Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold58
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 53867
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:20846 original size:27 final size:27
Alignment explanation
Indices: 20808--20914 Score: 94
Period size: 27 Copynumber: 4.1 Consensus size: 27
20798 GGGAGCCCGG
* *
20808 GTGGGCTTGGTAGTCGCCTTAGGGGCA
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
* * * *
20835 GTGGTCTT-G--GTAGCCTTAAGAGCG
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
* * *
20859 GTGGCCTTGGTAGGAGCCTTCGGGGCG
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
* *
20886 GTGGCCTTGGTGGTAGCCATAGGGGCA
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
20913 GT
1 GT
20915 AGTAGCCTTA
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
24 18 0.29
25 1 0.02
26 1 0.02
27 42 0.68
ACGTcount: A:0.12, C:0.19, G:0.44, T:0.25
Consensus pattern (27 bp):
GTGGCCTTGGTAGTAGCCTTAGGGGCA
Left flanking sequence: Indices 20308 -- 20807
TTGGACATCCACTTGTGTCCCACCTGGCGCCATTTGCGTCGCGAGATCGGGATGCCCTACGGGTT
CCTTTTGGAGGGCCACGGGTGGTGGCACGTGTTCACGGGGTTGGGGGTGTATTTCTACTTGGTGT
ACGAGATGTACTTGCGGCTATTGTTGCAGGGCACCGCTCAATACTACCTGTTCCACTACACGTGG
GGGTTGCCGTTTGTGACGTTGGTGGACAAGCCGGGCTTGGACAACTGGGAGAACGTGCGCAAGTT
GGCGCGGGCCGACGCGGATTTTAAGAAAAACCAATAGTGAATAGATGTATTAACTAGTCCAGGTC
GGAGCTGGAGTCGGAGTCCAGGTCAAACGGCAGTTTGTGGGGCTTCTTTTGGCTGGCGGCGGGGG
CGGCCTTGCGGTCGTAGGTCGAGGGGATCTGTTTGGAGGAGAGCAGCGCGAGGGTGGCGAGCCGT
GGCTTGGGGGCCTCAGGCTCGGATGCCGGGGGGCTGGGAGCCCGG
Right flanking sequence: Indices 20915 -- 21414
AGTAGCCTTAGGGGCAGTAGTAGCAGAGTTGGCAGGAAGTGTCTTGGAAGTGGCCTCAGTGGCCT
TAGCGGTGGCCTCAGTAGCTTTAGCGGTGGCCTTAGCGGGAGCCTTCAGGACAGGCTTAGGCATG
GGCGCCTCTTCCGACCCATTGGCCTGTTCCGTAGGCTCTTCGGGCGACTTTGGCTTGGGGGTCTC
TTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTTCTTGGGCTTCGCCGTCTCCTTGGCCTTGGCAG
CGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCTTCGTCGTCTCGGTGGGGGACTCCACGGGCTTG
GTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTGGCCCTAGCCTTAGCCTTGGGCTCTTTCTTCGC
GGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTTCTTCAACTCGTCTTGTTTCTTGCTCAACTCGT
CCTGCTTCTTTTTGAGCTCGGCACGGGCCAGCTTCGCTCGCTCGT
Found at i:20921 original size:18 final size:18
Alignment explanation
Indices: 20898--20938 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
20888 GGCCTTGGTG
20898 GTAGCCATAGGGGCAGTA
1 GTAGCCATAGGGGCAGTA
*
20916 GTAGCCTTAGGGGCAGTA
1 GTAGCCATAGGGGCAGTA
20934 GTAGC
1 GTAGC
20939 AGAGTTGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.17, G:0.39, T:0.20
Consensus pattern (18 bp):
GTAGCCATAGGGGCAGTA
Left flanking sequence: Indices 20398 -- 20897
CACGTGTTCACGGGGTTGGGGGTGTATTTCTACTTGGTGTACGAGATGTACTTGCGGCTATTGTT
GCAGGGCACCGCTCAATACTACCTGTTCCACTACACGTGGGGGTTGCCGTTTGTGACGTTGGTGG
ACAAGCCGGGCTTGGACAACTGGGAGAACGTGCGCAAGTTGGCGCGGGCCGACGCGGATTTTAAG
AAAAACCAATAGTGAATAGATGTATTAACTAGTCCAGGTCGGAGCTGGAGTCGGAGTCCAGGTCA
AACGGCAGTTTGTGGGGCTTCTTTTGGCTGGCGGCGGGGGCGGCCTTGCGGTCGTAGGTCGAGGG
GATCTGTTTGGAGGAGAGCAGCGCGAGGGTGGCGAGCCGTGGCTTGGGGGCCTCAGGCTCGGATG
CCGGGGGGCTGGGAGCCCGGGTGGGCTTGGTAGTCGCCTTAGGGGCAGTGGTCTTGGTAGCCTTA
AGAGCGGTGGCCTTGGTAGGAGCCTTCGGGGCGGTGGCCTTGGTG
Right flanking sequence: Indices 20939 -- 21438
AGAGTTGGCAGGAAGTGTCTTGGAAGTGGCCTCAGTGGCCTTAGCGGTGGCCTCAGTAGCTTTAG
CGGTGGCCTTAGCGGGAGCCTTCAGGACAGGCTTAGGCATGGGCGCCTCTTCCGACCCATTGGCC
TGTTCCGTAGGCTCTTCGGGCGACTTTGGCTTGGGGGTCTCTTTAGCCGCGGGCTTGGGTTTAGC
AGGAGCTTTCTTGGGCTTCGCCGTCTCCTTGGCCTTGGCAGCGGCAGCAGTTGGCGCCGTCTCGG
TGGTGTCCTTCGTCGTCTCGGTGGGGGACTCCACGGGCTTGGTAGCTTCCTTCGGAGTCTCCTTC
ACCTCCTTGGCCCTAGCCTTAGCCTTGGGCTCTTTCTTCGCGGGCGCCTTGGCCTTTCTCTTGGC
GTCGCCCTTCTTCAACTCGTCTTGTTTCTTGCTCAACTCGTCCTGCTTCTTTTTGAGCTCGGCAC
GGGCCAGCTTCGCTCGCTCGTTCTGGGCTTTCAACGAGCTGGTGC
Found at i:20988 original size:21 final size:21
Alignment explanation
Indices: 20964--21012 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
20954 TGTCTTGGAA
*
20964 GTGGCCTCAGTGGCCTTAGCG
1 GTGGCCTCAGTAGCCTTAGCG
*
20985 GTGGCCTCAGTAGCTTTAGCG
1 GTGGCCTCAGTAGCCTTAGCG
21006 GTGGCCT
1 GTGGCCT
21013 TAGCGGGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (21 bp):
GTGGCCTCAGTAGCCTTAGCG
Left flanking sequence: Indices 20464 -- 20963
CAGGGCACCGCTCAATACTACCTGTTCCACTACACGTGGGGGTTGCCGTTTGTGACGTTGGTGGA
CAAGCCGGGCTTGGACAACTGGGAGAACGTGCGCAAGTTGGCGCGGGCCGACGCGGATTTTAAGA
AAAACCAATAGTGAATAGATGTATTAACTAGTCCAGGTCGGAGCTGGAGTCGGAGTCCAGGTCAA
ACGGCAGTTTGTGGGGCTTCTTTTGGCTGGCGGCGGGGGCGGCCTTGCGGTCGTAGGTCGAGGGG
ATCTGTTTGGAGGAGAGCAGCGCGAGGGTGGCGAGCCGTGGCTTGGGGGCCTCAGGCTCGGATGC
CGGGGGGCTGGGAGCCCGGGTGGGCTTGGTAGTCGCCTTAGGGGCAGTGGTCTTGGTAGCCTTAA
GAGCGGTGGCCTTGGTAGGAGCCTTCGGGGCGGTGGCCTTGGTGGTAGCCATAGGGGCAGTAGTA
GCCTTAGGGGCAGTAGTAGCAGAGTTGGCAGGAAGTGTCTTGGAA
Right flanking sequence: Indices 21013 -- 21512
TAGCGGGAGCCTTCAGGACAGGCTTAGGCATGGGCGCCTCTTCCGACCCATTGGCCTGTTCCGTA
GGCTCTTCGGGCGACTTTGGCTTGGGGGTCTCTTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTT
CTTGGGCTTCGCCGTCTCCTTGGCCTTGGCAGCGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCT
TCGTCGTCTCGGTGGGGGACTCCACGGGCTTGGTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTG
GCCCTAGCCTTAGCCTTGGGCTCTTTCTTCGCGGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTT
CTTCAACTCGTCTTGTTTCTTGCTCAACTCGTCCTGCTTCTTTTTGAGCTCGGCACGGGCCAGCT
TCGCTCGCTCGTTCTGGGCTTTCAACGAGCTGGTGCGGATGGCCTTGGCCTTGGCTGCCAACGCC
GCAATCGAGTTGGATTTGGGCTTGCCCTTGGGGGCGTCCTCGATT
Found at i:21366 original size:21 final size:21
Alignment explanation
Indices: 21340--21379 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21330 TCGCCCTTCT
* *
21340 TCAACTCGTCTTGTTTCTTGC
1 TCAACTCGTCCTGCTTCTTGC
21361 TCAACTCGTCCTGCTTCTT
1 TCAACTCGTCCTGCTTCTT
21380 TTTGAGCTCG
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:0.10, C:0.33, G:0.12, T:0.45
Consensus pattern (21 bp):
TCAACTCGTCCTGCTTCTTGC
Left flanking sequence: Indices 20840 -- 21339
CTTGGTAGCCTTAAGAGCGGTGGCCTTGGTAGGAGCCTTCGGGGCGGTGGCCTTGGTGGTAGCCA
TAGGGGCAGTAGTAGCCTTAGGGGCAGTAGTAGCAGAGTTGGCAGGAAGTGTCTTGGAAGTGGCC
TCAGTGGCCTTAGCGGTGGCCTCAGTAGCTTTAGCGGTGGCCTTAGCGGGAGCCTTCAGGACAGG
CTTAGGCATGGGCGCCTCTTCCGACCCATTGGCCTGTTCCGTAGGCTCTTCGGGCGACTTTGGCT
TGGGGGTCTCTTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTTCTTGGGCTTCGCCGTCTCCTTG
GCCTTGGCAGCGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCTTCGTCGTCTCGGTGGGGGACTC
CACGGGCTTGGTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTGGCCCTAGCCTTAGCCTTGGGCT
CTTTCTTCGCGGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTTCT
Right flanking sequence: Indices 21380 -- 21879
TTTGAGCTCGGCACGGGCCAGCTTCGCTCGCTCGTTCTGGGCTTTCAACGAGCTGGTGCGGATGG
CCTTGGCCTTGGCTGCCAACGCCGCAATCGAGTTGGATTTGGGCTTGCCCTTGGGGGCGTCCTCG
ATTTCGCTTTCGGAGGAGGACGAGTCGTCCAGGGAGTCGGAGTCCAGCAGACTGGAGTCGGAGGC
CGCGGAAGTCGTGGTTTCGGGAGCATTGGGCTGAGGAGCCTTAGCTTCAGGGGCCTTAGCAGTTG
TTTTAGCTGGTTCAGGAGCCTTAGATTCAGAAGCCTTAGCAGTTGTTTTAGCCGGTTCAGGAGCC
TTGACCGCCTCAGAAGCCTTAGCAGGCTCAGGAGCCTTGGGTTCGGGAGCCTTCTTAGCAGCCCC
CTGAGTTTTCCCGTTCGTGGTGGGCTTGGCACTGTTCTGAATACTGTCCACCTGGGTGGGTTCCT
CCGGAGCCGGTTCAGCAGTCTTTCTAGCGGCCTCCGCCTTCAGTG
Found at i:21676 original size:45 final size:45
Alignment explanation
Indices: 21608--21729 Score: 172
Period size: 45 Copynumber: 2.6 Consensus size: 45
21598 CATTGGGCTG
** *
21608 AGGAGCCTTAGCTTCAGGGGCCTTAGCAGTTGTTTTAGCTGGTTC
1 AGGAGCCTTAGCTTCAGAAGCCTTAGCAGTTGTTTTAGCCGGTTC
*
21653 AGGAGCCTTAGATTCAGAAGCCTTAGCAGTTGTTTTAGCCGGTTC
1 AGGAGCCTTAGCTTCAGAAGCCTTAGCAGTTGTTTTAGCCGGTTC
*
21698 AGGAGCCTTGACCGCCTCAGAAGCCTTAGCAG
1 AGGAGCCTT-A--GCTTCAGAAGCCTTAGCAG
21730 GCTCAGGAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 50 0.74
46 1 0.01
48 17 0.25
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (45 bp):
AGGAGCCTTAGCTTCAGAAGCCTTAGCAGTTGTTTTAGCCGGTTC
Left flanking sequence: Indices 21108 -- 21607
TCTTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTTCTTGGGCTTCGCCGTCTCCTTGGCCTTGGC
AGCGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCTTCGTCGTCTCGGTGGGGGACTCCACGGGCT
TGGTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTGGCCCTAGCCTTAGCCTTGGGCTCTTTCTTC
GCGGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTTCTTCAACTCGTCTTGTTTCTTGCTCAACTC
GTCCTGCTTCTTTTTGAGCTCGGCACGGGCCAGCTTCGCTCGCTCGTTCTGGGCTTTCAACGAGC
TGGTGCGGATGGCCTTGGCCTTGGCTGCCAACGCCGCAATCGAGTTGGATTTGGGCTTGCCCTTG
GGGGCGTCCTCGATTTCGCTTTCGGAGGAGGACGAGTCGTCCAGGGAGTCGGAGTCCAGCAGACT
GGAGTCGGAGGCCGCGGAAGTCGTGGTTTCGGGAGCATTGGGCTG
Right flanking sequence: Indices 21730 -- 22229
GCTCAGGAGCCTTGGGTTCGGGAGCCTTCTTAGCAGCCCCCTGAGTTTTCCCGTTCGTGGTGGGC
TTGGCACTGTTCTGAATACTGTCCACCTGGGTGGGTTCCTCCGGAGCCGGTTCAGCAGTCTTTCT
AGCGGCCTCCGCCTTCAGTGCCTTGGCCTTCGCAGGCTCAGCCTTCTTCAGAGGCAGAGAAGGCA
CCTTAGCAAGAGCTTTTGCAGGAGCTTTCGCAACTGGCTTCGTAGGCAGCGCTGCAACAGGCTTT
GCTCCCTGCTCTACTCCCTTCTCTACTCCCTCTGCTCCCTTCTCTCCCTTCTCGCCCTTCTCGCC
CTTCTTCCGGTTCACGGGCGTGGGCGTCACCTCCTGCGACGGCGACGGCTCGGGCGTCGTCTCCT
GGGCGTTCTTCGCGTGCTGGAGCTCGGGAATCGCGCCCGGTGCCATCGCCGGCCGCTTGCGCACC
TTGGGGTTCGCAAGCTCCTTCGCAGACAGCTTGCGCGACCCCAGG
Found at i:22034 original size:12 final size:12
Alignment explanation
Indices: 21991--22020 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21981 ACAGGCTTTG
*
21991 CTCCCTGCTCTA
1 CTCCCTTCTCTA
22003 CTCCCTTCTCTA
1 CTCCCTTCTCTA
22015 CTCCCT
1 CTCCCT
22021 CTGCTCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.53, G:0.03, T:0.37
Consensus pattern (12 bp):
CTCCCTTCTCTA
Left flanking sequence: Indices 21491 -- 21990
GCCCTTGGGGGCGTCCTCGATTTCGCTTTCGGAGGAGGACGAGTCGTCCAGGGAGTCGGAGTCCA
GCAGACTGGAGTCGGAGGCCGCGGAAGTCGTGGTTTCGGGAGCATTGGGCTGAGGAGCCTTAGCT
TCAGGGGCCTTAGCAGTTGTTTTAGCTGGTTCAGGAGCCTTAGATTCAGAAGCCTTAGCAGTTGT
TTTAGCCGGTTCAGGAGCCTTGACCGCCTCAGAAGCCTTAGCAGGCTCAGGAGCCTTGGGTTCGG
GAGCCTTCTTAGCAGCCCCCTGAGTTTTCCCGTTCGTGGTGGGCTTGGCACTGTTCTGAATACTG
TCCACCTGGGTGGGTTCCTCCGGAGCCGGTTCAGCAGTCTTTCTAGCGGCCTCCGCCTTCAGTGC
CTTGGCCTTCGCAGGCTCAGCCTTCTTCAGAGGCAGAGAAGGCACCTTAGCAAGAGCTTTTGCAG
GAGCTTTCGCAACTGGCTTCGTAGGCAGCGCTGCAACAGGCTTTG
Right flanking sequence: Indices 22021 -- 22520
CTGCTCCCTTCTCTCCCTTCTCGCCCTTCTCGCCCTTCTTCCGGTTCACGGGCGTGGGCGTCACC
TCCTGCGACGGCGACGGCTCGGGCGTCGTCTCCTGGGCGTTCTTCGCGTGCTGGAGCTCGGGAAT
CGCGCCCGGTGCCATCGCCGGCCGCTTGCGCACCTTGGGGTTCGCAAGCTCCTTCGCAGACAGCT
TGCGCGACCCCAGGTTCGACACCACCCCGTCGAACGAGTCGTCGGGCCGGGTGTCGTCCTCGTCG
TCGCTGAAAATGCCCTTGGCATCGACAAAAGGCACCCGCAGCGTCATCATCTCCTCGACCATGCG
CATTTTCTTGACCTTGCGCGGCAGCTCCTCGTCCTCCGCCGGCCGTTTCTTCACCACGTCCACGT
CCTGGGGAAGCCGGAGCCCCACGTACGCCGCCAGCTGGATCTCCGCCTCCGGATCCGGGTCAAAC
AAGTGCGATGCCGCCTTCACCTTCTTTGGCGGACACGTTTGCGCC
Found at i:22047 original size:9 final size:9
Alignment explanation
Indices: 22026--22059 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
22016 TCCCTCTGCT
*
22026 CCCTTCTCT
1 CCCTTCTCG
22035 CCCTTCTCG
1 CCCTTCTCG
22044 CCCTTCTCG
1 CCCTTCTCG
22053 CCCTTCT
1 CCCTTCT
22060 TCCGGTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.56, G:0.06, T:0.38
Consensus pattern (9 bp):
CCCTTCTCG
Left flanking sequence: Indices 21526 -- 22025
AGGACGAGTCGTCCAGGGAGTCGGAGTCCAGCAGACTGGAGTCGGAGGCCGCGGAAGTCGTGGTT
TCGGGAGCATTGGGCTGAGGAGCCTTAGCTTCAGGGGCCTTAGCAGTTGTTTTAGCTGGTTCAGG
AGCCTTAGATTCAGAAGCCTTAGCAGTTGTTTTAGCCGGTTCAGGAGCCTTGACCGCCTCAGAAG
CCTTAGCAGGCTCAGGAGCCTTGGGTTCGGGAGCCTTCTTAGCAGCCCCCTGAGTTTTCCCGTTC
GTGGTGGGCTTGGCACTGTTCTGAATACTGTCCACCTGGGTGGGTTCCTCCGGAGCCGGTTCAGC
AGTCTTTCTAGCGGCCTCCGCCTTCAGTGCCTTGGCCTTCGCAGGCTCAGCCTTCTTCAGAGGCA
GAGAAGGCACCTTAGCAAGAGCTTTTGCAGGAGCTTTCGCAACTGGCTTCGTAGGCAGCGCTGCA
ACAGGCTTTGCTCCCTGCTCTACTCCCTTCTCTACTCCCTCTGCT
Right flanking sequence: Indices 22060 -- 22559
TCCGGTTCACGGGCGTGGGCGTCACCTCCTGCGACGGCGACGGCTCGGGCGTCGTCTCCTGGGCG
TTCTTCGCGTGCTGGAGCTCGGGAATCGCGCCCGGTGCCATCGCCGGCCGCTTGCGCACCTTGGG
GTTCGCAAGCTCCTTCGCAGACAGCTTGCGCGACCCCAGGTTCGACACCACCCCGTCGAACGAGT
CGTCGGGCCGGGTGTCGTCCTCGTCGTCGCTGAAAATGCCCTTGGCATCGACAAAAGGCACCCGC
AGCGTCATCATCTCCTCGACCATGCGCATTTTCTTGACCTTGCGCGGCAGCTCCTCGTCCTCCGC
CGGCCGTTTCTTCACCACGTCCACGTCCTGGGGAAGCCGGAGCCCCACGTACGCCGCCAGCTGGA
TCTCCGCCTCCGGATCCGGGTCAAACAAGTGCGATGCCGCCTTCACCTTCTTTGGCGGACACGTT
TGCGCCTCGAGCTGGAGCAACTCGGCCACGGGCGCGATGTGCGCC
Found at i:23898 original size:13 final size:13
Alignment explanation
Indices: 23880--23936 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
23870 GCGAAATGTG
23880 GTGGGTGGAGGAA
1 GTGGGTGGAGGAA
*
23893 GTGGGTGAAGGAA
1 GTGGGTGGAGGAA
23906 GTGGGTGCG-GGAA
1 GTGGGTG-GAGGAA
*
23919 GT-GGTGGAAGGGA
1 GTGGGTGG-AGGAA
23932 GTGGG
1 GTGGG
23937 CGAGGGGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.03
12 4 0.11
13 30 0.81
14 2 0.05
ACGTcount: A:0.21, C:0.02, G:0.61, T:0.16
Consensus pattern (13 bp):
GTGGGTGGAGGAA
Left flanking sequence: Indices 23380 -- 23879
CGCAGATGCCCATGGTGACGGTGCGGGGATTGTGGACCATGGTGACCTCGGAGAGCGAAAACACG
TCCTGCGGCAGGTACCCGGCGAACGCGGTGGCCGCTAGCCGCTCGCGCTCGCGGGCCAGGTTCAT
CAGGAACGGGACGTCCTCGAGGGCCACCGGCAGGTACGAGTCCTCGATGAACAACGGGAACACCC
TGCGCAACTGCTTGAGGGTCTCGGAGACGAACGCCTGCGGCACCGTGCCCACGGTTTGGCGTTTG
CGGACGAGGAAGTCGGTGATCGCGGCCAGGGCCATCGCTGGCAGGGCCTTGGCGCGGGTCTTGGG
CTCGGCACGCACCAGCAGCGCCCACATCTGGCGCAGGAGGCCCAAGAGGGCTGGGTAGTGGTCGC
CATTGAACTCGGGATCGGTCACTTGGCGGTAGTGGTACTCGTCTAGCGCGCCAAGCACCTCGGTC
TGGGAGAGCATCGGTTGTTTATTCGTGCGAAGATCGCGAAATGTG
Right flanking sequence: Indices 23937 -- 24436
CGAGGGGAGAAAATGGTTTCTGGGATAGCTTTGGTTATGGGTGTGTTCAATGGTGTGTTTACTGG
TGTGTTTACTGGTGTGTTTACTGGTGTTTACTGGTTTTTGGATGGTCGTAGAGTGGTACTAGGTA
GGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACG
GGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAG
TCTCCGACACGGTTATCACACGTACGCACACGAGGATAAACAGGGTAATCCCATACGAGCTGGCT
TGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTT
CAGGACACTGACAATCGGTGTCTGACACAGAAGTAAAACGTCGAATACGTCAGACAGTTAACGGA
CCTGAAACAGTCTACATCAAGACAGTAGTAATTACGACACACCCA
Found at i:23909 original size:26 final size:26
Alignment explanation
Indices: 23880--23936 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
23870 GCGAAATGTG
23880 GTGGGTG-GAGGAAGTGG-GTGAAGGAA
1 GTGGGTGCG-GGAAGTGGTG-GAAGGAA
*
23906 GTGGGTGCGGGAAGTGGTGGAAGGGA
1 GTGGGTGCGGGAAGTGGTGGAAGGAA
23932 GTGGG
1 GTGGG
23937 CGAGGGGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.61, T:0.16
Consensus pattern (26 bp):
GTGGGTGCGGGAAGTGGTGGAAGGAA
Left flanking sequence: Indices 23380 -- 23879
CGCAGATGCCCATGGTGACGGTGCGGGGATTGTGGACCATGGTGACCTCGGAGAGCGAAAACACG
TCCTGCGGCAGGTACCCGGCGAACGCGGTGGCCGCTAGCCGCTCGCGCTCGCGGGCCAGGTTCAT
CAGGAACGGGACGTCCTCGAGGGCCACCGGCAGGTACGAGTCCTCGATGAACAACGGGAACACCC
TGCGCAACTGCTTGAGGGTCTCGGAGACGAACGCCTGCGGCACCGTGCCCACGGTTTGGCGTTTG
CGGACGAGGAAGTCGGTGATCGCGGCCAGGGCCATCGCTGGCAGGGCCTTGGCGCGGGTCTTGGG
CTCGGCACGCACCAGCAGCGCCCACATCTGGCGCAGGAGGCCCAAGAGGGCTGGGTAGTGGTCGC
CATTGAACTCGGGATCGGTCACTTGGCGGTAGTGGTACTCGTCTAGCGCGCCAAGCACCTCGGTC
TGGGAGAGCATCGGTTGTTTATTCGTGCGAAGATCGCGAAATGTG
Right flanking sequence: Indices 23937 -- 24436
CGAGGGGAGAAAATGGTTTCTGGGATAGCTTTGGTTATGGGTGTGTTCAATGGTGTGTTTACTGG
TGTGTTTACTGGTGTGTTTACTGGTGTTTACTGGTTTTTGGATGGTCGTAGAGTGGTACTAGGTA
GGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACG
GGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAG
TCTCCGACACGGTTATCACACGTACGCACACGAGGATAAACAGGGTAATCCCATACGAGCTGGCT
TGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTT
CAGGACACTGACAATCGGTGTCTGACACAGAAGTAAAACGTCGAATACGTCAGACAGTTAACGGA
CCTGAAACAGTCTACATCAAGACAGTAGTAATTACGACACACCCA
Found at i:24004 original size:10 final size:12
Alignment explanation
Indices: 23976--24036 Score: 90
Period size: 12 Copynumber: 5.2 Consensus size: 12
23966 TTTGGTTATG
* *
23976 GGTGTGTTCAAT
1 GGTGTGTTTACT
23988 GGTGTGTTTACT
1 GGTGTGTTTACT
24000 GGTGTGTTTACT
1 GGTGTGTTTACT
24012 GGTGTGTTTACT
1 GGTGTGTTTACT
24024 -G-GTGTTTACT
1 GGTGTGTTTACT
24034 GGT
1 GGT
24037 TTTTGGATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.20
11 2 0.04
12 34 0.76
ACGTcount: A:0.10, C:0.08, G:0.34, T:0.48
Consensus pattern (12 bp):
GGTGTGTTTACT
Left flanking sequence: Indices 23476 -- 23975
CCGCTAGCCGCTCGCGCTCGCGGGCCAGGTTCATCAGGAACGGGACGTCCTCGAGGGCCACCGGC
AGGTACGAGTCCTCGATGAACAACGGGAACACCCTGCGCAACTGCTTGAGGGTCTCGGAGACGAA
CGCCTGCGGCACCGTGCCCACGGTTTGGCGTTTGCGGACGAGGAAGTCGGTGATCGCGGCCAGGG
CCATCGCTGGCAGGGCCTTGGCGCGGGTCTTGGGCTCGGCACGCACCAGCAGCGCCCACATCTGG
CGCAGGAGGCCCAAGAGGGCTGGGTAGTGGTCGCCATTGAACTCGGGATCGGTCACTTGGCGGTA
GTGGTACTCGTCTAGCGCGCCAAGCACCTCGGTCTGGGAGAGCATCGGTTGTTTATTCGTGCGAA
GATCGCGAAATGTGGTGGGTGGAGGAAGTGGGTGAAGGAAGTGGGTGCGGGAAGTGGTGGAAGGG
AGTGGGCGAGGGGAGAAAATGGTTTCTGGGATAGCTTTGGTTATG
Right flanking sequence: Indices 24037 -- 24536
TTTTGGATGGTCGTAGAGTGGTACTAGGTAGGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTC
AATGGTAGAGTAGCGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGA
GGGTGCTCCGAGCCCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCACACGAGG
ATAAACAGGGTAATCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGT
CAACGAGCCTTTGCGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACACAGAAGTA
AAACGTCGAATACGTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAGTAATTAC
GACACACCCAGACCCACGAGGCTTAACACAACCCCACCACACAGAACGTCCACCCGACACAGAGC
TCCTACCAGATGCAGAGCTTCTACCAGATGCAGAGCTTCTACTAG
Found at i:24574 original size:34 final size:34
Alignment explanation
Indices: 24485--24590 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
24475 TCCACCCGAC
** *
24485 ACAGAGC-TCCTACCAGATGCAGAGCTTCTACCAG
1 ACAGAGCTTCC-ACCAGACACAGAGCTTCCACCAG
* * *
24519 ATGCAGAGCTTCTACTAGACACATAGCTTCCACCAG
1 A--CAGAGCTTCCACCAGACACAGAGCTTCCACCAG
* * *
24555 ACAGAGCTTCCACCGGACACAGACCTTCCAACAG
1 ACAGAGCTTCCACCAGACACAGAGCTTCCACCAG
24589 AC
1 AC
24591 TCAGAACCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
34 30 0.53
36 25 0.44
37 2 0.04
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (34 bp):
ACAGAGCTTCCACCAGACACAGAGCTTCCACCAG
Left flanking sequence: Indices 23985 -- 24484
AATGGTGTGTTTACTGGTGTGTTTACTGGTGTGTTTACTGGTGTTTACTGGTTTTTGGATGGTCG
TAGAGTGGTACTAGGTAGGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTCAATGGTAGAGTAG
CGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGAGGGTGCTCCGAGC
CCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCACACGAGGATAAACAGGGTAA
TCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGTCAACGAGCCTTTG
CGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACACAGAAGTAAAACGTCGAATAC
GTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAGTAATTACGACACACCCAGAC
CCACGAGGCTTAACACAACCCCACCACACAGAACGTCCACCCGAC
Right flanking sequence: Indices 24591 -- 25090
TCAGAACCTCCACTAGCTACTCCTTCTCCACCATCTACTCCTTCTCCACCTACCACAACTCCCCC
CTACACTCTTCCTTCCGATCCGTTCTATTATACAATGCTAATCTAGGCCACCGCCACGGGGGCGG
CCAACCTCTCAAACAACGGCTCCTTGCGCCGCAACACCTTTTTGGCGTCGTAGTTGCTCGTCTTG
ACCAACTTGAAACTGCCGGTCCCCACACTCATCGTCTGGCCCAAAATAATGCACTCGGACACCCC
CTCGACCTTGTCGGACTTCAAGTAGAACGCAGCGTCAAACAAGTGGTCGGTGGTCTTCTCGAACG
ACGCCAACTGCAACACCGAGTCCCGCATCTTCGAGAGACCGAAACGAGTAATACCAAGCACCTCG
CCCTTGTAGGTCATCACGTCACCCAACAACTGGATGTGCCGGGGATCCACACTCATCCCGTGGTT
ACTCATGGTGTAGTCGATCTCGTGGATGATCAGCGCCCGCGCAGC
Found at i:24576 original size:18 final size:18
Alignment explanation
Indices: 24465--24595 Score: 97
Period size: 18 Copynumber: 7.4 Consensus size: 18
24455 CAACCCCACC
* * *
24465 ACACAGAACGTCCACCCG
1 ACACAGAGCTTCCACCAG
24483 ACACAGAGC-TCCTACCAG
1 ACACAGAGCTTCC-ACCAG
** *
24501 ATGCAGAGCTTCTACCAG
1 ACACAGAGCTTCCACCAG
** * *
24519 ATGCAGAGCTTCTACTAG
1 ACACAGAGCTTCCACCAG
*
24537 ACACATAGCTTCCACCAG
1 ACACAGAGCTTCCACCAG
*
24555 --ACAGAGCTTCCACCGG
1 ACACAGAGCTTCCACCAG
* *
24571 ACACAGACCTTCCAACAG
1 ACACAGAGCTTCCACCAG
*
24589 ACTCAGA
1 ACACAGA
24596 ACCTCCACTA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
16 14 0.15
17 3 0.03
18 73 0.79
19 2 0.02
ACGTcount: A:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (18 bp):
ACACAGAGCTTCCACCAG
Left flanking sequence: Indices 23965 -- 24464
CTTTGGTTATGGGTGTGTTCAATGGTGTGTTTACTGGTGTGTTTACTGGTGTGTTTACTGGTGTT
TACTGGTTTTTGGATGGTCGTAGAGTGGTACTAGGTAGGGTGGAAAAGACGTGTTTGGGCTGGTT
TCGAGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCG
ACTCCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCA
CACGAGGATAAACAGGGTAATCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCG
GACAAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACAC
AGAAGTAAAACGTCGAATACGTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAG
TAATTACGACACACCCAGACCCACGAGGCTTAACACAACCCCACC
Right flanking sequence: Indices 24596 -- 25095
ACCTCCACTAGCTACTCCTTCTCCACCATCTACTCCTTCTCCACCTACCACAACTCCCCCCTACA
CTCTTCCTTCCGATCCGTTCTATTATACAATGCTAATCTAGGCCACCGCCACGGGGGCGGCCAAC
CTCTCAAACAACGGCTCCTTGCGCCGCAACACCTTTTTGGCGTCGTAGTTGCTCGTCTTGACCAA
CTTGAAACTGCCGGTCCCCACACTCATCGTCTGGCCCAAAATAATGCACTCGGACACCCCCTCGA
CCTTGTCGGACTTCAAGTAGAACGCAGCGTCAAACAAGTGGTCGGTGGTCTTCTCGAACGACGCC
AACTGCAACACCGAGTCCCGCATCTTCGAGAGACCGAAACGAGTAATACCAAGCACCTCGCCCTT
GTAGGTCATCACGTCACCCAACAACTGGATGTGCCGGGGATCCACACTCATCCCGTGGTTACTCA
TGGTGTAGTCGATCTCGTGGATGATCAGCGCCCGCGCAGCCTCGA
Found at i:24619 original size:18 final size:18
Alignment explanation
Indices: 24598--24640 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
24588 GACTCAGAAC
*
24598 CTCCACTAGCTACTCCTT
1 CTCCACCAGCTACTCCTT
*
24616 CTCCACCATCTACTCCTT
1 CTCCACCAGCTACTCCTT
24634 CTCCACC
1 CTCCACC
24641 TACCACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.51, G:0.02, T:0.30
Consensus pattern (18 bp):
CTCCACCAGCTACTCCTT
Left flanking sequence: Indices 24098 -- 24597
AGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCGACT
CCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCACAC
GAGGATAAACAGGGTAATCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCGGAC
AAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACACAGA
AGTAAAACGTCGAATACGTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAGTAA
TTACGACACACCCAGACCCACGAGGCTTAACACAACCCCACCACACAGAACGTCCACCCGACACA
GAGCTCCTACCAGATGCAGAGCTTCTACCAGATGCAGAGCTTCTACTAGACACATAGCTTCCACC
AGACAGAGCTTCCACCGGACACAGACCTTCCAACAGACTCAGAAC
Right flanking sequence: Indices 24641 -- 25140
TACCACAACTCCCCCCTACACTCTTCCTTCCGATCCGTTCTATTATACAATGCTAATCTAGGCCA
CCGCCACGGGGGCGGCCAACCTCTCAAACAACGGCTCCTTGCGCCGCAACACCTTTTTGGCGTCG
TAGTTGCTCGTCTTGACCAACTTGAAACTGCCGGTCCCCACACTCATCGTCTGGCCCAAAATAAT
GCACTCGGACACCCCCTCGACCTTGTCGGACTTCAAGTAGAACGCAGCGTCAAACAAGTGGTCGG
TGGTCTTCTCGAACGACGCCAACTGCAACACCGAGTCCCGCATCTTCGAGAGACCGAAACGAGTA
ATACCAAGCACCTCGCCCTTGTAGGTCATCACGTCACCCAACAACTGGATGTGCCGGGGATCCAC
ACTCATCCCGTGGTTACTCATGGTGTAGTCGATCTCGTGGATGATCAGCGCCCGCGCAGCCTCGA
TGCCGAGCACCAGCATACACTCGAGCACGTGGTTGGTCAGCGTCT
Found at i:28706 original size:21 final size:22
Alignment explanation
Indices: 28672--28712 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
28662 AGTTTGACGT
28672 GGCCAAAGTGGCCGTGGCACAG
1 GGCCAAAGTGGCCGTGGCACAG
*
28694 GGCC-AAGTTGCCGTGGCAC
1 GGCCAAAGTGGCCGTGGCAC
28713 GTGGCACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.20, C:0.29, G:0.39, T:0.12
Consensus pattern (22 bp):
GGCCAAAGTGGCCGTGGCACAG
Left flanking sequence: Indices 28172 -- 28671
CATCCCGAGCAAGAGACAGTCGGCGCTCAGCACCTGTTTGAACAAGTTGAGCACCTTCAACGGGT
TCAAGTCGTCCATCACCCGCTTGGCAAACTTCTCGAGCTCAGGGTTGCGGTACCACACCTCCTCA
AACTCCTTGTCCCACTTTTCCTTTTCCGGAGTGGGCTTTTTCCCGATCCACCGGAAGGTGTCGTG
GACGATCTTGAGGCCGGCGGGGCCCAGCAGCCCCAGGGCAGCCTTCTTGACCACGCCCTGCACGT
GGTTGCACTTGAAGCACCGCCGGGTCTTTTTGCACTGGTCGACGATCTTCTTGAGGGCCTTCATC
CGGCGCAAATTGTCGGCTCCCGGGCCGGTGGTGCACCGCTCAAGCTCTTTGCCAAGCGTTTTGCG
GTGGGTGTCGTCAAGCAACACCGCTCCACAGTTCTTGCAAATCTGCTGCAAGATCTGGATGATCT
GCTTGAAATATCCGACATGGAACACCGGGAGCGCAAGTTTGACGT
Right flanking sequence: Indices 28713 -- 29212
GTGGCACACTCCATCAGGTTCGACAGGATCCCCATGTGGGTGTCGAGGGCTCCGTGGACCAGCGG
GACACGGCCCTTGTCGAGGTCGTACAAGTCACGGGTGGTGACCTCGACCTCGGACTGGGCAACGA
TGTCACGCGTGGCTAGCGCCCCGAAATCGAGCCCCTTGATGCACTTGGGCGGCTCGTCCACCACC
ACTTCCTTCATCGCAGCTGTGATCTCGGGATGCGATGCGCGGTTGGTATATAGGTGTGGGGCGTG
CGCGGCACAAAACGGGTGGGGTGGTGTAGCGGGACGGGAGGTGGTGGCAGGGGGTATGGGCGTGG
TGGGTGTGGTGGTGGGTGGTGGCTGAGCCGTGTCGTGTTGGGCTGGTGGAAATTGGTCGTGTGTG
GGTGGAGATGTAGGAGGAGATGTGGGTGGTGGATGAGAAGCGGTGGGGAGAGTAGGGGGCGGCTG
GGCGGCTGATCTGGGTCCAGTGGCGGGCCCAGTGGGTTTGTGGCT
Found at i:31869 original size:7 final size:7
Alignment explanation
Indices: 31843--31924 Score: 71
Period size: 7 Copynumber: 11.9 Consensus size: 7
31833 TCAGGCAGTA
31843 ACCACAC
1 ACCACAC
31850 ACC-CAC
1 ACCACAC
*
31856 TACCCACGC
1 -A-CCACAC
*
31865 ACCACGC
1 ACCACAC
* *
31872 ACTACCC
1 ACCACAC
31879 ACCACAC
1 ACCACAC
*
31886 ACCTCAC
1 ACCACAC
31893 ACCACAC
1 ACCACAC
31900 ACCAC-C
1 ACCACAC
*
31906 ACAACAC
1 ACCACAC
31913 ACCAC-C
1 ACCACAC
31919 ACCACA
1 ACCACA
31925 TAACCACACC
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
6 14 0.23
7 42 0.69
8 3 0.05
9 2 0.03
ACGTcount: A:0.37, C:0.57, G:0.02, T:0.04
Consensus pattern (7 bp):
ACCACAC
Left flanking sequence: Indices 31343 -- 31842
CGCATCACCTTGATGTCGTTGTCCAAGAGCTTGGTACGGTTGACAATGTCCTCCGTCAGCAGCTG
GAGAATCTCGTTGAGCAATTCGTCGTCCTCGGACATGGTGGTAGGGTTAGTGGCGACAGTGGCGT
TTTTCGGTGTGCGCGGCGAGCCGCACGGGGGCGGCGCGGGACGTGGAGAATAAAAAGGTGATGAT
TTAGAGTCTGGTGCTTGCGTCTGGTGTGTCTGGTAGTGACTGCTGGAGAGAAGGGGCTTGTACCT
AGGGGGGTTTGGGGTGGACCACCATGGTGGGCGTTTCATCTTGCAAGTGTCTATATGCAGGCCAA
GGATATCCTGCAAACATGGTCCCAACGTAGTGGCCCTAGAGGGGTGTTGCGAGAAAATGAAAGTC
ACGATTAAGTTTCAGAGCTTTCAAGAAGGCGCCCAGACGTTGTCTCTTCTCCCAAAACGTCCTAT
CCAGCATTTTACCCGTTTCAACATCCATTCAATTTTCAGGCAGTA
Right flanking sequence: Indices 31925 -- 32424
TAACCACACCTCTCTACACACCCTCTCTCATTGCCTTTATTCTATACATACCGGTGACACATTTT
CCGTGCTTCCCAGATCGCTCACCTGCGTCAGCCGCACGTGGCTGCAAACTGCAAACGGAAATCAC
CCCATCCACCCGTTGCCGCTCCACCAGTTGTTGATGTGTCCGTAAAACCCCTTCACCCCGTCAAT
CACCCCGTCGGTGACCCCGCCAACCGTCTCGCCCACGGTCTTCGCCGGCGGGTTGCGGTACAAGT
AGTCGTAGGTGTTGTTGGTGTGCACCAAGTGCTCGACCTCAAAGTCAAGTCCAGGGTACACCGAC
TCGTCGTGCCAGCCCGAGGGCAACCGCGTCAACACCCTGGTGCCGTTGTTGGGCGCCGGGTTCAA
CCCGAGCGAGTCGCACACCACCGCGTACACGTTGGTGTTCTCAAACGGCTCCATTTTGAGCGGGT
ACCGGTTCAGCGAGAAGTAGGGGCCCTCGGCCATGAAAATCGCCC
Found at i:31934 original size:16 final size:15
Alignment explanation
Indices: 31881--31924 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
31871 CACTACCCAC
* *
31881 CACACACC-TCACAC
1 CACACACCACCACAA
31895 CACACACCACCACAA
1 CACACACCACCACAA
31910 CACACCACCACCACA
1 CACA-CACCACCACA
31925 TAACCACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 8 0.31
15 8 0.31
16 10 0.38
ACGTcount: A:0.41, C:0.57, G:0.00, T:0.02
Consensus pattern (15 bp):
CACACACCACCACAA
Left flanking sequence: Indices 31381 -- 31880
GTTGACAATGTCCTCCGTCAGCAGCTGGAGAATCTCGTTGAGCAATTCGTCGTCCTCGGACATGG
TGGTAGGGTTAGTGGCGACAGTGGCGTTTTTCGGTGTGCGCGGCGAGCCGCACGGGGGCGGCGCG
GGACGTGGAGAATAAAAAGGTGATGATTTAGAGTCTGGTGCTTGCGTCTGGTGTGTCTGGTAGTG
ACTGCTGGAGAGAAGGGGCTTGTACCTAGGGGGGTTTGGGGTGGACCACCATGGTGGGCGTTTCA
TCTTGCAAGTGTCTATATGCAGGCCAAGGATATCCTGCAAACATGGTCCCAACGTAGTGGCCCTA
GAGGGGTGTTGCGAGAAAATGAAAGTCACGATTAAGTTTCAGAGCTTTCAAGAAGGCGCCCAGAC
GTTGTCTCTTCTCCCAAAACGTCCTATCCAGCATTTTACCCGTTTCAACATCCATTCAATTTTCA
GGCAGTAACCACACACCCACTACCCACGCACCACGCACTACCCAC
Right flanking sequence: Indices 31925 -- 32424
TAACCACACCTCTCTACACACCCTCTCTCATTGCCTTTATTCTATACATACCGGTGACACATTTT
CCGTGCTTCCCAGATCGCTCACCTGCGTCAGCCGCACGTGGCTGCAAACTGCAAACGGAAATCAC
CCCATCCACCCGTTGCCGCTCCACCAGTTGTTGATGTGTCCGTAAAACCCCTTCACCCCGTCAAT
CACCCCGTCGGTGACCCCGCCAACCGTCTCGCCCACGGTCTTCGCCGGCGGGTTGCGGTACAAGT
AGTCGTAGGTGTTGTTGGTGTGCACCAAGTGCTCGACCTCAAAGTCAAGTCCAGGGTACACCGAC
TCGTCGTGCCAGCCCGAGGGCAACCGCGTCAACACCCTGGTGCCGTTGTTGGGCGCCGGGTTCAA
CCCGAGCGAGTCGCACACCACCGCGTACACGTTGGTGTTCTCAAACGGCTCCATTTTGAGCGGGT
ACCGGTTCAGCGAGAAGTAGGGGCCCTCGGCCATGAAAATCGCCC
Found at i:35306 original size:14 final size:14
Alignment explanation
Indices: 35287--35322 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
35277 TGAGCAGATC
35287 ATTCGGTTAAATCT
1 ATTCGGTTAAATCT
35301 ATTCGGTTAAATCT
1 ATTCGGTTAAATCT
*
35315 ATTTGGTT
1 ATTCGGTT
35323 GAAGTGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (14 bp):
ATTCGGTTAAATCT
Left flanking sequence: Indices 34787 -- 35286
CATTGTTCCTCGGAAACACCGTCGATCAGGGCCTTCCACCGTGTGGGAAGTCCGCAAGTGGGGGC
GGCGTCCGCCGTGCTGCCCGTGCAGATTCTCGAGTATAATTAGTTTCACGAGAGAAGGGTCGGTC
CCGAGGAGTGTCCGGCCGGTGGGCCACGCCCGCCTGAGCAATCGAGCCGTCTACAAAAAGTCGGG
GCGGGTAAGCTGCCAATTACCACCCGCGCGCAGATCGGGTGCCCCGCGATCTCAGATCGGGAGCT
ATCGGGCCCGTGTATCTCGTATTTGCGTATCCCAACGTGCCATGGTATTTTTAACCTCCACTGTG
CGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCGAAGCTGGGCAGGCGGAAGTGATGCGT
TATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGCCGTGAGGCATGGCGTTACGGTGGTGG
TGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAGCAGATC
Right flanking sequence: Indices 35323 -- 35822
GAAGTGTAATCGGTTGATTTAATTCGGATAATGTTGTCAGCAAGGAAATACCGAGATAGCCGTAG
CCAAGAATAGTCAGGTACTAGTAACCGGTTAGTCAGAAACCACCTAAGCACCTAGCCAAGTAACC
ACCTAATCAAGGAGCCACCAAACTACCTGACACACTATCACACCCACCCGCCTAACCTAGCTAAC
ACAAAATCACCTACCCAAATCACCTACCCAAATCACCTACCCACCTTATCTAACTGTCTGACGTA
ATCACCAAATCTATCGCACTCACCAAACCACCAAACCACCAACCATCAAGCCACCAACCATTAAA
CCACCACCTTCAAACCACCCAACTACATAACCACCCCCCACACATTCACCCCTACACCCCTTAGC
TACTATCACCCTCCCTTCCCTCCCCCGTCTTCCCCCTTCTCCCCCTCGCCTTATCCCGTACCCCT
CCTTTCCTGNCCCCCACCGTTGCCACTAGAGTGCGCATCGGGCTC
Found at i:35539 original size:13 final size:13
Alignment explanation
Indices: 35521--35560 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
35511 AGCTAACACA
35521 AAATCACCTACCC
1 AAATCACCTACCC
35534 AAATCACCTACCC
1 AAATCACCTACCC
35547 AAATCACCTACCC
1 AAATCACCTACCC
35560 A
1 A
35561 CCTTATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATCACCTACCC
Left flanking sequence: Indices 35021 -- 35520
TGCCCCGCGATCTCAGATCGGGAGCTATCGGGCCCGTGTATCTCGTATTTGCGTATCCCAACGTG
CCATGGTATTTTTAACCTCCACTGTGCGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCG
AAGCTGGGCAGGCGGAAGTGATGCGTTATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGC
CGTGAGGCATGGCGTTACGGTGGTGGTGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAG
CAGATCATTCGGTTAAATCTATTCGGTTAAATCTATTTGGTTGAAGTGTAATCGGTTGATTTAAT
TCGGATAATGTTGTCAGCAAGGAAATACCGAGATAGCCGTAGCCAAGAATAGTCAGGTACTAGTA
ACCGGTTAGTCAGAAACCACCTAAGCACCTAGCCAAGTAACCACCTAATCAAGGAGCCACCAAAC
TACCTGACACACTATCACACCCACCCGCCTAACCTAGCTAACACA
Right flanking sequence: Indices 35561 -- 36060
CCTTATCTAACTGTCTGACGTAATCACCAAATCTATCGCACTCACCAAACCACCAAACCACCAAC
CATCAAGCCACCAACCATTAAACCACCACCTTCAAACCACCCAACTACATAACCACCCCCCACAC
ATTCACCCCTACACCCCTTAGCTACTATCACCCTCCCTTCCCTCCCCCGTCTTCCCCCTTCTCCC
CCTCGCCTTATCCCGTACCCCTCCTTTCCTGNCCCCCACCGTTGCCACTAGAGTGCGCATCGGGC
TCCGAAACCGCCATGCTTCGCCAACTCAGACCGCTTTTGCCGCGGGCTCGCGGCCTCGCCACCAC
CACCTTGGACAACGGGCTCACGGTGTGCCTGGAGGTGATGCCGGGCACCCGCACCGCCACCGTGG
GCGTGTGGATCAACGCCGGGCTGCGCGGCGACACCACCGCCAACCTGGGCACCGCCCACTTTTTG
GAGCACTTGGCGTTCAAGGGCACCAACCGCCGCAACCAGCGCCAG
Found at i:35616 original size:8 final size:8
Alignment explanation
Indices: 35603--35653 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
35593 CTATCGCACT
35603 CACCAAAC
1 CACCAAAC
35611 CACCAAAC
1 CACCAAAC
35619 CACC-AAC
1 CACCAAAC
* *
35626 CATCAAGC
1 CACCAAAC
35634 CACC-AAC
1 CACCAAAC
**
35641 CATTAAAC
1 CACCAAAC
35649 CACCA
1 CACCA
35654 CCTTCAAACC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 10 0.30
8 23 0.70
ACGTcount: A:0.45, C:0.47, G:0.02, T:0.06
Consensus pattern (8 bp):
CACCAAAC
Left flanking sequence: Indices 35103 -- 35602
TCCACTGTGCGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCGAAGCTGGGCAGGCGGAA
GTGATGCGTTATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGCCGTGAGGCATGGCGTTA
CGGTGGTGGTGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAGCAGATCATTCGGTTAAA
TCTATTCGGTTAAATCTATTTGGTTGAAGTGTAATCGGTTGATTTAATTCGGATAATGTTGTCAG
CAAGGAAATACCGAGATAGCCGTAGCCAAGAATAGTCAGGTACTAGTAACCGGTTAGTCAGAAAC
CACCTAAGCACCTAGCCAAGTAACCACCTAATCAAGGAGCCACCAAACTACCTGACACACTATCA
CACCCACCCGCCTAACCTAGCTAACACAAAATCACCTACCCAAATCACCTACCCAAATCACCTAC
CCACCTTATCTAACTGTCTGACGTAATCACCAAATCTATCGCACT
Right flanking sequence: Indices 35654 -- 36153
CCTTCAAACCACCCAACTACATAACCACCCCCCACACATTCACCCCTACACCCCTTAGCTACTAT
CACCCTCCCTTCCCTCCCCCGTCTTCCCCCTTCTCCCCCTCGCCTTATCCCGTACCCCTCCTTTC
CTGNCCCCCACCGTTGCCACTAGAGTGCGCATCGGGCTCCGAAACCGCCATGCTTCGCCAACTCA
GACCGCTTTTGCCGCGGGCTCGCGGCCTCGCCACCACCACCTTGGACAACGGGCTCACGGTGTGC
CTGGAGGTGATGCCGGGCACCCGCACCGCCACCGTGGGCGTGTGGATCAACGCCGGGCTGCGCGG
CGACACCACCGCCAACCTGGGCACCGCCCACTTTTTGGAGCACTTGGCGTTCAAGGGCACCAACC
GCCGCAACCAGCGCCAGTTGGAGCTCGAGATCGAAAACTTGGGCTCGCAGATCAACGCCTACACC
CTGCGCGAGAACACCGTCTACTACACCAAGTGCTTGAACCGCGAC
Found at i:35636 original size:15 final size:15
Alignment explanation
Indices: 35603--35666 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
35593 CTATCGCACT
*
35603 CACCAAACCACCAAAC
1 CACC-AACCATCAAAC
*
35619 CACCAACCATCAAGC
1 CACCAACCATCAAAC
*
35634 CACCAACCATTAAAC
1 CACCAACCATCAAAC
*
35649 CACC-ACCTTCAAAC
1 CACCAACCATCAAAC
35663 CACC
1 CACC
35667 CAACTACATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.29
15 26 0.62
16 4 0.10
ACGTcount: A:0.42, C:0.48, G:0.02, T:0.08
Consensus pattern (15 bp):
CACCAACCATCAAAC
Left flanking sequence: Indices 35103 -- 35602
TCCACTGTGCGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCGAAGCTGGGCAGGCGGAA
GTGATGCGTTATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGCCGTGAGGCATGGCGTTA
CGGTGGTGGTGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAGCAGATCATTCGGTTAAA
TCTATTCGGTTAAATCTATTTGGTTGAAGTGTAATCGGTTGATTTAATTCGGATAATGTTGTCAG
CAAGGAAATACCGAGATAGCCGTAGCCAAGAATAGTCAGGTACTAGTAACCGGTTAGTCAGAAAC
CACCTAAGCACCTAGCCAAGTAACCACCTAATCAAGGAGCCACCAAACTACCTGACACACTATCA
CACCCACCCGCCTAACCTAGCTAACACAAAATCACCTACCCAAATCACCTACCCAAATCACCTAC
CCACCTTATCTAACTGTCTGACGTAATCACCAAATCTATCGCACT
Right flanking sequence: Indices 35667 -- 36166
CAACTACATAACCACCCCCCACACATTCACCCCTACACCCCTTAGCTACTATCACCCTCCCTTCC
CTCCCCCGTCTTCCCCCTTCTCCCCCTCGCCTTATCCCGTACCCCTCCTTTCCTGNCCCCCACCG
TTGCCACTAGAGTGCGCATCGGGCTCCGAAACCGCCATGCTTCGCCAACTCAGACCGCTTTTGCC
GCGGGCTCGCGGCCTCGCCACCACCACCTTGGACAACGGGCTCACGGTGTGCCTGGAGGTGATGC
CGGGCACCCGCACCGCCACCGTGGGCGTGTGGATCAACGCCGGGCTGCGCGGCGACACCACCGCC
AACCTGGGCACCGCCCACTTTTTGGAGCACTTGGCGTTCAAGGGCACCAACCGCCGCAACCAGCG
CCAGTTGGAGCTCGAGATCGAAAACTTGGGCTCGCAGATCAACGCCTACACCCTGCGCGAGAACA
CCGTCTACTACACCAAGTGCTTGAACCGCGACATCGACCAGAACG
Found at i:39368 original size:15 final size:15
Alignment explanation
Indices: 39350--39381 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39340 CGGAGCATGA
39350 GCACCAGGAGCCTGG
1 GCACCAGGAGCCTGG
*
39365 GCACGAGGAGCCTGG
1 GCACCAGGAGCCTGG
39380 GC
1 GC
39382 CCCTGGGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.44, T:0.06
Consensus pattern (15 bp):
GCACCAGGAGCCTGG
Left flanking sequence: Indices 38850 -- 39349
GGCGGCTCCTGCGCCAGGCCACCACCCTCTACGAGATGTGGAACGACTTCAAGGACTTGGAGCGC
GACTTGGTCGCCAACAACATCACCGTCACCGAGTGGCTCAAGGTGCACGGGCTGCTGGAGCGCCA
GTTCCGCCACACCCGCCAGAAAATCATCAAGTTCATCGAGGACGAGGCGGCCCGGCAGAAGGTCG
ACGTCGAGGTGATCAAAGAAAAGCTCTACAACAAGATGGTCAAACGCATGCGGCCCATGACCCTA
GACCAGTTGCAACGCATGCTCACCATGGGTAAACGTATCGATCTCGACTAGAAAATAATATAAAA
TTGACGGGCACCCCGCAGAATAGGGGTGTACCGCAAGCAGCTACAAAATAGAAGCCGCCGTGCGC
GCCACAAAACTTATTGGCATGTGTGGACGGTTTAGTCTTGGCTTGGAGGCGAGCGATCTCCCGGC
CGCGGTGCGCGGGGAACCAGGTGGCCCGGGTAACCCGGAGCATGA
Right flanking sequence: Indices 39382 -- 39881
CCCTGGGCGAGTCTCGTTCCGAGCAGGGTGCGGCTGTCGACTGGCTGGGGGCGGCGGCGTGGAAG
CCCAGCTACAACATCGCACCCACCGACCGGGCGTTGCTCGCGATAGAAAAGAACGGCACTCTCCA
ATTGGAGGTGCTGAGCTTTGGCATGGTCCCCCCGTACTTCAAGGGGGACGCCAGGGCGGCCCGGG
CCCAGCAGCTGAAGACGTTCAATTGCCGGCGCGAGACCATCTGTAGCGGCCACCTGGTGTGGGAC
AGCGTCAAGAACCACGGGCGGGGGGTGGTCCCGGCCCAGGGCTACTACGAGTGGCGGCTGGTCGC
TGGCGACAAGCAGCCGTACTTTGTCCACTACCAAAACGCACCCCTCATCTGGTTGGTGGCTGTAT
ACAGTCACCATCCCGAGCACGGGTCGTCGTTTGCCATTGTCACGGGCCCGGCCCGCGGCGACGAC
GACGACGACATTCTGTGGTTGCACGCACGCAAGCCGTTGATGGTG
Found at i:40248 original size:15 final size:15
Alignment explanation
Indices: 40228--40300 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 15
40218 GTCAAACACA
*
40228 GTGTCAACAACGAAG
1 GTGTCAACAGCGAAG
* * *
40243 GTGTCAACCGTGAAA
1 GTGTCAACAGCGAAG
*
40258 GTGTCAACCGCGAAG
1 GTGTCAACAGCGAAG
*
40273 GTGTCAA-ACTCGAAG
1 GTGTCAACA-GCGAAG
*
40288 GTGTCAACCGCGA
1 GTGTCAACAGCGA
40301 CACTGTCAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.29, T:0.16
Consensus pattern (15 bp):
GTGTCAACAGCGAAG
Left flanking sequence: Indices 39728 -- 40227
TGTCCACTACCAAAACGCACCCCTCATCTGGTTGGTGGCTGTATACAGTCACCATCCCGAGCACG
GGTCGTCGTTTGCCATTGTCACGGGCCCGGCCCGCGGCGACGACGACGACGACATTCTGTGGTTG
CACGCACGCAAGCCGTTGATGGTGGCGCCGTTCCTGGACCGGTGGCGCCGGTGGCTCGACCCCGA
GCTCTCGTTTGCTGAGGTCGAGGACGTGCTCGAGTCGCAGCACAACGAGGCGTTCGCGGGGCTCG
ACATCTACAAGGTGGGCAAGAAGGTGGGCAACAGCCGGGCCGCGGGGCCCGAGTTGATGAAACCC
GACACCCAGGCGTCCATCGGGCTGTTTTTCAAGGAGGGGAAGACCCTGCGCACCGATGACGTCAC
GAGGAAAACTGTCAACGAACCGGATGTCAAAAACAGTGTCAACGACGACGTCAAAAATGTCAAGC
AGGAGGAAGGTGTCACCGGCCACAGTAGCGAAGATGTCAAACACA
Right flanking sequence: Indices 40301 -- 40800
CACTGTCAACCTCACCGGTGTCAAAACCCCTAGCGACGTCACCGACATCAAACAGAAGCCCAAGC
ACGCCAGCGGCGCCAAACCTGTAGCACCCAAACGCAAGCTCGAGTACCGGCTGGCCAAGACCCCC
AAAAAGCGTCCCCACTACGACATCGCCAACATGGTCACAAAGAGCCCCCGCAAACCTAAATAGGC
AATACACCCACAGACACCCAAGCTATCCCTTCGTCCTCTGCAGGGGACGGGCCCCGCGGAAGAAT
GGGGCTGTGCGCACGGTGGGCTCCGCGATTCTGTTGCCCGCCCGCGATGTCGCCGTCGTCAATCC
CCCGTGCTAATAATAGATTTGGATCGTGCAGATAGCGGAGGTTCGCTGGTGCTGGTGGACAGCAG
CCCCCACGGGATGGTGCAAACGACATATACGCCCAACGCGTTTTTACGTCCTACGTCCGCATGGG
CCTACGCGTGTCCGAGTCCGGCGGGGCTTGTGGCGAACCCAACCC
Found at i:40292 original size:30 final size:30
Alignment explanation
Indices: 40227--40300 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
40217 TGTCAAACAC
** *
40227 AGTGTCAACAACGAAGGTGTCAACCGTGAA
1 AGTGTCAACCGCGAAGGTGTCAAACGTGAA
40257 AGTGTCAACCGCGAAGGTGTCAAAC-TCGAA
1 AGTGTCAACCGCGAAGGTGTCAAACGT-GAA
*
40287 GGTGTCAACCGCGA
1 AGTGTCAACCGCGA
40301 CACTGTCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.16
Consensus pattern (30 bp):
AGTGTCAACCGCGAAGGTGTCAAACGTGAA
Left flanking sequence: Indices 39727 -- 40226
TTGTCCACTACCAAAACGCACCCCTCATCTGGTTGGTGGCTGTATACAGTCACCATCCCGAGCAC
GGGTCGTCGTTTGCCATTGTCACGGGCCCGGCCCGCGGCGACGACGACGACGACATTCTGTGGTT
GCACGCACGCAAGCCGTTGATGGTGGCGCCGTTCCTGGACCGGTGGCGCCGGTGGCTCGACCCCG
AGCTCTCGTTTGCTGAGGTCGAGGACGTGCTCGAGTCGCAGCACAACGAGGCGTTCGCGGGGCTC
GACATCTACAAGGTGGGCAAGAAGGTGGGCAACAGCCGGGCCGCGGGGCCCGAGTTGATGAAACC
CGACACCCAGGCGTCCATCGGGCTGTTTTTCAAGGAGGGGAAGACCCTGCGCACCGATGACGTCA
CGAGGAAAACTGTCAACGAACCGGATGTCAAAAACAGTGTCAACGACGACGTCAAAAATGTCAAG
CAGGAGGAAGGTGTCACCGGCCACAGTAGCGAAGATGTCAAACAC
Right flanking sequence: Indices 40301 -- 40800
CACTGTCAACCTCACCGGTGTCAAAACCCCTAGCGACGTCACCGACATCAAACAGAAGCCCAAGC
ACGCCAGCGGCGCCAAACCTGTAGCACCCAAACGCAAGCTCGAGTACCGGCTGGCCAAGACCCCC
AAAAAGCGTCCCCACTACGACATCGCCAACATGGTCACAAAGAGCCCCCGCAAACCTAAATAGGC
AATACACCCACAGACACCCAAGCTATCCCTTCGTCCTCTGCAGGGGACGGGCCCCGCGGAAGAAT
GGGGCTGTGCGCACGGTGGGCTCCGCGATTCTGTTGCCCGCCCGCGATGTCGCCGTCGTCAATCC
CCCGTGCTAATAATAGATTTGGATCGTGCAGATAGCGGAGGTTCGCTGGTGCTGGTGGACAGCAG
CCCCCACGGGATGGTGCAAACGACATATACGCCCAACGCGTTTTTACGTCCTACGTCCGCATGGG
CCTACGCGTGTCCGAGTCCGGCGGGGCTTGTGGCGAACCCAACCC
Found at i:43714 original size:23 final size:23
Alignment explanation
Indices: 43688--43744 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
43678 AGGAAAGGAG
*
43688 AGATCAAGGAAGATTAGACTGG-T
1 AGAT-AAGGAAGAATAGACTGGTT
43711 AGATAATGGAAGAATAGACTGGTT
1 AGATAA-GGAAGAATAGACTGGTT
43735 AGATAAGGAA
1 AGATAAGGAA
43745 TAATTAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 2 0.06
23 22 0.71
24 7 0.23
ACGTcount: A:0.44, C:0.05, G:0.30, T:0.21
Consensus pattern (23 bp):
AGATAAGGAAGAATAGACTGGTT
Left flanking sequence: Indices 43188 -- 43687
GACCAGCTGGACACGTTGTTGCACCCGCTGGCCCAGTTTGTCTACGACTTGTGCACCATCTCCAA
CGACGCCAAGTACCGCACGTTGTTGTTCTTGAAGGTGAACGGCAAGTACATCGCGGCGTGTATCA
TTTTCCGGCTCGGGGAGACGATGACCATGGACATCAATGGCATTGACTACGACGCCGACGCCAAG
CACTACAAGGCATACTTTGTGTTGATGCAGGAGGTGATCCGGATGGCGCTCCGGGAGAAGATTTC
GTTTGTTGACTTTGGCCCCACCACCGAGAACGCCAAGGTGGACATTGGGTGCAGCGTGGTGCCCC
TCGTGGGGTCGTTGTACACGGGGATGCGCGGAGTAGGTCCGCTTGTCAAGTTTGCCGCCGGCCGG
GTCGACGTGTGATTGTTTTTTTAGGTTATAGAGGATAGGTTAGGAAAGGATAGAAGATTAGACTG
GTGTTAGATAATGGATAATTAGAGAAAAGGTAGAAAGGAAAGGAG
Right flanking sequence: Indices 43745 -- 44244
TAATTAGAGAAAAGGTTTGGAAGAGGCTTTTGGGTTATGGACGAACGAAGTAGAAATATTGGCTT
CGTGTGGTTTCGTTAGCACGATCTGCTGGTTGGAGGAAAACGGGCAACGTGCGGGTTTAATTATA
CCACGTGTCACCTTTGTCACCATTGTCATTGATTTCCTCATCTATAACCCCTATTCACCTCATTA
CCTTCTTTCCTTCGTTTACGCGTAGTATACGACCTTCGGACCAGGTTGTCGCGTTGCACGTTGTC
ACCGTCCAGATAAGCCACAATCACAAAGCAATGACTCAGTCTCCTCTATTAAACGCTCTCTACCA
CCACCATCACCCCAACCACCTCGATCACCCCCTTTTCCCCTATAAATCTCTACCTGCCCGTCCCC
ACACCGTCCTGGCGTATTTTTCACTCTTCGCGACTTTCGACGCGACTACTCCATGGTCACTATCG
CGTTTATCCACCCCGATCTCGGGATTGGCGGCGCTGAACGGCTCG
Found at i:43752 original size:24 final size:24
Alignment explanation
Indices: 43695--43752 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
43685 GAGAGATCAA
43695 GGAAG-ATTAGACTGGTAGATAAT
1 GGAAGAATTAGACTGGTAGATAAT
43718 GGAAGAA-TAGACTGGTTAGATAA-
1 GGAAGAATTAGACTGG-TAGATAAT
*
43741 GGAATAATTAGA
1 GGAAGAATTAGA
43753 GAAAAGGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.24
Consensus pattern (24 bp):
GGAAGAATTAGACTGGTAGATAAT
Left flanking sequence: Indices 43195 -- 43694
TGGACACGTTGTTGCACCCGCTGGCCCAGTTTGTCTACGACTTGTGCACCATCTCCAACGACGCC
AAGTACCGCACGTTGTTGTTCTTGAAGGTGAACGGCAAGTACATCGCGGCGTGTATCATTTTCCG
GCTCGGGGAGACGATGACCATGGACATCAATGGCATTGACTACGACGCCGACGCCAAGCACTACA
AGGCATACTTTGTGTTGATGCAGGAGGTGATCCGGATGGCGCTCCGGGAGAAGATTTCGTTTGTT
GACTTTGGCCCCACCACCGAGAACGCCAAGGTGGACATTGGGTGCAGCGTGGTGCCCCTCGTGGG
GTCGTTGTACACGGGGATGCGCGGAGTAGGTCCGCTTGTCAAGTTTGCCGCCGGCCGGGTCGACG
TGTGATTGTTTTTTTAGGTTATAGAGGATAGGTTAGGAAAGGATAGAAGATTAGACTGGTGTTAG
ATAATGGATAATTAGAGAAAAGGTAGAAAGGAAAGGAGAGATCAA
Right flanking sequence: Indices 43753 -- 44252
GAAAAGGTTTGGAAGAGGCTTTTGGGTTATGGACGAACGAAGTAGAAATATTGGCTTCGTGTGGT
TTCGTTAGCACGATCTGCTGGTTGGAGGAAAACGGGCAACGTGCGGGTTTAATTATACCACGTGT
CACCTTTGTCACCATTGTCATTGATTTCCTCATCTATAACCCCTATTCACCTCATTACCTTCTTT
CCTTCGTTTACGCGTAGTATACGACCTTCGGACCAGGTTGTCGCGTTGCACGTTGTCACCGTCCA
GATAAGCCACAATCACAAAGCAATGACTCAGTCTCCTCTATTAAACGCTCTCTACCACCACCATC
ACCCCAACCACCTCGATCACCCCCTTTTCCCCTATAAATCTCTACCTGCCCGTCCCCACACCGTC
CTGGCGTATTTTTCACTCTTCGCGACTTTCGACGCGACTACTCCATGGTCACTATCGCGTTTATC
CACCCCGATCTCGGGATTGGCGGCGCTGAACGGCTCGTGGTGGAC
Found at i:44089 original size:18 final size:18
Alignment explanation
Indices: 44066--44100 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44056 AACGCTCTCT
44066 ACCACCACCATCACCCCA
1 ACCACCACCATCACCCCA
* *
44084 ACCACCTCGATCACCCC
1 ACCACCACCATCACCCC
44101 CTTTTCCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.60, G:0.03, T:0.09
Consensus pattern (18 bp):
ACCACCACCATCACCCCA
Left flanking sequence: Indices 43566 -- 44065
GCCGCCGGCCGGGTCGACGTGTGATTGTTTTTTTAGGTTATAGAGGATAGGTTAGGAAAGGATAG
AAGATTAGACTGGTGTTAGATAATGGATAATTAGAGAAAAGGTAGAAAGGAAAGGAGAGATCAAG
GAAGATTAGACTGGTAGATAATGGAAGAATAGACTGGTTAGATAAGGAATAATTAGAGAAAAGGT
TTGGAAGAGGCTTTTGGGTTATGGACGAACGAAGTAGAAATATTGGCTTCGTGTGGTTTCGTTAG
CACGATCTGCTGGTTGGAGGAAAACGGGCAACGTGCGGGTTTAATTATACCACGTGTCACCTTTG
TCACCATTGTCATTGATTTCCTCATCTATAACCCCTATTCACCTCATTACCTTCTTTCCTTCGTT
TACGCGTAGTATACGACCTTCGGACCAGGTTGTCGCGTTGCACGTTGTCACCGTCCAGATAAGCC
ACAATCACAAAGCAATGACTCAGTCTCCTCTATTAAACGCTCTCT
Right flanking sequence: Indices 44101 -- 44600
CTTTTCCCCTATAAATCTCTACCTGCCCGTCCCCACACCGTCCTGGCGTATTTTTCACTCTTCGC
GACTTTCGACGCGACTACTCCATGGTCACTATCGCGTTTATCCACCCCGATCTCGGGATTGGCGG
CGCTGAACGGCTCGTGGTGGACGCTGCGTGTGGTCTCCAGGACCTCGGCAACACTGTGGTTGCCT
ACACTTCCCACTGCGACCGCCTGCACTGCTTCGAGGAGGTCAAGTCCAACGAGCTTCTGGTGGTG
GTGTACGGGGACTGGTTGCCCACGACGATCGCCCGGCGGTTTCACATCGTGTGTGCCGGGTTACG
CCAGCTCTGGTTGACCGGGCGGTTGCTCCTAGCAGGCCCCAAGTACGATTTCTACGTGGTGGACC
AGTTGTCGTACTGTATCCCCTTGCTCAAAATATTTGGCCAGGGCCGGGTGATGTTCTACGGACAC
TTTCCCGACCAGCTCTTGGCACTCCCAGGATCGCCCCTCAAGCGG
Found at i:46528 original size:18 final size:18
Alignment explanation
Indices: 46507--46548 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
46497 GTCACTACAG
*
46507 TCAATTGGCACACTTCAT
1 TCAATTGGCACACTGCAT
46525 TCAATTGGCACACTGCAT
1 TCAATTGGCACACTGCAT
46543 TCAATT
1 TCAATT
46549 CAAATTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (18 bp):
TCAATTGGCACACTGCAT
Left flanking sequence: Indices 46007 -- 46506
AGAGCCGTCCTTGTACTTGACCTCGACCACCGGGGAGTGGGCAGCCGTGTGGACCTTGAGCATCG
CCTCCGGTGGAGGGGTGTCGGGGATCCAATTGTGTGCCTTGAGGGTGTAGGGGATTTTGAGGAGC
TTGAAGAACCACATGATGCGGACGCCACGGCCCTTGGGGTAGCTATGTAACACGATTTCGTCGAC
CTTATCCATGCTGGATCGCTACGGTTTCTGCCTAGATATATACTTGGAACGGGGCCACGAGACAT
GTTTTGAGGCATTATCTGGAAGCAGGATGTCGTACTACCGTGCACGCAAAACCACATAGCTTACG
AGCGAGACTCTTGGCACTGGGGTCCTTGCTGTCGTATCTGCTCGTCTTAGTAATTGACTCAGGAG
AAGGTTTACGAGACGGAGGTACGAGACAGGTGATAGGCGCTTAGTCATCCCAAGCTAACCTAGGC
GTTGAACGTGATGGGAGAGCTTTGTACCTCTCTCGGTCACTACAG
Right flanking sequence: Indices 46549 -- 47048
CAAATTATACTTAACAATTACATAACGGTTTCAGGGAGGGTAATCGTACAGCGCCCTTCCTGTTT
CAACTGGTCGTACCATTTAGACAACCACTTGTACTGCGGCAAGTTTGCCTCGTTCAAGAAACACG
GCCCAAACATAATCAAGTCGGCCGCGGTGGTCTTGTCGCCCACCAACCACGACTTCCCCGCCTTG
AACCGCTTCTCGCACCACTCGTCCATAAACTCAAACACCCGGTTGCGGTAGTCAGGGAGGTAGTC
GGTGAAGTACAGGTGGTCGTTGCCCCACTTCATGACGTCGTTAATCATGTAAGGCAACACTGGAG
GCATAAAAGACCCCTCGCTGAAGAACAAAAAGAACCGCACATCCTCCTTTTCGTCGTCAGTCTTC
CCGGTGAACTCGTTGTTGGGACCGTAGTGCTCCAACAAGTACTCGTAGATGTACCCCAGCTCGGC
AAGTACCTTGGTGGAGCCGTCCTTGTACACCAACTCGACCACCGG
Done.