTATGTTATTAA
32575517 TAAAATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTTATGTTATTAACC
Found at i:32577645 original size:21 final size:21
Alignment explanation
Indices: 32577619--32577686 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
32577609 AAAGTGTAAA
32577619 CAGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTGCAATT
** * * *
32577640 CAGGGGCACCGAAGTACAA-A
1 CAGGGGCACATATGTGCAATT
* *
32577660 CAGGGGCACGTATGTGCTATT
1 CAGGGGCACATATGTGCAATT
32577681 CAGGGG
1 CAGGGG
32577687 TATCGAAGCA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.28, C:0.21, G:0.34, T:0.18
Consensus pattern (21 bp):
CAGGGGCACATATGTGCAATT
Found at i:32577661 original size:41 final size:41
Alignment explanation
Indices: 32577616--32577721 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
32577606 ACCAAAGTGT
* *
32577616 AAACAGGGGCACATATGTGCAATTCAGGGGCACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
* * *
32577657 AAACAGGGGCACGTATGTGCTATTCAGGGGTATCGAAGCAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
*
32577698 AAATA-GGGCACGTATGTGCAATTC
1 AAACAGGGGCACGTATGTGCAATTC
32577722 GTAGAATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 18 0.31
41 40 0.69
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
Found at i:32583986 original size:36 final size:36
Alignment explanation
Indices: 32583890--32583975 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 36
32583880 ATTATTAAAT
*
32583890 TAATATTAGAATAATAATTTATTAATATTATTACATGATAA
1 TAATA-TA-AATAAT-ATTAATTAA-A-TATTACATGATAA
* *
32583931 TAATATAAATAATATTAATTAAATATTACATTATAG
1 TAATATAAATAATATTAATTAAATATTACATGATAA
32583967 TAATATAAA
1 TAATATAAA
32583976 ATTAGTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 20 0.48
37 1 0.02
38 8 0.19
39 6 0.14
40 2 0.05
41 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (36 bp):
TAATATAAATAATATTAATTAAATATTACATGATAA
Found at i:32584135 original size:19 final size:17
Alignment explanation
Indices: 32584113--32584155 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
32584103 TTCAATTAAA
32584113 TAAATATAATTCTTATATG
1 TAAATATAATT-TTAT-TG
* *
32584132 TAAATATGATTTTATTT
1 TAAATATAATTTTATTG
32584149 TAAATAT
1 TAAATAT
32584156 GATAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATATAATTTTATTG
Found at i:32584154 original size:17 final size:19
Alignment explanation
Indices: 32584113--32584158 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
32584103 TTCAATTAAA
*
32584113 TAAATATAATTCTTATATG
1 TAAATATGATTCTTATATG
*
32584132 TAAATATGATT-TTAT-TT
1 TAAATATGATTCTTATATG
32584149 TAAATATGAT
1 TAAATATGAT
32584159 AATAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 4 0.16
19 10 0.40
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (19 bp):
TAAATATGATTCTTATATG
Found at i:32595252 original size:21 final size:21
Alignment explanation
Indices: 32595205--32595252 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
32595195 TCCTAGGGTG
*
32595205 TAAATTGAATTCAATTGAATAT
1 TAAA-TGAATTAAATTGAATAT
*
32595227 GAAATGAATTAAATTG-ATGAT
1 TAAATGAATTAAATTGAAT-AT
32595248 TAAAT
1 TAAAT
32595253 TCATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.77
22 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TAAATGAATTAAATTGAATAT
Found at i:32599681 original size:24 final size:23
Alignment explanation
Indices: 32599640--32599750 Score: 136
Period size: 23 Copynumber: 4.7 Consensus size: 23
32599630 AAGCTCCTCC
32599640 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTAT
32599665 TGAGCTGAAAACAGTAAGCTCTAT
1 TGAGCTG-AAACAGTAAGCTCTAT
32599689 TGAGCTG-AACAGTAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
* * *
32599710 TCGAGCTGAATCAGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCTAT
*
32599734 TGAGTTGAAACAGTAAG
1 TGAGCTGAAACAGTAAG
32599751 TTTTTACGAG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
21 2 0.03
22 19 0.25
23 25 0.32
24 23 0.30
25 7 0.09
26 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:32599702 original size:22 final size:22
Alignment explanation
Indices: 32599648--32599750 Score: 127
Period size: 24 Copynumber: 4.5 Consensus size: 22
32599638 CCTGAGCTGA
32599648 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
32599670 TGAAAACAGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
32599694 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * *
32599716 TGAATCAGTAAGCTCCAATGAGT
1 TGAA-CAGTAAGCTCTATTGAGC
32599739 TGAAACAGTAAG
1 TG-AACAGTAAG
32599751 TTTTTACGAG
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.03
22 23 0.32
23 22 0.31
24 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:32601315 original size:48 final size:48
Alignment explanation
Indices: 32601230--32601491 Score: 193
Period size: 48 Copynumber: 5.5 Consensus size: 48
32601220 AGATGCCAAC
* *
32601230 GCCATGTCCTAGACATGGTCTTACACT-GACTTTCATATACAAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAG-CTCTCATATACAAGGCCGAT
* * *
32601279 GCCATGTCCCAGACAGGACTTACACTAGCTCTCATATATC-GGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATA-CAAG-GCCGAT
** * * * * * *
32601328 GCCACATTCCAGACAGGTCTTACACTA--ACACACA-ACAA-GCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
* * * *
32601372 ACCATATCCCAGACAGGTCTTACACTAGCTCGT-ATATCGCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTC-TCATAT-ACAAGGCCGAT
* * * *
32601421 G-CATGTCCCGGACATGTCTTACACTAGCTCTCATCT-CAATGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
* *
32601467 G-CATGTCTCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
32601492 GACTCTGATA
Statistics
Matches: 167, Mismatches: 35, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
44 27 0.16
45 1 0.01
46 35 0.21
47 5 0.03
48 51 0.31
49 48 0.29
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
Found at i:32601482 original size:46 final size:48
Alignment explanation
Indices: 32601378--32601491 Score: 151
Period size: 46 Copynumber: 2.4 Consensus size: 48
32601368 TGACACCATA
* * *
32601378 TCCCAGACAGGTCTTACACTAGCTCGTATATCGCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
* * *
32601426 TCCCGGACATGTCTTACACTAGCTC-T-CATCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
*
32601472 TCTCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
32601492 GACTCTGATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 34 0.59
47 1 0.02
48 23 0.40
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
Found at i:32607196 original size:6 final size:6
Alignment explanation
Indices: 32607170--32607209 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
32607160 TAAAGAAGAT
* *
32607170 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
32607210 GTTCTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:32607196 original size:13 final size:14
Alignment explanation
Indices: 32607180--32607211 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
32607170 AAATAAAGAT
32607180 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
32607193 AAAA-TAATAAATA
1 AAAAGTAATAAATA
32607206 AAAAGT
1 AAAAGT
32607212 TCTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:32618477 original size:48 final size:47
Alignment explanation
Indices: 32618411--32618625 Score: 220
Period size: 46 Copynumber: 4.6 Consensus size: 47
32618401 AAGCTGACAC
* * * *
32618411 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCAAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCAAGGCCGATG
* * ** *
32618459 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCAAGGCCGATG
* * * * *
32618505 CATGTCCCAAACATGTATTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCAAGGCCGATG
* * * *
32618553 CATGTCCCAGACATGTCTTACACTGGCTCTCATA-CT-ATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCAAGGCCGATG
32618599 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
32618626 ACACATATCA
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
46 70 0.50
47 3 0.02
48 66 0.47
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCAAGGCCGATG
Found at i:32618634 original size:94 final size:93
Alignment explanation
Indices: 32618411--32618625 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
32618401 AAGCTGACAC
* * **
32618411 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCAAGGCCAATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
*
32618476 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCATCT-AATGCCGATG
* * * * * * *
32618505 CATGTCCCAAACATGTATTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
* *
32618570 TTACACTGGCTCTCATACT-ATGGCTGATG
66 TTACACTAGCTCTCAT-CTAAT-GCCGATG
32618599 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
32618626 ACACATATCA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 2 0.02
94 98 0.96
95 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
TTACACTAGCTCTCATCTAATGCCGATG
Found at i:32620988 original size:39 final size:39
Alignment explanation
Indices: 32620944--32621070 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
32620934 TCTTTAACCC
* ** * *
32620944 GGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
* * *
32620983 AGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCT
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
32621022 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
32621061 GGATAT-TTTC
1 GGATATATTTC
32621071 AATCTCATAC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 4 0.05
39 73 0.95
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (39 bp):
GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCT
Found at i:32628991 original size:39 final size:39
Alignment explanation
Indices: 32628948--32629076 Score: 188
Period size: 39 Copynumber: 3.3 Consensus size: 39
32628938 GGTCTTTAAC
* ** *
32628948 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
32628987 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
32629026 CTGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
32629065 CCGGATAT-TTTC
1 CCGGATATATTTC
32629077 AATCTCATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 4 0.05
39 76 0.95
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:32629607 original size:55 final size:55
Alignment explanation
Indices: 32629523--32629631 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
32629513 CAAATATTAA
* * *
32629523 TTTCAGAATATAATACATATATATTCGACTTTCACACATACGGATTATAGTAAGT
1 TTTCAAAATATAATACATATATATTCGACTTTCACACATACAGATTACAGTAAGT
32629578 TTTCAAAATATAATACATATATATTCGACTTTCACACATACAGATTACAGTAAG
1 TTTCAAAATATAATACATATATATTCGACTTTCACACATACAGATTACAGTAAG
32629632 CTTATAAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (55 bp):
TTTCAAAATATAATACATATATATTCGACTTTCACACATACAGATTACAGTAAGT
Found at i:32630748 original size:35 final size:35
Alignment explanation
Indices: 32630709--32630777 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
32630699 AAACATCCCT
*
32630709 TTAAAGCTCTTCCATAACCGAATACTCATTTTACC
1 TTAAACCTCTTCCATAACCGAATACTCATTTTACC
32630744 TTAAACCTCTTCCATAACCGAATACTCATTTTAC
1 TTAAACCTCTTCCATAACCGAATACTCATTTTAC
32630778 TACCAAACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (35 bp):
TTAAACCTCTTCCATAACCGAATACTCATTTTACC
Found at i:32630879 original size:105 final size:105
Alignment explanation
Indices: 32630744--32630952 Score: 400
Period size: 105 Copynumber: 2.0 Consensus size: 105
32630734 TCATTTTACC
*
32630744 TTAAACCTCTTCCATAACCGAATACTCATTTTACTACCAAACTCAAAATTTTGACATGGGCAAGT
1 TTAAACCTCTTCCATAACCGAATACTCATTTTACTACCAAACTCAAAATTTTGACATAGGCAAGT
32630809 AAGGGACTTAGTAACTAGCTTAATATATGCAAAAGAATTT
66 AAGGGACTTAGTAACTAGCTTAATATATGCAAAAGAATTT
*
32630849 TTAAAGCTCTTCCATAACCGAATACTCATTTTACTACCAAACTCAAAATTTTGACATAGGCAAGT
1 TTAAACCTCTTCCATAACCGAATACTCATTTTACTACCAAACTCAAAATTTTGACATAGGCAAGT
32630914 AAGGGACTTAGTAACTAGCTTAATATATGCAAAAGAATT
66 AAGGGACTTAGTAACTAGCTTAATATATGCAAAAGAATT
32630953 CAAAAACTAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (105 bp):
TTAAACCTCTTCCATAACCGAATACTCATTTTACTACCAAACTCAAAATTTTGACATAGGCAAGT
AAGGGACTTAGTAACTAGCTTAATATATGCAAAAGAATTT
Found at i:32646040 original size:24 final size:24
Alignment explanation
Indices: 32646012--32646149 Score: 119
Period size: 24 Copynumber: 5.9 Consensus size: 24
32646002 AAGCTCCTCC
32646012 TGAGCTGATAAACAGT-AGCTCTAT
1 TGAGCTGAT-AACAGTAAGCTCTAT
* *
32646036 TGAGCTGGTAATAGTAAGCTCTAT
1 TGAGCTGATAACAGTAAGCTCTAT
*
32646060 TGAGCTGGTAACAGTAAGCTCTAT
1 TGAGCTGATAACAGTAAGCTCTAT
*
32646084 TAAGCTG--AACAGTAAGCTCT-T
1 TGAGCTGATAACAGTAAGCTCTAT
* * *
32646105 TCAAGCT-A-AATCAGTAAGCTCCAA
1 T-GAGCTGATAA-CAGTAAGCTCTAT
* *
32646129 TGAGTTGA-AATAGTAAGCTCT
1 TGAGCTGATAACAGTAAGCTCT
32646150 TACGAGCTGT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.02
22 20 0.20
23 27 0.28
24 49 0.50
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTCTAT
Found at i:32654167 original size:16 final size:17
Alignment explanation
Indices: 32654135--32654168 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32654125 GGGGATGACG
32654135 TTTGTTTGGTGTTTATT
1 TTTGTTTGGTGTTTATT
*
32654152 TTTGTTT-GTTTTTATT
1 TTTGTTTGGTGTTTATT
32654168 T
1 T
32654169 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (17 bp):
TTTGTTTGGTGTTTATT
Found at i:32661562 original size:21 final size:20
Alignment explanation
Indices: 32661538--32661577 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
32661528 ATGCTCAAGT
32661538 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
32661559 TCCACACGGGCGTGTGCCC
1 TCCACACGGGCGTGTGCCC
32661578 TGTCTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.17
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:32664260 original size:64 final size:64
Alignment explanation
Indices: 32664111--32664350 Score: 180
Period size: 68 Copynumber: 3.7 Consensus size: 64
32664101 TACAGATAGT
* ** * * * * *
32664111 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACAGCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
32664175 TATG
62 TA-A
* * *
32664179 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
32664243 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGCAGTCAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
32664308 AA
63 AA
* * *
32664310 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
32664351 GTGCAAGAGA
Statistics
Matches: 137, Mismatches: 30, Indels: 15
0.75 0.16 0.08
Matches are distributed among these distances:
63 8 0.06
64 25 0.18
65 2 0.01
66 23 0.17
67 31 0.23
68 47 0.34
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:32666533 original size:41 final size:41
Alignment explanation
Indices: 32666480--32666715 Score: 145
Period size: 40 Copynumber: 5.9 Consensus size: 41
32666470 AGTGCCAAAG
*
32666480 CATAGCTGAAGCTAT-TATAATCTCGCACACTAAGTACCTTT
1 CATAGCTGAAGCTATCT-CAATCTCGCACACTAAGTACCTTT
*
32666521 CATAGC-GAAAGCTATCTCAATCTCGCACACTAAGTACCATAT
1 CATAGCTG-AAGCTATCTCAATCTCGCACACTAAGTACC-TTT
* * * *
32666563 -ATAG-TCGAAGCTAT-TCTGAT-TCACACAGTAAGTA-GTTT
1 CATAGCT-GAAGCTATCTC-AATCTCGCACACTAAGTACCTTT
* * *
32666601 ATATAGCTGAAGCTATCTCAAT-ACGCACACTAAGT-GCTTT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
* * * * **
32666641 ATATAGCCGAAGCTATCTCGAT-ACGCACACTAAGT-GGTTT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
* * * *
32666681 ATATAGCTGAAGTTATCTCGAT-ACGCACACTAAGT
1 -CATAGCTGAAGCTATCTCAATCTCGCACACTAAGT
32666716 TCCAAACATA
Statistics
Matches: 167, Mismatches: 17, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.01
40 112 0.67
41 49 0.29
42 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (41 bp):
CATAGCTGAAGCTATCTCAATCTCGCACACTAAGTACCTTT
Found at i:32666604 original size:40 final size:38
Alignment explanation
Indices: 32666522--32666715 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 38
32666512 AGTACCTTTC
* * ***
32666522 ATAGCGAAAGCTATCTCAATCTCGCACACTAAGTACCATAT
1 ATAGCG-AAGCTATCTCGAT-ACGCACACTAAGT-GTTTAT
* * *
32666563 ATAGTCGAAGCTAT-TCTGATTCACACAGTAAGTAGTTTAT
1 ATAG-CGAAGCTATCTC-GATACGCACACTAAGT-GTTTAT
*
32666603 ATAGCTGAAGCTATCTCAATACGCACACTAAGTGCTTTAT
1 ATAGC-GAAGCTATCTCGATACGCACACTAAGTG-TTTAT
32666643 ATAGCCGAAGCTATCTCGATACGCACACTAAGTGGTTTAT
1 ATAG-CGAAGCTATCTCGATACGCACACTAAGT-GTTTAT
*
32666683 ATAGCTGAAGTTATCTCGATACGCACACTAAGT
1 ATAGC-GAAGCTATCTCGATACGCACACTAAGT
32666716 TCCAAACATA
Statistics
Matches: 133, Mismatches: 12, Indels: 17
0.82 0.07 0.10
Matches are distributed among these distances:
39 3 0.02
40 111 0.83
41 17 0.13
42 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (38 bp):
ATAGCGAAGCTATCTCGATACGCACACTAAGTGTTTAT
Found at i:32666652 original size:80 final size:80
Alignment explanation
Indices: 32666529--32666715 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 80
32666519 TTCATAGCGA
* * * *
32666529 AAGCTATCTCAATCTCGCACACTAAGTACCATATATAGTCGAAGCTAT-TCTGATTCACACAGTA
1 AAGCTATCTCAAT-ACGCACACTAAGTACCATATATAGCCGAAGCTATCTC-GATACACACACTA
32666593 AGTAGTTTATATAGCTG
64 AGTAGTTTATATAGCTG
* ** *
32666610 AAGCTATCTCAATACGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACGCACACTAAG
1 AAGCTATCTCAATACGCACACTAAGTACCATATATAGCCGAAGCTATCTCGATACACACACTAAG
*
32666675 TGGTTTATATAGCTG
66 TAGTTTATATAGCTG
* *
32666690 AAGTTATCTCGATACGCACACTAAGT
1 AAGCTATCTCAATACGCACACTAAGT
32666716 TCCAAACATA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 79 0.84
81 15 0.16
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (80 bp):
AAGCTATCTCAATACGCACACTAAGTACCATATATAGCCGAAGCTATCTCGATACACACACTAAG
TAGTTTATATAGCTG
Found at i:32669159 original size:16 final size:16
Alignment explanation
Indices: 32669134--32669174 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
32669124 GGTCGAAAAT
32669134 TTTTAATTTTTATGGAA
1 TTTT-ATTTTTATGGAA
*
32669151 -TTTATTTTTATGTAA
1 TTTTATTTTTATGGAA
32669166 TTTTATTTT
1 TTTTATTTT
32669175 ATTTTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTTATTTTTATGGAA
Found at i:32672784 original size:17 final size:17
Alignment explanation
Indices: 32672762--32672812 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
32672752 TTTGAATTCC
32672762 ATAGCTATTTAATCCTT
1 ATAGCTATTTAATCCTT
* *
32672779 ATAGCTA-CT-AGCC--
1 ATAGCTATTTAATCCTT
32672792 ATAGCTATTTAATCCTT
1 ATAGCTATTTAATCCTT
32672809 ATAG
1 ATAG
32672813 GTACTAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.27
14 1 0.04
15 6 0.23
16 1 0.04
17 11 0.42
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (17 bp):
ATAGCTATTTAATCCTT
Found at i:32672796 original size:30 final size:30
Alignment explanation
Indices: 32672760--32672819 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
32672750 GTTTTGAATT
32672760 CCATAGCTATTTAATCCTTATAGCTACTAG
1 CCATAGCTATTTAATCCTTATAGCTACTAG
*
32672790 CCATAGCTATTTAATCCTTATAGGTACTAG
1 CCATAGCTATTTAATCCTTATAGCTACTAG
32672820 AATTCAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (30 bp):
CCATAGCTATTTAATCCTTATAGCTACTAG
Found at i:32676774 original size:93 final size:93
Alignment explanation
Indices: 32676615--32676879 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
32676605 GCCCATAAGT
* * * * * *
32676615 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
32676680 CGAGTTCGGATGCCTAGTTACATCTAAC
66 CGAGTTCGGATGCCTAGTTACATCTAAC
32676708 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
32676773 CGAGTTCGGATGCCTAGTTACATCTAAC
66 CGAGTTCGGATGCCTAGTTACATCTAAC
32676801 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
32676866 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
32676880 CAAATATCAC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTAAC
Found at i:32676875 original size:46 final size:45
Alignment explanation
Indices: 32676608--32676875 Score: 310
Period size: 46 Copynumber: 5.8 Consensus size: 45
32676598 GTAACCCGCC
* * * *
32676608 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
32676653 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
32676703 C-TAA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
32676746 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
32676796 C-TAA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
32676839 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32676876 TGCCCAAATA
Statistics
Matches: 190, Mismatches: 18, Indels: 28
0.81 0.08 0.12
Matches are distributed among these distances:
43 14 0.07
44 2 0.01
45 6 0.03
46 91 0.48
47 58 0.31
48 5 0.03
49 3 0.02
50 11 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:32681716 original size:32 final size:32
Alignment explanation
Indices: 32681671--32681737 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
32681661 AAACAGACAA
*
32681671 TAAACACATAGAGTAAGCTACAAAGAGCTTAG
1 TAAACACACAGAGTAAGCTACAAAGAGCTTAG
*
32681703 TAAACACACAGAGTAAGCTACAAATAGCTTAG
1 TAAACACACAGAGTAAGCTACAAAGAGCTTAG
32681735 TAA
1 TAA
32681738 GCCAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (32 bp):
TAAACACACAGAGTAAGCTACAAAGAGCTTAG
Found at i:32684723 original size:48 final size:46
Alignment explanation
Indices: 32684627--32684844 Score: 230
Period size: 47 Copynumber: 4.7 Consensus size: 46
32684617 GATTTCTTGT
* **
32684627 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGAGATGA
*
32684673 GTGCCAGTGTAAGACCATGTCTGGGACACGGCATCGGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCATAGAGATGA
* *
32684721 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGA-GATGA
* * * * *
32684768 -TAGCTAGTGTAAGACGTGTCTAGGACATGCATCGAC-TA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATG-A
* *
32684812 GTGCTAGTGTAAGACATGTCCGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
32684845 AGTACGTATA
Statistics
Matches: 149, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 30 0.20
45 2 0.01
46 27 0.18
47 64 0.43
48 25 0.17
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATGA
Found at i:32684788 original size:94 final size:91
Alignment explanation
Indices: 32684627--32684844 Score: 262
Period size: 94 Copynumber: 2.4 Consensus size: 91
32684617 GATTTCTTGT
**
32684627 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
* *
32684692 TCTGGGACACGGCATCGGC-ATAGAGATGA
66 TCTAGGACA-GGCATCGACTA-AGAG-T-A
* * *
32684721 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCTAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTGTAAGACCA
* *
32684784 TGTCTAGGACATGCATCGACTAAGAGTT
64 TGTCTAGGACAGGCATCGACTAAGAGTA
* *
32684812 GTGCTAGTGTAAGACATGTCCGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
32684845 AGTACGTATA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
91 31 0.28
92 1 0.01
93 11 0.10
94 51 0.46
95 16 0.15
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
TCTAGGACAGGCATCGACTAAGAGTA
Found at i:32685799 original size:20 final size:20
Alignment explanation
Indices: 32685769--32685818 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
32685759 GGGATAAGGG
32685769 CACGGGCGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
* *
32685789 TACGGGTGTGTCCCAAGCCA
1 CACGGGCGTGTCCCAAGCCA
*
32685809 CACGGACGTG
1 CACGGGCGTG
32685819 CGTGACCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.34, G:0.32, T:0.14
Consensus pattern (20 bp):
CACGGGCGTGTCCCAAGCCA
Found at i:32689309 original size:46 final size:46
Alignment explanation
Indices: 32689259--32689431 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
32689249 TGGTTGAGCA
*
32689259 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
32689305 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
32689350 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
32689398 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32689432 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32689415 original size:93 final size:93
Alignment explanation
Indices: 32689256--32689426 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
32689246 GGATGGTTGA
* *
32689256 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32689321 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * *
32689349 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32689414 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32689427 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:32691341 original size:19 final size:19
Alignment explanation
Indices: 32691317--32691356 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
32691307 TGTGCCATCA
32691317 TAAATTCAT-TGGCATAACT
1 TAAATTCATAT-GCATAACT
*
32691336 TAAATTTATATGCATAACT
1 TAAATTCATATGCATAACT
32691355 TA
1 TA
32691357 CACATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (19 bp):
TAAATTCATATGCATAACT
Found at i:32699013 original size:19 final size:19
Alignment explanation
Indices: 32698989--32699028 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
32698979 TGTGCCATCA
32698989 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
* *
32699008 TAAATTTATATGCATAACT
1 TAAATTCATAGGCATAACT
32699027 TA
1 TA
32699029 CACATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:32702223 original size:14 final size:13
Alignment explanation
Indices: 32702196--32702238 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
32702186 TAGCCGTGTG
32702196 TTCTTCTTTGCTTT
1 TTCTTCTTT-CTTT
32702210 TTCTCTCTTTCTTT
1 TTCT-TCTTTCTTT
32702224 TTCTTTCTTTTCTTT
1 TTC-TTC-TTTCTTT
32702239 GATAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (13 bp):
TTCTTCTTTCTTT
Found at i:32704821 original size:26 final size:26
Alignment explanation
Indices: 32704787--32704867 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
32704777 ACTCATGGTT
* * *
32704787 CTCTGACCAACTTAAACTCAAGGGCC
1 CTCTAACCAACTCAAACTCAAGGGAC
32704813 CTCTAACCAACTCAAACTCAAGGGAC
1 CTCTAACCAACTCAAACTCAAGGGAC
* *
32704839 CTCCAACCAACTCAAACTCAAGGGTC
1 CTCTAACCAACTCAAACTCAAGGGAC
32704865 CTC
1 CTC
32704868 AGACCCATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.37, G:0.12, T:0.17
Consensus pattern (26 bp):
CTCTAACCAACTCAAACTCAAGGGAC
Found at i:32705930 original size:33 final size:32
Alignment explanation
Indices: 32705886--32705949 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
32705876 AAAACATTGT
* *
32705886 GGGCCTGAGCCCATTCCAGTAAT-AGTATCAGTG
1 GGGCCTAAGCCCATTACAG-AATCAGTA-CAGTG
32705919 GGGCCTAAGCCCATTACAGAATCAGTACAGT
1 GGGCCTAAGCCCATTACAGAATCAGTACAGT
32705950 ATGCAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (32 bp):
GGGCCTAAGCCCATTACAGAATCAGTACAGTG
Found at i:32713303 original size:2 final size:2
Alignment explanation
Indices: 32713296--32713320 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32713286 GGAGAACAAG
32713296 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
32713321 GGAAGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Done.