Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 99 of 292
Found at i:30316236 original size:27 final size:27
Alignment explanation
Indices: 30316082--30316249 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 27
30316072 GGGCAAAATG
* * * *
30316082 GTAATTTTACCCCT-CAAGGGTATCTCG
1 GTAATTCTA-CCCTACAGGGGTATTTCA
30316109 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30316136 GTAATTCTTCCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30316163 GTAATTCTACCCTATAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
**
30316190 GTAATTCTACCCTACAGGGGTATTTGG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30316217 GTAATTCTACCCTACGGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30316244 ATAATT
1 GTAATT
30316250 TTGTAAATCT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 4 0.03
27 119 0.97
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:30316264 original size:27 final size:27
Alignment explanation
Indices: 30316234--30316386 Score: 91
Period size: 27 Copynumber: 5.6 Consensus size: 27
30316224 TACCCTACGG
*
30316234 GGGTATTTCAATAATTTTGTAAATCTA
1 GGGTATTTCAATAATTTTGTAAATCGA
** ** *
30316261 GGGTAAAAT-GGTAATTCTGTAAATC-A
1 GGGT-ATTTCAATAATTTTGTAAATCGA
**
30316287 GGGGTACTTT-GGTAATTTT-TACAAGTCGA
1 -GGGTA-TTTCAATAATTTTGTA-AA-TCGA
* **
30316316 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
* * *
30316343 GAGTATTTCAATAATTTTGCAAA-CTAA
1 GGGTATTTCAATAATTTTGTAAATC-GA
30316370 GGGTATTTCAATAATTT
1 GGGTATTTCAATAATTT
30316387 CACAAATCAG
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.05
27 76 0.75
28 19 0.19
29 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTGTAAATCGA
Found at i:30316403 original size:54 final size:54
Alignment explanation
Indices: 30316281--30316662 Score: 361
Period size: 54 Copynumber: 7.1 Consensus size: 54
30316271 GTAATTCTGT
* * *
30316281 AAATCAGGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAA-TTTTACAACTCGAGGGTATTTCAGTAATTTCAC
* *** * * *
30316336 AAATC-GAGAGTATTTCAATAATTTTGCAAACT-AAGGGTATTTCAATAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC-AACTCGAGGGTATTTCAGTAATTTCAC
** ***
30316390 AAATCAGGGGTATTTTGGTAATTTTACAAACT--AGGGATATTTTGGTAATTTTGT
1 AAATCAGGGGTATTTTGGTAATTTTAC-AACTCGAGGG-TATTTCAGTAATTTCAC
* * * *
30316444 AAACCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAACTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTACAACTCGAGGGTATTTCAGTAATTTCAC
* * *
30316498 AAATCAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTTTTTCAATAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTACAACTCGAGGGTATTTCAGTAATTTCAC
* ** *
30316552 AAATCAGGGGTATTTTGGTAATTTCACAAAC-C-ATGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC-AACTCGA-GGGTATTTCAGTAATTTCAC
*
30316606 AAA-CTAGGGGTATTTTGGTAATTTTACAAAC-C-AGGGGTATTT-AGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC-AACTCGA-GGGTATTTCAGTAATTTCAC
30316659 AAAT
1 AAAT
30316663 TGAGGGCATT
Statistics
Matches: 272, Mismatches: 45, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
53 22 0.08
54 226 0.83
55 24 0.09
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCAGGGGTATTTTGGTAATTTTACAACTCGAGGGTATTTCAGTAATTTCAC
Found at i:30316419 original size:81 final size:81
Alignment explanation
Indices: 30316316--30316662 Score: 335
Period size: 81 Copynumber: 4.3 Consensus size: 81
30316306 TACAAGTCGA
* * *** *
30316316 GGGTATTTCAGTAATTTTACAAATC-GAGAGTATTTCAATAATTTTGCAAACTAAGGGTATTTCA
1 GGGTATTTTAGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
30316380 ATAATTTCACAAATCAG
65 ATAATTTCACAAATCAG
* * ** * **
30316397 GGGTATTTTGGTAATTTTACAAA-CTAGGGATATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
1 GGGTATTTTAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* * *
30316461 GTAATTTTACAAGTC-G
65 ATAATTTCACAAATCAG
* * * * * *
30316477 AGGGTATTTCAGTAACTTCACAAATCAGGGGTATTTTGGTAATTTTAC-AAGTCGAGGGTTTTTC
1 -GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTC
30316541 AATAATTTCACAAATCAG
64 AATAATTTCACAAATCAG
* * * * * ***
30316559 GGGTATTTTGGTAATTTCACAAACCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAA
* *
30316624 TAATTTTACAAACCAG
66 TAATTTCACAAATCAG
30316640 GGGTA-TTTAGTAATTTTACAAAT
1 GGGTATTTTAGTAATTTTACAAAT
30316663 TGAGGGCATT
Statistics
Matches: 212, Mismatches: 47, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
80 19 0.09
81 187 0.88
82 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAA
TAATTTCACAAATCAG
Found at i:30316668 original size:27 final size:27
Alignment explanation
Indices: 30316285--30316661 Score: 298
Period size: 27 Copynumber: 14.0 Consensus size: 27
30316275 TTCTGTAAAT
* **
30316285 CAGGGGTACTTTGGTAATTTTTACAAGT
1 CAGGGGTATTTTGGTAA-TTTTACAAAC
** *
30316313 C-GAGGGTATTTCAGTAATTTTACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* *** *
30316340 C-GAGAGTATTTCAATAATTTTGCAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* * *** * *
30316367 TAAGGGTATTTCAATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
30316394 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * **
30316421 TAGGGATATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* **
30316448 CAAGGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * * *
30316475 C-GAGGGTATTTCAGTAACTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
**
30316502 CAGGGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * *
30316529 C-GAGGGT-TTTTCAATAATTTCACAAAT
1 CAG-GGGTATTTT-GGTAATTTTACAAAC
*
30316556 CAGGGGTATTTTGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
30316583 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
30316610 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
30316637 CAGGGGTA-TTTAGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
30316662 TTGAGGGCAT
Statistics
Matches: 285, Mismatches: 56, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
26 21 0.07
27 246 0.86
28 18 0.06
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:30321290 original size:39 final size:39
Alignment explanation
Indices: 30321236--30321507 Score: 413
Period size: 39 Copynumber: 7.0 Consensus size: 39
30321226 GCAAGACACT
*
30321236 GAAATGTATCCGGGCTAAAGACCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
*
30321275 GAAATGTATCCGGGCTAAAGA-CCGTAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
* * *
30321313 GAAATGTATCCGGGCTAAAGTCCCACAGGCTTCATGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
30321352 GAAATGTATCCGGGCTAAAGA-CCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
30321390 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
* * *
30321429 GAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
* * * * *
30321468 GAAATGTATCCGAGCTAACGTCCCGTAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
30321507 G
1 G
30321508 TAATATAATT
Statistics
Matches: 213, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
38 71 0.33
39 142 0.67
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
Found at i:30321332 original size:77 final size:77
Alignment explanation
Indices: 30321236--30321507 Score: 418
Period size: 77 Copynumber: 3.5 Consensus size: 77
30321226 GCAAGACACT
* *
30321236 GAAATGTATCCGGGCTAAAGACCTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGTA
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCA
30321301 GGCTTCGTGCTG
66 GGCTTCGTGCTG
* * *
30321313 GAAATGTATCCGGGCTAAAGTCCCACAGGCTTCATGCTGGAAATGTATCCGGGCTAAAGACCGCA
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCA
30321378 GGCTTCGTGCTG
66 GGCTTCGTGCTG
*
30321390 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGC
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAG-ACCGC
* *
30321455 AAGCTTCGTGCTA
65 AGGCTTCGTGCTG
* * * * *
30321468 GAAATGTATCCGAGCTAACGTCCCGTAGGCTTTGTGCTGG
1 GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
30321508 TAATATAATT
Statistics
Matches: 178, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 128 0.72
78 50 0.28
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (77 bp):
GAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCA
GGCTTCGTGCTG
Found at i:30321440 original size:116 final size:116
Alignment explanation
Indices: 30321236--30321485 Score: 430
Period size: 116 Copynumber: 2.2 Consensus size: 116
30321226 GCAAGACACT
*
30321236 GAAATGTATCCGGGCTAAAGACCTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGTA
1 GAAATGTATCCGGGCTAAAGACCTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCA
* *
30321301 GGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCATGCTG
66 GGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCATGCTA
30321352 GAAATGTATCCGGGCTAAAGACC-GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGC
1 GAAATGTATCCGGGCTAAAGACCTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGA-CCGC
* *
30321416 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTGCTA
65 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCATGCTA
*
30321468 GAAATGTATCCGAGCTAA
1 GAAATGTATCCGGGCTAA
30321486 CGTCCCGTAG
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
115 36 0.28
116 91 0.72
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (116 bp):
GAAATGTATCCGGGCTAAAGACCTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCGCA
GGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTCATGCTA
Found at i:30327024 original size:39 final size:39
Alignment explanation
Indices: 30326979--30327213 Score: 368
Period size: 39 Copynumber: 6.1 Consensus size: 39
30326969 AAGCAAGACA
*
30326979 CTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
30327018 CTGGAAATGTAT-CGGGCTAAAGA-CC-CAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* *
30327054 CTGGAAATGTATCAGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
30327093 CTGGAAATGTATCCGGGCTAAAGACCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
30327132 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
30327171 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
30327210 CTGG
1 CTGG
30327214 TAATATAATT
Statistics
Matches: 181, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
36 22 0.12
37 11 0.06
38 12 0.07
39 136 0.75
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:30335666 original size:19 final size:20
Alignment explanation
Indices: 30335618--30335666 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
30335608 CATAATTCAA
30335618 TGAATTGAAAAATTAAATAAT
1 TGAA-TGAAAAATTAAATAAT
*
30335639 TGAA-AAAAAATTAAA-AAT
1 TGAATGAAAAATTAAATAAT
30335657 T-AAGTGAAAA
1 TGAA-TGAAAA
30335667 TTAGGTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.08
18 4 0.17
19 14 0.58
21 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (20 bp):
TGAATGAAAAATTAAATAAT
Found at i:30340294 original size:15 final size:13
Alignment explanation
Indices: 30340273--30340306 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
30340263 ACATCGCAAA
30340273 CAATCATACAATTT
1 CAATCATA-AATTT
30340287 CGAATCATAAATTT
1 C-AATCATAAATTT
30340301 CAATCA
1 CAATCA
30340307 ATTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 7 0.37
15 7 0.37
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (13 bp):
CAATCATAAATTT
Found at i:30342574 original size:46 final size:46
Alignment explanation
Indices: 30342521--30342696 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30342511 TATTTGGGCA
30342521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30342567 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30342614 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30342660 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30342697 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30342676 original size:93 final size:93
Alignment explanation
Indices: 30342517--30342688 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30342507 GGGATATTTG
* *
30342517 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30342582 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30342610 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30342675 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30342689 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30350275 original size:39 final size:39
Alignment explanation
Indices: 30350220--30350296 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
30350210 TTTAGTTTGT
* *
30350220 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATGA
1 GTCTTTAATTACGTCATAGTTTAAACATCATTAATATGA
30350259 GTCTTTAATTACGTCATAGTTTAAACATCATTAATATG
1 GTCTTTAATTACGTCATAGTTTAAACATCATTAATATG
30350297 TGATCTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (39 bp):
GTCTTTAATTACGTCATAGTTTAAACATCATTAATATGA
Found at i:30354447 original size:34 final size:34
Alignment explanation
Indices: 30354404--30354472 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
30354394 ATGTTTGGTG
*
30354404 TGTTGGAGATCCGCATATCCGATGAGTGATGATA
1 TGTTGGAGATCCGCAAATCCGATGAGTGATGATA
30354438 TGTTGGAGATCCGCAAATCCGATGAGTGATGATA
1 TGTTGGAGATCCGCAAATCCGATGAGTGATGATA
30354472 T
1 T
30354473 AGGTCACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (34 bp):
TGTTGGAGATCCGCAAATCCGATGAGTGATGATA
Found at i:30355350 original size:12 final size:12
Alignment explanation
Indices: 30355333--30355358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30355323 TTACACGCCA
30355333 GTGTGCTAGGCC
1 GTGTGCTAGGCC
30355345 GTGTGCTAGGCC
1 GTGTGCTAGGCC
30355357 GT
1 GT
30355359 CCCAAACCTG
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:0.08, C:0.23, G:0.42, T:0.27
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:30355603 original size:46 final size:46
Alignment explanation
Indices: 30355536--30355661 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
30355526 AAAAGCATCT
* *
30355536 ACCCACTATCAAGAATGATAGGAACCTTGGTATATGATAAACCTCG
1 ACCCACTATCAAGGATGATAGGAACCTTGGTATATAATAAACCTCG
* *
30355582 ACCCACTATCAAGGATGATAGGAACCTTGTTATATAATGAACCTCG
1 ACCCACTATCAAGGATGATAGGAACCTTGGTATATAATAAACCTCG
*
30355628 ACCCACTATCAAGGATGATAGGAACCTCGGTATA
1 ACCCACTATCAAGGATGATAGGAACCTTGGTATA
30355662 AACGAACACT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCCACTATCAAGGATGATAGGAACCTTGGTATATAATAAACCTCG
Found at i:30358707 original size:12 final size:12
Alignment explanation
Indices: 30358692--30358725 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30358682 ACACACTCTT
30358692 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
30358704 TTTCTTTTTCGA
1 TTTCTTTTTCAA
*
30358716 CTTCTTTTTC
1 TTTCTTTTTC
30358726 TCTTCTCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:30360716 original size:50 final size:49
Alignment explanation
Indices: 30360595--30360821 Score: 186
Period size: 50 Copynumber: 4.6 Consensus size: 49
30360585 CTGATACGCA
* * **
30360595 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAATACACG
* * *
30360644 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATCCAATACACG
* * ** * * *
30360694 TAGTAGCCTGCACTTAGAACTACACACGTGATCGAAGTC-ATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATCCAATACACG
* * * * * **** *
30360745 TAGTAGCCTGCACTTAGTACTAAACATGCGACTTAACAGTATGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAACAATCCAATACACG
30360795 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
30360822 TTGTACTCAC
Statistics
Matches: 145, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
49 32 0.22
50 75 0.52
51 37 0.26
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAATACACG
Found at i:30362566 original size:23 final size:23
Alignment explanation
Indices: 30362540--30362609 Score: 140
Period size: 23 Copynumber: 3.0 Consensus size: 23
30362530 AGCTTTCAGA
30362540 CAATCACGAATCACTTTTACTTT
1 CAATCACGAATCACTTTTACTTT
30362563 CAATCACGAATCACTTTTACTTT
1 CAATCACGAATCACTTTTACTTT
30362586 CAATCACGAATCACTTTTACTTT
1 CAATCACGAATCACTTTTACTTT
30362609 C
1 C
30362610 TCTTCAGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (23 bp):
CAATCACGAATCACTTTTACTTT
Found at i:30365169 original size:51 final size:51
Alignment explanation
Indices: 30365114--30365348 Score: 273
Period size: 51 Copynumber: 4.6 Consensus size: 51
30365104 TATCTGATAT
30365114 GCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTAC
* * ** *
30365165 GCATAATAGCCTGCACTTAGTACTACACACGTGACCTCA-CCATCTGA-TAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTAC
* * *
30365215 ACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTAC
* * * **
30365266 GCATAATAGCCTGCACTTAGTACTACACATGCGACTTAACAGT-A-TG-GTAC
1 GCATAGTAGCCTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTAC
* *
30365316 ACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 GCATAGTAGCCTGCACTTAGTACTACACACGTG
30365349 TACTCACAAT
Statistics
Matches: 153, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
50 73 0.48
51 74 0.48
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
GCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTAC
Found at i:30365280 original size:101 final size:101
Alignment explanation
Indices: 30365117--30365348 Score: 385
Period size: 101 Copynumber: 2.3 Consensus size: 101
30365107 CTGATATGCA
30365117 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCATAATAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCATAATAGCCTGCACT
* * *
30365182 TAGTACTACACACGTGACCTCACCA-TCTGATACACG
66 TAGTACTACACACGCGA-CTCAACAGTATGATACACG
*
30365218 TAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCATAATAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCATAATAGCCTGCACT
* * *
30365283 TAGTACTACACATGCGACTTAACAGTATGGTACACG
66 TAGTACTACACACGCGACTCAACAGTATGATACACG
30365319 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
30365349 TACTCACAAT
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 5 0.04
101 117 0.96
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCATAATAGCCTGCACT
TAGTACTACACACGCGACTCAACAGTATGATACACG
Found at i:30365339 original size:50 final size:51
Alignment explanation
Indices: 30365115--30365348 Score: 262
Period size: 50 Copynumber: 4.6 Consensus size: 51
30365105 ATCTGATATG
* *
30365115 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
* * ** *
30365166 CATAATAGCCTGCACTTAGTACTACACACGTGACCTCA-CCATCTGA-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCAT-TGAGTACA
* * * *
30365216 CGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
* * * *
30365267 CATAATAGCCTGCACTTAGTACTACACATGCGACTTAACAGT-A-TG-GTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-TCAA-AGTCATTGAGTACA
*
30365317 CGTAGTAGCCTGCACTTAGTACTACACACGTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTG
30365349 TACTCACAAT
Statistics
Matches: 152, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
50 73 0.48
51 73 0.48
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACA
Found at i:30367081 original size:15 final size:15
Alignment explanation
Indices: 30367061--30367090 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30367051 GCAGTTTCAG
30367061 ACAATCACGAATCAC
1 ACAATCACGAATCAC
30367076 ACAATCACGAATCAC
1 ACAATCACGAATCAC
30367091 TTTTACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.07, T:0.13
Consensus pattern (15 bp):
ACAATCACGAATCAC
Found at i:30372569 original size:50 final size:48
Alignment explanation
Indices: 30372453--30372682 Score: 246
Period size: 50 Copynumber: 4.6 Consensus size: 48
30372443 CTGATATGCA
* * * *
30372453 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATT-GGTACACG
*
30372502 TAGTAGCCTGCACTTAGTACTACACACGTGACCCCACCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACCAT-TGGTACACG
* * * * *
30372552 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATTG-GTACACG
* * *
30372603 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAACCA-T-TGGTACACG
*
30372653 TAGTAGTCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
30372683 TACTCACAAT
Statistics
Matches: 153, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
49 31 0.20
50 81 0.53
51 41 0.27
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATTGGTACACG
Found at i:30375577 original size:50 final size:52
Alignment explanation
Indices: 30375459--30375582 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 52
30375449 AATGAGTACT
* *
30375459 TAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATGGTAGTTACA
1 TAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACA
** * * *
30375511 TAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGAAGTTACA
1 TAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACA
*
30375561 TAATGCATAACTTTATTAAATG
1 TAATGCATAACTTTATTTAATG
30375583 CAGAACACAC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
50 31 0.53
51 15 0.25
52 13 0.22
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (52 bp):
TAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACA
Found at i:30379394 original size:37 final size:37
Alignment explanation
Indices: 30379339--30379418 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
30379329 TGATATTTAC
*
30379339 TTTTA-TCAAATAATATAATTACATTTAAAACTTAAT
1 TTTTACTCAAATAAAATAATTACATTTAAAACTTAAT
*
30379375 TTTTACTCAAATAAAATAATTACATTTAATACTTAAT
1 TTTTACTCAAATAAAATAATTACATTTAAAACTTAAT
30379412 TTTTACT
1 TTTTACT
30379419 AACTTACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 5 0.12
37 36 0.88
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (37 bp):
TTTTACTCAAATAAAATAATTACATTTAAAACTTAAT
Found at i:30380244 original size:31 final size:31
Alignment explanation
Indices: 30380206--30380265 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
30380196 AACAACCTAG
**
30380206 TAACTTAAA-TAAATTTTTTTAAATAGTTCAA
1 TAACTTAAATTAAAACTTTTT-AATAGTTCAA
30380237 TAACTTAAATTAAAACTTTTTAATAGTTC
1 TAACTTAAATTAAAACTTTTTAATAGTTC
30380266 GTTGATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (31 bp):
TAACTTAAATTAAAACTTTTTAATAGTTCAA
Found at i:30383937 original size:34 final size:35
Alignment explanation
Indices: 30383899--30383967 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
30383889 AAAAATTATT
30383899 TAAATTAG-G-GTTTAGGGTTGTCAAATAAATTAAG
1 TAAATTAGAGTGTTTAGGGTT-TCAAATAAATTAAG
* *
30383933 TAAATTAGAGTTTTTAGGGTTTTAAATAAATTAAG
1 TAAATTAGAGTGTTTAGGGTTTCAAATAAATTAAG
30383968 GGCTTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 8 0.26
35 14 0.45
36 9 0.29
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.39
Consensus pattern (35 bp):
TAAATTAGAGTGTTTAGGGTTTCAAATAAATTAAG
Found at i:30383974 original size:18 final size:18
Alignment explanation
Indices: 30383948--30383983 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30383938 TAGAGTTTTT
*
30383948 AGGGTTTTAAATAAATTA
1 AGGGCTTTAAATAAATTA
30383966 AGGGCTTTAAATAAATTA
1 AGGGCTTTAAATAAATTA
30383984 GGTTTAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (18 bp):
AGGGCTTTAAATAAATTA
Found at i:30384070 original size:34 final size:36
Alignment explanation
Indices: 30384023--30384099 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
30384013 ATTAGTGCTT
*
30384023 TAAA-TAAGTTAAATTAAGGTT-TATGG-TTTTTAGA
1 TAAATTAAGTTAAATTAAGGTTCTA-GGATTTTTAAA
*
30384057 TAAATTAAG-TAAATTAGGGTTCTAGGATTTTTAAA
1 TAAATTAAGTTAAATTAAGGTTCTAGGATTTTTAAA
30384092 TAAATTAA
1 TAAATTAA
30384100 ATTAGGGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
34 17 0.45
35 21 0.55
ACGTcount: A:0.42, C:0.01, G:0.16, T:0.42
Consensus pattern (36 bp):
TAAATTAAGTTAAATTAAGGTTCTAGGATTTTTAAA
Found at i:30384496 original size:126 final size:127
Alignment explanation
Indices: 30384205--30384710 Score: 711
Period size: 126 Copynumber: 4.0 Consensus size: 127
30384195 TTTTGTACCC
* * *
30384205 TGAAAAAATAATTTTGAGAATACGCTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * *
30384270 ACTATTAGC-AAATTACAGAAAAAAA-CT-CC-CATGTCGATGCTCTTTTTCTGCAGTAGTTCT
66 ACTGTCAGCAAAATTACAGAAAAAAAGCTACCACATG--GACGCTCTTTTTCTACAGTAGTTCA
* *
30384330 TGAAGAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * *
30384395 ACTGTCAGCAAAATGA-ATAAAAAAAGCTACCACATGGACGCTCTTTTTATACAGTAGTTCA
66 ACTGTCAGCAAAATTACAGAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
* * *
30384456 TGAAAAAATAATTTTGAGAAGACGTTTGTGAACAAATAGTGTCAAAAACGCTTTAAGCATGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* *
30384521 ACTGTCAGCAAAATTACAG-AAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTTCC
66 ACTGTCAGCAAAATTACAGAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
* * * *
30384582 TGAAAAAATAAGTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGTAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * *
30384647 AATGTCAGCAAATTTAC-GAAAAAAAGCTACCATATAGACGCTCTTTTTCTACAGTAGTTCA
66 ACTGTCAGCAAAATTACAGAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
30384708 TGA
1 TGA
30384711 TTGGCCTTAG
Statistics
Matches: 339, Mismatches: 36, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
125 76 0.22
126 256 0.76
127 3 0.01
128 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (127 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
ACTGTCAGCAAAATTACAGAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
Found at i:30387276 original size:39 final size:39
Alignment explanation
Indices: 30387216--30387432 Score: 267
Period size: 39 Copynumber: 5.5 Consensus size: 39
30387206 CAAAAGCATG
* * * * *
30387216 CGGGACTTTAAGCCCGAATATAATACCCGCAC-AAGGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
30387256 CGGGACTTTAGCCCGGATATAACATCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* * * *
30387296 CAGGACTTAGCTCGGATGT-ACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
30387334 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
30387373 CGGGACTTGGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
30387412 CGGGACTTGGCTCGGATATAA
1 CGGGACTTAGCCCGGATATAA
30387433 TTCTCCATTA
Statistics
Matches: 156, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
38 33 0.21
39 103 0.66
40 20 0.13
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:30387417 original size:78 final size:78
Alignment explanation
Indices: 30387233--30387432 Score: 262
Period size: 77 Copynumber: 2.6 Consensus size: 78
30387223 TTAAGCCCGA
* * * * *
30387233 ATATAATACCCGCAC-AAGGCCTACGGGACTTTAGCCCGGATATAACATCAGCACGAATGCCTTC
1 ATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTTC
30387297 AGGACTTAGCTCGG
65 AGGACTTAGCTCGG
* * *
30387311 ATGT-ACACTAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCG
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCA
*
30387375 GGACTTGGC-CTGG
66 GGACTTAGCTC-GG
* *
30387388 ATATAACACCAGCACGAATGCCTTCGGGACTTGGCTCGGATATAA
1 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
30387433 TTCTCCATTA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
76 1 0.01
77 53 0.50
78 52 0.49
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (78 bp):
ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCA
GGACTTAGCTCGG
Found at i:30390061 original size:2 final size:2
Alignment explanation
Indices: 30390054--30390111 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
30390044 GTATTAGCAT
30390054 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30390096 CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA
30390112 TATATATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:30392355 original size:29 final size:29
Alignment explanation
Indices: 30392321--30392423 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
30392311 TATTCGATTT
* * *
30392321 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
30392350 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
30392379 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
30392408 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30392424 ATCTCATCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:30400059 original size:29 final size:29
Alignment explanation
Indices: 30400027--30400099 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
30400017 CTTCGATCTC
30400027 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30400056 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30400085 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
30400100 ATCTCATCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:30400060 original size:58 final size:58
Alignment explanation
Indices: 30399961--30400072 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
30399951 TGCTTAATAC
* * *
30399961 TCGATTTCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCT
1 TCGATCTCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACCCT
* * * *
30400019 TCGATCTCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATA
1 TCGATCTCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATA
30400073 TATTTCCAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
57 4 0.09
58 42 0.91
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (58 bp):
TCGATCTCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACCCT
Found at i:30404069 original size:39 final size:39
Alignment explanation
Indices: 30404026--30404214 Score: 161
Period size: 39 Copynumber: 4.8 Consensus size: 39
30404016 CAATCACCAC
* * *
30404026 CACAAAGCATGCGGGACTTTAAGCCCGGATATAATA-CTG
1 CACAAAGCCTGCGGGACTTT-AGCCCGGATATAACATCAG
* *
30404065 CACAAGGCCTGTGGGACTTTAGCCCGGATATAACATCAG
1 CACAAAGCCTGCGGGACTTTAGCCCGGATATAACATCAG
* * *
30404104 CACGAATGCCTTCGGGAC-TTAGCCCGGATATAACACCAG
1 CAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACATCAG
* * * ** *
30404143 CACGAATGCCTTCGGGA-TTTGGCCTAGATATAACACCAG
1 CAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACATCAG
** *
30404182 CACAAATGCCTTTGGGAC-TTGGCCCGGATATAA
1 CACAAA-GCCTGCGGGACTTTAGCCCGGATATAA
30404215 TTCTCCATTA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
38 16 0.12
39 102 0.79
40 11 0.09
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (39 bp):
CACAAAGCCTGCGGGACTTTAGCCCGGATATAACATCAG
Found at i:30404236 original size:31 final size:31
Alignment explanation
Indices: 30404198--30404259 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
30404188 TGCCTTTGGG
*
30404198 ACTTGGCCCGGATATAATTCTCCATTATCAT
1 ACTTGGCCCGAATATAATTCTCCATTATCAT
30404229 ACTTGGCCCGAATATAATTCTCCATTATCAT
1 ACTTGGCCCGAATATAATTCTCCATTATCAT
30404260 GCACAAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.35
Consensus pattern (31 bp):
ACTTGGCCCGAATATAATTCTCCATTATCAT
Found at i:30408715 original size:30 final size:30
Alignment explanation
Indices: 30408681--30408741 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30408671 TCCTTAACTC
30408681 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30408711 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30408741 A
1 A
30408742 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30413063 original size:30 final size:30
Alignment explanation
Indices: 30413029--30413089 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30413019 TCCTTAACTC
30413029 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30413059 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30413089 A
1 A
30413090 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30416940 original size:20 final size:21
Alignment explanation
Indices: 30416908--30416959 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
30416898 TCAGCTCCCA
**
30416908 TCAGCTCACTTGAGCTC-AAT
1 TCAGCTCGTTTGAGCTCAAAT
*
30416928 TCAGCTCGTTTGAGTTCAAAT
1 TCAGCTCGTTTGAGCTCAAAT
*
30416949 TTAGCTCGTTT
1 TCAGCTCGTTT
30416960 CAACTCATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCAGCTCGTTTGAGCTCAAAT
Found at i:30416954 original size:21 final size:20
Alignment explanation
Indices: 30416917--30416959 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
30416907 ATCAGCTCAC
30416917 TTGAGCTCAATTCAGCTCGT
1 TTGAGCTCAATTCAGCTCGT
* *
30416937 TTGAGTTCAAATTTAGCTCGT
1 TTGAGCTC-AATTCAGCTCGT
30416958 TT
1 TT
30416960 CAACTCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGAGCTCAATTCAGCTCGT
Found at i:30426701 original size:43 final size:42
Alignment explanation
Indices: 30426640--30426748 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
30426630 AATGGCAACA
*
30426640 TCCCGGAC-GTGGTCTTACATGTAATCAAATATCGATG-CCACTG
1 TCCCGGACAG-GGTCTTACACGTAATCAAATAT-GATGTCCA-TG
* * *
30426683 TCCCGGACAGGGTCTTACACGAAATCAGATATGATGTCGATG
1 TCCCGGACAGGGTCTTACACGTAATCAAATATGATGTCCATG
* *
30426725 TCCCAGACATGGTCTTACACGTAA
1 TCCCGGACAGGGTCTTACACGTAA
30426749 AACAGAAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 27 0.47
43 29 0.51
44 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (42 bp):
TCCCGGACAGGGTCTTACACGTAATCAAATATGATGTCCATG
Found at i:30426771 original size:44 final size:42
Alignment explanation
Indices: 30426640--30426792 Score: 121
Period size: 43 Copynumber: 3.6 Consensus size: 42
30426630 AATGGCAACA
* * * * * * *
30426640 TCCCGGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAAACAGATAT-GATGCCAATG
* * * * *
30426683 TCCCGGACAGGGTCTTACACGAAATCAGATATGATGTCGATG
1 TCCCAGACATGGTCTTACACGAAAACAGATATGATGCCAATG
30426725 TCCCAGACATGGTCTTACACGTAAAACAGA-AGTTGATGCCAATG
1 TCCCAGACATGGTCTTACACG-AAAACAGATA--TGATGCCAATG
* **
30426769 TCCCATATGTGGTCTTACAC-AAAA
1 TCCCAGACATGGTCTTACACGAAAA
30426793 TCACATAACG
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 31 0.34
43 34 0.37
44 26 0.29
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAACAGATATGATGCCAATG
Found at i:30431691 original size:21 final size:22
Alignment explanation
Indices: 30431652--30431692 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30431642 ACATTTATAA
30431652 AATTCACAAAAAATCAACATTC
1 AATTCACAAAAAATCAACATTC
* *
30431674 AATTCA-AACAAATTAACAT
1 AATTCACAAAAAATCAACAT
30431693 ATATAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (22 bp):
AATTCACAAAAAATCAACATTC
Found at i:30431960 original size:14 final size:14
Alignment explanation
Indices: 30431941--30431967 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30431931 AAATGAAATT
30431941 CATGCAATTTAATC
1 CATGCAATTTAATC
30431955 CATGCAATTTAAT
1 CATGCAATTTAAT
30431968 TCTTATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (14 bp):
CATGCAATTTAATC
Found at i:30437037 original size:40 final size:39
Alignment explanation
Indices: 30436949--30437173 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
30436939 TCGAATGATG
* * * *
30436949 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
30436989 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
30437029 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
30437068 TCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
** *
30437108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
30437149 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
30437174 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 35 0.22
40 117 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30437099 original size:79 final size:80
Alignment explanation
Indices: 30436949--30437171 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
30436939 TCGAATGATG
* * * * *
30436949 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCAGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
30437011 TTTGTGCGAGTTACTAAA
63 TTGGTGCGAGTTACTAAA
* * *
30437029 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
30437091 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
** *
30437108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATT
30437172 TGAACGAGTA
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
78 1 0.01
79 68 0.56
80 44 0.36
81 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:30437172 original size:119 final size:120
Alignment explanation
Indices: 30436950--30437173 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
30436940 CGAATGATGT
* *
30436950 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCAGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGCATTTG
* *
30437015 TGCGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* * * **
30437070 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCAGACTAAGAT-CCGAAGGCATT
* *
30437132 TGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
30437174 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 69 0.78
120 18 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCAGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:30438793 original size:47 final size:46
Alignment explanation
Indices: 30438563--30438930 Score: 194
Period size: 48 Copynumber: 7.8 Consensus size: 46
30438553 TACATAAGTT
* * *
30438563 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-GCATTATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCA-TCTCGAC
* * * * *
30438612 GCCGATGCCATGTCCCAGACATGGT-TTCATACTAGCTCTCGTATATACG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTT-ACACTGGCACTC--ATCT-CGAC
* ** * * * *
30438662 GCTGATGCAAATCGCAGACATGTCTTACACTAGCA--CAACTCTTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC-GAC
* * ** * *
30438706 GCCGATGCGTGTCCCAAACACATCTTACATTGGCTA-TCATCATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGAC
** *
30438753 GTTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAC
* * * * *
30438799 GTCGATGCCATGTCCCAGACATGGTTTTATATTGGCACTCATCTCTAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCGAC
* * * * **
30438847 GCGGATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCGAC
*
30438895 GCCGATGCATGTCCTAGACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
30438931 ACAAGAAATT
Statistics
Matches: 251, Mismatches: 52, Indels: 35
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 26 0.10
45 1 0.00
46 28 0.11
47 61 0.24
48 76 0.30
49 46 0.18
50 9 0.04
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAC
Found at i:30438845 original size:48 final size:48
Alignment explanation
Indices: 30438756--30438930 Score: 200
Period size: 48 Copynumber: 3.7 Consensus size: 48
30438746 CATCGAGGTT
*
30438756 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTACGTC-
1 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATCTCTACG-CG
* *
30438802 GATGCCATGTCCCAGACATGGTTTTATATTGGCACTCATCTCTACGCG
1 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATCTCTACGCG
* * * * *
30438850 GATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAATGT-GGCC
1 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCAT-CTCTACGCG
* *
30438898 GATG-CATGTCCTAGACAT-GTCTTACACTGGCAC
1 GATGCCATGTCCCAGACATGGTCTTATACTGGCAC
30438931 ACAAGAAATT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 17 0.15
47 28 0.25
48 65 0.58
49 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATCTCTACGCG
Found at i:30442580 original size:46 final size:46
Alignment explanation
Indices: 30442530--30442705 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
30442520 TGGTTGAGCA
*
30442530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
30442576 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
30442621 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
30442669 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30442706 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.05
45 6 0.05
46 61 0.55
47 29 0.26
48 4 0.04
50 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:30442686 original size:93 final size:93
Alignment explanation
Indices: 30442527--30442698 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
30442517 GGATGGTTGA
* *
30442527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
30442592 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30442620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
30442684 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
30442699 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30446418 original size:18 final size:18
Alignment explanation
Indices: 30446391--30446428 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30446381 CGTACATGAG
*
30446391 AGAAACAAAAACAA-AGAA
1 AGAAA-AAAAAAAAGAGAA
30446409 AGAAAAAAAAAAAGAGAA
1 AGAAAAAAAAAAAGAGAA
30446427 AG
1 AG
30446429 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAGAGAA
Found at i:30447792 original size:40 final size:40
Alignment explanation
Indices: 30447704--30447833 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
30447694 ATGCTGGAAA
* * *
30447704 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-G
1 TTATATCCGGGCTAAGACCCAAAGGC-ATTCGTGCAAGTCG
* *
30447743 ACTACATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCG
1 -TTATATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCG
* * * * *
30447784 TTCTATCCGGGCTAAGACCCGAGGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCG
30447824 TTATATCCGG
1 TTATATCCGG
30447834 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 71 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCG
Found at i:30452410 original size:48 final size:46
Alignment explanation
Indices: 30452141--30452507 Score: 233
Period size: 48 Copynumber: 7.8 Consensus size: 46
30452131 GGGATAAGTT
* * * *
30452141 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGT-ATCATCAAG
1 GCCGATG-CATGTCCCAAACA-GGTCTTACACTGGC-ACTCATC-TCTAC
* * * * * * * *
30452190 GCCGATGCATGTCCTAGACAAGGTTTTATACTAGCTCTCATATATAC
1 GCCGATGCATGTCCCAAAC-AGGTCTTACACTGGCACTCATCTCTAC
* * * * *
30452237 GTGCTGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCTTA-
1 --GCCGATGCATGTCCCAAACAGGTCTTACACTGGCACTCATCTC-TAC
* * * * * * *
30452283 GCCGATGCGTGTCCCAGACACGCCTTACATTGGCTAC-CATCATCGAG
1 GCCGATGCATGTCCCAAACAGGTCTTACACTGGC-ACTCATC-TCTAC
* * *
30452330 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAC
1 GCCGATGCATGTCCCAAACAGGTCTTACACTGGCACTCATCTCTAC
*
30452376 GCCGATGCCATGTCCCAAACAAGGTCTTATACTGGCACTCATCTCTAC
1 GCCGATG-CATGTCCCAAAC-AGGTCTTACACTGGCACTCATCTCTAC
* * ** * * *
30452424 GTCGATGCCATGTCCCAGACATGGTCTTATGCTGGCACTCATAATGT-G
1 GCCGATG-CATGTCCCAAACA-GGTCTTACACTGGCACTCAT-CTCTAC
*
30452472 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAAACAGGTCTTACACTGGCAC
30452508 ACAAGAAATC
Statistics
Matches: 255, Mismatches: 49, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
44 28 0.11
45 1 0.00
46 31 0.12
47 64 0.25
48 104 0.41
49 27 0.11
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACAGGTCTTACACTGGCACTCATCTCTAC
Found at i:30455526 original size:27 final size:28
Alignment explanation
Indices: 30455467--30455536 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
30455457 AAATTTGTAC
30455467 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
30455495 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
30455522 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30455537 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:30459922 original size:20 final size:20
Alignment explanation
Indices: 30459897--30459938 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30459887 CACATGTTAA
30459897 GAAGATGGACACCAAATTTT
1 GAAGATGGACACCAAATTTT
30459917 GAAGATGGACACCAAATTTT
1 GAAGATGGACACCAAATTTT
30459937 GA
1 GA
30459939 CTTATTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (20 bp):
GAAGATGGACACCAAATTTT
Found at i:30465735 original size:56 final size:55
Alignment explanation
Indices: 30465649--30465897 Score: 345
Period size: 56 Copynumber: 4.5 Consensus size: 55
30465639 GACCATGGCA
30465649 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGA-T
* *
30465705 TCGATATATGTATGCGAGTAAGAACACGTTTAATACGTTGGCATCAATATGTGAT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGAT
* * * * * *
30465760 TCTGATATATGTGTGTGAGTACGTCCACGTTTAATATGTTGGCTTCGATATGTGATT
1 TC-GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGA-T
* * *
30465817 TCGATATATGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCGATATGTGAT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGAT
* *
30465872 TCTGATTTATGTGTGGGAGTAAGACC
1 TC-GATATATGTGTGCGAGTAAGACC
30465898 CTGTCTGGGA
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
55 6 0.04
56 162 0.95
57 3 0.02
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGAT
Found at i:30466160 original size:19 final size:19
Alignment explanation
Indices: 30466117--30466152 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30466107 AATGCAATTT
30466117 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
30466136 ATATATG-TGTATATGAA
1 ATATATGATGTAAATGAA
30466153 TAGTATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:30466361 original size:25 final size:25
Alignment explanation
Indices: 30466314--30466362 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
30466304 TTCGGTTAAA
* **
30466314 TAATGATATTATGGTTTTTGATATT
1 TAATGATATTATGGTATAGGATATT
*
30466339 TAATGATATTTTGGTATAGGATAT
1 TAATGATATTATGGTATAGGATAT
30466363 ATGTATATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (25 bp):
TAATGATATTATGGTATAGGATATT
Found at i:30470264 original size:31 final size:31
Alignment explanation
Indices: 30470226--30470289 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
30470216 CCTTTTCATA
30470226 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
30470257 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
30470288 TT
1 TT
30470290 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:30470589 original size:23 final size:23
Alignment explanation
Indices: 30470504--30470623 Score: 168
Period size: 23 Copynumber: 5.1 Consensus size: 23
30470494 CCTAGCCTCT
* *
30470504 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
**
30470527 TTTTTGTAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
30470551 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
30470575 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30470598 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30470621 TTT
1 TTT
30470624 TGCACTTCCT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
23 47 0.53
24 42 0.47
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:30470702 original size:20 final size:20
Alignment explanation
Indices: 30470677--30470720 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
30470667 TGAACACCTA
30470677 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
30470697 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
30470717 ATGT
1 ATGT
30470721 TTATCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:30473461 original size:39 final size:39
Alignment explanation
Indices: 30473407--30473569 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
30473397 TGTGAATGAA
*
30473407 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
30473446 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
30473485 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
30473524 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
30473564 TGTGCG
1 TGTGCG
30473570 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 98 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30477320 original size:24 final size:24
Alignment explanation
Indices: 30477252--30477309 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
30477242 ATAATCCATG
*
30477252 GAACTTTCATGCTTAAAGCTTCTA
1 GAACTCTCATGCTTAAAGCTTCTA
30477276 GAACTCTCATGCTTAAAGCTTCTA
1 GAACTCTCATGCTTAAAGCTTCTA
30477300 GAACTCTCAT
1 GAACTCTCAT
30477310 TTTTGTAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (24 bp):
GAACTCTCATGCTTAAAGCTTCTA
Found at i:30480717 original size:29 final size:29
Alignment explanation
Indices: 30480685--30480744 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
30480675 TGAATTTCAT
* *
30480685 AATTTCACCCCTCAATTTACACTTTT-CTC
1 AATTTAACCCCT-AATATACACTTTTACTC
* *
30480714 AATTTAATCCCTAATATACATTTTTACTC
1 AATTTAACCCCTAATATACACTTTTACTC
30480743 AA
1 AA
30480745 AATCACTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTAACCCCTAATATACACTTTTACTC
Found at i:30483277 original size:24 final size:24
Alignment explanation
Indices: 30483250--30483371 Score: 235
Period size: 24 Copynumber: 5.1 Consensus size: 24
30483240 GCTTATTATG
*
30483250 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30483274 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30483298 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30483322 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30483346 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30483370 AT
1 AT
30483372 TTCTACCCCT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 97 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:30491022 original size:24 final size:24
Alignment explanation
Indices: 30490995--30491139 Score: 274
Period size: 24 Copynumber: 6.1 Consensus size: 24
30490985 GCTTATTATG
*
30490995 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30491019 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30491043 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30491067 ATCGCACAC-CAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30491090 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30491114 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
30491138 AT
1 AT
30491140 TTCTACCCCT
Statistics
Matches: 119, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
23 23 0.19
24 96 0.81
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:30491097 original size:71 final size:72
Alignment explanation
Indices: 30490995--30491139 Score: 274
Period size: 71 Copynumber: 2.0 Consensus size: 72
30490985 GCTTATTATG
*
30490995 ATCGCACACATAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
1 ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
30491060 ATAGTAA
66 ATAGTAA
30491067 ATCGCACAC-CAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
1 ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
30491131 ATAGTAA
66 ATAGTAA
30491138 AT
1 AT
30491140 TTCTACCCCT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 63 0.88
72 9 0.12
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (72 bp):
ATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCCATAGTAAATCGCACACACAGTGCC
ATAGTAA
Found at i:30504211 original size:29 final size:29
Alignment explanation
Indices: 30504179--30504310 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
30504169 ATAGTGAATC
30504179 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
30504208 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
30504238 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
30504267 CGCACAGTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
30504296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30504311 GTACAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 70 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:30504320 original size:59 final size:59
Alignment explanation
Indices: 30504179--30504310 Score: 230
Period size: 59 Copynumber: 2.3 Consensus size: 59
30504169 ATAGTGAATC
30504179 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * *
30504238 CGCACACTTAGTGCTATATATTTTCAGTTCGCACAGTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
30504296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30504311 GTACAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 24 0.34
59 46 0.66
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:30505632 original size:19 final size:18
Alignment explanation
Indices: 30505608--30505643 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30505598 CCCCCTTTTT
*
30505608 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
30505627 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
30505644 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:30506387 original size:12 final size:12
Alignment explanation
Indices: 30506370--30506399 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30506360 TCAGTTAGTT
*
30506370 ACACGGTCTAAC
1 ACACGGACTAAC
30506382 ACACGGACTAAC
1 ACACGGACTAAC
30506394 ACACGG
1 ACACGG
30506400 CCTGGCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.10
Consensus pattern (12 bp):
ACACGGACTAAC
Found at i:30508731 original size:161 final size:161
Alignment explanation
Indices: 30508536--30508864 Score: 577
Period size: 161 Copynumber: 2.0 Consensus size: 161
30508526 GGAGCATAAG
* * * * *
30508536 ATATGTAGGCTTGTTAAATCTCTATATGGGCTTAAACAAAGACCAAAGCATTGACACCAAAAGTT
1 ATATGTAAGCTTATTAAATCTCTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
*
30508601 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATTTGATAAGTGCATATATAAAAAAT
66 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAAAAAAT
*
30508666 TTGAAAATGGAAAAGGTGTCATAATTTTCTT
131 TTGAAAATGGAAAAGGTGTCATAATTTGCTT
*
30508697 ATATGTAAGCTTATTAAATCTTTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
1 ATATGTAAGCTTATTAAATCTCTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
*
30508762 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAACAAAT
66 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAAAAAAT
30508827 TTGAAAATGGAAAAGGTGTCATAATTTGCTT
131 TTGAAAATGGAAAAGGTGTCATAATTTGCTT
30508858 ATATGTA
1 ATATGTA
30508865 GATGACATGC
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (161 bp):
ATATGTAAGCTTATTAAATCTCTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAAAAAAT
TTGAAAATGGAAAAGGTGTCATAATTTGCTT
Found at i:30516009 original size:190 final size:190
Alignment explanation
Indices: 30515787--30516171 Score: 743
Period size: 190 Copynumber: 2.0 Consensus size: 190
30515777 TTAGTAAAAA
30515787 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
1 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
*
30515852 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAGCTTAGTTATCAATT
66 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAACTTAGTTATCAATT
30515917 GAAAACATTCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
131 GAAAACATTCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
*
30515977 AAACTATTTTGATATTTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
1 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
30516042 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAACTTAGTTATCAATT
66 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAACTTAGTTATCAATT
*
30516107 GAAAACATTCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCGGTTG
131 GAAAACATTCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
30516167 AAACT
1 AAACT
30516172 TGAAGACGAT
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 192 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (190 bp):
AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAACTTAGTTATCAATT
GAAAACATTCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
Found at i:30517320 original size:23 final size:23
Alignment explanation
Indices: 30517269--30517320 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
30517259 TTTATAATAT
*
30517269 AAATTTAATATTTAATTTATTCA
1 AAATTTAATATTTAAATTATTCA
*
30517292 ACATTTAATATTTCAAATTATT-A
1 AAATTTAATATTT-AAATTATTCA
30517315 AAATTT
1 AAATTT
30517321 GACATCTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTTAATATTTAAATTATTCA
Found at i:30523047 original size:2 final size:2
Alignment explanation
Indices: 30523040--30523072 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30523030 GCAAATGTAA
30523040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30523073 TCAAACACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30526402 original size:10 final size:10
Alignment explanation
Indices: 30526387--30526411 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30526377 AAATCAGTTG
30526387 AAAATAATAA
1 AAAATAATAA
30526397 AAAATAATAA
1 AAAATAATAA
30526407 AAAAT
1 AAAAT
30526412 TATTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAATAA
Found at i:30526426 original size:22 final size:22
Alignment explanation
Indices: 30526396--30526440 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30526386 GAAAATAATA
30526396 AAAAATAATAAAAAATT-ATTAT
1 AAAAATAAT-AAAAATTAATTAT
* *
30526418 AAAATTAATTAAAATTAATTAT
1 AAAAATAATAAAAATTAATTAT
30526440 A
1 A
30526441 TTTATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATAATAAAAATTAATTAT
Found at i:30527399 original size:42 final size:43
Alignment explanation
Indices: 30527340--30527449 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 43
30527330 TTTTATCAAA
*
30527340 TCACCGGCA-TTCAGCCTGCTAGGTTTAAAAACCTGA-ATTCA-T
1 TCACCGGCATTTCAGCCTGCTAGGCTT-AAAACCTGATA-TCATT
* *
30527382 TCACCGGCATTTC-GCCTGCTAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTTCAGCCTGCTAGGCTTAAAACCTGATATCATT
*
30527424 TCACCGGCATTAT-AGCCTACTAGGCT
1 TCACCGGCATT-TCAGCCTGCTAGGCT
30527450 CGAAAGCCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 10 0.17
42 34 0.58
43 15 0.25
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (43 bp):
TCACCGGCATTTCAGCCTGCTAGGCTTAAAACCTGATATCATT
Found at i:30527484 original size:45 final size:45
Alignment explanation
Indices: 30527340--30527643 Score: 331
Period size: 45 Copynumber: 6.9 Consensus size: 45
30527330 TTTTATCAAA
* * * **
30527340 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCTGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGT-ATC
* ** *
30527382 TCACCGGCATT-TCGCCTGCTAGGCTTGAA-GCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGT-ATC
*
30527424 TCACCGGCATTATAGCCTACTAGGCTCGAAA-GCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCTGAATAGTATC
* ** *
30527469 TTACCGATATTATAGCCTGCTAGGCTCAAAGCCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
*
30527514 TCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCCT-AATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGG-CCTGAATAGTATC
* *
30527559 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
* *
30527604 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATA
30527644 ATGCTGTGCG
Statistics
Matches: 228, Mismatches: 25, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.01
41 8 0.04
42 36 0.16
43 12 0.05
44 12 0.05
45 154 0.68
46 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
Found at i:30528202 original size:2 final size:2
Alignment explanation
Indices: 30528195--30528219 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30528185 ATATAGCCGA
30528195 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30528220 GCTCATCAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30528567 original size:47 final size:47
Alignment explanation
Indices: 30528463--30528606 Score: 216
Period size: 47 Copynumber: 3.0 Consensus size: 47
30528453 AAAATTTTCT
* * * *
30528463 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCAGGAAATATTAAGAGC-AAATTTAACAAGC
30528511 TTAACTAAGTAACTTGTCAGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCAGGAAATATTAAGAGCAAATTTAACAAGC
* * *
30528558 TTAACTAAGTAGCTTGTCTGGAAATATTCAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCAGGAAATATTAAGAGCAAATTTAACAAGC
30528605 TT
1 TT
30528607 TAAATTCAAC
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 59 0.66
48 30 0.34
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTGTCAGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:30535257 original size:44 final size:45
Alignment explanation
Indices: 30535088--30535297 Score: 280
Period size: 44 Copynumber: 4.9 Consensus size: 45
30535078 CTGAATTCAT
* * *
30535088 TCACCAGCATT-TCGCCTGCTAGGCTCAAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
30535130 TCACC-GCA-TATAGCCTGCTAGGCTCAAA-G-CCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
30535171 TCACCGG-ATTATAGCTTGCTAGGCTCAAAGGCCCTAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
30535215 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAA-AGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
30535259 TCACCGGCATTATAGCCTGCTAGGCTCAAAGG-CCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
30535298 ATACTGTGCG
Statistics
Matches: 151, Mismatches: 8, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
40 4 0.03
41 32 0.21
42 26 0.17
43 6 0.04
44 55 0.36
45 28 0.19
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:30535287 original size:89 final size:85
Alignment explanation
Indices: 30535088--30535297 Score: 268
Period size: 89 Copynumber: 2.5 Consensus size: 85
30535078 CTGAATTCAT
* * * *
30535088 TCACCAGCATT-TCGCCTGCTAGGCTCAAA-GCCCGATATCATTTCACCGCATATAGCCTGCTAG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAATATCATCTCACCGCATATAGCCTGCTAG
30535151 GCTCAAAGCCGAATAGTATC
66 GCTCAAAGCCGAATAGTATC
* *
30535171 TCACCGG-ATTATAGCTTGCTAGGCTCAAAGGCCCTAATAGT-ATCTCACTGGCATTATAGCCTG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCC-AATA-TCATCTCAC-CGCA-TATAGCCTG
30535234 CTAGGCTCAAAGGCCCGAA-AGTATC
62 CTAGGCTCAAA-G-CCGAATAGTATC
*
30535259 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAATA
30535298 ATACTGTGCG
Statistics
Matches: 110, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
82 3 0.03
83 22 0.20
84 4 0.04
85 9 0.08
86 4 0.04
87 20 0.18
88 18 0.16
89 30 0.27
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (85 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAATATCATCTCACCGCATATAGCCTGCTAG
GCTCAAAGCCGAATAGTATC
Found at i:30536189 original size:44 final size:46
Alignment explanation
Indices: 30536107--30536211 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 46
30536097 AAAATTTTCT
* *
30536107 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAA-AA-C
1 TTAACTAAGTAACTTATCAGGAAATAATAAGAGCAAA-TTAACAAGC
*
30536152 TTAACTAAGTAACTT-TCAGGAAATATTAAGAGCAAATTAACAAGC
1 TTAACTAAGTAACTTATCAGGAAATAATAAGAGCAAATTAACAAGC
30536197 TTAACTAAGTAACTT
1 TTAACTAAGTAACTT
30536212 GCAAATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 4 0.07
44 20 0.36
45 31 0.56
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCAGGAAATAATAAGAGCAAATTAACAAGC
Found at i:30536224 original size:30 final size:29
Alignment explanation
Indices: 30536183--30536242 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
30536173 AATATTAAGA
30536183 GCAAATTAACAAGCTTAACTAAGTAACTT
1 GCAAATTAACAAGCTTAACTAAGTAACTT
30536212 GCAAATTTAACAAGCTTAACTAAGTAACTT
1 GCAAA-TTAACAAGCTTAACTAAGTAACTT
30536242 G
1 G
30536243 TTCGGAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (29 bp):
GCAAATTAACAAGCTTAACTAAGTAACTT
Found at i:30539124 original size:50 final size:49
Alignment explanation
Indices: 30539029--30539167 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 49
30539019 ACCGAAGCTC
* * * *
30539029 TCTGGTACGCATAGTATCCTGCACTTAGTACTACAAATGCAACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCAACCTAA-AA
* **
30539079 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCAACCTAAAA
* *
30539128 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
30539168 TGTGTTCTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.04
49 2 0.03
50 41 0.55
52 29 0.39
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCAACCTAAAA
Found at i:30545202 original size:41 final size:40
Alignment explanation
Indices: 30545035--30545213 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
30545025 GCTCGATTGT
* * * * * *
30545035 CTTCGGGACATT-GCCCGGTTATAGTGATTCGTACAATTGC
1 CTTCGGGAC-TTAACCCGGTTTTAGTAACTCGCACAAATGC
* * * *
30545075 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
30545115 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
30545155 CTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGC
*
30545196 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
30545214 ATACCATTCG
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.76
41 27 0.23
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:30549848 original size:21 final size:21
Alignment explanation
Indices: 30549823--30549866 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30549813 TGCAATAAAT
30549823 ATCATAGAATTTACTCACATC
1 ATCATAGAATTTACTCACATC
30549844 ATCATAGAATTTACTCACATC
1 ATCATAGAATTTACTCACATC
30549865 AT
1 AT
30549867 TACGACATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (21 bp):
ATCATAGAATTTACTCACATC
Found at i:30553971 original size:27 final size:27
Alignment explanation
Indices: 30553920--30554267 Score: 202
Period size: 27 Copynumber: 12.9 Consensus size: 27
30553910 AATACTTTAG
* * **
30553920 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
** * *
30553947 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
****
30553974 TTTACAAAATTACCGTTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
*** *
30554001 TTTACAAAATTACCATTTTACCCTCTA
1 TTTACAAAATTACCAAAATACCCTCAA
* * ***
30554028 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
* **** *
30554055 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* **** *
30554082 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* ***
30554109 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCAA
*
30554136 TTTACAAAATTACCAAAATACCC-CTAG
1 TTTACAAAATTACCAAAATACCCTC-AA
** * **
30554163 TTTGTAAAATTACCAAAATACTACT-GG
1 TTTACAAAATTACCAAAATAC-CCTCAA
***
30554190 TTTGTGAAATTACCAAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
30554217 TTTGA-AAAATTACCAAAATACCC-CTAA
1 TTT-ACAAAATTACCAAAATACCCTC-AA
30554244 TTTACAAAATTA-CAAACATACCCT
1 TTTACAAAATTACCAAA-ATACCCT
30554268 TGACTTTCTA
Statistics
Matches: 268, Mismatches: 44, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
26 8 0.03
27 259 0.97
28 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCAA
Found at i:30554002 original size:54 final size:54
Alignment explanation
Indices: 30553941--30554256 Score: 244
Period size: 54 Copynumber: 5.9 Consensus size: 54
30553931 ACTAAAATGT
** * *
30553941 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTAC
*** * * *
30553995 CCTCAATTTACAAAATTACCATTTTACCCTCTATTTATAGAATTACCATTTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTAC
* **** * *
30554049 CCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTAC
* * * * ***
30554103 CCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATAC
1 CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTAC
* ** * * *** ***
30554157 CC-CTAGTTTGTAAAATTACCAAAATACTACT-GGTTTGTGAAATTACCAAAATAC
1 CCTC-AATTTACAAAATTACCAAAATAC-CCTCGATTTACAAAATTACCATTTTAC
*
30554211 CCTCAATTTGA-AAAATTACCAAAATACCC-CTAATTTACAAAATTAC
1 CCTCAATTT-ACAAAATTACCAAAATACCCTC-GATTTACAAAATTAC
30554257 AAACATACCC
Statistics
Matches: 211, Mismatches: 45, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
53 2 0.01
54 206 0.98
55 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (54 bp):
CCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTAC
Found at i:30554158 original size:81 final size:81
Alignment explanation
Indices: 30553952--30554149 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 81
30553942 CTCAATTTGT
*
30553952 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAT
* *
30554017 TTTACCCTCTATTTAT
66 TTTACCCTCGATTTAC
* *** * * * * *
30554033 AGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAT
30554098 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *
30554114 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACC
30554150 AAAATACCCC
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCAT
TTTACCCTCGATTTAC
Found at i:30554265 original size:54 final size:54
Alignment explanation
Indices: 30553919--30554323 Score: 189
Period size: 54 Copynumber: 7.5 Consensus size: 54
30553909 GAATACTTTA
* * ** * *
30553919 GTTTACCAAATTACTAAAATGTCCTCAATTTGTAAAATTACCAAAGTA-CCCTCG
1 GTTTACAAAATTACCAAAATACCCTCAATTTGAAAAATTACCAAAATACCCCT-G
* **** ***
30553973 ATTTACAAAATTACCGTTTTACCCTCAATTT-ACAAAATTACCATTTTACCCTCT-
1 GTTTACAAAATTACCAAAATACCCTCAATTTGA-AAAATTACCAAAATACCC-CTG
* * * *** * ****
30554027 ATTTATAGAATTACCATTTTACCCTCAATTT-ACAGAATTACCGTTTTA-CCCTCG
1 GTTTACAAAATTACCAAAATACCCTCAATTTGA-AAAATTACCAAAATACCCCT-G
* * **** * * *
30554081 ATTTACAGAATTACCGTTTTACCCTCGATTT-ACAAAATTACTAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCTCAATTTGA-AAAATTACCAAAATACCCCTG
* * **
30554135 GTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACTACTG
1 GTTTACAAAATTACCAAAATACCCTC-AATTTGAAAAATTACCAAAATACCCCTG
*** *
30554189 GTTTGTGAAATTACCAAAATACCCTCAATTTGAAAAATTACCAAAATACCCCTA
1 GTTTACAAAATTACCAAAATACCCTCAATTTGAAAAATTACCAAAATACCCCTG
* * * * * **
30554243 ATTTACAAAATTA-CAAACATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTG
1 GTTTACAAAATTACCAAA-ATACCC-TCAATTT-GAAAAATTACCA-AAATACCCCTG
**
30554299 GTTTACAAAATTACTGAAATACCCT
1 GTTTACAAAATTACCAAAATACCCT
30554324 TGGTTTGTAG
Statistics
Matches: 274, Mismatches: 63, Indels: 27
0.75 0.17 0.07
Matches are distributed among these distances:
52 2 0.01
53 7 0.03
54 214 0.78
55 13 0.05
56 36 0.13
57 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCTCAATTTGAAAAATTACCAAAATACCCCTG
Found at i:30554317 original size:27 final size:27
Alignment explanation
Indices: 30554278--30554329 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30554268 TGACTTTCTA
30554278 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
30554305 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
30554330 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:30554439 original size:27 final size:27
Alignment explanation
Indices: 30554370--30554446 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
30554360 AAATGACTAA
*
30554370 AATACCCCTA-ATAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* * * * *
30554397 AA-AGCCCTGTAGGGTAAAGTGACTGT
1 AATACCCCTATATGGTAAAATGACCGT
30554423 AATACCCCTATATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
30554447 GAATATACCC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 18 0.47
27 20 0.53
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:30555209 original size:25 final size:25
Alignment explanation
Indices: 30555171--30555240 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
30555161 AGGATGTGCT
* *
30555171 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
30555196 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
30555221 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
30555241 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:30555253 original size:24 final size:24
Alignment explanation
Indices: 30555170--30555265 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
30555160 GAGGATGTGC
*
30555170 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
30555195 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
30555219 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
30555243 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
30555266 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:30555264 original size:50 final size:50
Alignment explanation
Indices: 30555171--30555265 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
30555161 AGGATGTGCT
**
30555171 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
30555221 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
30555266 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:30557933 original size:40 final size:39
Alignment explanation
Indices: 30557888--30558017 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
30557878 CGGAATACAA
30557888 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
30557928 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
30557968 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
30558008 CCGGATATAA
1 CCGGATATAA
30558018 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:30572572 original size:27 final size:27
Alignment explanation
Indices: 30572541--30572812 Score: 348
Period size: 27 Copynumber: 10.1 Consensus size: 27
30572531 GTAGGGTAAA
* *
30572541 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
30572568 ACAGTCATTTTATCCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
30572595 ACAGTCATATTACCCTATAGGGGCATT
1 TCAGTCATTTTACCCTATAGGGGTATT
30572622 TCAGTCATTTTACCCTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
*
30572649 TCAGTCATTTTACCCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* *
30572676 TCGGTCATTTTACCTTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
30572703 TCGGTCATTTTACCTTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
*
30572730 TCAATCATTTTACCCTAT-GAGGGTATT
1 TCAGTCATTTTACCCTATAG-GGGTATT
** *
30572757 TTGGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* *
30572784 TCAGCCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
30572811 TC
1 TC
30572813 GGCCCAACAT
Statistics
Matches: 219, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
26 1 0.00
27 217 0.99
28 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (27 bp):
TCAGTCATTTTACCCTATAGGGGTATT
Found at i:30574754 original size:29 final size:29
Alignment explanation
Indices: 30574721--30574794 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30574711 GTGACGAGAT
30574721 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30574750 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30574779 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30574795 AGCTCGACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30574810 original size:29 final size:29
Alignment explanation
Indices: 30574778--30574853 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
30574768 CTGGAAATAT
* * *
30574778 ATGGCACTAAGTGTGCGAGCTCGACGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
30574807 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
30574836 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30574854 AATCGAGTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:30582630 original size:29 final size:29
Alignment explanation
Indices: 30582597--30582670 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30582587 GTGACGAGAT
30582597 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30582626 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30582655 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30582671 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30582686 original size:29 final size:29
Alignment explanation
Indices: 30582654--30582729 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
30582644 CTGGAAATAT
* *
30582654 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
30582683 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
30582712 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30582730 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:30582697 original size:58 final size:58
Alignment explanation
Indices: 30582597--30582729 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
30582587 GTGACGAGAT
* * * * * *
30582597 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
30582655 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
30582713 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
30582730 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:30586732 original size:38 final size:38
Alignment explanation
Indices: 30586681--30586759 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
30586671 ATTATGCAAC
30586681 ATGTACAATTGTAAAACCCCAAACCCGACCTAGATGTT
1 ATGTACAATTGTAAAACCCCAAACCCGACCTAGATGTT
* *
30586719 ATGTACCATTGTAAAACCCCAAACCCGGCCTAGATGTT
1 ATGTACAATTGTAAAACCCCAAACCCGACCTAGATGTT
30586757 ATG
1 ATG
30586760 GCCAAATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (38 bp):
ATGTACAATTGTAAAACCCCAAACCCGACCTAGATGTT
Found at i:30587365 original size:34 final size:34
Alignment explanation
Indices: 30587293--30587365 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
30587283 AGTAACAGTC
* *
30587293 CAGTATCAGTTTGGGCCTTAGCCCATTACAGTAT
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
* * *
30587327 CAGTATCTGTGTGGGCCTTAGCCCATTTCATTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
30587361 CAGTA
1 CAGTA
30587366 ACAGAAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:30589767 original size:44 final size:44
Alignment explanation
Indices: 30589716--30589800 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
30589706 TATGTAATCT
* *
30589716 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATGTGACAGCG
1 GAACTCATTGAGTTATGGTC-GAGTTCATGATATATATGACAGCG
*
30589760 GAACTCATTGAGTTATGGTCGAGTTCGTGATATATATGACA
1 GAACTCATTGAGTTATGGTCGAGTTCATGATATATATGACA
30589801 CATGTTTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (44 bp):
GAACTCATTGAGTTATGGTCGAGTTCATGATATATATGACAGCG
Found at i:30594861 original size:17 final size:19
Alignment explanation
Indices: 30594819--30594862 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30594809 ATGAAATTTT
*
30594819 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
30594838 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
30594856 AA-TATTA
1 AATTATTA
30594863 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:30599132 original size:17 final size:19
Alignment explanation
Indices: 30599090--30599133 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30599080 ATGAAATTTT
*
30599090 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
30599109 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
30599127 AA-TATTA
1 AATTATTA
30599134 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:30602882 original size:30 final size:31
Alignment explanation
Indices: 30602846--30602914 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
30602836 TATCGTATCT
30602846 TGGGTTTCTT-TAT-TCTAGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TAGATTTCTTTATTC
*
30602876 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTAGATTTCTTTATTC
*
30602906 -GGTTTTCTT
1 TGGGTTTCTT
30602915 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.10, C:0.13, G:0.16, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTAGATTTCTTTATTC
Found at i:30604504 original size:49 final size:48
Alignment explanation
Indices: 30604430--30604573 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 48
30604420 GCCGAAGCTA
* *
30604430 TCTGGTA-AGCATAGTATCCTGCACTTAGTACTACACATGCGACCAATAG
1 TCTGGTACA-CATAGTAGCCTACACTTAGTACTACACATGCGACCAAT-G
* * *
30604479 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGATCACAGTT
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGA-C-CAATG
* * * *
30604529 TTTGGGTACGCATATTAGACTACACTTAGTACTACACATGCGACC
1 TCT-GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACC
30604574 TCAGAATAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.47
50 5 0.06
51 38 0.47
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATG
Found at i:30608566 original size:43 final size:43
Alignment explanation
Indices: 30608511--30608665 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
30608501 ATATCGTACA
* *
30608511 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
30608554 ATGCCACTGTCCCAGATAGGGTCTTACATG-AATCA-A-ATCCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * *
30608595 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAATCACATATTG
1 ATG-CCACTGTCCCAGACATGGTCTTACATGTAATCACATATCG
30608638 ATGCCAAC-GTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
30608666 CGAGAACACA
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.02
41 26 0.27
42 13 0.14
43 52 0.55
44 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:30616628 original size:56 final size:56
Alignment explanation
Indices: 30616539--30616645 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 56
30616529 CATGGCATCA
* *
30616539 ATATATGTGTGCGAGTAAGACCCTGTTTAGGACAGTTGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGACTCCG
*
30616595 ATATATGTGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA
1 ATATATGTGTGCGAGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGA
30616646 TTACATGTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGACTCCG
Found at i:30618781 original size:17 final size:18
Alignment explanation
Indices: 30618759--30618792 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30618749 CACATTGAAG
30618759 TGTTTT-ATGGAAAACCT
1 TGTTTTCATGGAAAACCT
*
30618776 TGTTTTCATTGAAAACC
1 TGTTTTCATGGAAAACC
30618793 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCATGGAAAACCT
Found at i:30621298 original size:29 final size:29
Alignment explanation
Indices: 30621237--30621325 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 29
30621227 ACATACATGT
* *
30621237 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
30621265 ATATGGTCCATTGGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* * *
30621294 GTATGGCCCATTAGGCTCAAATCACATAC
1 ATATGGCCCATTAGGCCCAAATCACATTC
30621323 ATA
1 ATA
30621326 GTCATGCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Done.