Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 121 of 259
Found at i:39074781 original size:20 final size:21
Alignment explanation
Indices: 39074756--39074803 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
39074746 TATAATTATT
*
39074756 TAATTAATAAATATCT-TTTA
1 TAATTAATAAATATCTATTAA
39074776 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATCTATTAA
39074797 TAATTAA
1 TAATTAA
39074804 ATACATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATCTATTAA
Found at i:39075909 original size:50 final size:50
Alignment explanation
Indices: 39075809--39075911 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 50
39075799 ATACAAAAAC
* * * * **
39075809 AAAATTATATATAAGTATAATTCATTGATAAAAGAATAAGTGGTGCTATG
1 AAAATTATATACAAATATAAGTCATTGATAAAAGAATAAGTGCTAATATG
39075859 AAAATTATATACAAATATAAGTCATTGATAAAAGAATAAGCT-CTAATATG
1 AAAATTATATACAAATATAAGTCATTGATAAAAGAATAAG-TGCTAATATG
39075909 AAA
1 AAA
39075912 TAAACCTGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (50 bp):
AAAATTATATACAAATATAAGTCATTGATAAAAGAATAAGTGCTAATATG
Found at i:39078915 original size:47 final size:47
Alignment explanation
Indices: 39078864--39079210 Score: 559
Period size: 47 Copynumber: 7.4 Consensus size: 47
39078854 GATGTACAAG
* * *
39078864 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
39078911 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
39078958 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
39079005 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
39079052 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
39079099 GTTTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
39079146 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
39079193 GTGAATAAATGTGATAAG
1 GTGTATATATGTGATAAG
39079211 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 282 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:39078947 original size:22 final size:22
Alignment explanation
Indices: 39078919--39079041 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
39078909 AAGTGTGTAT
39078919 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
39078941 ATGTGATGAATG-TGAAAGTGTG-TA
1 ATGTGAT-AAGGCCG-AA-TG-GCCA
*
39078965 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
39078988 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
39079012 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
39079035 ATGTGAT
1 ATGTGAT
39079042 GAATGTGAAA
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 23 0.32
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:39081399 original size:40 final size:40
Alignment explanation
Indices: 39081069--39081387 Score: 548
Period size: 40 Copynumber: 8.0 Consensus size: 40
39081059 CAGTATGTTA
*
39081069 TATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
39081109 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
39081149 TATCTGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
39081189 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
39081229 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
39081269 TATCCGGACTAGGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* **
39081309 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
39081349 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAT
39081388 ATACCAGGGC
Statistics
Matches: 262, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 262 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:39082834 original size:40 final size:40
Alignment explanation
Indices: 39082752--39083008 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
39082742 AAGCCAAGTA
* * * *
39082752 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
39082790 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39082830 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39082870 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39082910 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
39082950 CCTTCGGGACTTAACCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39082990 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39083009 TTATCATCCG
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 168 0.85
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39084011 original size:39 final size:40
Alignment explanation
Indices: 39083956--39084060 Score: 169
Period size: 39 Copynumber: 2.7 Consensus size: 40
39083946 GGCTGTCACA
*
39083956 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATTTA-CCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCG
*
39083995 GGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCG
*
39084035 GGCTAAGCCCCGAAG-GCATTCGTGCT
1 GGCTAAGTCCCGAAGAGCATTCGTGCT
39084061 TGGACAAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 45 0.74
40 16 0.26
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCG
Found at i:39085887 original size:31 final size:31
Alignment explanation
Indices: 39085852--39085915 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
39085842 CAACAAGACC
39085852 CATGTGAAAATTTTTGTGTTCATGAAGCATG
1 CATGTGAAAATTTTTGTGTTCATGAAGCATG
39085883 CATGTGAAAATTTTTGTGTTCATGAAGCATG
1 CATGTGAAAATTTTTGTGTTCATGAAGCATG
39085914 CA
1 CA
39085916 GCAATCGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (31 bp):
CATGTGAAAATTTTTGTGTTCATGAAGCATG
Found at i:39088089 original size:47 final size:47
Alignment explanation
Indices: 39088038--39088384 Score: 550
Period size: 47 Copynumber: 7.4 Consensus size: 47
39088028 GATGTACAAG
* * *
39088038 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
39088085 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
39088132 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
39088179 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
39088226 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
39088273 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
39088320 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
39088367 GTGAATAAATGTGATAAG
1 GTGTATATATGTGATAAG
39088385 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 280 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:39104946 original size:94 final size:94
Alignment explanation
Indices: 39104799--39104971 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
39104789 ACAATCGAGA
* * ** ** *
39104799 AGTACCTATACCTTAGTCCGTAGCCAAATCAAGGTAACTTTTCCTGGAGTACCTATACCACGGCC
1 AGTACCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCCTCCTAAAATACCTATACCACGGCC
39104864 CGTAGCCAAATCAAGGTAACTTATCCCGG
66 CGTAGCCAAATCAAGGTAACTTATCCCGG
* * ** *
39104893 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTTAAAATACCTATGTCATGGCC
1 AGTACCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCCTCCTAAAATACCTATACCACGGCC
*
39104958 TGTAGCCAAATCAA
66 CGTAGCCAAATCAA
39104972 TGTATTATTC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 66 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (94 bp):
AGTACCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCCTCCTAAAATACCTATACCACGGCC
CGTAGCCAAATCAAGGTAACTTATCCCGG
Found at i:39104971 original size:47 final size:47
Alignment explanation
Indices: 39104799--39104931 Score: 212
Period size: 47 Copynumber: 2.8 Consensus size: 47
39104789 ACAATCGAGA
* * * *
39104799 AGTACCTATACCTTAGTCCGTAGCCAAATCAAGGTAACTTTTCCTGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
* *
39104846 AGTACCTATACCACGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
39104893 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT
39104932 CCTCTTAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGG
Found at i:39109477 original size:49 final size:49
Alignment explanation
Indices: 39109403--39109564 Score: 225
Period size: 49 Copynumber: 3.3 Consensus size: 49
39109393 TGAGGTCACG
*
39109403 TGTGTAGTACTAAGTGCAGGATACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
* * ** * * *
39109452 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TT-GGTCGCA
*
39109503 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
39109552 TGTGTAGTACTAA
1 TGTGTAGTACTAA
39109565 AATAGGCTAC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 52 0.55
50 4 0.04
51 39 0.41
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
Found at i:39112006 original size:25 final size:25
Alignment explanation
Indices: 39111978--39112032 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
39111968 TACTGTTCAG
*
39111978 TTCTGTT-TAGTTTTACTCTATTCTA
1 TTCTGTTAT-GTTTTACTCTATCCTA
* *
39112003 TTCTGTTATGTTTTGCTCTGTCCTA
1 TTCTGTTATGTTTTACTCTATCCTA
39112028 TTCTG
1 TTCTG
39112033 GTTGGGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (25 bp):
TTCTGTTATGTTTTACTCTATCCTA
Found at i:39112558 original size:16 final size:16
Alignment explanation
Indices: 39112537--39112586 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
39112527 GTTTGGTTTA
*
39112537 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
39112553 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
39112569 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
39112585 CT
1 CT
39112587 TTTGGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:39123417 original size:27 final size:27
Alignment explanation
Indices: 39123386--39123563 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
39123376 TAAATTGTAC
39123386 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
39123413 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39123439 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
39123467 GGCACTAAGTGTGCGAGTTTGACTATGA
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
39123495 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39123522 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39123549 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39123564 GACTCGATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39123500 original size:82 final size:81
Alignment explanation
Indices: 39123387--39123542 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39123377 AAATTGTACA
**
39123387 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGAAGCACTAAGTGTGCAAAATGAATATGTA-GCACTAAGTG
39123451 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39123468 GCACTAAGTGTGCGAGTTTGACTATGAAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGAAGCACTAAGTGTGCAAAATGAATATGTAGCACTAAGTG
*
39123533 TGCGAGTTGA
65 TGCGAATTGA
39123543 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGAAGCACTAAGTGTGCAAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39123554 original size:82 final size:81
Alignment explanation
Indices: 39123383--39123563 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
39123373 GATTAAATTG
**
39123383 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGAAGCACTAAGTGTGCAAAATGAATATGATGCACTAA
39123448 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
39123464 TGCGGCACTAAGTGTGCGAGTTTGACTATGAAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGAAGCACTAAGTGTGCAAAATGAATATGAT-GCACT
* **
39123528 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39123546 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39123564 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGAAGCACTAAGTGTGCAAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39127074 original size:13 final size:13
Alignment explanation
Indices: 39127056--39127084 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39127046 GCGCAAGGGC
39127056 GGGTGGAGGTCTA
1 GGGTGGAGGTCTA
39127069 GGGTGGAGGTCTA
1 GGGTGGAGGTCTA
39127082 GGG
1 GGG
39127085 CCAGCAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.59, T:0.21
Consensus pattern (13 bp):
GGGTGGAGGTCTA
Found at i:39141541 original size:93 final size:93
Alignment explanation
Indices: 39141430--39141601 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
39141420 GCCCCTAAGT
* * *
39141430 GAACTCGGAATCAACTCAACGAGCTCGGGCGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39141495 CGAGTTCGGATGCTTAGTTACATTTCAC
66 CGAGTTCGGATGCTTAGTTACATTTCAC
*
39141523 GAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGAA-TCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39141587 ACGAGTTCGGATGCT
65 ACGAGTTCGGATGCT
39141602 CAACCATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCTTAGTTACATTTCAC
Found at i:39141597 original size:46 final size:45
Alignment explanation
Indices: 39141425--39141597 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
39141415 AACCCGCCCC
* * * *
39141425 TAAGTGAACTCGGAATCAACTCAACGAGCTCGGGCGTTCTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCATCCA
* * *
39141471 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCGCATCCA
* * *
39141517 TTTCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCATCCA
39141564 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39141598 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.03
46 65 0.62
47 33 0.32
48 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCATCCA
Found at i:39142055 original size:30 final size:30
Alignment explanation
Indices: 39142021--39142080 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
39142011 ATTTAATACG
39142021 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* ***
39142051 AACTTTTGCCTAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
39142081 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:39149132 original size:93 final size:93
Alignment explanation
Indices: 39149020--39149190 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
39149010 CGCCCTAAGT
* * * *
39149020 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCTCATCCATAAGTGAACTTGGACTCAGCTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39149084 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
39149113 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
39149178 TGAGTTCGGATGC
66 CGAGTTCGGATGC
39149191 TCAACCCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:39149173 original size:46 final size:46
Alignment explanation
Indices: 39149015--39149187 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
39149005 TAACCCGCCC
* * *
39149015 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACATCCA
* * *
39149061 TAAGTGAACTTGGACTCAGCTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
39149109 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
39149154 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39149188 TGCTCAACCC
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 56 0.55
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:39149646 original size:30 final size:30
Alignment explanation
Indices: 39149612--39149671 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
39149602 ATTTAATACG
39149612 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* ***
39149642 AACTTTTGCCTAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
39149672 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:39161182 original size:541 final size:541
Alignment explanation
Indices: 39160160--39161242 Score: 2069
Period size: 541 Copynumber: 2.0 Consensus size: 541
39160150 GAGAAGAGGC
*
39160160 TTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCAGGACCGCTAAACCGAGTCACCAA
1 TTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACCGCTAAACCGAGTCACCAA
39160225 ATTACTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAAGCTT
66 ATTACTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAAGCTT
39160290 CGATTTAGTAAATTGCATGTGAAATTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGAT
131 CGATTTAGTAAATTGCATGTGAAATTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGAT
*
39160355 AGGTTAATCTATGAGGATCTATTAGTGCATGTAGTCAAAAGGGTGGACTTGCATGTCAATTTCCC
196 AGGTTAATCTATGAGGACCTATTAGTGCATGTAGTCAAAAGGGTGGACTTGCATGTCAATTTCCC
39160420 CCATTTAATTACTAGTGGCCGGCCATGACAAAGGGTGATGGGCAAAACATGTCATAAAACATGTT
261 CCATTTAATTACTAGTGGCCGGCCATGACAAAGGGTGATGGGCAAAACATGTCATAAAACATGTT
39160485 GTGATAATGGTTTATGTTAGAAAAAAATAAAATAAGGAGTATGGGCAATAAAATAATAATGGGAA
326 GTGATAATGGTTTATGTTAGAAAAAAATAAAATAAGGAGTATGGGCAATAAAATAATAATGGGAA
* *
39160550 GGTAAATGCTGACAAAAAAAATGTGTGTGGTTGCCCCCCCATTGCCGTGAATTGAAAAAAAAGAA
391 GGTAAATGATGACAAAAAAAATGTGTGTGGTTGCCCCCCCATTGCAGTGAATTGAAAAAAAAGAA
*
39160615 AAGAAATAAGTTCTCATGTTGTTCTTGGCCGAATGGGAGAAAGAGAAGAAGGGGGAAGAGCTTTG
456 AAGAAAGAAGTTCTCATGTTGTTCTTGGCCGAATGGGAGAAAGAGAAGAAGGGGGAAGAGCTTTG
39160680 AGAAAATCGGCTATGGTGGGT
521 AGAAAATCGGCTATGGTGGGT
*
39160701 TTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCAGTTTCGGGACCGCTAAACCGAGTCACCAA
1 TTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACCGCTAAACCGAGTCACCAA
*
39160766 ATTACTTGAATATGATATTTATTGTCTAAAATATTTGATTATGAATGTGTGAAAGTTTTAAGCTT
66 ATTACTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAAGCTT
39160831 CGATTTAGTAAATTGCATGTGAAATTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGAT
131 CGATTTAGTAAATTGCATGTGAAATTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGAT
*
39160896 AGGTTAATCTATGAGGACCTATTAGTGCATGTAGTCAAAGGGGTGGACTTGCATGTCAATTTCCC
196 AGGTTAATCTATGAGGACCTATTAGTGCATGTAGTCAAAAGGGTGGACTTGCATGTCAATTTCCC
39160961 CCATTTAATTACTAGTGGCCGGCCATGACAAAGGGTGATGGGCAAAACATGTCATAAAACATGTT
261 CCATTTAATTACTAGTGGCCGGCCATGACAAAGGGTGATGGGCAAAACATGTCATAAAACATGTT
39161026 GTGATAATGGTTTATGTTAGAAAAAAATAAAATAAGGAGTATGGGCAATAAAATAATAATGGGAA
326 GTGATAATGGTTTATGTTAGAAAAAAATAAAATAAGGAGTATGGGCAATAAAATAATAATGGGAA
*
39161091 GGTAAATGATGACAAAAAAAATGTGTGTGGTTTCCCCCCCATTGCAGTGAATTG-AAAAAAAGAA
391 GGTAAATGATGACAAAAAAAATGTGTGTGGTTGCCCCCCCATTGCAGTGAATTGAAAAAAAAG-A
39161155 AAAGAAAGAAGTTCTCATGTTGTTCTTGGCCGAATGGGAGAAAGAGAAGAAGGGGGAAGAGCTTT
455 AAAGAAAGAAGTTCTCATGTTGTTCTTGGCCGAATGGGAGAAAGAGAAGAAGGGGGAAGAGCTTT
39161220 GAGAAAATCGGCTATGGTGGGT
520 GAGAAAATCGGCTATGGTGGGT
39161242 T
1 T
39161243 GCTAGACTAA
Statistics
Matches: 532, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
540 8 0.02
541 524 0.98
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (541 bp):
TTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCAGTTTCAGGACCGCTAAACCGAGTCACCAA
ATTACTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAAGCTT
CGATTTAGTAAATTGCATGTGAAATTAGTCAATAGGACTTATGTGTGACACTTTTGAAATGTGAT
AGGTTAATCTATGAGGACCTATTAGTGCATGTAGTCAAAAGGGTGGACTTGCATGTCAATTTCCC
CCATTTAATTACTAGTGGCCGGCCATGACAAAGGGTGATGGGCAAAACATGTCATAAAACATGTT
GTGATAATGGTTTATGTTAGAAAAAAATAAAATAAGGAGTATGGGCAATAAAATAATAATGGGAA
GGTAAATGATGACAAAAAAAATGTGTGTGGTTGCCCCCCCATTGCAGTGAATTGAAAAAAAAGAA
AAGAAAGAAGTTCTCATGTTGTTCTTGGCCGAATGGGAGAAAGAGAAGAAGGGGGAAGAGCTTTG
AGAAAATCGGCTATGGTGGGT
Found at i:39162480 original size:40 final size:40
Alignment explanation
Indices: 39162422--39162638 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
39162412 CGGATGATAA
* * * *
39162422 CCGGGCTAAGTCCTGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
39162462 CCGGGCTAAGTCCCGAAGGCATTTGTGCGACTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39162502 CCGGGCTAAGTCCCGAAGTCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39162542 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39162582 CCGGGC-AATGTCCCGAAAGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39162621 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39162639 TACTTGGCTT
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 12 0.08
39 19 0.12
40 124 0.80
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39168778 original size:40 final size:40
Alignment explanation
Indices: 39168695--39168917 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
39168685 TTGAATGCTG
* * * * *
39168695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
39168735 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
39168775 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
39168815 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
39168855 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
39168894 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39168918 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:39168832 original size:80 final size:79
Alignment explanation
Indices: 39168695--39168919 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
39168685 TTGAATGCTG
* * * * * *
39168695 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
39168758 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
39168775 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
39168840 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
39168855 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
39168919 G
65 G
39168920 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:39168937 original size:79 final size:80
Alignment explanation
Indices: 39168770--39168952 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
39168760 GTGCGAGATA
** *
39168770 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
39168835 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
39168850 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
39168914 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
39168929 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
39168953 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:39168937 original size:119 final size:120
Alignment explanation
Indices: 39168695--39168952 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
39168685 TTGAATGCTG
* * * * *
39168695 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
39168760 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
39168815 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
39168877 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
39168934 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39168953 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:39191789 original size:21 final size:20
Alignment explanation
Indices: 39191761--39191800 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
39191751 CAAAACTTGT
39191761 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
39191781 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
39191801 AAATCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:39201485 original size:25 final size:25
Alignment explanation
Indices: 39201421--39201501 Score: 153
Period size: 25 Copynumber: 3.2 Consensus size: 25
39201411 TTCACAAGGT
39201421 CGTGTAACACGCCCGTGTCTAAAGC
1 CGTGTAACACGCCCGTGTCTAAAGC
39201446 CGTGTTAACACGCCCGTGTCTAAAGC
1 CGTG-TAACACGCCCGTGTCTAAAGC
39201472 CGTGTAACACGCCCGTGTCTAAAGC
1 CGTGTAACACGCCCGTGTCTAAAGC
39201497 CGTGT
1 CGTGT
39201502 TAACCACACA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 30 0.55
26 25 0.45
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (25 bp):
CGTGTAACACGCCCGTGTCTAAAGC
Found at i:39202517 original size:32 final size:32
Alignment explanation
Indices: 39202476--39202541 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
39202466 AGGGCACTTA
39202476 ATCAAGGAAAACACTCTCAAGCCACATATCAT
1 ATCAAGGAAAACACTCTCAAGCCACATATCAT
* *
39202508 ATCAAGGAAAACATTCTCGAGCCACATATCAT
1 ATCAAGGAAAACACTCTCAAGCCACATATCAT
39202540 AT
1 AT
39202542 AACAGGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (32 bp):
ATCAAGGAAAACACTCTCAAGCCACATATCAT
Found at i:39206179 original size:40 final size:40
Alignment explanation
Indices: 39206134--39206958 Score: 1391
Period size: 40 Copynumber: 20.6 Consensus size: 40
39206124 CAAGCTCAAT
* * * *
39206134 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* *
39206174 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAA-TTCGCACAAA
*
39206214 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
** * * *
39206254 CACCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
39206294 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
39206334 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* *
39206374 TGCCTTCGGGTCTTAGCCCGGTTATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* *
39206414 TGCCTTCAGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206454 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* *
39206494 TGCCTTTGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206534 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* * *
39206574 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCAGAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206614 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
39206654 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206694 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206734 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206774 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* *
39206814 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206854 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
39206894 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
39206934 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATAT
39206959 CATTCAAATG
Statistics
Matches: 743, Mismatches: 40, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 740 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
Found at i:39211639 original size:42 final size:42
Alignment explanation
Indices: 39211492--39211694 Score: 165
Period size: 42 Copynumber: 4.7 Consensus size: 42
39211482 AAATGCCAAA
* *
39211492 GCCATGTCCCAAACATGGTCTTACATG-GGTCTACATATCAAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGTCT-CATATCAAT
* * * * * *
39211534 GCCATATCCTAGATATGGTCTTATATGAAGTCTCATGTCGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGTCTCA--T--AT--CAAT
* * *
39211582 GCCATGTCCCTGACATGGTCTTACATGAGGTCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGTCTCATATCAAT
** *
39211624 GCCATGTCCCAGACATGGTCTTACACAAAATCTCATATCAAT
1 GCCATGTCCCAGACATGGTCTTACATGAAGTCTCATATCAAT
* * * * *
39211666 GCCATATCACAGATATGATCTTACTTGAA
1 GCCATGTCCCAGACATGGTCTTACATGAA
39211695 ATTACATACC
Statistics
Matches: 126, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
42 86 0.68
43 4 0.03
44 2 0.02
46 2 0.02
48 32 0.25
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAAGTCTCATATCAAT
Found at i:39211658 original size:90 final size:90
Alignment explanation
Indices: 39211492--39211659 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 90
39211482 AAATGCCAAA
* *
39211492 GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGCCATATCCTAGATATGGTCTTA
1 GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGCCATATCCCAGACATGGTCTTA
* ** *
39211557 TATGAAGTCTCATGTCGGTGCCGAT
66 CACAAAATCTCATGTCGGTGCCGAT
** * *
39211582 GCCATGTCCCTGACATGGTCTTACATGAGGTCT-CATATCGATGCCATGTCCCAGACATGGTCTT
1 GCCATGTCCCAAACATGGTCTTACATG-GGTCTACATATCAATGCCATATCCCAGACATGGTCTT
39211646 ACACAAAATCTCAT
65 ACACAAAATCTCAT
39211660 ATCAATGCCA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
90 62 0.93
91 5 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (90 bp):
GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGCCATATCCCAGACATGGTCTTA
CACAAAATCTCATGTCGGTGCCGAT
Found at i:39211732 original size:132 final size:132
Alignment explanation
Indices: 39211492--39211738 Score: 295
Period size: 132 Copynumber: 1.9 Consensus size: 132
39211482 AAATGCCAAA
**** *
39211492 GCCATGTCCCAAACATGGTCTTACATGGGTCTACATATCAATGCCATATCCTAGATATGGTCTTA
1 GCCATGTCCCAAACATGGTCTTACAAAAATCTACATATCAATGCCATATCCTAGATATGATCTTA
* ** * **
39211557 TATGAAGTCTCATGTCGGTGCCGATGCCATGTCCCTGACATGGTCTTACATGAGGTCTCATATCG
66 TATGAAATCTCATACCGGTGCCGATGCCATATCCCAAACATGGTCTTACATGAGGTCTCATATCG
39211622 AT
131 AT
*
39211624 GCCATGTCCCAGACATGGTCTTACACAAAATCT-CATATCAATGCCATATCAC-AGATATGATCT
1 GCCATGTCCCAAACATGGTCTTACA-AAAATCTACATATCAATGCCATATC-CTAGATATGATCT
** *
39211687 TACT-TGAAAT-TACATACCGGTGTTGATGCCATATCCCAAATATGGTCTTACA
64 TA-TATGAAATCT-CATACCGGTGCCGATGCCATATCCCAAACATGGTCTTACA
39211739 CTGGCACACA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
131 1 0.01
132 90 0.94
133 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
GCCATGTCCCAAACATGGTCTTACAAAAATCTACATATCAATGCCATATCCTAGATATGATCTTA
TATGAAATCTCATACCGGTGCCGATGCCATATCCCAAACATGGTCTTACATGAGGTCTCATATCG
AT
Found at i:39211762 original size:48 final size:48
Alignment explanation
Indices: 39211710--39211834 Score: 196
Period size: 48 Copynumber: 2.6 Consensus size: 48
39211700 ATACCGGTGT
* *
39211710 TGATGCCATATCCCAAATATGGTCTTACACTGGCACACATATCAACAC
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACAC
* * *
39211758 TGATGCCATGTCCTAGACATGGCCTTACACTGGCACACATATCAACAC
1 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACAC
*
39211806 CGATGCCATGTCCCAAACATGGTCTTACA
1 TGATGCCATGTCCCAAACATGGTCTTACA
39211835 TTAGCTCTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (48 bp):
TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAACAC
Found at i:39225487 original size:40 final size:38
Alignment explanation
Indices: 39225377--39225487 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 38
39225367 ACATAACACC
* * *
39225377 AGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACA
1 AGCACTAAGCCTACGGG-CTTT-AACCCGGATATAATACA
* * * * *
39225417 AGCACTAGGCCTGCGGGATTTAACCCGGATATAATTCT
1 AGCACTAAGCCTACGGGCTTTAACCCGGATATAATACA
39225455 AGCA-TAAAGCCTACGGGTCTTTAAGCCCGGATA
1 AGCACT-AAGCCTACGGG-CTTTAA-CCCGGATA
39225488 CATATCAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
37 1 0.02
38 26 0.46
39 8 0.14
40 22 0.39
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (38 bp):
AGCACTAAGCCTACGGGCTTTAACCCGGATATAATACA
Found at i:39229841 original size:56 final size:58
Alignment explanation
Indices: 39229772--39229881 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
39229762 GTGCCCACTG
*
39229772 ACCGATCTTGCACACAT-GTGCTCGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTTGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* *
39229828 ACCGAT-TTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCTT-GCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
39229882 TAATCATTCG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
55 2 0.04
56 14 0.29
57 10 0.21
58 22 0.46
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (58 bp):
ACCGATCTTGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:39231774 original size:38 final size:39
Alignment explanation
Indices: 39231626--39231775 Score: 139
Period size: 38 Copynumber: 3.9 Consensus size: 39
39231616 CGAGGTATAA
* * *
39231626 AACCCAAACATAACACCAGCAT-GAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCATAGAAGCCTACGGGA-TTT
* * *
39231665 AAACTCAGATATAATACCAGCACTAG--GCCTGCGAGATTT
1 -AACCCAGATATAATACCAGCA-TAGAAGCCTACGGGATTT
* * *
39231704 AACCCGGATACAATACCAGCA-CGAAGCCTACGGGATTT
1 AACCCAGATATAATACCAGCATAGAAGCCTACGGGATTT
* *
39231742 AACCCAGATATAATTCCAGCATAG-AGCTTACGGG
1 AACCCAGATATAATACCAGCATAGAAGCCTACGGG
39231776 TCTTTAAGCC
Statistics
Matches: 88, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
36 1 0.01
38 56 0.64
39 4 0.05
40 25 0.28
41 1 0.01
42 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
AACCCAGATATAATACCAGCATAGAAGCCTACGGGATTT
Found at i:39231788 original size:78 final size:78
Alignment explanation
Indices: 39231640--39231793 Score: 197
Period size: 78 Copynumber: 2.0 Consensus size: 78
39231630 CAAACATAAC
* * *
39231640 ACCAGCATGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGCGAGATTTA
1 ACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAGGCCTACGAGATTTA
39231705 ACCCGGATACAAT
66 ACCCGGATACAAT
* * * *
39231718 ACCAGCACGAAGCCTACGGGA-TTT-AACCCAGATATAATTCCAGCA-TAGAGCTTACGGGTCTT
1 ACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAG-GCCTACGAG-ATT
39231780 TAAGCCCGGATACA
64 TAA-CCCGGATACA
39231794 CATCAAATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
75 3 0.05
76 25 0.38
77 8 0.12
78 30 0.45
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (78 bp):
ACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAGGCCTACGAGATTTA
ACCCGGATACAAT
Found at i:39241127 original size:43 final size:44
Alignment explanation
Indices: 39241066--39241148 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
39241056 TCACCTGATA
* *
39241066 AAAAAAAGAAGTCAGTAGCT-CTTTCATGCCATCCCATGCATGG
1 AAAAAAAGAAATCAGTAGCTCCTTTAATGCCATCCCATGCATGG
* * * *
39241109 AAAAAGAGAAATCCGTAGCTCCTTTAATGTCGTCCCATGC
1 AAAAAAAGAAATCAGTAGCTCCTTTAATGCCATCCCATGC
39241149 GTGCTTGTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (44 bp):
AAAAAAAGAAATCAGTAGCTCCTTTAATGCCATCCCATGCATGG
Found at i:39241386 original size:27 final size:29
Alignment explanation
Indices: 39241341--39241400 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
39241331 AGAACATATG
39241341 AAAAATATGTAATAGACTAAGACACA-TT
1 AAAAATATGTAATAGACTAAGACACATTT
* * * *
39241369 AAAATTATGTACTA-ACTATGACATATTT
1 AAAAATATGTAATAGACTAAGACACATTT
39241397 AAAA
1 AAAA
39241401 CATACATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAAATATGTAATAGACTAAGACACATTT
Found at i:39247870 original size:29 final size:27
Alignment explanation
Indices: 39247852--39247921 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
39247842 ATATTAAGTC
39247852 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
39247879 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
39247907 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
39247922 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:39247915 original size:28 final size:28
Alignment explanation
Indices: 39247852--39247949 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
39247842 ATATTAAGTC
*
39247852 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
39247879 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39247907 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39247936 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39247950 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39251584 original size:95 final size:94
Alignment explanation
Indices: 39251421--39251727 Score: 336
Period size: 95 Copynumber: 3.3 Consensus size: 94
39251411 AAACTATTAA
* *
39251421 AGTCTGCCAGGACTTTAAACATGGG--GT-TTGTGTAAGACCATAGCTCGATTATGGCAGCATAT
1 AGTCTGCCAGGACATTAAACATGGGTTATATTGTGTAAGACCATAGCTCGATTATGGCAGCATAT
* * *
39251483 GAAGTCCATCGAGACAATGAGCATGGGAT
66 GAAGTCCATCGAGACAATAAACACGGGAT
* * *
39251512 AGTCTGCCAGGACGTTAAACATGGAGTTATATTGTGTAAGACCATATCTTGATTATGGCAGCATA
1 AGTCTGCCAGGACATTAAACATGG-GTTATATTGTGTAAGACCATAGCTCGATTATGGCAGCATA
* * * *
39251577 TGGAGTCCATTGGGACAATAAACACGGGGT
65 TGAAGTCCATCGAGACAATAAACACGGGAT
* * * *
39251607 AGCCTGCAAGGACATTAAACATGGGGTTATATTGTGTAAGACCATAGCTCGACTATGGCATCATA
1 AGTCTGCCAGGACATTAAACAT-GGGTTATATTGTGTAAGACCATAGCTCGATTATGGCAGCATA
* *** * *
39251672 TGAATTTTGTCGGGACAATAAACATGGGGA-
65 TGAAGTCCATCGAGACAATAAACA-CGGGAT
* *
39251702 AGTTTGCCAGGA-TTTAAACATGGGTT
1 AGTCTGCCAGGACATTAAACATGGGTT
39251728 TACGTTGCAA
Statistics
Matches: 180, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
91 23 0.13
92 1 0.01
93 5 0.03
94 9 0.05
95 137 0.76
96 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (94 bp):
AGTCTGCCAGGACATTAAACATGGGTTATATTGTGTAAGACCATAGCTCGATTATGGCAGCATAT
GAAGTCCATCGAGACAATAAACACGGGAT
Found at i:39254166 original size:13 final size:13
Alignment explanation
Indices: 39254148--39254174 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39254138 AATTGAAGTG
39254148 GTCTAATGGTTAA
1 GTCTAATGGTTAA
39254161 GTCTAATGGTTAA
1 GTCTAATGGTTAA
39254174 G
1 G
39254175 CACCTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (13 bp):
GTCTAATGGTTAA
Found at i:39255772 original size:24 final size:24
Alignment explanation
Indices: 39255745--39255791 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39255735 ATAATCTGTA
*
39255745 AATTTAGTGGTTTATCCCCAACCT
1 AATTTAGTGGTTTATCCACAACCT
*
39255769 AATTTGGTGGTTTATCCACAACC
1 AATTTAGTGGTTTATCCACAACC
39255792 GACATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (24 bp):
AATTTAGTGGTTTATCCACAACCT
Found at i:39259059 original size:6 final size:7
Alignment explanation
Indices: 39259032--39259057 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
39259022 CTTGAATCTC
39259032 AAACCCA
1 AAACCCA
39259039 AAACCCA
1 AAACCCA
39259046 AAACCCA
1 AAACCCA
39259053 AAACC
1 AAACC
39259058 AAACCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.42, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCA
Found at i:39259318 original size:10 final size:9
Alignment explanation
Indices: 39259277--39259323 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
39259267 AAGTTTATTT
39259277 ATAATTTAA
1 ATAATTTAA
*
39259286 A-AAATTAA
1 ATAATTTAA
* *
39259294 TTATTTTAA
1 ATAATTTAA
39259303 ATAATTTAA
1 ATAATTTAA
39259312 ATAAATTTAA
1 AT-AATTTAA
39259322 AT
1 AT
39259324 TAAGTTGGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
8 6 0.20
9 15 0.50
10 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATAATTTAA
Found at i:39261093 original size:39 final size:39
Alignment explanation
Indices: 39261050--39261133 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
39261040 ACTATCATAT
* *
39261050 TCCAAAATAATTCTGCGGTATCCTAACAACTAAGTCATC
1 TCCAAAATAATTCTGCGGTAGCCTAACAACTAAGCCATC
* * *
39261089 TCCAAAATAATTCTGTGGTAGCTTAACAACTAGGCCATC
1 TCCAAAATAATTCTGCGGTAGCCTAACAACTAAGCCATC
39261128 TCCAAA
1 TCCAAA
39261134 CCGTCATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (39 bp):
TCCAAAATAATTCTGCGGTAGCCTAACAACTAAGCCATC
Found at i:39264861 original size:40 final size:40
Alignment explanation
Indices: 39264806--39264939 Score: 227
Period size: 40 Copynumber: 3.4 Consensus size: 40
39264796 GCTCTCGATA
39264806 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
39264846 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
39264886 TAATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
39264928 T-AT-TATATCCGG
1 TAATATATATCCGG
39264940 ACTTAGAGTT
Statistics
Matches: 91, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
38 9 0.10
39 2 0.02
40 41 0.45
41 1 0.01
42 38 0.42
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:39264894 original size:42 final size:42
Alignment explanation
Indices: 39264808--39264935 Score: 224
Period size: 42 Copynumber: 3.1 Consensus size: 42
39264798 TCTCGATATA
39264808 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
39264848 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
39264890 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
39264932 ATAT
1 ATAT
39264936 CCGGACTTAG
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
40 39 0.46
41 1 0.01
42 44 0.52
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:39264954 original size:82 final size:82
Alignment explanation
Indices: 39264808--39264959 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 82
39264798 TCTCGATATA
* *
39264808 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATATCCGGCTTAAATCCCGCA
39264873 GGCTTCGTGCTGGTAAT
66 GGCTTCGTGCTGGTAAT
* *
39264890 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-AT-TATATCCGGACTTAGAGTTCCG
1 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATATCCGG-CTTA-AATCCCG
39264953 CAGGCTT
64 CAGGCTT
39264960 TGAGCTAGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
80 9 0.14
81 5 0.08
82 50 0.78
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (82 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATATCCGGCTTAAATCCCGCA
GGCTTCGTGCTGGTAAT
Found at i:39268303 original size:46 final size:46
Alignment explanation
Indices: 39268172--39268389 Score: 160
Period size: 46 Copynumber: 4.7 Consensus size: 46
39268162 ATATCTGTGT
*
39268172 CGATGCCATATCCCAGACATGGTCTTACACT-GACAC-C-TCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CACTCGTCTCG-AGGC
* * * * * *
39268218 CAATACATGTCCCGGACACGTCTTACACTGGC-TTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCGAGGC
* * * *
39268264 AGATGCATGTCCCAGACATGTCTTATACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGC
* * * ** * *
39268310 CGATGTTATGTCCCAGACAAGGTCTTACACTAGCTCTTATAAT-GTGGC
1 CGATG-CATGTCCCAGAC-ATGTCTTACACTAGCACTCGT-CTCGAGGC
39268358 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
39268390 TCACAATAAC
Statistics
Matches: 134, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 62 0.46
47 23 0.17
48 23 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGC
Found at i:39268328 original size:47 final size:46
Alignment explanation
Indices: 39268265--39268389 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 46
39268255 TCTCGAGGCA
* *
39268265 GATGCATGTCCCAGACATGTCTTATACTAGCACTCGTCTCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTAT-AAGTGGCC
* * *
39268311 GATGTTATGTCCCAGACAAGGTCTTACACTAG-CTCTTATAATGTGGCC
1 GATG-CATGTCCCAGAC-ATGTCTTACACTAGCCTCGTATAA-GTGGCC
39268359 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
39268390 TCACAATAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
45 2 0.03
46 22 0.33
47 23 0.35
48 19 0.29
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCTCGTATAAGTGGCC
Found at i:39272537 original size:27 final size:27
Alignment explanation
Indices: 39272506--39272683 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
39272496 TAAATTGTAC
39272506 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39272533 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39272559 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
39272587 GGCACTAAGTGTGTGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39272615 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39272642 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39272669 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39272684 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39272620 original size:82 final size:81
Alignment explanation
Indices: 39272507--39272662 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39272497 AAATTGTACA
* *
39272507 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39272571 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
39272588 GCACTAAGTGTGTGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39272653 TGCGAGTTGA
65 TGCGAATTGA
39272663 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39272674 original size:82 final size:81
Alignment explanation
Indices: 39272503--39272683 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
39272493 GATTAAATTG
* *
39272503 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39272568 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
39272584 TGCGGCACTAAGTGTGTGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39272648 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39272666 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39272684 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39273665 original size:405 final size:405
Alignment explanation
Indices: 39272914--39273722 Score: 1618
Period size: 405 Copynumber: 2.0 Consensus size: 405
39272904 TGATTGTAAC
39272914 GAAAATAAATTGATTTATGAAAATGCCTCAATGTCCTATTGATGAGTATATGGAATGTGAATGCA
1 GAAAATAAATTGATTTATGAAAATGCCTCAATGTCCTATTGATGAGTATATGGAATGTGAATGCA
39272979 TGAATTGATATGAAACGGAATCGATAGGTTGGAGGAACTATGGTATGGTTCGGTATGGATGGAGT
66 TGAATTGATATGAAACGGAATCGATAGGTTGGAGGAACTATGGTATGGTTCGGTATGGATGGAGT
39273044 AAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGGATGGTAGTGCATTGCT
131 AAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGGATGGTAGTGCATTGCT
39273109 TATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAGGTTGCTTGGACT
196 TATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAGGTTGCTTGGACT
39273174 CATCTATTTTTGCGGGGTCAGGTCGTCATCGAAGTCATCACACCGGATAGCAAGTTTTGGTACTT
261 CATCTATTTTTGCGGGGTCAGGTCGTCATCGAAGTCATCACACCGGATAGCAAGTTTTGGTACTT
39273239 TCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAAGCTATTACGTTGTGTTTGAACTTTG
326 TCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAAGCTATTACGTTGTGTTTGAACTTTG
39273304 GCATGTAAACTTTAT
391 GCATGTAAACTTTAT
39273319 GAAAATAAATTGATTTATGAAAATGCCTCAATGTCCTATTGATGAGTATATGGAATGTGAATGCA
1 GAAAATAAATTGATTTATGAAAATGCCTCAATGTCCTATTGATGAGTATATGGAATGTGAATGCA
39273384 TGAATTGATATGAAACGGAATCGATAGGTTGGAGGAACTATGGTATGGTTCGGTATGGATGGAGT
66 TGAATTGATATGAAACGGAATCGATAGGTTGGAGGAACTATGGTATGGTTCGGTATGGATGGAGT
39273449 AAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGGATGGTAGTGCATTGCT
131 AAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGGATGGTAGTGCATTGCT
39273514 TATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAGGTTGCTTGGACT
196 TATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAGGTTGCTTGGACT
39273579 CATCTATTTTTGCGGGGTCAGGTCGTCATCGAAGTCATCACACCGGATAGCAAGTTTTGGTACTT
261 CATCTATTTTTGCGGGGTCAGGTCGTCATCGAAGTCATCACACCGGATAGCAAGTTTTGGTACTT
39273644 TCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAAGCTATTACGTTGTGTTTGAACTTTG
326 TCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAAGCTATTACGTTGTGTTTGAACTTTG
39273709 GCATGTAAACTTTA
391 GCATGTAAACTTTA
39273723 AGCCATGCGA
Statistics
Matches: 404, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
405 404 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (405 bp):
GAAAATAAATTGATTTATGAAAATGCCTCAATGTCCTATTGATGAGTATATGGAATGTGAATGCA
TGAATTGATATGAAACGGAATCGATAGGTTGGAGGAACTATGGTATGGTTCGGTATGGATGGAGT
AAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGGATGGTAGTGCATTGCT
TATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATTATAGGTTGCTTGGACT
CATCTATTTTTGCGGGGTCAGGTCGTCATCGAAGTCATCACACCGGATAGCAAGTTTTGGTACTT
TCTTCTTAGTTGGCTTAGAAGAACATTTTGGCATGTATAAGCTATTACGTTGTGTTTGAACTTTG
GCATGTAAACTTTAT
Found at i:39279820 original size:40 final size:40
Alignment explanation
Indices: 39279765--39280031 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
39279755 AGCATTGGAT
*
39279765 TATATTCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39279805 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39279845 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
39279885 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
39279925 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39279965 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39280005 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
39280032 ATGTGTTTGC
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:39288310 original size:40 final size:40
Alignment explanation
Indices: 39288255--39288641 Score: 711
Period size: 40 Copynumber: 9.7 Consensus size: 40
39288245 AGCATTGGAT
39288255 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39288295 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39288335 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
39288375 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39288415 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39288455 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
39288495 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
39288535 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39288575 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39288615 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
39288642 ATGTGTTTGC
Statistics
Matches: 335, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 335 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:39293321 original size:27 final size:27
Alignment explanation
Indices: 39293290--39293467 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39293280 TAAATTGTAC
39293290 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39293317 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39293343 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39293371 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39293399 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39293426 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39293453 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39293468 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39293404 original size:82 final size:81
Alignment explanation
Indices: 39293291--39293446 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39293281 AAATTGTACA
* *
39293291 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39293355 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39293372 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39293437 TGCGAGTTGA
65 TGCGAATTGA
39293447 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39293458 original size:82 final size:81
Alignment explanation
Indices: 39293287--39293467 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39293277 GATTAAATTG
* *
39293287 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39293352 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39293368 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39293432 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39293450 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39293468 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39305345 original size:55 final size:53
Alignment explanation
Indices: 39305237--39305491 Score: 184
Period size: 55 Copynumber: 4.8 Consensus size: 53
39305227 ATTAGGGTTT
* * * * * *
39305237 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTC-TAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * *
39305292 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGT
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
39305347 AA--ATGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATAT--CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
39305400 CAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * * *
39305449 AAGGATACCATGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
39305492 GTACTCGTGT
Statistics
Matches: 163, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 4 0.02
53 44 0.27
54 7 0.04
55 69 0.42
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:39305443 original size:108 final size:110
Alignment explanation
Indices: 39305247--39305444 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
39305237 AAGGATACCG
*
39305247 TGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
39305312 TGTCAAGACATGGCATTGATAAGTTACTATAAGGTAAATGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGTAAATGTCCCA
* * * * **
39305357 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCCAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
39305419 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
39305445 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.59
109 6 0.08
110 23 0.29
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGTAAATGTCCCA
Found at i:39305704 original size:16 final size:16
Alignment explanation
Indices: 39305683--39305713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39305673 ATAAATTTGA
39305683 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
39305699 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
39305714 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:39309781 original size:55 final size:53
Alignment explanation
Indices: 39309655--39309849 Score: 149
Period size: 55 Copynumber: 3.6 Consensus size: 53
39309645 CTTACCATTT
** * *
39309655 CCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACTATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACTAATG
* * * ** *
39309708 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTA-TCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G-AACTCACT-AATG
*** * * * * *
39309763 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATA
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-GAACTCACTAATG
* * * *
39309817 CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
39309850 AAACCGTAAT
Statistics
Matches: 111, Mismatches: 27, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
53 34 0.31
54 37 0.33
55 40 0.36
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACTAATG
Found at i:39319125 original size:53 final size:54
Alignment explanation
Indices: 39319045--39319250 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
39319035 TTCCTTTTTA
* * *
39319045 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
39319098 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGGATCTTTGCGTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
39319152 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACAT-GTTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
39319206 AACTTACCAATACCATGCCTTGGCATGGTCTTAC-TCGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCCTT
39319251 ACACCCTAAT
Statistics
Matches: 120, Mismatches: 29, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
52 1 0.01
53 72 0.60
54 19 0.16
55 28 0.23
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:39324796 original size:95 final size:99
Alignment explanation
Indices: 39324675--39324912 Score: 254
Period size: 95 Copynumber: 2.4 Consensus size: 99
39324665 ATTAAAGTCG
* * * * * *
39324675 ATGCCATGTCCCAGACATAGTCTTACACTGA-ATCTCGTATATCGAGGTCGATCCCATGTCCCAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGAGATCTCATATATCAAGGCCCATCCCATGTCCCAG
39324739 ACATGGTCTTACACT-G-ACACATATC-AAGCCC
66 ACATGGTCTTACACTAGCACACATATCTAAGCCC
* * * * *
39324770 ATGCCATGTCCCAAACATGGTCTTACA-TTAGCTCTCATGTCTCAAGGCCCATGCCATGTCCCAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGAGATCTCATATATCAAGGCCCATCCCATGTCCCAG
* * * * *
39324834 ACATGGTTTTACACTAGCTCTCATATCTTGAGGCCG
66 ACATGGTCTTACACTAGCACACATATC-T-AAGCCC
* *
39324870 ATGTCATGTCCCAAACATGGTCTTACACT-AGCTCTCATATATC
1 ATGCCATGTCCCAAACATGGTCTTACACTGAGATCTCATATATC
39324913 CCTAGCATCA
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
94 2 0.02
95 64 0.55
96 1 0.01
97 7 0.06
100 42 0.36
101 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (99 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGAGATCTCATATATCAAGGCCCATCCCATGTCCCAG
ACATGGTCTTACACTAGCACACATATCTAAGCCC
Found at i:39324838 original size:50 final size:50
Alignment explanation
Indices: 39324675--39324912 Score: 245
Period size: 50 Copynumber: 4.9 Consensus size: 50
39324665 ATTAAAGTCG
* * * * * *
39324675 ATGCCATGTCCCAGACATAGTCTTACACT-GAATCTCGTATATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCAAGGCCC
* * *
39324725 ATCCCATGTCCCAGACATGGTCTTACACT-G---ACACATATCAA-GCCC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGCCC
* * * *
39324770 ATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATGTCTCAAGGCCC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGCCC
* * ** *
39324820 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATATCTTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGCCC
* *
39324870 ATGTCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
39324913 CCTAGCATCA
Statistics
Matches: 156, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
45 28 0.18
46 8 0.05
49 7 0.04
50 113 0.72
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAAGGCCC
Found at i:39330276 original size:27 final size:27
Alignment explanation
Indices: 39330246--39330343 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
39330236 TTAGTTTACC
39330246 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
39330273 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
39330300 AAATTACTAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
39330327 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
39330344 TCAACCTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:39330354 original size:54 final size:54
Alignment explanation
Indices: 39330246--39330359 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
39330236 TTAGTTTACC
* ***
39330246 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCCCTAACCTGTA
* * *
39330300 AAATTACTAAAATATCCCTGATTTGTGAAATTA-CTAAAATA-CCCTCAACCTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTATC-AAAATACCCCT-AACCTGTA
39330354 AAATTA
1 AAATTA
39330360 TTGAAATACC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
53 5 0.10
54 46 0.90
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCCCTAACCTGTA
Found at i:39330357 original size:27 final size:27
Alignment explanation
Indices: 39330246--39330398 Score: 107
Period size: 27 Copynumber: 5.7 Consensus size: 27
39330236 TTAGTTTACC
* **
39330246 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GACTTGTA
* *
39330273 AAATTA-TCAAAATACCC-CTAGTTTGTA
1 AAATTACT-AAAATACCCTCGA-CTTGTA
* *
39330300 AAATTACTAAAATATCCCT-GATTTGTG
1 AAATTACTAAAATA-CCCTCGACTTGTA
* *
39330327 AAATTACTAAAATACCCTCAACCTGTA
1 AAATTACTAAAATACCCTCGACTTGTA
* * *
39330354 AAATTATTGAAATACCATCGACTTGTA
1 AAATTACTAAAATACCCTCGACTTGTA
* * *
39330381 AAGTTACCAAAGTACCCT
1 AAATTACTAAAATACCCT
39330399 TGATTTATAG
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.04
27 91 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGACTTGTA
Found at i:39330397 original size:54 final size:54
Alignment explanation
Indices: 39330296--39330398 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
39330286 ACCCCTAGTT
* * *
39330296 TGTAAAATTACTAAAATATCCCTGATTTGTGAAATTACTAAAATACCCTCAACC
1 TGTAAAATTACTAAAATATCCATGACTTGTGAAATTACCAAAATACCCTCAACC
* * *
39330350 TGTAAAATTATTGAAATA-CCATCGACTTGT-AAAGTTACCAAAGTACCCT
1 TGTAAAATTACTAAAATATCCAT-GACTTGTGAAA-TTACCAAAATACCCT
39330399 TGATTTATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
53 6 0.15
54 35 0.85
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TGTAAAATTACTAAAATATCCATGACTTGTGAAATTACCAAAATACCCTCAACC
Found at i:39330414 original size:27 final size:26
Alignment explanation
Indices: 39330246--39330454 Score: 73
Period size: 27 Copynumber: 7.7 Consensus size: 26
39330236 TTAGTTTACC
* * *
39330246 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACC-AAATACCCTTGATTTATA
* * *
39330273 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTA-CCAAATACCCTTGA-TTTATA
* * *
39330300 AAATTACTAAAATATCCC-TGATTTGTG
1 AAATTAC-CAAATA-CCCTTGATTTATA
* ** ** *
39330327 AAATTACTAAAATACCCTCAACCTGTA
1 AAATTAC-CAAATACCCTTGATTTATA
** * * * *
39330354 AAATTATTGAAATACCATCGACTTGTA
1 AAATTA-CCAAATACCCTTGATTTATA
*
39330381 AAGTTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAA-TACCCTTGATTTATA
* **
39330408 GAATTACCATTTTA-CCTTCGATTTATA
1 AAATTACCA-AATACCCTT-GATTTATA
39330435 AAATTACCGAAATACCCTTG
1 AAATTACC-AAATACCCTTG
39330455 TAGGGTAGAA
Statistics
Matches: 143, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.08
27 122 0.85
28 10 0.07
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATTACCAAATACCCTTGATTTATA
Found at i:39330676 original size:27 final size:27
Alignment explanation
Indices: 39330436--39330685 Score: 329
Period size: 27 Copynumber: 9.3 Consensus size: 27
39330426 CGATTTATAA
*
39330436 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
39330463 AAATGCCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39330490 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39330517 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
39330544 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39330571 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39330598 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39330625 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
39330652 AATTACCGAGATACCCTTTTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
39330679 AATTACC
1 AATTACC
39330686 ATTTTACCCC
Statistics
Matches: 197, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:39330696 original size:81 final size:81
Alignment explanation
Indices: 39330439--39330669 Score: 363
Period size: 81 Copynumber: 2.9 Consensus size: 81
39330429 TTTATAAAAT
* * * * * *
39330439 TACCGAAATACCCTTGTAGGGTAGAAATGCCGAAATACCCTTATAGGGTAGAAATACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
*
39330504 CCCTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
*
39330520 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
*
39330585 CCTTGTAAGGTAGAAA
66 CCTTGTAGGGTAGAAA
* *
39330601 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
39330666 CCTT
66 CCTT
39330670 TTGGGGTAAA
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 138 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (81 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:39331223 original size:58 final size:57
Alignment explanation
Indices: 39331135--39331285 Score: 166
Period size: 57 Copynumber: 2.6 Consensus size: 57
39331125 CATTGACGTT
* * *
39331135 GTTATAGAAAGGATTTAGCCCAGACAGGTAATCCTGAAAT-AA-TACCTCTCGAGCATAC
1 GTTATATAAAGGATTTAGCCTAGACTGGTAATCCTG-AATCAACT-CCTCT-GAGCATAC
* *
39331193 GTTATGATTATGG-TTTAGCCTAGACTGGTAATCCT-AATCAAGCTCCTCTGAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTAGACTGGTAATCCTGAATCAA-CTCCTCTGAGCATAC
* *
39331250 GTTATATAAAGGATTTAGCCTGGACTAGTAATCCTG
1 GTTATATAAAGGATTTAGCCTAGACTGGTAATCCTG
39331286 TTGTACGATA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
56 8 0.10
57 35 0.45
58 30 0.38
59 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (57 bp):
GTTATATAAAGGATTTAGCCTAGACTGGTAATCCTGAATCAACTCCTCTGAGCATAC
Found at i:39332658 original size:46 final size:46
Alignment explanation
Indices: 39332605--39332780 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
39332595 TGGTTGAGCA
39332605 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
39332651 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
39332696 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39332744 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39332781 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39332761 original size:93 final size:93
Alignment explanation
Indices: 39332602--39332773 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39332592 GGATGGTTGA
* * * *
39332602 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39332667 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39332695 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39332760 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39332774 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39340232 original size:46 final size:46
Alignment explanation
Indices: 39340182--39340353 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
39340172 TGAGCATCCA
39340182 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
39340228 AACTCGTTGATTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
39340275 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
39340321 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39340354 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:39340336 original size:93 final size:93
Alignment explanation
Indices: 39340175--39340346 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
39340165 GGATGGTTGA
* * *
39340175 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGATT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39340240 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
39340268 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39340333 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39340347 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39342687 original size:125 final size:124
Alignment explanation
Indices: 39342484--39342709 Score: 289
Period size: 125 Copynumber: 1.8 Consensus size: 124
39342474 TCATTTTGTC
* * *
39342484 CACACGGGTAGACACACGGGCGTGTGTCTAGACCGTGTGTGACACATGCCTGGTAACACGGGCGT
1 CACACGGGTAGACACACGAGCGTGTGTCTAGACCGAGTGTGACACATGCCTAGTAACACGGGCGT
***
39342549 ATGGTTTGGCCGTGTGTCCCCTGCACCTTAATTTTGAGAAATAGAATGCCTAGAATTGGG
66 ATGGTTTGGCCGTGTGAAACCTGCACC-TAATTTTGAGAAATAGAATGCCTAGAATTGGG
* * *
39342609 CACACGGGTAGAGACACGAGCGTGTGTCTCAG-CTGAGTGTGCCACACA-GCCTAG-CACACGGG
1 CACACGGGTAGACACACGAGCGTGTGTCT-AGACCGAGTGTG--ACACATGCCTAGTAACACGGG
*
39342671 CGTGT-GTCTTGGCCGTGTGAAACCTGCACCTAATTTTGA
63 CGTATGGT-TTGGCCGTGTGAAACCTGCACCTAATTTTGA
39342710 ATTGAATTAA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
124 11 0.13
125 64 0.74
126 7 0.08
127 5 0.06
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (124 bp):
CACACGGGTAGACACACGAGCGTGTGTCTAGACCGAGTGTGACACATGCCTAGTAACACGGGCGT
ATGGTTTGGCCGTGTGAAACCTGCACCTAATTTTGAGAAATAGAATGCCTAGAATTGGG
Found at i:39346574 original size:93 final size:93
Alignment explanation
Indices: 39346462--39346636 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
39346452 CGCCCATAAG
* * ***
39346462 CGAACTTGGACTCAACTCAATGAGATCGGGTGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
39346527 ACGAGCTCGGATGCCCAGTTACATCTCT
66 ACGAGCTCGGATGCCCAGTTACATCTCT
* *
39346555 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
39346620 ACGAGTTCGGATGCCCA
66 ACGAGCTCGGATGCCCA
39346637 AATATCCTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCCAGTTACATCTCT
Found at i:39346623 original size:46 final size:45
Alignment explanation
Indices: 39346455--39346630 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
39346445 TGAAACCCGC
* * * * **
39346455 CCATAAGCGAACTTGGACTCAACTCAATGAGATCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAATTCGCAT
* * * *
39346501 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCCCAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCA--T
* ***
39346547 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCAT
39346594 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39346631 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 62 0.59
47 32 0.30
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCAT
Found at i:39346649 original size:46 final size:44
Alignment explanation
Indices: 39346506--39346649 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 44
39346496 CGCATCCACA
*
39346506 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
39346555 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
39346598 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
39346645 AGTGA
1 AGTGA
39346650 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.42
47 28 0.36
48 4 0.05
49 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:39355069 original size:37 final size:37
Alignment explanation
Indices: 39355010--39355155 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
39355000 AGCTCAGATG
* *
39355010 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
39355047 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
39355084 TAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
39355121 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39355156 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:39355357 original size:48 final size:49
Alignment explanation
Indices: 39355302--39355547 Score: 336
Period size: 52 Copynumber: 4.9 Consensus size: 49
39355292 ACACATCGCC
39355302 TACATATTTCAC-TCTAGCCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACAT-TAGCCATTCGGCTTTACCACATATACATATCTCAA
*
39355350 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* * *
39355402 TATATATTTCACATTAACCATTCCGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* * *
39355454 TATATATTTCGCATTAGCCATTCGGATTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
*
39355502 TACATATTTCACATTAGACATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
39355548 TATGCATCAA
Statistics
Matches: 180, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
48 88 0.49
52 92 0.51
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:39359021 original size:40 final size:40
Alignment explanation
Indices: 39358977--39359375 Score: 575
Period size: 40 Copynumber: 10.0 Consensus size: 40
39358967 GAATACACAT
* * *
39358977 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
39359017 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * * *
39359057 CTCTAGCACAAATGCTGTTTGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
39359097 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
39359137 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
39359177 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
39359217 CACCAGCAC-AAGTGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAA-TGCTCTTCGGGACTTAGCCCGGATATAA
*
39359257 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
39359297 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
39359337 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
39359376 TATAACTCTC
Statistics
Matches: 319, Mismatches: 38, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
39 2 0.01
40 315 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:39359371 original size:23 final size:23
Alignment explanation
Indices: 39359305--39359372 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
39359295 AACACCAGCA
39359305 CGAATGCTCTTCGGGACTTAGCC
1 CGAATGCTCTTCGGGACTTAGCC
* * * *
39359328 CGGAT--ACATC---AC-TAGCA
1 CGAATGCTCTTCGGGACTTAGCC
39359345 CGAATGCTCTTCGGGACTTAGCC
1 CGAATGCTCTTCGGGACTTAGCC
39359368 CGAAT
1 CGAAT
39359373 ATATATAACT
Statistics
Matches: 31, Mismatches: 8, Indels: 12
0.61 0.16 0.24
Matches are distributed among these distances:
17 8 0.26
18 2 0.06
19 3 0.10
21 3 0.10
22 2 0.06
23 13 0.42
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (23 bp):
CGAATGCTCTTCGGGACTTAGCC
Found at i:39360680 original size:37 final size:37
Alignment explanation
Indices: 39360630--39360700 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
39360620 GCTCAGATGA
39360630 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
39360667 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39360701 ATATATTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:39360901 original size:48 final size:49
Alignment explanation
Indices: 39360846--39361089 Score: 339
Period size: 48 Copynumber: 4.9 Consensus size: 49
39360836 ACACATCGCC
* *
39360846 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACTTATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
* *
39360894 TACATATTTCACACTAGCCAGTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* * *
39360944 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A-A
* * *
39360996 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATAGATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
*
39361044 TACATATTTCACATTAGCCTTTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
39361090 TATGCATCAA
Statistics
Matches: 177, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
48 88 0.50
50 43 0.24
52 46 0.26
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:39362714 original size:28 final size:28
Alignment explanation
Indices: 39362657--39362891 Score: 397
Period size: 28 Copynumber: 8.5 Consensus size: 28
39362647 TAAATTGTGC
*
39362657 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39362684 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39362712 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39362739 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39362767 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39362794 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
39362822 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
39362850 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
39362877 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39362892 GACTTAATAT
Statistics
Matches: 201, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
27 93 0.46
28 108 0.54
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:39362722 original size:55 final size:55
Alignment explanation
Indices: 39362657--39362891 Score: 409
Period size: 55 Copynumber: 4.3 Consensus size: 55
39362647 TAAATTGTGC
*
39362657 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
39362712 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
39362767 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
39362822 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
39362877 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39362892 GACTTAATAT
Statistics
Matches: 174, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
55 148 0.85
56 26 0.15
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:39362772 original size:83 final size:83
Alignment explanation
Indices: 39362657--39362891 Score: 402
Period size: 83 Copynumber: 2.8 Consensus size: 83
39362647 TAAATTGTGC
*
39362657 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
39362721 TGTGCGAG-TTGACTATGT
65 TGTGCGAGTTTGACTATGT
39362739 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
39362804 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
39362822 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
39362887 GTGCG
66 GTGCG
39362892 GACTTAATAT
Statistics
Matches: 146, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
82 43 0.29
83 103 0.71
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:39380891 original size:21 final size:21
Alignment explanation
Indices: 39380867--39380906 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39380857 CATTTGTACA
* *
39380867 TATATCATATTTTCTCAAACT
1 TATATCATATGTTCACAAACT
39380888 TATATCATATGTTCACAAA
1 TATATCATATGTTCACAAA
39380907 AGTACATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (21 bp):
TATATCATATGTTCACAAACT
Found at i:39383847 original size:21 final size:20
Alignment explanation
Indices: 39383801--39383839 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39383791 AGAGACTAAA
*
39383801 ATGAAAAGTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
39383821 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTATAAAATTT
39383840 TATGGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:39389174 original size:46 final size:44
Alignment explanation
Indices: 39389120--39389254 Score: 161
Period size: 46 Copynumber: 3.1 Consensus size: 44
39389110 ATTGAGACGA
* * *
39389120 GTGCCAGTGTAAGATATATCTGGGACATGCATCAGCCT-CGAGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAGAT
39389164 GTAAGCCAGTGTAAGACATGT-TCGGGACATGCATCAGCTACAAGAT
1 GT--GCCAGTGTAAGACATGTCT-GGGACATGCATCAGCTACAAGAT
* *
39389210 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-AC-AGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGAT
39389252 GTG
1 GTG
39389255 TGAGAACCAG
Statistics
Matches: 81, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
42 7 0.09
43 2 0.02
44 32 0.40
45 4 0.05
46 36 0.44
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGAT
Found at i:39393048 original size:15 final size:16
Alignment explanation
Indices: 39393029--39393070 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
39393019 ATTTTCTTGT
39393029 TTTGGATTTCTTTATA
1 TTTGGATTTCTTTATA
39393045 -TTGGA-TT-TTTATA
1 TTTGGATTTCTTTATA
39393058 TTCTGGATTTCTT
1 TT-TGGATTTCTT
39393071 CGTTATGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.27
14 3 0.14
15 9 0.41
16 2 0.09
17 2 0.09
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (16 bp):
TTTGGATTTCTTTATA
Found at i:39393048 original size:30 final size:30
Alignment explanation
Indices: 39393014--39393070 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39393004 CGGTATCGTG
* *
39393014 ATTGGATTTTCT-TGTTTTGGATTTCTTTAT
1 ATTGGATTTT-TATATTCTGGATTTCTTTAT
39393044 ATTGGATTTTTATATTCTGGATTTCTT
1 ATTGGATTTTTATATTCTGGATTTCTT
39393071 CGTTATGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.16, C:0.07, G:0.16, T:0.61
Consensus pattern (30 bp):
ATTGGATTTTTATATTCTGGATTTCTTTAT
Found at i:39395781 original size:46 final size:44
Alignment explanation
Indices: 39395686--39395862 Score: 171
Period size: 46 Copynumber: 3.9 Consensus size: 44
39395676 ATGAAAGCCT
* *
39395686 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGA--TGTGCCA
* * *
39395734 GTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATGTCAACCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGT--GCCA
* * ** *
39395780 GTATAAGACATGTCCGGGACATGCATC-TAATACGAGATGTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGATGTGCCA
*
39395824 GTGTAAGACATGCCTGGGACATGCATCGGCA-CG-GATGTG
1 GTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGTG
39395863 TGAGAGCCGG
Statistics
Matches: 107, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 28 0.26
45 2 0.02
46 48 0.45
47 13 0.12
48 8 0.07
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (44 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATGTGCCA
Found at i:39410758 original size:27 final size:27
Alignment explanation
Indices: 39410212--39410785 Score: 745
Period size: 27 Copynumber: 21.3 Consensus size: 27
39410202 TAGTTTACCA
* *
39410212 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39410239 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39410266 AATTACTGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
39410293 AATTACCGAAATACCATTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39410320 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
39410347 AATTACTAAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39410374 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39410401 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39410428 AATTAACGACATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39410455 AATTACCGAAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
39410482 AATTACCGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
39410509 AATAACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39410536 AATTATCGAATTACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
39410563 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
39410590 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39410617 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
39410644 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39410671 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39410698 AATTACCTACATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
39410725 AAATACCGAAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
39410752 AATTACC-AAGATACCATTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
39410779 AATTACC
1 AATTACC
39410786 ATTTTTCCCC
Statistics
Matches: 468, Mismatches: 78, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
26 2 0.00
27 466 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:39411091 original size:20 final size:20
Alignment explanation
Indices: 39411068--39411114 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
39411058 CCAAAGGTTG
39411068 TGTGCCGTTACTGTGGGCTT
1 TGTGCCGTTACTGTGGGCTT
39411088 TGTGCCGTTACTGTGGGCTT
1 TGTGCCGTTACTGTGGGCTT
*
39411108 CGTGCCG
1 TGTGCCG
39411115 ATTATAGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.04, C:0.23, G:0.36, T:0.36
Consensus pattern (20 bp):
TGTGCCGTTACTGTGGGCTT
Found at i:39411158 original size:22 final size:22
Alignment explanation
Indices: 39411133--39411190 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
39411123 CCCATTATCA
*
39411133 ATGGCTCTGTGCCATCCTAAAT
1 ATGGCTTTGTGCCATCCTAAAT
* * *
39411155 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCATCCTAAAT
39411177 ATGGCTTTGTGCCA
1 ATGGCTTTGTGCCA
39411191 AACGTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (22 bp):
ATGGCTTTGTGCCATCCTAAAT
Found at i:39411312 original size:32 final size:32
Alignment explanation
Indices: 39411276--39411336 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
39411266 GTGCTAGTTA
*
39411276 TATTACCGTCA-CTGATGGCTATGTGCCAAAGT
1 TATTACAGTCATC-GATGGCTATGTGCCAAAGT
* *
39411308 TATTACAGTTATCGATGGCTTTGTGCCAA
1 TATTACAGTCATCGATGGCTATGTGCCAA
39411337 GTATTCTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (32 bp):
TATTACAGTCATCGATGGCTATGTGCCAAAGT
Found at i:39413330 original size:40 final size:40
Alignment explanation
Indices: 39413281--39413488 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
39413271 CAGAATTTAA
* *
39413281 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39413321 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39413361 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39413400 CC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39413440 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39413481 CCGGATAT
1 CCGGATAT
39413489 CATTCGAATA
Statistics
Matches: 144, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.03
39 30 0.21
40 77 0.53
41 30 0.21
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39413412 original size:79 final size:78
Alignment explanation
Indices: 39413277--39413488 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 78
39413267 CCTTCAGAAT
* * **
39413277 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 TTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACA
39413342 AATGCCTTCGGGA-C
65 AATGCCTTC-GGATC
* *
39413356 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCA
1 TTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCA
39413419 CAAATGCCTTCGGATC
63 CAAATGCCTTCGGATC
* * * *
39413435 TTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 TTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGAATAT
39413489 CATTCGAATA
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.04
79 52 0.46
80 44 0.39
81 11 0.10
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
TTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAA
ATGCCTTCGGATC
Found at i:39415944 original size:13 final size:13
Alignment explanation
Indices: 39415926--39415950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39415916 TAATGGTATA
39415926 TTGAATCCATGAT
1 TTGAATCCATGAT
39415939 TTGAATCCATGA
1 TTGAATCCATGA
39415951 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:39417855 original size:25 final size:25
Alignment explanation
Indices: 39417827--39417905 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
39417817 CTAATGGCCG
39417827 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
39417852 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
39417874 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
39417899 ATGTGAT
1 ATGTGAT
39417906 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:39417859 original size:47 final size:47
Alignment explanation
Indices: 39417805--39417955 Score: 266
Period size: 47 Copynumber: 3.2 Consensus size: 47
39417795 AGATATGTAC
39417805 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* **
39417852 ATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
39417899 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39417946 ATGTGATAAG
1 ATGTGATAAG
39417956 TCCCGAAGGA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:39425053 original size:40 final size:39
Alignment explanation
Indices: 39425009--39425200 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 39
39424999 GGATATAGCT
* * *
39425009 ACTCGCTCAACTGCCTTCGAGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCG-GACTTAGCCCGGTTATAGTA
*
39425049 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTC-GGACTTAGCCCGG-TTATAGTA
* * **
39425089 ACTCGCACCAATGCCTTCGGGCTTAGCCC-GAAATTAGTA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGTTA-TAGTA
* * *
39425128 ACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGA-CTTAGCCCGGTTATAGTA
* *
39425168 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTC-GGACTTAGCCCGG
39425201 ATATCATTCG
Statistics
Matches: 127, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.26
40 61 0.48
41 29 0.23
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTA
Found at i:39425118 original size:79 final size:82
Alignment explanation
Indices: 39425021--39425201 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 82
39425011 TCGCTCAACT
* * ** *
39425021 GCCTTCGAGACATAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
1 GCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATA
* * *
39425084 TAGTAAC-TCGCACCAAT
65 TAGTAACTTAGCACAAAA
**
39425101 GCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
*
39425164 AGTCACTTAGCACAAAA
66 AGTAACTTAGCACAAAA
39425181 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
39425202 TATCATTCGA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 5 0.06
79 46 0.54
80 24 0.28
81 8 0.09
82 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGAAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
AGTAACTTAGCACAAAA
Found at i:39437661 original size:18 final size:18
Alignment explanation
Indices: 39437638--39437672 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39437628 TCAATTTGGC
39437638 TATGATGAAT-TATATGTT
1 TATGAT-AATGTATATGTT
39437656 TATGATAATGTATATGT
1 TATGATAATGTATATGT
39437673 GATAGTGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (18 bp):
TATGATAATGTATATGTT
Found at i:39445294 original size:24 final size:24
Alignment explanation
Indices: 39445226--39445290 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
39445216 AACTGTTATT
* *
39445226 GATAGTATATCCTGAAACTACTATA
1 GATAGTACATACTGAAAC-ACTATA
* *
39445251 GGTAGTACATACTGAGACACTATA
1 GATAGTACATACTGAAACACTATA
*
39445275 GATAG-ACTTACTGAAA
1 GATAGTACATACTGAAA
39445291 ACACCCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 9 0.27
24 10 0.30
25 14 0.42
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (24 bp):
GATAGTACATACTGAAACACTATA
Found at i:39461806 original size:39 final size:39
Alignment explanation
Indices: 39461754--39461899 Score: 229
Period size: 39 Copynumber: 3.7 Consensus size: 39
39461744 TGTGTGAGAT
*
39461754 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39461793 TTATATCCAGGCTAAGTCCCGAAGGTATTGGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39461832 TTATGTCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
39461871 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
39461900 TGTGTTGGAA
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:39468990 original size:42 final size:42
Alignment explanation
Indices: 39468879--39469029 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 42
39468869 TACCACATCA
* *** *
39468879 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATAAAATCTCATATCG
* * * *
39468921 ATACCAATAGCCCAGCTATGGCCTTACATAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATAAAATCTCATATCG
* *
39468964 ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATAAAATCTCAT-ATCG
*
39469006 ATGCCATATCCTAGATATGGTCTT
1 ATGCCATATCCCAGATATGGTCTT
39469030 CCACATAGTC
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 56 0.62
43 35 0.38
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATAAAATCTCATATCG
Found at i:39475531 original size:32 final size:32
Alignment explanation
Indices: 39475471--39475535 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
39475461 GAAGAGAAAT
39475471 TTAGAGTAATACGTGACTGCTTGAAGGCCACC
1 TTAGAGTAATACGTGACTGCTTGAAGGCCACC
*
39475503 TTAGAGTAATTCGTGACTGCTTGAAGGCCACC
1 TTAGAGTAATACGTGACTGCTTGAAGGCCACC
39475535 T
1 T
39475536 CAAATTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (32 bp):
TTAGAGTAATACGTGACTGCTTGAAGGCCACC
Done.