Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 77 of 344
Found at i:25212828 original size:41 final size:40
Alignment explanation
Indices: 25212711--25212847 Score: 220
Period size: 40 Copynumber: 3.4 Consensus size: 40
25212701 CGTTTTTTAC
25212711 TAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGG
* * *
25212751 TAAAACGCCGCTAAAAATAGAGCAATAGTGGTGCTTTTGG
1 TAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGG
* *
25212791 TAAAACGCTGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGG
25212832 TAAAACGCCGCTAAAA
1 TAAAACGCCGCTAAAA
25212848 GTCATATAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 53 0.61
41 34 0.39
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (40 bp):
TAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGG
Found at i:25213903 original size:15 final size:15
Alignment explanation
Indices: 25213883--25213914 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25213873 TTTAATTTAG
*
25213883 AAGATAAATGTATAT
1 AAGATAAATATATAT
25213898 AAGATAAATATATAT
1 AAGATAAATATATAT
25213913 AA
1 AA
25213915 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:25216333 original size:41 final size:41
Alignment explanation
Indices: 25216280--25216379 Score: 191
Period size: 41 Copynumber: 2.4 Consensus size: 41
25216270 ATAAGTCAAA
25216280 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
1 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
25216321 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
1 TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
*
25216362 TTATCCATCTTCATCTAC
1 TTGTCCATCTTCATCTAC
25216380 GTTAGCCGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (41 bp):
TTGTCCATCTTCATCTACAAGGGAAAAATAAGTCAAAAATC
Found at i:25218759 original size:18 final size:18
Alignment explanation
Indices: 25218736--25218778 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
25218726 TGAGCTGAGG
*
25218736 ACACGGGCGTGTGTGACC
1 ACACGGCCGTGTGTGACC
25218754 ACACGGCCGTGTGTGACC
1 ACACGGCCGTGTGTGACC
25218772 ACACGGC
1 ACACGGC
25218779 TTACGCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.14
Consensus pattern (18 bp):
ACACGGCCGTGTGTGACC
Found at i:25230950 original size:14 final size:12
Alignment explanation
Indices: 25230928--25230962 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
25230918 GTTTTAAAAT
25230928 AAAATAAAATTAA
1 AAAATAAAA-TAA
25230941 AAACATAAAATAA
1 AAA-ATAAAATAA
25230954 AAAATAAAA
1 AAAATAAAA
25230963 AATTTTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:25230962 original size:19 final size:19
Alignment explanation
Indices: 25230926--25230963 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
25230916 TAGTTTTAAA
*
25230926 ATAAAATAAAATTAAAAAC
1 ATAAAATAAAAATAAAAAC
25230945 ATAAAATAAAAAATAAAAA
1 ATAAAAT-AAAAATAAAAA
25230964 ATTTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
ATAAAATAAAAATAAAAAC
Found at i:25233099 original size:55 final size:55
Alignment explanation
Indices: 25232964--25233107 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 55
25232954 GTATGAAGGT
* * ** * *
25232964 CCACACCGGTGTTGTTTTGGCAGGTTTGCCCACGGTTTCTTGGCATGGGCGTGTC
1 CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCAAGGCACGAGCGTGTC
* ** ** * *
25233019 CCACGCCCGTGTTAATTTGATAGGTTCGGCCATGGTTTCAAGGCACGAGCGTGTC
1 CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCAAGGCACGAGCGTGTC
** *
25233074 GGACACCCGTGTTGTTTTGGCAGGTTCACCCACG
1 CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACG
25233108 ACCATGTAGC
Statistics
Matches: 66, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (55 bp):
CCACACCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCAAGGCACGAGCGTGTC
Found at i:25246122 original size:43 final size:43
Alignment explanation
Indices: 25246039--25246246 Score: 238
Period size: 43 Copynumber: 4.9 Consensus size: 43
25246029 TCTGATTTCA
* * * * *
25246039 TTCACTAGCATT-TCGCCTACTAGGTTCGAAGCCTGATATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
* *
25246081 TTCACTAGCATTATAGCCTGCTAGGCTCTAGGCCCAATATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
* *
25246124 TTCACTGGCATTATAGCCTGCTAGGCTCGAGGGCCGATATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
* * * * *
25246167 TTCACCAGTATTATAGCCTGCTAGGCTTGAGGCTCGGTATTAT
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
** * * *
25246210 TTCACCGGCATTATAGCCTGCTGGGGTCGAAGCCCGA
1 TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGA
25246247 ATTCATCATA
Statistics
Matches: 139, Mismatches: 26, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
42 12 0.09
43 127 0.91
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (43 bp):
TTCACTAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
Found at i:25248514 original size:42 final size:42
Alignment explanation
Indices: 25248450--25248567 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
25248440 ACATGGCTAG
* *
25248450 GGATATGGGCATGTGCCCAGGCCATGTAAGCT-ACACGGGTAA
1 GGATATGGGCATGTGTCTAGGCCATGT-AGCTCACACGGGTAA
* * * * *
25248492 GGATATGGGCGTGTGTCTAGGCCGTGTGGGTCACACGGGTAG
1 GGATATGGGCATGTGTCTAGGCCATGTAGCTCACACGGGTAA
* * * *
25248534 GGATATGAGCATGTTTCTAGGCCATATAACTCAC
1 GGATATGGGCATGTGTCTAGGCCATGTAGCTCAC
25248568 TGTTTATGAT
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (42 bp):
GGATATGGGCATGTGTCTAGGCCATGTAGCTCACACGGGTAA
Found at i:25249600 original size:15 final size:15
Alignment explanation
Indices: 25249576--25249607 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25249566 CTTTGTTATA
25249576 TTCTACTCTACTCTG
1 TTCTACTCTACTCTG
*
25249591 TTCTATTCTACTCTG
1 TTCTACTCTACTCTG
25249606 TT
1 TT
25249608 TGAATTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.28, G:0.06, T:0.53
Consensus pattern (15 bp):
TTCTACTCTACTCTG
Found at i:25250287 original size:19 final size:18
Alignment explanation
Indices: 25250265--25250306 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
25250255 AAGTATTTAT
25250265 AGTAAAAAT-AATAATCAAA
1 AGTAAAAATGAATAA-C-AA
*
25250284 AGTAATAATGAATAACAA
1 AGTAAAAATGAATAACAA
25250302 AGTAA
1 AGTAA
25250307 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (18 bp):
AGTAAAAATGAATAACAA
Found at i:25250981 original size:24 final size:24
Alignment explanation
Indices: 25250954--25251012 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
25250944 GGTTACAAAG
*
25250954 AGATGAAATGTG-AAGAGTTAAGGA
1 AGATGAAAGGTGAAAG-GTTAAGGA
25250978 AGATGAAAGGTGAAAGGTTAAGGA
1 AGATGAAAGGTGAAAGGTTAAGGA
25251002 AGATGAAAGGT
1 AGATGAAAGGT
25251013 TGAACATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.19
Consensus pattern (24 bp):
AGATGAAAGGTGAAAGGTTAAGGA
Found at i:25253452 original size:49 final size:49
Alignment explanation
Indices: 25253375--25253500 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
25253365 AGATGTTGAC
* * *
25253375 GCCATGTCCCAGATATGGTCTTATACTGGCTTTTATAC-AGCGAG-GCCGAT
1 GCCATGTCCCAGATA-GGTCTTACACTGGCTCTCAT-CTAGCG-GTGCCGAT
* * *
25253425 GCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTAGCGGTGCCGAT
*
25253474 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGATAGGTCTTACACTG
25253501 ACACACCACA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.03
49 50 0.76
50 14 0.21
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTAGCGGTGCCGAT
Found at i:25253591 original size:48 final size:48
Alignment explanation
Indices: 25253520--25253639 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
25253510 AAGCTGACGC
* **
25253520 CATGTCAC-AGACAGGTCTTACACTAGCTTGTATATCGT-GAGGCCAATG
1 CATGTC-CTAGACATGTCTTACACTAGCTTAAATATC-TCGAGGCCAATG
**
25253568 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATG
*
25253616 TATGTCCCTA-ACATGTCTTACACT
1 CATGT-CCTAGACATGTCTTACACT
25253640 GGCTCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.03
48 57 0.90
49 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATG
Found at i:25266367 original size:24 final size:24
Alignment explanation
Indices: 25266340--25266389 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
25266330 ACTAGCCCAT
25266340 CAAATAATCATTGCATATAATACA
1 CAAATAATCATTGCATATAATACA
*
25266364 CAAATAATCATTGCATCTAATACA
1 CAAATAATCATTGCATATAATACA
25266388 CA
1 CA
25266390 TTTACAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (24 bp):
CAAATAATCATTGCATATAATACA
Found at i:25267032 original size:19 final size:19
Alignment explanation
Indices: 25266983--25267032 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
25266973 TAAAAAATTC
*
25266983 AAATAT-TAAAAATTAGAA
1 AAATATATAAAAATCAGAA
* *
25267001 AAATCATA-GAAAATCATAA
1 AAAT-ATATAAAAATCAGAA
25267020 AAATATATAAAAA
1 AAATATATAAAAA
25267033 AATTGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATATATAAAAATCAGAA
Found at i:25267042 original size:29 final size:28
Alignment explanation
Indices: 25267010--25267102 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
25267000 AAAATCATAG
*
25267010 AAAATCATAAAAATATATAAAAAAATTGT
1 AAAAT-ATAAAAATATATAAAAAAATTAT
**
25267039 AAAATTTTATAAAAAT-CGTAAAAAAATTAT
1 AAAA---TATAAAAATATATAAAAAAATTAT
* *
25267069 ACAATATATAGAAATATA-AAAAAAATTCT
1 A-AA-ATATAAAAATATATAAAAAAATTAT
25267098 AAAAT
1 AAAAT
25267103 TTTATAAAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.04
28 2 0.04
29 23 0.45
30 12 0.24
31 10 0.20
32 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAATATAAAAATATATAAAAAAATTAT
Found at i:25267068 original size:20 final size:20
Alignment explanation
Indices: 25266999--25267069 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
25266989 TAAAAATTAG
* *
25266999 AAAAATCATAGAAAATCATAA
1 AAAAATTATA-AAAATCGTAA
* * *
25267020 AAATATATAAAAAAATTGT-A
1 AAAAAT-TATAAAAATCGTAA
**
25267040 AAATTTTATAAAAATCGTAA
1 AAAAATTATAAAAATCGTAA
25267060 AAAAATTATA
1 AAAAATTATA
25267070 CAATATATAG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 10 0.26
20 15 0.39
21 11 0.29
22 2 0.05
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAAATTATAAAAATCGTAA
Found at i:25267125 original size:58 final size:60
Alignment explanation
Indices: 25267020--25267148 Score: 172
Period size: 60 Copynumber: 2.1 Consensus size: 60
25267010 AAAATCATAA
* *
25267020 AAATATATAAAAAAATTGTAAAATTTTATAAAAATCGTAAAAAAATTATAC-AATATATAG
1 AAATATA-AAAAAAATTCTAAAATTTTATAAAAATCGTAAAAAAATTATACAAATATAAAG
* * * *
25267080 AAATATAAAAAAAATTCTAAAATTTTAT-AAAGTTGTAAGAAAATTATACAAAATGTAAAG
1 AAATATAAAAAAAATTCTAAAATTTTATAAAAATCGTAAAAAAATTATAC-AAATATAAAG
25267140 AAATATAAA
1 AAATATAAA
25267149 TTTCTTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 18 0.30
59 20 0.33
60 23 0.38
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (60 bp):
AAATATAAAAAAAATTCTAAAATTTTATAAAAATCGTAAAAAAATTATACAAATATAAAG
Found at i:25267203 original size:36 final size:36
Alignment explanation
Indices: 25267155--25267237 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
25267145 TAAATTTCTT
*
25267155 AAAACAAAAACTAGGCAAG-ACGTAATGACTTTAATTG
1 AAAA-AAAAACTAGGC-AGCACATAATGACTTTAATTG
* *
25267192 AAAAAAAAACTAGGCGGCACATGATGACTTTAATTG
1 AAAAAAAAACTAGGCAGCACATAATGACTTTAATTG
25267228 AAAAAAAAAC
1 AAAAAAAAAC
25267238 AAGGGGTGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 37 0.88
37 4 0.10
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (36 bp):
AAAAAAAAACTAGGCAGCACATAATGACTTTAATTG
Found at i:25267267 original size:9 final size:9
Alignment explanation
Indices: 25267253--25267353 Score: 53
Period size: 9 Copynumber: 10.8 Consensus size: 9
25267243 GTGGTTAATT
25267253 TTTTTATAA
1 TTTTTATAA
25267262 TTTTTATAAA
1 TTTTTAT-AA
* *
25267272 GTTTTACAA
1 TTTTTATAA
* *
25267281 TTTTTTTTAT
1 -TTTTTATAA
*
25267291 TTTTTACAA
1 TTTTTATAA
25267300 TTTTTATAAAA
1 TTTTTAT--AA
* *
25267311 ATTTTCTAA
1 TTTTTATAA
25267320 TTTTTAATAA
1 TTTTT-ATAA
**
25267330 AATTTA-AA
1 TTTTTATAA
25267338 TTTTCTAT-A
1 TTTT-TATAA
25267347 TTTTTAT
1 TTTTTAT
25267354 TAAAATTTAA
Statistics
Matches: 67, Mismatches: 18, Indels: 15
0.67 0.18 0.15
Matches are distributed among these distances:
8 7 0.10
9 35 0.52
10 18 0.27
11 7 0.10
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25267282 original size:19 final size:19
Alignment explanation
Indices: 25267254--25267309 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
25267244 TGGTTAATTT
*
25267254 TTTTATAATTTTTATAAAG
1 TTTTACAATTTTTATAAAG
* * **
25267273 TTTTACAATTTTTTTTATT
1 TTTTACAATTTTTATAAAG
25267292 TTTTACAATTTTTATAAA
1 TTTTACAATTTTTATAAA
25267310 AATTTTCTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTACAATTTTTATAAAG
Found at i:25267344 original size:26 final size:27
Alignment explanation
Indices: 25267309--25267363 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
25267299 ATTTTTATAA
25267309 AAATTTTCTA-ATTTTTAATAAAATTT
1 AAATTTTCTATATTTTTAATAAAATTT
*
25267335 AAATTTTCTATATTTTTATTAAAATTT
1 AAATTTTCTATATTTTTAATAAAATTT
25267362 AA
1 AA
25267364 TAAATTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATTTTCTATATTTTTAATAAAATTT
Found at i:25267513 original size:89 final size:89
Alignment explanation
Indices: 25267418--25267639 Score: 272
Period size: 90 Copynumber: 2.5 Consensus size: 89
25267408 TTTTAATAAG
* * * *
25267418 AGTAGGGACTTAATTGTTTTTTTTTGAAAAATTTTG-A-GTCTTTTTGATACATTTTGAAAGTTC
1 AGTAGGGACTTAATTGCTTTTTTCT-AAAAAGTTTGAAGGGCTTTTTGATACATTTTGAAAGTTC
25267481 AACTACCCAATTGAGTGAAAAAAAA
65 AACTACCCAATTGAGTGAAAAAAAA
* *
25267506 TAGTAGGGACTTAATTGCTTTTTTCTAAGAAGTTTGAAGGGCTTTTTGATGCATTTTGAAAGTTC
1 -AGTAGGGACTTAATTGCTTTTTTCTAAAAAGTTTGAAGGGCTTTTTGATACATTTTGAAAGTTC
* *
25267571 AAGTACTCAATTGAGTGAAAAAAAA
65 AACTACCCAATTGAGTGAAAAAAAA
* * *** *
25267596 AG-AGAGACTTAATTACTTTTTAAAAAAAAGTTTG-AGGACTTTTT
1 AGTAGGGACTTAATTGCTTTTTTCTAAAAAGTTTGAAGGGCTTTTT
25267640 ACATCCTTAA
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
87 9 0.08
88 34 0.29
89 26 0.22
90 47 0.41
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (89 bp):
AGTAGGGACTTAATTGCTTTTTTCTAAAAAGTTTGAAGGGCTTTTTGATACATTTTGAAAGTTCA
ACTACCCAATTGAGTGAAAAAAAA
Found at i:25281174 original size:21 final size:20
Alignment explanation
Indices: 25281146--25281187 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
25281136 AGATCTTTAG
25281146 TCTTGAT-GATAAATTCGGCT
1 TCTTGATGGATAAA-TCGGCT
*
25281166 TCTTAGATGGATCAATCGGCT
1 TCTT-GATGGATAAATCGGCT
25281187 T
1 T
25281188 TCAATGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (20 bp):
TCTTGATGGATAAATCGGCT
Found at i:25285724 original size:29 final size:28
Alignment explanation
Indices: 25285689--25285766 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25285679 TCATGAGATT
25285689 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25285719 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25285746 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25285767 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25286036 original size:173 final size:174
Alignment explanation
Indices: 25285719--25286045 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
25285709 AAATTGTACA
* *
25285719 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
25285784 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25285849 CTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 CTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
25285893 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
25285958 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
25286022 TTTTGGACAGCGGAAAAGGTAAGT
131 CTTTGGACAGCGGAAAAGGTAAGT
25286046 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 79 0.55
174 64 0.45
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
CTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25305361 original size:29 final size:28
Alignment explanation
Indices: 25305326--25305403 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25305316 TCATGAGATT
25305326 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25305356 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25305383 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25305404 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25313462 original size:29 final size:28
Alignment explanation
Indices: 25313427--25313504 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25313417 TCATGAGATT
25313427 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25313457 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25313484 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
25313505 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25313680 original size:29 final size:29
Alignment explanation
Indices: 25313606--25313680 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
25313596 GCGGAAAAGG
**
25313606 TAAGTGTGCGAACTTGAAA-TGCATGGCAC
1 TAAGTGTGCGAGGTT-AAAGTGCATGGCAC
* *
25313635 TAAGTGTGTGAGTTTAAAGTGCATGGCAC
1 TAAGTGTGCGAGGTTAAAGTGCATGGCAC
*
25313664 TAAGTGTGCGTGGTTAA
1 TAAGTGTGCGAGGTTAA
25313681 TTACTAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (29 bp):
TAAGTGTGCGAGGTTAAAGTGCATGGCAC
Found at i:25313765 original size:173 final size:174
Alignment explanation
Indices: 25313457--25313783 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
25313447 AAATTGTACA
* * *
25313457 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTAATTACTAAACACTATG
* * *
25313522 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25313587 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
25313631 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTAATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTAATTACTAAACACTATG
25313696 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25313760 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
25313784 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 63 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTAATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25316574 original size:55 final size:55
Alignment explanation
Indices: 25316508--25316618 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 55
25316498 AAGGTCTTGA
*
25316508 GTGATAGTGTGATCAAAGCTTTTGATGTCACTAGATTCC-CAATGCTAGCTTGGCG
1 GTGATAGTGTGATCAAAGCTTTTGATGTCACCAGA-TCCTCAATGCTAGCTTGGCG
* *
25316563 GTGATAGTGTGATCGAAGCTTTTGATGTCACCAGATCCTCGATGCTAGCTTGGCG
1 GTGATAGTGTGATCAAAGCTTTTGATGTCACCAGATCCTCAATGCTAGCTTGGCG
25316618 G
1 G
25316619 CACTATAAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 3 0.06
55 49 0.94
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (55 bp):
GTGATAGTGTGATCAAAGCTTTTGATGTCACCAGATCCTCAATGCTAGCTTGGCG
Found at i:25320839 original size:21 final size:21
Alignment explanation
Indices: 25320815--25320876 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
25320805 ATACCGGACT
25320815 TAATCTCAATCTCTGACAGGC
1 TAATCTCAATCTCTGACAGGC
* *
25320836 TAATCAC-A--TGTGA-A-G-
1 TAATCTCAATCTCTGACAGGC
*
25320851 AAATCTCAATCTCTGACAGGC
1 TAATCTCAATCTCTGACAGGC
25320872 TAATC
1 TAATC
25320877 ACATGTGAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 12
0.62 0.13 0.26
Matches are distributed among these distances:
15 5 0.17
16 2 0.07
17 1 0.03
18 8 0.28
19 1 0.03
20 2 0.07
21 10 0.34
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (21 bp):
TAATCTCAATCTCTGACAGGC
Found at i:25320863 original size:36 final size:36
Alignment explanation
Indices: 25320816--25320886 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
25320806 TACCGGACTT
25320816 AATCTCAATCTCTGACAGGCTAATCACATGTGAAGA
1 AATCTCAATCTCTGACAGGCTAATCACATGTGAAGA
25320852 AATCTCAATCTCTGACAGGCTAATCACATGTGAAG
1 AATCTCAATCTCTGACAGGCTAATCACATGTGAAG
25320887 GATCAGATCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (36 bp):
AATCTCAATCTCTGACAGGCTAATCACATGTGAAGA
Found at i:25327067 original size:30 final size:30
Alignment explanation
Indices: 25327033--25327093 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25327023 TCCTTAACTC
25327033 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
25327063 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
25327093 A
1 A
25327094 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:25335766 original size:40 final size:43
Alignment explanation
Indices: 25335722--25335825 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 43
25335712 GTTATAAATA
* *
25335722 GCACTAAGTGTGTGAAATGGA-ATAGCTTCAGCTATAT-GA-G
1 GCACTAAGTGTGTGAAATCGAGATAACTTCAGCTATATAGATG
* * * *
25335762 GCACTAAGTGTGCGATATCGAGATAACTTCAGTTATTTGAGATG
1 GCACTAAGTGTGTGAAATCGAGATAACTTCAGCTATAT-AGATG
*
25335806 GCACTAAGTGTGTGGAATCG
1 GCACTAAGTGTGTGAAATCG
25335826 TTCTAGCTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 18 0.35
41 13 0.25
43 2 0.04
44 18 0.35
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (43 bp):
GCACTAAGTGTGTGAAATCGAGATAACTTCAGCTATATAGATG
Found at i:25360943 original size:93 final size:93
Alignment explanation
Indices: 25360830--25361001 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
25360820 CGTCCATAAG
* * *
25360830 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTTAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25360895 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
25360923 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25360988 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
25361002 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:25360998 original size:46 final size:46
Alignment explanation
Indices: 25360822--25360998 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
25360812 ATGTAACCCG
* * *
25360822 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
* * *
25360868 TCCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGATGCCTAGTT-ACA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA
*
25360918 T-C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
*
25360961 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
25360999 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
Found at i:25368427 original size:46 final size:46
Alignment explanation
Indices: 25368357--25368534 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 46
25368347 TGTAACCCGC
*
25368357 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * *
25368403 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGATGCTTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCG---CAT
* **
25368453 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
25368496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
25368535 CTCAACCATC
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 65 0.59
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:25368477 original size:93 final size:93
Alignment explanation
Indices: 25368364--25368536 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
25368354 CGCCCATAAG
** *
25368364 CGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACTTAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
25368428 AACGAGTTCGGATGCTTAGTTACATCTCA
65 AACGAGTTCGGATGCTTAGTTACATCTCA
*
25368457 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25368522 ACGAGTTCGGATGCT
66 ACGAGTTCGGATGCT
25368537 CAACCATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCTTAGTTACATCTCA
Found at i:25374781 original size:49 final size:49
Alignment explanation
Indices: 25374725--25374913 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 49
25374715 TAGCTAAAGC
* **
25374725 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATTTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
25374774 TATCTGGTACACATAGTAACCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * ** *
25374824 GATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
25374875 TATCAGGTACGCATAGTAGCCTACACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
25374914 TGCGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 42 0.36
50 43 0.36
51 33 0.28
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:25374921 original size:101 final size:99
Alignment explanation
Indices: 25374738--25374921 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
25374728 CTGGTACGCA
** * *
25374738 TAGTAGCCTGCACTTAGTACTACACATTTGACCAATTATCTGGTACACATAGTAACCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAACCTACACTTA
*
25374803 GTACTACACACGTGACCTAACGATCTGATACATG
66 GTACTACACACGCGACCTAACGATCTGATACATG
* * *
25374837 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAACCTACACT
*
25374902 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
25374922 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.39
100 3 0.04
101 42 0.57
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAACCTACACTTA
GTACTACACACGCGACCTAACGATCTGATACATG
Found at i:25383754 original size:16 final size:16
Alignment explanation
Indices: 25383733--25383763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25383723 TAAAAAAAAA
*
25383733 ACATGAATATAAATAG
1 ACATGAAAATAAATAG
25383749 ACATGAAAATAAATA
1 ACATGAAAATAAATA
25383764 AAGATAAAAT
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:0.61, C:0.06, G:0.10, T:0.23
Consensus pattern (16 bp):
ACATGAAAATAAATAG
Found at i:25390914 original size:40 final size:40
Alignment explanation
Indices: 25390866--25391132 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
25390856 ACAAACACAT
*
25390866 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25390906 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
25390946 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25390986 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25391026 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25391066 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25391106 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
25391133 ATCCAATGTT
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25399456 original size:40 final size:40
Alignment explanation
Indices: 25399408--25399674 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
25399398 ACAAACACAT
*
25399408 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25399448 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
25399488 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25399528 TTGCCTTCGGGTCTTAGCCCGGATACATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25399568 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25399608 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25399648 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
25399675 ATCCAATGTT
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25403101 original size:2 final size:2
Alignment explanation
Indices: 25403096--25403131 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25403086 TTTAAACATT
25403096 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25403132 ATCTTCGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25404686 original size:49 final size:50
Alignment explanation
Indices: 25404633--25404921 Score: 242
Period size: 50 Copynumber: 5.7 Consensus size: 50
25404623 AACCGAAGCT
* *
25404633 ATTTGGTACACATATTAGCCTGCACTTAGTACTACACATGTGACC-AACA
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
** *
25404682 ATTTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * * * *
25404732 ATTTGATACACGTAGTAGCCTGCACTCAGTACTACACACGTGA-TTGAA-G
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACA
* * * * * * * *
25404781 TTGTCTGGTACGCATAGTAGCCTGCACTCAATGCTACACATGCGACCTAACT
1 AT-T-TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * * * * *
25404833 ATCTAGTACACATAGTATCCTGCACTTTGTACTACACACATGACCTAAAACC
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACA
*** ** *
25404885 ATTTTAAACACATAGTATTCTGCACATAGTACTACAC
1 ATTTGGTACACATAGTAGCCTGCACTTAGTACTACAC
25404922 TTGTGTTCTT
Statistics
Matches: 192, Mismatches: 40, Indels: 13
0.78 0.16 0.05
Matches are distributed among these distances:
49 43 0.22
50 79 0.41
51 35 0.18
52 35 0.18
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (50 bp):
ATTTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
Found at i:25404877 original size:151 final size:151
Alignment explanation
Indices: 25404636--25404921 Score: 360
Period size: 151 Copynumber: 1.9 Consensus size: 151
25404626 CGAAGCTATT
* * * * * * **
25404636 TGGTACACATATTAGCCTGCACTTAGTACTACACATGTGACCAACAATTTGGTACATGTAGTAGC
1 TGGTACACATAGTAGCCTGCACTCAATACTACACATGCGACCAACAATCTAGTACACATAGTAGC
* * *
25404701 CTGCACTTAGTACTACACACGTGACCT-AACCATTTGATACACGTAGTAGCCTGCAC-TCAGTAC
66 CTGCACTTAGTACTACACACATGACCTAAACCATTTGAAACACATAGTAGCCTGCACAT-AGTAC
25404764 TACACACGTGATTGAAGTTGTC
130 TACACACGTGATTGAAGTTGTC
* * * *
25404786 TGGTACGCATAGTAGCCTGCACTCAATGCTACACATGCGACCTAACTATCTAGTACACATAGTAT
1 TGGTACACATAGTAGCCTGCACTCAATACTACACATGCGACC-AACAATCTAGTACACATAGTAG
* * **
25404851 CCTGCACTTTGTACTACACACATGACCTAAAACCATTTTAAACACATAGTATTCTGCACATAGTA
65 CCTGCACTTAGTACTACACACATGACCT-AAACCATTTGAAACACATAGTAGCCTGCACATAGTA
25404916 CTACAC
129 CTACAC
25404922 TTGTGTTCTT
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
150 36 0.32
151 42 0.37
153 34 0.30
154 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (151 bp):
TGGTACACATAGTAGCCTGCACTCAATACTACACATGCGACCAACAATCTAGTACACATAGTAGC
CTGCACTTAGTACTACACACATGACCTAAACCATTTGAAACACATAGTAGCCTGCACATAGTACT
ACACACGTGATTGAAGTTGTC
Found at i:25414737 original size:57 final size:57
Alignment explanation
Indices: 25414629--25414739 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
25414619 TTTACTCAAT
* * * *
25414629 AGAGCTTAGTCAGGATTACCAGTCCAGACTAAATTCTTTATGTAACGTATGCTCAGA
1 AGAGCTTAATCAGGATTACCAGTCCAGACTAAATCCTATATGTAACATATGCTCAGA
* * * *
25414686 AGAGCTTAATTAGGATTACCAGTCTAGGCTAAATCCTA-ATTGTATCATATGCTC
1 AGAGCTTAATCAGGATTACCAGTCCAGACTAAATCCTATA-TGTAACATATGCTC
25414740 GAGAGGAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
56 1 0.02
57 44 0.98
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (57 bp):
AGAGCTTAATCAGGATTACCAGTCCAGACTAAATCCTATATGTAACATATGCTCAGA
Found at i:25415175 original size:20 final size:20
Alignment explanation
Indices: 25415150--25415196 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25415140 TCTATCCCCT
*
25415150 AATTTGGTCTATCTAG-ATCC
1 AATTTGGTCGAT-TAGAATCC
*
25415170 AATTTGGTCGATTCGAATCC
1 AATTTGGTCGATTAGAATCC
25415190 AATTTGG
1 AATTTGG
25415197 CCAAGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (20 bp):
AATTTGGTCGATTAGAATCC
Found at i:25417026 original size:21 final size:21
Alignment explanation
Indices: 25417000--25417040 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
25416990 CAACTTAACC
25417000 ATATTTTTACCTATTTTGATA
1 ATATTTTTACCTATTTTGATA
25417021 ATATTTTTACCTATTTTGAT
1 ATATTTTTACCTATTTTGAT
25417041 CCCTATAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (21 bp):
ATATTTTTACCTATTTTGATA
Found at i:25423391 original size:48 final size:48
Alignment explanation
Indices: 25423320--25423463 Score: 180
Period size: 48 Copynumber: 3.0 Consensus size: 48
25423310 TGGTATGATA
* * * *
25423320 CCAATGCCATATCTCGGATATGGTCTTACATGGGATCACATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
* ** ** *
25423368 CCAATGCCATGTCCTAGACATGGTCTTACATGGGATCGTAGGTTGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
* *
25423416 CCAATGCCATGTCCCAGATATGGTCTTACATAGGATCACATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
25423464 TCGATAGCCA
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG
Found at i:25425674 original size:32 final size:33
Alignment explanation
Indices: 25425609--25425677 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
25425599 TTTTTCCTAG
*
25425609 TTTTATTTAATTAATTTTCTTTTGATTTCTTTC
1 TTTTATTGAATTAATTTTCTTTTGATTTCTTTC
*
25425642 TTTTATTGATTTAATTTAT-TTTT-ATTTCTTTC
1 TTTTATTGAATTAATTT-TCTTTTGATTTCTTTC
25425674 TTTT
1 TTTT
25425678 GTTGCAGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 13 0.39
33 19 0.58
34 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (33 bp):
TTTTATTGAATTAATTTTCTTTTGATTTCTTTC
Found at i:25427641 original size:12 final size:12
Alignment explanation
Indices: 25427624--25427654 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25427614 GAACATTAGA
*
25427624 TCATTTTGTCAT
1 TCATTTTGTCAC
25427636 TCATTTTGTCAC
1 TCATTTTGTCAC
25427648 TCATTTT
1 TCATTTT
25427655 TCCATGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (12 bp):
TCATTTTGTCAC
Found at i:25434817 original size:20 final size:20
Alignment explanation
Indices: 25434792--25434838 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
25434782 GATATGACAT
*
25434792 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
25434812 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
25434832 ACATGAT
1 ACATGAT
25434839 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:25434958 original size:47 final size:47
Alignment explanation
Indices: 25434889--25435029 Score: 220
Period size: 47 Copynumber: 3.1 Consensus size: 47
25434879 AGGAAGTGCA
25434889 AAAGGGCTTATGCCCCAGTTATT-AAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AT
25434936 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATAT
*
25434983 AAAGGGCTTATGCCCCAGTTATTAAAAGGCTT-TG-CCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAT
25435027 AAA
1 AAA
25435030 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
44 13 0.14
45 2 0.02
46 8 0.09
47 47 0.52
49 21 0.23
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAT
Found at i:25435035 original size:23 final size:24
Alignment explanation
Indices: 25434888--25435050 Score: 232
Period size: 23 Copynumber: 7.0 Consensus size: 24
25434878 GAGGAAGTGC
25434888 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25434912 --AAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
25434934 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
25434959 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25434983 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25435006 AAAA-GGCTT-TG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25435027 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25435051 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 3, Indels: 17
0.86 0.02 0.12
Matches are distributed among these distances:
21 14 0.11
22 24 0.19
23 32 0.25
24 27 0.21
25 30 0.24
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:25442810 original size:25 final size:25
Alignment explanation
Indices: 25442781--25442828 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25442771 TTATAATATG
* * *
25442781 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
25442806 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
25442829 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:25442889 original size:20 final size:20
Alignment explanation
Indices: 25442854--25442926 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
25442844 TGATACGTGG
25442854 GATATGATAT--ACATGATT
1 GATATGATATGCACATGATT
25442872 GATATGATATGCACATGA--
1 GATATGATATGCACATGATT
* *
25442890 CATGT-A-ATGCACATGATAT
1 GATATGATATGCACATGAT-T
*
25442909 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
25442927 GTATTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 10 0.23
17 1 0.02
18 15 0.34
19 1 0.02
20 17 0.39
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
GATATGATATGCACATGATT
Found at i:25442901 original size:16 final size:16
Alignment explanation
Indices: 25442880--25442911 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25442870 TTGATATGAT
25442880 ATGCACATGACATGTA
1 ATGCACATGACATGTA
*
25442896 ATGCACATGATATGTA
1 ATGCACATGACATGTA
25442912 TGAAATGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (16 bp):
ATGCACATGACATGTA
Found at i:25443034 original size:24 final size:24
Alignment explanation
Indices: 25442978--25443094 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
25442968 GGAAAGTGCA
25442978 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25443002 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
25443025 AAAAGGGCTTATGCCCCAGTT-TT
1 AAAAGGGCTTATGCCCCAGTTATT
25443048 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
25443071 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25443095 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
22 10 0.11
23 43 0.49
24 26 0.30
25 8 0.09
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:25443053 original size:47 final size:46
Alignment explanation
Indices: 25442978--25443094 Score: 175
Period size: 47 Copynumber: 2.5 Consensus size: 46
25442968 GGAAAGTGCA
25442978 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTT-TGCCCCAGTTATT
25443025 AAAAGGGCTTATGCCCCAGTT-TTAAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTTGCCCCAGTTATT
*
25443071 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25443095 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
46 25 0.38
47 39 0.60
48 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTTGCCCCAGTTATT
Found at i:25443322 original size:30 final size:31
Alignment explanation
Indices: 25443288--25443350 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
25443278 CGTTTACAGT
25443288 AAAGGCTTCGGCCCAGTAATAT-AAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
25443318 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
25443349 AA
1 AA
25443351 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:25449074 original size:27 final size:27
Alignment explanation
Indices: 25449044--25449221 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
25449034 ATATCGAGTC
* * * *
25449044 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
25449071 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25449098 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25449126 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25449153 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25449180 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25449207 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25449222 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25449183 original size:82 final size:81
Alignment explanation
Indices: 25449065--25449220 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
25449055 TGCTATATAA
*
25449065 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25449130 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25449147 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25449211 CACTTAGTGC
65 CACTTAGTGC
25449221 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25463280 original size:21 final size:21
Alignment explanation
Indices: 25463256--25463331 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
25463246 CATCATGAAC
25463256 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
25463277 TCAGATGTCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
*
25463301 TCAGACCACAACTCAATGCGT
1 TCAGACCACAACTCAATGAGT
*
25463322 TCAGATCACA
1 TCAGACCACA
25463332 TAGTTCCTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.05
21 18 0.45
22 4 0.10
23 4 0.10
24 10 0.25
25 2 0.05
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:25480837 original size:14 final size:14
Alignment explanation
Indices: 25480818--25480873 Score: 78
Period size: 14 Copynumber: 3.9 Consensus size: 14
25480808 AGTTCAACGA
25480818 ATGTAAAATCATAT
1 ATGTAAAATCATAT
25480832 ATGTAAAATCATACT
1 ATGTAAAATCATA-T
*
25480847 CA-GTACAATCATAT
1 -ATGTAAAATCATAT
25480861 ATGTAAAATCATA
1 ATGTAAAATCATA
25480874 AGCACATCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 1 0.03
14 24 0.65
15 11 0.30
16 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (14 bp):
ATGTAAAATCATAT
Found at i:25480939 original size:27 final size:27
Alignment explanation
Indices: 25480909--25480968 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
25480899 GGGCATACTC
*
25480909 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
25480936 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
25480963 GTCATT
1 GTCATT
25480969 GGGGGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:25492299 original size:42 final size:42
Alignment explanation
Indices: 25492253--25492410 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 42
25492243 GACTATGTGC
* * * *
25492253 AAGACCATATCTGGGATATGGCATCT-ATATAAGACTGCGTGT
1 AAGACCATATCTGAGATATGGCAT-TGATATGAGATTACGTGT
* * *
25492295 AAGACCATATCTGGGATATGGCTTTGATATGAGATTTCGTGT
1 AAGACCATATCTGAGATATGGCATTGATATGAGATTACGTGT
* * * *
25492337 AAGACCATAGCTGAGTTATTGGCATTGATACGAGATTACATGT
1 AAGACCATATCTGAGATA-TGGCATTGATATGAGATTACGTGT
*
25492380 AAGACCATATCTGAGATATGGCATTGGTATG
1 AAGACCATATCTGAGATATGGCATTGATATG
25492411 GTACCAAGTG
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 62 0.63
43 36 0.36
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
AAGACCATATCTGAGATATGGCATTGATATGAGATTACGTGT
Found at i:25495667 original size:46 final size:46
Alignment explanation
Indices: 25495395--25495667 Score: 352
Period size: 46 Copynumber: 5.9 Consensus size: 46
25495385 TTGTCTTCGA
* * * * * *
25495395 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-AAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCGTAT
* * * ** ***
25495441 CATGTTGTCATGGTATCTTTTAACCATAGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CGTAT
25495488 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
* *
25495534 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACATATTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
*
25495580 CATGTTGCCATGATATCTTTCAACCATGGT-TCTACACATTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCT-TACACATTTCGTAT
25495626 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
25495668 ATTTCAGAAA
Statistics
Matches: 199, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
45 4 0.02
46 157 0.79
47 38 0.19
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTAT
Found at i:25497790 original size:8 final size:8
Alignment explanation
Indices: 25497777--25497811 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
25497767 TATACTAAAT
25497777 AAATAATA
1 AAATAATA
25497785 AAATAAT-
1 AAATAATA
25497792 -AATAATA
1 AAATAATA
25497799 AAATAATA
1 AAATAATA
25497807 AAATA
1 AAATA
25497812 TCTCATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
8 19 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAATAATA
Found at i:25497797 original size:14 final size:14
Alignment explanation
Indices: 25497778--25497811 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
25497768 ATACTAAATA
25497778 AATAATAAAATAAT
1 AATAATAAAATAAT
25497792 AATAATAAAATAAT
1 AATAATAAAATAAT
25497806 AA-AATA
1 AATAATA
25497812 TCTCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:25500747 original size:46 final size:47
Alignment explanation
Indices: 25500678--25501097 Score: 510
Period size: 46 Copynumber: 8.9 Consensus size: 47
25500668 TTATATTCAA
* * * * * *
25500678 CATGATGCCATAGTAACTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * ** * **
25500724 CATGTTTCTATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25500771 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TT--T-TCATAT
** *
25500822 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25500868 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATTGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC--A---TAT
*
25500919 CATGTTGCCATGGTATCTTTCAACCATGTTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25500965 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCGTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* *
25501011 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTT-GTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
25501057 CATGTTGCCATGGTATCTTTCAACCATGATCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
25501098 CATTTCAGAA
Statistics
Matches: 331, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
46 205 0.62
47 39 0.12
48 3 0.01
49 2 0.01
50 1 0.00
51 81 0.24
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:25500910 original size:97 final size:96
Alignment explanation
Indices: 25500678--25501101 Score: 567
Period size: 97 Copynumber: 4.5 Consensus size: 96
25500668 TTATATTCAA
* * * * * * * *
25500678 CATGATGCCATAGTAACTTTCAACTATGGTCTTACTCA-TT--TTC-TGTCATGTTTCTATGGTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCGTATCATGTTGCCATGGTA
** **
25500739 TCTTTCAACCATGGTCTTATTCATTTCCCCAT
66 TCTTTCAACCATGGTCTTACACATTT-CATAT
25500771 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCGTATCATGTTGCCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TCGTATCATGTTGCCATGGT
** *
25500836 ATCTTTCAACCATGGTCTTATTCATTTCATGT
65 ATCTTTCAACCATGGTCTTACACATTTCATAT
* *
25500868 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTGTATCATGTTGCCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-TCGTATCATGTTGCCATGGT
*
25500933 ATCTTTCAACCATGTTCTTACACATTTCATAT
65 ATCTTTCAACCATGGTCTTACACATTTCATAT
*
25500965 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA--T--TTCGTATCATGTTTCCATGGTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCGTATCATGTTGCCATGGTA
**
25501026 TCTTTCAACCATGGTCTTACACATTTTGTAT
66 TCTTTCAACCATGGTCTTACACATTTCATAT
*
25501057 CATGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATT
25501102 TCAGAAAGCA
Statistics
Matches: 298, Mismatches: 24, Indels: 15
0.88 0.07 0.04
Matches are distributed among these distances:
92 84 0.28
93 34 0.11
94 3 0.01
95 1 0.00
96 3 0.01
97 132 0.44
98 41 0.14
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (96 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTCGTATCATGTTGCCATGGTA
TCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:25500946 original size:24 final size:24
Alignment explanation
Indices: 25500919--25500992 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
25500909 CATATTGTAT
25500919 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
* *
25500943 CATGTT--C-T--TACACATTTCATAT
1 CATGTTGCCATGGTA-TC-TTTCA-AC
25500965 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
25500989 CATG
1 CATG
25500993 GTCTTACACA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 6 0.16
22 8 0.21
24 12 0.32
25 6 0.16
26 1 0.03
27 2 0.05
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (24 bp):
CATGTTGCCATGGTATCTTTCAAC
Found at i:25502791 original size:24 final size:21
Alignment explanation
Indices: 25502764--25502810 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
25502754 CTCTTATTTT
25502764 CTTTCTCTATACTATTTCTCATCA
1 CTTTCTCT-TA-T-TTTCTCATCA
*
25502788 CTTTCTCTTATTTTCTCTTCA
1 CTTTCTCTTATTTTCTCATCA
25502809 CT
1 CT
25502811 AACATGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (21 bp):
CTTTCTCTTATTTTCTCATCA
Found at i:25507150 original size:39 final size:40
Alignment explanation
Indices: 25507025--25507209 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
25507015 GCTACTCGTT
* *
25507025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* **
25507065 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
25507105 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
25507144 CAAATGCCTTC-GGATATTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
25507185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25507210 CATCATTCGA
Statistics
Matches: 116, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.26
40 71 0.61
41 13 0.11
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25511384 original size:10 final size:10
Alignment explanation
Indices: 25511369--25511396 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25511359 ATAGTTCATG
25511369 TTTACTTTGT
1 TTTACTTTGT
25511379 TTTACTTTGT
1 TTTACTTTGT
25511389 TTTACTTT
1 TTTACTTT
25511397 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:25525654 original size:14 final size:14
Alignment explanation
Indices: 25525635--25525671 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
25525625 AAATAGGTAA
25525635 ATGAGATATATTTT
1 ATGAGATATATTTT
25525649 ATGAGATATATTTT
1 ATGAGATATATTTT
*
25525663 CTGAGATAT
1 ATGAGATAT
25525672 TTAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (14 bp):
ATGAGATATATTTT
Found at i:25538018 original size:40 final size:40
Alignment explanation
Indices: 25537963--25538165 Score: 320
Period size: 40 Copynumber: 5.1 Consensus size: 40
25537953 GGATGATAAT
** * *
25537963 CGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
25538003 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
25538043 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
25538083 CAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
25538123 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
25538163 CGG
1 CGG
25538166 TTAAATCCTG
Statistics
Matches: 154, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 3 0.02
40 151 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:25554393 original size:15 final size:15
Alignment explanation
Indices: 25554369--25554405 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25554359 TTTTTATAAT
25554369 AATAAAATAAAAGAA
1 AATAAAATAAAAGAA
*
25554384 AATAACATAAAAG-A
1 AATAAAATAAAAGAA
25554398 AATAAAAT
1 AATAAAAT
25554406 TTCAAGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (15 bp):
AATAAAATAAAAGAA
Found at i:25559375 original size:13 final size:13
Alignment explanation
Indices: 25559357--25559383 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25559347 ATAATGAATT
25559357 TAACTTGTTAATA
1 TAACTTGTTAATA
25559370 TAACTTGTTAATA
1 TAACTTGTTAATA
25559383 T
1 T
25559384 GAATAGCTTG
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:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TAACTTGTTAATA
Found at i:25573690 original size:3 final size:3
Alignment explanation
Indices: 25573684--25573717 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
25573674 TACTACTACT
25573684 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC -TC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
25573718 TTCATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:25587656 original size:39 final size:39
Alignment explanation
Indices: 25587613--25587713 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
25587603 AACATGTTTT
*
25587613 TGAGTATAGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25587652 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
25587691 TGAGTATTGTGTTATATGCTTGA
1 TGAGTATTGTGATATATGCTTGA
25587714 TTATATATGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:25588845 original size:18 final size:18
Alignment explanation
Indices: 25588818--25588853 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25588808 CGACTATGTG
*
25588818 ACCCTGTTTTCAAATTTT
1 ACCCTATTTTCAAATTTT
*
25588836 ACCCTATTTTCATATTTT
1 ACCCTATTTTCAAATTTT
25588854 GATTCAATTT
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:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (18 bp):
ACCCTATTTTCAAATTTT
Found at i:25591192 original size:43 final size:44
Alignment explanation
Indices: 25591137--25591252 Score: 134
Period size: 43 Copynumber: 2.7 Consensus size: 44
25591127 ATATCGTACA
* * *
25591137 ATGCCAAC-GTCCCAGACCTGGTCTTATATGTAA-T-CATATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AATTACATATA-CG
*
25591180 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAATTACATATACG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAATTACATATACG
*
25591223 ATGCCGA-TGTCCCAGACATGGTCTTACACG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG
25591253 CTATCACTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
42 4 0.06
43 53 0.83
44 7 0.11
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAATTACATATACG
Found at i:25594016 original size:28 final size:27
Alignment explanation
Indices: 25593984--25594055 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
25593974 GTCACCAGAT
*
25593984 ACAGATATTTTGTGGCAGTGCCACTAGA
1 ACAGATA-TTTGTGGCAGGGCCACTAGA
**
25594012 ACAGATATACGTGGCAGGGCCACTAGA
1 ACAGATATTTGTGGCAGGGCCACTAGA
25594039 ACAGATAATTTGTGGCA
1 ACAGAT-ATTTGTGGCA
25594056 TAGCCACCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGGGCCACTAGA
Found at i:25594218 original size:28 final size:28
Alignment explanation
Indices: 25594171--25594263 Score: 134
Period size: 28 Copynumber: 3.3 Consensus size: 28
25594161 AAATTAACCC
*
25594171 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
* *
25594199 TAAGGGTATAATGGTAATTTGGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
25594227 GAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25594255 TAGGGGTAT
1 TAGGGGTAT
25594264 TCTAGTACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 1 0.02
28 56 0.98
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:25596445 original size:40 final size:40
Alignment explanation
Indices: 25596223--25596483 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 40
25596213 TTGAATGATG
*
25596223 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
*
25596262 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
25596301 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
25596340 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
25596379 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
25596418 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
25596459 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25596484 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
38 23 0.12
39 113 0.57
40 51 0.26
41 10 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:25596505 original size:79 final size:76
Alignment explanation
Indices: 25596223--25596516 Score: 276
Period size: 78 Copynumber: 3.8 Consensus size: 76
25596213 TTGAATGATG
* * **
25596223 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCAT
25596285 TTGTGCGAGATACTAA
61 TTGTGCGAGATACTAA
* * *
25596301 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
25596365 TGCGAGATACTAA
64 TGCGAGATACTAA
* *
25596378 TTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTT
25596443 GTGCGA-ATTACTATA
63 GTGCGAGA-TACTA-A
* * ** * *
25596458 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
25596517 TACGTGATTT
Statistics
Matches: 187, Mismatches: 17, Indels: 23
0.82 0.07 0.10
Matches are distributed among these distances:
77 36 0.19
78 70 0.37
79 56 0.30
80 25 0.13
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (76 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAGATACTAA
Found at i:25604866 original size:28 final size:27
Alignment explanation
Indices: 25604826--25604915 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
25604816 GTGACAGAGT
*
25604826 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* **
25604855 CACTAGAACAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
25604882 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
25604910 CACCAG
1 CACCAG
25604916 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:25605068 original size:28 final size:28
Alignment explanation
Indices: 25605021--25605113 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
25605011 AAATTAACCC
*
25605021 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
25605049 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25605077 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
25605105 TAGGGGTAT
1 TAGGGGTAT
25605114 TCTAGTACAT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:25613239 original size:35 final size:35
Alignment explanation
Indices: 25613160--25613239 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
25613150 ATTGGAACTA
* * * *
25613160 AGACCATGTATGCAGAGTCAGATGGCTGTGTCGAC
1 AGACCGTGTATGCAGAGTCACACGACTGTGTCGAC
*
25613195 AGACTGTGTATGCAGAGTCACACGACTGTGTCGAC
1 AGACCGTGTATGCAGAGTCACACGACTGTGTCGAC
*
25613230 AGGCCGTGTA
1 AGACCGTGTA
25613240 ACTAACTCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (35 bp):
AGACCGTGTATGCAGAGTCACACGACTGTGTCGAC
Found at i:25614911 original size:30 final size:30
Alignment explanation
Indices: 25614877--25614937 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25614867 CAATGTTAGC
25614877 TTAATTTTATTTAAGCTAGGATGATTGCTT
1 TTAATTTTATTTAAGCTAGGATGATTGCTT
25614907 TTAATTTTATTTAAGCTAGGATGATTGCTT
1 TTAATTTTATTTAAGCTAGGATGATTGCTT
25614937 T
1 T
25614938 GATTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (30 bp):
TTAATTTTATTTAAGCTAGGATGATTGCTT
Found at i:25630328 original size:28 final size:28
Alignment explanation
Indices: 25630297--25630351 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
25630287 CAAATTATCG
* *
25630297 AGGATCACAGTTAGTGTGTGAGACATCC
1 AGGATCACACTTAGTGTGTGACACATCC
*
25630325 AGGATGACACTTAGTGTGTGACACATC
1 AGGATCACACTTAGTGTGTGACACATC
25630352 TGTGAAGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (28 bp):
AGGATCACACTTAGTGTGTGACACATCC
Found at i:25633664 original size:29 final size:29
Alignment explanation
Indices: 25633622--25633703 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
25633612 TATATATGTG
*
25633622 AATTATTGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
25633651 AATTATCGAGCACTAAGTGTGAGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
25633680 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
25633704 TCTCATTGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:25634928 original size:9 final size:9
Alignment explanation
Indices: 25634914--25634942 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25634904 CATACAAGAT
25634914 AAAAAATAA
1 AAAAAATAA
25634923 AAAAAAT-A
1 AAAAAATAA
25634931 AAAAAATAA
1 AAAAAATAA
25634940 AAA
1 AAA
25634943 TTGACTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:25637260 original size:18 final size:18
Alignment explanation
Indices: 25637222--25637256 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
25637212 ATCTTGTCTA
25637222 CCCGTGTGGGCCCACATG
1 CCCGTGTGGGCCCACATG
25637240 CCCGTGT-GGCCCACATG
1 CCCGTGTGGGCCCACATG
25637257 GCCCAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.40, G:0.31, T:0.17
Consensus pattern (18 bp):
CCCGTGTGGGCCCACATG
Found at i:25644014 original size:27 final size:27
Alignment explanation
Indices: 25643976--25644087 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
25643966 AGCATGGCTG
* *
25643976 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
25644002 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
25644030 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* * *
25644057 CTAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
25644084 CCAG
1 CCAG
25644088 GACACTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.07
27 52 0.70
28 17 0.23
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:25644040 original size:54 final size:54
Alignment explanation
Indices: 25643976--25644087 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
25643966 AGCATGGCTG
* *
25643976 CCAGAACAGATA-ATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
25644030 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
25644084 CCAG
1 CCAG
25644088 GACACTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:25652011 original size:27 final size:27
Alignment explanation
Indices: 25651974--25652066 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
25651964 AGCATGGTTG
* * *
25651974 CCAGA-ACAGATAACATGACAGAGTCA
1 CCAGATACAGATAACGTGGCAGAGCCA
25652000 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAA-CGTGGCAGAGCCA
* *
25652028 CCAG-GACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ACGTGGCAGAGCCA
25652055 CCAGAT-CAGATA
1 CCAGATACAGATA
25652067 TTTGTGGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 5 0.09
27 37 0.65
28 15 0.26
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAGATACAGATAACGTGGCAGAGCCA
Found at i:25652038 original size:54 final size:54
Alignment explanation
Indices: 25651974--25652088 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
25651964 AGCATGGTTG
* *
25651974 CCAGAACAGATA-ACATGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGGACAGATATACATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
** * * * * *
25652028 CCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATATCCA
1 CCAGGACAGATATACATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
25652082 CCAGGAC
1 CCAGGAC
25652089 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGGACAGATATACATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:25652067 original size:27 final size:27
Alignment explanation
Indices: 25651992--25652085 Score: 111
Period size: 27 Copynumber: 3.4 Consensus size: 27
25651982 GATAACATGA
*
25651992 CAGAGTCACCAGATACAGATA-ATCGTGG
1 CAGAGCCACCAGAT-CAGATATAT-GTGG
25652020 CAGAGCCACCAGGA-CAGATATATGTGG
1 CAGAGCCACCA-GATCAGATATATGTGG
*
25652047 CAGAGCCACCAGATCAGATATTTGTGG
1 CAGAGCCACCAGATCAGATATATGTGG
* *
25652074 CATATCCACCAG
1 CAGAGCCACCAG
25652086 GACGCTTCCT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.03
27 43 0.73
28 12 0.20
29 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATCAGATATATGTGG
Found at i:25659165 original size:15 final size:15
Alignment explanation
Indices: 25659114--25659165 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
25659104 CACACACAAA
* *
25659114 TGTTCTAAATATAAGT
1 TGTTCTAAACAT-GGT
* *
25659130 TGTTCAAAACAATGAT
1 TGTTCTAAAC-ATGGT
25659146 TGTTCTAAACATGGT
1 TGTTCTAAACATGGT
25659161 TGTTC
1 TGTTC
25659166 CAAAAATTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 9 0.31
16 18 0.62
17 2 0.07
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (15 bp):
TGTTCTAAACATGGT
Found at i:25661327 original size:20 final size:20
Alignment explanation
Indices: 25661302--25661353 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
25661292 GAGGCAATGC
*
25661302 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGAG
*
25661322 ACACGCCTGTGTGCTTTGAG
1 ACACGCCCGTGTGCTTTGAG
25661342 ACACGCCCGTGT
1 ACACGCCCGTGT
25661354 CCCCTACTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.25
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGAG
Found at i:25661447 original size:13 final size:13
Alignment explanation
Indices: 25661429--25661453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25661419 CCAAGCACAC
25661429 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
25661442 GCCCGTGTCCTT
1 GCCCGTGTCCTT
25661454 CACACGGCCT
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:25667497 original size:11 final size:10
Alignment explanation
Indices: 25667471--25667504 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
25667461 GGAGAGCACC
*
25667471 AAGAGTCAAA
1 AAGAGCCAAA
25667481 AAGAGCCAAA
1 AAGAGCCAAA
25667491 AACGAGCCAAA
1 AA-GAGCCAAA
25667502 AAG
1 AAG
25667505 GGACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:25669843 original size:23 final size:23
Alignment explanation
Indices: 25669804--25669847 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25669794 CTGATGGATA
*
25669804 GTAAGCTCTATTTAGTTGAAACG
1 GTAAGCTCTATTGAGTTGAAACG
25669827 GTAAGCTCTGA-TGAGTTGAAA
1 GTAAGCTCT-ATTGAGTTGAAA
25669848 ATAGTAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (23 bp):
GTAAGCTCTATTGAGTTGAAACG
Found at i:25679935 original size:28 final size:28
Alignment explanation
Indices: 25679903--25679958 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25679893 ATGGTTGACA
25679903 AAATTTTAGTTTTACGTAAACAAATGTT
1 AAATTTTAGTTTTACGTAAACAAATGTT
25679931 AAATTTTAGTTTTACGTAAACAAATGTT
1 AAATTTTAGTTTTACGTAAACAAATGTT
25679959 TTTGATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (28 bp):
AAATTTTAGTTTTACGTAAACAAATGTT
Found at i:25683405 original size:46 final size:47
Alignment explanation
Indices: 25683352--25683503 Score: 145
Period size: 46 Copynumber: 3.3 Consensus size: 47
25683342 AAGCAGACTT
25683352 GGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCATAAGTGAACTC
1 GGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTC
* * * * *
25683398 GGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTC
1 GGACTCAACTCAACGAGCTC-GA-GAC--GTTCGCATCCATAAGTGAACTC
* * * *
25683445 GGACTCAACTCTACAAACTC-AGACATTCGCATCCATAAGTGAACTC
1 GGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTC
25683491 GGACTCAACTCAA
1 GGACTCAACTCAA
25683504 TAAGCTCAGA
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.04
44 3 0.04
45 3 0.04
46 37 0.45
47 24 0.29
48 3 0.04
49 2 0.02
50 3 0.04
51 3 0.04
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
GGACTCAACTCAACGAGCTCGAGACGTTCGCATCCATAAGTGAACTC
Found at i:25690633 original size:46 final size:46
Alignment explanation
Indices: 25690566--25690735 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
25690556 TAACCCGTCT
* * *
25690566 ATAAGTGGACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTC
* *
25690612 ATAAGTGAACTCGGACTCAACTCAACGAACTCGGATGCCTAGTT-ACA-TC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATTC
* * * * * * *
25690661 -TCA-CGAACTCGGACTCAACTCAATGAGCTTGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTC
25690705 ATAAGTGAACTCGGACTCAACTCAACGAGCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCT
25690736 TCGATGCCCA
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 54 0.55
47 25 0.26
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTC
Found at i:25693087 original size:40 final size:40
Alignment explanation
Indices: 25692931--25693077 Score: 249
Period size: 40 Copynumber: 3.7 Consensus size: 40
25692921 ATATATTATA
* *
25692931 TATATTCGGGTCAAATCCCGTAGGCTTCATGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATG
*
25692971 TATATCCGAGTCAAATCCCGCAGGCTTCATGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATG
*
25693011 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATG
*
25693051 TATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTCAAATCCCGCAGGCTT
25693078 AGTATTGGTA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (40 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATG
Found at i:25693087 original size:80 final size:78
Alignment explanation
Indices: 25692931--25693098 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 78
25692921 ATATATTATA
* *
25692931 TATATTCGGGTCAAATCCCGTAGGCTTCATGCTGGTAATGTATATCCGAGTCAAATCCCGCAGGC
1 TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATGTATATCCGAGTCAAATCCCGCAGGC
*
25692996 TTCATGCTGGTAAT
66 TTCATACTGGT-AT
* * *
25693010 GTATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGG
1 -TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATGTATATCCGAGTCAAATCCCGCAGG
*
25693075 CTT-AGTATTGGTAT
65 CTTCA-TACTGGTAT
25693089 TATATCCGGG
1 TATATCCGGG
25693099 CTTAAAGTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 10 0.12
79 3 0.04
80 67 0.84
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (78 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATGTATATCCGAGTCAAATCCCGCAGGC
TTCATACTGGTAT
Found at i:25698830 original size:46 final size:46
Alignment explanation
Indices: 25698777--25698898 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 46
25698767 GTAACTTCAA
* * * * * *
25698777 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTGTTTTTA-T
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-CTATCTTCAGT
25698823 CCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
*
25698869 -CTGCTCCACTGCAACTTTAGGGAGATAAGA
1 CCTGCTCCACTGCAACTTCAGGGAGATAAGA
25698899 CTACAATTGC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 34 0.50
46 34 0.50
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (46 bp):
CCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
Found at i:25698891 original size:45 final size:46
Alignment explanation
Indices: 25698771--25698898 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
25698761 GAATTGGTAA
* * * * *
25698771 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTGT
1 CTTCATCCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCTAT
* *
25698817 TTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-CTAT
1 CTTCATCCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCTAT
*
25698862 CTTCAGT-CTGCTCCACTGCAACTTTAGGGAGATAAGA
1 CTTCA-TCCTGCTCCACTGCAACTTCAGGGAGATAAGA
25698899 CTACAATTGC
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
45 34 0.48
46 37 0.52
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (46 bp):
CTTCATCCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCTAT
Found at i:25699143 original size:177 final size:175
Alignment explanation
Indices: 25698824--25699365 Score: 586
Period size: 177 Copynumber: 3.1 Consensus size: 175
25698814 TGTTTTTATC
* ** * * * *
25698824 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTTAG
1 CTGCTCCACTACTGCTT-AGGGAGATAAGATCTGCAATCTTCAGTCTGCTTC-CTGCAACCTCAG
* * * *
25698889 GGAGATAAGACTACAATTGCCAACTTTCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAA
64 GGAGATAAGACTACAATT-TCAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCTAA
* *
25698954 AATCTTCTCCATTACCGATACATAGAGATAAGATTCGCCGTCTTTGAT
128 AATCTGCTCCATTGCCGATACATAGAGATAAGATTCGCCGTCTTTGAT
* * * * *
25699002 TTGCTCCACTATTGCTTAGGGAGATAAGACCTGCCATCTTCAGTCTGCTTCCTTGCTACCTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTGCTTCC-TGCAACCTCAGG
* * *
25699067 AAGATAAGACTACAATCTTTAACCTGCTCTCTTGCTACCTCTGAGAAATAAGGCTAGTGGCTAAA
65 GAGATAAGACTACAAT-TTCAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCTAAA
* * *
25699132 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGAT
129 ATCTGCTCCATTGCCGATACATAGAGATAAGATTCGCCGTCTTTGAT
* * * * *
25699179 CCGCTCCGCTACTGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTCTACTGCAACCTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTGCT-TCCTGCAACCTCAGG
*** *** * * * *
25699244 GAGATAAGACTTGTATATTGGGCCTGCTCTAC-TGC-AACTTTAGAGAGATAAGGCTTGTGGCTT
65 GAGATAAGACTACAAT-TTCAACCTGCTCT-CTTGCTACCTCT-GAGAGATAAGGCTAGTGGCTA
* ** *
25699307 AAATCTGCTCCATTGCCAATACA-AGGAGATAAGATTTTCCGTCTTTGGT
127 AAATCTGCTCCATTGCCGATACATA-GAGATAAGATTCGCCGTCTTTGAT
25699356 CTGCTCCACT
1 CTGCTCCACT
25699366 GCAACTTTAG
Statistics
Matches: 303, Mismatches: 55, Indels: 13
0.82 0.15 0.04
Matches are distributed among these distances:
176 5 0.02
177 282 0.93
178 16 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (175 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTGCTTCCTGCAACCTCAGGG
AGATAAGACTACAATTTCAACCTGCTCTCTTGCTACCTCTGAGAGATAAGGCTAGTGGCTAAAAT
CTGCTCCATTGCCGATACATAGAGATAAGATTCGCCGTCTTTGAT
Found at i:25699315 original size:44 final size:44
Alignment explanation
Indices: 25699267--25699469 Score: 114
Period size: 44 Copynumber: 4.7 Consensus size: 44
25699257 TATATTGGGC
*
25699267 CTGCTCTACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
1 CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
* ** * * * ***
25699311 CTGCTCCATTGCCAA-TACA-AGGAGATAA-GATTTTCCGTCTTTGGT
1 CTGCTCCACTG-CAACTTTAGA-GAGATAAGGCTTGT--GGCTTAAAT
* * * * ** * *
25699356 CTGCTCCACTGCAACTTTAGGGAAATAAGACCTGTCACTTCAAC
1 CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
* * *
25699400 CTGCTCCAGTGCAACTTTAGGGAGATAAGGC-T-T-GC-TATTAT
1 CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTA-AAT
*
25699441 CTGCTCTACTGCAACTTTAGAGAGATAAG
1 CTGCTCCACTGCAACTTTAGAGAGATAAG
25699470 ATTTGTTTAT
Statistics
Matches: 116, Mismatches: 35, Indels: 19
0.68 0.21 0.11
Matches are distributed among these distances:
40 1 0.01
41 28 0.24
42 1 0.01
43 6 0.05
44 52 0.45
45 26 0.22
46 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGAGAGATAAGGCTTGTGGCTTAAAT
Found at i:25699424 original size:177 final size:176
Alignment explanation
Indices: 25698824--25699469 Score: 578
Period size: 177 Copynumber: 3.7 Consensus size: 176
25698814 TGTTTTTATC
* * * * *
25698824 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-CTATCTTCAGTCTGCTCCACTGCAACTTTA
1 CTGCTCCACTACAACTT-AGGGAGATAAGACCTGTCAATCTTCAGTCTGCTCCACTGCAACCTCA
** * * * * *
25698888 GGGAGATAAGACTACA-ATTGCCAACTTTCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCT
65 GGGAGATAAGACTTGATATTG---ACCTGCTCTCTTGCAACTTTAGAGAGATAAGGCTAGTGGCT
* *
25698952 AAAATCTTCTCCATTACCGATACATA-GAGATAAGATTCGCCGTCTTTGAT
127 AAAATCTGCTCCATTGCCGATACA-AGGAGATAAGATTCGCCGTCTTTGAT
* *** * * *
25699002 TTGCTCCACTATTGCTTAGGGAGATAAGACCTG-CCATCTTCAGTCTGCTTCC-TTGCTACCTCA
1 CTGCTCCACTACAACTTAGGGAGATAAGACCTGTCAATCTTCAGTCTGC-TCCACTGCAACCTCA
* ** * * * * *
25699065 GGAAGATAAGACTACAATCTTTAACCTGCTCTCTTGCTACCTCT-GAGAAATAAGGCTAGTGGCT
65 GGGAGATAAGACT-TGAT-ATTGACCTGCTCTCTTGC-AACTTTAGAGAGATAAGGCTAGTGGCT
* * *
25699129 AAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGAT
127 AAAATCTGCTCCATTGCCGATACAAGGAGATAAGATTCGCCGTCTTTGAT
* * ** * * *
25699179 CCGCTCCGCTACTGCTTAAGGAGATAAGATCT-TCAATCTTCAGTCTGCTCTACTGCAACCTCAG
1 CTGCTCCACTACAACTTAGGGAGATAAGACCTGTCAATCTTCAGTCTGCTCCACTGCAACCTCAG
* * *
25699243 GGAGATAAGACTTGTATATTGGGCCTGCTCTAC-TGCAACTTTAGAGAGATAAGGCTTGTGGCTT
66 GGAGATAAGACTTG-ATATT-GACCTGCTCT-CTTGCAACTTTAGAGAGATAAGGCTAGTGGCTA
* ** *
25699307 AAATCTGCTCCATTGCCAATACAAGGAGATAAGATTTTCCGTCTTTGGT
128 AAATCTGCTCCATTGCCGATACAAGGAGATAAGATTCGCCGTCTTTGAT
* * ** * * *
25699356 CTGCTCCACTGCAACTTTAGGGAAATAAGACCTGTC-A-CTTCAACCTGCTCCAGTGCAACTTTA
1 CTGCTCCACTACAAC-TTAGGGAGATAAGACCTGTCAATCTTCAGTCTGCTCCACTGCAACCTCA
* * *
25699419 GGGAGATAAGGCTTGCTATT-ATCTGCTCTAC-TGCAACTTTAGAGAGATAAG
65 GGGAGATAAGACTTGATATTGACCTGCTCT-CTTGCAACTTTAGAGAGATAAG
25699470 ATTTGTTTAT
Statistics
Matches: 379, Mismatches: 75, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
174 29 0.08
176 12 0.03
177 301 0.79
178 33 0.09
179 2 0.01
180 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (176 bp):
CTGCTCCACTACAACTTAGGGAGATAAGACCTGTCAATCTTCAGTCTGCTCCACTGCAACCTCAG
GGAGATAAGACTTGATATTGACCTGCTCTCTTGCAACTTTAGAGAGATAAGGCTAGTGGCTAAAA
TCTGCTCCATTGCCGATACAAGGAGATAAGATTCGCCGTCTTTGAT
Found at i:25699457 original size:41 final size:43
Alignment explanation
Indices: 25699355--25699610 Score: 133
Period size: 44 Copynumber: 5.7 Consensus size: 43
25699345 CCGTCTTTGG
*
25699355 TCTGCTCCACTGCAACTTTAGGGAAATAAGACCTGTCACTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGTCACTT-AA
* * * *
25699399 CCTGCTCCAGTGCAACTTTAGGGAGATAAGGCTTG-CTA-TT-A
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGTC-ACTTAA
* * ** *
25699440 TCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGTTTATTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTG------T-CA-CTT-AA
** * * * * * *
25699492 TCTATTCCACTACAACTTCAGGGAAATAAGA-TTCTCTATCTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGTC-A-CTT-AA
* *
25699537 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGACACTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGTCACTT-AA
* * * *
25699581 CCTACTCCACTACAACTTCAGGGAGATAAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAG
25699611 GTTTGTAATC
Statistics
Matches: 163, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
41 30 0.18
43 3 0.02
44 63 0.39
45 35 0.21
46 2 0.01
48 1 0.01
50 2 0.01
51 2 0.01
52 25 0.15
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGACCTGTCACTTAA
Found at i:25699595 original size:89 final size:89
Alignment explanation
Indices: 25699486--25699654 Score: 225
Period size: 89 Copynumber: 1.9 Consensus size: 89
25699476 TTATTTATAG
* * *
25699486 CTTCAATCTATTCCACTACAACTTCAGGGAAATAAGATTCTCT-ATCTTC-AGTCTGCTCCACTG
1 CTTCAACCTACTCCACTACAACTTCAGGGAAATAAGATT-TCTAATCTTCGA-TCTACTCCACTG
*
25699549 CAACTTCAGGGAGATAAGACCTGACA
64 CAACTTCAAGGAGATAAGACCTGACA
* * * * *
25699575 CTTCAACCTACTCCACTACAACTTCAGGGAGATAAGGTTTGTAATCTTCGATCTATTTCACTGCA
1 CTTCAACCTACTCCACTACAACTTCAGGGAAATAAGATTTCTAATCTTCGATCTACTCCACTGCA
25699640 ACTTCAAGGAGATAA
66 ACTTCAAGGAGATAA
25699655 AATCTGACTT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.03
89 66 0.96
90 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (89 bp):
CTTCAACCTACTCCACTACAACTTCAGGGAAATAAGATTTCTAATCTTCGATCTACTCCACTGCA
ACTTCAAGGAGATAAGACCTGACA
Done.