Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold16
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: 53874
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.22
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:297 original size:46 final size:45
Alignment explanation
Indices: 230--321 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 45
220 GCGAGACTCC
230 GAAGCCAACGAGTACCTGGGGGCCGTAGCCCGAGCAGCCCCCCTA
1 GAAGCCAACGAGTACCTGGGGGCCGTAGCCCGAGCAGCCCCCCTA
275 NGAAGCCAACGAGTACCTGGGGGCCGTAGCCCGAGCAGCCCCCCTA
1 -GAAGCCAACGAGTACCTGGGGGCCGTAGCCCGAGCAGCCCCCCTA
321 G
1 G
322 CGAAGTGCTA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.22, C:0.37, G:0.32, T:0.09
Consensus pattern (45 bp):
GAAGCCAACGAGTACCTGGGGGCCGTAGCCCGAGCAGCCCCCCTA
Left flanking sequence: Indices 1 -- 229
CCACCATGGCGCGAAGCGCCAACGGATAGTGACCCAGCCGAGAGACTCCATCAGAAGTACCAGCA
GCACCGAGGCTGTGGTGAGCAAGTATCACCACGCTAACGACAAGCTTTTGTAGCCTCCTTGAGGG
GATTTTTTTCCCCCATCTTCTTTGATTTTCTTTTTGCTTGTCGCTGCCTTCCGTAGTAACGGGAA
AGGAGCCGGGCTTGCAGGGTGCAAGCGAGACTCC
Right flanking sequence: Indices 322 -- 821
CGAAGTGCTAGCGGCCCTGCCCACGACCCAGGCTCGGTGGCTGGCCTCCATCCAATCACGCAGTG
TCCACTTACAGCGTGGACACCAGATCCGGGTTATCTGAGGTGCATTGGTGGCACCCGCGCTTGCT
ACCAGGGACGGCTCGACCTGGTTCGGATTGGATGAGGTATAGAGAAGAAAAAACTGGTGGGAGGG
GGGACCAGCGTATTTATGGTAAGTGGGAATTGTTGTGCAGGCCAGCAGAGTCTTTGTGGTTGGCA
GAGTAGTTGAGTCAAGAGAAGGCAGGGCGTGCACTGCGAAGCAACTGAGGAGGGTATCAGTAAAG
GGTCCATCCTTGGTTCCAAGGCTGGCTTTGATTCTACTATGCCCCTGGTTTGACACCCGTCCCGA
TTAGGAAATATGCAACCAAAGCCATTCATCAGACATGTACACCCCACAATATAGCCGAACTAGAG
CAGCTAAAAAAGGCAGGAAGCAAGACCAACTAGTAGAATACACAC
Found at i:20892 original size:27 final size:27
Alignment explanation
Indices: 20854--20960 Score: 94
Period size: 27 Copynumber: 4.1 Consensus size: 27
20844 GGGAGCCCGG
* *
20854 GTGGGCTTGGTAGTCGCCTTAGGGGCA
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
* * * *
20881 GTGGTCTT-G--GTAGCCTTAAGAGCG
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
* * *
20905 GTGGCCTTGGTAGGAGCCTTCGGGGCG
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
* *
20932 GTGGCCTTGGTGGTAGCCATAGGGGCA
1 GTGGCCTTGGTAGTAGCCTTAGGGGCA
20959 GT
1 GT
20961 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 20354 -- 20853
TTGGACATCCACTTGTGTCCCACCTGGCGCCATTTGCGTCGCGAGATCGGGATGCCCTACGGGTT
CCTTTTGGAGGGCCACGGGTGGTGGCACGTGTTCACGGGGTTGGGGGTGTATTTCTACTTGGTGT
ACGAGATGTACTTGCGGCTATTGTTGCAGGGCACCGCTCAATACTACCTGTTCCACTACACGTGG
GGGTTGCCGTTTGTGACGTTGGTGGACAAGCCGGGCTTGGACAACTGGGAGAACGTGCGCAAGTT
GGCGCGGGCCGACGCGGATTTTAAGAAAAACCAATAGTGAATAGATGTATTAACTAGTCCAGGTC
GGAGCTGGAGTCGGAGTCCAGGTCAAACGGCAGTTTGTGGGGCTTCTTTTGGCTGGCGGCGGGGG
CGGCCTTGCGGTCGTAGGTCGAGGGGATCTGTTTGGAGGAGAGCAGCGCGAGGGTGGCGAGCCGT
GGCTTGGGGGCCTCAGGCTCGGATGCCGGGGGGCTGGGAGCCCGG
Right flanking sequence: Indices 20961 -- 21460
AGTAGCCTTAGGGGCAGTAGTAGCAGAGTTGGCAGGAAGTGTCTTGGAAGTGGCCTCAGTGGCCT
TAGCGGTGGCCTCAGTAGCTTTAGCGGTGGCCTTAGCGGGAGCCTTCAGGACAGGCTTAGGCATG
GGCGCCTCTTCCGACCCATTGGCCTGTTCCGTAGGCTCTTCGGGCGACTTTGGCTTGGGGGTCTC
TTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTTCTTGGGCTTCGCCGTCTCCTTGGCCTTGGCAG
CGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCTTCGTCGTCTCGGTGGGGGACTCCACGGGCTTG
GTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTGGCCCTAGCCTTAGCCTTGGGCTCTTTCTTCGC
GGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTTCTTCAACTCGTCTTGTTTCTTGCTCAACTCGT
CCTGCTTCTTTTTGAGCTCGGCACGGGCCAGCTTCGCTCGCTCGT
Found at i:20967 original size:18 final size:18
Alignment explanation
Indices: 20944--20984 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
20934 GGCCTTGGTG
20944 GTAGCCATAGGGGCAGTA
1 GTAGCCATAGGGGCAGTA
*
20962 GTAGCCTTAGGGGCAGTA
1 GTAGCCATAGGGGCAGTA
20980 GTAGC
1 GTAGC
20985 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 20444 -- 20943
CACGTGTTCACGGGGTTGGGGGTGTATTTCTACTTGGTGTACGAGATGTACTTGCGGCTATTGTT
GCAGGGCACCGCTCAATACTACCTGTTCCACTACACGTGGGGGTTGCCGTTTGTGACGTTGGTGG
ACAAGCCGGGCTTGGACAACTGGGAGAACGTGCGCAAGTTGGCGCGGGCCGACGCGGATTTTAAG
AAAAACCAATAGTGAATAGATGTATTAACTAGTCCAGGTCGGAGCTGGAGTCGGAGTCCAGGTCA
AACGGCAGTTTGTGGGGCTTCTTTTGGCTGGCGGCGGGGGCGGCCTTGCGGTCGTAGGTCGAGGG
GATCTGTTTGGAGGAGAGCAGCGCGAGGGTGGCGAGCCGTGGCTTGGGGGCCTCAGGCTCGGATG
CCGGGGGGCTGGGAGCCCGGGTGGGCTTGGTAGTCGCCTTAGGGGCAGTGGTCTTGGTAGCCTTA
AGAGCGGTGGCCTTGGTAGGAGCCTTCGGGGCGGTGGCCTTGGTG
Right flanking sequence: Indices 20985 -- 21484
AGAGTTGGCAGGAAGTGTCTTGGAAGTGGCCTCAGTGGCCTTAGCGGTGGCCTCAGTAGCTTTAG
CGGTGGCCTTAGCGGGAGCCTTCAGGACAGGCTTAGGCATGGGCGCCTCTTCCGACCCATTGGCC
TGTTCCGTAGGCTCTTCGGGCGACTTTGGCTTGGGGGTCTCTTTAGCCGCGGGCTTGGGTTTAGC
AGGAGCTTTCTTGGGCTTCGCCGTCTCCTTGGCCTTGGCAGCGGCAGCAGTTGGCGCCGTCTCGG
TGGTGTCCTTCGTCGTCTCGGTGGGGGACTCCACGGGCTTGGTAGCTTCCTTCGGAGTCTCCTTC
ACCTCCTTGGCCCTAGCCTTAGCCTTGGGCTCTTTCTTCGCGGGCGCCTTGGCCTTTCTCTTGGC
GTCGCCCTTCTTCAACTCGTCTTGTTTCTTGCTCAACTCGTCCTGCTTCTTTTTGAGCTCGGCAC
GGGCCAGCTTCGCTCGCTCGTTCTGGGCTTTCAACGAGCTGGTGC
Found at i:21034 original size:21 final size:21
Alignment explanation
Indices: 21010--21058 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
21000 TGTCTTGGAA
*
21010 GTGGCCTCAGTGGCCTTAGCG
1 GTGGCCTCAGTAGCCTTAGCG
*
21031 GTGGCCTCAGTAGCTTTAGCG
1 GTGGCCTCAGTAGCCTTAGCG
21052 GTGGCCT
1 GTGGCCT
21059 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 20510 -- 21009
CAGGGCACCGCTCAATACTACCTGTTCCACTACACGTGGGGGTTGCCGTTTGTGACGTTGGTGGA
CAAGCCGGGCTTGGACAACTGGGAGAACGTGCGCAAGTTGGCGCGGGCCGACGCGGATTTTAAGA
AAAACCAATAGTGAATAGATGTATTAACTAGTCCAGGTCGGAGCTGGAGTCGGAGTCCAGGTCAA
ACGGCAGTTTGTGGGGCTTCTTTTGGCTGGCGGCGGGGGCGGCCTTGCGGTCGTAGGTCGAGGGG
ATCTGTTTGGAGGAGAGCAGCGCGAGGGTGGCGAGCCGTGGCTTGGGGGCCTCAGGCTCGGATGC
CGGGGGGCTGGGAGCCCGGGTGGGCTTGGTAGTCGCCTTAGGGGCAGTGGTCTTGGTAGCCTTAA
GAGCGGTGGCCTTGGTAGGAGCCTTCGGGGCGGTGGCCTTGGTGGTAGCCATAGGGGCAGTAGTA
GCCTTAGGGGCAGTAGTAGCAGAGTTGGCAGGAAGTGTCTTGGAA
Right flanking sequence: Indices 21059 -- 21558
TAGCGGGAGCCTTCAGGACAGGCTTAGGCATGGGCGCCTCTTCCGACCCATTGGCCTGTTCCGTA
GGCTCTTCGGGCGACTTTGGCTTGGGGGTCTCTTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTT
CTTGGGCTTCGCCGTCTCCTTGGCCTTGGCAGCGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCT
TCGTCGTCTCGGTGGGGGACTCCACGGGCTTGGTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTG
GCCCTAGCCTTAGCCTTGGGCTCTTTCTTCGCGGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTT
CTTCAACTCGTCTTGTTTCTTGCTCAACTCGTCCTGCTTCTTTTTGAGCTCGGCACGGGCCAGCT
TCGCTCGCTCGTTCTGGGCTTTCAACGAGCTGGTGCGGATGGCCTTGGCCTTGGCTGCCAACGCC
GCAATCGAGTTGGATTTGGGCTTGCCCTTGGGGGCGTCCTCGATT
Found at i:21412 original size:21 final size:21
Alignment explanation
Indices: 21386--21425 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21376 TCGCCCTTCT
* *
21386 TCAACTCGTCTTGTTTCTTGC
1 TCAACTCGTCCTGCTTCTTGC
21407 TCAACTCGTCCTGCTTCTT
1 TCAACTCGTCCTGCTTCTT
21426 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 20886 -- 21385
CTTGGTAGCCTTAAGAGCGGTGGCCTTGGTAGGAGCCTTCGGGGCGGTGGCCTTGGTGGTAGCCA
TAGGGGCAGTAGTAGCCTTAGGGGCAGTAGTAGCAGAGTTGGCAGGAAGTGTCTTGGAAGTGGCC
TCAGTGGCCTTAGCGGTGGCCTCAGTAGCTTTAGCGGTGGCCTTAGCGGGAGCCTTCAGGACAGG
CTTAGGCATGGGCGCCTCTTCCGACCCATTGGCCTGTTCCGTAGGCTCTTCGGGCGACTTTGGCT
TGGGGGTCTCTTTAGCCGCGGGCTTGGGTTTAGCAGGAGCTTTCTTGGGCTTCGCCGTCTCCTTG
GCCTTGGCAGCGGCAGCAGTTGGCGCCGTCTCGGTGGTGTCCTTCGTCGTCTCGGTGGGGGACTC
CACGGGCTTGGTAGCTTCCTTCGGAGTCTCCTTCACCTCCTTGGCCCTAGCCTTAGCCTTGGGCT
CTTTCTTCGCGGGCGCCTTGGCCTTTCTCTTGGCGTCGCCCTTCT
Right flanking sequence: Indices 21426 -- 21925
TTTGAGCTCGGCACGGGCCAGCTTCGCTCGCTCGTTCTGGGCTTTCAACGAGCTGGTGCGGATGG
CCTTGGCCTTGGCTGCCAACGCCGCAATCGAGTTGGATTTGGGCTTGCCCTTGGGGGCGTCCTCG
ATTTCGCTTTCGGAGGAGGACGAGTCGTCCAGGGAGTCGGAGTCCAGCAGACTGGAGTCGGAGGC
CGCGGAAGTCGTGGTTTCGGGAGCATTGGGCTGAGGAGCCTTAGCTTCAGGGGCCTTAGCAGTTG
TTTTAGCCGGTTCAGGAGCCTTGACCGCCTCAGAAGCCTTAGCAGGCTCAGGAGCCTTGGGTTCG
GGAGCCTTCTTAGCAGCCCCCTGAGTTTTCCCGTTCGTGGTGGGCTTGGCACTGTTCTGAATACT
GTCCACCTGGGTGGGTTCCTCCGGAGCCGGTTCAGCAGTCTTTCTAGCGGCCTCCGCCTTCAGTG
CCTTGGCCTTCGCAGGCTCAGCCTTCTTCAGAGGCAGAGAAGGCA
Found at i:22035 original size:12 final size:12
Alignment explanation
Indices: 21992--22021 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21982 ACAGGCTTTG
*
21992 CTCCCTGCTCTA
1 CTCCCTTCTCTA
22004 CTCCCTTCTCTA
1 CTCCCTTCTCTA
22016 CTCCCT
1 CTCCCT
22022 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 21492 -- 21991
CTTGGCCTTGGCTGCCAACGCCGCAATCGAGTTGGATTTGGGCTTGCCCTTGGGGGCGTCCTCGA
TTTCGCTTTCGGAGGAGGACGAGTCGTCCAGGGAGTCGGAGTCCAGCAGACTGGAGTCGGAGGCC
GCGGAAGTCGTGGTTTCGGGAGCATTGGGCTGAGGAGCCTTAGCTTCAGGGGCCTTAGCAGTTGT
TTTAGCCGGTTCAGGAGCCTTGACCGCCTCAGAAGCCTTAGCAGGCTCAGGAGCCTTGGGTTCGG
GAGCCTTCTTAGCAGCCCCCTGAGTTTTCCCGTTCGTGGTGGGCTTGGCACTGTTCTGAATACTG
TCCACCTGGGTGGGTTCCTCCGGAGCCGGTTCAGCAGTCTTTCTAGCGGCCTCCGCCTTCAGTGC
CTTGGCCTTCGCAGGCTCAGCCTTCTTCAGAGGCAGAGAAGGCACCTTAGCAAGAGCTTTTGCAG
GAGCTTTCGCAACTGGCTTCGTAGGCAGCGCTGCAACAGGCTTTG
Right flanking sequence: Indices 22022 -- 22521
CTGCTCCCTTCTCTCCCTTCTCGCCCTTCTCGCCCTTCTTCCGGTTCACGGGCGTGGGCGTCACC
TCCTGCGACGGCGACGGCTCGGGCGTCGTCTCCTGGGCGTTCTTCGCGTGCTGGAGCTCGGGAAT
CGCGCCCGGTGCCATCGCCGGCCGCTTGCGCACCTTGGGGTTCGCAAGCTCCTTCGCAGACAGCT
TGCGCGACCCCAGGTTCGACACCACCCCGTCGAACGAGTCGTCGGGCCGGGTGTCGTCCTCGTCG
TCGCTGAAAATGCCCTTGGCATCGACAAAAGGCACCCGCAGCGTCATCATCTCCTCGACCATGCG
CATTTTCTTGACCTTGCGCGGCAGCTCCTCGTCCTCCGCCGGCCGTTTCTTCACCACGTCCACGT
CCTGGGGAAGCCGGAGCCCCACGTACGCCGCCAGCTGGATCTCCGCCTCCGGATCCGGGTCAAAC
AAGTGCGATGCCGCCTTCACCTTCTTTGGCGGACACGTTTGCGCC
Found at i:22048 original size:9 final size:9
Alignment explanation
Indices: 22027--22060 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
22017 TCCCTCTGCT
*
22027 CCCTTCTCT
1 CCCTTCTCG
22036 CCCTTCTCG
1 CCCTTCTCG
22045 CCCTTCTCG
1 CCCTTCTCG
22054 CCCTTCT
1 CCCTTCT
22061 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 21527 -- 22026
ATTTGGGCTTGCCCTTGGGGGCGTCCTCGATTTCGCTTTCGGAGGAGGACGAGTCGTCCAGGGAG
TCGGAGTCCAGCAGACTGGAGTCGGAGGCCGCGGAAGTCGTGGTTTCGGGAGCATTGGGCTGAGG
AGCCTTAGCTTCAGGGGCCTTAGCAGTTGTTTTAGCCGGTTCAGGAGCCTTGACCGCCTCAGAAG
CCTTAGCAGGCTCAGGAGCCTTGGGTTCGGGAGCCTTCTTAGCAGCCCCCTGAGTTTTCCCGTTC
GTGGTGGGCTTGGCACTGTTCTGAATACTGTCCACCTGGGTGGGTTCCTCCGGAGCCGGTTCAGC
AGTCTTTCTAGCGGCCTCCGCCTTCAGTGCCTTGGCCTTCGCAGGCTCAGCCTTCTTCAGAGGCA
GAGAAGGCACCTTAGCAAGAGCTTTTGCAGGAGCTTTCGCAACTGGCTTCGTAGGCAGCGCTGCA
ACAGGCTTTGCTCCCTGCTCTACTCCCTTCTCTACTCCCTCTGCT
Right flanking sequence: Indices 22061 -- 22560
TCCGGTTCACGGGCGTGGGCGTCACCTCCTGCGACGGCGACGGCTCGGGCGTCGTCTCCTGGGCG
TTCTTCGCGTGCTGGAGCTCGGGAATCGCGCCCGGTGCCATCGCCGGCCGCTTGCGCACCTTGGG
GTTCGCAAGCTCCTTCGCAGACAGCTTGCGCGACCCCAGGTTCGACACCACCCCGTCGAACGAGT
CGTCGGGCCGGGTGTCGTCCTCGTCGTCGCTGAAAATGCCCTTGGCATCGACAAAAGGCACCCGC
AGCGTCATCATCTCCTCGACCATGCGCATTTTCTTGACCTTGCGCGGCAGCTCCTCGTCCTCCGC
CGGCCGTTTCTTCACCACGTCCACGTCCTGGGGAAGCCGGAGCCCCACGTACGCCGCCAGCTGGA
TCTCCGCCTCCGGATCCGGGTCAAACAAGTGCGATGCCGCCTTCACCTTCTTTGGCGGACACGTT
TGCGCCTCGAGCTGGAGCAACTCGGCCACGGGCGCGATGTGCGCC
Found at i:23899 original size:13 final size:13
Alignment explanation
Indices: 23881--23937 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
23871 GCGAAATGTG
23881 GTGGGTGGAGGAA
1 GTGGGTGGAGGAA
*
23894 GTGGGTGAAGGAA
1 GTGGGTGGAGGAA
23907 GTGGGTGCG-GGAA
1 GTGGGTG-GAGGAA
*
23920 GT-GGTGGAAGGGA
1 GTGGGTGG-AGGAA
23933 GTGGG
1 GTGGG
23938 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 23381 -- 23880
CGCAGATGCCCATGGTGACGGTGCGGGGATTGTGGACCATGGTGACCTCGGAGAGCGAAAACACG
TCCTGCGGCAGGTACCCGGCGAACGCGGTGGCCGCTAGCCGCTCGCGCTCGCGGGCCAGGTTCAT
CAGGAACGGGACGTCCTCGAGGGCCACCGGCAGGTACGAGTCCTCGATGAACAACGGGAACACCC
TGCGCAACTGCTTGAGGGTCTCGGAGACGAACGCCTGCGGCACCGTGCCCACGGTTTGGCGTTTG
CGGACGAGGAAGTCGGTGATCGCGGCCAGGGCCATCGCTGGCAGGGCCTTGGCGCGGGTCTTGGG
CTCGGCACGCACCAGCAGCGCCCACATCTGGCGCAGGAGGCCCAAGAGGGCTGGGTAGTGGTCGC
CATTGAACTCGGGATCGGTCACTTGGCGGTAGTGGTACTCGTCTAGCGCGCCAAGCACCTCGGTC
TGGGAGAGCATCGGTTGTTTATTCGTGCGAAGATCGCGAAATGTG
Right flanking sequence: Indices 23938 -- 24437
CGAGGGGAGAAAATGGTTTCTGGGATAGCTTTGGTTATGGGTGTGTTCAATGGTGTGTTTACTGG
TGTGTTTACTGGTGTGTTTACTGGTGTTTACTGGTTTTTGGATGGTCGTAGAGTGGTACTAGGTA
GGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACG
GGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAG
TCTCCGACACGGTTATCACACGTACGCACACGAGGATAAACAGGGTAATCCCATACGAGCTGGCT
TGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTT
CAGGACACTGACAATCGGTGTCTGACACAGAAGTAAAACGTCGAATACGTCAGACAGTTAACGGA
CCTGAAACAGTCTACATCAAGACAGTAGTAATTACGACACACCCA
Found at i:23910 original size:26 final size:26
Alignment explanation
Indices: 23881--23937 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
23871 GCGAAATGTG
23881 GTGGGTG-GAGGAAGTGG-GTGAAGGAA
1 GTGGGTGCG-GGAAGTGGTG-GAAGGAA
*
23907 GTGGGTGCGGGAAGTGGTGGAAGGGA
1 GTGGGTGCGGGAAGTGGTGGAAGGAA
23933 GTGGG
1 GTGGG
23938 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 23381 -- 23880
CGCAGATGCCCATGGTGACGGTGCGGGGATTGTGGACCATGGTGACCTCGGAGAGCGAAAACACG
TCCTGCGGCAGGTACCCGGCGAACGCGGTGGCCGCTAGCCGCTCGCGCTCGCGGGCCAGGTTCAT
CAGGAACGGGACGTCCTCGAGGGCCACCGGCAGGTACGAGTCCTCGATGAACAACGGGAACACCC
TGCGCAACTGCTTGAGGGTCTCGGAGACGAACGCCTGCGGCACCGTGCCCACGGTTTGGCGTTTG
CGGACGAGGAAGTCGGTGATCGCGGCCAGGGCCATCGCTGGCAGGGCCTTGGCGCGGGTCTTGGG
CTCGGCACGCACCAGCAGCGCCCACATCTGGCGCAGGAGGCCCAAGAGGGCTGGGTAGTGGTCGC
CATTGAACTCGGGATCGGTCACTTGGCGGTAGTGGTACTCGTCTAGCGCGCCAAGCACCTCGGTC
TGGGAGAGCATCGGTTGTTTATTCGTGCGAAGATCGCGAAATGTG
Right flanking sequence: Indices 23938 -- 24437
CGAGGGGAGAAAATGGTTTCTGGGATAGCTTTGGTTATGGGTGTGTTCAATGGTGTGTTTACTGG
TGTGTTTACTGGTGTGTTTACTGGTGTTTACTGGTTTTTGGATGGTCGTAGAGTGGTACTAGGTA
GGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACG
GGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAG
TCTCCGACACGGTTATCACACGTACGCACACGAGGATAAACAGGGTAATCCCATACGAGCTGGCT
TGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTT
CAGGACACTGACAATCGGTGTCTGACACAGAAGTAAAACGTCGAATACGTCAGACAGTTAACGGA
CCTGAAACAGTCTACATCAAGACAGTAGTAATTACGACACACCCA
Found at i:24005 original size:10 final size:12
Alignment explanation
Indices: 23977--24037 Score: 90
Period size: 12 Copynumber: 5.2 Consensus size: 12
23967 TTTGGTTATG
* *
23977 GGTGTGTTCAAT
1 GGTGTGTTTACT
23989 GGTGTGTTTACT
1 GGTGTGTTTACT
24001 GGTGTGTTTACT
1 GGTGTGTTTACT
24013 GGTGTGTTTACT
1 GGTGTGTTTACT
24025 -G-GTGTTTACT
1 GGTGTGTTTACT
24035 GGT
1 GGT
24038 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 23477 -- 23976
CCGCTAGCCGCTCGCGCTCGCGGGCCAGGTTCATCAGGAACGGGACGTCCTCGAGGGCCACCGGC
AGGTACGAGTCCTCGATGAACAACGGGAACACCCTGCGCAACTGCTTGAGGGTCTCGGAGACGAA
CGCCTGCGGCACCGTGCCCACGGTTTGGCGTTTGCGGACGAGGAAGTCGGTGATCGCGGCCAGGG
CCATCGCTGGCAGGGCCTTGGCGCGGGTCTTGGGCTCGGCACGCACCAGCAGCGCCCACATCTGG
CGCAGGAGGCCCAAGAGGGCTGGGTAGTGGTCGCCATTGAACTCGGGATCGGTCACTTGGCGGTA
GTGGTACTCGTCTAGCGCGCCAAGCACCTCGGTCTGGGAGAGCATCGGTTGTTTATTCGTGCGAA
GATCGCGAAATGTGGTGGGTGGAGGAAGTGGGTGAAGGAAGTGGGTGCGGGAAGTGGTGGAAGGG
AGTGGGCGAGGGGAGAAAATGGTTTCTGGGATAGCTTTGGTTATG
Right flanking sequence: Indices 24038 -- 24537
TTTTGGATGGTCGTAGAGTGGTACTAGGTAGGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTC
AATGGTAGAGTAGCGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGA
GGGTGCTCCGAGCCCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCACACGAGG
ATAAACAGGGTAATCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGT
CAACGAGCCTTTGCGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACACAGAAGTA
AAACGTCGAATACGTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAGTAATTAC
GACACACCCAGACCCACGAGGCTTAACACAACCCCACCACACAGAACGTCCACCCGACACAGAGC
TCCTACCAGATGCAGAGCTTCTACCAGATGCAGAGCTTCTACTAG
Found at i:24575 original size:34 final size:34
Alignment explanation
Indices: 24486--24591 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
24476 TCCACCCGAC
** *
24486 ACAGAGC-TCCTACCAGATGCAGAGCTTCTACCAG
1 ACAGAGCTTCC-ACCAGACACAGAGCTTCCACCAG
* * *
24520 ATGCAGAGCTTCTACTAGACACATAGCTTCCACCAG
1 A--CAGAGCTTCCACCAGACACAGAGCTTCCACCAG
* * *
24556 ACAGAGCTTCCACCGGACACAGACCTTCCAACAG
1 ACAGAGCTTCCACCAGACACAGAGCTTCCACCAG
24590 AC
1 AC
24592 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 23986 -- 24485
AATGGTGTGTTTACTGGTGTGTTTACTGGTGTGTTTACTGGTGTTTACTGGTTTTTGGATGGTCG
TAGAGTGGTACTAGGTAGGGTGGAAAAGACGTGTTTGGGCTGGTTTCGAGTCAATGGTAGAGTAG
CGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCGACTCCGAGGGTGCTCCGAGC
CCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCACACGAGGATAAACAGGGTAA
TCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCGGACAAGTCAACGAGCCTTTG
CGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACACAGAAGTAAAACGTCGAATAC
GTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAGTAATTACGACACACCCAGAC
CCACGAGGCTTAACACAACCCCACCACACAGAACGTCCACCCGAC
Right flanking sequence: Indices 24592 -- 25091
TCAGAACCTCCACTAGCTACTCCTTCTCCACCATCTACTCCTTCTCCACCTACCACAACTCCCCC
CTACACTCTTCCTTCCGATCCGTTCTATTATACAATGCTAATCTAGGCCACCGCCACGGGGGCGG
CCAACCTCTCAAACAACGGCTCCTTGCGCCGCAACACCTTTTTGGCGTCGTAGTTGCTCGTCTTG
ACCAACTTGAAACTGCCGGTCCCCACACTCATCGTCTGGCCCAAAATAATGCACTCGGACACCCC
CTCGACCTTGTCGGACTTCAAGTAGAACGCAGCGTCAAACAAGTGGTCGGTGGTCTTCTCGAACG
ACGCCAACTGCAACACCGAGTCCCGCATCTTCGAGAGACCGAAACGAGTAATACCAAGCACCTCG
CCCTTGTAGGTCATCACGTCACCCAACAACTGGATGTGCCGGGGATCCACACTCATCCCGTGGTT
ACTCATGGTGTAGTCGATCTCGTGGATGATCAGCGCCCGCGCAGC
Found at i:24577 original size:18 final size:18
Alignment explanation
Indices: 24466--24596 Score: 97
Period size: 18 Copynumber: 7.4 Consensus size: 18
24456 CAACCCCACC
* * *
24466 ACACAGAACGTCCACCCG
1 ACACAGAGCTTCCACCAG
24484 ACACAGAGC-TCCTACCAG
1 ACACAGAGCTTCC-ACCAG
** *
24502 ATGCAGAGCTTCTACCAG
1 ACACAGAGCTTCCACCAG
** * *
24520 ATGCAGAGCTTCTACTAG
1 ACACAGAGCTTCCACCAG
*
24538 ACACATAGCTTCCACCAG
1 ACACAGAGCTTCCACCAG
*
24556 --ACAGAGCTTCCACCGG
1 ACACAGAGCTTCCACCAG
* *
24572 ACACAGACCTTCCAACAG
1 ACACAGAGCTTCCACCAG
*
24590 ACTCAGA
1 ACACAGA
24597 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 23966 -- 24465
CTTTGGTTATGGGTGTGTTCAATGGTGTGTTTACTGGTGTGTTTACTGGTGTGTTTACTGGTGTT
TACTGGTTTTTGGATGGTCGTAGAGTGGTACTAGGTAGGGTGGAAAAGACGTGTTTGGGCTGGTT
TCGAGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCG
ACTCCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCA
CACGAGGATAAACAGGGTAATCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCG
GACAAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACAC
AGAAGTAAAACGTCGAATACGTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAG
TAATTACGACACACCCAGACCCACGAGGCTTAACACAACCCCACC
Right flanking sequence: Indices 24597 -- 25096
ACCTCCACTAGCTACTCCTTCTCCACCATCTACTCCTTCTCCACCTACCACAACTCCCCCCTACA
CTCTTCCTTCCGATCCGTTCTATTATACAATGCTAATCTAGGCCACCGCCACGGGGGCGGCCAAC
CTCTCAAACAACGGCTCCTTGCGCCGCAACACCTTTTTGGCGTCGTAGTTGCTCGTCTTGACCAA
CTTGAAACTGCCGGTCCCCACACTCATCGTCTGGCCCAAAATAATGCACTCGGACACCCCCTCGA
CCTTGTCGGACTTCAAGTAGAACGCAGCGTCAAACAAGTGGTCGGTGGTCTTCTCGAACGACGCC
AACTGCAACACCGAGTCCCGCATCTTCGAGAGACCGAAACGAGTAATACCAAGCACCTCGCCCTT
GTAGGTCATCACGTCACCCAACAACTGGATGTGCCGGGGATCCACACTCATCCCGTGGTTACTCA
TGGTGTAGTCGATCTCGTGGATGATCAGCGCCCGCGCAGCCTCGA
Found at i:24620 original size:18 final size:18
Alignment explanation
Indices: 24599--24641 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
24589 GACTCAGAAC
*
24599 CTCCACTAGCTACTCCTT
1 CTCCACCAGCTACTCCTT
*
24617 CTCCACCATCTACTCCTT
1 CTCCACCAGCTACTCCTT
24635 CTCCACC
1 CTCCACC
24642 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 24099 -- 24598
AGTCAATGGTAGAGTAGCGGTGGTCAGCGAGACGGGCTCTCTACGCTGGGACCCCCTCAGCGACT
CCGAGGGTGCTCCGAGCCCGCACCCAGGGCTTAGTCTCCGACACGGTTATCACACGTACGCACAC
GAGGATAAACAGGGTAATCCCATACGAGCTGGCTTGGCACGAGCGGGGTAGAGAGAAACGCGGAC
AAGTCAACGAGCCTTTGCGAAGCCGTTCCAGTTTCAGGACACTGACAATCGGTGTCTGACACAGA
AGTAAAACGTCGAATACGTCAGACAGTTAACGGACCTGAAACAGTCTACATCAAGACAGTAGTAA
TTACGACACACCCAGACCCACGAGGCTTAACACAACCCCACCACACAGAACGTCCACCCGACACA
GAGCTCCTACCAGATGCAGAGCTTCTACCAGATGCAGAGCTTCTACTAGACACATAGCTTCCACC
AGACAGAGCTTCCACCGGACACAGACCTTCCAACAGACTCAGAAC
Right flanking sequence: Indices 24642 -- 25141
TACCACAACTCCCCCCTACACTCTTCCTTCCGATCCGTTCTATTATACAATGCTAATCTAGGCCA
CCGCCACGGGGGCGGCCAACCTCTCAAACAACGGCTCCTTGCGCCGCAACACCTTTTTGGCGTCG
TAGTTGCTCGTCTTGACCAACTTGAAACTGCCGGTCCCCACACTCATCGTCTGGCCCAAAATAAT
GCACTCGGACACCCCCTCGACCTTGTCGGACTTCAAGTAGAACGCAGCGTCAAACAAGTGGTCGG
TGGTCTTCTCGAACGACGCCAACTGCAACACCGAGTCCCGCATCTTCGAGAGACCGAAACGAGTA
ATACCAAGCACCTCGCCCTTGTAGGTCATCACGTCACCCAACAACTGGATGTGCCGGGGATCCAC
ACTCATCCCGTGGTTACTCATGGTGTAGTCGATCTCGTGGATGATCAGCGCCCGCGCAGCCTCGA
TGCCGAGCACCAGCATACACTCGAGCACGTGGTTGGTCAGCGTCT
Found at i:28707 original size:21 final size:22
Alignment explanation
Indices: 28673--28713 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
28663 AGTTTGACGT
28673 GGCCAAAGTGGCCGTGGCACAG
1 GGCCAAAGTGGCCGTGGCACAG
*
28695 GGCC-AAGTTGCCGTGGCAC
1 GGCCAAAGTGGCCGTGGCAC
28714 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 28173 -- 28672
CATCCCGAGCAAGAGACAGTCGGCGCTCAGCACCTGTTTGAACAAGTTGAGCACCTTCAACGGGT
TCAAGTCGTCCATCACCCGCTTGGCAAACTTCTCGAGCTCAGGGTTGCGGTACCACACCTCCTCA
AACTCCTTGTCCCACTTTTCCTTTTCCGGAGTGGGCTTTTTCCCGATCCACCGGAAGGTGTCGTG
GACGATCTTGAGGCCGGCGGGGCCCAGCAGCCCCAGGGCAGCCTTCTTGACCACGCCCTGCACGT
GGTTGCACTTGAAGCACCGCCGGGTCTTTTTGCACTGGTCGACGATCTTCTTGAGGGCCTTCATC
CGGCGCAAATTGTCGGCTCCCGGGCCGGTGGTGCACCGCTCAAGCTCTTTGCCAAGCGTTTTGCG
GTGGGTGTCGTCAAGCAACACCGCTCCACAGTTCTTGCAAATCTGCTGCAAGATCTGGATGATCT
GCTTGAAATATCCGACATGGAACACCGGGAGCGCAAGTTTGACGT
Right flanking sequence: Indices 28714 -- 29213
GTGGCACACTCCATCAGGTTCGACAGGATCCCCATGTGGGTGTCGAGGGCTCCGTGGACCAGCGG
GACACGGCCCTTGTCGAGGTCGTACAAGTCACGGGTGGTGACCTCGACCTCGGACTGGGCAACGA
TGTCACGCGTGGCTAGCGCCCCGAAATCGAGCCCCTTGATGCACTTGGGCGGCTCGTCCACCACC
ACTTCCTTCATCGCAGCTGTGATCTCGGGATGCGATGCGCGGTTGGTATATAGGTGTGGGGCGTG
CGCGGCACAAAACGGGTGGGGTGGTGTAGCGGGACGGGAGGTGGTGGCAGGGGGTATGGGCGTGG
TGGGTGTGGTGGTGGGTGGTGGCTGAGCCGTGTCGTGTTGGGCTGGTGGAAATTGGTCGTGTGTG
GGTGGAGATGTAGGAGGAGATGTGGGTGGTGGATGAGAAGCGGTGGGGAGAGTAGGGGGCGGCTG
GGCGGCTGATCTGGGTCCAGTGGCGGGCCCAGTGGGTTTGTGGCT
Found at i:31870 original size:7 final size:7
Alignment explanation
Indices: 31844--31925 Score: 71
Period size: 7 Copynumber: 11.9 Consensus size: 7
31834 TCAGGCAGTA
31844 ACCACAC
1 ACCACAC
31851 ACC-CAC
1 ACCACAC
*
31857 TACCCACGC
1 -A-CCACAC
*
31866 ACCACGC
1 ACCACAC
* *
31873 ACTACCC
1 ACCACAC
31880 ACCACAC
1 ACCACAC
*
31887 ACCTCAC
1 ACCACAC
31894 ACCACAC
1 ACCACAC
31901 ACCAC-C
1 ACCACAC
*
31907 ACAACAC
1 ACCACAC
31914 ACCAC-C
1 ACCACAC
31920 ACCACA
1 ACCACA
31926 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 31344 -- 31843
CGCATCACCTTGATGTCGTTGTCCAAGAGCTTGGTACGGTTGACAATGTCCTCCGTCAGCAGCTG
GAGAATCTCGTTGAGCAATTCGTCGTCCTCGGACATGGTGGTAGGGTTAGTGGCGACAGTGGCGT
TTTTCGGTGTGCGCGGCGAGCCGCACGGGGGCGGCGCGGGACGTGGAGAATAAAAAGGTGATGAT
TTAGAGTCTGGTGCTTGCGTCTGGTGTGTCTGGTAGTGACTGCTGGAGAGAAGGGGCTTGTACCT
AGGGGGGTTTGGGGTGGACCACCATGGTGGGCGTTTCATCTTGCAAGTGTCTATATGCAGGCCAA
GGATATCCTGCAAACATGGTCCCAACGTAGTGGCCCTAGAGGGGTGTTGCGAGAAAATGAAAGTC
ACGATTAAGTTTCAGAGCTTTCAAGAAGGCGCCCAGACGTTGTCTCTTCTCCCAAAACGTCCTAT
CCAGCATTTTACCCGTTTCAACATCCATTCAATTTTCAGGCAGTA
Right flanking sequence: Indices 31926 -- 32425
TAACCACACCTCTCTACACACCCTCTCTCATTGCCTTTATTCTATACATACCGGTGACACATTTT
CCGTGCTTCCCAGATCGCTCACCTGCGTCAGCCGCACGTGGCTGCAAACTGCAAACGGAAATCAC
CCCATCCACCCGTTGCCGCTCCACCAGTTGTTGATGTGTCCGTAAAACCCCTTCACCCCGTCAAT
CACCCCGTCGGTGACCCCGCCAACCGTCTCGCCCACGGTCTTCGCCGGCGGGTTGCGGTACAAGT
AGTCGTAGGTGTTGTTGGTGTGCACCAAGTGCTCGACCTCAAAGTCAAGTCCAGGGTACACCGAC
TCGTCGTGCCAGCCCGAGGGCAACCGCGTCAACACCCTGGTGCCGTTGTTGGGCGCCGGGTTCAA
CCCGAGCGAGTCGCACACCACCGCGTACACGTTGGTGTTCTCAAACGGCTCCATTTTGAGCGGGT
ACCGGTTCAGCGAGAAGTAGGGGCCCTCGGCCATGAAAATCGCCC
Found at i:31935 original size:16 final size:15
Alignment explanation
Indices: 31882--31925 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
31872 CACTACCCAC
* *
31882 CACACACC-TCACAC
1 CACACACCACCACAA
31896 CACACACCACCACAA
1 CACACACCACCACAA
31911 CACACCACCACCACA
1 CACA-CACCACCACA
31926 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 31382 -- 31881
GTTGACAATGTCCTCCGTCAGCAGCTGGAGAATCTCGTTGAGCAATTCGTCGTCCTCGGACATGG
TGGTAGGGTTAGTGGCGACAGTGGCGTTTTTCGGTGTGCGCGGCGAGCCGCACGGGGGCGGCGCG
GGACGTGGAGAATAAAAAGGTGATGATTTAGAGTCTGGTGCTTGCGTCTGGTGTGTCTGGTAGTG
ACTGCTGGAGAGAAGGGGCTTGTACCTAGGGGGGTTTGGGGTGGACCACCATGGTGGGCGTTTCA
TCTTGCAAGTGTCTATATGCAGGCCAAGGATATCCTGCAAACATGGTCCCAACGTAGTGGCCCTA
GAGGGGTGTTGCGAGAAAATGAAAGTCACGATTAAGTTTCAGAGCTTTCAAGAAGGCGCCCAGAC
GTTGTCTCTTCTCCCAAAACGTCCTATCCAGCATTTTACCCGTTTCAACATCCATTCAATTTTCA
GGCAGTAACCACACACCCACTACCCACGCACCACGCACTACCCAC
Right flanking sequence: Indices 31926 -- 32425
TAACCACACCTCTCTACACACCCTCTCTCATTGCCTTTATTCTATACATACCGGTGACACATTTT
CCGTGCTTCCCAGATCGCTCACCTGCGTCAGCCGCACGTGGCTGCAAACTGCAAACGGAAATCAC
CCCATCCACCCGTTGCCGCTCCACCAGTTGTTGATGTGTCCGTAAAACCCCTTCACCCCGTCAAT
CACCCCGTCGGTGACCCCGCCAACCGTCTCGCCCACGGTCTTCGCCGGCGGGTTGCGGTACAAGT
AGTCGTAGGTGTTGTTGGTGTGCACCAAGTGCTCGACCTCAAAGTCAAGTCCAGGGTACACCGAC
TCGTCGTGCCAGCCCGAGGGCAACCGCGTCAACACCCTGGTGCCGTTGTTGGGCGCCGGGTTCAA
CCCGAGCGAGTCGCACACCACCGCGTACACGTTGGTGTTCTCAAACGGCTCCATTTTGAGCGGGT
ACCGGTTCAGCGAGAAGTAGGGGCCCTCGGCCATGAAAATCGCCC
Found at i:35308 original size:14 final size:14
Alignment explanation
Indices: 35289--35324 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
35279 TGAGCAGATC
35289 ATTCGGTTAAATCT
1 ATTCGGTTAAATCT
35303 ATTCGGTTAAATCT
1 ATTCGGTTAAATCT
*
35317 ATTTGGTT
1 ATTCGGTT
35325 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 34789 -- 35288
CATTGTTCCTCGGAAACACCGTCGATCAGGGCCTTCCACCGTGTGGGAAGTCCGCAAGTGGGGGC
GGCGTCCGCCGTGCTGCCCGTGCAGATTCTCGAGTATAATTAGTTTCACGAGAGAAGGGTCGGTC
CCGAGGAGTGTCCGGCCGGTGGGCCACGCCCGCCTGAGCAATCGAGCCGTCTACAAAAAGTCGGG
GCGGGTAAGCTGCCAATTACCACCCGCGCGCAGATCGGGTGCCCCGCGATCTCAGATCGGGAGCT
ATCGGGCCCGTGTATCTCGTATTTGCGTATCCCAACGTGCCATGGTATTTTTAACCTCCACTGTG
CGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCGAAGCTGGGCAGGCGGAAGTGATGCGT
TATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGCCGTGAGGCATGGCGTTACGGTGGTGG
TGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAGCAGATC
Right flanking sequence: Indices 35325 -- 35824
GAAGTGTAATCGGTTGATTTAATTCGGATAATGTTGTCAGCAAGGAAATACCGAGATAGCCGTAG
CCAAGAATAGTCAGGTACTAGTAACCGGTTAGTCAGAAACCACCTAAGCACCTAGCCAAGTAACC
ACCTAATCAAGGAGCCACCAAACTACCTGACACACTATCACACCCACCCGCCTAACCTAGCTAAC
ACAAAATCACCTACCCAAATCACCTACCCAAATCACCTACCCACCTTATCTAACTGTCTGACGTA
ATCACCAAATCTATCGCACTCACCAAACCACCAAACCACCAACCATCAAGCCACCAACCATTAAA
CCACCACCTTCAAACCACCCAACTACATAACCACCCCCCACACATTCACCCCTACACCCCTTAGC
TACTATCACCCTCCCTTCCCTCCCCCGTCTTCCCCCTTCTCCCCCTCGCCTTATCCCGTACCCCT
CCTTTCCTGCACACACCCCCACCGTTGCCACTAGAGTGCGCATCG
Found at i:35541 original size:13 final size:13
Alignment explanation
Indices: 35523--35562 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
35513 AGCTAACACA
35523 AAATCACCTACCC
1 AAATCACCTACCC
35536 AAATCACCTACCC
1 AAATCACCTACCC
35549 AAATCACCTACCC
1 AAATCACCTACCC
35562 A
1 A
35563 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 35023 -- 35522
TGCCCCGCGATCTCAGATCGGGAGCTATCGGGCCCGTGTATCTCGTATTTGCGTATCCCAACGTG
CCATGGTATTTTTAACCTCCACTGTGCGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCG
AAGCTGGGCAGGCGGAAGTGATGCGTTATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGC
CGTGAGGCATGGCGTTACGGTGGTGGTGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAG
CAGATCATTCGGTTAAATCTATTCGGTTAAATCTATTTGGTTGAAGTGTAATCGGTTGATTTAAT
TCGGATAATGTTGTCAGCAAGGAAATACCGAGATAGCCGTAGCCAAGAATAGTCAGGTACTAGTA
ACCGGTTAGTCAGAAACCACCTAAGCACCTAGCCAAGTAACCACCTAATCAAGGAGCCACCAAAC
TACCTGACACACTATCACACCCACCCGCCTAACCTAGCTAACACA
Right flanking sequence: Indices 35563 -- 36062
CCTTATCTAACTGTCTGACGTAATCACCAAATCTATCGCACTCACCAAACCACCAAACCACCAAC
CATCAAGCCACCAACCATTAAACCACCACCTTCAAACCACCCAACTACATAACCACCCCCCACAC
ATTCACCCCTACACCCCTTAGCTACTATCACCCTCCCTTCCCTCCCCCGTCTTCCCCCTTCTCCC
CCTCGCCTTATCCCGTACCCCTCCTTTCCTGCACACACCCCCACCGTTGCCACTAGAGTGCGCAT
CGGGCTCCGAAACCGCCATGCTTCGCCAACTCAGACCGCTTTTGCCGCGGGCTCGCGGCCTCGCC
ACCACCACCTTGGACAACGGGCTCACGGTGTGCCTGGAGGTGATGCCGGGCACCCGCACCGCCAC
CGTGGGCGTGTGGATCAACGCCGGGCTGCGCGGCGACACCACCGCCAACCTGGGCACCGCCCACT
TTTTGGAGCACTTGGCGTTCAAGGGCACCAACCGCCGCAACCAGC
Found at i:35618 original size:8 final size:8
Alignment explanation
Indices: 35605--35655 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
35595 CTATCGCACT
35605 CACCAAAC
1 CACCAAAC
35613 CACCAAAC
1 CACCAAAC
35621 CACC-AAC
1 CACCAAAC
* *
35628 CATCAAGC
1 CACCAAAC
35636 CACC-AAC
1 CACCAAAC
**
35643 CATTAAAC
1 CACCAAAC
35651 CACCA
1 CACCA
35656 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 35105 -- 35604
TCCACTGTGCGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCGAAGCTGGGCAGGCGGAA
GTGATGCGTTATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGCCGTGAGGCATGGCGTTA
CGGTGGTGGTGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAGCAGATCATTCGGTTAAA
TCTATTCGGTTAAATCTATTTGGTTGAAGTGTAATCGGTTGATTTAATTCGGATAATGTTGTCAG
CAAGGAAATACCGAGATAGCCGTAGCCAAGAATAGTCAGGTACTAGTAACCGGTTAGTCAGAAAC
CACCTAAGCACCTAGCCAAGTAACCACCTAATCAAGGAGCCACCAAACTACCTGACACACTATCA
CACCCACCCGCCTAACCTAGCTAACACAAAATCACCTACCCAAATCACCTACCCAAATCACCTAC
CCACCTTATCTAACTGTCTGACGTAATCACCAAATCTATCGCACT
Right flanking sequence: Indices 35656 -- 36155
CCTTCAAACCACCCAACTACATAACCACCCCCCACACATTCACCCCTACACCCCTTAGCTACTAT
CACCCTCCCTTCCCTCCCCCGTCTTCCCCCTTCTCCCCCTCGCCTTATCCCGTACCCCTCCTTTC
CTGCACACACCCCCACCGTTGCCACTAGAGTGCGCATCGGGCTCCGAAACCGCCATGCTTCGCCA
ACTCAGACCGCTTTTGCCGCGGGCTCGCGGCCTCGCCACCACCACCTTGGACAACGGGCTCACGG
TGTGCCTGGAGGTGATGCCGGGCACCCGCACCGCCACCGTGGGCGTGTGGATCAACGCCGGGCTG
CGCGGCGACACCACCGCCAACCTGGGCACCGCCCACTTTTTGGAGCACTTGGCGTTCAAGGGCAC
CAACCGCCGCAACCAGCGCCAGTTGGAGCTCGAGATCGAAAACTTGGGCTCGCAGATCAACGCCT
ACACCCTGCGCGAGAACACCGTCTACTACACCAAGTGCTTGAACC
Found at i:35638 original size:15 final size:15
Alignment explanation
Indices: 35605--35668 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
35595 CTATCGCACT
*
35605 CACCAAACCACCAAAC
1 CACC-AACCATCAAAC
*
35621 CACCAACCATCAAGC
1 CACCAACCATCAAAC
*
35636 CACCAACCATTAAAC
1 CACCAACCATCAAAC
*
35651 CACC-ACCTTCAAAC
1 CACCAACCATCAAAC
35665 CACC
1 CACC
35669 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 35105 -- 35604
TCCACTGTGCGGCAATCGTGGCATAGAGGCGTGCTAGTTCATGCGCCGAAGCTGGGCAGGCGGAA
GTGATGCGTTATCGTCGCCTATTGCGAAAGGGAGCGTCCGTTTTCAGCCGTGAGGCATGGCGTTA
CGGTGGTGGTGCAGGTGGGTGGGTGGTTATGGCCTAGAGTTGGCTGAGCAGATCATTCGGTTAAA
TCTATTCGGTTAAATCTATTTGGTTGAAGTGTAATCGGTTGATTTAATTCGGATAATGTTGTCAG
CAAGGAAATACCGAGATAGCCGTAGCCAAGAATAGTCAGGTACTAGTAACCGGTTAGTCAGAAAC
CACCTAAGCACCTAGCCAAGTAACCACCTAATCAAGGAGCCACCAAACTACCTGACACACTATCA
CACCCACCCGCCTAACCTAGCTAACACAAAATCACCTACCCAAATCACCTACCCAAATCACCTAC
CCACCTTATCTAACTGTCTGACGTAATCACCAAATCTATCGCACT
Right flanking sequence: Indices 35669 -- 36168
CAACTACATAACCACCCCCCACACATTCACCCCTACACCCCTTAGCTACTATCACCCTCCCTTCC
CTCCCCCGTCTTCCCCCTTCTCCCCCTCGCCTTATCCCGTACCCCTCCTTTCCTGCACACACCCC
CACCGTTGCCACTAGAGTGCGCATCGGGCTCCGAAACCGCCATGCTTCGCCAACTCAGACCGCTT
TTGCCGCGGGCTCGCGGCCTCGCCACCACCACCTTGGACAACGGGCTCACGGTGTGCCTGGAGGT
GATGCCGGGCACCCGCACCGCCACCGTGGGCGTGTGGATCAACGCCGGGCTGCGCGGCGACACCA
CCGCCAACCTGGGCACCGCCCACTTTTTGGAGCACTTGGCGTTCAAGGGCACCAACCGCCGCAAC
CAGCGCCAGTTGGAGCTCGAGATCGAAAACTTGGGCTCGCAGATCAACGCCTACACCCTGCGCGA
GAACACCGTCTACTACACCAAGTGCTTGAACCGCGACATCGACCA
Found at i:39375 original size:15 final size:15
Alignment explanation
Indices: 39357--39388 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39347 CGGAGCATGA
39357 GCACCAGGAGCCTGG
1 GCACCAGGAGCCTGG
*
39372 GCACGAGGAGCCTGG
1 GCACCAGGAGCCTGG
39387 GC
1 GC
39389 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 38857 -- 39356
GGCGGCTCCTGCGCCAGGCCACCACCCTCTACGAGATGTGGAACGACTTCAAGGACTTGGAGCGC
GACTTGGTCGCCAACAACATCACCGTCACCGAGTGGCTCAAGGTGCACGGGCTGCTGGAGCGCCA
GTTCCGCCACACCCGCCAGAAAATCATCAAGTTCATCGAGGACGAGGCGGCCCGGCAGAAGGTCG
ACGTCGAGGTGATCAAAGAAAAGCTCTACAACAAGATGGTCAAACGCATGCGGCCCATGACCCTA
GACCAGTTGCAACGCATGCTCACCATGGGTAAACGTATCGATCTCGACTAGAAAATAATATAAAA
TTGACGGGCACCCCGCAGAATAGGGGTGTACCGCAAGCAGCTACAAAATAGAAGCCGCCGTGCGC
GCCACAAAACTTATTGGCATGTGTGGACGGTTTAGTCTTGGCTTGGAGGCGAGCGATCTCCCGGC
CGCGGTGCGCGGGGAACCAGGTGGCCCGGGTAACCCGGAGCATGA
Right flanking sequence: Indices 39389 -- 39888
CCCTGGGCGAGTCTCGTTCCGAGCAGGGTGCGGCTGTCGACTGGCTGGGGGCGGCGGCGTGGAAG
CCCAGCTACAACATCGCACCCACCGACCGGGCGTTGCTCGCGATAGAAAAGAACGGCACTCTCCA
ATTGGAGGTGCTGAGCTTTGGCATGGTCCCCCCGTACTTCAAGGGGGACGCCAGGGCGGCCCGGG
CCCAGCAGCTGAAGACGTTCAATTGCCGGCGCGAGACCATCTGTAGCGGCCACCTGGTGTGGGAC
AGCGTCAAGAACCACGGGCGGGGGGTGGTCCCGGCCCAGGGCTACTACGAGTGGCGGCTGGTCGC
TGGCGACAAGCAGCCGTACTTTGTCCACTACCAAAACGCACCCCTCATCTGGTTGGTGGCTGTAT
ACAGTCACCATCCCGAGCACGGGTCGTCGTTTGCCATTGTCACGGGCCCGGCCCGCGGCGACGAC
GACGACGACATTCTGTGGTTGCACGCACGCAAGCCGTTGATGGTG
Found at i:40255 original size:15 final size:15
Alignment explanation
Indices: 40235--40307 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 15
40225 GTCAAACACA
*
40235 GTGTCAACAACGAAG
1 GTGTCAACAGCGAAG
* * *
40250 GTGTCAACCGTGAAA
1 GTGTCAACAGCGAAG
*
40265 GTGTCAACCGCGAAG
1 GTGTCAACAGCGAAG
*
40280 GTGTCAA-ACTCGAAG
1 GTGTCAACA-GCGAAG
*
40295 GTGTCAACCGCGA
1 GTGTCAACAGCGA
40308 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 39735 -- 40234
TGTCCACTACCAAAACGCACCCCTCATCTGGTTGGTGGCTGTATACAGTCACCATCCCGAGCACG
GGTCGTCGTTTGCCATTGTCACGGGCCCGGCCCGCGGCGACGACGACGACGACATTCTGTGGTTG
CACGCACGCAAGCCGTTGATGGTGGCGCCGTTCCTGGACCGGTGGCGCCGGTGGCTCGACCCCGA
GCTCTCGTTTGCTGAGGTCGAGGACGTGCTCGAGTCGCAGCACAACGAGGCGTTCGCGGGGCTCG
ACATCTACAAGGTGGGCAAGAAGGTGGGCAACAGCCGGGCCGCGGGGCCCGAGTTGATGAAACCC
GACACCCAGGCGTCCATCGGGCTGTTTTTCAAGGAGGGGAAGACCCTGCGCACCGATGACGTCAC
GAGGAAAACTGTCAACGAACCGGATGTCAAAAACAGTGTCAACGACGACGTCAAAAATGTCAAGC
AGGAGGAAGGTGTCACCGGCCACAGTAGCGAAGATGTCAAACACA
Right flanking sequence: Indices 40308 -- 40807
CACTGTCAACCTCACCGGTGTCAAAACCCCTAGCGACGTCACCGACATCAAACAGAAGCCCAAGC
ACGCCAGCGGCGCCAAACCTGTAGCACCCAAACGCAAGCTCGAGTACCGGCTGGCCAAGACCCCC
AAAAAGCGTCCCCACTACGACATCGCCAACATGGTCACAAAGAGCCCCCGCAAACCTAAATAGGC
AATACACCCACAGACACCCAAGCTATCCCTTCGTCCTCTGCAGGGGACGGGCCCCGCGGAAGAAT
GGGGCTGTGCGCACGGTGGGCTCCGCGATTCTGTTGCCCGCCCGCGATGTCGCCGTCGTCAATCC
CCCGTGCTAATAATAGATTTGGATCGTGCAGATAGCGGAGGTTCGCTGGTGCTGGTGGACAGCAG
CCCCCACGGGATGGTGCAAACGACATATACGCCCAACGCGTTTTTACGTCCTACGTCCGCATGGG
CCTACGCGTGTCCGAGTCCGGCGGGGCTTGTGGCGAACCCAACCC
Found at i:40299 original size:30 final size:30
Alignment explanation
Indices: 40234--40307 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
40224 TGTCAAACAC
** *
40234 AGTGTCAACAACGAAGGTGTCAACCGTGAA
1 AGTGTCAACCGCGAAGGTGTCAAACGTGAA
40264 AGTGTCAACCGCGAAGGTGTCAAAC-TCGAA
1 AGTGTCAACCGCGAAGGTGTCAAACGT-GAA
*
40294 GGTGTCAACCGCGA
1 AGTGTCAACCGCGA
40308 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 39734 -- 40233
TTGTCCACTACCAAAACGCACCCCTCATCTGGTTGGTGGCTGTATACAGTCACCATCCCGAGCAC
GGGTCGTCGTTTGCCATTGTCACGGGCCCGGCCCGCGGCGACGACGACGACGACATTCTGTGGTT
GCACGCACGCAAGCCGTTGATGGTGGCGCCGTTCCTGGACCGGTGGCGCCGGTGGCTCGACCCCG
AGCTCTCGTTTGCTGAGGTCGAGGACGTGCTCGAGTCGCAGCACAACGAGGCGTTCGCGGGGCTC
GACATCTACAAGGTGGGCAAGAAGGTGGGCAACAGCCGGGCCGCGGGGCCCGAGTTGATGAAACC
CGACACCCAGGCGTCCATCGGGCTGTTTTTCAAGGAGGGGAAGACCCTGCGCACCGATGACGTCA
CGAGGAAAACTGTCAACGAACCGGATGTCAAAAACAGTGTCAACGACGACGTCAAAAATGTCAAG
CAGGAGGAAGGTGTCACCGGCCACAGTAGCGAAGATGTCAAACAC
Right flanking sequence: Indices 40308 -- 40807
CACTGTCAACCTCACCGGTGTCAAAACCCCTAGCGACGTCACCGACATCAAACAGAAGCCCAAGC
ACGCCAGCGGCGCCAAACCTGTAGCACCCAAACGCAAGCTCGAGTACCGGCTGGCCAAGACCCCC
AAAAAGCGTCCCCACTACGACATCGCCAACATGGTCACAAAGAGCCCCCGCAAACCTAAATAGGC
AATACACCCACAGACACCCAAGCTATCCCTTCGTCCTCTGCAGGGGACGGGCCCCGCGGAAGAAT
GGGGCTGTGCGCACGGTGGGCTCCGCGATTCTGTTGCCCGCCCGCGATGTCGCCGTCGTCAATCC
CCCGTGCTAATAATAGATTTGGATCGTGCAGATAGCGGAGGTTCGCTGGTGCTGGTGGACAGCAG
CCCCCACGGGATGGTGCAAACGACATATACGCCCAACGCGTTTTTACGTCCTACGTCCGCATGGG
CCTACGCGTGTCCGAGTCCGGCGGGGCTTGTGGCGAACCCAACCC
Found at i:43721 original size:23 final size:23
Alignment explanation
Indices: 43695--43751 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
43685 AGGAAAGGAG
*
43695 AGATCAAGGAAGATTAGACTGG-T
1 AGAT-AAGGAAGAATAGACTGGTT
43718 AGATAATGGAAGAATAGACTGGTT
1 AGATAA-GGAAGAATAGACTGGTT
43742 AGATAAGGAA
1 AGATAAGGAA
43752 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 43195 -- 43694
GACCAGCTGGACACGTTGTTGCACCCGCTGGCCCAGTTTGTCTACGACTTGTGCACCATCTCCAA
CGACGCCAAGTACCGCACGTTGTTGTTCTTGAAGGTGAACGGCAAGTACATCGCGGCGTGTATCA
TTTTCCGGCTCGGGGAGACGATGACCATGGACATCAATGGCATTGACTACGACGCCGACGCCAAG
CACTACAAGGCATACTTTGTGTTGATGCAGGAGGTGATCCGGATGGCGCTCCGGGAGAAGATTTC
GTTTGTTGACTTTGGCCCCACCACCGAGAACGCCAAGGTGGACATTGGGTGCAGCGTGGTGCCCC
TCGTGGGGTCGTTGTACACGGGGATGCGCGGAGTAGGTCCGCTTGTCAAGTTTGCCGCCGGCCGG
GTCGACGTGTGATTGTTTTTTTAGGTTATAGAGGATAGGTTAGGAAAGGATAGAAGATTAGACTG
GTGTTAGATAATGGATAATTAGAGAAAAGGTAGAAAGGAAAGGAG
Right flanking sequence: Indices 43752 -- 44251
TAATTAGAGAAAAGGTTTGGAAGAGGCTTTTGGGTTATGGACGAACGAAGTAGAAATATTGGCTT
CGTGTGGTTTCGTTAGCACGATCTGCTGGTTGGAGGAAAACGGGCAACGTGCGGGTTTAATTATA
CCACGTGTCACCTTTGTCACCATTGTCATTGATTTCCTCATCTATAACCCCTATTCACCTCATTA
CCTTCTTTCCTTCGTTTACGCGTAGTATACGACCTTCGGACCAGGTTGTCGCGTTGCACGTTGTC
ACCGTCCAGATAAGCCACAATCACAAAGCAATGACTCAGTCTCCTCTATTAAACGCTCTCTACCA
CCACCATCACCCCAACCACCTCGATCACCCCCTTTTCCCCTATAAATCTCTACCTGCCCGTCCCC
ACACCGTCCTGGCGTATTTTTCACTCTTCGCGACTTTCGACGCGACTACTCCATGGTCACTATCG
CGTTTATCCACCCCGATCTCGGGATTGGCGGCGCTGAACGGCTCG
Found at i:43759 original size:24 final size:24
Alignment explanation
Indices: 43702--43759 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
43692 GAGAGATCAA
43702 GGAAG-ATTAGACTGGTAGATAAT
1 GGAAGAATTAGACTGGTAGATAAT
43725 GGAAGAA-TAGACTGGTTAGATAA-
1 GGAAGAATTAGACTGG-TAGATAAT
*
43748 GGAATAATTAGA
1 GGAAGAATTAGA
43760 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 43202 -- 43701
TGGACACGTTGTTGCACCCGCTGGCCCAGTTTGTCTACGACTTGTGCACCATCTCCAACGACGCC
AAGTACCGCACGTTGTTGTTCTTGAAGGTGAACGGCAAGTACATCGCGGCGTGTATCATTTTCCG
GCTCGGGGAGACGATGACCATGGACATCAATGGCATTGACTACGACGCCGACGCCAAGCACTACA
AGGCATACTTTGTGTTGATGCAGGAGGTGATCCGGATGGCGCTCCGGGAGAAGATTTCGTTTGTT
GACTTTGGCCCCACCACCGAGAACGCCAAGGTGGACATTGGGTGCAGCGTGGTGCCCCTCGTGGG
GTCGTTGTACACGGGGATGCGCGGAGTAGGTCCGCTTGTCAAGTTTGCCGCCGGCCGGGTCGACG
TGTGATTGTTTTTTTAGGTTATAGAGGATAGGTTAGGAAAGGATAGAAGATTAGACTGGTGTTAG
ATAATGGATAATTAGAGAAAAGGTAGAAAGGAAAGGAGAGATCAA
Right flanking sequence: Indices 43760 -- 44259
GAAAAGGTTTGGAAGAGGCTTTTGGGTTATGGACGAACGAAGTAGAAATATTGGCTTCGTGTGGT
TTCGTTAGCACGATCTGCTGGTTGGAGGAAAACGGGCAACGTGCGGGTTTAATTATACCACGTGT
CACCTTTGTCACCATTGTCATTGATTTCCTCATCTATAACCCCTATTCACCTCATTACCTTCTTT
CCTTCGTTTACGCGTAGTATACGACCTTCGGACCAGGTTGTCGCGTTGCACGTTGTCACCGTCCA
GATAAGCCACAATCACAAAGCAATGACTCAGTCTCCTCTATTAAACGCTCTCTACCACCACCATC
ACCCCAACCACCTCGATCACCCCCTTTTCCCCTATAAATCTCTACCTGCCCGTCCCCACACCGTC
CTGGCGTATTTTTCACTCTTCGCGACTTTCGACGCGACTACTCCATGGTCACTATCGCGTTTATC
CACCCCGATCTCGGGATTGGCGGCGCTGAACGGCTCGTGGTGGAC
Found at i:44096 original size:18 final size:18
Alignment explanation
Indices: 44073--44107 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44063 AACGCTCTCT
44073 ACCACCACCATCACCCCA
1 ACCACCACCATCACCCCA
* *
44091 ACCACCTCGATCACCCC
1 ACCACCACCATCACCCC
44108 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 43573 -- 44072
GCCGCCGGCCGGGTCGACGTGTGATTGTTTTTTTAGGTTATAGAGGATAGGTTAGGAAAGGATAG
AAGATTAGACTGGTGTTAGATAATGGATAATTAGAGAAAAGGTAGAAAGGAAAGGAGAGATCAAG
GAAGATTAGACTGGTAGATAATGGAAGAATAGACTGGTTAGATAAGGAATAATTAGAGAAAAGGT
TTGGAAGAGGCTTTTGGGTTATGGACGAACGAAGTAGAAATATTGGCTTCGTGTGGTTTCGTTAG
CACGATCTGCTGGTTGGAGGAAAACGGGCAACGTGCGGGTTTAATTATACCACGTGTCACCTTTG
TCACCATTGTCATTGATTTCCTCATCTATAACCCCTATTCACCTCATTACCTTCTTTCCTTCGTT
TACGCGTAGTATACGACCTTCGGACCAGGTTGTCGCGTTGCACGTTGTCACCGTCCAGATAAGCC
ACAATCACAAAGCAATGACTCAGTCTCCTCTATTAAACGCTCTCT
Right flanking sequence: Indices 44108 -- 44607
CTTTTCCCCTATAAATCTCTACCTGCCCGTCCCCACACCGTCCTGGCGTATTTTTCACTCTTCGC
GACTTTCGACGCGACTACTCCATGGTCACTATCGCGTTTATCCACCCCGATCTCGGGATTGGCGG
CGCTGAACGGCTCGTGGTGGACGCTGCGTGTGGTCTCCAGGACCTCGGCAACACTGTGGTTGCCT
ACACTTCCCACTGCGACCGCCTGCACTGCTTCGAGGAGGTCAAGTCCAACGAGCTTCTGGTGGTG
GTGTACGGGGACTGGTTGCCCACGACGATCGCCCGGCGGTTTCACATCGTGTGTGCCGGGTTACG
CCAGCTCTGGTTGACCGGGCGGTTGCTCCTAGCAGGCCCCAAGTACGATTTCTACGTGGTGGACC
AGTTGTCGTACTGTATCCCCTTGCTCAAAATATTTGGCCAGGGCCGGGTGATGTTCTACGGACAC
TTTCCCGACCAGCTCTTGGCACTCCCAGGATCGCCCCTCAAGCGG
Found at i:46535 original size:18 final size:18
Alignment explanation
Indices: 46514--46555 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
46504 GTCACTACAG
*
46514 TCAATTGGCACACTTCAT
1 TCAATTGGCACACTGCAT
46532 TCAATTGGCACACTGCAT
1 TCAATTGGCACACTGCAT
46550 TCAATT
1 TCAATT
46556 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 46014 -- 46513
AGAGCCGTCCTTGTACTTGACCTCGACCACCGGGGAGTGGGCAGCCGTGTGGACCTTGAGCATCG
CCTCCGGTGGAGGGGTGTCGGGGATCCAATTGTGTGCCTTGAGGGTGTAGGGGATTTTGAGGAGC
TTGAAGAACCACATGATGCGGACGCCACGGCCCTTGGGGTAGCTATGTAACACGATTTCGTCGAC
CTTATCCATGCTGGATCGCTACGGTTTCTGCCTAGATATATACTTGGAACGGGGCCACGAGACAT
GTTTTGAGGCATTATCTGGAAGCAGGATGTCGTACTACCGTGCACGCAAAACCACATAGCTTACG
AGCGAGACTCTTGGCACTGGGGTCCTTGCTGTCGTATCTGCTCGTCTTAGTAATTGACTCAGGAG
AAGGTTTACGAGACGGAGGTACGAGACAGGTGATAGGCGCTTAGTCATCCCAAGCTAACCTAGGC
GTTGAACGTGATGGGAGAGCTTTGTACCTCTCTCGGTCACTACAG
Right flanking sequence: Indices 46556 -- 47055
CAAATTATACTTAACAATTACATAACGGTTTCAGGGAGGGTAATCGTACAGCGCCCTTCCTGTTT
CAACTGGTCGTACCATTTAGACAACCACTTGTACTGCGGCAAGTTTGCCTCGTTCAAGAAACACG
GCCCAAACATAATCAAGTCGGCCGCGGTGGTCTTGTCGCCCACCAACCACGACTTCCCCGCCTTG
AACCGCTTCTCGCACCACTCGTCCATAAACTCAAACACCCGGTTGCGGTAGTCAGGGAGGTAGTC
GGTGAAGTACAGGTGGTCGTTGCCCCACTTCATGACGTCGTTAATCATGTAAGGCAACACTGGAG
GCATAAAAGACCCCTCGCTGAAGAACAAAAAGAACCGCACATCCTCCTTTTCGTCGTCAGTCTTC
CCGGTGAACTCGTTGTTGGGACCGTAGTGCTCCAACAAGTACTCGTAGATGTACCCCAGCTCGGC
AAGTACCTTGGTGGAGCCGTCCTTGTACACCAACTCGACCACCGG
Done.