Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold422
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: 263912
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:2758 original size:52 final size:52
Alignment explanation
Indices: 2680--2807 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
2670 CGAAATATGA
*
2680 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
2732 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
2784 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2808 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:2834 original size:13 final size:13
Alignment explanation
Indices: 2816--2840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2806 CAAAGATCAG
2816 TGTATCGATACAA
1 TGTATCGATACAA
2829 TGTATCGATACA
1 TGTATCGATACA
2841 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2921 original size:13 final size:13
Alignment explanation
Indices: 2903--2927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2893 CAAAAAAATA
2903 TGTATCGATACAT
1 TGTATCGATACAT
2916 TGTATCGATACA
1 TGTATCGATACA
2928 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3227 original size:49 final size:49
Alignment explanation
Indices: 3155--3838 Score: 883
Period size: 49 Copynumber: 14.6 Consensus size: 49
3145 CTTATTCAAG
3155 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
3204 GCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
3252 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * * *
3301 GCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATGATGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
3350 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
3393 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
3442 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAGTGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * *
3485 GCTGATTCAAGGACAACTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
3534 ACTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
3577 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
3626 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
3669 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
3718 GCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AA-GTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
*
3761 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
3809 GCTGATTCAAGGCCAGCTACATTGGACTTA
1 GCTGATTCAAGGCCAGCTACATTGGACTTA
3839 GAAGGGTTGC
Statistics
Matches: 547, Mismatches: 57, Indels: 63
0.82 0.09 0.09
Matches are distributed among these distances:
43 182 0.33
44 2 0.00
45 5 0.01
46 1 0.00
47 6 0.01
48 87 0.16
49 264 0.48
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
Found at i:3421 original size:92 final size:92
Alignment explanation
Indices: 3155--3843 Score: 1067
Period size: 92 Copynumber: 7.4 Consensus size: 92
3145 CTTATTCAAG
* * *
3155 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG
* *
3220 CTACATTGGACTTAAAGATG-AGGTGCCAATGT
60 CTACATTGGACTTAAAGATGAAGATGCCAATAT
* * *
3252 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAG
* *
3317 CTACATTAGACTTAAAGATGATGATGCCAATAT
60 CTACATTGGACTTAAAGATGAAGATGCCAATAT
3350 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
3415 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
* * *
3442 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAGTGTGCTGATTCAAGGACAACTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
3507 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
*
3534 ACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
3599 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
3626 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
3691 TGGACTTAAAGATGAAGATGCCAATAT
66 TGGACTTAAAGATGAAGATGCCAATAT
*
3718 GCTGATTCAAGGCCAGCGATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
* * *
3783 TGGACTTAAAGGTG-AGGTGCCAATGT
66 TGGACTTAAAGATGAAGATGCCAATAT
* *
3809 GCTGATTCAAGGCCAGCTACATTGGACTTAGAAGG
1 GCTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
3844 GTTGCCACCG
Statistics
Matches: 566, Mismatches: 24, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
91 38 0.07
92 407 0.72
94 1 0.00
97 84 0.15
98 36 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAT
TGGACTTAAAGATGAAGATGCCAATAT
Found at i:3920 original size:67 final size:68
Alignment explanation
Indices: 3838--4011 Score: 293
Period size: 67 Copynumber: 2.6 Consensus size: 68
3828 CATTGGACTT
*
3838 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
*
3901 TGG
66 TAG
*
3904 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
3969 TAG
66 TAG
3972 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
4012 GAAAGATGCC
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
66 13 0.13
67 62 0.60
68 28 0.27
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (68 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
TAG
Found at i:3925 original size:34 final size:34
Alignment explanation
Indices: 3838--4011 Score: 293
Period size: 33 Copynumber: 5.2 Consensus size: 34
3828 CATTGGACTT
3838 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
3871 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
3904 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
3938 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
3972 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
4005 A-AAGGGT
1 AGAAGGGT
4012 GAAAGATGCC
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
32 2 0.02
33 69 0.52
34 62 0.47
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:4123 original size:34 final size:35
Alignment explanation
Indices: 3993--5089 Score: 1215
Period size: 34 Copynumber: 32.3 Consensus size: 35
3983 CACCGACTTG
** *
3993 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
* * *
4029 TGTGGAC-TTAAAAAGAACAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
4062 TGTGGGCTTTAAAAGGGAAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGT
*
4099 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
4133 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
4166 TGTGGGCTTT-AAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
4199 CGTGGAC-TTAAAA-G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
4226 TGTGGGCTTTGAAAA-G---AAG-GTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
4257 TGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGT
* *
4294 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
4328 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
* *
4364 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
4397 TGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
*
4433 GGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAA-AA-GGAAAAAGAGTGCCACGGAGT
* *
4470 TGTGGGCTGTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
4504 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * * *
4541 TATGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
**
4576 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * *
4613 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
4648 TGTGGGCTTGAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
4682 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
4716 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
4746 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
*
4780 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
4812 TGTGGGCTTTAAAA--AAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
4845 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
4882 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
4916 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
4950 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
4984 TGTGGGCTTTGAAA-G---AAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
5014 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
5048 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
5080 TGTGGGCTTT
1 TGTGGGCTTT
5090 GAAGAAAAAA
Statistics
Matches: 939, Mismatches: 65, Indels: 118
0.84 0.06 0.11
Matches are distributed among these distances:
27 16 0.02
28 3 0.00
29 5 0.01
30 50 0.05
31 32 0.03
32 64 0.07
33 137 0.15
34 267 0.28
35 125 0.13
36 92 0.10
37 148 0.16
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:4972 original size:268 final size:270
Alignment explanation
Indices: 4013--5099 Score: 1355
Period size: 268 Copynumber: 4.0 Consensus size: 270
4003 AGAAAGGGTG
* * *
4013 AAAGATGCCACGAAGTTGTGGAC-TTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA-
* * *
4077 GGAAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
64 GG-AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * * *
4142 AGAAG--GAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAGGAAAAGAGTGCCACGTAGTCGTGG
128 A-AAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGG-AAAGAGTGCCACGGAGTTGTGG
* *
4204 AC-TT---AA-AAG--GGTGCCACGGAGTTGTGGGCTTTGAAA--AGAAGGTGCCACAGAGTTGT
191 GCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAGGTGCCACAGAGTTGT
4260 GGGCTTTAACAAGGGAAAA
256 GGGCTTTAA-AA---AAAA
* *
4279 AGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
* * * *
4344 GAAAAAGAGTGCCACGGAGTTGTGGGCTT-AGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTG
65 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGAC-TT-
* * *
4408 AAA-AGGAAAAAGAGTGCCACGGAGTGGTGGGCTTTAACAAGGGAAAAAGAGTGCCACGGAGTTG
128 AAAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGA-AA-GG--AAAGAGTGCCACGGAGTTG
* * *
4472 TGGGCTGTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACA
188 TGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-GG-AAAAG-GTGCCACA
* *
4537 AAGTTATGGGCTTTAAAAAGAAA
249 GAGTTGTGGGCTTTAAAAA-AAA
* * * **
4560 AAGTGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
1 AA-AGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
* * *
4625 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTGAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC
62 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AAAAAGAAAAAGAGTGCCACGGAGTTGTGGAC
4689 TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAA-G-AAG-GTGCCACGGAGTTGTGG
126 TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAGAGTGCCACGGAGTTGTGG
4751 GCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGGTGCCACAGAGTTGT
191 GCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAGGTGCCACAGAGTTGT
4815 GGGCTTTAAAAAAAA
256 GGGCTTTAAAAAAAA
*
4830 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
4895 CA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC
63 -AGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGAC
4957 TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAA-G-AAG-GTGCCACGGAGTTGTGG
126 TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAGAGTGCCACGGAGTTGTGG
*
5019 GCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGTTGT
191 GCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAGGTGCCACAGAGTTGT
* *
5083 GGGCTTTGAAGAAAA
256 GGGCTTTAAAAAAAA
5098 AA
1 AA
5100 TGCCACTAAG
Statistics
Matches: 736, Mismatches: 51, Indels: 66
0.86 0.06 0.08
Matches are distributed among these distances:
264 26 0.04
265 48 0.07
266 45 0.06
267 25 0.03
268 190 0.26
269 70 0.10
270 8 0.01
271 47 0.06
272 6 0.01
273 2 0.00
274 3 0.00
275 2 0.00
276 55 0.07
277 3 0.00
278 24 0.03
279 3 0.00
280 2 0.00
281 4 0.01
282 22 0.03
283 36 0.05
284 69 0.09
285 37 0.05
286 9 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (270 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGG
AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAA
GATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAGAGTGCCACGGAGTTGTGGGCTTT
GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGGAAAAGGTGCCACAGAGTTGTGGGCT
TTAAAAAAAA
Found at i:5177 original size:63 final size:60
Alignment explanation
Indices: 4930--5280 Score: 220
Period size: 63 Copynumber: 5.5 Consensus size: 60
4920 GGCTTTAAAA
* * * * * * *
4930 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTG
1 AGAAAAA--TGCCACTGAGTCGTGGACTTTAA-A-GAAAAGA-TGCCACTGAGTCGTGGACTTTG
* * * * * * * *
4995 A-AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AGAA-AA-ATGCCACTGAGTCGTGGACTTT--AAAGAA-AAGATGCCACTGAGTCGTGGACTTT-
*
5059 A
60 G
* * * * * * *
5060 AGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTAAGTCGTGGACTTTG
1 A-GAAAA-ATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
*
5122 AGATAAAATGCCACTGAGTCGTGGACTTTAAAGATAAAGGATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAATGCCACTGAGTCGTGGACTTTAAAGA-AAA-GATGCCACTGAGTCGTGGACTTT-G
* * * *
5186 AGAAAAGGATGCCACTGGGTCGTGGACTTT-GAGCAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAA--ATGCCACTGAGTCGTGGACTTTAAAGAAAAGA-TGCCACTGAGTCGTGGACTTTG
* *
5248 AGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
1 AGAA-A-AATGCCACTGAGTCGTGGACTTTAAA
5281 AAGGTATTTG
Statistics
Matches: 237, Mismatches: 31, Indels: 38
0.77 0.10 0.12
Matches are distributed among these distances:
61 24 0.10
62 32 0.14
63 68 0.29
64 56 0.24
65 28 0.12
66 27 0.11
67 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (60 bp):
AGAAAAATGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:5216 original size:126 final size:126
Alignment explanation
Indices: 4660--5280 Score: 377
Period size: 126 Copynumber: 4.8 Consensus size: 126
4650 TGGGCTTGAA
* * * ** * *
4660 AAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG-AAAAAAGTGCCACGGAGTTGTGGGCT
1 AAAGGAAAAGGTGCCACGGAGTCGTGGACTT--TGA-GCAAAAAA-TGCCACTAAGTCGTGGACT
* * * * * *
4724 TTGA-AAGA-AGGTGCCACGGAGTTGTGGGCTTTGAAAAGA-AGAAGGTGCCACGGAGTTGTGGG
62 TTGAGAAGAGA-ATGCCACTGAGTCGTGGACTTT--AAAGATA-AAGGTGCCACGGAGTCGTGGA
4786 CTTT
123 CTTT
* * * * ** ** * *
4790 AAAGGAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAAAAAAAGTGCCACGGAGTTGTGGGCTTT
1 AAAGGAAAAGGTGCCACGGAGTCGTGGACTTT-GAGCAAAAAA-TGCCACTAAGTCGTGGACTTT
* * * * * * *
4855 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTG
64 G---A--G-AAGAGAATGCCACTGAGTCGTGGACTTT-AA-AGATAAAGGTGCCACGGAGTCGTG
*
4920 GGCTTT
121 GACTTT
* * * ** * *
4926 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG-AAAAAAGTGCCACGGAGTTGTGGG
1 --AAAGGAAAAGGTGCCACGGAGTCGTGGACTT--TGA-GCAAAAAA-TGCCACTAAGTCGTGGA
* * * * *
4990 CTTTGA-AAGA-AGGTGCCACGGAGTTGTGGGCTTTGAAAAGA-AGAAGGTGCCACGGAGTTGTG
60 CTTTGAGAAGAGA-ATGCCACTGAGTCGTGGACTTT--AAAGATA-AAGGTGCCACGGAGTCGTG
*
5052 GGCTTT
121 GACTTT
* *
5058 AAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG-AAAAAATGCCACTAAGTCGTGGACTTTG
1 AAAGGAAAAGGTGCCACGGAGTCGTGGACTTTG-AGCAAAAAATGCCACTAAGTCGTGGACTTTG
*
5122 AGATA-A-AATGCCACTGAGTCGTGGACTTTAAAGATAAAGGATGCCACTGAGTCGTGGACTTT
65 AGA-AGAGAATGCCACTGAGTCGTGGACTTTAAAGATAAAGG-TGCCACGGAGTCGTGGACTTT
* * * *
5184 AAA-GAAAAGGATGCCACTGG-GTCGTGGACTTTGAGCAGAGATTGCCACTGAGTCGTGGACTTT
1 AAAGGAAAAGG-TGCCAC-GGAGTCGTGGACTTTGAGCAAAAAATGCCACTAAGTCGTGGACTTT
* *
5247 GAGAAGAGATTGCCACTTAGTCGTGGACTTTAAA
64 GAGAAGAGAATGCCACTGAGTCGTGGACTTTAAA
5281 AAGGTATTTG
Statistics
Matches: 425, Mismatches: 36, Indels: 63
0.81 0.07 0.12
Matches are distributed among these distances:
125 19 0.04
126 67 0.16
127 63 0.15
128 11 0.03
129 32 0.08
130 57 0.13
131 2 0.00
132 54 0.13
133 3 0.01
135 3 0.01
136 54 0.13
137 2 0.00
138 28 0.07
139 30 0.07
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.22
Consensus pattern (126 bp):
AAAGGAAAAGGTGCCACGGAGTCGTGGACTTTGAGCAAAAAATGCCACTAAGTCGTGGACTTTGA
GAAGAGAATGCCACTGAGTCGTGGACTTTAAAGATAAAGGTGCCACGGAGTCGTGGACTTT
Found at i:5233 original size:31 final size:30
Alignment explanation
Indices: 4968--5277 Score: 230
Period size: 31 Copynumber: 9.9 Consensus size: 30
4958 TAAAGATGAA
* * *
4968 AAAAG-TGCCACGGAGTTGTGGGCTTTGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * * *
4996 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AA-AAGATGCCACTGAGTCGTGGACTTTG---AG
* * * * *
5030 AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
1 AA-AAGATGCCACTGAGTCGTGGACTTT-GA-G
* * * *
5063 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
5094 AAAAAATGCCACTAAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
5124 ATAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTT-GAG
*
5155 ATAAAGGATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAA-GATGCCACTGAGTCGTGGACTTT-GAG
*
5188 AAAAGGATGCCACTGGGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
5219 CAGAGATTGCCACTGAGTCGTGGACTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
5250 AAGAGATTGCCACTTAGTCGTGGACTTT
1 AAAAGA-TGCCACTGAGTCGTGGACTTT
5278 AAAAAGGTAT
Statistics
Matches: 251, Mismatches: 17, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 48 0.19
31 86 0.34
32 53 0.21
33 31 0.12
34 28 0.11
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:13060 original size:14 final size:14
Alignment explanation
Indices: 13041--13073 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13031 AAATTTATGA
13041 TTTTG-TTTGCTTTG
1 TTTTGTTTTG-TTTG
13055 TTTTGTTTTGTTTG
1 TTTTGTTTTGTTTG
13069 TTTTG
1 TTTTG
13074 CATGCATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.00, C:0.03, G:0.21, T:0.76
Consensus pattern (14 bp):
TTTTGTTTTGTTTG
Found at i:16305 original size:12 final size:12
Alignment explanation
Indices: 16276--16314 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16266 GATGTGGTGT
*
16276 TATCCAAAGAGA
1 TATCAAAAGAGA
*
16288 TGATCAAAAGTGA
1 T-ATCAAAAGAGA
16301 TATCAAAAGAGA
1 TATCAAAAGAGA
16313 TA
1 TA
16315 AGATGTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (12 bp):
TATCAAAAGAGA
Found at i:18236 original size:284 final size:289
Alignment explanation
Indices: 17712--18576 Score: 1532
Period size: 284 Copynumber: 3.0 Consensus size: 289
17702 ATGTCTCGGG
* * * *
17712 ATGGTGTTTGGGAAAATAACAC-GGCTTACCCTCAACTAAACACAAGGAACAGCATCGCGCTATC
1 ATGGTGTTTAGGAAAATAACACAAGCTTGCCCTCAACTAAACACAAGGGACAGCATCGCGCTATC
17776 CCATTTTTAGAATTTATTTTGGATTGATTTGAAGGTTTTAGAAGGTGGAAGAGGTACCGTTAGAA
66 CCATTTTTAGAATTTATTTTGGATTGATTTGAAGGTTTTAG-AGGTGGAAGAGG-ACCGTTAGAA
17841 AGGTAACTCGATGAGGATCAATCTAAAAATATTTTGAAAATCTCAAAAAATTGCTTTCTGAAAGA
129 AGGTAACTCGATGAGGATCAATCTAAAAATATTTTGAAAATCTCAAAAAATTGCTTTCTGAAAGA
*
17906 AATAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGATGGAAATGGTCTGTTAA
194 AATAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGATGGAAAGGGTCTGTTAA
17971 ACTTTGAAAAATCACCTTGAACTCATTTGGT
259 ACTTTGAAAAATCACCTTGAACTCATTTGGT
*
18002 ATGGTGTTTAGGAAAATAACACAAGCCTGCCCTCAACTAAACACAAGGGACAGCATCGCGCTATC
1 ATGGTGTTTAGGAAAATAACACAAGCTTGCCCTCAACTAAACACAAGGGACAGCATCGCGCTAT-
18067 CCCATTTTTAGAA-TTATTTTGGATTGATTTGAAGGTTTTAGAGGTGG-A-AGGACCGTTAGAAA
65 CCCATTTTTAGAATTTATTTTGGATTGATTTGAAGGTTTTAGAGGTGGAAGAGGACCGTTAGAAA
18129 GGTAACTACGATGA-GATCAATCT-AAAATATTTTG-AAATCTC-AAAAATTGCTTTCTGAAAGA
130 GGTAACT-CGATGAGGATCAATCTAAAAATATTTTGAAAATCTCAAAAAATTGCTTTCTGAAAGA
*
18190 AAGAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGATGGAAAGGGTCTGTTAA
194 AATAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGATGGAAAGGGTCTGTTAA
18255 ACTTTGAAAAATCACCTTGAACTCATTTGGT
259 ACTTTGAAAAATCACCTTGAACTCATTTGGT
18286 ATGGTGTTTAGGAAAATAACACAAGCTTGCCCTCAACTAAACACAA-GGACAGCATCGCGCTATC
1 ATGGTGTTTAGGAAAATAACACAAGCTTGCCCTCAACTAAACACAAGGGACAGCATCGCGCTATC
18350 CCATTTTTAGAATTTATTTTGGATTGATTTGAAGGTTTTAGAGGGTGGAAGAGGACCGTTAGAAA
66 CCATTTTTAGAATTTATTTTGGATTGATTTGAAGGTTTTAGA-GGTGGAAGAGGACCGTTAGAAA
*
18415 GGTAACTCGATGAGGATCAATCTAAAAATATTTTGAAAATCTCAAAAAATTGCTTTTTGAAAGAA
130 GGTAACTCGATGAGGATCAATCTAAAAATATTTTGAAAATCTCAAAAAATTGCTTTCTGAAAGAA
* *
18480 ATAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGACGGAAAGGGTCTATTAAA
195 ATAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGATGGAAAGGGTCTGTTAAA
18545 CTTTGAAAAATCACCTTGAACTCATTTGGT
260 CTTTGAAAAATCACCTTGAACTCATTTGGT
18575 AT
1 AT
18577 CAAAAAATTA
Statistics
Matches: 552, Mismatches: 12, Indels: 23
0.94 0.02 0.04
Matches are distributed among these distances:
282 13 0.02
283 46 0.08
284 164 0.30
285 14 0.03
286 41 0.07
287 38 0.07
288 16 0.03
289 115 0.21
290 27 0.05
291 65 0.12
292 13 0.02
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (289 bp):
ATGGTGTTTAGGAAAATAACACAAGCTTGCCCTCAACTAAACACAAGGGACAGCATCGCGCTATC
CCATTTTTAGAATTTATTTTGGATTGATTTGAAGGTTTTAGAGGTGGAAGAGGACCGTTAGAAAG
GTAACTCGATGAGGATCAATCTAAAAATATTTTGAAAATCTCAAAAAATTGCTTTCTGAAAGAAA
TAAATTTTTAAAGTTGGGTGAATTACGTGGCTAGTAGAACATATGATGGAAAGGGTCTGTTAAAC
TTTGAAAAATCACCTTGAACTCATTTGGT
Found at i:20547 original size:51 final size:53
Alignment explanation
Indices: 20432--20549 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 53
20422 ATTTACCAAC
* * * *
20432 ATGTACCGATAC-ATTAAAGAATGTATCAATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAGAATATATCAATACATATGGGTCAAAAACCCAGA
*
20484 ATGTATCGATACAATGAAA-AATATATCGATACATATGGGTC-AAAACCCAGA
1 ATGTATCGATACAATGAAAGAATATATCAATACATATGGGTCAAAAACCCAGA
20535 ATGTATCGATACAAT
1 ATGTATCGATACAAT
20550 ATCAATACAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
51 25 0.42
52 30 0.50
53 5 0.08
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (53 bp):
ATGTATCGATACAATGAAAGAATATATCAATACATATGGGTCAAAAACCCAGA
Found at i:21472 original size:57 final size:57
Alignment explanation
Indices: 21352--21499 Score: 138
Period size: 57 Copynumber: 2.6 Consensus size: 57
21342 GTTATACTTT
* * * * *
21352 AGAAAAAGCCTAACATAGCTAGCCATATGTAAGCCTAGTCTAATAAGTCCGTAAAGA
1 AGAAAAAGCCTAAAAAAGCTAGCCATATGTAAGCCCAGCCTAATAAGTACGTAAAGA
* * * *
21409 AAAAAAAGCCTAAAAAAGCTAGTCATATGTAAGCCCAGCCTAGT-AG-ACTTATATAGA
1 AGAAAAAGCCTAAAAAAGCTAGCCATATGTAAGCCCAGCCTAATAAGTACGTA-A-AGA
* ****
21466 AGAAAAAGCTTAGTGTAGCTAGCCATATGTAAGC
1 AGAAAAAGCCTAAAAAAGCTAGCCATATGTAAGC
21500 TTAATCTAGT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
55 3 0.04
56 3 0.04
57 67 0.92
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (57 bp):
AGAAAAAGCCTAAAAAAGCTAGCCATATGTAAGCCCAGCCTAATAAGTACGTAAAGA
Found at i:22660 original size:10 final size:10
Alignment explanation
Indices: 22641--22674 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22631 TTACTCAAGT
*
22641 AAAAACAAAA
1 AAAAAGAAAA
22651 AAAAAGAAAA
1 AAAAAGAAAA
22661 AAAAAGGAAAA
1 AAAAA-GAAAA
22672 AAA
1 AAA
22675 TGTTCCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:28426 original size:28 final size:27
Alignment explanation
Indices: 28395--28460 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
28385 TAATTAGCTT
28395 TTTTTTACTACTAGGATTTTTAATTAGA
1 TTTTTTACTACTAGGATTTTTAATTA-A
** *
28423 TTTTAAACTAATAGGATTTTTAATTAA
1 TTTTTTACTACTAGGATTTTTAATTAA
*
28450 TCTTTT-CTACT
1 TTTTTTACTACT
28461 TTATAAATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
26 4 0.13
27 4 0.13
28 23 0.74
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (27 bp):
TTTTTTACTACTAGGATTTTTAATTAA
Found at i:29993 original size:19 final size:18
Alignment explanation
Indices: 29947--29994 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
29937 CCTTTAAAGG
*
29947 TATTTT-GGTAATTTAAA
1 TATTTTAGGTCATTTAAA
29964 TA-TTTAGGGTCATTTAAA
1 TATTTTA-GGTCATTTAAA
29982 TCATTTTAGGTCA
1 T-ATTTTAGGTCA
29995 AAAAGTGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.12
17 2 0.08
18 11 0.42
19 6 0.23
20 4 0.15
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (18 bp):
TATTTTAGGTCATTTAAA
Found at i:32450 original size:31 final size:33
Alignment explanation
Indices: 32412--32472 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
32402 ATAATATTTC
32412 AAAATAAATATAAATATTA-T-AATTTTTAATA
1 AAAATAAATATAAATATTACTCAATTTTTAATA
* *
32443 AAAATAAATATATATCTTACTCAATTTTTA
1 AAAATAAATATAAATATTACTCAATTTTTA
32473 GATTTTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 17 0.65
32 1 0.04
33 8 0.31
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAATAAATATAAATATTACTCAATTTTTAATA
Found at i:35544 original size:26 final size:27
Alignment explanation
Indices: 35500--35559 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
35490 TTTTCTTTTC
35500 TTTATAAATAAATACAAAAACAAATAA
1 TTTATAAATAAATACAAAAACAAATAA
* **
35527 -TTATAATTATAATA-AAAATGAAATAA
1 TTTATAAATA-AATACAAAAACAAATAA
35553 TTTATAA
1 TTTATAA
35560 CAATATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (27 bp):
TTTATAAATAAATACAAAAACAAATAA
Found at i:35723 original size:24 final size:25
Alignment explanation
Indices: 35681--35736 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
35671 ATAATTTATT
* *
35681 TATTTATATTAAATTTAAAAATAAA
1 TATTTATATAAAATATAAAAATAAA
**
35706 TATTT-TATAAAATATAAAAATATT
1 TATTTATATAAAATATAAAAATAAA
35730 TATTTAT
1 TATTTAT
35737 CTTAGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTATATAAAATATAAAAATAAA
Found at i:38912 original size:222 final size:223
Alignment explanation
Indices: 38520--38970 Score: 701
Period size: 222 Copynumber: 2.0 Consensus size: 223
38510 AAACATAGAG
* * * * *
38520 GAAATTTTGCTTTTAAAATACTTTCCTATGGAAGAAAACTTGTTTTTCAAATGTTTTATGTTTAG
1 GAAAATTTGCTTTTAAAATACTCTCCTATGAAAGAAAACTTGTTTTTCAAATATTTTATGTTAAG
*
38585 TTTCTTTAATTTTTATGTAATTTTCATTAAGTTTTTTTTTCATGTTTCAACCTTAGTTGACTTTC
66 TTTCTTTAATTTTTATGTAATTTTCATCAAGTTTTTTTTTCATGTTTCAACCTTAGTTGACTTTC
* *
38650 TATGTTACTTATATTTCATGTTATATATGATTCATTCATTTAT-GACATTTTAATATGTTATTAT
131 TATGTTACTTATATTCCATGTTATATATGATTCATTCATTTATAG-CATTTTAATATATTATTAT
* *
38714 CTTGATTCACATGT-TCATGCATTTTTCAT
195 CATAATTCACATGTCT-ATGCATTTTTCAT
* *
38743 GAAAATTTGCTTTTAAAATACTCTCCTGTGAAAGAAAACTTGTTTTTCAAATATTTTGTGTTAAG
1 GAAAATTTGCTTTTAAAATACTCTCCTATGAAAGAAAACTTGTTTTTCAAATATTTTATGTTAAG
* ** *
38808 TTTTTTTAATTTTTATGTGGTTTTCATCAAG-TTTTTTTTCATGTTTCAACTTTAGTTGACTTTC
66 TTTCTTTAATTTTTATGTAATTTTCATCAAGTTTTTTTTTCATGTTTCAACCTTAGTTGACTTTC
* *
38872 TATGTTGCTTATATTCCATGTTATATATGATTCATTCATTTATAGCATTTTCATATATTATTATC
131 TATGTTACTTATATTCCATGTTATATATGATTCATTCATTTATAGCATTTTAATATATTATTATC
38937 ATAATTCACATGTCTATGCATTTTTCAT
196 ATAATTCACATGTCTATGCATTTTTCAT
38965 GAAAAT
1 GAAAAT
38971 ATTATGATTA
Statistics
Matches: 208, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
222 121 0.58
223 87 0.42
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (223 bp):
GAAAATTTGCTTTTAAAATACTCTCCTATGAAAGAAAACTTGTTTTTCAAATATTTTATGTTAAG
TTTCTTTAATTTTTATGTAATTTTCATCAAGTTTTTTTTTCATGTTTCAACCTTAGTTGACTTTC
TATGTTACTTATATTCCATGTTATATATGATTCATTCATTTATAGCATTTTAATATATTATTATC
ATAATTCACATGTCTATGCATTTTTCAT
Found at i:39258 original size:56 final size:58
Alignment explanation
Indices: 39158--39266 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 58
39148 TAATATTTTT
* ** *
39158 ATGCATTTTTATGTTATCTTAGTCATTTTTTATAACCTATGGATTTTTATGTCTTCTC
1 ATGCATCTTTATGTTATCTTAGTCATTTCCTATAACCTAGGGATTTTTATGTCTTCTC
* *
39216 ATGCATCTTTATGTT-T-TTAGTCATTTCCTATGACTTAGGGATTTTTATGTC
1 ATGCATCTTTATGTTATCTTAGTCATTTCCTATAACCTAGGGATTTTTATGTC
39267 ATTTCATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 30 0.67
57 1 0.02
58 14 0.31
ACGTcount: A:0.20, C:0.14, G:0.13, T:0.53
Consensus pattern (58 bp):
ATGCATCTTTATGTTATCTTAGTCATTTCCTATAACCTAGGGATTTTTATGTCTTCTC
Found at i:42372 original size:24 final size:24
Alignment explanation
Indices: 42340--42397 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
42330 GATTGTCTTC
42340 CCTTTGCTCGCCCTTTACTGCTCT
1 CCTTTGCTCGCCCTTTACTGCTCT
* * *
42364 CCTTTGCTCACCCTTTGCTGGTCT
1 CCTTTGCTCGCCCTTTACTGCTCT
42388 CCTTTGCTCG
1 CCTTTGCTCG
42398 TGTTACTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.03, C:0.40, G:0.16, T:0.41
Consensus pattern (24 bp):
CCTTTGCTCGCCCTTTACTGCTCT
Found at i:42710 original size:53 final size:52
Alignment explanation
Indices: 42652--42764 Score: 181
Period size: 53 Copynumber: 2.2 Consensus size: 52
42642 CCTTTTCCCA
*
42652 TTGCTTTGCTGGTTTTTCTCTTTTTGCCTATGCTCCCCATTCTTCTCCATCAT
1 TTGCTTTGCTGGTTTTTCTCTTTTTGCCCATGCTCCCCATT-TTCTCCATCAT
* * *
42705 TTGCTTTGCTGGTTTTTTTCTTTTTGCCCATGCTTCTCATTTTCTCCATCAT
1 TTGCTTTGCTGGTTTTTCTCTTTTTGCCCATGCTCCCCATTTTCTCCATCAT
42757 TTGCTTTG
1 TTGCTTTG
42765 TTGTCTTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
52 19 0.34
53 37 0.66
ACGTcount: A:0.07, C:0.27, G:0.12, T:0.54
Consensus pattern (52 bp):
TTGCTTTGCTGGTTTTTCTCTTTTTGCCCATGCTCCCCATTTTCTCCATCAT
Found at i:43048 original size:21 final size:21
Alignment explanation
Indices: 43024--43068 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43014 TTATTCAAAG
*
43024 TTGCTGCCATACGTGTTTAAT
1 TTGCTGCCATACGTGCTTAAT
* *
43045 TTGCTGCCATGCGTGCTTGAT
1 TTGCTGCCATACGTGCTTAAT
43066 TTG
1 TTG
43069 ATTTGCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.42
Consensus pattern (21 bp):
TTGCTGCCATACGTGCTTAAT
Found at i:43748 original size:30 final size:30
Alignment explanation
Indices: 43702--43760 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43692 AATGAAAGCA
*
43702 ATGCAATGAGATGAACATATGAAATGCATGT
1 ATGCAATGAAATGAACATATG-AATGCATGT
*
43733 ATGC-ATGAAATGAACATATGCATGCATG
1 ATGCAATGAAATGAACATATGAATGCATG
43761 AAACAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 15 0.58
31 4 0.15
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (30 bp):
ATGCAATGAAATGAACATATGAATGCATGT
Found at i:43946 original size:23 final size:22
Alignment explanation
Indices: 43909--43980 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 22
43899 ACGCTTTCTC
*
43909 TTTTTTTTT-CTTTCTTTGATT
1 TTTTTTTTTAATTTCTTTGATT
43930 TTTTTGTTTTGAA-TTCTTTGATT
1 TTTTT-TTTT-AATTTCTTTGATT
*
43953 TTTAATTTTTTAATTTTTTTGATT
1 TTT--TTTTTTAATTTCTTTGATT
43977 TTTT
1 TTTT
43981 AAAATTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 15 0.35
24 16 0.37
25 2 0.05
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTTTTTTTAATTTCTTTGATT
Found at i:43963 original size:9 final size:9
Alignment explanation
Indices: 43951--44007 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
43941 AATTCTTTGA
43951 TTTTTAA-T
1 TTTTTAATT
43959 TTTTTAATT
1 TTTTTAATT
*
43968 TTTTTGATT
1 TTTTTAATT
*
43977 TTTTAAAATT
1 TTTT-TAATT
* *
43987 ATTTTGATT
1 TTTTTAATT
43996 TTTTTAATT
1 TTTTTAATT
44005 TTT
1 TTT
44008 GATTTGACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
8 7 0.18
9 26 0.67
10 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:43964 original size:8 final size:8
Alignment explanation
Indices: 43951--44007 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
43941 AATTCTTTGA
43951 TTTTTAAT
1 TTTTTAAT
43959 TTTTTAATT
1 TTTTTAA-T
*
43968 TTTTTGAT
1 TTTTTAAT
43976 TTTTTAAAAT
1 TTTTT--AAT
*
43986 TATTTTGATT
1 T-TTTT-AAT
43996 TTTTTAAT
1 TTTTTAAT
44004 TTTT
1 TTTT
44008 GATTTGACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 19 0.47
9 11 0.28
10 6 0.15
11 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (8 bp):
TTTTTAAT
Found at i:43986 original size:19 final size:17
Alignment explanation
Indices: 43951--44007 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
43941 AATTCTTTGA
*
43951 TTTTTAATTTTTTAATT
1 TTTTTGATTTTTTAATT
43968 TTTTTGATTTTTTAAAATT
1 TTTTTGATTTTTT--AATT
*
43987 ATTTTGATTTTTTTAATT
1 TTTTTGA-TTTTTTAATT
44005 TTT
1 TTT
44008 GATTTGACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 12 0.35
18 6 0.18
19 10 0.29
20 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTGATTTTTTAATT
Found at i:44002 original size:20 final size:19
Alignment explanation
Indices: 43952--43999 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
43942 ATTCTTTGAT
* *
43952 TTTTAATTTTTT--AATTT
1 TTTTGATTTTTTAAAATTA
43969 TTTTGATTTTTTAAAATTA
1 TTTTGATTTTTTAAAATTA
43988 TTTTGATTTTTT
1 TTTTGATTTTTT
44000 TAATTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 11 0.41
19 16 0.59
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTGATTTTTTAAAATTA
Found at i:44630 original size:53 final size:53
Alignment explanation
Indices: 44562--44678 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
44552 GCATTTACTC
44562 CAGCCACCCTATCTTTCTCCTAAGCACGGGCAAGCCACCATAGCATTTAATTT
1 CAGCCACCCTATCTTTCTCCTAAGCACGGGCAAGCCACCATAGCATTTAATTT
*
44615 CAGCCACCCTATCTTTCTCCTAATCACGGGCAAGCCACCATAGCATTTAATTT
1 CAGCCACCCTATCTTTCTCCTAAGCACGGGCAAGCCACCATAGCATTTAATTT
44668 CAGCCACCCTA
1 CAGCCACCCTA
44679 CTTAGCCATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.26, C:0.36, G:0.12, T:0.26
Consensus pattern (53 bp):
CAGCCACCCTATCTTTCTCCTAAGCACGGGCAAGCCACCATAGCATTTAATTT
Found at i:44716 original size:20 final size:20
Alignment explanation
Indices: 44691--44736 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
44681 TAGCCATTTT
44691 TGCTAGCAAGCATCATTTAA
1 TGCTAGCAAGCATCATTTAA
44711 TGCTAGCAAGCATCATTTAA
1 TGCTAGCAAGCATCATTTAA
44731 TGCTAG
1 TGCTAG
44737 AAGGAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (20 bp):
TGCTAGCAAGCATCATTTAA
Found at i:46961 original size:27 final size:27
Alignment explanation
Indices: 46885--46953 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
46875 TTTATCCATA
*
46885 GGGATACTCCAACCCTATTTTTCTGAG
1 GGGATACTCCAACCCAATTTTTCTGAG
*
46912 GGGATACTCCAACTCAATTTTTCTGAG
1 GGGATACTCCAACCCAATTTTTCTGAG
46939 GGGATACTCCAACCC
1 GGGATACTCCAACCC
46954 CACCTTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (27 bp):
GGGATACTCCAACCCAATTTTTCTGAG
Found at i:52319 original size:3 final size:3
Alignment explanation
Indices: 52304--52339 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
52294 AACCGACAAA
* *
52304 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT AAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
52340 AAGGTTGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:52915 original size:13 final size:13
Alignment explanation
Indices: 52897--52921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52887 ATAATGCACA
52897 GTATCGATACATT
1 GTATCGATACATT
52910 GTATCGATACAT
1 GTATCGATACAT
52922 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:53028 original size:13 final size:13
Alignment explanation
Indices: 53010--53035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53000 ACATACAAGA
53010 TGTATCGATACAT
1 TGTATCGATACAT
53023 TGTATCGATACAT
1 TGTATCGATACAT
53036 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53051 original size:33 final size:32
Alignment explanation
Indices: 52990--53054 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
52980 CCTTAACTGT
52990 TTGTATCAATACATACAAGATGTATCGATACA
1 TTGTATCAATACATACAAGATGTATCGATACA
*
53022 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCAATACAT-A-CAAGATGTATCGATACA
53055 ATGACACGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
33 14 0.47
34 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (32 bp):
TTGTATCAATACATACAAGATGTATCGATACA
Found at i:55653 original size:19 final size:20
Alignment explanation
Indices: 55610--55659 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
55600 CACACCCAGA
*
55610 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCAT
*
55630 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
*
55649 TGTATCAATAC
1 TGTATCGATAC
55660 GTGGCCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:55751 original size:13 final size:13
Alignment explanation
Indices: 55733--55757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55723 CATGGTATAA
55733 TGTATCGATACAT
1 TGTATCGATACAT
55746 TGTATCGATACA
1 TGTATCGATACA
55758 ATTCTTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61943 original size:13 final size:13
Alignment explanation
Indices: 61925--61953 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61915 ACAACATTCC
61925 TTGTATCGATACA
1 TTGTATCGATACA
61938 TTGTATCGATACA
1 TTGTATCGATACA
61951 TTG
1 TTG
61954 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:63826 original size:18 final size:19
Alignment explanation
Indices: 63796--63834 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
63786 ATAATTTTTT
*
63796 TATAAAAAGGGGGAGTAGA
1 TATAAAAAGGGGGAGAAGA
63815 TATAAAAA-GGGGAGAAGA
1 TATAAAAAGGGGGAGAAGA
63833 TA
1 TA
63835 ATCGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.15
Consensus pattern (19 bp):
TATAAAAAGGGGGAGAAGA
Found at i:64467 original size:13 final size:13
Alignment explanation
Indices: 64449--64475 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64439 ACATGCTGCT
64449 TTGTATCGATACA
1 TTGTATCGATACA
64462 TTGTATCGATACA
1 TTGTATCGATACA
64475 T
1 T
64476 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:64472 original size:33 final size:32
Alignment explanation
Indices: 64430--64494 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
64420 CACACCCAGA
*
64430 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
64463 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
64495 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:64506 original size:21 final size:19
Alignment explanation
Indices: 64460--64516 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
64450 TGTATCGATA
**
64460 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
64479 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
64498 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
64517 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:64582 original size:33 final size:33
Alignment explanation
Indices: 64545--64611 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
64535 CTATCACTAT
* *
64545 TTGTATCGATACATGGTACAA-TGTATCGATACA
1 TTGTATCGAGACAT-GAACAATTGTATCGATACA
*
64578 TTGTATCGAGACATGAAGAATTGTATCGATACA
1 TTGTATCGAGACATGAACAATTGTATCGATACA
64611 T
1 T
64612 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
TTGTATCGAGACATGAACAATTGTATCGATACA
Found at i:67569 original size:20 final size:20
Alignment explanation
Indices: 67544--67598 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
67534 GCAACCTTCA
**
67544 CCAGGTCGTGACCGGCACTC
1 CCAGGTCGCAACCGGCACTC
67564 CCAGGTCGCAACCGGCACTC
1 CCAGGTCGCAACCGGCACTC
67584 CCAGGTCGCAACCGG
1 CCAGGTCGCAACCGG
67599 GTAGCCCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.18, C:0.42, G:0.29, T:0.11
Consensus pattern (20 bp):
CCAGGTCGCAACCGGCACTC
Found at i:73282 original size:13 final size:13
Alignment explanation
Indices: 73261--73297 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
73251 AATATTCTAA
73261 GTATCGATACATT
1 GTATCGATACATT
*
73274 GTATTGATACATT
1 GTATCGATACATT
73287 GTATCGATACA
1 GTATCGATACA
73298 AGGTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:75886 original size:19 final size:20
Alignment explanation
Indices: 75862--75912 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
75852 CGATATAATG
75862 TATCGATACATGCTC-ATTA
1 TATCGATACATGCTCAATTA
* *
75881 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTA
75901 TATCGATACATG
1 TATCGATACATG
75913 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTA
Found at i:75979 original size:13 final size:13
Alignment explanation
Indices: 75957--75986 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
75947 GATACATGGG
*
75957 ACATTGTATCGAT
1 ACATTATATCGAT
75970 ACATTATATCGAT
1 ACATTATATCGAT
75983 ACAT
1 ACAT
75987 GAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:75985 original size:33 final size:33
Alignment explanation
Indices: 75943--76009 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
75933 AAGTGAAATG
* *
75943 TATCGATACATG-GGACATTGTATCGATACATTA
1 TATCGATACATGAAGA-ATTGTATCAATACATTA
75976 TATCGATACATGAAGAATTGTATCAATACATTA
1 TATCGATACATGAAGAATTGTATCAATACATTA
76009 T
1 T
76010 CCCCAACAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (33 bp):
TATCGATACATGAAGAATTGTATCAATACATTA
Found at i:81379 original size:11 final size:10
Alignment explanation
Indices: 81358--81407 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
81348 AGAAAAATAC
81358 AAAAGAAAAA
1 AAAAGAAAAA
*
81368 AAGAG-AAAA
1 AAAAGAAAAA
81377 AAAAG--AAA
1 AAAAGAAAAA
*
81385 AAGAGAAAAA
1 AAAAGAAAAA
81395 CAAAAGAAAAA
1 -AAAAGAAAAA
81406 AA
1 AA
81408 GGTTTCTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 7 0.21
9 8 0.24
10 9 0.27
11 9 0.27
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:81385 original size:17 final size:19
Alignment explanation
Indices: 81345--81405 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
81335 AGACAATTGG
81345 AAAAGA-AAAATACAAAAGA
1 AAAAGAGAAAA-ACAAAAGA
*
81364 AAAAAAGAGAAAA-AAAAGA
1 AAAAGAGA-AAAACAAAAGA
81383 AAAAGAGAAAAACAAAAGA
1 AAAAGAGAAAAACAAAAGA
81402 AAAA
1 AAAA
81406 AAGGTTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 4 0.11
19 28 0.76
20 2 0.05
21 3 0.08
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.02
Consensus pattern (19 bp):
AAAAGAGAAAAACAAAAGA
Found at i:82125 original size:29 final size:28
Alignment explanation
Indices: 82093--82182 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 28
82083 TTTTTATACA
*
82093 ATTTCATGTATTTTAAGACCATTTTGGTC
1 ATTTCATGTATTTTAAGACAATTTT-GTC
* * *
82122 ATTTTTCACG--TTTTAGGA-AATTTATGTA
1 A--TTTCATGTATTTTAAGACAATTT-TGTC
*
82150 ATTTCATGTATTTTAAGACTATTTTAGTC
1 ATTTCATGTATTTTAAGACAATTTT-GTC
82179 ATTT
1 ATTT
82183 TTTCATGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
26 6 0.13
28 15 0.33
29 19 0.41
31 6 0.13
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (28 bp):
ATTTCATGTATTTTAAGACAATTTTGTC
Found at i:82135 original size:58 final size:57
Alignment explanation
Indices: 82033--82194 Score: 180
Period size: 58 Copynumber: 2.8 Consensus size: 57
82023 ATCATTAATG
* * * * ** ***
82033 CAATTTCATATATTTTATGATCATTTTAGTAATTTGGCATGTTTTAGGGGTTTTTATA
1 CAATTTCATGTATTTTAAGACCATTTTAGTCATTTTTCATGTTTTA-GGAAATTTATA
* * *
82091 CAATTTCATGTATTTTAAGACCATTTTGGTCATTTTTCACGTTTTAGGAAATTTATG
1 CAATTTCATGTATTTTAAGACCATTTTAGTCATTTTTCATGTTTTAGGAAATTTATA
* *
82148 TAATTTCATGTATTTTAAGACTATTTTAGTCATTTTTTCATGTTTTA
1 CAATTTCATGTATTTTAAGACCATTTTAGTCA-TTTTTCATGTTTTA
82195 AAAACTTTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
57 36 0.41
58 51 0.59
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (57 bp):
CAATTTCATGTATTTTAAGACCATTTTAGTCATTTTTCATGTTTTAGGAAATTTATA
Found at i:94818 original size:20 final size:23
Alignment explanation
Indices: 94777--94822 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
94767 CGATGCACAT
94777 TTAATATTTTAATATATATAAAA
1 TTAATATTTTAATATATATAAAA
*
94800 TTAAT-TTTTAATTTATA-AAAA
1 TTAATATTTTAATATATATAAAA
94821 TT
1 TT
94823 TGTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATATTTTAATATATATAAAA
Found at i:94996 original size:72 final size:72
Alignment explanation
Indices: 94905--95041 Score: 238
Period size: 72 Copynumber: 1.9 Consensus size: 72
94895 AATGCTACTA
*
94905 AAAAGAATTAAAATATAATTTAAAAAATAATTACTGAAATTAATATATTATATTAAATTCAATGA
1 AAAAGAATTAAAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTCAATGA
94970 TTGCACT
66 TTGCACT
* * *
94977 AAAATAATTAAAATGTAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTCAATGA
1 AAAAGAATTAAAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTCAATGA
95042 ATGAGGTTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (72 bp):
AAAAGAATTAAAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTCAATGA
TTGCACT
Found at i:95311 original size:17 final size:19
Alignment explanation
Indices: 95289--95331 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
95279 ATATTAGTAT
95289 TTATATA-AAAAAT-TATA
1 TTATATATAAAAATATATA
* *
95306 TTATATATATATATATATA
1 TTATATATAAAAATATATA
95325 TTATATA
1 TTATATA
95332 GATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATATATAAAAATATATA
Found at i:95312 original size:2 final size:2
Alignment explanation
Indices: 95302--95338 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
95292 TATAAAAAAT
*
95302 TA TA T- TA TA TA TA TA TA TA TA TA T- TA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95339 TTCTTTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95317 original size:94 final size:94
Alignment explanation
Indices: 95122--95315 Score: 248
Period size: 94 Copynumber: 2.1 Consensus size: 94
95112 CAAATTAATA
* * * * ** *
95122 TTATACATTGAATTGAATGAATTATTATAATGTATGAAATTTTTTTATAAAAACTCATAATAAAT
1 TTATATATTAAATTCAATGAATTATTATAATATATGAAATTTTTAAAAAAAAACTCATAATAAAT
95187 ATTAACATTTACATCAAAAGAACTATATT
66 ATTAACATTTACATCAAAAGAACTATATT
* *
95216 TTATATATTAAATTCAATGGATTCTTATAATATATGAAATTTTTAAAAAAAAACTCATAATAAAT
1 TTATATATTAAATTCAATGAATTATTATAATATATGAAATTTTTAAAAAAAAACTCATAATAAAT
** * *
95281 ATTAGTATTTATAT-AAAA-AATTATATT
66 ATTAACATTTACATCAAAAGAACTATATT
*
95308 ATATATAT
1 TTATATAT
95316 ATATATATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 15 0.17
93 4 0.05
94 67 0.78
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (94 bp):
TTATATATTAAATTCAATGAATTATTATAATATATGAAATTTTTAAAAAAAAACTCATAATAAAT
ATTAACATTTACATCAAAAGAACTATATT
Found at i:95324 original size:19 final size:19
Alignment explanation
Indices: 95302--95338 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95292 TATAAAAAAT
*
95302 TATATTATATATATATATA
1 TATATTATATAGATATATA
95321 TATATTATATAGATATAT
1 TATATTATATAGATATAT
95339 TTCTTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTATATAGATATATA
Found at i:95991 original size:2 final size:2
Alignment explanation
Indices: 95986--96047 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
95976 ATATTAAGTT
* ** * *
95986 TA TA TA TA TA TA TA TA TA CA TA CC CA TA TA -A AA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
96027 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
96048 TGTGACTCCG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
1 2 0.04
2 47 0.94
3 1 0.02
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:99772 original size:58 final size:59
Alignment explanation
Indices: 99686--100028 Score: 198
Period size: 58 Copynumber: 5.9 Consensus size: 59
99676 ATAGAAAATT
* * * *
99686 ACTAAAATGATGCAAAAAAATGCATGAAAGTACATAATAA-CCTTTAAATTATGGAAA-ATG
1 ACTAAAATGGTGC-TAAAAATGCATGAAAGTACATAATAATCC-CTAAATCAT-GAAAGATG
* *
99746 ACTAAAATGGTGCT-AACATGCATGAAATTACATAATAATCCCTAAATCATGAAAGATG
1 ACTAAAATGGTGCTAAAAATGCATGAAAGTACATAATAATCCCTAAATCATGAAAGATG
* *
99804 ACTAAAATGGTGCTAAAAATGCATGAAATTGCAT-A-AATGGCCCTAAAAT-ATGGGAAAG-T-
1 ACTAAAATGGTGCTAAAAATGCATGAAAGTACATAATAAT--CCCT-AAATCAT--GAAAGATG
* * *** * * * * * * *
99863 A-TTACATGACCCT-AAAATACATGAAATTGCATAAT-TTTCCTAAAACATGACAA-ATT
1 ACTAAAATGGTGCTAAAAATGCATGAAAGTACATAATAATCCCTAAATCATGA-AAGATG
* * *
99919 ACTAAAAATGATGC-AAAAATGCATGAAA-T-TATAATGATATCCCTTAAATAATGGAAA-ATG
1 ACT-AAAATGGTGCTAAAAATGCATGAAAGTACATAAT-A-ATCCC-TAAATCAT-GAAAGATG
* * * *
99979 ACTAAAACGGTGCT-AAAATGCATGAAATTGCATAATAACCCCTAAATCAT
1 ACTAAAATGGTGCTAAAAATGCATGAAAGTACATAATAATCCCTAAATCAT
100029 AGGAATGACC
Statistics
Matches: 225, Mismatches: 33, Indels: 52
0.73 0.11 0.17
Matches are distributed among these distances:
54 2 0.01
55 6 0.03
56 11 0.05
57 27 0.12
58 81 0.36
59 54 0.24
60 32 0.14
61 12 0.05
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (59 bp):
ACTAAAATGGTGCTAAAAATGCATGAAAGTACATAATAATCCCTAAATCATGAAAGATG
Found at i:100065 original size:29 final size:28
Alignment explanation
Indices: 100032--100120 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 28
100022 AAATCATAGG
100032 AATGACCTTAAAATGCATGAAATTGCATA
1 AATGACCTTAAAAT-CATGAAATTGCATA
*
100061 AATGATCC-TAAAAT-ATGGTAAATTAC-TA
1 AATGA-CCTTAAAATCAT-G-AAATTGCATA
100089 GAATGACCTTAAAATACATGAGAA-TGCATA
1 -AATGACCTTAAAAT-CATGA-AATTGCATA
100119 AA
1 AA
100121 ATGGTCCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 33 0.67
30 7 0.14
31 2 0.04
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (28 bp):
AATGACCTTAAAATCATGAAATTGCATA
Found at i:101598 original size:20 final size:20
Alignment explanation
Indices: 101531--101630 Score: 78
Period size: 20 Copynumber: 4.9 Consensus size: 20
101521 AAAAACATGA
101531 CATTGTATCGATACTATAT-GG
1 CATTGTATCGATAC-A-ATGGG
* * *
101552 CCTTGTATCAATACAA-GAAG
1 CATTGTATCGATACAATG-GG
**
101572 CGGTGTATCGATACAATGGG
1 CATTGTATCGATACAATGGG
*
101592 CATTGTATCGATACAATATGG
1 CATTGTATCGATACAAT-GGG
* *
101613 CCTTGTATCGATTCAATG
1 CATTGTATCGATACAATG
101631 AATGTTTTAG
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 31 0.50
21 30 0.48
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (20 bp):
CATTGTATCGATACAATGGG
Found at i:102506 original size:29 final size:27
Alignment explanation
Indices: 102473--102529 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
102463 GCTTTAAAAC
*
102473 TTCAAGATTTCCCTTTGCTCTTTCTTTTT
1 TTCAAGATTTCCCTTTACT-TTT-TTTTT
* *
102502 TTCAAGCTTTTCCTTTACTTTTTTTTT
1 TTCAAGATTTCCCTTTACTTTTTTTTT
102529 T
1 T
102530 CTTTCTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 3 0.12
29 16 0.64
ACGTcount: A:0.11, C:0.21, G:0.05, T:0.63
Consensus pattern (27 bp):
TTCAAGATTTCCCTTTACTTTTTTTTT
Found at i:104318 original size:16 final size:16
Alignment explanation
Indices: 104284--104327 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
104274 TTCAATGTTA
* *
104284 TAATTGAATA-ATTAT
1 TAATTGATTATATAAT
*
104299 TAATTGGTTATATAAT
1 TAATTGATTATATAAT
104315 TAATTGATTATAT
1 TAATTGATTATAT
104328 TTAATAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TAATTGATTATATAAT
Found at i:105187 original size:20 final size:17
Alignment explanation
Indices: 105148--105206 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 17
105138 ATAATAAAAT
*
105148 AAAAATTAAAAATCATA
1 AAAAATCAAAAATCATA
105165 AAAAATCAATAAATCAATCA
1 AAAAATCAA-AAATC-AT-A
*
105185 AAAAATCAAAAAT-TTA
1 AAAAATCAAAAATCATA
105201 AAAAAT
1 AAAAAT
105207 TTAAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 5 0.14
19 6 0.16
20 10 0.27
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATCAAAAATCATA
Found at i:105190 original size:43 final size:45
Alignment explanation
Indices: 105121--105235 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 45
105111 ATTCGATATA
105121 AAAAAATAAATAATATAATAATAAAAT-AAAAA-TTAAAAATCAT
1 AAAAAATAAATAATATAATAATAAAATCAAAAATTTAAAAATCAT
* *
105164 AAAAAATCAATAA-ATCAATCAA-AAAATCAAAAATTTAAAAAAT-TT
1 AAAAAATAAATAATAT-AAT-AATAAAATCAAAAATTT-AAAAATCAT
* * *
105209 AAAAATATATATAATGTAAAAATAAAA
1 AAAAA-ATAAATAATATAATAATAAAA
105236 AATAAAAATG
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.03
43 20 0.34
44 7 0.12
45 10 0.17
46 18 0.31
47 1 0.02
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (45 bp):
AAAAAATAAATAATATAATAATAAAATCAAAAATTTAAAAATCAT
Found at i:107169 original size:8 final size:8
Alignment explanation
Indices: 107152--107190 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
107142 TGAAAAAGAG
107152 AGAAAGAAA
1 AGAAA-AAA
107161 AGACAAAAA
1 AGA-AAAAA
*
107170 AAAAAAAA
1 AGAAAAAA
107178 AGAAAAAA
1 AGAAAAAA
107186 AGAAA
1 AGAAA
107191 GAGAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 17 0.63
9 8 0.30
10 2 0.07
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:107183 original size:12 final size:14
Alignment explanation
Indices: 107150--107198 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
107140 GCTGAAAAAG
107150 AGAGAAAGAAAAGACA
1 AGAGAAA-AAAAGA-A
107166 A-A-AAAAAAA-AA
1 AGAGAAAAAAAGAA
107177 A-AGAAAAAAAGAA
1 AGAGAAAAAAAGAA
107190 AGAGAAAAA
1 AGAGAAAAA
107199 GGAGAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 7 0.23
14 10 0.33
15 1 0.03
16 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAAAGAA
Found at i:107199 original size:12 final size:12
Alignment explanation
Indices: 107144--107199 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
107134 GGTTCAGCTG
*
107144 AAAAAGAGAGAA
1 AAAAAGAAAGAA
*
107156 AGAAAAGACAAAAA
1 A-AAAAGA-AAGAA
*
107170 AAAAAAAAAGAA
1 AAAAAGAAAGAA
*
107182 AAAAAGAAAGAG
1 AAAAAGAAAGAA
107194 AAAAAG
1 AAAAAG
107200 GAGAAAATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 21 0.58
13 11 0.31
14 4 0.11
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:110166 original size:206 final size:207
Alignment explanation
Indices: 109800--110223 Score: 652
Period size: 206 Copynumber: 2.0 Consensus size: 207
109790 ATAGATTGGC
* *
109800 GGCGACTTCATGAAAATAGTCATTTCGCAATGACTATTTAGGATTAAGTTGAGTGAACGATTCAT
1 GGCGACTCCAAGAAAATAGTCATTTCGCAATGACTATTTAGGATTAAGTTGAGTGAACGATTCAT
* *
109865 CTCGATAACCCGAATCCCTAAAAAAAATAACATATTCAAATCAATATGGCCCACAAATTAGGAGT
66 CTCAATAACCCGAATCCC-AAAAAAAATAACATATTCAAATCAATATGGCCCACAAATTAGGACT
* * *
109930 CATCATAACTATATTTTCAAAGGCCATTTTAAGTCGGGCTTGGTTGGGATTCGTATCCATGCCAC
130 CATCATAACTATATTTTCAAAGGCCATTTTAAGTCAGGCTTGGTCGGGATTCGTATCCAGGCCAC
*
109995 ATTGCAAGAGCTT
195 ATTGCAACAGCTT
* *
110008 GGCGACTCCAAGAAAATAGTCATTTCGCAATGACTATTTAGGGTTAAGTTGAGTGAGCGATTCAT
1 GGCGACTCCAAGAAAATAGTCATTTCGCAATGACTATTTAGGATTAAGTTGAGTGAACGATTCAT
* * * * *
110073 CTCAATAACCTGAATCCC-AAAAAAATGACATATTCAGATCAATATGGCCTATAAATTAGGACTC
66 CTCAATAACCCGAATCCCAAAAAAAATAACATATTCAAATCAATATGGCCCACAAATTAGGACTC
* * * *
110137 ATCATAACTATATTTTCAAGGGCCATTTTAAGTCAGGCTTGGTCGGGATTCGTATTCGGGTCACA
131 ATCATAACTATATTTTCAAAGGCCATTTTAAGTCAGGCTTGGTCGGGATTCGTATCCAGGCCACA
*
110202 TTGCGACAGCTT
196 TTGCAACAGCTT
110214 GGCGACTCCA
1 GGCGACTCCA
110224 TTGGGGACTA
Statistics
Matches: 196, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
206 119 0.61
208 77 0.39
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (207 bp):
GGCGACTCCAAGAAAATAGTCATTTCGCAATGACTATTTAGGATTAAGTTGAGTGAACGATTCAT
CTCAATAACCCGAATCCCAAAAAAAATAACATATTCAAATCAATATGGCCCACAAATTAGGACTC
ATCATAACTATATTTTCAAAGGCCATTTTAAGTCAGGCTTGGTCGGGATTCGTATCCAGGCCACA
TTGCAACAGCTT
Found at i:112504 original size:79 final size:78
Alignment explanation
Indices: 112327--112506 Score: 198
Period size: 78 Copynumber: 2.3 Consensus size: 78
112317 ATGGGGCTGG
* ** * * * *
112327 AGTATCCCCAATTATGAAAAATTGGTGTTCTAAAAATAAAACTGGGGTTGGAGTGTCCCCTTAGA
1 AGTATCCCCGATTATGAAAAATCAGTATTCTAAAAATAAAACTGAGGTTGGAGTGTCCCCTGAAA
*
112392 ATAACAGGGTTGG
66 ATAACAGGGTTGA
** * * * * *
112405 AGTATCCTTGATTATAAAAAATCAGTATTTTGAAAATGAAATTGAGGTTGGAGTGTCCCCTCGAA
1 AGTATCCCCGATTATGAAAAATCAGTATTCTAAAAATAAAACTGAGGTTGGAGTGTCCCCT-GAA
*
112470 AATAACGGGGTTGA
65 AATAACAGGGTTGA
*
112484 AGTATCCCCGATTGTGAAAAATC
1 AGTATCCCCGATTATGAAAAATC
112507 GATGATTTAG
Statistics
Matches: 81, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
78 49 0.60
79 32 0.40
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (78 bp):
AGTATCCCCGATTATGAAAAATCAGTATTCTAAAAATAAAACTGAGGTTGGAGTGTCCCCTGAAA
ATAACAGGGTTGA
Found at i:112617 original size:78 final size:78
Alignment explanation
Indices: 112432--112620 Score: 184
Period size: 78 Copynumber: 2.4 Consensus size: 78
112422 AAAATCAGTA
* * * * * *
112432 TTTTGAAAATGAAAT-TGAGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGAT
1 TTTTGAAAATAAAATCAGA-GTTGGAGTAT-CCCTCGAAAATAACGGGGTTGAAGTATCCACAAC
112496 TGTGAAAAATCGATG
64 TGTGAAAAATCGATG
* *** * * * * * *
112511 ATTT-AGAAATAAGGCCGGGGTTGAAGTATCCCTTGGAAATAACGGGGTTGGAGTATCCACAACT
1 TTTTGA-AAATAAAATCAGAGTTGGAGTATCCCTCGAAAATAACGGGGTTGAAGTATCCACAACT
*
112575 GTGAAAAATTGATG
65 GTGAAAAATCGATG
112589 TTTTGAAAATAAAATCAGAGTTGGAGTATCCC
1 TTTTGAAAATAAAATCAGAGTTGGAGTATCCC
112621 CGATTGCGGT
Statistics
Matches: 84, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
78 66 0.79
79 17 0.20
80 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (78 bp):
TTTTGAAAATAAAATCAGAGTTGGAGTATCCCTCGAAAATAACGGGGTTGAAGTATCCACAACTG
TGAAAAATCGATG
Found at i:112650 original size:51 final size:51
Alignment explanation
Indices: 112595--112700 Score: 158
Period size: 51 Copynumber: 2.1 Consensus size: 51
112585 GATGTTTTGA
** *
112595 AAATAAAATCAGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAG
1 AAATAAAATCAGAGTTGGAGTATCCCCGATTAAGGAAAATCGATGCTTTAG
* * *
112646 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATCGATGTTTTGG
1 AAATAAAATCAGAGTTGGAGTATCCCCGATTAAGGAAAATCGATGCTTTAG
112697 AAAT
1 AAAT
112701 GGAACCGGGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAAAATCAGAGTTGGAGTATCCCCGATTAAGGAAAATCGATGCTTTAG
Found at i:114554 original size:13 final size:13
Alignment explanation
Indices: 114536--114562 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
114526 CAATACTCAA
114536 TGTATCGATACAT
1 TGTATCGATACAT
114549 TGTATCGATACAT
1 TGTATCGATACAT
114562 T
1 T
114563 TGATCTTTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:118602 original size:13 final size:13
Alignment explanation
Indices: 118554--118583 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118544 GTAAACCCAG
118554 AATGTATCAATAC
1 AATGTATCAATAC
*
118567 AATGTATCGATAC
1 AATGTATCAATAC
118580 AATG
1 AATG
118584 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:118609 original size:24 final size:20
Alignment explanation
Indices: 118485--118602 Score: 86
Period size: 20 Copynumber: 5.8 Consensus size: 20
118475 AAAATGCTTG
*
118485 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
118505 AATGTATCGATACAATGCAA-
1 AATGTATCGATACAATG-AAC
*
118525 AATGTATCGATACATCTGGGTAAACC
1 AATGTATCGATACA-AT--G--AA-C
* *
118551 CA-GAAT-G-TATCAAT--AC
1 AATGTATCGATA-CAATGAAC
118567 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
118587 AATGTATCGATACAAT
1 AATGTATCGATACAAT
118603 TTGTGAAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 26
0.69 0.07 0.23
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 5 0.06
19 2 0.03
20 49 0.64
21 2 0.03
23 4 0.05
24 5 0.06
25 3 0.04
26 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:119246 original size:207 final size:208
Alignment explanation
Indices: 118878--119301 Score: 699
Period size: 207 Copynumber: 2.0 Consensus size: 208
118868 TAGATTGGTG
118878 GCGACTCCAAGAAAATAGTCATTTCACAATGACTATTTAGGATTAAGTTGAGTGAGCGATTCATC
1 GCGACTCCAAGAAAATAGTCATTTCACAATGACTATTTAGGATTAAGTTGAGTGAGCGATTCATC
* *
118943 TCGATAACCCGAATCCCTAAAAAAAATAACATATTCAAATCAATATAGCCCACAAATTAGGAGTC
66 TCAATAACCCGAATCCCTAAAAAAAATAACATATTCAAATCAATATAGCCCACAAATTAGGACTC
*
119008 ATCATAACTATATTTTCAAAGGCCATTTTAAGTCGGGCTTGGTCGGGATTCGTATCCAGGCCACG
131 ATCATAACTATATTTTCAAAGGCCATTTTAAGTCGGGCTTGGTCGGGATTCGTATCCAGGCCACA
119073 TTGCGACAGCTTA
196 TTGCGACAGCTTA
*
119086 GCGACTCCAAGAAAATAGTCATTTCACAATGACTATTTAGGGTTAAGTTGAGTGAGCGATTCATC
1 GCGACTCCAAGAAAATAGTCATTTCACAATGACTATTTAGGATTAAGTTGAGTGAGCGATTCATC
* * * * *
119151 TCAATAA-CCTACATCCC-CAAAAAAATGACATATTCAGATCAATATGGCCCACAAATTAGGACT
66 TCAATAACCCGA-ATCCCTAAAAAAAATAACATATTCAAATCAATATAGCCCACAAATTAGGACT
* * *
119214 CATCATAACTATATTTTCAAGGGCCATTTTAAGTCGGGCTTGGTCGGGATTCGTATCCGGGTCAC
130 CATCATAACTATATTTTCAAAGGCCATTTTAAGTCGGGCTTGGTCGGGATTCGTATCCAGGCCAC
*
119279 ATTGCGACAGCTTG
195 ATTGCGACAGCTTA
*
119293 GCAACTCCA
1 GCGACTCCA
119302 TTGGGGACTA
Statistics
Matches: 201, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
207 126 0.63
208 75 0.37
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (208 bp):
GCGACTCCAAGAAAATAGTCATTTCACAATGACTATTTAGGATTAAGTTGAGTGAGCGATTCATC
TCAATAACCCGAATCCCTAAAAAAAATAACATATTCAAATCAATATAGCCCACAAATTAGGACTC
ATCATAACTATATTTTCAAAGGCCATTTTAAGTCGGGCTTGGTCGGGATTCGTATCCAGGCCACA
TTGCGACAGCTTA
Found at i:130586 original size:42 final size:41
Alignment explanation
Indices: 130530--130668 Score: 149
Period size: 42 Copynumber: 3.4 Consensus size: 41
130520 CTTCTTCATT
* * *
130530 TTTTTGTTTACCCATTGGTTCAGACCCAAGAAACTTTTTCAC
1 TTTTTGTTT-CCCATCGGTTTAGACCCGAGAAACTTTTTCAC
* * * *
130572 TTTTTGTTTGCCCATCGGTTTAAACACGCGAAAATTTTTCAC
1 TTTTTGTTT-CCCATCGGTTTAGACCCGAGAAACTTTTTCAC
*
130614 --TTT-TTTCCCATCGATTTAGACCCGAGAAACTTTTTCAC
1 TTTTTGTTTCCCATCGGTTTAGACCCGAGAAACTTTTTCAC
*
130652 TTTTTATTTTCCCATCG
1 TTTTT-GTTTCCCATCG
130669 ATTCAGCCTT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 27 0.34
39 3 0.04
40 6 0.08
42 44 0.55
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (41 bp):
TTTTTGTTTCCCATCGGTTTAGACCCGAGAAACTTTTTCAC
Found at i:130648 original size:38 final size:39
Alignment explanation
Indices: 130551--130656 Score: 124
Period size: 38 Copynumber: 2.7 Consensus size: 39
130541 CCATTGGTTC
* *
130551 AGACCCAAGAAACTTTTTCACTTTTTGTTTGCCCATCGGTTT
1 AGACCCGAGAAACTTTTTCAC--TTT-TTTGCCCATCGATTT
* * * *
130593 AAACACGCGAAAATTTTTCACTTTTTT-CCCATCGATTT
1 AGACCCGAGAAACTTTTTCACTTTTTTGCCCATCGATTT
130631 AGACCCGAGAAACTTTTTCACTTTTT
1 AGACCCGAGAAACTTTTTCACTTTTT
130657 ATTTTCCCAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
38 32 0.59
39 3 0.06
40 3 0.06
42 16 0.30
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (39 bp):
AGACCCGAGAAACTTTTTCACTTTTTTGCCCATCGATTT
Found at i:130670 original size:42 final size:41
Alignment explanation
Indices: 130517--130671 Score: 145
Period size: 42 Copynumber: 3.8 Consensus size: 41
130507 AAATCTCACT
* * * * * *
130517 AAACTTCTTCATTTTTTTGTTTACCCATTGGTTCAGACCCAAG
1 AAACTTTTTCACTTTTTT-TTT-CCCATCGATTTAGACCCGAG
* * * * *
130560 AAACTTTTTCACTTTTTGTTTGCCCATCGGTTTAAACACGCG
1 AAACTTTTTCACTTTTT-TTTTCCCATCGATTTAGACCCGAG
*
130602 AAAATTTTTCAC---TTTTTTCCCATCGATTTAGACCCGAG
1 AAACTTTTTCACTTTTTTTTTCCCATCGATTTAGACCCGAG
130640 AAACTTTTTCACTTTTTATTTTCCCATCGATT
1 AAACTTTTTCACTTTTT-TTTTCCCATCGATT
130672 CAGCCTTGGG
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
38 30 0.33
39 2 0.02
41 2 0.02
42 39 0.43
43 17 0.19
44 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (41 bp):
AAACTTTTTCACTTTTTTTTTCCCATCGATTTAGACCCGAG
Found at i:130947 original size:42 final size:42
Alignment explanation
Indices: 130898--131889 Score: 432
Period size: 42 Copynumber: 23.5 Consensus size: 42
130888 AGTCTACTTA
* * *
130898 TCGGCTTTGACCCTAGAGACTGCCTTATCTAAAGTCTGCCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
* * * * *
130940 TCGGCTTTGACCCCGGAAACTT-TTCTACCCT-CAGTCTGCCTA
1 TCGGCTTTGACCCTGGAGACTTCCT-TA-CCTAAAGTCTGCCTG
* * * * * *
130982 TCGGCTTTAAACCTGGAGACTGCCTTATCTAAAGTCTGTCTA
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
* ** **
131024 TCGGCTTTGACCTTAAAGACTTTCC-TACCTTTCAGTCTGCCTG
1 TCGGCTTTGACCCTGGAGAC-TTCCTTACC-TAAAGTCTGCCTG
* * *
131067 TCAGCTTTGA-CCTGGAAACTTTCC-TACCTTCAA-TCTGCCTG
1 TCGGCTTTGACCCTGGAGAC-TTCCTTACC-TAAAGTCTGCCTG
** *
131108 TCGGCTTTGACCCTGGAGACTTTCC-TACCCTTCAGTCTGCCTA
1 TCGGCTTTGACCCTGGAGAC-TTCCTTA-CCTAAAGTCTGCCTG
* * * * * * * *
131151 TCAGCTTTGACCTTGAAGACTGCCTCATCTAAAGTTTACCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
*
131193 TCGGCTTTGACCCTGGAGACTT-TTCTACCTTCAAA--CTGCCTG
1 TCGGCTTTGACCCTGGAGACTTCCT-TACC-T-AAAGTCTGCCTG
* * ** ** ** *
131235 TCAGCTTTGACCTTGGAGACTTTTTTACCCTTTAGTCTATCTA
1 TCGGCTTTGACCCTGGAGACTTCCTTA-CCTAAAGTCTGCCTG
* * * * * *
131278 TCGGCTTTGACTCTAGAGACTTTCTTACCCTTCAA-TCTACCTA
1 TCGGCTTTGACCCTGGAGACTTCCTTA-CC-TAAAGTCTGCCTG
* ** * * *
131321 TCGGCTTTGACCATGGAGACCACCTCATCTAAAGTCTGTC-G
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
** ** * * * ** * *
131362 ATCAACTTCAACCTTAGAGACTTTCTTACCCTTCAGTTTGCTTG
1 -TCGGCTTTGACCCTGGAGACTTCCTTA-CCTAAAGTCTGCCTG
* * * * * * *
131406 TCAGCTTTAAACCTAGAGACTTGCCTCATCTAAAGTCTGCTTG
1 TCGGCTTTGACCCTGGAGACTT-CCTTACCTAAAGTCTGCCTG
* * **
131449 TCAGCTTTGACCCTGGTGACTTTCC-TACCTTCAGTCTGCCTG
1 TCGGCTTTGACCCTGGAGAC-TTCCTTACCTAAAGTCTGCCTG
* * * ** **
131491 TCGGCTTTGA-CCTGAAAGACTGCCTCATGTAAAGTCTGTATG
1 TCGGCTTTGACCCTG-GAGACTTCCTTACCTAAAGTCTGCCTG
* * ** ** *
131533 TCGGCTTTGACCTTAGAGACTTTTTTACCTTCAGTCTGCTTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
* * * * * * * *
131575 TCAGCTTTGACCTTGGAGACTGCCTCATCTGAAGTTTGCCTA
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
** ** **
131617 TCGATTTTGACCCTGGAGA-TTTTTCTACCTTCAGTCTGCCTG
1 TCGGCTTTGACCCTGGAGACTTCCT-TACCTAAAGTCTGCCTG
* * * * * *
131659 TTGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTACCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
** * * ** *
131701 TCAACTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
* * * *
131743 TCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
* * * * * * *
131785 TTGACTTTGATCCTAGAGATTTTCTTACCTTCAA-TCTGCCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACC-TAAAGTCTGCCTG
* * * * * * * * *
131827 TCAGTTTTTACCCTAGAGACTGCCTCATCTAAAGTTTGTCTG
1 TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
*
131869 TCGGCTTTGACCCTAGAGACT
1 TCGGCTTTGACCCTGGAGACT
131890 ACCTCATCTC
Statistics
Matches: 690, Mismatches: 229, Indels: 62
0.70 0.23 0.06
Matches are distributed among these distances:
41 37 0.05
42 469 0.68
43 173 0.25
44 11 0.02
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (42 bp):
TCGGCTTTGACCCTGGAGACTTCCTTACCTAAAGTCTGCCTG
Found at i:131014 original size:84 final size:84
Alignment explanation
Indices: 130901--131889 Score: 893
Period size: 84 Copynumber: 11.7 Consensus size: 84
130891 CTACTTATCG
* * * * *
130901 GCTTTGACCCTAGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACCCCGGAAACTTTTCT
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT
* * *
130966 ACCCTCAGTCTGCCTATCG
66 ACCTTCAGTCTGCCTGTCA
* * * * * ** *
130985 GCTTTAAACC-TGGAGACTGCCTTATCTAAAGTCTGTCTATCGGCTTTGACCTTAAAGACTTTCC
1 GCTTT-GACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
131049 TACCTTTCAGTCTGCCTGTCA
65 TACC-TTCAGTCTGCCTGTCA
* * * * *
131070 GCTTTGACC-TGGAAACTTTCCT-ACCTTCAA-TCTGCCTGTCGGCTTTGACCCTGGAGACTTTC
1 GCTTTGACCTTGGAGAC-TGCCTCATC-TAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTT
*
131132 CTACCCTTCAGTCTGCCTATCA
64 CTA-CCTTCAGTCTGCCTGTCA
* * *
131154 GCTTTGACCTTGAAGACTGCCTCATCTAAAGTTTACCTGTCGGCTTTGACCCTGGAGACTTTTCT
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT
**
131219 ACCTTCAAACTGCCTGTCA
66 ACCTTCAGTCTGCCTGTCA
*** * * ** ** * * *
131238 GCTTTGACCTTGGAGACTTTTTTACCCTTTAGTCTATCTATCGGCTTTGACTCTAGAGAC-TTTC
1 GCTTTGACCTTGGAGACTGCCTCA-TCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
* * * *
131302 TTACCCTTCAATCTACCTATCG
65 -TA-CCTTCAGTCTGCCTGTCA
* ** * ** ** * *
131324 GCTTTGACCATGGAGACCACCTCATCTAAAGTCTGTC-GATCAACTTCAACCTTAGAGAC-TTTC
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTG-TCGGCTTTGACCCTGGAGACTTTTC
* *
131387 TTACCCTTCAGTTTGCTTGTCA
65 -TA-CCTTCAGTCTGCCTGTCA
* * * * * *
131409 GCTTTAAACC-TAGAGACTTGCCTCATCTAAAGTCTGCTTGTCAGCTTTGACCCTGGTGACTTTC
1 GCTTT-GACCTTGGAGAC-TGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTT
*
131473 CTACCTTCAGTCTGCCTGTCG
64 CTACCTTCAGTCTGCCTGTCA
* * ** * * *
131494 GCTTTGACC-TGAAAGACTGCCTCATGTAAAGTCTGTATGTCGGCTTTGACCTTAGAGACTTTTT
1 GCTTTGACCTTG-GAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
*
131558 TACCTTCAGTCTGCTTGTCA
65 TACCTTCAGTCTGCCTGTCA
* * * ** *
131578 GCTTTGACCTTGGAGACTGCCTCATCTGAAGTTTGCCTATCGATTTTGACCCTGGAGATTTTTCT
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT
**
131643 ACCTTCAGTCTGCCTGTTG
66 ACCTTCAGTCTGCCTGTCA
* ** *
131662 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTACCTGTCAACTTTGACCTTGGAGAC-TTTCT
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-
* *
131726 TACCTTCAGTCTACCTGTCG
65 TACCTTCAGTCTGCCTGTCA
* * * *
131746 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTTGACTTTGATCCTAGAGA-TTTTCT
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-
*
131810 TACCTTCAATCTGCCTGTCA
65 TACCTTCAGTCTGCCTGTCA
* * * * * * *
131830 GTTTTTACCCTAGAGACTGCCTCATCTAAAGTTTGTCTGTCGGCTTTGACCCTAGAGACT
1 GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACT
131890 ACCTCATCTC
Statistics
Matches: 735, Mismatches: 149, Indels: 41
0.79 0.16 0.04
Matches are distributed among these distances:
83 4 0.01
84 481 0.65
85 179 0.24
86 67 0.09
87 4 0.01
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (84 bp):
GCTTTGACCTTGGAGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCT
ACCTTCAGTCTGCCTGTCA
Found at i:131044 original size:126 final size:127
Alignment explanation
Indices: 130896--131288 Score: 382
Period size: 127 Copynumber: 3.1 Consensus size: 127
130886 TCAGTCTACT
* * *
130896 TATCGGCTTTGACCCTAGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACCCCGGAAACT
1 TATCGGCTTTGACCTTAAAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAAACT
* * *
130961 TTTCTACCCTCAGTCTGCCTATCGGCTTTAAACCTGGAGAC-TGCCTTA-TCTAAAGTCTGTC
66 TTTCTACCCTCAATCTGCCTATCGGCTTTAAACCTGGAGACTTGCC-TACCCTAAAGTCTGCC
* * ** *
131022 TATCGGCTTTGACCTTAAAGACTTTCC-TACCTTTCAGTCTGCCTGTCAGCTTTGA-CCTGGAAA
1 TATCGGCTTTGACCTTAAAGAC-TGCCTTATC-TAAAGTCTGCCTGTCGGCTTTGACCCTGGAAA
* * * * * * **
131085 CTTTCCTACCTTCAATCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTCAGTCTGCC
64 CTTTTCTACCCTCAATCTGCCTATCGGCTTTAAACCTGGAGACTTGCCTACCCTAAAGTCTGCC
* * * * * *
131149 TATCAGCTTTGACCTTGAAGACTGCCTCATCTAAAGTTTACCTGTCGGCTTTGACCCTGGAGACT
1 TATCGGCTTTGACCTTAAAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAAACT
* * * * * *** ** **
131214 TTTCTACCTTCAAACTGCCTGTCAGCTTT-GACCTTGGAGACTTTTTTACCCTTTAGTCTATC
66 TTTCTACCCTCAATCTGCCTATCGGCTTTAAACC-TGGAGACTTGCCTACCCTAAAGTCTGCC
131276 TATCGGCTTTGAC
1 TATCGGCTTTGAC
131289 TCTAGAGACT
Statistics
Matches: 219, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
126 92 0.42
127 127 0.58
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (127 bp):
TATCGGCTTTGACCTTAAAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTGACCCTGGAAACT
TTTCTACCCTCAATCTGCCTATCGGCTTTAAACCTGGAGACTTGCCTACCCTAAAGTCTGCC
Found at i:132228 original size:44 final size:44
Alignment explanation
Indices: 132180--132407 Score: 152
Period size: 44 Copynumber: 5.2 Consensus size: 44
132170 TTTAATCCAA
* *
132180 GTCAACC-TTTCTTACCCTTAGTGACATGGTTGGCTTTGTCCCCG
1 GTCAACCATTT-TTACCCTTAGTGACCTGGTCGGCTTTGTCCCCG
* ** * *
132224 GTCAACCATTTTTACCCTTTGTTTCCCT-GTCGACTATGTCCCCG
1 GTCAACCATTTTTACCCTTAG-TGACCTGGTCGGCTTTGTCCCCG
* *
132268 GT-AA--ATTTCTTACTCCTAAGTGACCTGGTCGGCTTTGTCCCTG
1 GTCAACCATTT-TTAC-CCTTAGTGACCTGGTCGGCTTTGTCCCCG
* ** * * *
132311 GTCAACCATTTTTACCCTTTGTTTCCTTGTCGACTGTGTCCCCAG
1 GTCAACCATTTTTACCCTTAGTGACCTGGTCGGCTTTGTCCCC-G
* * *
132356 GT-AA--ATTTCTTACTCCTAAGTGACCT-GTCGACTTTGTCTCCG
1 GTCAACCATTT-TTAC-CCTTAGTGACCTGGTCGGCTTTGTCCCCG
132398 AGT-AACCATT
1 -GTCAACCATT
132408 CCCTTCTCTA
Statistics
Matches: 142, Mismatches: 28, Indels: 27
0.72 0.14 0.14
Matches are distributed among these distances:
41 4 0.03
42 13 0.09
43 42 0.30
44 63 0.44
45 16 0.11
46 4 0.03
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (44 bp):
GTCAACCATTTTTACCCTTAGTGACCTGGTCGGCTTTGTCCCCG
Found at i:132302 original size:87 final size:88
Alignment explanation
Indices: 132187--132407 Score: 333
Period size: 87 Copynumber: 2.5 Consensus size: 88
132177 CAAGTCAACC
* * *
132187 TTTCTTAC-CCTTAGTGACATGGTTGGCTTTGTCCCCGGTCAACCATTTTTACCCTTTGTTTCCC
1 TTTCTTACTCCTAAGTGACCTGGTCGGCTTTGTCCCCGGTCAACCATTTTTACCCTTTGTTTCCC
132251 TGTCGACTATGTCCCC-GGTAAA
66 TGTCGACTATGTCCCCAGGTAAA
* *
132273 TTTCTTACTCCTAAGTGACCTGGTCGGCTTTGTCCCTGGTCAACCATTTTTACCCTTTGTTTCCT
1 TTTCTTACTCCTAAGTGACCTGGTCGGCTTTGTCCCCGGTCAACCATTTTTACCCTTTGTTTCCC
*
132338 TGTCGACTGTGTCCCCAGGTAAA
66 TGTCGACTATGTCCCCAGGTAAA
* *
132361 TTTCTTACTCCTAAGTGACCT-GTCGACTTTGTCTCCGAGT-AACCATT
1 TTTCTTACTCCTAAGTGACCTGGTCGGCTTTGTCCCCG-GTCAACCATT
132408 CCCTTCTCTA
Statistics
Matches: 123, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
86 8 0.07
87 86 0.70
88 29 0.24
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (88 bp):
TTTCTTACTCCTAAGTGACCTGGTCGGCTTTGTCCCCGGTCAACCATTTTTACCCTTTGTTTCCC
TGTCGACTATGTCCCCAGGTAAA
Found at i:132386 original size:43 final size:42
Alignment explanation
Indices: 132249--132402 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 42
132239 CCTTTGTTTC
*
132249 CCTGTCGACTATGTCCCCGGTAAATTTCTTACTCCTAAGTGA
1 CCTGTCGACTTTGTCCCCGGTAAATTTCTTACTCCTAAGTGA
* * ** **
132291 CCTGGTCGGCTTTGTCCCTGGTCAACCATTT-TTAC-CCTTTGTTT
1 CCT-GTCGACTTTGTCCCCGGT-AA--ATTTCTTACTCCTAAGTGA
*
132335 CCTTGTCGACTGTGTCCCCAGGTAAATTTCTTACTCCTAAGTGA
1 CC-TGTCGACTTTGTCCCC-GGTAAATTTCTTACTCCTAAGTGA
*
132379 CCTGTCGACTTTGTCTCCGAGTAA
1 CCTGTCGACTTTGTCCCCG-GTAA
132403 CCATTCCCTT
Statistics
Matches: 87, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
42 8 0.09
43 37 0.43
44 30 0.34
45 8 0.09
46 4 0.05
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (42 bp):
CCTGTCGACTTTGTCCCCGGTAAATTTCTTACTCCTAAGTGA
Found at i:133274 original size:14 final size:14
Alignment explanation
Indices: 133255--133296 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
133245 TTGTTTTATG
133255 CATTGCATTCATTT
1 CATTGCATTCATTT
133269 CATTGCATTGC-TTT
1 CATTGCATT-CATTT
* *
133283 CATTTCATGCATTT
1 CATTGCATTCATTT
133297 TTGCCATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 1 0.04
14 22 0.92
15 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (14 bp):
CATTGCATTCATTT
Found at i:133277 original size:19 final size:18
Alignment explanation
Indices: 133252--133295 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
133242 CTTTTGTTTT
133252 ATGCATTGCATTCATTTC
1 ATGCATTGCATTCATTTC
*
133270 ATTGCATTGCTTTCATTTC
1 A-TGCATTGCATTCATTTC
133289 ATGCATT
1 ATGCATT
133296 TTTGCCATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (18 bp):
ATGCATTGCATTCATTTC
Found at i:136607 original size:13 final size:13
Alignment explanation
Indices: 136589--136613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136579 TAGTAACCCA
136589 TGTATCGATACAT
1 TGTATCGATACAT
136602 TGTATCGATACA
1 TGTATCGATACA
136614 AAGAACATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:136674 original size:20 final size:21
Alignment explanation
Indices: 136643--136682 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
136633 ATTTGGGTTT
136643 TTTCAGATGTATCGATACATC
1 TTTCAGATGTATCGATACATC
136664 TTTCA-ATGTATCGATACAT
1 TTTCAGATGTATCGATACAT
136683 TCCGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTCAGATGTATCGATACATC
Found at i:142676 original size:283 final size:283
Alignment explanation
Indices: 142124--142693 Score: 1097
Period size: 283 Copynumber: 2.0 Consensus size: 283
142114 TGCTCGACAC
*
142124 AAGAGTTTATAGACGTTCGGTCCAATCCGGTACCTACGTCCTTTCTCCCCGACACTTCCTCGTCG
1 AAGAGTTTATAGACGTTCGGTCCAATCCGGTACCTACGTCCTCTCTCCCCGACACTTCCTCGTCG
142189 AGTGATTATCCAATTTACTACAAGAATTGATTACCTTTAAGGCAAATGTATAACCTTACAAAATT
66 AGTGATTATCCAATTTACTACAAGAATTGATTACCTTTAAGGCAAATGTATAACCTTACAAAATT
142254 TTATCTTTTGAAGGCTAAGATAATAACCTCTCAATCTCTCCAAGAATTATACCCCAAGTTCCTAA
131 TTATCTTTTGAAGGCTAAGATAATAACCTCTCAATCTCTCCAAGAATTATACCCCAAGTTCCTAA
142319 GAGATTATGACTCAAGGTTGAACATAACCTTATGTACACAAAGAAATTATACAAACAAGAATTGC
196 GAGATTATGACTCAAGGTTGAACATAACCTTATGTACACAAAGAAATTATACAAACAAGAATTGC
*
142384 CTCAAAGTAGGCTGGTGTTTGTT
261 CTAAAAGTAGGCTGGTGTTTGTT
*
142407 AAGAGTTTATAGACGTTCGGTCCAATCCGGTACCTACGTCCTCTCTCCCCGATACTTCCTCGTCG
1 AAGAGTTTATAGACGTTCGGTCCAATCCGGTACCTACGTCCTCTCTCCCCGACACTTCCTCGTCG
142472 AGTGATTATCCAATTTACTACAAGAATTGATTACCTTTAAGGCAAATGTATAACCTTACAAAATT
66 AGTGATTATCCAATTTACTACAAGAATTGATTACCTTTAAGGCAAATGTATAACCTTACAAAATT
142537 TTATCTTTTGAAGGCTAAGATAATAACCTCTCAATCTCTCCAAGAATT-TACCCCAAGTTCCTAA
131 TTATCTTTTGAAGGCTAAGATAATAACCTCTCAATCTCTCCAAGAATTATACCCCAAGTTCCTAA
142601 GAGATTATGACTCAAGGTTGAACATAACCTTATGTACACAAAGAAATTATACAAACAAGAATTTG
196 GAGATTATGACTCAAGGTTGAACATAACCTTATGTACACAAAGAAATTATACAAACAAGAA-TTG
142666 CCTAAAAGTAGGCTGGTGTTTGTT
260 CCTAAAAGTAGGCTGGTGTTTGTT
142690 AAGA
1 AAGA
142694 AGTAAGCTCA
Statistics
Matches: 283, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
282 77 0.27
283 206 0.73
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (283 bp):
AAGAGTTTATAGACGTTCGGTCCAATCCGGTACCTACGTCCTCTCTCCCCGACACTTCCTCGTCG
AGTGATTATCCAATTTACTACAAGAATTGATTACCTTTAAGGCAAATGTATAACCTTACAAAATT
TTATCTTTTGAAGGCTAAGATAATAACCTCTCAATCTCTCCAAGAATTATACCCCAAGTTCCTAA
GAGATTATGACTCAAGGTTGAACATAACCTTATGTACACAAAGAAATTATACAAACAAGAATTGC
CTAAAAGTAGGCTGGTGTTTGTT
Found at i:143078 original size:33 final size:32
Alignment explanation
Indices: 143023--143087 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
143013 TTTGAGTCAA
*
143023 TGTATCGATACAATTCTTCATGTATTGATACAT
1 TGTATCGATACAATTC-TCATGTATCGATACAT
143056 TGTATCGATACAATGTGC-CATGTATCGATACA
1 TGTATCGATACAAT-T-CTCATGTATCGATACA
143088 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATTCTCATGTATCGATACAT
Found at i:145431 original size:16 final size:16
Alignment explanation
Indices: 145410--145443 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
145400 ATTTTAAGTC
145410 GAGCTTGGTCAGGATT
1 GAGCTTGGTCAGGATT
145426 GAGCTTGGTCAGGATT
1 GAGCTTGGTCAGGATT
145442 GA
1 GA
145444 ATCCGGGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.38, T:0.29
Consensus pattern (16 bp):
GAGCTTGGTCAGGATT
Found at i:148926 original size:22 final size:22
Alignment explanation
Indices: 148887--148936 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
148877 GTTTTGGCTT
*
148887 ATTTTTCTTTTTTTTTTCTTTC
1 ATTTTTCTTTTTTTTTTCTCTC
148909 -TTTTTCTTTCTTTTTTTCTCTC
1 ATTTTTCTTT-TTTTTTTCTCTC
148931 ATTTTT
1 ATTTTT
148937 TTCCCTTGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (22 bp):
ATTTTTCTTTTTTTTTTCTCTC
Found at i:149753 original size:205 final size:207
Alignment explanation
Indices: 149401--149805 Score: 706
Period size: 205 Copynumber: 2.0 Consensus size: 207
149391 CTTGGTGTAG
149401 GAAACTCAATATATACTAAAAAAATTCAAAACTCATAAAATAAATTGAATTTCTCAAAACTAATT
1 GAAACTCAATATATACTAAAAAAATTCAAAACTCATAAAATAAATTGAATTTCTCAAAACTAATT
*
149466 TAATGGGAGTTCAATGACAATATCAGATGCATTACAAAAAATTTTAAACTAAAAAAAATCCCCCC
66 TAATGAGAGTTCAATGACAATATCAGATGCATTACAAAAAATTTTAAACTAAAAAAAATCCCCCC
*
149531 GACAATATTTATAGAATAGAAAACTCGGTTTTTCGAAAATAG-G-GACAAGGGAAAAATGTAAAA
131 GACAATATTTATAGAATAGAAAACTCGATTTTTCGAAAATAGTGAGACAAGGGAAAAATGTAAAA
149594 CTTTTTAAAATA
196 CTTTTTAAAATA
* *
149606 GAAACTCAATATATATTAAAAAAATTCAACACTCATAAAATAAATTGAATTTCTCAAAACTAATT
1 GAAACTCAATATATACTAAAAAAATTCAAAACTCATAAAATAAATTGAATTTCTCAAAACTAATT
* *
149671 TAATGAGAGTTCAATGACAATATCAGATGCATTACAAAAAATTTTAAACTGAAGAAAATCCCCCC
66 TAATGAGAGTTCAATGACAATATCAGATGCATTACAAAAAATTTTAAACTAAAAAAAATCCCCCC
*
149736 GACAATATTTATAGAATAGAAAACTCGATTTTTCGAAAATAGTGACATTACAAGGGAAAAATGTA
131 GACAATATTTATAGAATAGAAAACTCGATTTTTCGAAAATAGTG--A-GACAAGGGAAAAATGTA
149801 AAACT
193 AAACT
149806 CATGAAAATG
Statistics
Matches: 188, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
205 166 0.88
206 1 0.01
210 21 0.11
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (207 bp):
GAAACTCAATATATACTAAAAAAATTCAAAACTCATAAAATAAATTGAATTTCTCAAAACTAATT
TAATGAGAGTTCAATGACAATATCAGATGCATTACAAAAAATTTTAAACTAAAAAAAATCCCCCC
GACAATATTTATAGAATAGAAAACTCGATTTTTCGAAAATAGTGAGACAAGGGAAAAATGTAAAA
CTTTTTAAAATA
Found at i:150060 original size:166 final size:166
Alignment explanation
Indices: 149743--150060 Score: 372
Period size: 166 Copynumber: 1.9 Consensus size: 166
149733 CCCGACAATA
* * ** * *
149743 TTTATAGAATAGAAAACTCGATTTTTCGAAAATAGTGACATTACAAGGGAAAAATGTAAAACTCA
1 TTTATAGAATAGAAAACTCGATTTTTCAAAAAAAAAGAAATTACAAGGGAAAAATGAAAAACTCA
* * * * * * * *
149808 TGAAAATGAATGAATTTTTCAAAATTGATTTATTATGAATTAAATGATGATATTTTATGAATAAT
66 TGAAAATAAATGAATTTTTCAAAACTAATTTATAATGAATTAAATAATAATATTTGATAAATAAT
* **
149873 AAAAATTTCAGACTGAGAAAAAACTCTTTAAAAACT
131 AAAAATTTCAAACCAAGAAAAAACTCTTTAAAAACT
* * *
149909 TTTATGGAATAGAAAACTCGATTTTTCAAAAAAAAAAGAAATTTCAAGGG-TAAATGAAAAACTC
1 TTTATAGAATAGAAAACTCGATTTTTC-AAAAAAAAAGAAATTACAAGGGAAAAATGAAAAACTC
*
149973 ATGAAAATAAATGAATTTTTTAAAACTAATTTAATAATG-ATTAAATAATAATATTTGATAAAT-
65 ATGAAAATAAATGAATTTTTCAAAACTAATTT-ATAATGAATTAAATAATAATATTTGATAAATA
* * *
150036 TTTAAAATTTATAAACCAAGAAAAA
129 ATAAAAATTT-CAAACCAAGAAAAA
150061 TCCCCTCCGA
Statistics
Matches: 125, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
165 8 0.06
166 96 0.77
167 21 0.17
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (166 bp):
TTTATAGAATAGAAAACTCGATTTTTCAAAAAAAAAGAAATTACAAGGGAAAAATGAAAAACTCA
TGAAAATAAATGAATTTTTCAAAACTAATTTATAATGAATTAAATAATAATATTTGATAAATAAT
AAAAATTTCAAACCAAGAAAAAACTCTTTAAAAACT
Found at i:158546 original size:2 final size:2
Alignment explanation
Indices: 158539--158565 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
158529 TTGTAAGGGG
158539 GA 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 GA G
158566 GAGCTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:161356 original size:28 final size:27
Alignment explanation
Indices: 161325--161415 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 27
161315 TTAATTATTA
161325 TTTAATAAAAATATAAATTTTAATATAT
1 TTTAATAAAAATATAAATTTTAATA-AT
*
161353 TTTATTATTTAACATAA-ATATATTTTAATAAT
1 TTTA--A--TAA-A-AATATAAATTTTAATAAT
*
161385 TAATTAATATAAATAT-AATTTTAATAAT
1 T--TTAATAAAAATATAAATTTTAATAAT
161413 TTT
1 TTT
161416 TAATTATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
26 2 0.04
28 18 0.35
29 3 0.06
30 3 0.06
32 7 0.14
33 13 0.25
34 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAATAAAAATATAAATTTTAATAAT
Found at i:161358 original size:35 final size:33
Alignment explanation
Indices: 161319--161435 Score: 120
Period size: 35 Copynumber: 3.6 Consensus size: 33
161309 AATATTTTAA
*
161319 TTATTATTTAATAAAAATATAAATTTTAATATATT
1 TTATTATTTAATATAAATAT-AATTTTAATA-ATT
*
161354 TTATTATTTAACATAAATAT-ATTTTAATAA--
1 TTATTATTTAATATAAATATAATTTTAATAATT
161384 TTA--A-TTAATATAAATATAATTTTAATAATTT
1 TTATTATTTAATATAAATATAATTTTAATAA-TT
* *
161415 TTAATTATTTATTATATATAT
1 TT-ATTATTTAATATAAATAT
161436 GCATATTTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
27 12 0.17
28 11 0.16
30 3 0.04
31 2 0.03
32 2 0.03
33 9 0.13
34 1 0.01
35 29 0.42
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
TTATTATTTAATATAAATATAATTTTAATAATT
Found at i:161392 original size:62 final size:62
Alignment explanation
Indices: 161291--161425 Score: 177
Period size: 62 Copynumber: 2.2 Consensus size: 62
161281 AATTTATTAA
** * *
161291 TTTATT-TTTAACATAGGTAATATTTTAATTATTATTTAATAAAAATATAAATTTTAAT-ATAT
1 TTTATTATTTAACATAAATAATATTTTAATAATTAATTAATAAAAATAT-AATTTTAATAAT-T
*
161353 TTTATTATTTAACATAAAT-ATATTTTAATAATTAATTAATATAAATATAATTTTAATAATT
1 TTTATTATTTAACATAAATAATATTTTAATAATTAATTAATAAAAATATAATTTTAATAATT
161414 TTTAATTATTTA
1 TTT-ATTATTTA
161426 TTATATATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
61 13 0.20
62 42 0.65
63 10 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (62 bp):
TTTATTATTTAACATAAATAATATTTTAATAATTAATTAATAAAAATATAATTTTAATAATT
Found at i:161393 original size:21 final size:23
Alignment explanation
Indices: 161344--161395 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
161334 AATATAAATT
* *
161344 TTAATATATTTTATTATTTAACA
1 TTAATATATTTTAATAATTAACA
*
161367 TAAATATATTTTAATAATT-A-A
1 TTAATATATTTTAATAATTAACA
161388 TTAATATA
1 TTAATATA
161396 AATATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATATATTTTAATAATTAACA
Found at i:161418 original size:27 final size:27
Alignment explanation
Indices: 161356--161419 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
161346 AATATATTTT
*
161356 ATTATTTAACATAAATATATTTTAATA
1 ATTATTTAATATAAATATATTTTAATA
*
161383 ATTAATTAATATAAATATAATTTTAATA
1 ATTATTTAATATAAATAT-ATTTTAATA
161411 ATT-TTTAAT
1 ATTATTTAAT
161420 TATTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTATTTAATATAAATATATTTTAATA
Found at i:163156 original size:5 final size:5
Alignment explanation
Indices: 163146--163171 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
163136 TTTTAATAAA
163146 AGGGG AGGGG AGGGG AGGGG AGGGG A
1 AGGGG AGGGG AGGGG AGGGG AGGGG A
163172 CTCTTGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00
Consensus pattern (5 bp):
AGGGG
Found at i:166419 original size:13 final size:13
Alignment explanation
Indices: 166401--166429 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
166391 TACAATAGAA
166401 AATCGCCATTAAC
1 AATCGCCATTAAC
166414 AATCGCCATTAAC
1 AATCGCCATTAAC
166427 AAT
1 AAT
166430 TGCGGTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (13 bp):
AATCGCCATTAAC
Found at i:170433 original size:16 final size:16
Alignment explanation
Indices: 170412--170442 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
170402 TTGTAGTCCA
*
170412 TTTCTCCTCCTCTTTC
1 TTTCTCCCCCTCTTTC
170428 TTTCTCCCCCTCTTT
1 TTTCTCCCCCTCTTT
170443 TGTCTCCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTCTCCCCCTCTTTC
Found at i:171435 original size:34 final size:33
Alignment explanation
Indices: 171392--171616 Score: 279
Period size: 34 Copynumber: 6.7 Consensus size: 33
171382 AGATTGGTAA
* *
171392 AAATCACCATTTAATCAACAATGGCAACCTACC
1 AAATCACCATTTAATCAACAATGGTAAACTACC
* * *
171425 AAATCTACCATTTAGTCAACAATGGTAAGCCACC
1 AAATC-ACCATTTAATCAACAATGGTAAACTACC
* *
171459 AAATCACCCATTTAATCAATAATGGTAAGCTACC
1 AAATCA-CCATTTAATCAACAATGGTAAACTACC
** *
171493 AAATTTCTCATTTAATCAACAATGGTAAGCTACC
1 AAATCAC-CATTTAATCAACAATGGTAAACTACC
* * **
171527 AAATCTCCCATTTAGTCAACAATGACAAACTACC
1 AAATC-ACCATTTAATCAACAATGGTAAACTACC
171561 AAATCACCCATTTAATCAACAATGGTAAACTACC
1 AAATCA-CCATTTAATCAACAATGGTAAACTACC
171595 AAATCACCATTTAATCAACAAT
1 AAATCACCATTTAATCAACAAT
171617 TCTCCCACTT
Statistics
Matches: 167, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
33 23 0.14
34 143 0.86
35 1 0.01
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (33 bp):
AAATCACCATTTAATCAACAATGGTAAACTACC
Found at i:171540 original size:102 final size:101
Alignment explanation
Indices: 171392--171616 Score: 342
Period size: 102 Copynumber: 2.2 Consensus size: 101
171382 AGATTGGTAA
** *
171392 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCA
1 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCA
* *
171457 CCAAATCACCCATTTAATCAATAATGGTAAGCTACC
66 CCAAATCACCCATTTAATCAACAATGGTAAACTACC
** * * * *
171493 AAATTTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGACAAACT
1 AAATCAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGACAAACC
171558 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
65 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
171595 AAATCACCATTTAATCAACAAT
1 AAATCACCATTTAATCAACAAT
171617 TCTCCCACTT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 20 0.18
102 90 0.82
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (101 bp):
AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGACAAACCA
CCAAATCACCCATTTAATCAACAATGGTAAACTACC
Found at i:176071 original size:34 final size:33
Alignment explanation
Indices: 176023--176243 Score: 266
Period size: 34 Copynumber: 6.5 Consensus size: 33
176013 TGGTAAAAAC
*
176023 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
176056 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
176090 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
176124 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
176158 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
176192 CACTCATTTAATCAACAATGGTAAACTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
176226 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
176244 CAGTAACCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.14
34 133 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:176139 original size:68 final size:68
Alignment explanation
Indices: 176025--176243 Score: 307
Period size: 68 Copynumber: 3.2 Consensus size: 68
176015 GTAAAAACCA
* * *
176025 CCATTTAATCAACAATGGCAACCTACCAAATCTAC-CATTTAGTCAACAATGGTAAGCCACCAAA
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACTCATTTAATCAACAATGGTAAGCTACCAAA
176089 TCAC
65 TCAC
* * * *
176093 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAAAT
*
176158 CTC
66 CAC
* * * *
176161 CCATTTAGTCAACAATGGCAAACCACCAAATCACTCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAAAT
176226 CA-
66 CAC
176228 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
176244 CAGTAACCAA
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
67 17 0.13
68 116 0.87
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (68 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACTCATTTAATCAACAATGGTAAGCTACCAAAT
CAC
Found at i:176167 original size:102 final size:101
Alignment explanation
Indices: 176023--176243 Score: 343
Period size: 102 Copynumber: 2.2 Consensus size: 101
176013 TGGTAAAAAC
* *
176023 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
176088 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * *
176124 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
*
176189 AATCACTCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
176226 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
176244 CAGTAACCAA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 16 0.15
102 91 0.85
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:178524 original size:2 final size:2
Alignment explanation
Indices: 178519--178546 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
178509 AATCAAACTT
178519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
178547 AAATACTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:179793 original size:18 final size:18
Alignment explanation
Indices: 179772--179807 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
179762 CATATTATAT
179772 CTATAATAATTATTTTTA
1 CTATAATAATTATTTTTA
* *
179790 CTATTATTATTATTTTTA
1 CTATAATAATTATTTTTA
179808 ATCTCACCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
CTATAATAATTATTTTTA
Found at i:182389 original size:19 final size:17
Alignment explanation
Indices: 182349--182399 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
182339 AAATTATAAA
* *
182349 ATTATTTTTAATATTTT
1 ATTATTTTTAAAATTTG
182366 ATTATTTTTAAAATATTG
1 ATTATTTTTAAAAT-TTG
*
182384 ATTTATATTTAAAATT
1 A-TTATTTTTAAAATT
182400 AAAATTGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 13 0.45
18 4 0.14
19 12 0.41
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTATTTTTAAAATTTG
Found at i:184382 original size:16 final size:16
Alignment explanation
Indices: 184361--184394 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
184351 TTCTAACTAG
184361 TTATT-ATACATATTTA
1 TTATTAATA-ATATTTA
184377 TTATTAATAATATTTA
1 TTATTAATAATATTTA
184393 TT
1 TT
184395 TAATTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTAATAATATTTA
Done.