Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 37 of 259
Found at i:11002266 original size:39 final size:40
Alignment explanation
Indices: 11002223--11002332 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 40
11002213 TCCTCGTTCA
* *
11002223 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACG
* *
11002262 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACG
*
11002302 AATGCCTTCGGGACTTAACCCGGATTTAGTA
1 AATGCCTTCGGGACATAACCCGGATTTAGTA
11002333 TCTTGCACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 35 0.55
40 29 0.45
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACG
Found at i:11002321 original size:40 final size:39
Alignment explanation
Indices: 11002223--11002405 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
11002213 TCCTCGTTCA
* * *
11002223 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
11002262 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
11002301 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
11002341 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
11002382 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
11002406 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 38 0.31
40 75 0.62
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:11002414 original size:41 final size:41
Alignment explanation
Indices: 11002337--11002414 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11002327 TTAGTATCTT
* * *
11002337 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11002378 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11002415 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11010186 original size:40 final size:40
Alignment explanation
Indices: 11010088--11010257 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
11010078 TCCTCGTTCA
* * * *
11010088 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
11010127 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
11010167 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGTACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
11010207 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGTACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
11010247 AAGGCCTTCGG
1 AATGCCTTCGG
11010258 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.29
40 84 0.71
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:11010189 original size:79 final size:80
Alignment explanation
Indices: 11010088--11010234 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
11010078 TCCTCGTTCA
* * *
11010088 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
11010152 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* ** *
11010167 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGTACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
11010232 TTA
66 TTA
11010235 GTATCTCGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 33 0.55
80 27 0.45
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACG
Found at i:11010270 original size:40 final size:40
Alignment explanation
Indices: 11010080--11010310 Score: 191
Period size: 40 Copynumber: 5.8 Consensus size: 40
11010070 GATATAGCTC
* * * * * *
11010080 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAA
1 CTCGTACAAAGGCCTTCGGGACTTAACCCGGATTTAATAA
* * *
11010120 CTC--ACACAATGCCTTCGGGACATAACCCGGATTTAACAA
1 CTCGTACA-AAGGCCTTCGGGACTTAACCCGGATTTAATAA
* * *
11010159 CTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAA
1 CTCGTACAAAGGCCTTCGGGACTTAACCCGGATTTAATAA
* * * *
11010199 CTCGTACGAATGCCTTCGGGACTTAACCCGGATTTAGTAT
1 CTCGTACAAAGGCCTTCGGGACTTAACCCGGATTTAATAA
** * * *
11010239 CTCGTACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCA
1 CTCGTACAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAA
* * *
11010279 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGTACAAAGGCCTTCGGGACTTAACCCGGA
11010311 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 34 0.21
40 115 0.71
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CTCGTACAAAGGCCTTCGGGACTTAACCCGGATTTAATAA
Found at i:11015500 original size:40 final size:40
Alignment explanation
Indices: 11015396--11015583 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
11015386 CGAATTGTCG
* * *
11015396 CACACTAAGTGCCAATACATAGCTGAAGCTATTTC-AATCTTG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAATC--A
** * *
11015438 CATTCTAAGTTCCATACATAGCCGAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
* * *
11015478 CACACTAAGTGCCATACTTAGCCAAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
*
11015518 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
* * *
11015558 CACACTAAGTGTCGTACATAGTCGAA
1 CACACTAAGTGCCATACATAGCCGAA
11015584 TTGTAGTAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 92 0.74
41 19 0.15
42 14 0.11
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
Found at i:11028253 original size:18 final size:18
Alignment explanation
Indices: 11028218--11028331 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
11028208 CAGTCAGTCA
* * *
11028218 TCAGTAATAATTAGTTAT
1 TCAGTAATAGTCAATTAT
* *
11028236 TCAGTAATGGTCATTTAT
1 TCAGTAATAGTCAATTAT
*
11028254 TCAAT-ATCAGTCAATTAT
1 TCAGTAAT-AGTCAATTAT
*
11028272 TCAGTAGTAGTCAATTAT
1 TCAGTAATAGTCAATTAT
*
11028290 TCAGTAACAGTC-ATTGAT
1 TCAGTAATAGTCAATT-AT
* * *
11028308 TCAATAACAGTCGATTAT
1 TCAGTAATAGTCAATTAT
11028326 TCAGTA
1 TCAGTA
11028332 GCGATCAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
17 5 0.06
18 70 0.89
19 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (18 bp):
TCAGTAATAGTCAATTAT
Found at i:11028340 original size:54 final size:54
Alignment explanation
Indices: 11028232--11028341 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
11028222 TAATAATTAG
** * * *
11028232 TTATTCAGTAATGGTCATTTATTCAATATCAGTCAATTATTCAGTAGTAGTCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGGAGTCAA
*
11028286 TTATTCAGTAACAGTCATTGATTCAATAACAGTCGATTATTCAGTAGCGA-TCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAG-GAGTCAA
11028340 TT
1 TT
11028342 TTTAGTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (54 bp):
TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGGAGTCAA
Found at i:11034942 original size:46 final size:46
Alignment explanation
Indices: 11034892--11035067 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
11034882 TGGTTAAGCA
11034892 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11034938 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11034983 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
11035031 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11035068 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11035048 original size:93 final size:93
Alignment explanation
Indices: 11034889--11035060 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
11034879 GGATGGTTAA
* *
11034889 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
11034954 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
*
11034982 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11035047 TGAGTCCAAGTTCG
66 TGAGTCCAAGTTCG
11035061 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:11036743 original size:15 final size:15
Alignment explanation
Indices: 11036723--11036775 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
11036713 ATAAATAAAT
11036723 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
11036738 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
11036753 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
11036768 TGGGGCAC
1 TGGGGCAC
11036776 GCCCGTGTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.13, C:0.32, G:0.47, T:0.08
Consensus pattern (15 bp):
TGGGGCACACGGCCG
Found at i:11036781 original size:13 final size:14
Alignment explanation
Indices: 11036723--11036782 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 14
11036713 ATAAATAAAT
11036723 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
11036738 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
11036753 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
*
11036768 TGGGG-CACGCCCG
1 TGGGGACACGGCCG
11036781 TG
1 TG
11036783 TGCCCTTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
13 9 0.20
15 35 0.80
ACGTcount: A:0.12, C:0.33, G:0.47, T:0.08
Consensus pattern (14 bp):
TGGGGACACGGCCG
Found at i:11040352 original size:46 final size:46
Alignment explanation
Indices: 11040298--11040470 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
11040288 TGGTTGAGCA
11040298 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * * *
11040344 TCCAAACTCGTTTAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
11040389 CATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
11040437 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11040471 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.56
47 25 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:11040454 original size:93 final size:93
Alignment explanation
Indices: 11040295--11040465 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11040285 GGATGGTTGA
* * *
11040295 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTTAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAATGCCCAAACTCGTTGAGT
*
11040360 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
11040388 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAATGCCCAAACTCGTTGAGT
11040453 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11040466 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAATGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11057430 original size:93 final size:93
Alignment explanation
Indices: 11057317--11057488 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
11057307 CGCCCATAAG
* *
11057317 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11057382 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
11057410 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11057475 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
11057489 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:11057485 original size:46 final size:46
Alignment explanation
Indices: 11057310--11057485 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
11057300 TGTAACCCGC
* * * *
11057310 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
* * *
11057356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--T
* *
11057402 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
*
11057449 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
11057486 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTAT
Found at i:11063206 original size:30 final size:30
Alignment explanation
Indices: 11063171--11063240 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
11063161 TATTTTTGTC
*
11063171 CACACGGGCATGTGT-CTCAG-CAGTGTGCGA
1 CACACGGGCATGT-TACACAGCCA-TGTGCGA
*
11063201 CACACGGTCATGTTACACAGCCATGTGCGA
1 CACACGGGCATGTTACACAGCCATGTGCGA
*
11063231 CACATGGGCA
1 CACACGGGCA
11063241 AGTGGTCGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.91
31 2 0.06
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.19
Consensus pattern (30 bp):
CACACGGGCATGTTACACAGCCATGTGCGA
Found at i:11068597 original size:79 final size:80
Alignment explanation
Indices: 11068453--11068634 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
11068443 GCTACTCGTT
* ** *
11068453 CAAATGCCTTCGGGACATAGCCC-GGTTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
11068517 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
11068533 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 -CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
11068596 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
11068613 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
11068635 GGACATCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 56 0.66
80 23 0.27
81 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:11068637 original size:40 final size:40
Alignment explanation
Indices: 11068434--11068637 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
11068424 CGAAATTTAA
** *
11068434 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
11068474 CCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11068514 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11068553 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
11068593 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
11068633 CCGGA
1 CCGGA
11068638 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11073722 original size:42 final size:43
Alignment explanation
Indices: 11073639--11073778 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 43
11073629 TAAATATAAA
* * *
11073639 ACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAG
1 ACCATGTCTGGGACATTGGCATCGTAATGAGATTACCTGTAAG
* *
11073682 ACCATGT-TGGGACATTGGCATCGTTAAT-CGATTTCCTGTAAG
1 ACCATGTCTGGGACATTGGCATCG-TAATGAGATTACCTGTAAG
* * ** * * * *
11073724 ACCCTATCTAAGACAGTGG-ATCG-ATATGTGATAACATGTAAG
1 ACCATGTCTGGGACATTGGCATCGTA-ATGAGATTACCTGTAAG
*
11073766 ACCATATCTGGGA
1 ACCATGTCTGGGA
11073779 TATGACATTC
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 55 0.72
43 18 0.24
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
ACCATGTCTGGGACATTGGCATCGTAATGAGATTACCTGTAAG
Found at i:11079599 original size:26 final size:27
Alignment explanation
Indices: 11079555--11079613 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
11079545 TTACCTCGAC
11079555 CCCCTAATAGATAAAATGACTGTTATA
1 CCCCTAATAGATAAAATGACTGTTATA
* * *
11079582 CCCCTAAT-GGTAAAATGACTGTTTTG
1 CCCCTAATAGATAAAATGACTGTTATA
11079608 CCCCTA
1 CCCCTA
11079614 TGTGATGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (27 bp):
CCCCTAATAGATAAAATGACTGTTATA
Found at i:11086237 original size:28 final size:28
Alignment explanation
Indices: 11086169--11086322 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
11086159 CATGAGATTG
* * * *
11086169 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
11086198 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
11086226 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
11086254 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
11086282 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
11086309 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
11086323 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.65
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:11093820 original size:12 final size:12
Alignment explanation
Indices: 11093803--11093828 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11093793 CATTCCGAAG
11093803 TATATATATACA
1 TATATATATACA
11093815 TATATATATACA
1 TATATATATACA
11093827 TA
1 TA
11093829 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:11094431 original size:27 final size:28
Alignment explanation
Indices: 11094293--11094418 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
11094283 TAAATTGTAC
*
11094293 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
11094321 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
11094349 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
11094377 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
11094404 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11094419 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:11095927 original size:1 final size:1
Alignment explanation
Indices: 11095921--11095956 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
11095911 CTCCGGCGAC
*
11095921 AAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11095957 GTCTCGGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:11108070 original size:28 final size:28
Alignment explanation
Indices: 11108007--11108157 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
11107997 ATATTAAGTC
*
11108007 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
11108034 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
11108062 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
11108090 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
11108118 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
11108147 CGCACACTTAG
1 CGCACACTTAG
11108158 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:11114900 original size:20 final size:21
Alignment explanation
Indices: 11114867--11114910 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
11114857 GATTTATTTT
11114867 ATTTTAGTGGTTA-TATTGCA
1 ATTTTAGTGGTTATTATTGCA
* * *
11114887 ATTTTTGTGTTTATTCTTGCA
1 ATTTTAGTGGTTATTATTGCA
11114908 ATT
1 ATT
11114911 ATGAACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.16, T:0.57
Consensus pattern (21 bp):
ATTTTAGTGGTTATTATTGCA
Found at i:11120408 original size:27 final size:24
Alignment explanation
Indices: 11120378--11120499 Score: 70
Period size: 25 Copynumber: 4.8 Consensus size: 24
11120368 AACCCTATTT
*
11120378 TTATATTTATATTATATAGTTATTCTA
1 TTATATTT-TATT-TATA-TTATTATA
* *
11120405 TTATGTATTATTTATATTATTATA
1 TTATATTTTATTTATATTATTATA
* *
11120429 TTAT-TATTT-TTCACTAATTATTATT
1 TTATAT-TTTATTTA-T-ATTATTATA
* *
11120454 TTACATTATTATTTATA-TATTATTG
1 TTATATT-TTATTTATATTATTA-TA
*
11120479 TTATATTTTTACTTATATTAT
1 TTATA-TTTTATTTATATTAT
11120500 ATGTTTATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
23 4 0.05
24 19 0.25
25 30 0.40
26 13 0.17
27 9 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATATTTTATTTATATTATTATA
Found at i:11120435 original size:16 final size:15
Alignment explanation
Indices: 11120384--11120477 Score: 70
Period size: 16 Copynumber: 6.1 Consensus size: 15
11120374 ATTTTTATAT
11120384 TTATATTATATAGTTA
1 TTATATTATATA-TTA
* *
11120400 TTCTATTATGTATTA
1 TTATATTATATATTA
11120415 TTTATATTATTATATTA
1 -TTATATTA-TATATTA
*
11120432 TTAT-TTTTCACTAATTA
1 TTATATTAT-A-T-ATTA
*
11120449 TTAT-TT-TACATTA
1 TTATATTATATATTA
11120462 TTAT-TTATATATTA
1 TTATATTATATATTA
11120476 TT
1 TT
11120478 GTTATATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.15
14 9 0.14
15 7 0.11
16 23 0.35
17 16 0.25
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATATTATATATTA
Found at i:11120469 original size:17 final size:17
Alignment explanation
Indices: 11120427--11120466 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11120417 TATATTATTA
*
11120427 TATTATTATTTTTCACT
1 TATTATTATTTTACACT
*
11120444 AATTATTATTTTACA-T
1 TATTATTATTTTACACT
11120460 TATTATT
1 TATTATT
11120467 TATATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTATTTTACACT
Found at i:11120585 original size:19 final size:17
Alignment explanation
Indices: 11120556--11120615 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 17
11120546 TACTTTCGTA
11120556 TTATATATTATAATTATT
1 TTATATATTATAATT-TT
11120574 TTATATTATTATGTCAATTTT
1 TTATA-TATTA--T-AATTTT
11120595 TTATACTATTAT-ATTTT
1 TTATA-TATTATAATTTT
11120612 TTAT
1 TTAT
11120616 CTATATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 9 0.24
18 5 0.14
19 6 0.16
21 13 0.35
22 4 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATATTATAATTTT
Found at i:11120622 original size:15 final size:17
Alignment explanation
Indices: 11120590--11120624 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11120580 TATTATGTCA
11120590 ATTTTTTATACTATTAT
1 ATTTTTTATACTATTAT
11120607 ATTTTTTAT-CTA-TAT
1 ATTTTTTATACTATTAT
11120622 ATT
1 ATT
11120625 ATTATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 3 0.17
17 9 0.50
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTTATACTATTAT
Found at i:11120908 original size:17 final size:16
Alignment explanation
Indices: 11120885--11120943 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
11120875 CCAATATATT
11120885 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
11120901 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
11120917 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
11120935 TTATATTTT
1 TTATATTTT
11120944 AAATCTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:11129850 original size:39 final size:39
Alignment explanation
Indices: 11129807--11129954 Score: 190
Period size: 39 Copynumber: 3.8 Consensus size: 39
11129797 ACCAGCTCGA
* * * *
11129807 AGCCTGCGGGA-CTTTAGCCCAGACGTAATTCCACCATAT
1 AGCCTGC-GGACCTTAAGTCCAGACATAATTCCAGCATAT
*
11129846 AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCATAT
1 AGCCTGCGGACCTTAAGTCCAGACATAATTCCAGCATAT
* *
11129885 AGCCTGCAGACCTAAAGTCCAGACATAATTCCAGCATAT
1 AGCCTGCGGACCTTAAGTCCAGACATAATTCCAGCATAT
* * *
11129924 AGCCTGTGGACCTTAAGTCCGGATATAATTC
1 AGCCTGCGGACCTTAAGTCCAGACATAATTC
11129955 ATCACTGAGT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 3 0.03
39 92 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCAGACATAATTCCAGCATAT
Found at i:11147357 original size:14 final size:14
Alignment explanation
Indices: 11147338--11147367 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11147328 TTATATCGAG
11147338 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
11147352 ACCAATCCAATTCA
1 ACCAATCCAAATCA
11147366 AC
1 AC
11147368 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:11153520 original size:40 final size:41
Alignment explanation
Indices: 11153337--11153520 Score: 186
Period size: 40 Copynumber: 4.6 Consensus size: 41
11153327 GCTACTCGTT
* *
11153337 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
11153377 CAATTGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
11153417 CAAATGCCTT-GGG-CTTAGCGC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * * * *
11153455 CAAATGCCTTC-AGATCGTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
11153496 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11153521 CATCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
37 2 0.02
38 29 0.25
39 3 0.03
40 67 0.58
41 15 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:11161398 original size:79 final size:81
Alignment explanation
Indices: 11161296--11161480 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
11161286 GCTACTCATT
* * *
11161296 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
11161359 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
11161376 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
11161440 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
11161456 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11161481 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:11161480 original size:40 final size:40
Alignment explanation
Indices: 11161296--11161480 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
11161286 GCTACTCATT
* *
11161296 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
11161336 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
11161376 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
11161415 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
11161456 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11161481 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:11169683 original size:26 final size:25
Alignment explanation
Indices: 11169642--11169691 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
11169632 TTTTTATATT
11169642 TATATTATATAGTTAT-TCTATTATG
1 TATATTATATAGTTATAT-TATTATG
11169667 TATATTTATATTA-TTATATTATTAT
1 TATA-TTATA-TAGTTATATTATTAT
11169692 TTTTCACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.18
26 15 0.68
27 3 0.14
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
TATATTATATAGTTATATTATTATG
Found at i:11169728 original size:23 final size:22
Alignment explanation
Indices: 11169660--11169725 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 22
11169650 ATAGTTATTC
*
11169660 TATTATGTATATTTATATTATTA-
1 TATTAT-TAT-TTTACATTATTAT
* *
11169683 TATTATTATTTTTCACTA--AT
1 TATTATTATTTTACATTATTAT
11169703 TATTATTATTTTACATTATTAT
1 TATTATTATTTTACATTATTAT
11169725 T
1 T
11169726 TATATACTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.46
21 6 0.17
22 6 0.17
23 6 0.17
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATTATTTTACATTATTAT
Found at i:11169748 original size:33 final size:34
Alignment explanation
Indices: 11169672--11169759 Score: 89
Period size: 33 Copynumber: 2.7 Consensus size: 34
11169662 TTATGTATAT
* *
11169672 TTATATTATTATATTATTATTT-TTCACTAATTA
1 TTATATTTTTACATTATTATTTATTCACTAATTA
*
11169705 TTAT-TATTTTACATTATTATTTATAT-ACTAA-TG
1 TTATAT-TTTTACATTATTATTTAT-TCACTAATTA
11169738 TTATATTTTTAC-TTA-TATTTAT
1 TTATATTTTTACATTATTATTTAT
11169760 GTTTATTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 7 0.15
32 4 0.08
33 29 0.60
34 7 0.15
35 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (34 bp):
TTATATTTTTACATTATTATTTATTCACTAATTA
Found at i:11169837 original size:18 final size:18
Alignment explanation
Indices: 11169814--11169885 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
11169804 TACTTTCGTA
11169814 TTATA-TATTATAATTATT
1 TTATACTATTAT-ATTATT
*
11169832 TTATATTATTATGTCATT-TT
1 TTATACTATTA--T-ATTATT
*
11169852 TTATACTATTATATTTTT
1 TTATACTATTATATTATT
11169870 TTAT-CTA-TATATTATT
1 TTATACTATTATATTATT
11169886 ATCATTTAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 8 0.17
17 6 0.13
18 12 0.26
19 5 0.11
20 12 0.26
21 4 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATACTATTATATTATT
Found at i:11169880 original size:16 final size:18
Alignment explanation
Indices: 11169814--11169882 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 18
11169804 TACTTTCGTA
*
11169814 TTATA-TATTATAATTATT
1 TTATACTATTAT-ATTTTT
* *
11169832 TTATATTATTATGTCATTTT
1 TTATACTATTATAT--TTTT
11169852 TTATACTATTATATTTTT
1 TTATACTATTATATTTTT
11169870 TTAT-CTA-TATATT
1 TTATACTATTATATT
11169883 ATTATCATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.14
17 3 0.07
18 14 0.32
19 6 0.14
20 15 0.34
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATACTATTATATTTTT
Found at i:11170166 original size:17 final size:16
Alignment explanation
Indices: 11170143--11170201 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
11170133 CCAATATATT
11170143 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
11170159 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
11170175 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
11170193 TTATATTTT
1 TTATATTTT
11170202 AAATCTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:11174777 original size:25 final size:24
Alignment explanation
Indices: 11174739--11174787 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
11174729 CATCAAGAGG
11174739 TCTTTAAAGGTTATAATGGGGCTT
1 TCTTTAAAGGTTATAATGGGGCTT
11174763 TCTTTAAGAGGTTATAATGGGGCTT
1 TCTTTAA-AGGTTATAATGGGGCTT
11174788 AGGTTAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (24 bp):
TCTTTAAAGGTTATAATGGGGCTT
Found at i:11174794 original size:25 final size:25
Alignment explanation
Indices: 11174742--11174795 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
11174732 CAAGAGGTCT
* *
11174742 TTAA-AGGTTATAATGGGGCTTTCT
1 TTAAGAGGTTATAATGGGGCTTACG
*
11174766 TTAAGAGGTTATAATGGGGCTTAGG
1 TTAAGAGGTTATAATGGGGCTTACG
11174791 TTAAG
1 TTAAG
11174796 GGTATGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.28, C:0.06, G:0.30, T:0.37
Consensus pattern (25 bp):
TTAAGAGGTTATAATGGGGCTTACG
Found at i:11177597 original size:21 final size:21
Alignment explanation
Indices: 11177552--11177616 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
11177542 TAAGAATGAC
*
11177552 AATAAAAATAATAA-AATAAT
1 AATAAAAATAATAAGAGTAAT
11177572 AAATAAAAATAATAAGAGTAAT
1 -AATAAAAATAATAAGAGTAAT
*
11177594 AATAATAACTAA-AAGAG-AAT
1 AATAA-AAATAATAAGAGTAAT
11177614 AAT
1 AAT
11177617 GAACATCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.15
21 24 0.60
22 10 0.25
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (21 bp):
AATAAAAATAATAAGAGTAAT
Found at i:11177724 original size:15 final size:15
Alignment explanation
Indices: 11177704--11177732 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11177694 AACAAAAAGT
11177704 AATAATAAAACTAAG
1 AATAATAAAACTAAG
11177719 AATAATAAAACTAA
1 AATAATAAAACTAA
11177733 CAATGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAATAAAACTAAG
Found at i:11177766 original size:5 final size:5
Alignment explanation
Indices: 11177756--11177828 Score: 68
Period size: 5 Copynumber: 15.8 Consensus size: 5
11177746 AGTAAGAAGA
* * *
11177756 AAAAT AAAAT AAAAT AAAAT ATAAT AAAAT ATAAT AAAA- ATAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
11177804 AATA- AAAAT -AAAT -AAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
11177829 GTAAGGGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
4 21 0.38
5 35 0.62
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:11177795 original size:26 final size:25
Alignment explanation
Indices: 11177756--11177823 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
11177746 AGTAAGAAGA
*
11177756 AAAATAAAAT-AAAATAAAATATAAT
1 AAAATATAATAAAAATAAAA-ATAAT
11177781 AAAATATAATAAAAATAATAAATAAT
1 AAAATATAATAAAAATAA-AAATAAT
*
11177807 AAAA-ATAA-ATAAATAAA
1 AAAATATAATAAAAATAAA
11177824 TAAAAGTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 13 0.33
26 16 0.41
27 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (25 bp):
AAAATATAATAAAAATAAAAATAAT
Found at i:11182895 original size:14 final size:14
Alignment explanation
Indices: 11182876--11182904 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11182866 CTTTTTAAAG
11182876 ATCTTGAAACTCTA
1 ATCTTGAAACTCTA
11182890 ATCTTGAAACTCTA
1 ATCTTGAAACTCTA
11182904 A
1 A
11182905 CTTCACCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (14 bp):
ATCTTGAAACTCTA
Found at i:11184463 original size:24 final size:24
Alignment explanation
Indices: 11184418--11184463 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
11184408 AATTGATGAA
* **
11184418 TATTTTATATTTATTTAATTTTAT
1 TATTTGATATTTACATAATTTTAT
*
11184442 TATTTGATATTTACATATTTTT
1 TATTTGATATTTACATAATTTT
11184464 TAATATATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTGATATTTACATAATTTTAT
Found at i:11185497 original size:22 final size:22
Alignment explanation
Indices: 11185472--11185514 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11185462 GATATATTAC
11185472 TTAAATTAATT-ATGAAATATAA
1 TTAAATTAATTGAT-AAATATAA
*
11185494 TTAAATTGATTGATAAATATA
1 TTAAATTAATTGATAAATATA
11185515 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
TTAAATTAATTGATAAATATAA
Found at i:11187655 original size:29 final size:29
Alignment explanation
Indices: 11187617--11187682 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
11187607 TAAAGTGATT
*
11187617 TTGAGTAAAAATGCATATT-AGGGATTAAA
1 TTGAG-AAAAATGCAAATTGAGGGATTAAA
* *
11187646 TTGAGAAAAATGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGCAAATTGAGGGATTAAA
*
11187675 TTGTGAAA
1 TTGAGAAA
11187683 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30
Consensus pattern (29 bp):
TTGAGAAAAATGCAAATTGAGGGATTAAA
Found at i:11188159 original size:40 final size:40
Alignment explanation
Indices: 11188094--11188184 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
11188084 ATTATGTTTG
11188094 GCACTTAGTGTGCGTATTGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAGATAGCTTCGGCTATATAAA
* **
11188134 GCACTTAGTGTGTG-ATTCG-GAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGTATT-GAG-ATAGCTTCGGCTATATAAA
11188174 GCACTTAGTGT
1 GCACTTAGTGT
11188185 ACGGGACTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 4 0.09
40 42 0.91
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATTGAGATAGCTTCGGCTATATAAA
Found at i:11188251 original size:41 final size:42
Alignment explanation
Indices: 11188173--11188274 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 42
11188163 GGCTATATAT
* *
11188173 GGCACTTAGTGTACGGGACTGATATAGCTTCAACTATG-AAA
1 GGCACTTAGTGTACGAGATTGATATAGCTTCAACTATGCAAA
* * ***
11188214 GGCACTTAGTGTACGAGATTG-TAATAGCTTTAGCTATGCTTT
1 GGCACTTAGTGTACGAGATTGAT-ATAGCTTCAACTATGCAAA
*
11188256 GGCACTTAGTGTGCGAGAT
1 GGCACTTAGTGTACGAGAT
11188275 ATCGAGTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 32 0.63
42 18 0.35
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
GGCACTTAGTGTACGAGATTGATATAGCTTCAACTATGCAAA
Found at i:11199289 original size:20 final size:20
Alignment explanation
Indices: 11199260--11199305 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11199250 TCTAGTTTAT
* *
11199260 GACCAGAAGAAACCAGTTAG
1 GACCACAAGAAACCAGTCAG
11199280 GACCACAAGAAACCAGTCAG
1 GACCACAAGAAACCAGTCAG
11199300 GACCAC
1 GACCAC
11199306 TACTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.28, G:0.22, T:0.07
Consensus pattern (20 bp):
GACCACAAGAAACCAGTCAG
Found at i:11222394 original size:27 final size:26
Alignment explanation
Indices: 11222359--11222470 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
11222349 AGCATGGCTG
* *
11222359 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
11222385 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
11222413 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
11222440 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
11222467 CCAG
1 CCAG
11222471 GATGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:11222423 original size:54 final size:54
Alignment explanation
Indices: 11222359--11222470 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
11222349 AGCATGGCTG
*
11222359 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
11222413 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
11222467 CCAG
1 CCAG
11222471 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:11225593 original size:30 final size:32
Alignment explanation
Indices: 11225559--11225647 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 32
11225549 TAAAAATAGT
*
11225559 ATATTATTTTTATTTATATGTTATTTTA-T-C
1 ATATTATTTTTATTTATATATTATTTTATTAC
* *
11225589 ATATTATTTATATTTCATTTATATATTTTATTAC
1 ATATTATTTTTATTT-ATATAT-TATTTTATTAC
*
11225623 ATATCATATTTTA-TTATATATTATT
1 ATATTAT-TTTTATTTATATATTATT
11225648 CCCTATATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 14 0.29
31 4 0.08
32 11 0.23
33 6 0.12
34 9 0.19
35 4 0.08
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (32 bp):
ATATTATTTTTATTTATATATTATTTTATTAC
Found at i:11225619 original size:24 final size:24
Alignment explanation
Indices: 11225566--11225620 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
11225556 AGTATATTAT
11225566 TTTTATTTATATGTTATTTTATCA
1 TTTTATTTATATGTTATTTTATCA
*
11225590 TATTATTTATAT-TTCATTTATAT-A
1 TTTTATTTATATGTT-ATTT-TATCA
11225614 TTTTATT
1 TTTTATT
11225621 ACATATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 22 0.81
25 3 0.11
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTATTTATATGTTATTTTATCA
Found at i:11225633 original size:17 final size:17
Alignment explanation
Indices: 11225611--11225643 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11225601 TTTCATTTAT
11225611 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
11225628 ATATTTTATTATATAT
1 ATATTTTATTACATAT
11225644 TATTCCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:11226288 original size:71 final size:73
Alignment explanation
Indices: 11226154--11226288 Score: 186
Period size: 71 Copynumber: 1.9 Consensus size: 73
11226144 AAAATATTGT
* * *
11226154 TATATATTATGTAATTTATATATTGTTAGATTCATTGTTTTCTGTGTTATATTTTGCAAGAAATA
1 TATATATTATGTAATCTATATATTGTTAGATTCATTGTTTTCTATGTTATATTCTGCAAGAAATA
11226219 TTATTATA
66 TTATTATA
** *
11226227 TATATATTATGTAATCTATAT-TT-TTATTTTCATTGTTTTCTATGATTATA-TCTGCATGAAAT
1 TATATATTATGTAATCTATATATTGTTAGATTCATTGTTTTCTATG-TTATATTCTGCAAGAAAT
11226289 GATAATGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 28 0.51
72 7 0.13
73 20 0.36
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (73 bp):
TATATATTATGTAATCTATATATTGTTAGATTCATTGTTTTCTATGTTATATTCTGCAAGAAATA
TTATTATA
Found at i:11226300 original size:73 final size:73
Alignment explanation
Indices: 11226154--11226304 Score: 184
Period size: 71 Copynumber: 2.1 Consensus size: 73
11226144 AAAATATTGT
* * *
11226154 TATATATTATGTAATTTATATATTGTTAGATTCATTGTTTTCTGTGTTATATTTTGCAAGAAATA
1 TATATATTATGTAATCTATATATTGTTAGATTCATTGTTTTCTATGTTATATTCTGCAAGAAATA
*
11226219 TTATTATA
66 TAATTATA
** *
11226227 TATATATTATGTAATCTATAT-TT-TTATTTTCATTGTTTTCTATGATTATA-TCTGCATGAAAT
1 TATATATTATGTAATCTATATATTGTTAGATTCATTGTTTTCTATG-TTATATTCTGCAAGAAAT
11226289 GATAATGTATA
65 -ATAAT-TATA
11226300 T-TATA
1 TATATA
11226305 ATTTATGTCG
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
71 28 0.41
72 15 0.22
73 25 0.37
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (73 bp):
TATATATTATGTAATCTATATATTGTTAGATTCATTGTTTTCTATGTTATATTCTGCAAGAAATA
TAATTATA
Found at i:11227424 original size:23 final size:24
Alignment explanation
Indices: 11227393--11227451 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 24
11227383 AAAAAAATGA
*
11227393 ATGAGTAGTGAAGAA-TCTCTGGC
1 ATGAATAGTGAAGAATTCTCTGGC
*
11227416 ATGAATAGT-AA-AATTCTTTGGC
1 ATGAATAGTGAAGAATTCTCTGGC
* *
11227438 ATGAACAATGAAGA
1 ATGAATAGTGAAGA
11227452 TTCCCTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.07
22 16 0.55
23 10 0.34
24 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (24 bp):
ATGAATAGTGAAGAATTCTCTGGC
Found at i:11250850 original size:17 final size:17
Alignment explanation
Indices: 11250824--11250857 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11250814 CTAAATTTAT
* *
11250824 CAAACGTGTAACATCAA
1 CAAACATGTAAAATCAA
11250841 CAAACATGTAAAATCAA
1 CAAACATGTAAAATCAA
11250858 TACAAATAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (17 bp):
CAAACATGTAAAATCAA
Found at i:11252407 original size:21 final size:21
Alignment explanation
Indices: 11252367--11252408 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11252357 TTTTTTTCCA
* *
11252367 TTTTAGTATTAATTATTAAAT
1 TTTTAGTATTAAGTAGTAAAT
*
11252388 TTTTAGTATTTAGTAGTAAAT
1 TTTTAGTATTAAGTAGTAAAT
11252409 ATTAAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTAGTATTAAGTAGTAAAT
Found at i:11253443 original size:37 final size:37
Alignment explanation
Indices: 11253393--11253467 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
11253383 AGATGACACG
* *
11253393 GCCTAAGCCTTGCCACATGGGCAGCTCACACGCCCGT
1 GCCTAAGCCTTGCCACACGAGCAGCTCACACGCCCGT
*
11253430 GCCTAAGCCTTGCCACACGAGTAGCTCACACGCCCGT
1 GCCTAAGCCTTGCCACACGAGCAGCTCACACGCCCGT
11253467 G
1 G
11253468 TCTTTCGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (37 bp):
GCCTAAGCCTTGCCACACGAGCAGCTCACACGCCCGT
Found at i:11254454 original size:13 final size:13
Alignment explanation
Indices: 11254436--11254460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11254426 GTTTAATTAG
11254436 TTAATTAGTTTAT
1 TTAATTAGTTTAT
11254449 TTAATTAGTTTA
1 TTAATTAGTTTA
11254461 ATAACAACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAATTAGTTTAT
Found at i:11262690 original size:180 final size:180
Alignment explanation
Indices: 11262382--11262719 Score: 534
Period size: 180 Copynumber: 1.9 Consensus size: 180
11262372 TAAGATCCGT
* * * *
11262382 TAATTTTCTCTGAAACTAGACTCATATATATTTTTACCATAAAATTTTCAGAATTTTTGGTTTAG
1 TAATTTTCTCAGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAG
*
11262447 CCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTATCCGAAAGTTCCGACCTCTCT
66 CCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCAATATCCGAAAGTTCCGACCTCTCT
* *
11262512 TCACTAAAAATTATTTATTTTATGGTACGAGACTCCAAATTGAGAACCAC
131 TCACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAACCAC
11262562 TAATTTTCTCAGAAACTAGACTCACATATATTATTACCATAAAACTTTT-AGAATTTTTAGTTTA
1 TAATTTTCTCAGAAACTAGACTCACATATATTATTACCATAAAA-TTTTCAGAATTTTTAGTTTA
** * * * * *
11262626 TTCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCAATGTCTGACAGTTCCTACCTCTC
65 GCCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCAATATCCGAAAGTTCCGACCTCTC
11262691 TTCACTAAAAATTATTTATCTCATGGTAC
130 TTCACTAAAAATTATTTATCTCATGGTAC
11262720 AGCTCTCTGA
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 139 0.97
181 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (180 bp):
TAATTTTCTCAGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAG
CCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCAATATCCGAAAGTTCCGACCTCTCT
TCACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAACCAC
Found at i:11263065 original size:16 final size:16
Alignment explanation
Indices: 11263046--11263077 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11263036 AATTGTTTTA
11263046 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
11263062 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
11263078 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:11263359 original size:50 final size:50
Alignment explanation
Indices: 11263277--11263615 Score: 292
Period size: 50 Copynumber: 6.7 Consensus size: 50
11263267 ACCGCAGCTC
* * *
11263277 TCTGGTACACATAGTAGCCTGCACCTAATACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * *
11263327 TCTGGTACACGTAGTTGCCTACACTTAGTACTACACACATGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
11263377 TCTGATACACATAGCAGCCTGCACTTAGTACTACACACATGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * *
11263429 -CGGGTA-GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * * *
11263477 TCCGGTACATATAGTAGCTTGCATTTAGGACTACACACCTGACCTCA-CCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-ATCAA
* * *
11263527 TCTGATACACATAGTAGCCTACACTTAGTACTACACATGTGACCTA--AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * *
11263575 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
11263616 TGTGGTCTCA
Statistics
Matches: 228, Mismatches: 52, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
48 7 0.03
49 8 0.04
50 175 0.77
51 7 0.03
52 31 0.14
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:11263557 original size:150 final size:150
Alignment explanation
Indices: 11263286--11263563 Score: 405
Period size: 150 Copynumber: 1.9 Consensus size: 150
11263276 CTCTGGTACA
* * * *
11263286 CATAGTAGCCTGCACCTAATACTACACATGTGACCTATCAATCTGGTACACGTAGTTGCCTACAC
1 CATAGTAGCCTGCACCTAATACTACACATGCGACCTATCAATCCGGTACACATAGTAGCCTACAC
* * *
11263351 TTAGTACTACACACATGACTTATCCATCTGATACACATAGCAGCCTGCACTTAGTACTACACACA
66 TTAGGACTACACACATGACTCATCCATCTGATACACATAGCAGCCTACACTTAGTACTACACACA
11263416 TGATCGAAGTTAACGGGTAG
131 TGATCGAAGTTAACGGGTAG
* * * * * *
11263436 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACATATAGTAGCTTGCAT
1 CATAGTAGCCTGCACCTAATACTACACATGCGACCTATCAATCCGGTACACATAGTAGCCTACAC
* *
11263501 TTAGGACTACACACCTGACCTCA-CCATCTGATACACATAGTAGCCTACACTTAGTACTACACA
66 TTAGGACTACACACATGA-CTCATCCATCTGATACACATAGCAGCCTACACTTAGTACTACACA
11263564 TGTGACCTAA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
150 109 0.97
151 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (150 bp):
CATAGTAGCCTGCACCTAATACTACACATGCGACCTATCAATCCGGTACACATAGTAGCCTACAC
TTAGGACTACACACATGACTCATCCATCTGATACACATAGCAGCCTACACTTAGTACTACACACA
TGATCGAAGTTAACGGGTAG
Found at i:11266232 original size:15 final size:15
Alignment explanation
Indices: 11266199--11266243 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
11266189 TATAGATAAC
* * *
11266199 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
11266214 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
11266229 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
11266244 CAATATCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:11268469 original size:50 final size:50
Alignment explanation
Indices: 11268398--11268676 Score: 283
Period size: 50 Copynumber: 5.5 Consensus size: 50
11268388 CGGGTATGCA
* * * * * * *
11268398 TAGTAGCTTGGACTTAGTACTAGACATGCGACCTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * *
11268448 TAGTGGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
** * * * * *
11268498 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGGACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTGGTACACG
* * *
11268549 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACAATCTGGAACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
11268599 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-AA-CTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG--GT--ACACG
*
11268651 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
11268677 TGTGGTCTCC
Statistics
Matches: 188, Mismatches: 36, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 114 0.61
51 40 0.21
52 29 0.15
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:11268564 original size:151 final size:151
Alignment explanation
Indices: 11268297--11268676 Score: 440
Period size: 151 Copynumber: 2.5 Consensus size: 151
11268287 CTGGTACGCA
* * ** * * *
11268297 TAGTAGTCTGCACTTAGTACTACACATGTGAGTTATCCATCTAATACACGTAGTAGCCTACAGTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTT
* * * * * * * ** *
11268362 AGTACGAGACATGCGATCAAAGTTAACGGGTATGCATAGTAGCTTGGACTTAGTACTAGACATGC
66 AGTACTACACACGCGATCAAAGCTAACGGGGACGCATAGTAGCCTACACTTAGTACTACACATGC
* *
11268427 GACCTATCAATCCGGTACACG
131 GACCTAACAATCCGGAACACG
* * *
11268448 TAGTGGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTT
* *
11268513 AGTACTACACACGTGATCGAAA-CTATCGGGGACGCATAGTAGCCTACACTTAGTACTACACATG
66 AGTACTACACACGCGATC-AAAGCTAACGGGGACGCATAGTAGCCTACACTTAGTACTACACATG
* *
11268577 TGACCTAACAATCTGGAACACG
130 CGACCTAACAATCCGGAACACG
** *
11268599 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAA-ACACATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATC-TAATACACGTAGTAGCCTGCA
*
11268663 CATAGTACTACACA
63 CTTAGTACTACACA
11268677 TGTGGTCTCC
Statistics
Matches: 192, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
151 153 0.80
152 3 0.02
153 34 0.18
154 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (151 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTT
AGTACTACACACGCGATCAAAGCTAACGGGGACGCATAGTAGCCTACACTTAGTACTACACATGC
GACCTAACAATCCGGAACACG
Found at i:11268580 original size:101 final size:102
Alignment explanation
Indices: 11268443--11268680 Score: 318
Period size: 101 Copynumber: 2.3 Consensus size: 102
11268433 TCAATCCGGT
* * * * *
11268443 ACACGTAGTGGCCTGCACTTAATACTACACACGTGACCTAACCATCT-GATACACGTAGTAGCCT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGA-ACACGTAGTAGCCT
* * **
11268507 GCACTTAGTACTACACACGTGATC-GAAACTATCGGGG
65 GCACTTAGTACTACACACGTGACCTAAAACTATCGGAA
* *
11268544 ACGCATAGTAGCCTACACTTAGTACTACACATGTGACCTAACAATCTGGAACACGTAGTAGCCTG
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGAACACGTAGTAGCCTG
* **
11268609 CACTTAGTACTACACACGTGACCTAAAACTGTCTTAA
66 CACTTAGTACTACACACGTGACCTAAAACTATCGGAA
*
11268646 ACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTG
11268681 GTCTCCCAAT
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
101 77 0.65
102 41 0.35
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGAACACGTAGTAGCCTG
CACTTAGTACTACACACGTGACCTAAAACTATCGGAA
Found at i:11269059 original size:19 final size:20
Alignment explanation
Indices: 11269031--11269077 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11269021 AAGAACATGT
11269031 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
11269052 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
11269071 TATATAT
1 TATATAT
11269078 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:11275190 original size:12 final size:12
Alignment explanation
Indices: 11275168--11275198 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11275158 TAGAATCTGC
11275168 TAAAA-TAAAAA
1 TAAAAGTAAAAA
11275179 TAAAAGTAAAAA
1 TAAAAGTAAAAA
11275191 TAAAAGTA
1 TAAAAGTA
11275199 GTTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
TAAAAGTAAAAA
Found at i:11277328 original size:55 final size:55
Alignment explanation
Indices: 11277210--11277329 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
11277200 TTTAGTAGGT
* * *
11277210 TCGACCACGGGTGTTCCACACGGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGT
1 TCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGC
* ** * ** *
11277265 TC-ACCCACGGTTCTTCCACACAGGCGTGTCGTACGCCCGTGTTGTTTTGGCAGGC
1 TCGA-CCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGC
11277320 TCGACCACGG
1 TCGACCACGG
11277330 CCATATCGCA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 1 0.02
55 51 0.96
56 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.24
Consensus pattern (55 bp):
TCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGC
Found at i:11281947 original size:21 final size:21
Alignment explanation
Indices: 11281923--11281965 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11281913 TTTGCAGTAG
11281923 GTGCGGTTCTAGGACAACGAA
1 GTGCGGTTCTAGGACAACGAA
*
11281944 GTGCGGTTCTGGGACAACGAA
1 GTGCGGTTCTAGGACAACGAA
11281965 G
1 G
11281966 AGATAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.19
Consensus pattern (21 bp):
GTGCGGTTCTAGGACAACGAA
Found at i:11284563 original size:14 final size:15
Alignment explanation
Indices: 11284534--11284565 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11284524 TACTAACACG
11284534 CTCTCCCTTACTTTT
1 CTCTCCCTTACTTTT
11284549 CTCTCCCTT-CTTTT
1 CTCTCCCTTACTTTT
11284563 CTC
1 CTC
11284566 CCTCGTCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.53
Consensus pattern (15 bp):
CTCTCCCTTACTTTT
Found at i:11287476 original size:29 final size:29
Alignment explanation
Indices: 11287444--11287503 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11287434 TTATTTTATT
11287444 TTATTTGTATAATTTTCTCTTATTATTCA
1 TTATTTGTATAATTTTCTCTTATTATTCA
11287473 TTATTTGTATAATTTTCTCTTATTATTCA
1 TTATTTGTATAATTTTCTCTTATTATTCA
11287502 TT
1 TT
11287504 CATTCAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATTTGTATAATTTTCTCTTATTATTCA
Found at i:11291170 original size:18 final size:17
Alignment explanation
Indices: 11291147--11291182 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
11291137 AGGTTAGTTT
*
11291147 AGTAAATTAGTAATTAAA
1 AGTAAATTA-AAATTAAA
11291165 AGTAAATTAAAATTAAA
1 AGTAAATTAAAATTAAA
11291182 A
1 A
11291183 CAAAGGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AGTAAATTAAAATTAAA
Found at i:11298202 original size:47 final size:47
Alignment explanation
Indices: 11298124--11298445 Score: 358
Period size: 47 Copynumber: 6.5 Consensus size: 47
11298114 CCCTTCGGGA
* * * * * *
11298124 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11298171 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
11298218 CTTATCACATATATACACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATAT--AC--------ACTTTCACATTCATCACATCGGCCATTAGGC
*
11298275 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11298322 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTCGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
11298370 CTTATCACATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11298419 CTTATCACATATATATACACTTTCACA
1 CTTATCAC--ATATATACACTTTCACA
11298446 CATTCATATT
Statistics
Matches: 243, Mismatches: 19, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
47 88 0.36
48 45 0.19
49 64 0.26
55 2 0.01
57 44 0.18
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11298240 original size:57 final size:54
Alignment explanation
Indices: 11298175--11298445 Score: 282
Period size: 49 Copynumber: 5.4 Consensus size: 54
11298165 CTCGGCCCTG
11298175 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-T-TA
* *
11298231 TACACATATATATACTTTCACATTCATCACATCGGCTATTAGG------C-CTTA
1 T-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTA
*
11298279 TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--A
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTA
* *
11298331 T---ATATATACACTTTCATATTCATCACATCGGCCATTCGG-CTTATCAC--A
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTA
* * *
11298379 T---ATATATACACTTTCACATTTATCACATTGGCCATTCGGCCTTATCAC--A
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTA
11298428 T---ATATATACACTTTCACA
1 TCACATATATACACTTTCACA
11298446 CATTCATATT
Statistics
Matches: 195, Mismatches: 11, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
47 38 0.19
48 48 0.25
49 63 0.32
50 1 0.01
51 1 0.01
52 2 0.01
53 1 0.01
54 1 0.01
56 1 0.01
57 39 0.20
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (54 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTA
Found at i:11298355 original size:49 final size:49
Alignment explanation
Indices: 11298233--11298445 Score: 328
Period size: 49 Copynumber: 4.4 Consensus size: 49
11298223 CACATATATA
*
11298233 CACATATATAT--ACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
11298280 CAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
1 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
11298327 CACATATATATACACTTTCATATTCATCACATCGGCCATTCGG-CTTAT
1 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* * *
11298375 CACATATATATACACTTTCACATTTATCACATTGGCCATTCGGCCTTAT
1 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
11298424 CACATATATATACACTTTCACA
1 CACATATATATACACTTTCACA
11298446 CATTCATATT
Statistics
Matches: 153, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
45 6 0.04
47 40 0.26
48 45 0.29
49 62 0.41
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (49 bp):
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:11298413 original size:97 final size:96
Alignment explanation
Indices: 11298124--11298445 Score: 407
Period size: 104 Copynumber: 3.3 Consensus size: 96
11298114 CCCTTCGGGA
* * * * * * *
11298124 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
11298187 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
* *
11298218 CTTATCACATATATACACATATATATACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 CTTATCAC----AT----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
11298283 ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
58 ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
11298322 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTCGG-CTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
11298386 ACACTTTCACATTTATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTAGGC
11298419 CTTATCACATATATATACACTTTCACA
1 CTTATCACATATATATACACTTTCACA
11298446 CATTCATATT
Statistics
Matches: 199, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
94 8 0.04
95 8 0.04
96 34 0.17
97 63 0.32
98 2 0.01
100 2 0.01
103 1 0.01
104 81 0.41
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:11299538 original size:40 final size:40
Alignment explanation
Indices: 11299485--11299772 Score: 461
Period size: 40 Copynumber: 7.2 Consensus size: 40
11299475 TGAGTTAGCA
* * * *
11299485 GGATATATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
11299525 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
*
11299565 GGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
* *
11299605 GGATACATCACTAACATGAATGCTCTTCAGGACTTAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
* *
11299645 GGGTACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
*
11299685 GGATACATCACTAGCATGAATGCTCTTCGGGACTCAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
* *
11299725 GGGTACATCATTAGCATGAATGCTCTTCGGGACTTAGCCC
1 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
11299765 GGAT-CATC
1 GGATACATC
11299773 GTCGAGACCT
Statistics
Matches: 229, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 4 0.02
40 225 0.98
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
Found at i:11302074 original size:47 final size:47
Alignment explanation
Indices: 11301996--11302513 Score: 712
Period size: 49 Copynumber: 10.6 Consensus size: 47
11301986 CCCTTCGGGA
* * * *
11301996 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
11302043 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
11302090 CTTATCACATATATACACATATACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC----AT----ATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
* *
11302147 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11302194 CTTATCACATATATTACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATTGGCCATTCGGC
11302242 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11302291 CTTATCACATTTATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
11302340 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11302387 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11302436 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11302485 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
11302514 TATTCAAAAT
Statistics
Matches: 436, Mismatches: 18, Indels: 32
0.90 0.04 0.07
Matches are distributed among these distances:
47 135 0.31
48 40 0.09
49 208 0.48
50 5 0.01
51 2 0.00
53 2 0.00
55 4 0.01
57 40 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:11302407 original size:145 final size:144
Alignment explanation
Indices: 11301996--11302513 Score: 797
Period size: 145 Copynumber: 3.5 Consensus size: 144
11301986 CCCTTCGGGA
* * * * *
11301996 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATTATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
11302060 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATATACACACTTTCACA
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT----ATAT--ACACTTTCACA
* * *
11302125 TTCATCACATCGGCTATTAGGC
123 TTCATCACATTGGCCATTCGGC
* *
11302147 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTAC
1 CTTATCACATTATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA-TAC
* *
11302211 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
11302276 CATTGGCCATTCGGC
130 CATTGGCCATTCGGC
11302291 CTTATCACATTTATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACA-TTATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
11302356 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
11302421 CATTGGCCATTCGGC
130 CATTGGCCATTCGGC
11302436 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACAT-TATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
11302501 ACACTTTCACATT
63 ACACTTTCACATT
11302514 TATTCAAAAT
Statistics
Matches: 344, Mismatches: 16, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
144 40 0.12
145 136 0.40
146 53 0.15
147 19 0.06
150 5 0.01
151 51 0.15
152 40 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (144 bp):
CTTATCACATTATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
ATTGGCCATTCGGC
Found at i:11317768 original size:39 final size:39
Alignment explanation
Indices: 11317664--11317768 Score: 122
Period size: 40 Copynumber: 2.7 Consensus size: 39
11317654 TTGATGACAA
* * * * * *
11317664 TTCGGCTATGTACGACACTTAGTGTACGATTCGAGATAGC
1 TTCGGCTATCTATGGCACTTAGTGTGCGATTC-AAATAAC
*
11317704 TTCGGCTATGTATGGCACTTAGTGTGCGATT-AAATAAC
1 TTCGGCTATCTATGGCACTTAGTGTGCGATTCAAATAAC
11317742 TTCGGCTATCTATTGGCACTTAGTGTG
1 TTCGGCTATCTA-TGGCACTTAGTGTG
11317769 TGAGAATTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.28
39 14 0.24
40 28 0.48
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (39 bp):
TTCGGCTATCTATGGCACTTAGTGTGCGATTCAAATAAC
Found at i:11319408 original size:2 final size:2
Alignment explanation
Indices: 11319401--11319425 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11319391 TGGTATTATA
11319401 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
11319426 TTTAGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:11320916 original size:17 final size:17
Alignment explanation
Indices: 11320896--11320930 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11320886 TTTCAATTTG
*
11320896 TTTTGTTTTGTTTTGTT
1 TTTTGTTTTGTTTAGTT
*
11320913 TTTTTTTTTGTTTAGTT
1 TTTTGTTTTGTTTAGTT
11320930 T
1 T
11320931 GCTTGAGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (17 bp):
TTTTGTTTTGTTTAGTT
Found at i:11321725 original size:34 final size:34
Alignment explanation
Indices: 11321687--11321754 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
11321677 TAAGTCCAAG
11321687 ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
1 ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
* *
11321721 ATTATTCTAATCCCTTTTTTCTTTCGGTTTATTC
1 ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
11321755 GTGTTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (34 bp):
ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
Found at i:11323396 original size:48 final size:46
Alignment explanation
Indices: 11323253--11323564 Score: 253
Period size: 44 Copynumber: 6.7 Consensus size: 46
11323243 AATTTGTGCT
* * *
11323253 CCAGTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGAG-TTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCAACAGAGATAGTG
* * ** * * * *
11323297 CTAGTGGAAGACATGTCTGGGACATGCATCAACACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCA-ACAGAGAT-AGTG
11323345 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAACAGAGAT-AGTG
*
11323393 CCAGAGTAAGACATG-CATGGGACATGCATCGGCCTCAACAGAGATA--G
1 CCAGTGTAAGACATGTC-TGGGACATGCATCGG---CAACAGAGATAGTG
* * * *
11323440 CCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAG-TTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCAACAGAGATAGTG
* * * * * *
11323484 CTAGTGTAAGACATGTCTGGGACATTCATCAGCAAGCACATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCAA-CAGAGAT-AGTG
11323532 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
11323565 ACAATATATC
Statistics
Matches: 210, Mismatches: 38, Indels: 34
0.74 0.13 0.12
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 60 0.29
46 12 0.06
47 42 0.20
48 43 0.20
49 30 0.14
50 18 0.09
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCAACAGAGATAGTG
Found at i:11330824 original size:44 final size:44
Alignment explanation
Indices: 11330762--11331023 Score: 217
Period size: 44 Copynumber: 5.7 Consensus size: 44
11330752 TAATTTGTGC
* * *
11330762 GCCAGTGTAAGACGTGTCTGGGACACGTATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGT
* * * *
11330806 GCTAGTGTAAGACATGTCTGGTACATGCATCAGCACGCATAA-A-TGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G---GC-TAAGAGT-TGT
* * *
11330854 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAG-TACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAG-T-TGT
* * *
11330902 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--A-AGAGTTGT
*
11330949 GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGT
* *
11330993 GCTAGTGTAAGACATGTTTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
11331024 AACACGCATA
Statistics
Matches: 176, Mismatches: 25, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.03
44 57 0.32
45 2 0.01
46 10 0.06
47 45 0.26
48 31 0.18
49 15 0.09
50 11 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGT
Found at i:11330863 original size:48 final size:48
Alignment explanation
Indices: 11330809--11331073 Score: 210
Period size: 47 Copynumber: 5.6 Consensus size: 48
11330799 GAGTTGTGCT
*
11330809 AGTGTAAGACATGTCTGGTACATGCATCAGCACGCATAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
* * * * *
11330857 AGTGTAAGACCATGTCTAGGACATGGCATCAGTA--CAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGCATAAATGAGAGCC
* * * *
11330905 AGAGTAAGACATGTCTGGGACATGCATCGGC-CTCA-ACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-A-ATGAGAGCC
* * * *
11330952 AGTGTAAGACGTGTCTGGGACATGCATC-G---GC-TAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAA-ATG-AGAGCC
* * * *
11330996 AGTGTAAGACATGTTTGGGACATGCATCAACACGCATATATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
*
11331044 AGTGTAAGACCATGCCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
11331074 GACAATATAT
Statistics
Matches: 173, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
43 4 0.02
44 30 0.17
46 8 0.05
47 46 0.27
48 45 0.26
49 27 0.16
50 13 0.08
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
Found at i:11333487 original size:17 final size:17
Alignment explanation
Indices: 11333473--11333515 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
11333463 GACACATATT
11333473 CGTGTGGATCACATAGC
1 CGTGTGGATCACATAGC
11333490 CGTGTGGATCACATAGC
1 CGTGTGGATCACATAGC
*
11333507 CATGTGGAT
1 CGTGTGGAT
11333516 TGCCCTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (17 bp):
CGTGTGGATCACATAGC
Found at i:11339303 original size:52 final size:53
Alignment explanation
Indices: 11339181--11339304 Score: 135
Period size: 53 Copynumber: 2.4 Consensus size: 53
11339171 TACATATAAT
* * * *
11339181 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCAC
1 ACCGATGCCATAACCCAGCTACGGTCTTATACGGAATCACAGTATCACATCAC
* * * * **
11339234 ACCGACGCCATAGCCCAGCTACGGTCTTATATGGGAA-CAC-GTATCACGTTGC
1 ACCGATGCCATAACCCAGCTACGGTCTTATA-CGGAATCACAGTATCACATCAC
11339286 ACCGATGCCATAACCCAGC
1 ACCGATGCCATAACCCAGC
11339305 CATGGTTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
52 25 0.42
53 30 0.51
54 4 0.07
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (53 bp):
ACCGATGCCATAACCCAGCTACGGTCTTATACGGAATCACAGTATCACATCAC
Found at i:11342012 original size:22 final size:23
Alignment explanation
Indices: 11341970--11342012 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
11341960 TAGTTAAAGA
*
11341970 AAAAAACATTTATTTTTATTTTT
1 AAAAAACATTTATTTTAATTTTT
11341993 AAAAAA-ATTGTA-TTTAATTT
1 AAAAAACATT-TATTTTAATTT
11342013 AATTTTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AAAAAACATTTATTTTAATTTTT
Found at i:11345570 original size:14 final size:14
Alignment explanation
Indices: 11345550--11345585 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11345540 GATGTATGTA
11345550 AAAGCATGAAAATT
1 AAAGCATGAAAATT
*
11345564 GAAGCATGAAAATT
1 AAAGCATGAAAATT
11345578 AAAGCATG
1 AAAGCATG
11345586 TGTATCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.19
Consensus pattern (14 bp):
AAAGCATGAAAATT
Found at i:11353858 original size:3 final size:3
Alignment explanation
Indices: 11353852--11354056 Score: 91
Period size: 3 Copynumber: 69.7 Consensus size: 3
11353842 TTACTACTTC
* * * ** *
11353852 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT TAT TAC TAT CCT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
11353900 TAT GT-T TAT TTT TAT TAA TAT TAT TAT TA- TAA TCT TATT TAT GAC
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * * * * * *
11353945 TAT TAT CAT T-T TTT TAA AAT TAT TGT TAC TAT TAT TCT T-T TAC CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
11353991 T-T AAT ACAT TAT TAT TAC TAT T-T TAT TAT TAT TAT TAC TAT T-G
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11354034 TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
11354057 CATTTTCTTT
Statistics
Matches: 145, Mismatches: 47, Indels: 20
0.68 0.22 0.09
Matches are distributed among these distances:
2 11 0.08
3 128 0.88
4 6 0.04
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:11354240 original size:3 final size:3
Alignment explanation
Indices: 11354219--11354421 Score: 127
Period size: 3 Copynumber: 68.7 Consensus size: 3
11354209 CAAACTTTAG
* * **
11354219 ATT ATTT ATT ATT -TGT ATT ATT -GT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
11354265 ATT ATT ATT ACT ATT ACT ATT ACTT -TT ACTT -TT ATTT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT A-TT ATT ATT ATT
* * *
11354311 A-T ATT ATT TTT ATT -TT A-T ATT -TT A-T ATT ACT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * **
11354354 ATT ACT AAT ATT AAT ATT CTT ATT ATC ACT ATT ATT ATT ACC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11354402 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
11354422 CGTTCTCATT
Statistics
Matches: 150, Mismatches: 35, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
2 16 0.11
3 121 0.81
4 13 0.09
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11365407 original size:27 final size:27
Alignment explanation
Indices: 11365377--11365553 Score: 212
Period size: 27 Copynumber: 6.5 Consensus size: 27
11365367 TATCGAGTCG
* * * *
11365377 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
*
11365404 GCACACTTAGTGCTACATAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
11365431 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
11365459 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
11365486 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
11365513 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
11365540 GCACACTTAGTGCT
1 GCACACTTAGTGCT
11365554 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:11365515 original size:82 final size:81
Alignment explanation
Indices: 11365397--11365552 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
11365387 TGCTATATAA
*
11365397 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
11365462 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
11365479 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
11365543 CACTTAGTGC
65 CACTTAGTGC
11365553 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:11371161 original size:37 final size:37
Alignment explanation
Indices: 11371111--11371189 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
11371101 TTATTACGAA
* * *
11371111 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
11371148 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
11371185 GTCTT
1 GTCTT
11371190 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:11371386 original size:47 final size:47
Alignment explanation
Indices: 11371308--11371616 Score: 424
Period size: 47 Copynumber: 6.6 Consensus size: 47
11371298 CCCTTCGGGA
* * * * * *
11371308 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11371355 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11371402 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11371449 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
11371496 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * * *
11371543 CTTATCACACATACACA-TGTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
*
11371590 CTTATCACACATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
11371617 TATTCAAATA
Statistics
Matches: 239, Mismatches: 21, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
46 1 0.00
47 237 0.99
48 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11382053 original size:40 final size:40
Alignment explanation
Indices: 11382002--11382346 Score: 582
Period size: 40 Copynumber: 8.6 Consensus size: 40
11381992 CATTTGAATG
11382002 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
11382042 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
11382082 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
11382122 ATATCCGGGATAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
11382162 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
11382202 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
11382242 ATATCCGGGCTAAAACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
11382282 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
11382322 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
11382347 ATTGAGCTTG
Statistics
Matches: 286, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:11392894 original size:64 final size:64
Alignment explanation
Indices: 11392691--11393006 Score: 287
Period size: 64 Copynumber: 4.8 Consensus size: 64
11392681 CATAATTTTG
** * * * *
11392691 GCTCTCTTGTACACATGGTG-AGCACTTAGTACCACTCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGTTTACATGGTGTA-CACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * * * * *
11392754 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTTTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCG
11392819 TA
63 TA
* * * *
11392821 GCTCTCTTGTTTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATA
1 GCTCTCTTGTTTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * *
11392885 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTTTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT--T--TATCTC
11392950 GTA
62 GTA
** * * * ** *
11392953 GCTCTCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGTTTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACAT
11393007 ACCATTTGTA
Statistics
Matches: 209, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
63 18 0.09
64 87 0.42
66 23 0.11
67 32 0.15
68 49 0.23
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTTTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
Found at i:11392998 original size:132 final size:127
Alignment explanation
Indices: 11392691--11393007 Score: 314
Period size: 132 Copynumber: 2.4 Consensus size: 127
11392681 CATAATTTTG
* * * * *
11392691 GCTCTCTTGTACACATGGTGAGCACTTAGTACCACTCATGTGACCTAGCCAC-TTTATCTCGTAG
1 GCTCTCTTGTACACATGGTGTGCAC-TAGTACCA-TCATGTGACCTAGCTACATATATCCCATAG
* * * *
11392755 CTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCGT
64 CTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGT
11392820 A
127 A
** * * * *
11392821 GCTCTCTTGTTTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATAG
1 GCTCTCTTGTACACATGGTGTGCAC-TAGTACCA-TCATGTGACCTAGCTACATATATCCCATAG
* * * * *
11392886 CTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
64 CTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACAT--T--TATCTC
11392950 GTA
125 GTA
* *
11392953 GCTCTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTGCACT-AGTACCAT-CATGTGACCTAGCTACATA
11393008 CCATTTGTAT
Statistics
Matches: 151, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
128 27 0.18
130 44 0.29
131 28 0.19
132 52 0.34
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (127 bp):
GCTCTCTTGTACACATGGTGTGCACTAGTACCATCATGTGACCTAGCTACATATATCCCATAGCT
CTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGTA
Found at i:11397772 original size:51 final size:50
Alignment explanation
Indices: 11397714--11397823 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 50
11397704 TACACTTTAG
11397714 AAAAAAAAGGGGCCAAGGTGAAA-ACCCGA-AAAGGGCACTTTGAGACCTTCA
1 AAAAAAAAGGGGCCAAGGT-AAATACCC-ACAAAGGGCACTTTGAGA-CTTCA
* * * *
11397765 AAAAAAAAAGGGCCAAGGTAAATTCCCACAAAGGGCGCTTTGAGACTTTA
1 AAAAAAAAGGGGCCAAGGTAAATACCCACAAAGGGCACTTTGAGACTTCA
11397815 AAAAAAAAG
1 AAAAAAAAG
11397824 AAAATAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
50 16 0.31
51 36 0.69
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (50 bp):
AAAAAAAAGGGGCCAAGGTAAATACCCACAAAGGGCACTTTGAGACTTCA
Found at i:11399519 original size:113 final size:113
Alignment explanation
Indices: 11399321--11399528 Score: 328
Period size: 113 Copynumber: 1.8 Consensus size: 113
11399311 GTGATCTTCA
*
11399321 TGATAGGTTTTGAAAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAAG
1 TGATAAGTTTTGAAAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAAG
* *
11399386 TGTACCTATCGAGCAGTAGTATAGCTTTAGTGATACGTGATATTTGTG
66 TGTACCTATCAAACAGTAGTATAGCTTTAGTGATACGTGATATTTGTG
* **
11399434 TGATAAGTTTT-ATAAATTTATAATTAATCGTTCTTGAAACTAACTATTATCACGATGTCGACAA
1 TGATAAGTTTTGA-AAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAA
* *
11399498 GTGTACCTATCAAATAGTAGTATAGTTTTAG
65 GTGTACCTATCAAACAGTAGTATAGCTTTAG
11399529 CAAGACCGGA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 1 0.01
113 85 0.99
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (113 bp):
TGATAAGTTTTGAAAATTTATAATTAATCATTCTTGAAACTAACTATTATCACGATGAAGACAAG
TGTACCTATCAAACAGTAGTATAGCTTTAGTGATACGTGATATTTGTG
Found at i:11412454 original size:67 final size:67
Alignment explanation
Indices: 11412346--11412483 Score: 204
Period size: 67 Copynumber: 2.1 Consensus size: 67
11412336 GAGGAAGCGT
* * * * *
11412346 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTGTTCTAGTGACCTTGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATTCTAGTGACCTAGCCACAA
11412411 TA
66 TA
* * *
11412413 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATTCTGGTGGCCTAGCCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATTCTAGTGACCTAGCCACAA
11412478 TA
66 TA
11412480 TCTG
1 TCTG
11412484 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATTCTAGTGACCTAGCCACAA
TA
Found at i:11412489 original size:27 final size:26
Alignment explanation
Indices: 11412431--11412492 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
11412421 CCTCGCTGCA
* *
11412431 ATCTGGTGGCTTCGCCACATATATAT
1 ATCTGGTGGCCTAGCCACATATATAT
* *
11412457 ATTCTGGTGGCCTAGCCACAATATCTGT
1 A-TCTGGTGGCCTAGCCAC-ATATATAT
11412485 ATCTGGTG
1 ATCTGGTG
11412493 ACTTCGTCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 22 0.73
28 7 0.23
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (26 bp):
ATCTGGTGGCCTAGCCACATATATAT
Found at i:11429051 original size:12 final size:13
Alignment explanation
Indices: 11429034--11429071 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
11429024 ATCTTGGAAT
11429034 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
11429046 ATTAAGAACACATA
1 ATTAAGAACA-AGA
11429060 ATTAAGAACAAG
1 ATTAAGAACAAG
11429072 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:11429846 original size:44 final size:44
Alignment explanation
Indices: 11429798--11430065 Score: 141
Period size: 44 Copynumber: 6.0 Consensus size: 44
11429788 TTTAGCCACC
* *
11429798 AGCCTTATC-TCTCTGAGGTAGCAAGGGAGTAGGCTGAAGATTGT
1 AGCCTTATCTTCT-TGAGGTAGCAAGGGAGCAGACTGAAGATTGT
*
11429842 AGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
1 AGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
** * * * * *
11429886 AGATTTTGTCTCCTTGAGATAGC-AGTGGGGCAGA-TCGAAGA-CGAT
1 AG-CCTTATCTTCTTGAGGTAGCAAG-GGAGCAGACT-GAAGATTG-T
** * * * ** *****
11429931 GAATCTTATCTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACC
1 -AGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * * * *
11429976 AGCCTTATC-TCTCTAAAGTAGCAAGGGAGTAGGCTGGAGATTGT
1 AGCCTTATCTTCT-TGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * * * * *
11430020 AGTCTTATTTTCCTGACGTAGCAAGGGAGCAGATTGAAGACTGT
1 AGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
11430064 AG
1 AG
11430066 ATTTGTCTCC
Statistics
Matches: 163, Mismatches: 50, Indels: 22
0.69 0.21 0.09
Matches are distributed among these distances:
43 3 0.02
44 100 0.61
45 57 0.35
46 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (44 bp):
AGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
Found at i:11430171 original size:177 final size:178
Alignment explanation
Indices: 11429762--11430171 Score: 642
Period size: 178 Copynumber: 2.3 Consensus size: 178
11429752 CAGTTTATCA
* * *
11429762 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAG
1 CTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
* * *
11429827 TAGGCTGAAGATTGTAGCCTTATCTTCTTGAGGTAGCAAGGGAGCAGATTGAAGATTGTAGATTT
66 TAGGCTGAAGATTGTAGCCTTATCTTCCTGACGTAGCAAGGGAGCAGATTGAAGACTGTAGATTT
* *
11429892 TGTCTCCTTGAGATAGCAGTGGGGCAGATCGAAGACGATGAATCTTAT
131 TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACGATGAATCTTAT
11429940 CTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
1 CTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
* * *
11430005 TAGGCTGGAGATTGTAGTCTTATTTTCCTGACGTAGCAAGGGAGCAGATTGAAGACTGTAGA-TT
66 TAGGCTGAAGATTGTAGCCTTATCTTCCTGACGTAGCAAGGGAGCAGATTGAAGACTGTAGATTT
* *
11430069 TGTCTCCTCGAGATAGTAGTGGGGAAGATCGAAGATGATGAATCTTAT
131 TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACGATGAATCTTAT
* * ** * *
11430117 CTTCTTGAGGTAGTAGGGGAGCAGATTAAAGTCACCAGCCTTATCTCCCTAAAGT
1 CTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGT
11430172 TGCAGTGAAG
Statistics
Matches: 213, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
177 95 0.45
178 118 0.55
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (178 bp):
CTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
TAGGCTGAAGATTGTAGCCTTATCTTCCTGACGTAGCAAGGGAGCAGATTGAAGACTGTAGATTT
TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACGATGAATCTTAT
Found at i:11433655 original size:26 final size:26
Alignment explanation
Indices: 11433602--11433655 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
11433592 GGGATAAGCC
*
11433602 AACTTAAATAGAATATAATTTAAAAT
1 AACTTAAATAGAATAAAATTTAAAAT
* *
11433628 AACTTAATTAG-ATAAAATTCTAATAT
1 AACTTAAATAGAATAAAATT-TAAAAT
11433654 AA
1 AA
11433656 TTTTGTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (26 bp):
AACTTAAATAGAATAAAATTTAAAAT
Done.