Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 161 of 410
Found at i:49231032 original size:22 final size:23
Alignment explanation
Indices: 49231007--49231058 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
49230997 TATAAAACCT
49231007 AATAAAAATAAG-CTTAAAGAAA
1 AATAAAAATAAGTCTTAAAGAAA
* * *
49231029 AATAAAAATTAGTCTTAAAGCAG
1 AATAAAAATAAGTCTTAAAGAAA
49231052 AATAAAA
1 AATAAAA
49231059 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.63, C:0.06, G:0.10, T:0.21
Consensus pattern (23 bp):
AATAAAAATAAGTCTTAAAGAAA
Found at i:49233184 original size:55 final size:55
Alignment explanation
Indices: 49233055--49233191 Score: 157
Period size: 55 Copynumber: 2.5 Consensus size: 55
49233045 TAGGCCCACA
* ** *
49233055 CCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCTTGGCATGGGCGTGTCGCACG
1 CCCGTGTTGTTTTGGCAGGTTCGCCCACAGTTGCAAGGCACGGGCGTGTCGCACG
* ** * * * * *
49233110 CCCGTATTAATTTGACAGGTTTGGCGACAGTTTCAAGGCACGGGCGTGTCGCACG
1 CCCGTGTTGTTTTGGCAGGTTCGCCCACAGTTGCAAGGCACGGGCGTGTCGCACG
*
49233165 CCCGTGTTGTTTTGGCAGGTTCACCCA
1 CCCGTGTTGTTTTGGCAGGTTCGCCCA
49233192 TGGCCATGTT
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.28
Consensus pattern (55 bp):
CCCGTGTTGTTTTGGCAGGTTCGCCCACAGTTGCAAGGCACGGGCGTGTCGCACG
Found at i:49243792 original size:29 final size:29
Alignment explanation
Indices: 49243759--49243832 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
49243749 CCTTCGAGCT
49243759 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49243788 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49243817 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49243833 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49243793 original size:58 final size:58
Alignment explanation
Indices: 49243700--49243832 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
49243690 ATACTCGATT
* * * * *
49243700 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
49243758 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
49243816 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
49243833 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:49259791 original size:39 final size:40
Alignment explanation
Indices: 49259737--49259992 Score: 261
Period size: 40 Copynumber: 6.5 Consensus size: 40
49259727 AAACCAAGTA
** * * *
49259737 CCTTCGGGGTTTAG-CCGGATATAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * *
49259776 CCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
**
49259816 CCTTCGGGACTTAGCCCGG-TATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
** * *
49259855 CCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAA-A
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
49259894 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * *
49259934 CCTTCGGGACTTAGCCCAGA-ATTAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGCAACTCGCACAAATG
49259974 -CTCTCGGGACTTAGCCCGG
1 CCT-TCGGGACTTAGCCCGG
49259993 TTATCATCCG
Statistics
Matches: 188, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
39 87 0.46
40 101 0.54
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:49259822 original size:40 final size:40
Alignment explanation
Indices: 49259770--49259950 Score: 267
Period size: 39 Copynumber: 4.6 Consensus size: 40
49259760 GCCACTAGCT
* ** *
49259770 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
49259810 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
49259849 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
49259889 CAAA-ACCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
49259928 CGAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
49259951 AGAATTAGCC
Statistics
Matches: 131, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 72 0.55
40 59 0.45
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:49259868 original size:79 final size:79
Alignment explanation
Indices: 49259770--49259950 Score: 265
Period size: 79 Copynumber: 2.3 Consensus size: 79
49259760 GCCACTAGCT
* ** * *
49259770 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAA-ACCTTCGGGACTTAGCCCGG
49259835 -TATAATAACTCGCA
65 ATATAATAACTCGCA
*
49259849 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAAACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAAACCTTCGGGACTTAGCCCGGA
* *
49259914 TATAGTAGCTCGCA
66 TATAATAACTCGCA
*
49259928 CGAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
49259951 AGAATTAGCC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 19 0.21
79 73 0.79
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAAACCTTCGGGACTTAGCCCGGA
TATAATAACTCGCA
Found at i:49266840 original size:29 final size:29
Alignment explanation
Indices: 49266801--49266879 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49266791 CTTAATAATC
*
49266801 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49266831 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49266860 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49266880 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49267539 original size:2 final size:2
Alignment explanation
Indices: 49267532--49267556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49267522 TATGTATGTC
49267532 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
49267557 CAACTATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49270219 original size:93 final size:93
Alignment explanation
Indices: 49270060--49270231 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49270050 CGCCCATAAG
* *
49270060 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49270125 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
49270153 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49270218 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49270232 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49270228 original size:46 final size:46
Alignment explanation
Indices: 49270053--49270228 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49270043 TGTAACCCGC
* * *
49270053 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
49270099 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
49270149 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49270192 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49270229 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49274008 original size:39 final size:40
Alignment explanation
Indices: 49273954--49274167 Score: 206
Period size: 40 Copynumber: 5.4 Consensus size: 40
49273944 AAACCAAGTA
** * *
49273954 CCTTCGGGGTTTAG-CCGGATATAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCCACTCGCACAAATG
* ***
49273993 CCTTCGGAACTTAGCCCGG-TATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCCACTCGCACAAATG
* ** *
49274032 CCTTCGGGACTTAGCCCAGATATA-ATAGCTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGCCA-CTCGCACAAATG
* *
49274072 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGCCA-CTCGCACAAATG
* *
49274112 CCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGCCACTCGCACAAATG
49274152 -CTCTCGGGACTTAGCC
1 CCT-TCGGGACTTAGCC
49274168 GGTTATCATC
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 47 0.32
40 100 0.68
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCCACTCGCACAAATG
Found at i:49274130 original size:40 final size:40
Alignment explanation
Indices: 49273987--49274131 Score: 229
Period size: 40 Copynumber: 3.6 Consensus size: 40
49273977 GCCACTAGCT
* *
49273987 CAAATGCCTTCGGAACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
*
49274026 CAAATGCCTTCGGGACTTAGCCCAGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
* *
49274066 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
*
49274106 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49274132 ATTAGCCACT
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 23 0.24
40 74 0.76
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
Found at i:49274159 original size:80 final size:80
Alignment explanation
Indices: 49273954--49274167 Score: 253
Period size: 80 Copynumber: 2.7 Consensus size: 80
49273944 AAACCAAGTA
** *
49273954 CCTTCGGGGTTTAG-CCGG-ATATAGCCACTAGCTCAAATGCCTTCGGAACTTAGCCCGGTATAA
1 CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTATAA
49274017 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * * *
49274032 CCTTCGGGACTTAGCCCAGATATAATAG---CTCGCACAAACGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGA-AT-ATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGG-TA
* * *
49274094 TAGTAGCTCGCACGAATG
63 TAATAACTCGCACAAATG
49274112 CCTTCGGGACTTAGCCCGGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCT-TCGGGACTTAGCC
49274168 GGTTATCATC
Statistics
Matches: 113, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
77 3 0.03
78 12 0.11
79 34 0.30
80 58 0.51
81 2 0.02
82 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTATAA
TAACTCGCACAAATG
Found at i:49283395 original size:40 final size:40
Alignment explanation
Indices: 49283340--49283503 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
49283330 TGAATGATAC
* * *
49283340 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
49283380 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
49283420 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
49283460 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
49283500 CCGG
1 CCGG
49283504 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:49283473 original size:80 final size:80
Alignment explanation
Indices: 49283340--49283517 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
49283330 TGAATGATAC
* * * * * *
49283340 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
49283404 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
49283420 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
49283485 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
49283500 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
49283518 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:49297291 original size:16 final size:16
Alignment explanation
Indices: 49297270--49297301 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49297260 TTTGTAACGC
49297270 CCCAAAGATCCTGAAA
1 CCCAAAGATCCTGAAA
49297286 CCCAAAGATCCTGAAA
1 CCCAAAGATCCTGAAA
49297302 TCCTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (16 bp):
CCCAAAGATCCTGAAA
Found at i:49297963 original size:35 final size:34
Alignment explanation
Indices: 49297916--49297997 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 34
49297906 TTGTGTCAAA
*
49297916 TTCTATTATTCCTTTACTTCATTGCTAACTTTTCT
1 TTCTATT-TTCCTTTACCTCATTGCTAACTTTTCT
* *
49297951 TTCTATTCTTCCTATACCTCATTGCTGACTTTTCT
1 TTCTATT-TTCCTTTACCTCATTGCTAACTTTTCT
49297986 TTCT-TTTTCCTT
1 TTCTATTTTCCTT
49297998 GGAGTCGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 5 0.12
34 2 0.05
35 35 0.83
ACGTcount: A:0.13, C:0.26, G:0.04, T:0.57
Consensus pattern (34 bp):
TTCTATTTTCCTTTACCTCATTGCTAACTTTTCT
Found at i:49298844 original size:19 final size:20
Alignment explanation
Indices: 49298817--49298855 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
49298807 GTGAGCATGA
*
49298817 ATATGAATGTGAC-TGGGCC
1 ATATAAATGTGACTTGGGCC
49298836 ATATAAATGTGACTTGGGCC
1 ATATAAATGTGACTTGGGCC
49298856 TAATAGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
ATATAAATGTGACTTGGGCC
Found at i:49298876 original size:29 final size:29
Alignment explanation
Indices: 49298832--49298897 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
49298822 AATGTGACTG
* *
49298832 GGCCATATAAATGTGACTTGGGCCTAATA
1 GGCCATATAAAGGTGACTTAGGCCTAATA
* * *
49298861 GGCCATATACAGGTGATTTAGGCCTAATG
1 GGCCATATAAAGGTGACTTAGGCCTAATA
*
49298890 GGCTATAT
1 GGCCATAT
49298898 GAATATTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (29 bp):
GGCCATATAAAGGTGACTTAGGCCTAATA
Found at i:49300835 original size:20 final size:21
Alignment explanation
Indices: 49300793--49300834 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49300783 ACCATGGCCT
*
49300793 CTCGGTGGTTGCTAAAAACCC
1 CTCGGCGGTTGCTAAAAACCC
49300814 CTCGGCGGTTG-TAAAATACCC
1 CTCGGCGGTTGCTAAAA-ACCC
49300835 TTACCCATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (21 bp):
CTCGGCGGTTGCTAAAAACCC
Found at i:49302157 original size:25 final size:25
Alignment explanation
Indices: 49302123--49302173 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
49302113 TCGGTGTACC
*
49302123 ACACATTCAGTAGAAACATTTTAAA
1 ACACATTCAGTAGAAACATTTCAAA
49302148 ACACATTCAGTAGAAACATTTCAAA
1 ACACATTCAGTAGAAACATTTCAAA
49302173 A
1 A
49302174 TACTTCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (25 bp):
ACACATTCAGTAGAAACATTTCAAA
Found at i:49306108 original size:32 final size:31
Alignment explanation
Indices: 49306051--49306118 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
49306041 TGAAACAGGG
49306051 ACACACGCCCGCGTGGGTAGGCCGTGTGGTC
1 ACACACGCCCGCGTGGGTAGGCCGTGTGGTC
* * *
49306082 ACACACTCCCGTGTGCGTTAGGCCGTGTGGTC
1 ACACACGCCCGCGTG-GGTAGGCCGTGTGGTC
49306114 ACACA
1 ACACA
49306119 TACCATGTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (31 bp):
ACACACGCCCGCGTGGGTAGGCCGTGTGGTC
Found at i:49307821 original size:27 final size:28
Alignment explanation
Indices: 49307787--49307852 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
49307777 TGTCTCGCAT
*
49307787 ACTAAGTGCCATACTCAATATCTCATAC
1 ACTAAGTGCCATACTCAATATCTCACAC
* * *
49307815 AC-AAGTGCCATTCTCAATATTTCGCAC
1 ACTAAGTGCCATACTCAATATCTCACAC
49307842 ACTAAGTGCCA
1 ACTAAGTGCCA
49307853 CATTGATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
ACTAAGTGCCATACTCAATATCTCACAC
Found at i:49307949 original size:40 final size:40
Alignment explanation
Indices: 49307863--49307938 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
49307853 CATTGATGTA
*
49307863 TAGCCAAAGCTATCTCAAATAGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCAAATAGCACACCAAGTGCCACATT
* * *
49307903 TAGCCGAAGCTATTTCAAATCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCAAATAGCACACCAAGTGCCA
49307939 TTCTTAGCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAATAGCACACCAAGTGCCACATT
Found at i:49310941 original size:28 final size:27
Alignment explanation
Indices: 49310878--49310947 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
49310868 ATAGTGAGTC
49310878 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49310905 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49310933 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49310948 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49315906 original size:40 final size:39
Alignment explanation
Indices: 49315861--49315990 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
49315851 CGGAATATAA
49315861 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
49315901 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49315941 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
49315981 CCGGATATAA
1 CCGGATATAA
49315991 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49316005 original size:40 final size:40
Alignment explanation
Indices: 49315877--49316028 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
49315867 ATAACCATGT
* * *
49315877 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
49315917 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49315957 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49315997 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
49316029 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:49316011 original size:80 final size:80
Alignment explanation
Indices: 49315877--49316026 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49315867 ATAACCATGT
*
49315877 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49315941 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49315957 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49316020 CCCGGAT
64 CCCGGAT
49316027 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49323921 original size:40 final size:39
Alignment explanation
Indices: 49323876--49324005 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
49323866 CGGAATATAA
49323876 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
49323916 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49323956 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
49323996 CCGGATATAA
1 CCGGATATAA
49324006 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49324020 original size:40 final size:40
Alignment explanation
Indices: 49323892--49324043 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
49323882 ATAACCATGT
* * *
49323892 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
49323932 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49323972 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49324012 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
49324044 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:49324026 original size:80 final size:80
Alignment explanation
Indices: 49323892--49324041 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49323882 ATAACCATGT
*
49323892 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49323956 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49323972 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49324035 CCCGGAT
64 CCCGGAT
49324042 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49329989 original size:28 final size:27
Alignment explanation
Indices: 49329926--49329995 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
49329916 ATAGTGAGTC
49329926 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49329953 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49329981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49329996 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49334064 original size:37 final size:36
Alignment explanation
Indices: 49333995--49334088 Score: 152
Period size: 37 Copynumber: 2.6 Consensus size: 36
49333985 TGTCCCAGAC
49333995 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
* *
49334031 ATGGTCTTACACGCTATTACGATGCCATAGCCCAGCT
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCT
49334068 ATGGTCTTACACGTACTCACA
1 ATGGTCTTACACGTA-TCACA
49334089 TGTATTGCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 15 0.29
37 37 0.71
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (36 bp):
ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
Found at i:49336775 original size:28 final size:28
Alignment explanation
Indices: 49336733--49336809 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
49336723 ATCTTCGATG
* **
49336733 TCTCGCATACTAAGTTTCATACTCAATA
1 TCTCGCATACCAAGTGCCATACTCAATA
*
49336761 TCTCGCATACCAAGTGCCATTCTCAATA
1 TCTCGCATACCAAGTGCCATACTCAATA
* * * *
49336789 TTTCACACACTAAGTGCCATA
1 TCTCGCATACCAAGTGCCATA
49336810 TATATATATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (28 bp):
TCTCGCATACCAAGTGCCATACTCAATA
Found at i:49336812 original size:2 final size:2
Alignment explanation
Indices: 49336807--49336835 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49336797 ACTAAGTGCC
49336807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49336836 GCCGAAGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49338343 original size:30 final size:29
Alignment explanation
Indices: 49338249--49338350 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
49338239 TATAGTGAAT
* * *
49338249 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
49338278 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
49338306 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
49338336 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49338351 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:49341400 original size:6 final size:6
Alignment explanation
Indices: 49341359--49341391 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
49341349 TTGACCAAAA
*
49341359 AATTAC AATTAC AATTAT AATTAC AATTAC AAT
1 AATTAC AATTAC AATTAC AATTAC AATTAC AAT
49341392 AATTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAC
Found at i:49343538 original size:30 final size:30
Alignment explanation
Indices: 49343502--49343602 Score: 127
Period size: 28 Copynumber: 3.5 Consensus size: 30
49343492 GACAAGATTG
* *
49343502 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATACA
*
49343532 GCACTAAGTGTGCGAGTTT--GATTATACA
1 GCACTAAGTGTGCGAGTTTAAAATTATACA
* * *
49343560 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATACA
49343589 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49343603 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 24 0.39
29 19 0.31
30 19 0.31
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATACA
Found at i:49343614 original size:29 final size:28
Alignment explanation
Indices: 49343528--49343606 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
49343518 TTTAAAATTG
*
49343528 TACAGCACTAAGTGTGCGAGTTTGAT-TA
1 TACAGCACTAAGTGTGCG-GATTGATATA
* *
49343556 TACAGCACTAAGTGTGC-GAGCTGAAAATA
1 TACAGCACTAAGTGTGCGGA-TTG-ATATA
*
49343585 TATAGCACTAAGTGTGCGGATT
1 TACAGCACTAAGTGTGCGGATT
49343607 CACTATATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 18 0.43
29 19 0.45
30 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (28 bp):
TACAGCACTAAGTGTGCGGATTGATATA
Found at i:49351519 original size:30 final size:30
Alignment explanation
Indices: 49351483--49351642 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
49351473 GACAAGATTG
* * * * *
49351483 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
49351513 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49351541 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49351570 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49351600 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49351629 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49351643 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49351611 original size:59 final size:57
Alignment explanation
Indices: 49351483--49351642 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
49351473 GACAAGATTG
* * * * * *
49351483 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
49351541 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
49351600 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
49351643 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:49355007 original size:11 final size:11
Alignment explanation
Indices: 49354967--49355010 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
49354957 TATCTAGAAA
49354967 AAATTAA-ATT
1 AAATTAATATT
49354977 AAATTTAATATCT
1 AAA-TTAATAT-T
49354990 CAAATTAATATT
1 -AAATTAATATT
49355002 AAATTAATA
1 AAATTAATA
49355011 AAATACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.10
11 13 0.43
12 3 0.10
13 8 0.27
14 3 0.10
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATTAATATT
Found at i:49357419 original size:42 final size:43
Alignment explanation
Indices: 49357368--49357464 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 43
49357358 ATAGCCCAAC
* *
49357368 TATGGTCTTACACG-AAATCTCATATTGATGTCATATCCTAGA
1 TATGGTCTTACACGAAAATCTCATAATGATGTCATATCCCAGA
*
49357410 TATGGTCTTATA-GAAAATCTCATAATGATGTCATATCCCAGA
1 TATGGTCTTACACGAAAATCTCATAATGATGTCATATCCCAGA
49357452 TATGGTCTTACAC
1 TATGGTCTTACAC
49357465 ATAGTCTCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (43 bp):
TATGGTCTTACACGAAAATCTCATAATGATGTCATATCCCAGA
Found at i:49360718 original size:29 final size:29
Alignment explanation
Indices: 49360649--49360759 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 29
49360639 ACCCCTACAT
* * *
49360649 ACATGCATATGGCCCACTGGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * * *
49360677 TCATT-ATATGGCCCATTTGGCCTAGTTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * *
49360705 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
49360734 ACATTCATATGGCCCATTAAGCCCAA
1 ACATTCATATGGCCCATTAGGCCCAA
49360760 ATCATATTAT
Statistics
Matches: 64, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
27 16 0.25
28 8 0.12
29 40 0.62
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:49360767 original size:58 final size:56
Alignment explanation
Indices: 49360656--49360767 Score: 143
Period size: 58 Copynumber: 2.0 Consensus size: 56
49360646 CATACATGCA
* * ** * **
49360656 TATGGCCCACTGGGCCCAATCTCATTATATGGCCCATTTGGCCTAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTATATGGCCCATTAAGCCCAAATCATATTCT
49360712 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCATTAAGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATT-ATATGGCCCATTAAGCCCAAATCATATT
49360768 ATACTCATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 18 0.38
57 6 0.13
58 23 0.49
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (56 bp):
TATGGCCCACTAGGCCCAATCACATTATATGGCCCATTAAGCCCAAATCATATTCT
Found at i:49360873 original size:19 final size:18
Alignment explanation
Indices: 49360840--49360876 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
49360830 TAGGCCCAAC
49360840 AGCCCATTAGGCCCATTT
1 AGCCCATTAGGCCCATTT
*
49360858 AGCCCATTCCGGCCCATTT
1 AGCCCATT-AGGCCCATTT
49360877 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.38, G:0.16, T:0.27
Consensus pattern (18 bp):
AGCCCATTAGGCCCATTT
Found at i:49360885 original size:19 final size:19
Alignment explanation
Indices: 49360849--49360885 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49360839 CAGCCCATTA
*
49360849 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
49360868 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
49360886 TTAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:49362090 original size:16 final size:16
Alignment explanation
Indices: 49362069--49362101 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49362059 AAAAATTCAA
49362069 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
49362085 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
49362101 G
1 G
49362102 GGCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:49370975 original size:22 final size:22
Alignment explanation
Indices: 49370949--49370993 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
49370939 TTTTAATAAA
49370949 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
49370971 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
49370993 A
1 A
49370994 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:49375542 original size:22 final size:22
Alignment explanation
Indices: 49375517--49375559 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49375507 TAATAAAAAG
49375517 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
49375539 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
49375560 CACACACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:49385171 original size:75 final size:73
Alignment explanation
Indices: 49385034--49385211 Score: 202
Period size: 76 Copynumber: 2.4 Consensus size: 73
49385024 TTACTTAAAT
* * *
49385034 AATACAAAGTTTATTATTTAAATTGC-AAAAAACCTTAAAATTAATAGCTGAAATGGCAAAAAAA
1 AATACAAAG-TTA-TATTTAAATTACAAAAAAACCTTAAAATTAATAACTAAAATGG-AAAAAAA
*
49385098 GTCATTACATA
63 ATCATTACATA
*
49385109 AATACAAAGTTGACTATTTAAATTACAAAAAAAGGCC-TAAAATTTATAACTAAAATGGAAAAAA
1 AATACAAAGTT-A-TATTTAAATTACAAAAAAA--CCTTAAAATTAATAACTAAAATGGAAAAAA
49385173 AATCATTACATA
62 AATCATTACATA
* *
49385185 AACATAAAG-T-TATTTAAATTACAAAAA
1 AATACAAAGTTATATTTAAATTACAAAAA
49385212 CCCCCTAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
72 17 0.19
74 2 0.02
75 22 0.24
76 30 0.33
77 18 0.20
78 2 0.02
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (73 bp):
AATACAAAGTTATATTTAAATTACAAAAAAACCTTAAAATTAATAACTAAAATGGAAAAAAAATC
ATTACATA
Found at i:49385431 original size:33 final size:33
Alignment explanation
Indices: 49385389--49385464 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
49385379 AGCCGAAATT
*
49385389 AGTGGAGTAC-GATGTTGGATACGGGC-AGGGAGG
1 AGTGGAGTACAG-TGATGGATACGGGCTA-GGAGG
49385422 AGTGGAGTACAGTGATGGATACGGGCTAGGAGG
1 AGTGGAGTACAGTGATGGATACGGGCTAGGAGG
*
49385455 AGTGAAGTAC
1 AGTGGAGTAC
49385465 TGAGGTGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.45, T:0.18
Consensus pattern (33 bp):
AGTGGAGTACAGTGATGGATACGGGCTAGGAGG
Found at i:49385474 original size:33 final size:33
Alignment explanation
Indices: 49385404--49385476 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
49385394 AGTACGATGT
* *
49385404 TGGATACGGGCAGGGAGGAGTGGAGTACAGTGA
1 TGGATACGGGCAGGGAGGAGTGAAGTACAGAGA
* *
49385437 TGGATACGGGCTA-GGAGGAGTGAAGTACTGAGG
1 TGGATACGGGC-AGGGAGGAGTGAAGTACAGAGA
49385470 TGGATAC
1 TGGATAC
49385477 AAGCTGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.45, T:0.18
Consensus pattern (33 bp):
TGGATACGGGCAGGGAGGAGTGAAGTACAGAGA
Found at i:49390702 original size:105 final size:102
Alignment explanation
Indices: 49390467--49390824 Score: 437
Period size: 104 Copynumber: 3.5 Consensus size: 102
49390457 TAACAAAAAA
* * *
49390467 AACAATTTATATAACCTAATCATAAATTAATAACAAAATAACTATAAAATTAATTTTTAAAAAAA
1 AACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
*
49390532 GTTCATTACTAAAAAATAGAAAACACTAAACTAAACACT
66 -TTCATTACTAAAAAATACAAAAC-CTAAACTAAACACT
**
49390571 AACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTTGAAAA
1 AACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
49390636 TTACATTACTAAAAAATCACAAAATCCTAAACTAAACACT
66 TT-CATTACTAAAAAAT-ACAAAA-CCTAAACTAAACACT
* *
49390676 AACAA-TT-TATAACCTAATCCCATAAATTACTAACAAAATAAATAACTATAA-TATTTTTTTAA
1 AACAATTTATATAACCTAAT--CATAAATTACTAACAAAATAACT-A-TAAAATTATTTTTTT--
*
49390738 AAAGAAATTTCATTACTAAAAAATAACAAAA-C---ACAAAACACT
60 AAA-AAA-TTCATTACTAAAAAAT-ACAAAACCTAAACTAAACACT
*
49390780 AACAA-TT-TATAACCTAATCATAAACTACTAACAAAATAACTATAA
1 AACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAA
49390825 TTTTTAAAAA
Statistics
Matches: 228, Mismatches: 15, Indels: 26
0.85 0.06 0.10
Matches are distributed among these distances:
100 2 0.01
101 1 0.00
102 21 0.09
103 13 0.06
104 103 0.45
105 46 0.20
106 11 0.05
107 5 0.02
108 1 0.00
109 23 0.10
110 2 0.01
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (102 bp):
AACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAAA
TTCATTACTAAAAAATACAAAACCTAAACTAAACACT
Found at i:49391776 original size:20 final size:20
Alignment explanation
Indices: 49391753--49391803 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
49391743 TTATTAGTAT
*
49391753 TTTTTTATAAATTTTAATAA
1 TTTTTTATAAAATTTAATAA
*
49391773 TTTTTCA-AAAATTTAATAA
1 TTTTTTATAAAATTTAATAA
*
49391792 TTTTTTTTAAAA
1 TTTTTTATAAAA
49391804 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTTATAAAATTTAATAA
Found at i:49399297 original size:325 final size:325
Alignment explanation
Indices: 49398707--49399329 Score: 799
Period size: 325 Copynumber: 1.9 Consensus size: 325
49398697 CTTGTGCAGC
* ***
49398707 TCTTCCATGTCTTGCGATGGCGGTGGAATTTTTGGCCTCCACCTGAACTACAGTAACACTAGATC
1 TCTTCCATGTCTCGCGATGGCGGCAAAATTTTTGGCCTCCACCTGAACTACAGTAACACTAGATC
* * *
49398772 CAATTTGTACATTTCCACCATTGCGAGCACTATCAACGACACCTTCATGTCCCATAATTTCTGAT
66 CAATTTGTACAATTCCACCATTGCGAACACTATCAACGACACCTTCACGTCCCATAATTTCTGAT
* * * * ** *
49398837 TGGCCAACAATTTTGACGAAATGTAATATATGATATCGGTGTCGGCACATGGCATCCATTCAAAC
131 TGGCCAACAATTTCGACGAAATGCAAGATATGATATCGGTGCCAACACATGACATCCATTCAAAC
* * **
49398902 TGAAGTGCACAATTGTAAATTCTGTTATGGATGGAATTTTATTTTACAAATAATTGCATAATTAA
196 TGAAGTGCACAATTGTAAATTCCGTTATAGACAGAATTTTATTTTACAAATAATTGCATAATTAA
* * *
49398967 TATAGGTTCAAAATAATCAGTAACTAATCTCGCCTTCCAAGTGTTGATCTAACAGCAGCCTAATA
261 TATAGGTTCAAAAGAATAAGTAACTAACCTCGCCTTCCAAGTGTTGATCTAACAGCAGCCTAATA
* * * * * *
49399032 TCTTCCATGTCTCGCGGTGGCGGCAAAATTTTTTGCCTCCATCTGAACTACCA-TATCACTCGGT
1 TCTTCCATGTCTCGCGATGGCGGCAAAATTTTTGGCCTCCACCTGAACTA-CAGTAACACTAGAT
** *
49399096 CTGATTTGTGA-AATTCCACCATTGC-ATACACTATCGAA-GACACCTTCACGTCCTAT-ATCCT
65 CCAATTTGT-ACAATTCCACCATTGCGA-ACACTATC-AACGACACCTTCACGTCCCATAAT--T
* **
49399157 T-TGATTGGCCAACAATTTCGACGAGATGCAAGATATGATATCGGTGCCAACGTATGACATCCAT
125 TCTGATTGGCCAACAATTTCGACGAAATGCAAGATATGATATCGGTGCCAACACATGACATCCAT
* * * * * *
49399221 TTAAACTGAAGTGCATAATTGTGAATTCCGTTATATACAGAATTTTATTTTACAAATCATTGCGT
190 TCAAACTGAAGTGCACAATTGTAAATTCCGTTATAGACAGAATTTTATTTTACAAATAATTGCAT
49399286 AATTAATATAGGTTCAAAAGAATAAGTAACTAACCTCGCCTTCC
255 AATTAATATAGGTTCAAAAGAATAAGTAACTAACCTCGCCTTCC
49399330 GAGCATTAAT
Statistics
Matches: 253, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
324 3 0.01
325 243 0.96
326 7 0.03
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (325 bp):
TCTTCCATGTCTCGCGATGGCGGCAAAATTTTTGGCCTCCACCTGAACTACAGTAACACTAGATC
CAATTTGTACAATTCCACCATTGCGAACACTATCAACGACACCTTCACGTCCCATAATTTCTGAT
TGGCCAACAATTTCGACGAAATGCAAGATATGATATCGGTGCCAACACATGACATCCATTCAAAC
TGAAGTGCACAATTGTAAATTCCGTTATAGACAGAATTTTATTTTACAAATAATTGCATAATTAA
TATAGGTTCAAAAGAATAAGTAACTAACCTCGCCTTCCAAGTGTTGATCTAACAGCAGCCTAATA
Found at i:49400298 original size:22 final size:22
Alignment explanation
Indices: 49400253--49400322 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
49400243 GTACTACCTC
*
49400253 AACAGGACAGCTCA-AGGCCGTA
1 AACAGGACAGCACATA-GCCGTA
*
49400275 AACAGGACAGCACATAGCCATA
1 AACAGGACAGCACATAGCCGTA
* *
49400297 AATAGGACAACACATAGCCGTA
1 AACAGGACAGCACATAGCCGTA
49400319 AACA
1 AACA
49400323 TCGCAGCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.44, C:0.26, G:0.20, T:0.10
Consensus pattern (22 bp):
AACAGGACAGCACATAGCCGTA
Found at i:49400712 original size:41 final size:41
Alignment explanation
Indices: 49400653--49400769 Score: 180
Period size: 41 Copynumber: 2.9 Consensus size: 41
49400643 AAAGCCACCG
* * *
49400653 GTGGATCCACGATTGTCAAGCAACCATGTGATCCTTAATCA
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCA
**
49400694 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATTG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCA
*
49400735 GTGGATCCACGGTCGTCAAGCAACCATACGATCCT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
49400770 CAATTTCTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCA
Found at i:49401172 original size:27 final size:27
Alignment explanation
Indices: 49401038--49401462 Score: 282
Period size: 27 Copynumber: 15.7 Consensus size: 27
49401028 ATCTACAATC
* *
49401038 CAAGGGTATTTCGATAATTTTGCAAAAT
1 CAAGGGTATTTCGGTAATTTTAC-AAAT
* ** **
49401066 -AATGGTATTTCTATAATTTTTGAAAGT
1 CAAGGGTATTTCGGTAATTTTACAAA-T
* * * **
49401093 CAAGGGAATTTCTGTAATTCTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *** *
49401120 CAGGGGTATTTTTATAATTTTTCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
49401147 CAAGGGTATTTCGGTAACTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
49401174 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
49401201 -AGAGGGTATTTTGGTAATTTTACAAGT
1 CA-AGGGTATTTCGGTAATTTTACAAAT
** **
49401228 CAAGGGTATTTTAGTAATTTTACAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
49401255 CGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * **
49401282 CGAGGGTATTTCGGTAATTTCACAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
49401309 CAAAGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * * *
49401336 CAGGGGTATTTTGGTAATCTTAAAAAA
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
49401363 CCAGAGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTACAAAT
* * *
49401390 CTAAGGGTATTTTGGTAATTTTTCTAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
** * * ** *
49401418 TGAGGGTATTTTGGTACTTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
49401445 CAAGGGTA-TTCAGTAATT
1 CAAGGGTATTTCGGTAATT
49401463 CTACCCGCAG
Statistics
Matches: 319, Mismatches: 71, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
26 11 0.03
27 266 0.83
28 42 0.13
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:49404286 original size:22 final size:22
Alignment explanation
Indices: 49404257--49404310 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
49404247 ACAGCTAAAG
* *
49404257 GCCATAAATAAGACAGCACATA
1 GCCATAAACAAGACAACACATA
* *
49404279 GCCGTAAACAGGACAACACATA
1 GCCATAAACAAGACAACACATA
49404301 GCCATAAACA
1 GCCATAAACA
49404311 TCGCAGCAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.15, T:0.11
Consensus pattern (22 bp):
GCCATAAACAAGACAACACATA
Found at i:49404781 original size:41 final size:40
Alignment explanation
Indices: 49404719--49404841 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 40
49404709 TAAAAGCCAC
* *
49404719 CGGTGGATCTACGGTAGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTA-TCAAGCAACCATGCGATCCTCAAT
* *
49404760 CGGTGGATCCACAGTCATCAAGTAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGT-ATCAAGCAACCATGCGATCCTCAAT
*
49404801 CGGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGG-TATCAAGCAACCATGCGATCCTCAAT
49404842 TTCTTCCTCC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 71 0.97
42 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGTGGATCCACGGTATCAAGCAACCATGCGATCCTCAAT
Found at i:49405168 original size:28 final size:27
Alignment explanation
Indices: 49405101--49405307 Score: 122
Period size: 27 Copynumber: 7.7 Consensus size: 27
49405091 GGTAAATCTA
* *
49405101 CAAACCAAGGGTATTTCGTTAATTTTG
1 CAAATCAAGGGTATTTCTTTAATTTTG
* *
49405128 CAAACCAATGGTATTTCTTTAATTTTTG
1 CAAATCAAGGGTATTTCTTTAA-TTTTG
*
49405156 -AAAGTTAAGGGTATTT-TTGTAATTTTG
1 CAAA-TCAAGGGTATTTCTT-TAATTTTG
* * *
49405183 TAAATCAGGGGTATTTCTGTT-ATTTTC
1 CAAATCAAGGGTATTTCT-TTAATTTTG
* * * *
49405210 CAAATTAAGGGTATTT-TGATAACTTTC
1 CAAATCAAGGGTATTTCT-TTAATTTTG
* * *
49405237 CAAAT-TAGGGTATTT-TGGTAATTTTA
1 CAAATCAAGGGTATTTCT-TTAATTTTG
* * *
49405263 CAAATCGAGGGTATTT-TAGTAATTTTA
1 CAAATCAAGGGTATTTCT-TTAATTTTG
* *
49405290 CAATTCGAGGGTATTTCT
1 CAAATCAAGGGTATTTCT
49405308 ACCTTATAGG
Statistics
Matches: 151, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
26 25 0.17
27 102 0.68
28 23 0.15
29 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTTTAATTTTG
Found at i:49405253 original size:26 final size:26
Alignment explanation
Indices: 49405206--49405279 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
49405196 TTTCTGTTAT
49405206 TTTCCAAATTAAGGGTATTTTGATAAC
1 TTTCCAAATT-AGGGTATTTTGATAAC
* *
49405233 TTTCCAAATTAGGGTATTTTGGTAAT
1 TTTCCAAATTAGGGTATTTTGATAAC
* *
49405259 TTTACAAATCGAGGGTATTTT
1 TTTCCAAAT-TAGGGTATTTT
49405280 AGTAATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (26 bp):
TTTCCAAATTAGGGTATTTTGATAAC
Found at i:49405261 original size:53 final size:53
Alignment explanation
Indices: 49405137--49405307 Score: 141
Period size: 53 Copynumber: 3.2 Consensus size: 53
49405127 GCAAACCAAT
* ** * **
49405137 GGTATTTCTTTAATTTTTGAAAGTTAAGGGTATTTTTGTAATTTTGTAAATCAGG
1 GGTATTTCTGTAATTTTACAAA-TTAAGGGTA-TTTTGTAACTTTCCAAATCAGG
* * *
49405192 GGTATTTCTGTTATTTTCCAAATTAAGGGTATTTTGATAACTTTCCAAATTA-G
1 GGTATTTCTGTAATTTTACAAATTAAGGGTATTTTG-TAACTTTCCAAATCAGG
** * * *
49405245 GGTATTT-TGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATTC-GAG
1 GGTATTTCT-GTAATTTTACAAATTAAGGGTATTTT-GTAACTTTCCAAATCAG-G
49405299 GGTATTTCT
1 GGTATTTCT
49405308 ACCTTATAGG
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
52 1 0.01
53 45 0.48
54 29 0.31
55 19 0.20
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (53 bp):
GGTATTTCTGTAATTTTACAAATTAAGGGTATTTTGTAACTTTCCAAATCAGG
Found at i:49405279 original size:27 final size:27
Alignment explanation
Indices: 49405163--49405305 Score: 130
Period size: 27 Copynumber: 5.3 Consensus size: 27
49405153 TTGAAAGTTA
* **
49405163 AGGGTATTTTTGTAATTTTGTAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* * **
49405189 AGGGGTATTTCT-GTTATTTTCCAAATTA
1 A-GGGTATTT-TGGTAATTTTACAAATCG
* * * *
49405217 AGGGTATTTTGATAACTTTCCAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
49405243 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
49405270 AGGGTATTTTAGTAATTTTACAATTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
49405297 AGGGTATTT
1 AGGGTATTT
49405306 CTACCTTATA
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.24
27 72 0.73
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.45
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:49405345 original size:27 final size:27
Alignment explanation
Indices: 49405304--49405370 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
49405294 TCGAGGGTAT
* *
49405304 TTCTACCTTATAGGGGCATTTCAATAA
1 TTCTACCCTACAGGGGCATTTCAATAA
* *
49405331 TTCTACCCTACAGGGGTATTTCAGTAA
1 TTCTACCCTACAGGGGCATTTCAATAA
* *
49405358 TACTAGCCTACAG
1 TTCTACCCTACAG
49405371 ATATGAGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (27 bp):
TTCTACCCTACAGGGGCATTTCAATAA
Found at i:49407925 original size:15 final size:16
Alignment explanation
Indices: 49407905--49407939 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49407895 CATCATCAGA
49407905 AAAATTA-AAAAAATT
1 AAAATTACAAAAAATT
*
49407920 AAAATTACAAAAATTT
1 AAAATTACAAAAAATT
49407936 AAAA
1 AAAA
49407940 ATGTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTACAAAAAATT
Found at i:49410224 original size:40 final size:40
Alignment explanation
Indices: 49410165--49410333 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
49410155 CGGGACTTTA
* * *
49410165 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
49410205 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
49410245 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
49410285 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
49410325 CCCGGATAT
1 CCCGGATAT
49410334 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:49418229 original size:40 final size:40
Alignment explanation
Indices: 49418170--49418300 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
49418160 CGGGACTTTA
* * *
49418170 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
49418210 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
49418250 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
49418290 CCCGGATATAA
1 CCCGGATATAA
49418301 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:49418333 original size:39 final size:40
Alignment explanation
Indices: 49418187--49418337 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
49418177 ATCACGATTT
* * * *
49418187 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
49418227 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
49418267 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
49418306 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
49418338 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:49420470 original size:21 final size:22
Alignment explanation
Indices: 49420446--49420502 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
49420436 ATTAAAATGG
*
49420446 AAAATTATTAAAAATTA-TAAA
1 AAAATTATTAAAAATAAGTAAA
* *
49420467 AAAATT-GTAAAAAAAAGTAAA
1 AAAATTATTAAAAATAAGTAAA
*
49420488 AAGATTATTAAAAAT
1 AAAATTATTAAAAAT
49420503 GAAACTAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.25
21 15 0.54
22 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
AAAATTATTAAAAATAAGTAAA
Found at i:49420487 original size:57 final size:56
Alignment explanation
Indices: 49420426--49420537 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 56
49420416 CTATAAAAGT
*
49420426 GTAAAAA-AATATT-AAAATGGAAA-ATTATTAAAAATTATAAAAAAATTGTAAAAAAAA
1 GTAAAAAGAATATTAAAAAT-GAAACAGTATT-AAAATTAT--AAAAATTGTAAAAAAAA
* *
49420483 GTAAAAAGATTATTAAAAATGAAACTAGTATTAAAATTATTAAAATTGTAAAAAA
1 GTAAAAAGAATATTAAAAATGAAAC-AGTATTAAAATTATAAAAATTGTAAAAAA
49420538 CTCAAAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
57 21 0.44
58 9 0.19
59 13 0.27
60 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (56 bp):
GTAAAAAGAATATTAAAAATGAAACAGTATTAAAATTATAAAAATTGTAAAAAAAA
Found at i:49425122 original size:20 final size:20
Alignment explanation
Indices: 49425085--49425122 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49425075 ACTTCTTCAC
* *
49425085 TTACTTACTTACTTAAATAT
1 TTACTTACTTAATCAAATAT
49425105 TTACTTACTTAATCAAAT
1 TTACTTACTTAATCAAAT
49425123 TTATTAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACTTACTTAATCAAATAT
Found at i:49425506 original size:108 final size:110
Alignment explanation
Indices: 49425360--49425559 Score: 334
Period size: 108 Copynumber: 1.8 Consensus size: 110
49425350 ATCCTTTTGA
* *
49425360 AACTTATCATTGCCATGTCTCGACATGGTCTTACATGGTGTCCTTGCCTTATG-AA-CTCACCAA
1 AACTTATCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
49425423 -TGCCATGCCTTGGCATGGTCTTACATGCGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGCGACCTTTGCCTTATAGT
* *
49425468 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
49425533 TGCCATGCCTTGGCATGGTCTTACATG
66 TGCCATGCCTTGGCATGGTCTTACATG
49425560 GTATTATTGA
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.59
109 7 0.08
110 27 0.32
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTATCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGCGACCTTTGCCTTATAGT
Found at i:49425561 original size:55 final size:54
Alignment explanation
Indices: 49425313--49425563 Score: 245
Period size: 55 Copynumber: 4.7 Consensus size: 54
49425303 ACACGGGTAC
* * * *
49425313 CTTACC-ATTACCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
49425362 CTTATC-ATTGCCATGTCTCGACATGGTCTTACATGGTGTCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * *
49425415 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGCG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* *
49425470 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
49425523 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTAT
49425564 TATTGAACCC
Statistics
Matches: 166, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
49 36 0.22
52 4 0.02
53 40 0.24
54 14 0.08
55 70 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:49430520 original size:39 final size:39
Alignment explanation
Indices: 49430255--49430516 Score: 359
Period size: 39 Copynumber: 6.7 Consensus size: 39
49430245 TAATTGAGGA
* * * *
49430255 TTATAACCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
*
49430293 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
49430332 TTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
49430371 TTATGTCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
49430410 TTATATTCGGGCTAAGTCCCGAAGGTATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
49430449 TTATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
49430488 TTATATCCGGTCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
49430517 TGTGTTGGAA
Statistics
Matches: 202, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
38 26 0.13
39 174 0.86
40 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:49433753 original size:13 final size:12
Alignment explanation
Indices: 49433737--49433775 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
49433727 TATGGTTTCT
49433737 ATTTTAAGTTTTA
1 ATTTTAA-TTTTA
49433750 ATTTTAATTTTA
1 ATTTTAATTTTA
*
49433762 GTCTTTAATTTTA
1 AT-TTTAATTTTA
49433775 A
1 A
49433776 ACTCACTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (12 bp):
ATTTTAATTTTA
Found at i:49433761 original size:19 final size:19
Alignment explanation
Indices: 49433737--49433775 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
49433727 TATGGTTTCT
49433737 ATTTTAAGT-TTTAATTTTA
1 ATTTT-AGTCTTTAATTTTA
49433756 ATTTTAGTCTTTAATTTTA
1 ATTTTAGTCTTTAATTTTA
49433775 A
1 A
49433776 ACTCACTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTAGTCTTTAATTTTA
Found at i:49433774 original size:6 final size:6
Alignment explanation
Indices: 49433737--49433775 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
49433727 TATGGTTTCT
*
49433737 ATTTTA AGTTTTA ATTTTA ATTTTA GTCTTTA ATTTTA A
1 ATTTTA A-TTTTA ATTTTA ATTTTA AT-TTTA ATTTTA A
49433776 ACTCACTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:49433972 original size:24 final size:23
Alignment explanation
Indices: 49433917--49433973 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
49433907 CAACACTCAT
*
49433917 CAAATCTTTTTATATAATTTTTA
1 CAAATTTTTTTATATAATTTTTA
*
49433940 -ATTAGTTTTTTTATATAATTGTTTA
1 CA--AATTTTTTTATATAATT-TTTA
49433965 CAAATTTTT
1 CAAATTTTT
49433974 AATAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
22 1 0.04
24 21 0.78
25 4 0.15
26 1 0.04
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (23 bp):
CAAATTTTTTTATATAATTTTTA
Found at i:49433984 original size:11 final size:12
Alignment explanation
Indices: 49433923--49433984 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
49433913 TCATCAAATC
49433923 TTTTTATATAAT
1 TTTTTATATAAT
* *
49433935 TTTTAAT-TAGTT
1 TTTTTATATA-AT
49433947 TTTTTATATAAT
1 TTTTTATATAAT
* *
49433959 TGTTTACA-AA-
1 TTTTTATATAAT
49433969 TTTTTA-ATAAT
1 TTTTTATATAAT
49433980 TTTTT
1 TTTTT
49433985 TCCATTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
9 1 0.03
10 7 0.18
11 9 0.23
12 20 0.51
13 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:49433993 original size:21 final size:22
Alignment explanation
Indices: 49433946--49433997 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
49433936 TTTAATTAGT
49433946 TTTTTTATATAATTGTTTACAA
1 TTTTTTATATAATTGTTTACAA
* * * *
49433968 ATTTTTA-ATAATTTTTTTCCA
1 TTTTTTATATAATTGTTTACAA
49433989 -TTTTTATAT
1 TTTTTTATAT
49433998 TGTTTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 6 0.24
21 13 0.52
22 6 0.24
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTTTATATAATTGTTTACAA
Found at i:49434069 original size:19 final size:17
Alignment explanation
Indices: 49434035--49434069 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
49434025 TTGTAATACT
49434035 CTTTTTATAAGTTTTAC
1 CTTTTTATAAGTTTTAC
49434052 CTTTTTAGTAATGTTTTA
1 CTTTTTA-TAA-GTTTTA
49434070 TATATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (17 bp):
CTTTTTATAAGTTTTAC
Found at i:49442233 original size:39 final size:39
Alignment explanation
Indices: 49442186--49442368 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
49442176 AATGTTCGAG
49442186 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49442225 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
49442264 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
49442303 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
49442343 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
49442369 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:49447555 original size:80 final size:80
Alignment explanation
Indices: 49447471--49447619 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
49447461 TATGGTAACC
* * * *
49447471 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49447535 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49447551 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49447616 CCGG
66 CCGG
49447620 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49447561 original size:40 final size:38
Alignment explanation
Indices: 49447512--49447619 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
49447502 ATCACGATTT
*
49447512 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
49447552 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
49447592 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49447620 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:49455670 original size:80 final size:80
Alignment explanation
Indices: 49455586--49455734 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
49455576 TATGGTAACC
* * * *
49455586 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49455650 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49455666 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49455731 CCGG
66 CCGG
49455735 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49455676 original size:40 final size:38
Alignment explanation
Indices: 49455627--49455734 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
49455617 ATCACGATTT
*
49455627 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
49455667 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
49455707 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49455735 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:49461008 original size:53 final size:53
Alignment explanation
Indices: 49460945--49461051 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
49460935 TCCAAGTAAG
49460945 ACGTGTCATTATAAAGAAATCATCCATCTTCAAAACTAATCCTAGTGTAAACT
1 ACGTGTCATTATAAAGAAATCATCCATCTTCAAAACTAATCCTAGTGTAAACT
49460998 ACGTGTCATTATAAAGAAATCATCCATCTTCAAAACTAATCCTAGTGTAAACT
1 ACGTGTCATTATAAAGAAATCATCCATCTTCAAAACTAATCCTAGTGTAAACT
49461051 A
1 A
49461052 TGTAAAACCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
ACGTGTCATTATAAAGAAATCATCCATCTTCAAAACTAATCCTAGTGTAAACT
Found at i:49465445 original size:27 final size:27
Alignment explanation
Indices: 49465402--49465546 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
49465392 CCCCAAAATT
* * *
49465402 GGTAAAATAACCATAATGCCGCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
49465429 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
49465456 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
49465483 GGTAAAATTG-CCGTAATTCCCCTGTAG
1 GGTAAAA-TGACCGTAATGCCCCTGTAG
* ** * *
49465510 GATAAAATGACCGTAATATCCTTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
49465537 GGTAAAATGA
1 GGTAAAATGA
49465547 TGATTATGCC
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 96 0.96
28 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:49468238 original size:46 final size:48
Alignment explanation
Indices: 49468130--49468294 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 48
49468120 AAGCTGACGC
* * * *
49468130 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
* *
49468178 CATGTCCCAGACATGTCTTACACTAGCTT-T-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
* * * * * *
49468224 CATGTCCTAGACATGTCTTACACTGGC-TCT-CAATGT---GGCCGATC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTAC-ATCTCAAGGCCAATG
49468268 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
49468295 ACACATTTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 30 0.30
45 1 0.01
46 38 0.38
47 3 0.03
48 28 0.28
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCAAGGCCAATG
Found at i:49470097 original size:123 final size:122
Alignment explanation
Indices: 49469878--49470100 Score: 302
Period size: 123 Copynumber: 1.8 Consensus size: 122
49469868 GAATTATGTG
* * * * * * * * *
49469878 AAATGAAGTATGGATGTGTATTGATTATTGATTATGTGTGTATGAGTATTTGAATGATACCCGGG
1 AAATGAAATATGAATGTCTAATGATTATTGATCATGTGGGCATGAGCAATTGAATGATACCCGGG
* * * *
49469943 CTAAGTCCCGAAGGCGATTATGCTTGTAATTATATTTGCTTTGAGCCTTAGTAACGA
66 CTAAATCCCGAAGACGATTATGCTGGAAATTATATTTGCTTTGAGCCTTAGTAACGA
*
49470000 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGGGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGAT-CATGTGGGCATGAGCAATTGAATGATACCCGG
*
49470065 GCTAAATCCCGAAGACGTTTATGCTGGAAATTATAT
65 GCTAAATCCCGAAGACGATTATGCTGGAAATTATAT
49470101 CCGGGTTAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
122 28 0.33
123 57 0.67
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAATATGAATGTCTAATGATTATTGATCATGTGGGCATGAGCAATTGAATGATACCCGGG
CTAAATCCCGAAGACGATTATGCTGGAAATTATATTTGCTTTGAGCCTTAGTAACGA
Found at i:49470222 original size:40 final size:40
Alignment explanation
Indices: 49470095--49470224 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
49470085 ATGCTGGAAA
* *
49470095 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
49470135 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
49470175 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
49470215 TTATATCCGG
1 TTATATCCGG
49470225 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:49474052 original size:27 final size:27
Alignment explanation
Indices: 49473988--49474469 Score: 269
Period size: 27 Copynumber: 17.9 Consensus size: 27
49473978 AATACTTTAG
* ** *
49473988 TTTACAAAATTACTGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTCGA
* * *
49474015 ATTGTAAAATTACCAAAGTACCCTCGA
1 TTTATAAAATTACCAAAATACCCTCGA
* ***
49474042 TTTATATAATTACC-GTTTAACCCTCGA
1 TTTATAAAATTACCAAAAT-ACCCTCGA
* ***** *
49474069 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTATAAAATTACCAAAATACCCTCGA
* * *****
49474096 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTATAAAATTACCAAAATACCCTCGA
* * * *
49474123 TTTACAAAATTACTAAAATACCATCGG
1 TTTATAAAATTACCAAAATACCCTCGA
*
49474150 TTTACAAAATTACCAAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCCTCGA
* *
49474177 -TCAGTAAAATTACCAAAATACCCTAG-
1 TTTA-TAAAATTACCAAAATACCCTCGA
* * * * *
49474203 TTTGTAAAATTGCTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTCGA
*
49474230 TTTATAAAATTA-CAAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTCGA
* *
49474256 TTTGTAAAATTACCAAAATACCC-CTA
1 TTTATAAAATTACCAAAATACCCTCGA
* *
49474282 GTTTATAAAATTACGAAAATACCACT-GG
1 -TTTATAAAATTACCAAAATACC-CTCGA
* * * *
49474310 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTCGA
* *
49474337 TTTGTAAAATTACCAAAATACCC-CTAA
1 TTTATAAAATTACCAAAATACCCTC-GA
* *
49474364 TTTACAAAGTTA-CAAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCCTCGA
* *** * *
49474390 CTTTTTAAAAATTATGGAAATACCATTGA
1 -TTTAT-AAAATTACCAAAATACCCTCGA
* * * *
49474419 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTCGA
* * * *
49474446 TTTGTAGATTTACCAAAACACCCT
1 TTTATAAAATTACCAAAATACCCT
49474470 TATAGGATGA
Statistics
Matches: 359, Mismatches: 81, Indels: 30
0.76 0.17 0.06
Matches are distributed among these distances:
26 59 0.16
27 277 0.77
28 13 0.04
29 10 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTCGA
Found at i:49474239 original size:80 final size:80
Alignment explanation
Indices: 49474114--49474386 Score: 336
Period size: 80 Copynumber: 3.4 Consensus size: 80
49474104 ATTACTGTTT
* * * * * * *
49474114 TACCCTCGATTTACAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTAG-TTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATT
*
49474179 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* *
49474195 TACCCTAGTTTGTAAAATTGCTAAAATACCCTTGGTTTATAAAATTA-CAAAATACCCTCAATTT
1 TACCCTAGTTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATTT
49474259 GTAAAATTACCAAAA
66 GTAAAATTACCAAAA
* * * *
49474274 TACCCCTAGTTTATAAAATTACGAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TA-CCCTAGTTTATAAAATTACTAAAATACC-CTTGGTTTATAAAATTACCAAAATACCCTCAAT
49474338 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* * *
49474355 TACCCCTAATTTACAAAGTTAC-AAAATACCCT
1 TA-CCCTAGTTTATAAAATTACTAAAATACCCT
49474387 CGACTTTTTA
Statistics
Matches: 169, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
79 32 0.19
80 79 0.47
81 58 0.34
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (80 bp):
TACCCTAGTTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:49474593 original size:27 final size:27
Alignment explanation
Indices: 49474502--49474593 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
49474492 ACCCCTATTA
*
49474502 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
49474529 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
49474556 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
49474583 GGTAAAATGAC
1 GGTAAAATGAC
49474594 GAATATGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:49475424 original size:26 final size:26
Alignment explanation
Indices: 49475389--49475576 Score: 231
Period size: 26 Copynumber: 7.3 Consensus size: 26
49475379 GAGGAAGTGA
*
49475389 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
49475415 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
49475441 AAAAGGGCTTATGCCTTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
49475467 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
49475493 AAAAGGGCCTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
49475519 AAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
49475544 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
49475567 AAAAGAGGCT
1 AAAAG-GGCT
49475577 AGGCCTCCAA
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
23 5 0.04
24 7 0.05
25 28 0.20
26 98 0.71
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:49475466 original size:52 final size:52
Alignment explanation
Indices: 49475389--49475576 Score: 285
Period size: 52 Copynumber: 3.7 Consensus size: 52
49475379 GAGGAAGTGA
49475389 AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
49475441 AAAAGGGCTTATGCCTTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* * * *
49475493 AAAAGGGCCTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
49475544 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCTCAGTTTATTGAAAAG-GGCT
49475577 AGGCCTCCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
48 5 0.04
49 9 0.07
50 8 0.06
51 23 0.18
52 83 0.65
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:49475817 original size:31 final size:31
Alignment explanation
Indices: 49475782--49475858 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
49475772 CGTTTACAGT
49475782 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
49475813 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
49475844 AAAAGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
49475859 GTAACCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:49477338 original size:38 final size:38
Alignment explanation
Indices: 49477290--49477388 Score: 126
Period size: 38 Copynumber: 2.6 Consensus size: 38
49477280 GAAATCCTGG
* * *
49477290 TTATAATTATTGTAATTATAATTTACGATCGAATATTA
1 TTATAGTTATTGTAATTATAATTTACGATCAAACATTA
* * *
49477328 TTATAGTTATTGTAATTGTAATTTTCGGTCAAACATTA
1 TTATAGTTATTGTAATTATAATTTACGATCAAACATTA
* *
49477366 TTATAGTTATGGTAATTTTAATT
1 TTATAGTTATTGTAATTATAATT
49477389 ATTAAATTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (38 bp):
TTATAGTTATTGTAATTATAATTTACGATCAAACATTA
Found at i:49478907 original size:12 final size:12
Alignment explanation
Indices: 49478856--49478908 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
49478846 TAAATATTAG
49478856 ATTAAATTTAAT
1 ATTAAATTTAAT
*
49478868 ATCAAATTT-AT
1 ATTAAATTTAAT
*
49478879 ATATAAACATTAA-
1 AT-TAAA-TTTAAT
49478892 ATTAAATTTAAT
1 ATTAAATTTAAT
49478904 ATTAA
1 ATTAA
49478909 GAAAATCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 8 0.24
12 20 0.61
13 4 0.12
14 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAAATTTAAT
Found at i:49480464 original size:17 final size:17
Alignment explanation
Indices: 49480442--49480477 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49480432 AATGCTCACT
49480442 TTGATTCTTTTACGGGA
1 TTGATTCTTTTACGGGA
49480459 TTGATTCTTTTACGGGA
1 TTGATTCTTTTACGGGA
49480476 TT
1 TT
49480478 ACGGACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (17 bp):
TTGATTCTTTTACGGGA
Found at i:49482858 original size:50 final size:51
Alignment explanation
Indices: 49482801--49482937 Score: 152
Period size: 51 Copynumber: 2.7 Consensus size: 51
49482791 AAAAACATAA
** *
49482801 ATTCATTTCCAGGTCATTTTCATTT-T-CATTTTCATTTAGGAGAAAACCAC
1 ATTCATTTCCAAATCA-TTCCATTTCTCCATTTTCATTTAGGAGAAAACCAC
* * *
49482851 ATTCATTTCCAAATGATTCCATTTCTCCATTTTCATTTTGGAGAAAACCAT
1 ATTCATTTCCAAATCATTCCATTTCTCCATTTTCATTTAGGAGAAAACCAC
* * **
49482902 AATCATTTGCAAATGTTTCTCATTTCTCCATTTTCA
1 ATTCATTTCCAAATCATTC-CATTTCTCCATTTTCA
49482938 GCATTTCAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 7 0.09
50 14 0.19
51 38 0.51
52 16 0.21
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (51 bp):
ATTCATTTCCAAATCATTCCATTTCTCCATTTTCATTTAGGAGAAAACCAC
Found at i:49482883 original size:51 final size:52
Alignment explanation
Indices: 49482820--49482937 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
49482810 CAGGTCATTT
*
49482820 TCATTT-T-CATTTTCATTTAGGAGAAAACCACATTCATTTCCAAATGATTC
1 TCATTTCTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTC
* * * *
49482870 -CATTTCTCCATTTTCATTTTGGAGAAAACCATAATCATTTGCAAATGTTTC
1 TCATTTCTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTC
49482921 TCATTTCTCCATTTTCA
1 TCATTTCTCCATTTTCA
49482938 GCATTTCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 5 0.08
50 1 0.02
51 38 0.63
52 16 0.27
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (52 bp):
TCATTTCTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGATTC
Found at i:49485662 original size:24 final size:24
Alignment explanation
Indices: 49485611--49485753 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
49485601 GCTTTATCAT
*
49485611 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
49485636 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
49485660 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
49485683 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
49485707 ATAACTGGGCCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
49485731 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49485754 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 74 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49485690 original size:47 final size:48
Alignment explanation
Indices: 49485611--49485752 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
49485601 GCTTTATCAT
* *
49485611 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
49485660 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
* *
49485707 ATAACTGGGCCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
49485753 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:49485711 original size:71 final size:72
Alignment explanation
Indices: 49485610--49485753 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
49485600 TGCTTTATCA
* *
49485610 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGCCAAAAGCCCTTTCAATAACTGGGGCATAA
49485675 GCCCTTT
66 GCCCTTT
* * **
49485682 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGCCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGCCAAAAGCCCTTTCAATAACTGGGGCATA
49485745 AGCCCTTT
65 AGCCCTTT
49485753 T
1 T
49485754 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGCCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:49485828 original size:20 final size:20
Alignment explanation
Indices: 49485803--49485863 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
49485793 TTATGATTAC
49485803 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49485823 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
49485843 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
49485863 A
1 A
49485864 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49485938 original size:25 final size:25
Alignment explanation
Indices: 49485906--49485953 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49485896 ATACATAAAC
* *
49485906 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACGGTCATTTTTA
49485931 CCTAGGGGTAAAACGGTCATTTT
1 CCTAGGGGTAAAACGGTCATTTT
49485954 CATGGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACGGTCATTTTTA
Found at i:49487195 original size:27 final size:27
Alignment explanation
Indices: 49487095--49487178 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
49487085 GGGCATATTC
* *
49487095 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
49487122 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49487149 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49487176 GTC
1 GTC
49487179 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:49487270 original size:27 final size:27
Alignment explanation
Indices: 49487240--49487291 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49487230 GTAAATCTAC
49487240 AAACCAAAAGTATTTC-AGTAATTTTGT
1 AAACCAAAAGTATTTCTA-TAATTTTGT
**
49487267 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAAGTATTTCTATAATTTT
49487292 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (27 bp):
AAACCAAAAGTATTTCTATAATTTTGT
Found at i:49487440 original size:27 final size:27
Alignment explanation
Indices: 49487249--49487496 Score: 151
Period size: 27 Copynumber: 9.1 Consensus size: 27
49487239 CAAACCAAAA
* * *
49487249 GTATTTCAGTAATTTTGTAAACCAATG
1 GTATTTTAGTAATTTTGTAAATCAAGG
49487276 GTATTTCTA-TAATTTT-TAGAAAGTCAAGG
1 GTATTT-TAGTAATTTTGT--AAA-TCAAGG
* *
49487305 GTATTTCT-GTAACTTTGTAAATCAGGG
1 GTATTT-TAGTAATTTTGTAAATCAAGG
* ** **
49487332 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
** *** **
49487359 GTATTTCGGTAATTTAACAAGCCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
* ** *
49487386 GTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*
49487413 GTATTTTAGTAATTTTGTAAATCGAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*** *
49487440 GTAAAATAGTAATTCTGTAAATCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*** * *
49487467 GTAAAATAGTAATTCTATAAATCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
49487494 GTA
1 GTA
49487497 AAACAGTAAT
Statistics
Matches: 183, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 155 0.85
28 7 0.04
29 18 0.10
30 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
GTATTTTAGTAATTTTGTAAATCAAGG
Found at i:49487441 original size:54 final size:54
Alignment explanation
Indices: 49487217--49487442 Score: 202
Period size: 54 Copynumber: 4.1 Consensus size: 54
49487207 TTTCATCCTA
* * * **
49487217 CAAGGGTGTTTTGGTAAATCTACAAACCAAAAGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
* * * * * * *
49487271 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTCAGTAATTTTGTAAAC
* *** * *** *
49487327 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTAACAAGC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
* *
49487381 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
*
49487435 CGAGGGTA
1 CAAGGGTA
49487443 AAATAGTAAT
Statistics
Matches: 131, Mismatches: 37, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
54 81 0.62
55 16 0.12
56 34 0.26
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:49487452 original size:54 final size:54
Alignment explanation
Indices: 49487394--49487617 Score: 139
Period size: 54 Copynumber: 4.1 Consensus size: 54
49487384 GGGTATTTTG
* *** * * * *
49487394 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
** *
49487448 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
* * * ** * *
49487502 GTAATTC-AGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAA-GGTAAAAC-
1 GTAATTCTA-CAAACCAAGGGTAAAATAGTAATTCTATAAATC-AAGGGTAAAACA
* ** * * ** * * * *
49487555 GATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACA
1 G-TAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
49487610 GTAATTCT
1 GTAATTCT
49487618 GTAAATTGAG
Statistics
Matches: 138, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
53 2 0.01
54 133 0.96
55 3 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
Found at i:49487466 original size:81 final size:81
Alignment explanation
Indices: 49487394--49487623 Score: 216
Period size: 81 Copynumber: 2.8 Consensus size: 81
49487384 GGGTATTTTG
* **** ** *
49487394 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCAGTAAATCGAGGGTAAAACAGTAATTCTGTA
49487459 AATCAAGGGTAAAATA
66 AATCAAGGGTAAAATA
* * *
49487475 GTAATTCTATAAATCAAGGGTAAAACAGTAATTCAGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCAGTAAATCGAGGGTAAAACAGTAATTCTGTA
* *
49487540 AGTCGAA-GGTAAAA-C
66 AATC-AAGGGTAAAATA
* ** * * * *
49487555 GATAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAAT-TAGGGGTAAAACAGTAATTCT
1 G-TAATTCTACAAACCAAGGGTAAAACAGTAATTCA-GTAAATCGA-GGGTAAAACAGTAATTCT
49487618 GTAAAT
63 GTAAAT
49487624 TGAGGGTACT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.02
81 120 0.96
82 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCAGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAATA
Found at i:49487630 original size:27 final size:27
Alignment explanation
Indices: 49487420--49487631 Score: 241
Period size: 27 Copynumber: 7.9 Consensus size: 27
49487410 AGGGTATTTT
* *
49487420 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49487447 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49487474 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49487501 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
49487528 GGTAATTCTGTAAGTCGAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49487555 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
49487582 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
*
49487609 AGTAATTCTGTAAATTGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
49487632 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 159 0.98
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49487658 original size:27 final size:27
Alignment explanation
Indices: 49487628--49487726 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
49487618 GTAAATTGAG
*
49487628 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
49487655 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
49487682 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
49487708 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
49487727 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:49487683 original size:54 final size:54
Alignment explanation
Indices: 49487620--49487726 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
49487610 GTAATTCTGT
* * *
49487620 AAATTGAGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGTAAATTTAC
* * *
49487674 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAAATTTA
49487727 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAAATTTAC
Found at i:49487740 original size:27 final size:27
Alignment explanation
Indices: 49487637--49487741 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
49487627 GGGTACTTTG
* * *
49487637 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
49487664 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
49487691 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
49487718 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
49487742 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Done.