Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 61 of 297
Found at i:21618147 original size:30 final size:30
Alignment explanation
Indices: 21618113--21618173 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21618103 TTCCCGAGCC
21618113 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
21618143 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21618173 T
1 T
21618174 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:21626342 original size:8 final size:9
Alignment explanation
Indices: 21626312--21626341 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21626302 ATGGTAAAAA
21626312 GTTTTGGGT
1 GTTTTGGGT
21626321 GTTTTGGG-
1 GTTTTGGGT
21626329 GTTTTGGGT
1 GTTTTGGGT
21626338 GTTT
1 GTTT
21626342 GAAGCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.00, G:0.43, T:0.57
Consensus pattern (9 bp):
GTTTTGGGT
Found at i:21627672 original size:12 final size:13
Alignment explanation
Indices: 21627655--21627686 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
21627645 GCAAATGTTA
21627655 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
21627667 AGTTTTGATGCAT
1 AGTTTTGATGCAT
21627680 -GTTTTGA
1 AGTTTTGA
21627687 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:21629916 original size:24 final size:24
Alignment explanation
Indices: 21629889--21629945 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 24
21629879 GTTTTCCTGC
*
21629889 TGAACTGATGCTTTTACCTTTCGA
1 TGAACTGATGCTATTACCTTTCGA
*
21629913 TGAATATCTGATGCTATTGCCTTTCGA
1 TG-A-A-CTGATGCTATTACCTTTCGA
*
21629940 CGAACT
1 TGAACT
21629946 TGATATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
24 4 0.15
25 2 0.07
26 2 0.07
27 19 0.70
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (24 bp):
TGAACTGATGCTATTACCTTTCGA
Found at i:21634739 original size:12 final size:13
Alignment explanation
Indices: 21634722--21634753 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
21634712 GCAAATGTTA
21634722 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
21634734 AGTTTTGATGCAT
1 AGTTTTGATGCAT
21634747 -GTTTTGA
1 AGTTTTGA
21634754 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:21639064 original size:22 final size:23
Alignment explanation
Indices: 21639025--21639067 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21639015 AAAGTCCTAC
*
21639025 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
21639048 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
21639068 TGTAGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:21646224 original size:13 final size:14
Alignment explanation
Indices: 21646206--21646237 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
21646196 GGTCTACTTA
21646206 ACTGAACTGGATT-
1 ACTGAACTGGATTC
21646219 ACTGAACTGGATTC
1 ACTGAACTGGATTC
21646233 ACTGA
1 ACTGA
21646238 TGGCATAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (14 bp):
ACTGAACTGGATTC
Found at i:21650957 original size:40 final size:40
Alignment explanation
Indices: 21650907--21651218 Score: 462
Period size: 40 Copynumber: 7.8 Consensus size: 40
21650897 ACACATCACA
* * *
21650907 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
* * * * *
21650947 AGTACGAATGCTCTTCGGGACTTAACCCTGATATAACTCC
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
*
21650987 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAATACC
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
* * *
21651027 AGCACGTATGCTCTTCGAGACTTAGCCCTGATATAACTCC
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
*
21651067 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAATACC
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
* * *
21651107 AGCACGTATGCTCTTCGAGACTTAGCCCTGATATAACTCC
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
21651147 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
* *
21651187 AGCACGTATGCTCTTCGGGACTTAGCCCGGAT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGAT
21651219 CATATATAAC
Statistics
Matches: 243, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 243 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACC
Found at i:21651049 original size:80 final size:80
Alignment explanation
Indices: 21650907--21651214 Score: 526
Period size: 80 Copynumber: 3.9 Consensus size: 80
21650897 ACACATCACA
* * * * * * *
21650907 AGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACTAGTACGAATGCTCTTCGGGACTTAA
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAG
21650972 CCCTGATATAACTCC
66 CCCTGATATAACTCC
*
21650987 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAATACCAGCACGTATGCTCTTCGAGACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAG
21651052 CCCTGATATAACTCC
66 CCCTGATATAACTCC
*
21651067 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAATACCAGCACGTATGCTCTTCGAGACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAG
21651132 CCCTGATATAACTCC
66 CCCTGATATAACTCC
*
21651147 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGGACTTAG
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAG
21651212 CCC
66 CCC
21651215 GGATCATATA
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 218 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (80 bp):
AGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGAGACTTAG
CCCTGATATAACTCC
Found at i:21651366 original size:48 final size:48
Alignment explanation
Indices: 21651295--21651390 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
21651285 ATTACTTGAA
21651295 TACAAACACAACATGCTTATCGACCATTCAACTTTCAGTTCCATAGCC
1 TACAAACACAACATGCTTATCGACCATTCAACTTTCAGTTCCATAGCC
* * *
21651343 TACAAACACAACATGCTTATCGACTATTCAAGTTTCAGTTTCATAGCC
1 TACAAACACAACATGCTTATCGACCATTCAACTTTCAGTTCCATAGCC
21651391 ACATACAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.29
Consensus pattern (48 bp):
TACAAACACAACATGCTTATCGACCATTCAACTTTCAGTTCCATAGCC
Found at i:21652603 original size:37 final size:37
Alignment explanation
Indices: 21652550--21652652 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
21652540 CGAATAGTCC
*
21652550 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
21652587 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
21652624 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
21652653 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:21652851 original size:48 final size:48
Alignment explanation
Indices: 21652793--21652999 Score: 333
Period size: 48 Copynumber: 4.3 Consensus size: 48
21652783 ATATACACAC
* *
21652793 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21652841 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
21652889 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACGTGTACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
21652937 ATCTCATTCATATTTTACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21652985 ATCTCATATATATTT
1 ATCTCATACATATTT
21653000 TGTAACACCC
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:21657898 original size:40 final size:40
Alignment explanation
Indices: 21657861--21658303 Score: 506
Period size: 40 Copynumber: 11.1 Consensus size: 40
21657851 GGTTTAGCAT
* *
21657861 GGATATATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* * *
21657901 GGATACATCACTAGCACGAATGCTCCTCGGGACTTAGCCT
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
* * *
21657941 GGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
21657981 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
** * *
21658021 GGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 GGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCC
*
21658061 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
** * *
21658101 GGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 GGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCC
*
21658141 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
** * *
21658181 GGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 GGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCC
*
21658221 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
** * *
21658261 GGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 GGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCC
21658301 GGA
1 GGA
21658304 CATCATTCAA
Statistics
Matches: 343, Mismatches: 46, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
38 18 0.05
39 24 0.07
40 245 0.71
41 32 0.09
42 24 0.07
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
Found at i:21657946 original size:80 final size:80
Alignment explanation
Indices: 21657885--21658303 Score: 736
Period size: 80 Copynumber: 5.2 Consensus size: 80
21657875 CACGAATGCT
* * * *
21657885 CTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGACTTAG-CCTGGATAT-A
1 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC-GGATATGG
*
21657948 TCAC-TAGCACGAATGC
65 TCACTTAGCAC-AAAGC
*
21657964 TCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 -CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
21658029 TCACTTAGCACAAAGC
65 TCACTTAGCACAAAGC
21658045 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
21658110 CACTTAGCACAAAGC
66 CACTTAGCACAAAGC
21658125 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
21658190 CACTTAGCACAAAGC
66 CACTTAGCACAAAGC
21658205 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
21658270 CACTTAGCACAAAGC
66 CACTTAGCACAAAGC
21658285 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
21658304 CATCATTCAA
Statistics
Matches: 329, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
80 313 0.95
81 10 0.03
82 6 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGGT
CACTTAGCACAAAGC
Found at i:21658650 original size:29 final size:29
Alignment explanation
Indices: 21658611--21658689 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
21658601 CTTAATAATC
*
21658611 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
21658641 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
21658670 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21658690 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:21658732 original size:43 final size:43
Alignment explanation
Indices: 21658671--21658752 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
21658661 TGCATTTCAA
21658671 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
21658714 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACT
21658753 CTTCACTGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.21
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:21659362 original size:334 final size:334
Alignment explanation
Indices: 21658753--21659398 Score: 1292
Period size: 334 Copynumber: 1.9 Consensus size: 334
21658743 CGTGAACACT
21658753 CTTCACTGCCTTTTTACATTCGACAATTTCGTCTCTACATACATATAGACATATAGCAATACACA
1 CTTCACTGCCTTTTTACATTCGACAATTTCGTCTCTACATACATATAGACATATAGCAATACACA
21658818 TTAGTATATCATTTACATTACTTGAATACATACACAACATACTTATCGACCATTCAACTTCCAGT
66 TTAGTATATCATTTACATTACTTGAATACATACACAACATACTTATCGACCATTCAACTTCCAGT
21658883 TCCATAGCCACATACAGAAATCACATTTATAGTCATAACACTCCTTCAAAATTGCATCACTTATA
131 TCCATAGCCACATACAGAAATCACATTTATAGTCATAACACTCCTTCAAAATTGCATCACTTATA
21658948 CCCTTATAATTCAATCCAAATCGAAATTCAAATACGAGTACATGATACGTACCTGATCAACTTAA
196 CCCTTATAATTCAATCCAAATCGAAATTCAAATACGAGTACATGATACGTACCTGATCAACTTAA
21659013 TAATTTAGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGTGAAAACCAGCCA
261 TAATTTAGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGTGAAAACCAGCCA
21659078 CTCTATACG
326 CTCTATACG
21659087 CTTCACTGCCTTTTTACATTCGACAATTTCGTCTCTACATACATATAGACATATAGCAATACACA
1 CTTCACTGCCTTTTTACATTCGACAATTTCGTCTCTACATACATATAGACATATAGCAATACACA
21659152 TTAGTATATCATTTACATTACTTGAATACATACACAACATACTTATCGACCATTCAACTTCCAGT
66 TTAGTATATCATTTACATTACTTGAATACATACACAACATACTTATCGACCATTCAACTTCCAGT
21659217 TCCATAGCCACATACAGAAATCACATTTATAGTCATAACACTCCTTCAAAATTGCATCACTTATA
131 TCCATAGCCACATACAGAAATCACATTTATAGTCATAACACTCCTTCAAAATTGCATCACTTATA
21659282 CCCTTATAATTCAATCCAAATCGAAATTCAAATACGAGTACATGATACGTACCTGATCAACTTAA
196 CCCTTATAATTCAATCCAAATCGAAATTCAAATACGAGTACATGATACGTACCTGATCAACTTAA
21659347 TAATTTAGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAG
261 TAATTTAGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAG
21659399 CTTGCTACAG
Statistics
Matches: 312, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 312 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (334 bp):
CTTCACTGCCTTTTTACATTCGACAATTTCGTCTCTACATACATATAGACATATAGCAATACACA
TTAGTATATCATTTACATTACTTGAATACATACACAACATACTTATCGACCATTCAACTTCCAGT
TCCATAGCCACATACAGAAATCACATTTATAGTCATAACACTCCTTCAAAATTGCATCACTTATA
CCCTTATAATTCAATCCAAATCGAAATTCAAATACGAGTACATGATACGTACCTGATCAACTTAA
TAATTTAGGCATATCTAAATGAAGTTATATCGCAAATTCTCATAGTCAGAAGTGAAAACCAGCCA
CTCTATACG
Found at i:21665826 original size:29 final size:29
Alignment explanation
Indices: 21665793--21665859 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
21665783 CATGTGAACA
21665793 GGCCGTGTGCCTCACACGGCCTTAGACAC
1 GGCCGTGTGCCTCACACGGCCTTAGACAC
21665822 GGCCGTGTGCCTCACACGGCCTTAGACAC
1 GGCCGTGTGCCTCACACGGCCTTAGACAC
21665851 GGCCGTGTG
1 GGCCGTGTG
21665860 TCTAAGCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.15, C:0.36, G:0.31, T:0.18
Consensus pattern (29 bp):
GGCCGTGTGCCTCACACGGCCTTAGACAC
Found at i:21670630 original size:27 final size:26
Alignment explanation
Indices: 21670574--21670630 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
21670564 CAACCTTATC
* * *
21670574 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
21670600 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
21670627 CCTA
1 CCTA
21670631 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:21685390 original size:28 final size:28
Alignment explanation
Indices: 21685325--21685448 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
21685315 GAGATTCGCG
* * * *
21685325 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
21685354 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21685382 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21685410 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21685438 CTGAGTGTGCG
1 CTAAGTGTGCG
21685449 GACTTAATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 73 0.83
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21687979 original size:27 final size:27
Alignment explanation
Indices: 21687948--21688691 Score: 216
Period size: 27 Copynumber: 27.6 Consensus size: 27
21687938 TTACTTTACC
* *
21687948 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
21687975 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
*
21688002 AAATTAC-CCAATA-CCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
21688027 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* * *
21688054 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
*
21688081 AAATTAC-CCAATA-CCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
21688106 AAATTACTGAAATACCCTC-AGTTTGCA
1 AAATTACTCAAATACCCTCGA-TTTGTA
* * *
21688133 AAATTACTAAAATACCATCGATTTTATA
1 AAATTACTCAAATACCCTCGA-TTTGTA
* * **
21688161 AAATTACTGAAATA--CTACTATAAGATA
1 AAATTACTCAAATACCCT-CGATTTG-TA
* ** *
21688188 GAATTAC-CATTTTACCCTTGA-TTG-A
1 AAATTACTCA-AATACCCTCGATTTGTA
* **** * *
21688213 CAGAATTATTGTTTTACCCTCAATTTATA
1 -A-AATTACTCAAATACCCTCGATTTGTA
* ** **
21688242 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* * * * *
21688269 GAAGTACCGTC--TTACCCTTGATTTATA
1 AAATTA-C-TCAAATACCCTCGATTTGTA
* ** **
21688296 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* * * **
21688323 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTGTA
*
21688350 AAATTAC-CAAAATACCC-CTACTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
* *
21688377 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACTCAAATACCCTC-GATTTGTA
* *
21688404 AAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACTCAAATACCCTC-GATTTGTA
* * * *
21688432 AAATTACTGAAATTCCCTCAACTTGTAA
1 AAATTACTCAAATACCCTCGATTTGT-A
*
21688460 AAATTACT-AAAGTACCCTCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* * ** **
21688487 GAATTA-TTATTGTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* ** **
21688514 GAATTACT-ATTTTACCCTTTATTTAG-A
1 AAATTACTCA-AATACCCTCGATTT-GTA
** * *
21688541 AAATTAC-CATTTTACCCTC-AATTGTG
1 AAATTACTCA-AATACCCTCGATTTGTA
* * **
21688567 AAATTACTGAAATACCC-CTATAGGATA
1 AAATTACTCAAATACCCTCGATTTG-TA
* * *
21688594 GAATTAC-CAAA-ACACCCCTAGTTTGTA
1 AAATTACTCAAATAC-CCTCGA-TTTGTA
* * *
21688621 AAATTACTAAAATACCACT-GGTTTGTG
1 AAATTACTCAAATACC-CTCGATTTGTA
** *
21688648 AAATTACAGAAATACCCTCAATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
21688675 AAATTAC-CAAAATACCC
1 AAATTACTC-AAATACCC
21688692 CTAATTTACA
Statistics
Matches: 545, Mismatches: 122, Indels: 100
0.71 0.16 0.13
Matches are distributed among these distances:
24 1 0.00
25 37 0.07
26 48 0.09
27 378 0.69
28 74 0.14
29 6 0.01
30 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:21688043 original size:52 final size:53
Alignment explanation
Indices: 21687958--21688088 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 53
21687948 AAATTACTGA
*
21687958 AATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCC
1 AATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAACTTATAAAATTACCC
* * * * * *
21688011 AATA-CCTCGATTTGTAAAATTACTGAAA-TACCCTCGACTTGTAAAATTACCA
1 AATACCCTCGACTTGTAAAATTAC-CAAAGTACCCCCAACTTATAAAATTACCC
* * * *
21688063 AAGTACCCCCAATTTATAAAATTACC
1 AA-TACCCTCGACTTGTAAAATTACC
21688089 CAATACCTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
52 39 0.61
53 9 0.14
54 16 0.25
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (53 bp):
AATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAACTTATAAAATTACCC
Found at i:21688139 original size:79 final size:79
Alignment explanation
Indices: 21687948--21688124 Score: 354
Period size: 79 Copynumber: 2.2 Consensus size: 79
21687938 TTACTTTACC
21687948 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
21688013 TACCTCGATTTGTA
66 TACCTCGATTTGTA
21688027 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
21688092 TACCTCGATTTGTA
66 TACCTCGATTTGTA
21688106 AAATTACTGAAATACCCTC
1 AAATTACTGAAATACCCTC
21688125 AGTTTGCAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 98 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (79 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
TACCTCGATTTGTA
Found at i:21688366 original size:54 final size:54
Alignment explanation
Indices: 21687948--21688739 Score: 286
Period size: 54 Copynumber: 14.7 Consensus size: 54
21687938 TTACTTTACC
* * * * * *
21687948 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
** * * ** * *
21688002 AAATTAC-CCAATA-CCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
* * * *
21688054 AAATTAC-CAAAGTACCCCCAATTTATAAAATTACC-CAATA-CCTCGATTTGTA
1 AAATTACTGAAA-TACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
* ** * *
21688106 AAATTACTGAAATACCCTCAGTTTGCAAAATTACTAAAATACCATCGATTTTATA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGA-TTTATA
* ** * *** * * *
21688161 AAATTACTGAAATA--CTACTATAAGATAGAATTACCATTTTACCCTTGATTGACA
1 AAATTACTGAAATACCCT-CAAT-TTATAAAATTACCAAAATACCCTCGATTTATA
* * *** * *** *
21688215 GAATTATTGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
* * * *** ** * *** *
21688269 GAAGTACCGTCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
*** * * *
21688323 AAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTACTTTGTA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGA-TTTATA
* ** * * * *
21688377 AAATTACTAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACTGAAATACCCTC-AATTTATAAAATTACCAAAATACCCTC-GATTTATA
* * *
21688432 AAATTACTGAAATTCCCTCAACTTGTA-AAAATTACTAAAGTACCCTCGATTTATA
1 AAATTACTGAAATACCCTCAA-TT-TATAAAATTACCAAAATACCCTCGATTTATA
* * ** * * * * *** ** *
21688487 GAATTA-TTATTGTACCCTCGATTTACAGAATTACTATTTTACCCTTTATTTAGA
1 AAATTACTGA-AATACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
* ** * * ** * **
21688541 AAATTAC-CATTTTACCCTCAA-TTGTGAAATTACTGAAATACCC-CTATAGGATA
1 AAATTACTGA-AATACCCTCAATTTATAAAATTACCAAAATACCCTCGAT-TTATA
* ** * * * * * * *
21688594 GAATTACCAAAACACCC-CTAGTTTGTAAAATTACTAAAATACCACT-GGTTTGTG
1 AAATTACTGAAATACCCTC-AATTTATAAAATTACCAAAATACC-CTCGATTTATA
* * * *
21688648 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTAATTTACA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTC-GATTTATA
* * * * * *
21688702 AAATTCCAGAAATACCCTTAATTTGTAGATTTACCAAA
1 AAATTACTGAAATACCCTCAATTTATAAAATTACCAAA
21688740 GCAGTCTTGT
Statistics
Matches: 565, Mismatches: 144, Indels: 58
0.74 0.19 0.08
Matches are distributed among these distances:
52 81 0.14
53 51 0.09
54 327 0.58
55 81 0.14
56 24 0.04
57 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCAATTTATAAAATTACCAAAATACCCTCGATTTATA
Found at i:21688458 original size:55 final size:56
Alignment explanation
Indices: 21688349--21688476 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 56
21688339 CTTGGTTTAC
* ***
21688349 AAAATTACCAAAATA-CCCCTACTTTGTAAAATTACTAAAATACCCCTGGTTTGT-
1 AAAATTACTAAAATACCCCCTACTTTGTAAAATTACTAAAATACCCCTAACTTGTA
* *
21688403 AAAATTACTAAAATACCCCCTGA-TTTGTAAAATTACTGAAAT-TCCCTCAACTTGTA
1 AAAATTACTAAAATACCCCCT-ACTTTGTAAAATTACTAAAATACCCCT-AACTTGTA
*
21688459 AAAATTACTAAAGTACCC
1 AAAATTACTAAAATACCC
21688477 TCGATTTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 18 0.29
55 27 0.43
56 18 0.29
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (56 bp):
AAAATTACTAAAATACCCCCTACTTTGTAAAATTACTAAAATACCCCTAACTTGTA
Found at i:21688715 original size:81 final size:81
Alignment explanation
Indices: 21688562--21688717 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
21688552 TTACCCTCAA
* * * * **
21688562 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAACACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACAGAAATACCCCAATAGGATAAAATTACCAAAACACCCCTAATTTACAAAATTA
*
21688627 CTAAAATACCACTGGT
66 CCAAAATACCACTGGT
** *
21688643 TTGTGAAATTACAGAAATACCCTCAATTTG-TAAAATTACCAAAATACCCCTAATTTACAAAATT
1 TTGTGAAATTACAGAAATACCC-CAATAGGATAAAATTACCAAAACACCCCTAATTTACAAAATT
21688707 -CCAGAAATACC
65 ACCA-AAATACC
21688718 CTTAATTTGT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 57 0.90
82 4 0.06
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (81 bp):
TTGTGAAATTACAGAAATACCCCAATAGGATAAAATTACCAAAACACCCCTAATTTACAAAATTA
CCAAAATACCACTGGT
Found at i:21688727 original size:81 final size:81
Alignment explanation
Indices: 21688534--21688727 Score: 180
Period size: 81 Copynumber: 2.4 Consensus size: 81
21688524 TTTACCCTTT
* *** * * * *
21688534 ATTTAGAAAATTACCATTTTACCCTCAA-TTGTGAAATTACTGAAATACCCCTATAGGATAGAAT
1 ATTTACAAAATTACCAAAATACCCTTAATTTGTGAAATTACAGAAATACCCCAATAGGATAAAAT
21688598 TACCAAAACACCCCTA
66 TACCAAAACACCCCTA
* ** * ** **
21688614 GTTTGTAAAATTACTAAAATACCAC-TGGTTTGTGAAATTACAGAAATACCCTCAATTTG-TAAA
1 ATTTACAAAATTACCAAAATACC-CTTAATTTGTGAAATTACAGAAATACCC-CAATAGGATAAA
*
21688677 ATTACCAAAATACCCCTA
64 ATTACCAAAACACCCCTA
21688695 ATTTACAAAATT-CCAGAAATACCCTTAATTTGT
1 ATTTACAAAATTACCA-AAATACCCTTAATTTGT
21688728 AGATTTACCA
Statistics
Matches: 87, Mismatches: 22, Indels: 9
0.74 0.19 0.08
Matches are distributed among these distances:
80 19 0.22
81 64 0.74
82 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
ATTTACAAAATTACCAAAATACCCTTAATTTGTGAAATTACAGAAATACCCCAATAGGATAAAAT
TACCAAAACACCCCTA
Found at i:21690842 original size:85 final size:85
Alignment explanation
Indices: 21690699--21691047 Score: 671
Period size: 85 Copynumber: 4.1 Consensus size: 85
21690689 GGCCGGCCAT
21690699 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
21690764 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
21690784 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
21690849 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
21690869 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
21690934 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
* *
21690954 CAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
21691019 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
21691039 GGGCATGGG
1 GAGCATGGG
21691048 CAATAAAATA
Statistics
Matches: 260, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 260 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAC
GTAAGGATTAATAAAATAAA
Found at i:21691038 original size:41 final size:41
Alignment explanation
Indices: 21690908--21691038 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
21690898 AAAACATGTC
*
21690908 ATAAACATGTTGGGGTAGTGCATTACGTAAGGATTAATAAA
1 ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
* ** * * *
21690949 ATAAACA-GCAT-GGGT-G-GACAAGATGTTATGG-CTAAAAACA
1 ATAAACATG-TTGGGGTAGTG-CATTATG-TAAGGATTAATAA-A
21690989 TGTCATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
1 ----ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
21691034 ATAAA
1 ATAAA
21691039 GGGCATGGGC
Statistics
Matches: 64, Mismatches: 13, Indels: 26
0.62 0.13 0.25
Matches are distributed among these distances:
38 1 0.02
39 10 0.16
40 10 0.16
41 13 0.20
44 8 0.12
45 10 0.16
46 11 0.17
47 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.27
Consensus pattern (41 bp):
ATAAACATGTTGGGGTAGTGCATTATGTAAGGATTAATAAA
Found at i:21702885 original size:173 final size:173
Alignment explanation
Indices: 21702596--21702943 Score: 678
Period size: 173 Copynumber: 2.0 Consensus size: 173
21702586 TAGATTCAGC
21702596 TAAGACAGTGTGTATACGTGAAAGTATATGTGGTGTGTGAAGTATATTTGGATAATTGTGATGTG
1 TAAGACAGTGTGTATACGTGAAAGTATATGTGGTGTGTGAAGTATATTTGGATAATTGTGATGTG
21702661 AATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAACATGCGTATGTGTG
66 AATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAACATGCGTATGTGTG
*
21702726 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
131 ATAAGGCCGAATGGCCAATCTGATGAATGTGAACCCGTATATA
21702769 TAAGACAGTGTGTATACGTGAAAGTATATGTGGTGTGTGAAGTATATTTGGATAATTGTGATGTG
1 TAAGACAGTGTGTATACGTGAAAGTATATGTGGTGTGTGAAGTATATTTGGATAATTGTGATGTG
21702834 AATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAACATGCGTATGTGTG
66 AATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAACATGCGTATGTGTG
*
21702899 ATAAGGCCGAATGGCCAATCTGATGAATGTGAACCTGTATATA
131 ATAAGGCCGAATGGCCAATCTGATGAATGTGAACCCGTATATA
21702942 TA
1 TA
21702944 TATGTGTGAT
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 173 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (173 bp):
TAAGACAGTGTGTATACGTGAAAGTATATGTGGTGTGTGAAGTATATTTGGATAATTGTGATGTG
AATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAACATGCGTATGTGTG
ATAAGGCCGAATGGCCAATCTGATGAATGTGAACCCGTATATA
Found at i:21702923 original size:47 final size:47
Alignment explanation
Indices: 21702869--21703112 Score: 308
Period size: 47 Copynumber: 5.1 Consensus size: 47
21702859 TTAGGATTTT
* *
21702869 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* **
21702916 ATCTGATGAATGTGAACCTGTATATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
21702969 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
21703016 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
21703063 ATGTGATGAATGTGAACATGAATTTATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
21703110 ATG
1 ATG
21703113 CGAAACGTGT
Statistics
Matches: 172, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
47 128 0.74
48 1 0.01
52 1 0.01
53 42 0.24
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:21702985 original size:100 final size:94
Alignment explanation
Indices: 21702869--21703107 Score: 325
Period size: 100 Copynumber: 2.5 Consensus size: 94
21702859 TTAGGATTTT
*
21702869 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAA-C
* *
21702934 TGTATATATATATGTGTGATAAGGCCGAATGGCCA
65 ---ATACATATA--TGAGATAAGGCCGAATGGCCA
* *
21702969 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAACA
*
21703034 TGCATATATGAGATAAGGCCGAATGGCCA
66 TACATATATGAGATAAGGCCGAATGGCCA
** * * *
21703063 ATGTGATGAATGTGAACATGAATTTATGTGGTAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGC
21703108 TAATGCGAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
94 59 0.46
96 7 0.06
99 1 0.01
100 60 0.47
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATCTGATGAATGTGAACA
TACATATATGAGATAAGGCCGAATGGCCA
Found at i:21703468 original size:37 final size:37
Alignment explanation
Indices: 21703323--21703467 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
21703313 GGAAATATAT
*
21703323 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
21703360 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
* *
21703397 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
* *
21703434 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATT
21703468 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
Found at i:21705140 original size:27 final size:27
Alignment explanation
Indices: 21705109--21705550 Score: 132
Period size: 27 Copynumber: 16.3 Consensus size: 27
21705099 TTAGTTTACC
* *
21705109 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
21705136 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
* **
21705163 AAATTACCT-AAATATCCTTGATTTGTA
1 AAATTA-CTGAAATACCCTCAATTTGTA
* *
21705190 AAATTACTGAAATACCGTCAATTTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
**
21705217 AAATTACTGAAATACTCCT--ATAAGATA
1 AAATTACTGAAATAC-CCTCAATTTG-TA
* *** *
21705244 GAATTACCT-TTTTACCCTCGA-TTG-A
1 AAATTA-CTGAAATACCCTCAATTTGTA
*** *
21705269 CAGAATTA-TCGTTTTACCCTCAATTTATA
1 -A-AATTACT-GAAATACCCTCAATTTGTA
* ** * *
21705298 AAATTAC-CATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTCAATTTGTA
* * *** ** *
21705325 GAATTACCGTCTTACCCTTGATTTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
* * ** * **
21705352 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCAATTTGTA
*** *
21705379 AAATTACTGAAATACCCTTGGTTTATA
1 AAATTACTGAAATACCCTCAATTTGTA
** *** *
21705406 AAATTACCAAAATACCCTTGGTTTCTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
21705433 AAATTACTCAAATACCCTTACTTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
21705460 AAATTACTAAAATACCCCCTAATTTGTA
1 AAATTACTGAAATACCCTC-AATTTGTA
* *
21705488 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTGAAATACCCTCAATTTGT-A
* * *
21705516 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
*
21705543 GAATTACT
1 AAATTACT
21705551 ATTTTACCCT
Statistics
Matches: 321, Mismatches: 70, Indels: 47
0.73 0.16 0.11
Matches are distributed among these distances:
25 2 0.01
26 11 0.03
27 250 0.78
28 57 0.18
29 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:21705292 original size:81 final size:80
Alignment explanation
Indices: 21705202--21705396 Score: 198
Period size: 81 Copynumber: 2.4 Consensus size: 80
21705192 ATTACTGAAA
* * * *
21705202 TACCGTCAATTTGCAAAATTACTGAAATACTCCT-ATAAGATAGAATTACCTTTTTACCCTCGA-
1 TACCCTCAATTTACAAAATTACTGAAATAC-CCTCAT-AGATAGAATTACCGTCTTACCCTCGAT
* *
21705265 TTGACAGAATTATCGTTT
64 TTG-CAGAATTACCATTT
* * ** ** *
21705283 TACCCTCAATTTATAAAATTAC-CATTTTACCCTCGATTTATAGAATTACCGTCTTACCCTTGAT
1 TACCCTCAATTTACAAAATTACTGA-AATACCCTC-ATAGATAGAATTACCGTCTTACCCTCGAT
21705347 TTGCAGAATTACCATTT
64 TTGCAGAATTACCATTT
*
21705364 TACCCTCGATTTACAAAATTACTGAAATACCCT
1 TACCCTCAATTTACAAAATTACTGAAATACCCT
21705397 TGGTTTATAA
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
80 4 0.04
81 81 0.89
82 6 0.07
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (80 bp):
TACCCTCAATTTACAAAATTACTGAAATACCCTCATAGATAGAATTACCGTCTTACCCTCGATTT
GCAGAATTACCATTT
Found at i:21705616 original size:81 final size:81
Alignment explanation
Indices: 21705245--21705619 Score: 256
Period size: 81 Copynumber: 4.6 Consensus size: 81
21705235 TATAAGATAG
* * * * * * * * * **
21705245 AATTACCTTTTTACCCTCGATTGACAGAATTATCGTTTTACCCTCAATTTATAAAATTACCATTT
1 AATTACCGTATTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACTATAA
*
21705310 TACCCTCGATTTATAG
66 TACCCTCGATTTATAA
* * * *
21705326 AATTACCGTCTTACCCTTGATTTGCAGAATTACCATTTTACCCTCGATTTACAAAATTACTGA-A
1 AATTACCGTATTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACT-ATA
* *
21705390 ATACCCTTGGTTTATAA
65 ATACCCTCGATTTATAA
** * * ** * *
21705407 AATTACCAAAATACCCTTGGTTT-CTAAAATTACTCA-AATACCCT-TACTTTGTAAAATTACTA
1 AATTACCGTATTACCCTTGATTTAC-AAAATTAC-CATTTTACCCTCGA-TTTATAAAATTACTA
* * * *
21705469 AAATACCCCCTAATTTGTAA
63 TAATACCCTC-GATTTATAA
* * * * *** *
21705489 AATTACTGAAATACCCTCGACTTGTA-AAAATTACCAAAGTACCCTCGATTTATAGAATTACTAT
1 AATTACCGTATTACCCTTGA-TT-TACAAAATTACCATTTTACCCTCGATTTATAAAATTACTAT
** *
21705553 TTTACCCTCGATTTACAA
64 AATACCCTCGATTTATAA
** *
21705571 AATTAATGTTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATT
1 AATTACCGTATTACCCTTGATTTACAAAATTACCATTTTACCCTCGATT
21705620 GTGAAATTAC
Statistics
Matches: 228, Mismatches: 54, Indels: 24
0.75 0.18 0.08
Matches are distributed among these distances:
80 5 0.02
81 137 0.60
82 48 0.21
83 36 0.16
84 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (81 bp):
AATTACCGTATTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACTATAA
TACCCTCGATTTATAA
Found at i:21705754 original size:27 final size:27
Alignment explanation
Indices: 21705378--21705801 Score: 150
Period size: 27 Copynumber: 15.7 Consensus size: 27
21705368 CTCGATTTAC
** * * *
21705378 AAAATTACTGAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
21705405 AAAATTACCAAAATACCCTTGGTTTCT
1 AAAATTACCAAAATACCCCTGATTTGT
*
21705432 AAAATTACTC-AAATA-CCCTTACTTTGT
1 AAAATTAC-CAAAATACCCCTGA-TTTGT
* *
21705459 AAAATTACTAAAATACCCCCTAATTTGT
1 AAAATTACCAAAATA-CCCCTGATTTGT
** *
21705487 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
21705514 AAAAATTACCAAAGTA-CCCTCGATTTAT
1 -AAAATTACCAAAATACCCCT-GATTTGT
* * *** **
21705542 AGAATTACTATTTTA-CCCTCGATTTAC
1 AAAATTACCAAAATACCCCT-GATTTGT
****** * **
21705569 AAAATTAATGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
***
21705596 AAAATTACCATTTTA-CCCTCGA-TTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* ** **
21705622 GAAATTACTGAAATACCCCT-ATAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* * *
21705649 AGAATTGCCAAAACACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * *
21705676 AAAATTATCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * ** *
21705703 GACATTACTGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
**
21705730 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
*
21705757 AAAATTA-CAGAAATACCCTTGATTTGT
1 AAAATTACCA-AAATACCCCTGATTTGT
* * *
21705784 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
21705802 TTGTAGGATG
Statistics
Matches: 303, Mismatches: 76, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
25 1 0.00
26 26 0.09
27 219 0.72
28 52 0.17
29 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:21705764 original size:54 final size:54
Alignment explanation
Indices: 21705103--21705801 Score: 260
Period size: 54 Copynumber: 12.9 Consensus size: 54
21705093 AATACTTTAG
* * * **
21705103 TTTACCAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAA
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA
* * * ** * *
21705157 TTTATAAAATTACCT-AAATATCCTTGATTTGTAAAATTACTGAAATA-CCGTCAA
1 TTTACAAAATTA-CTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GA
* ** * ****
21705211 TTTGCAAAATTACTGAAATACTCCT--ATAAGATAGAATTACCTTTTTA-CCCTCGA
1 TTTACAAAATTACTGAAATAC-CCTCGATTTG-TAAAATTACCAAAATACCCCT-GA
* * *** * * ***
21705265 TTGACAGAATTA-TCGTTTTACCCTCAATTTATAAAATTACCATTTTA-CCCTCGA
1 TTTACAAAATTACT-GAAATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GA
* * * *** * * * ***
21705319 TTTATAGAATTACCGTCTTACCCTTGATTTGCAGAATTACCATTTTA-CCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GA
* * * * *
21705373 TTTACAAAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA
* * * *
21705427 TTT-CTAAAATTACTCAAATACCCT-TACTTTGTAAAATTACTAAAATACCCCCTAA
1 TTTAC-AAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCAAAATA-CCCCTGA
** * *
21705482 TTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTA-CCCTCGA
1 TTTACAAAATTACTGAAATACCCTCGATTTGT-AAAATTACCAAAATACCCCT-GA
* * ** ** ****** *
21705537 TTTATAGAATTACT-ATTTTACCCTCGATTTACAAAATTAATGTTTTACCCTTGA
1 TTTACAAAATTACTGA-AATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA
* ** * **
21705591 TTTACAAAATTAC-CATTTTACCCTCGA-TTGTGAAATTACTGAAATACCCCT-A
1 TTTACAAAATTACTGA-AATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA
**** * * ** * * * * *
21705643 TAGGGTAGAATTGCCAAAACACCC-CTAGTTTGTAAAATTATCAAAATACCACTGG
1 T-TTACAAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGA
*** * *
21705698 TTTGTGACATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA
* * * * *
21705752 TTTACAAAATTACAGAAATACCCTTGATTTGTAGATTTACCAAAACACCC
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCC
21705802 TTGTAGGATG
Statistics
Matches: 482, Mismatches: 137, Indels: 52
0.72 0.20 0.08
Matches are distributed among these distances:
52 4 0.01
53 38 0.08
54 357 0.74
55 69 0.14
56 14 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA
Found at i:21705783 original size:81 final size:81
Alignment explanation
Indices: 21705379--21705783 Score: 240
Period size: 81 Copynumber: 5.0 Consensus size: 81
21705369 TCGATTTACA
*** * * *
21705379 AAATTACTGAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTGGTTT-CTAAAATTACTC-
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTAC-AAAATTAC-CA
*
21705442 AAATACCCTT-ACTTTGTA
64 AAATACCCTTGA-TTTGTG
* * **
21705460 AAATTACTAAAATACCCCCTAATTTGTAAAATTACTGAAATA-CCCTCGACTTGTA-AAAATTAC
1 AAATTACTGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCT-GA-TT-TACAAAATTAC
* * *
21705523 CAAAGTACCCTCGATTTAT-
62 CAAAATACCCTTGATTTGTG
** * ** ****** *
21705542 AGAATTACT-ATTTTACCCTCGATTTACAAAATTAATGTTTTACCCTTGATTTACAAAATTACCA
1 A-AATTACTGA-AATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCA
*** *
21705606 TTTTACCCTCGA-TTGTG
64 AAATACCCTTGATTTGTG
* ** * * * ** *
21705623 AAATTACTGAAATACCC-CTATAGGGTAGAATTGCCAAAACACCCCT-AGTTTGTAAAATTATCA
1 AAATTACTGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACCA
*
21705686 AAATACCAC-TGGTTTGTG
64 AAATACC-CTTGATTTGTG
*
21705704 ACATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGA
1 AAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCA-A
21705768 AATACCCTTGATTTGT
65 AATACCCTTGATTTGT
21705784 AGATTTACCA
Statistics
Matches: 240, Mismatches: 63, Indels: 42
0.70 0.18 0.12
Matches are distributed among these distances:
79 4 0.02
80 47 0.20
81 107 0.45
82 42 0.17
83 38 0.16
84 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAA
ATACCCTTGATTTGTG
Found at i:21705866 original size:27 final size:27
Alignment explanation
Indices: 21705836--21705895 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
21705826 CCCCTAATAA
*
21705836 GTAAAAAGACCGTAA-AGCCCCTGTAGG
1 GTAAAAAGACCGTAATA-CCCCTGTACG
** *
21705863 GTAAAGTGACCGTAATACCCTTGTACG
1 GTAAAAAGACCGTAATACCCCTGTACG
21705890 GTAAAA
1 GTAAAA
21705896 TGATGAATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GTAAAAAGACCGTAATACCCCTGTACG
Found at i:21708343 original size:27 final size:27
Alignment explanation
Indices: 21708312--21709096 Score: 269
Period size: 27 Copynumber: 29.0 Consensus size: 27
21708302 TTAGTTTAAC
*
21708312 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
21708339 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
21708366 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21708393 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
21708420 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
21708447 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21708474 AAATTACTGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
21708501 AAATTACTGAAATACCTTCGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* **
21708529 AAGTTACTGAAATACTCCT-G-TAAGATA
1 AAATTACTGAAATAC-CCTCGATTTG-TA
* * **
21708556 GAATTAC-CATTTTACCCTCGA-TTG-A
1 AAATTACTGA-AATACCCTCGATTTGTA
* ** * *
21708581 CAGAATTAC-CATTTTACCCTTGATTTATA
1 -A-AATTACTGA-AATACCCTCGATTTGTA
* * ** **
21708610 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTGTA
* *** * **
21708637 AAATTACCGTCTTACCCTTGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
* ** **
21708664 AAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTGA-AATACCCTCGATTTGTA
* * * * **
21708691 GAATTATTGAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
21708718 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* *
21708745 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
21708772 AAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
*
21708800 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTGAAATACCCTCGATTTGT-A
* *
21708828 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *** **
21708855 GAATTATTGTTGTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
* ** * **
21708882 GAATTACT-ATTTTACCCTTGATTTAAA
1 AAATTACTGA-AATACCCTCGATTTGTA
* *** * *
21708909 AAATTACCGTTTTACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
21708935 AAATTACTAAAATACCC-CTATAGGGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* ** * * *
21708962 GAATTACCAAAACACCC-CTAGTTTATA
1 AAATTACTGAAATACCCTCGA-TTTGTA
** * *
21708989 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACTGAAATACC-CTCGATTTGTA
* * * *
21709016 AAATTACCGAAATACCTTCAAATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** **
21709043 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
21709070 AAATTACAGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
21709097 GATTTACCAA
Statistics
Matches: 585, Mismatches: 139, Indels: 68
0.74 0.18 0.09
Matches are distributed among these distances:
25 2 0.00
26 31 0.05
27 469 0.80
28 80 0.14
29 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:21708507 original size:81 final size:81
Alignment explanation
Indices: 21708312--21708492 Score: 362
Period size: 81 Copynumber: 2.2 Consensus size: 81
21708302 TTAGTTTAAC
21708312 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
21708377 ATATCCTCGATTTGTA
66 ATATCCTCGATTTGTA
21708393 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
21708458 ATATCCTCGATTTGTA
66 ATATCCTCGATTTGTA
21708474 AAATTACTGAAATACCCTC
1 AAATTACTGAAATACCCTC
21708493 AGTTTGCAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
ATATCCTCGATTTGTA
Found at i:21709943 original size:20 final size:21
Alignment explanation
Indices: 21709908--21709964 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
21709898 TGATACGTGG
21709908 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
21709926 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
21709947 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
21709965 GTATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:21710042 original size:26 final size:26
Alignment explanation
Indices: 21710013--21710148 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
21710003 GAGGAAGTGC
21710013 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
21710039 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21710065 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
21710091 GAAAGGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21710116 AAAAGGGCTTA-GCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
21710139 AAAAGAGGCT
1 AAAAG-GGCT
21710149 AGGCCTCTAG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 28 0.29
26 58 0.59
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21710340 original size:42 final size:42
Alignment explanation
Indices: 21710281--21710372 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
21710271 TAGTCTCCCC
* ** *
21710281 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
21710323 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
21710365 AAATGGGC
1 AAATGGGC
21710373 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:21710434 original size:31 final size:31
Alignment explanation
Indices: 21710396--21710474 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
21710386 TGTTTACAGT
*
21710396 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
21710427 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
21710458 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
21710475 ATATGTCAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:21714110 original size:30 final size:30
Alignment explanation
Indices: 21714074--21714135 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
21714064 AATCGGAAGT
*
21714074 TTTGGCACTAAGTGTGGGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
21714104 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
21714134 TT
1 TT
21714136 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:21719330 original size:55 final size:54
Alignment explanation
Indices: 21719243--21719497 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
21719233 ATTAGGGTTT
* *
21719243 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGA
* * * * *
21719298 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG-A
* * * *
21719354 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGA
*
21719406 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGA
* * *
21719455 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
21719498 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
51 1 0.01
52 5 0.03
53 40 0.24
54 12 0.07
55 66 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGA
Found at i:21719449 original size:108 final size:110
Alignment explanation
Indices: 21719253--21719450 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
21719243 AAGGATACCG
*
21719253 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAGACCA
*
21719318 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * *
21719363 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGAAAGGAAACCATGTAAGACC
*
21719425 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
21719451 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:21730089 original size:4 final size:4
Alignment explanation
Indices: 21730080--21730113 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
21730070 AAGTTTTATT
21730080 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
21730114 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:21730121 original size:22 final size:22
Alignment explanation
Indices: 21730063--21730122 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
21730053 AAGTGGCCCA
*
21730063 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
21730087 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
21730108 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
21730123 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:21732476 original size:18 final size:18
Alignment explanation
Indices: 21732455--21732493 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21732445 GATTGAGAGT
* *
21732455 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
21732473 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
21732491 GAA
1 GAA
21732494 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:21737003 original size:12 final size:12
Alignment explanation
Indices: 21736988--21737018 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
21736978 TTCTTTTTGC
21736988 TTTTCAAAGGCT
1 TTTTCAAAGGCT
21737000 TTTTCAAAGGCT
1 TTTTCAAAGGCT
21737012 TTTTCAA
1 TTTTCAA
21737019 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:21739680 original size:99 final size:99
Alignment explanation
Indices: 21739529--21739768 Score: 471
Period size: 99 Copynumber: 2.4 Consensus size: 99
21739519 TTTGCGGTTT
21739529 GATCCATTTTTTGTTTAGTATTTTCTCTGTATGGGGTCAGATCTATTTTTTTCCACCGATCCATT
1 GATCCATTTTTTGTTTAGTATTTTCTCTGTATGGGGTCAGATCTATTTTTTTCCACCGATCCATT
21739594 TTTTTTAGGAAGGAAATTTCTTCATTTTGCCACC
66 TTTTTTAGGAAGGAAATTTCTTCATTTTGCCACC
21739628 GATCCATTTTTTGTTTAGTATTTTCTCTGTATGGGGTCAGATCTATTTTTTTCCACCGATCCATT
1 GATCCATTTTTTGTTTAGTATTTTCTCTGTATGGGGTCAGATCTATTTTTTTCCACCGATCCATT
21739693 TTTTTTAGGAAGGAAATTTCTTCATTTTGCCACC
66 TTTTTTAGGAAGGAAATTTCTTCATTTTGCCACC
*
21739727 GATCCATTTTTTGTTTAGTATTTTCTCTATATGGGGTCAGAT
1 GATCCATTTTTTGTTTAGTATTTTCTCTGTATGGGGTCAGAT
21739769 ATTTTATCGA
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 140 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (99 bp):
GATCCATTTTTTGTTTAGTATTTTCTCTGTATGGGGTCAGATCTATTTTTTTCCACCGATCCATT
TTTTTTAGGAAGGAAATTTCTTCATTTTGCCACC
Found at i:21741148 original size:28 final size:28
Alignment explanation
Indices: 21741105--21741161 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
21741095 CCTTTCTCTG
* *
21741105 GTTAGCACTTACTGATCTGTTAGTATTT
1 GTTAACACTTAATGATCTGTTAGTATTT
21741133 GTTAACACTTAATGATCTGTTAGTATTT
1 GTTAACACTTAATGATCTGTTAGTATTT
21741161 G
1 G
21741162 ATGCTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.46
Consensus pattern (28 bp):
GTTAACACTTAATGATCTGTTAGTATTT
Found at i:21741951 original size:13 final size:13
Alignment explanation
Indices: 21741933--21741958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21741923 TTTAAATGAA
21741933 TTCCATTCAAATT
1 TTCCATTCAAATT
21741946 TTCCATTCAAATT
1 TTCCATTCAAATT
21741959 CTTGATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCCATTCAAATT
Found at i:21743725 original size:35 final size:36
Alignment explanation
Indices: 21743681--21743749 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
21743671 ATTTGTTAGA
21743681 TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
* *
21743717 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAACCTTGTTGGAGATTGAA
21743750 ATGATTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGAGATTGAATT
Found at i:21745124 original size:34 final size:35
Alignment explanation
Indices: 21745066--21745132 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21745056 CAAACACCAG
21745066 AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
* *
21745101 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATACTTTCCAGTAAATCATTTTACAGAAAA
21745133 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATACTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:21746459 original size:3 final size:3
Alignment explanation
Indices: 21746451--21746491 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
21746441 TAGTATTGTT
*
21746451 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21746492 GGCAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21750969 original size:27 final size:27
Alignment explanation
Indices: 21750945--21750998 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
21750935 ACATTTTTGT
21750945 TCAATCTCAATCTCGTTTTTCTTTTTC
1 TCAATCTCAATCTCGTTTTTCTTTTTC
* * *
21750972 TCACTCTCACTCTC-TTTTT-TTCTTC
1 TCAATCTCAATCTCGTTTTTCTTTTTC
21750997 TC
1 TC
21750999 TCGAGTTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.11, C:0.31, G:0.02, T:0.56
Consensus pattern (27 bp):
TCAATCTCAATCTCGTTTTTCTTTTTC
Found at i:21754849 original size:47 final size:47
Alignment explanation
Indices: 21754796--21755206 Score: 732
Period size: 47 Copynumber: 8.7 Consensus size: 47
21754786 TTAGGATTCT
21754796 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21754843 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
21754890 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21754937 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21754984 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21755031 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21755078 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
21755125 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
21755172 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
21755207 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 350 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:21755381 original size:37 final size:37
Alignment explanation
Indices: 21755325--21755403 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
21755315 CCGAGCTCTA
* *
21755325 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
21755362 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21755399 AAGAC
1 AAGAC
21755404 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21763010 original size:40 final size:40
Alignment explanation
Indices: 21762953--21763078 Score: 243
Period size: 40 Copynumber: 3.1 Consensus size: 40
21762943 NNNNNNNNNN
*
21762953 CCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAG
1 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
21762993 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
1 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
21763033 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
1 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
21763073 CCCGGA
1 CCCGGA
21763079 CATCATTCGA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAG
Found at i:21767537 original size:42 final size:42
Alignment explanation
Indices: 21767490--21767572 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
21767480 AAAGTGATAG
21767490 CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTACT
1 CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTACT
* * *
21767532 CTTATGCCTTAAGACAGTTGAAGCCGCATGGAAAGAATTAC
1 CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTAC
21767573 CCGACACACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (42 bp):
CTTATGCCTCAAGAAAGTTGAAGCCACATGGAAAGAATTACT
Found at i:21775726 original size:19 final size:21
Alignment explanation
Indices: 21775687--21775726 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21775677 GACTTGATGA
*
21775687 ATGAATTTGAATGACTTGTAT
1 ATGAATTTGAATGAATTGTAT
21775708 ATGAATTTG-AT-AATTGTAT
1 ATGAATTTGAATGAATTGTAT
21775727 GAGAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (21 bp):
ATGAATTTGAATGAATTGTAT
Found at i:21790394 original size:22 final size:22
Alignment explanation
Indices: 21790366--21790411 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21790356 ACAAATGCCT
21790366 TCGGGTCTTAGCCCGGATAAAA
1 TCGGGTCTTAGCCCGGATAAAA
21790388 TCGGGTCTTAGCCCGGATAAAA
1 TCGGGTCTTAGCCCGGATAAAA
21790410 TC
1 TC
21790412 ACTAGCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
TCGGGTCTTAGCCCGGATAAAA
Found at i:21790427 original size:62 final size:62
Alignment explanation
Indices: 21790326--21790446 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 62
21790316 ACAAATGCCT
* * *
21790326 TCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 TCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAA
*
21790388 TCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 TCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
21790447 TCATTCAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 50 0.93
63 4 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (62 bp):
TCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAA
Found at i:21797775 original size:22 final size:22
Alignment explanation
Indices: 21797747--21797792 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21797737 ACAAATGCCT
21797747 TCGGGTCTTAGCCCGGATAAAA
1 TCGGGTCTTAGCCCGGATAAAA
21797769 TCGGGTCTTAGCCCGGATAAAA
1 TCGGGTCTTAGCCCGGATAAAA
21797791 TC
1 TC
21797793 ACTAGCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
TCGGGTCTTAGCCCGGATAAAA
Found at i:21797808 original size:62 final size:62
Alignment explanation
Indices: 21797707--21797827 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 62
21797697 ACAAATGCCT
* * *
21797707 TCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 TCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAA
*
21797769 TCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 TCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
21797828 TCATTCAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 50 0.93
63 4 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (62 bp):
TCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAA
Found at i:21804642 original size:84 final size:80
Alignment explanation
Indices: 21804543--21804704 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 80
21804533 AGTACCAATA
21804543 ATATAGCTGAAGCTA-TAAAATATCGCACACTTAGTGCCATCATATTA-AACCAAAACTATCTCA
1 ATATAGCTGAAGCTATTAAAAT-TCGCACACTTAGTG-C-T-AT-TTATAACCAAAACTATCTCA
21804606 ATATCGCACACATAGTGCTAC
61 A-ATCGCACACATAGTGCTAC
** * * *
21804627 ATATAGCTGAAGCTATTCCAATTCGCACACTTAGTGCTATTTATAGCCAAAGCTATTTCAAATCG
1 ATATAGCTGAAGCTATTAAAATTCGCACACTTAGTGCTATTTATAACCAAAACTATCTCAAATCG
*
21804692 CACACTTAGTGCT
66 CACACATAGTGCT
21804705 GAACATAGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
80 19 0.27
81 16 0.23
82 1 0.01
83 1 0.01
84 29 0.41
85 4 0.06
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (80 bp):
ATATAGCTGAAGCTATTAAAATTCGCACACTTAGTGCTATTTATAACCAAAACTATCTCAAATCG
CACACATAGTGCTAC
Found at i:21804662 original size:40 final size:40
Alignment explanation
Indices: 21804543--21804704 Score: 139
Period size: 40 Copynumber: 4.0 Consensus size: 40
21804533 AGTACCAATA
** ** *
21804543 ATATAGCTGAAGCTATAAAATATCGCACACTTAGTGCCATC
1 ATATAGCCAAAGCTATCCAATATCGCACACTTAGTGCTA-C
* * *
21804584 ATATTAAACCAAAACTATCTCAATATCGCACACATAGTGCTAC
1 ATA-T-AGCCAAAGCTATC-CAATATCGCACACTTAGTGCTAC
** *
21804627 ATATAGCTGAAGCTATTCCAAT-TCGCACACTTAGTGCTAT
1 ATATAGCCAAAGCTA-TCCAATATCGCACACTTAGTGCTAC
* *
21804667 TTATAGCCAAAGCTATTTCAA-ATCGCACACTTAGTGCT
1 ATATAGCCAAAGCTA-TCCAATATCGCACACTTAGTGCT
21804705 GAACATAGTC
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 49 0.50
41 14 0.14
42 4 0.04
43 12 0.12
44 19 0.19
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (40 bp):
ATATAGCCAAAGCTATCCAATATCGCACACTTAGTGCTAC
Found at i:21806627 original size:33 final size:33
Alignment explanation
Indices: 21806585--21806649 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
21806575 AAGGAGAAAA
*
21806585 CTTCATTTCATTTTCTTTGTTTTTCCTTTATTT
1 CTTCATTTCATTTTCATTGTTTTTCCTTTATTT
21806618 CTTCATTTCATTTTCATTGTTTTTCCTTTATT
1 CTTCATTTCATTTTCATTGTTTTTCCTTTATT
21806650 CTTTTCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (33 bp):
CTTCATTTCATTTTCATTGTTTTTCCTTTATTT
Found at i:21818694 original size:48 final size:47
Alignment explanation
Indices: 21818624--21818793 Score: 137
Period size: 48 Copynumber: 3.6 Consensus size: 47
21818614 TTGCAAAGAA
* *
21818624 TATGT-GAACTGTCAATGGATTGTATGTGTGAATTGTCTCTATGTAG
1 TATGTCGAACTGTCAATGTATTGTATGTGTGAATTGTCTCTATGAAG
* ** * * * *
21818670 TATGTACGAACTGTCATTGTATTGTATGCATGAGTTGCCTTTATAAAG
1 TATGT-CGAACTGTCAATGTATTGTATGTGTGAATTGTCTCTATGAAG
* * ** *
21818718 AATATGT-GAACTGTTAATGTATTGTATGTGTGAACTGTCTCTGCGAAC
1 --TATGTCGAACTGTCAATGTATTGTATGTGTGAATTGTCTCTATGAAG
* * *
21818766 TATGTGCAAATTGTCATTGTATTGTATG
1 TATGT-CGAACTGTCAATGTATTGTATG
21818794 CATGAGCTAT
Statistics
Matches: 93, Mismatches: 25, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
46 10 0.11
48 78 0.84
50 5 0.05
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.41
Consensus pattern (47 bp):
TATGTCGAACTGTCAATGTATTGTATGTGTGAATTGTCTCTATGAAG
Found at i:21818814 original size:96 final size:96
Alignment explanation
Indices: 21818611--21818923 Score: 295
Period size: 96 Copynumber: 3.3 Consensus size: 96
21818601 ATATGTGAGT
* * * * ** * * *
21818611 TCTTTGCAAAGAATATGTGAACTGTCAATGGATTGTATGTGTGAATTGTCTCTATGTAGTATGTA
1 TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGTCTCTGCGAACTATGTG
* * *
21818676 CGAACTGTCATTGTATTGTATGCATGAGTTG
66 CAAACTGTCATTGTATTGTATGCATGAGCTA
* ** * * *
21818707 CCTTTATAAAGAATATGTGAACTGTTAATGTATTGTATGTGTGAACTGTCTCTGCGAACTATGTG
1 TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGTCTCTGCGAACTATGTG
*
21818772 CAAATTGTCATTGTATTGTATGCATGAGCTA
66 CAAACTGTCATTGTATTGTATGCATGAGCTA
* * * * ** *
21818803 TCTTTGCAAAGAATATGCAAATTGTAAATGAATTGTATATGTCAACTACCTCAGCGAAGC-ATGT
1 TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGTCTCTGCGAA-CTATGT
* * * * *
21818867 GCAAACTATCACTATATTGTATACATGAACTA
65 GCAAACTGTCATTGTATTGTATGCATGAGCTA
* * * *
21818899 TATTGGTACAGAATATGCGAACTGT
1 TCTTTGCAAAGAATATGCGAACTGT
21818924 CATTGTTAAG
Statistics
Matches: 176, Mismatches: 40, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
96 175 0.99
97 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (96 bp):
TCTTTGCAAAGAATATGCGAACTGTAAATGAATTGTATGTGTGAACTGTCTCTGCGAACTATGTG
CAAACTGTCATTGTATTGTATGCATGAGCTA
Found at i:21818822 original size:48 final size:48
Alignment explanation
Indices: 21818681--21818827 Score: 132
Period size: 48 Copynumber: 3.1 Consensus size: 48
21818671 ATGTACGAAC
* * ** ** *
21818681 TGTCATTGTATTGTATGCATGAGTTGCCTTTATAAAGAATATGTGAAC
1 TGTCATTGTATTGTATGCATGAGCTGTCTTTGCAAAGAATATGCAAAT
* * ** * * * ** *
21818729 TGTTAATGTATTGTATGTGTGAACTGTCTCTGCGAACTATGTGCAAAT
1 TGTCATTGTATTGTATGCATGAGCTGTCTTTGCAAAGAATATGCAAAT
*
21818777 TGTCATTGTATTGTATGCATGAGCTATCTTTGCAAAGAATATGCAAAT
1 TGTCATTGTATTGTATGCATGAGCTGTCTTTGCAAAGAATATGCAAAT
21818825 TGT
1 TGT
21818828 AAATGAATTG
Statistics
Matches: 71, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (48 bp):
TGTCATTGTATTGTATGCATGAGCTGTCTTTGCAAAGAATATGCAAAT
Found at i:21829225 original size:58 final size:59
Alignment explanation
Indices: 21829161--21829293 Score: 153
Period size: 62 Copynumber: 2.2 Consensus size: 59
21829151 ATCATTTTAA
* * *
21829161 TATTAAATTAATATAATACTTA-T-AAAATAAATATTAGATTAAATTTAATATGAAATCT
1 TATTAAATTAATATAATACTTACTAAAAATAAACATTAAAATAAATTTAATATGAAAT-T
* * * *
21829219 TATTAAATTAATAGAATATTTATCTACAAAATAAGCATTAAAATAAATTTAATATTAAATT
1 TATTAAATTAATATAATACTTA-CTA-AAAATAAACATTAAAATAAATTTAATATGAAATT
*
21829280 TATTAAAATAATAT
1 TATTAAATTAATAT
21829294 TATTTTTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
58 20 0.32
60 1 0.02
61 13 0.21
62 28 0.45
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATATAATACTTACTAAAAATAAACATTAAAATAAATTTAATATGAAATT
Found at i:21831310 original size:26 final size:26
Alignment explanation
Indices: 21831274--21831326 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21831264 TATGTTGGCC
21831274 TTTGGAAGGTTGTATAATTGAATGGT
1 TTTGGAAGGTTGTATAATTGAATGGT
21831300 TTTGGAAGGTTGTATAATTGAATGGT
1 TTTGGAAGGTTGTATAATTGAATGGT
21831326 T
1 T
21831327 GTGGCATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.43
Consensus pattern (26 bp):
TTTGGAAGGTTGTATAATTGAATGGT
Found at i:21831340 original size:26 final size:26
Alignment explanation
Indices: 21831276--21831340 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
21831266 TGTTGGCCTT
* *
21831276 TGGAAGGTTGTATAATTGAATGGTTT
1 TGGAAGGTGGTATAATTGAATGGTTG
*
21831302 TGGAAGGTTGTATAATTGAATGGTTG
1 TGGAAGGTGGTATAATTGAATGGTTG
* *
21831328 TGGCATGTGGTAT
1 TGGAAGGTGGTAT
21831341 TTGGTACATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.34, T:0.40
Consensus pattern (26 bp):
TGGAAGGTGGTATAATTGAATGGTTG
Found at i:21833019 original size:46 final size:46
Alignment explanation
Indices: 21832951--21833125 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
21832941 TGTAACCCGC
* * *
21832951 CCATAAGCGAACTCGGAATCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * *
21832997 CCATAAGTGAACTTGGACTCAACTCAACGAGCT-TGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* ** * * *
21833043 ACATATCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
21833090 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
21833126 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 62 0.60
47 29 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:21833085 original size:93 final size:93
Alignment explanation
Indices: 21832958--21833130 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
21832948 CGCCCATAAG
* * * *
21832958 CGAACTCGGAATCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGAATCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21833023 ACGAGCTT-GGATGCCTAGTTACATATCT
66 ACGAG-TTCGGATGCCTAGTTACATATCT
* *
21833051 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGAATCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21833116 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
21833131 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGAATCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATATCT
Found at i:21834564 original size:40 final size:40
Alignment explanation
Indices: 21834507--21834687 Score: 290
Period size: 40 Copynumber: 4.5 Consensus size: 40
21834497 TTGGCTCGGA
* *
21834507 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
* * *
21834547 TATAATAACCCGTACGAATGCCTTTGGGACTTAACCTGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
21834587 TATAATAACCCGCACGAATGCCTTCGAGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
21834627 TATAATAACCCGCACGAATGCCTCCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
21834667 TATAATAACCCGCACAAATGC
1 TATAATAACCCGCACGAATGC
21834688 TATGCACATA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:21842691 original size:40 final size:40
Alignment explanation
Indices: 21842647--21842775 Score: 213
Period size: 40 Copynumber: 3.2 Consensus size: 40
21842637 TAACAACCAT
21842647 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
** *
21842687 CACGAATGCCTTTTGGACTTAACCCGGTTATAATAACCCA
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
* *
21842727 TACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCTG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
21842767 CACGAATGC
1 CACGAATGC
21842776 TATGCACATA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCG
Found at i:21848915 original size:26 final size:26
Alignment explanation
Indices: 21848886--21848939 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
21848876 TTATCGGGAG
21848886 TACACATCTTAAACTTAGTTTCATTT
1 TACACATCTTAAACTTAGTTTCATTT
21848912 TACACATCTTAAACTTAGTTTCATTT
1 TACACATCTTAAACTTAGTTTCATTT
21848938 TA
1 TA
21848940 GTCCTTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (26 bp):
TACACATCTTAAACTTAGTTTCATTT
Found at i:21854649 original size:65 final size:63
Alignment explanation
Indices: 21854538--21854658 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 63
21854528 GAGAATCATT
* *
21854538 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTCATTTTCTCGCATAA
1 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGATTTTAAATATGTTT-ATTTTCTCGCATAA
*
21854602 AGAATAAGTTGGTGTTATTTTGGCATTTTTATGTT-ATTTTAAATATGTTTATTTTCT
1 AGAA-AAGTTGGTGTTATTTTAGCA-TTTTATGTTGATTTTAAATATGTTTATTTTCT
21854659 TAATTCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
64 11 0.21
65 32 0.62
66 9 0.17
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGATTTTAAATATGTTTATTTTCTCGCATAA
Found at i:21867679 original size:14 final size:14
Alignment explanation
Indices: 21867660--21867687 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21867650 TGCTGCAAGA
21867660 ATGTTGGTCTAGTT
1 ATGTTGGTCTAGTT
21867674 ATGTTGGTCTAGTT
1 ATGTTGGTCTAGTT
21867688 TTTAACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (14 bp):
ATGTTGGTCTAGTT
Found at i:21871023 original size:27 final size:27
Alignment explanation
Indices: 21870988--21871099 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 27
21870978 AGCATGGCTG
*
21870988 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGTCA
21871014 CCAGATACAGATAATCGTGGCAGA-TCCA
1 CCAGATACAGATAAT-GTGGCAGAGT-CA
* * *
21871042 CCA-AAACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGTCA
* * *
21871069 CCAGAT-CAAATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGTCA
21871096 CCAG
1 CCAG
21871100 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.08
27 50 0.70
28 15 0.21
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGTCA
Found at i:21871088 original size:54 final size:54
Alignment explanation
Indices: 21870992--21871098 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
21870982 TGGCTGCCAG
* * * *
21870992 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGATCCACCAA
1 AACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCAA
* * *
21871046 AACAGAAATATGTGGCAGAGCCACCAGAT-CAAATAATTGTGGCATAGCCACCA
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCA
21871099 GGACGCTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 27 0.60
55 18 0.40
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCAA
Found at i:21872054 original size:58 final size:58
Alignment explanation
Indices: 21871987--21872104 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
21871977 ATCGGTACAA
21871987 AAGGAGTCAAGTTTTCGGGATTTCGAGATTTGAGGCAATCGGCTATAGTCTTAAAAAT
1 AAGGAGTCAAGTTTTCGGGATTTCGAGATTTGAGGCAATCGGCTATAGTCTTAAAAAT
21872045 AAGGAGTCAAGTTTTCGGGATTTCGAGATTTGAGGCAATCGGCTATAGTCTTAAAAAT
1 AAGGAGTCAAGTTTTCGGGATTTCGAGATTTGAGGCAATCGGCTATAGTCTTAAAAAT
21872103 AA
1 AA
21872105 TGGAAGGAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (58 bp):
AAGGAGTCAAGTTTTCGGGATTTCGAGATTTGAGGCAATCGGCTATAGTCTTAAAAAT
Found at i:21872367 original size:24 final size:24
Alignment explanation
Indices: 21872340--21872410 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
21872330 CTAGATTTCC
**
21872340 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
21872364 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
21872388 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
21872411 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:21875366 original size:17 final size:19
Alignment explanation
Indices: 21875346--21875383 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21875336 CAGGGGAAGG
21875346 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
21875363 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
21875382 AA
1 AA
21875384 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:21876005 original size:3 final size:3
Alignment explanation
Indices: 21875997--21876029 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21875987 GAACGGTAAG
21875997 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21876030 GGTATTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21881496 original size:40 final size:40
Alignment explanation
Indices: 21881415--21881595 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
21881405 AAACCAAGTA
** * *
21881415 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
21881454 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
21881494 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
21881534 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
21881574 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
21881596 CAATCTGAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 26 0.20
40 104 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:21888660 original size:8 final size:8
Alignment explanation
Indices: 21888618--21888642 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21888608 ATAGAGACTA
21888618 AATAAAAT
1 AATAAAAT
21888626 AATAAAAT
1 AATAAAAT
21888634 AATAAAAT
1 AATAAAAT
21888642 A
1 A
21888643 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:21888951 original size:30 final size:30
Alignment explanation
Indices: 21888896--21888964 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
21888886 CACCCTTAAA
* * *
21888896 ATATTTTCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAA-TTTTC
21888927 ATATTTACACT-TTAATCCCTCAAATTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
21888956 AGTATTTAC
1 A-TATTTAC
21888965 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 18 0.53
31 10 0.29
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.48
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:21892833 original size:17 final size:19
Alignment explanation
Indices: 21892808--21892848 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
21892798 CAATTCAATA
21892808 TTTTTTAG-A-TTT-TATT
1 TTTTTTAGAATTTTCTATT
21892824 TTTTTCTAGAATTTTCTATT
1 TTTTT-TAGAATTTTCTATT
21892844 TTTTT
1 TTTTT
21892849 AATAATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 1 0.05
19 3 0.14
20 9 0.43
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTTAGAATTTTCTATT
Found at i:21894036 original size:40 final size:41
Alignment explanation
Indices: 21893976--21894054 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
21893966 ATTTATTTTT
21893976 AAAGAAATTTTTATAATATTTATGGATAACAGTTTATAACA
1 AAAGAAATTTTTATAATATTTATGGATAACAGTTTATAACA
*
21894017 AAAGAATTTTTTAT-ATATTTATGGATAACAGTTTATAA
1 AAAGAAATTTTTATAATATTTATGGATAACAGTTTATAA
21894055 AATACTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 24 0.65
41 13 0.35
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (41 bp):
AAAGAAATTTTTATAATATTTATGGATAACAGTTTATAACA
Found at i:21896313 original size:18 final size:18
Alignment explanation
Indices: 21896286--21896326 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
21896276 TCGCATAAAC
21896286 AAAA-TCTTTCATATTCA
1 AAAATTCTTTCATATTCA
21896303 AAAATTCTTTCATATTCA
1 AAAATTCTTTCATATTCA
*
21896321 GAAATT
1 AAAATT
21896327 AAGTACGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATTCTTTCATATTCA
Found at i:21896585 original size:44 final size:43
Alignment explanation
Indices: 21896449--21896607 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 43
21896439 TAATGCCAAC
* * * *
21896449 GTCCCAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
21896492 ATCCCAGACAGGGTCTTATACG-AAA-TCAGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCTG-T
*
21896534 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCAATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
* *
21896578 GTCCCAGACACGGTATTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
21896608 GATTAATACC
Statistics
Matches: 94, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 27 0.29
44 29 0.31
45 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:21901067 original size:275 final size:276
Alignment explanation
Indices: 21900514--21901070 Score: 868
Period size: 276 Copynumber: 2.0 Consensus size: 276
21900504 TGTTCCTTCT
* *
21900514 GATCCAAAGCTGCCAACAAATGATGCCAAAAAGTGATTTCCAGTTGTTAGGATCACAAGAAAAAT
1 GATCCTAAGCTGCCAACAAATGATGCCAAAAAGTGATTGCCAGTTGTTAGGATCACAAGAAAAAT
* * **
21900579 ATTGAAGGTTAGAGAGATTAATCTCGAACCATTTTGCCAACCCAATAGAGAAAGGCTCGCGTCTT
66 ATTGAAGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGCGTCTT
* * *
21900644 TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGTTGGGGTACACATACGCAGCACGTGATG
131 TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGCTGGAGTACACATACGCAGCACATGATG
* *
21900709 AACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCCGAGGTTAGGTGTCTTCTCACTC
196 AACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCAGAGGTTAGGAGTCTTCTCACTC
*
21900774 GGTTCTCATTAGTAAG
261 AGTTCTCATTAGTAAG
** * *
21900790 GATCCTAAGCTGCCTGCAAATGATGCCAAAAGGTGATTGCCAGTT-TGTAGGATCACAAGCAAAA
1 GATCCTAAGCTGCCAACAAATGATGCCAAAAAGTGATTGCCAGTTGT-TAGGATCACAAGAAAAA
* *
21900854 TATTGAGGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGTGT-T
65 TATTGAAGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGCGTCT
* *
21900918 TCTTTGCAGCCTTAATCATTGAATG-CGAGTTGCTACAGCTGGAGTACACATACGCAGCACATGA
130 T-TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGCTGGAGTACACATACGCAGCACATGA
* *
21900982 TGGACGCTTACAAATAGGGTTCTACATATCTTACAACTTGCATCAGAGGTTAGGAGTCTTCTCAC
194 TGAACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCAGAGGTTAGGAGTCTTCTCAC
*
21901047 TCAGTTCTCATTATTAAG
259 TCAGTTCTCATTAGTAAG
21901065 GATCCT
1 GATCCT
21901071 GTTTAAAAAA
Statistics
Matches: 256, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
275 121 0.47
276 135 0.53
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (276 bp):
GATCCTAAGCTGCCAACAAATGATGCCAAAAAGTGATTGCCAGTTGTTAGGATCACAAGAAAAAT
ATTGAAGGTTAGAGAGATTAATCTAGAACCACTTTGCCAACCCAATAGAGAAAAACTCGCGTCTT
TTTACAGCCTTAATCATTGAATGTCAAGTTGCTACAGCTGGAGTACACATACGCAGCACATGATG
AACGCTTACAAATAGGGTTCTACATATCTTACAACTTGAATCAGAGGTTAGGAGTCTTCTCACTC
AGTTCTCATTAGTAAG
Found at i:21902351 original size:22 final size:22
Alignment explanation
Indices: 21902325--21902387 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
21902315 ATATCTAAAC
* *
21902325 AATAACAACAAAATAGTAGTAA
1 AATAACAACAAAATGGTAGGAA
* * * *
21902347 TATAATAGCAAATTGGTAGGAA
1 AATAACAACAAAATGGTAGGAA
*
21902369 AACAACAACAAAATGGTAG
1 AATAACAACAAAATGGTAG
21902388 CTAAACAGCA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.16, T:0.19
Consensus pattern (22 bp):
AATAACAACAAAATGGTAGGAA
Found at i:21902393 original size:22 final size:21
Alignment explanation
Indices: 21902328--21902402 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
21902318 TCTAAACAAT
* *
21902328 AACAACAAAATAGTAGTAATAT
1 AACAACAAAATGGTAGTAA-AC
* * * *
21902350 AATAGCAAATTGGTAGGAAAAC
1 AACAACAAAATGGTA-GTAAAC
21902372 AACAACAAAATGGTAGCTAAAC
1 AACAACAAAATGGTAG-TAAAC
*
21902394 AGCAACAAA
1 AACAACAAA
21902403 CAACAACAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.03
22 36 0.90
23 3 0.08
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.16
Consensus pattern (21 bp):
AACAACAAAATGGTAGTAAAC
Found at i:21906725 original size:19 final size:20
Alignment explanation
Indices: 21906689--21906726 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21906679 CTTTCTTTTG
* *
21906689 TCTTTTTTTTACTTAAATTT
1 TCTTTTATTTACTCAAATTT
21906709 TCTTTTATTTAC-CAAATT
1 TCTTTTATTTACTCAAATT
21906727 ACTACTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTTATTTACTCAAATTT
Found at i:21907987 original size:18 final size:19
Alignment explanation
Indices: 21907964--21908010 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
21907954 TATTTTTTTT
21907964 AGCTTTAC-TAAGTTCTTC
1 AGCTTTACGTAAGTTCTTC
21907982 AGCTTTATACGTTAAGTTCTTC
1 AGC-TT-TACG-TAAGTTCTTC
21908004 AGCTTTA
1 AGCTTTA
21908011 TACGTTCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 5 0.20
21 2 0.08
22 13 0.52
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (19 bp):
AGCTTTACGTAAGTTCTTC
Found at i:21907997 original size:22 final size:22
Alignment explanation
Indices: 21907972--21908016 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21907962 TTAGCTTTAC
21907972 TAAGTTCTTCAGCTTTATACGT
1 TAAGTTCTTCAGCTTTATACGT
21907994 TAAGTTCTTCAGCTTTATACGT
1 TAAGTTCTTCAGCTTTATACGT
21908016 T
1 T
21908017 CGATCTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (22 bp):
TAAGTTCTTCAGCTTTATACGT
Found at i:21918335 original size:13 final size:13
Alignment explanation
Indices: 21918317--21918341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21918307 AGGCCGTGTG
21918317 AGGGACACGGGCT
1 AGGGACACGGGCT
21918330 AGGGACACGGGC
1 AGGGACACGGGC
21918342 GTGTTCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:21920401 original size:11 final size:11
Alignment explanation
Indices: 21920385--21920415 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
21920375 GTCTTGGAAA
21920385 AATAATAAAAT
1 AATAATAAAAT
21920396 AATAATAAAAT
1 AATAATAAAAT
21920407 AA-AATAAAA
1 AATAATAAAA
21920416 GCATAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:21921609 original size:16 final size:16
Alignment explanation
Indices: 21921588--21921630 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
21921578 TGATAAACTA
21921588 AAAAAATTAAGTGATG
1 AAAAAATTAAGTGATG
** *
21921604 AAAAAAAAAAGTGTTG
1 AAAAAATTAAGTGATG
21921620 -AAAAATTAAGT
1 AAAAAATTAAGT
21921631 ATTGAAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AAAAAATTAAGTGATG
Found at i:21921643 original size:15 final size:15
Alignment explanation
Indices: 21921589--21921646 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
21921579 GATAAACTAA
21921589 AAAAATTAAGTGA-TG
1 AAAAATTAAGT-ATTG
** *
21921604 AAAAAAAAAAGTGTTG
1 -AAAAATTAAGTATTG
21921620 AAAAATTAAGTATTG
1 AAAAATTAAGTATTG
*
21921635 AAAATTTAAGTA
1 AAAAATTAAGTA
21921647 CATTTCACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 23 0.68
16 11 0.32
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTATTG
Found at i:21925297 original size:3 final size:3
Alignment explanation
Indices: 21925278--21925598 Score: 191
Period size: 3 Copynumber: 108.3 Consensus size: 3
21925268 AATAGGTAAA
* * * * *
21925278 AAT AAT -AT AAT AGT AAT AAT AAC AAT -AT AAT AAT AGT AGT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
21925324 AAT AAA AAT AAT AGT AAT AAA AAT AGT AAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
21925372 -AT ATT TAT AAT AAT AAT AATT AAT GAT AAT AAA AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
21925416 AGAA AAT AA- AGGT AA- AATT AAT AAT GAT ACT AACG AAT -AT AAGT
1 A-AT AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AA-T AAT AAT AA-T
*
21925460 AAT AAT AGT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA- AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * * * *
21925504 AAT AAT AAT ACGT TA- AAT TAT AAT AGT AA- AAT AAC AAT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
21925548 AAT AAT AAT -AT ATT AGAT AGT AAT AGT AA- AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21925592 AAT AAT A
1 AAT AAT A
21925599 TATTAAATTA
Statistics
Matches: 237, Mismatches: 59, Indels: 44
0.70 0.17 0.13
Matches are distributed among these distances:
2 23 0.10
3 197 0.83
4 17 0.07
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21925537 original size:44 final size:43
Alignment explanation
Indices: 21925478--21925598 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 43
21925468 TAAAATAATA
* *
21925478 ATAATAATAATAATAATAAAAGTAATAATAATAATACGTTAAATT
1 ATAATAGTAA-AATAATAAAAGTAATAATAATAATACATTAAA-T
* * * *
21925523 ATAATAGTAAAATAACAATAA-TAGTAATAATAATATATTAGAT
1 ATAATAGTAAAATAATAA-AAGTAATAATAATAATACATTAAAT
*
21925566 AGTAATAGTAAAATAATAATAGTAATAATAATA
1 A-TAATAGTAAAATAATAAAAGTAATAATAATA
21925599 TATTAAATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.05
44 50 0.78
45 11 0.17
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (43 bp):
ATAATAGTAAAATAATAAAAGTAATAATAATAATACATTAAAT
Found at i:21925599 original size:41 final size:39
Alignment explanation
Indices: 21925457--21925604 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 39
21925447 AACGAATATA
* * * * *
21925457 AGTAATAATAGTAAAATAATAATAATAATAATAATAATAAA
1 AGTAATAATAATATATTAAT-ATAATAGTAA-AATAATAAT
21925498 AGTAATAATAATAATACGTTAAATTATAATAGTAAAATAACAATAAT
1 AGTAATAATAAT-ATA--TT-AA-TATAATAGTAAAAT---AATAAT
21925545 AGTAATAATAATATATTAGATAGTAATAGTAAAATAATAAT
1 AGTAATAATAATATATTA-ATA-TAATAGTAAAATAATAAT
21925586 AGTAATAATAATATATTAA
1 AGTAATAATAATATATTAA
21925605 ATTAGTTAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
40 1 0.01
41 35 0.38
42 2 0.02
43 3 0.03
44 19 0.21
45 11 0.12
46 4 0.04
47 17 0.18
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (39 bp):
AGTAATAATAATATATTAATATAATAGTAAAATAATAAT
Found at i:21928290 original size:85 final size:85
Alignment explanation
Indices: 21928193--21928361 Score: 284
Period size: 85 Copynumber: 2.0 Consensus size: 85
21928183 AAATCCTATT
* * * *
21928193 TCGAGCTAACAAAATGTCATACCCGGTAAGTTAGGGCACGGCACCTCGTATCTTCGAGAATAAGC
1 TCGAGCTAACAAAATGTCATACCCAGTAAGTTAGGGCACGACACCTCGTATCTCCAAGAATAAGC
*
21928258 ATTTTTCAAAACTCAGATTA
66 ATTTTCCAAAACTCAGATTA
21928278 TCGAGCTAACAAAATGTCATACCCAGTAAGTTAGGGCACGACACCTCGTATCTCCAAGAATAAGC
1 TCGAGCTAACAAAATGTCATACCCAGTAAGTTAGGGCACGACACCTCGTATCTCCAAGAATAAGC
*
21928343 ATTTTCCAAAACTCGGATT
66 ATTTTCCAAAACTCAGATT
21928362 GCGATTTAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (85 bp):
TCGAGCTAACAAAATGTCATACCCAGTAAGTTAGGGCACGACACCTCGTATCTCCAAGAATAAGC
ATTTTCCAAAACTCAGATTA
Found at i:21928745 original size:247 final size:248
Alignment explanation
Indices: 21928309--21928803 Score: 947
Period size: 247 Copynumber: 2.0 Consensus size: 248
21928299 CCCAGTAAGT
21928309 TAGGGCACGACACCTCGTATCTCCAAGAATAAGCATTTTCCAAAACTCGGATTGCGATTTAAAAG
1 TAGGGCACGACACCTCGTATCTCCAAGAATAAGCATTTTCCAAAACTCGGATTGCGATTTAAAAG
* *
21928374 AGTATTTCACATTTAGGTTAAATGAGAGAAGTCGAAACCCAGTAAGTTAGGGCACGATTGTCTCG
66 AGTATTTCACATTTAGGTTAAATGAGAGAAGTCGAAACCCAGTAAGTTAGGGCACGATTGCCTCA
21928439 AATTACCAAATACGAAATATTTACTTTTATGAAAGAATTATTTTGGGCTGGGTAAGAGTTAGTAT
131 AATTACCAAATACGAAATATTTACTTTTATGAAAGAATTATTTTGGGCTGGGTAAGAGTTAGTAT
21928504 AACATAAGTCGTAAT-AAAAAAAGGGGATAATAAAGGATGCATAAACAAATAA
196 AACATAAGTCGTAATAAAAAAAAGGGGATAATAAAGGATGCATAAACAAATAA
21928556 TAGGGCACGACACCTCGTATCTCCAAGAATAAGCATTTTCCAAAACTCGGATTGCGATTTAAAAG
1 TAGGGCACGACACCTCGTATCTCCAAGAATAAGCATTTTCCAAAACTCGGATTGCGATTTAAAAG
21928621 AGTATTTCACATTTAGGTTAAATGAGAGAAGTCGAAACCCAGTAAGTTAGGGCACGATTGCCTCA
66 AGTATTTCACATTTAGGTTAAATGAGAGAAGTCGAAACCCAGTAAGTTAGGGCACGATTGCCTCA
*
21928686 AATTACTAAATACGAAATATTTACTTTTATGAAAGAATTATTTTGGGCTGGGTAAGAGTTAGTAT
131 AATTACCAAATACGAAATATTTACTTTTATGAAAGAATTATTTTGGGCTGGGTAAGAGTTAGTAT
21928751 AACATAAGTCGTAATAAAAAAAAAGGGGATAATAAAGGATGCATAAACAAATA
196 AACATAAGTCGTAAT-AAAAAAAAGGGGATAATAAAGGATGCATAAACAAATA
21928804 CAAGTTTTGG
Statistics
Matches: 243, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
247 207 0.85
249 36 0.15
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (248 bp):
TAGGGCACGACACCTCGTATCTCCAAGAATAAGCATTTTCCAAAACTCGGATTGCGATTTAAAAG
AGTATTTCACATTTAGGTTAAATGAGAGAAGTCGAAACCCAGTAAGTTAGGGCACGATTGCCTCA
AATTACCAAATACGAAATATTTACTTTTATGAAAGAATTATTTTGGGCTGGGTAAGAGTTAGTAT
AACATAAGTCGTAATAAAAAAAAGGGGATAATAAAGGATGCATAAACAAATAA
Found at i:21930422 original size:44 final size:44
Alignment explanation
Indices: 21930372--21930662 Score: 198
Period size: 44 Copynumber: 6.6 Consensus size: 44
21930362 TTTCAGCCTA
* *
21930372 TTACCCTACTGTTTAGGGGGTTAATGGTCTGTAAAT-TTGGCTTG
1 TTACCCTACTGCTTAGGGGGTTAA-GGTCTGTAAATCTTAGCTTG
* * * * *
21930416 TTACCCTACTGCTTAGGGGGTTAAAG-CT-CATCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCTGTA-AATCTTAGCT-TG
* * * * * * *
21930460 TTTCCCTACTACTTAGGGTGATAAGATCTGTAGATCTTCAGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATCTT-AGCTTG
**
21930505 TTACCCTACTGCTTAGGGATTTAAGGTCTGTAAAT-TTAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATCTTAGCTTG
* * * * * *
21930548 TTACCCTACTGCTTAGGGGGTTAAAG-CT-CATCATCTTCGATCTA
1 TTACCCTACTGCTTAGGGGGTTAAGGTCTGTA-AATCTTAGCT-TG
* * * * * * *
21930592 TTTCCCTACTGCTTAGGGTGATAAGATCTATAGATCTTCAGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATCTT-AGCTTG
* *
21930637 TTACCCTACTTCTTAGGGAGTTAAGG
1 TTACCCTACTGCTTAGGGGGTTAAGG
21930663 CTTGGTGGTT
Statistics
Matches: 186, Mismatches: 49, Indels: 23
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.01
42 8 0.04
43 37 0.20
44 69 0.37
45 66 0.35
46 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATCTTAGCTTG
Found at i:21930512 original size:45 final size:45
Alignment explanation
Indices: 21930350--21930654 Score: 193
Period size: 45 Copynumber: 6.9 Consensus size: 45
21930340 TCAGGGAGAC
* * * * *
21930350 AAGATCTGTA-ATTTTCAGCCTATTACCCTACTGTTTAGGGGGTT
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGTGAT
* * * * * *
21930394 AATGGTCTGTAAAT-TT-GGCTTGTTACCCTACTGCTTAGGGGGTT
1 AA-GATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGTGAT
* * * * * *
21930438 AA-AGCT-CATCATCTTC-GATCTGTTTCCCTACTACTTAGGGTGAT
1 AAGATCTGTA-GATCTTCAG-CCTGTTACCCTACTGCTTAGGGTGAT
*
21930482 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGAT-TT
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGG-TGAT
* * * * *
21930527 AAGGTCTGTAAAT-TT-AGCTTGTTACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGTGAT
* * * * * *
21930570 AA-AGCT-CATCATCTTC-GATCTATTTCCCTACTGCTTAGGGTGAT
1 AAGATCTGTA-GATCTTCAG-CCTGTTACCCTACTGCTTAGGGTGAT
* *
21930614 AAGATCTATAGATCTTCAGCCTGTTACCCTACTTCTTAGGG
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGG
21930655 AGTTAAGGCT
Statistics
Matches: 200, Mismatches: 43, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.01
42 8 0.04
43 33 0.17
44 74 0.37
45 76 0.38
46 7 0.04
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (45 bp):
AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGTGAT
Found at i:21930556 original size:132 final size:132
Alignment explanation
Indices: 21930350--21930662 Score: 520
Period size: 132 Copynumber: 2.4 Consensus size: 132
21930340 TCAGGGAGAC
* * * * *
21930350 AAGATCTGTA-ATTTTCAGCCTATTACCCTACTGTTTAGGGGGTTAATGGTCTGTAAATTTGGCT
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGAGTTAA-GGTCTGTAAATTTAGCT
*
21930414 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTGTTTCCCTACTACTTAGGGT
65 TGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTACTTAGGGT
21930479 GAT
130 GAT
*
21930482 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGATTTAAGGTCTGTAAATTTAGCTT
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTAGCTT
*
21930547 GTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTGCTTAGGGTG
66 GTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTACTTAGGGTG
21930612 AT
131 AT
* *
21930614 AAGATCTATAGATCTTCAGCCTGTTACCCTACTTCTTAGGGAGTTAAGG
1 AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGAGTTAAGG
21930663 CTTGGTGGTT
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 138 0.82
133 31 0.18
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (132 bp):
AAGATCTGTAGATCTTCAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGTCTGTAAATTTAGCTT
GTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTACTTAGGGTG
AT
Found at i:21930870 original size:43 final size:43
Alignment explanation
Indices: 21930730--21930925 Score: 160
Period size: 43 Copynumber: 4.5 Consensus size: 43
21930720 TGATCTGCTT
** * * *
21930730 CCCTACTGCTTAGGATGATAAGATCTATAAACTTCAGCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATCTATAAA-TTCAACCTGTTA
* * * *** * * *
21930774 CCCTACTGCGTAGGAGGTTAAAGCTCGT-TGCCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTT-AAGATC-TATAAATTCAACCTGTTA
*
21930818 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTA
* * ** * *
21930861 CCCTACTGCTTAGGGGTTTAAGGTCTATAAATTCGGCTTGCTA
1 CCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTA
*
21930904 CCCTACTGCTTAGAGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAG
21930926 GCCTGTGAAT
Statistics
Matches: 119, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
42 1 0.01
43 71 0.60
44 40 0.34
45 6 0.05
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTA
Found at i:21930937 original size:43 final size:42
Alignment explanation
Indices: 21930818--21930938 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
21930808 CGATCTGTTT
* *
21930818 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTA
1 CCCTACTGCTTA-GGGGTTAAGGTCTGTAAATTCAACCTGCTA
* ** *
21930861 CCCTACTGCTTAGGGGTTTAAGGTCTATAAATTCGGCTTGCTA
1 CCCTACTGCTTAGGGG-TTAAGGTCTGTAAATTCAACCTGCTA
* *
21930904 CCCTACTGCTTAGAGGGTTAAGGCCTGTGAATTCA
1 CCCTACTGCTTAG-GGGTTAAGGTCTGTAAATTCA
21930939 CCGATTCTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 4 0.06
43 59 0.89
44 3 0.05
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
CCCTACTGCTTAGGGGTTAAGGTCTGTAAATTCAACCTGCTA
Found at i:21938923 original size:18 final size:18
Alignment explanation
Indices: 21938887--21938929 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
21938877 AGTGTGTATG
21938887 ATGCAATGTTGATGCATGA
1 ATGCAATG-TGATGCATGA
21938906 ATGCAATG-GATGCGATGA
1 ATGCAATGTGATGC-ATGA
21938924 ATGCAA
1 ATGCAA
21938930 AAAAGCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (18 bp):
ATGCAATGTGATGCATGA
Found at i:21945178 original size:47 final size:47
Alignment explanation
Indices: 21945112--21945678 Score: 929
Period size: 47 Copynumber: 12.1 Consensus size: 47
21945102 GAAATGATAG
21945112 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21945159 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21945206 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21945253 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21945300 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21945347 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21945394 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21945441 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21945488 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21945535 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21945582 TAAGGCCTAATGGCCGATGTG-TGTATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
21945628 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21945675 TAAG
1 TAAG
21945679 TCCCGAAGGG
Statistics
Matches: 491, Mismatches: 28, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
46 39 0.08
47 452 0.92
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Done.