Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: C10817
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: 32108
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Found at i:31694 original size:36 final size:36
Alignment explanation
Indices: 31626--31699 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
31616 GGACCCGTCT
* *
31626 CAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAAC
1 CAGAAGGACCAGTCTCGGTAAGGACAGACTCAGAAC
* *
31662 CAGAAGGACCAGTTTCGG-AAGGACCAGTCTCAGAAC
1 CAGAAGGACCAGTCTCGGTAAGGA-CAGACTCAGAAC
31698 CA
1 CA
31700 CTACCGGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.32, C:0.26, G:0.30, T:0.12
Consensus pattern (36 bp):
CAGAAGGACCAGTCTCGGTAAGGACAGACTCAGAAC
Left flanking sequence: Indices 31126 -- 31625
CACAGTAGACTAAAACTCTGGTCATTCACGGACTAGTTGTCACCATCCTTGCCGAAAAAAATAGG
AAGAACATGTAACTAGTGAGATTAATTATTATTACCTTTATTGTGTATCGAAATGCTATTGTAGC
AGCCATTAAAGTGTCATATATCACAAGAATTGAACGAAAAATAAAACAAACAAACCTTCGAGTTC
AAATTTAGCAAACCGAAATGTGGTTGGGAATTAAAGACGAACTCCGCAATGCAAGTGGTTGAAAA
GAATTGGCACCTTCAACCAAGAGGTGTGAATAGTGGTATCATGAAGTGGGTTGATTCACCCGTGA
ATATTAAAATATTCTTAGAAGACCATCAGGAACATCGTCGAAACGTAGATCGTCTGCGTGGTGGT
GACAGTCTCAGGGATGGTGATAGTGATGGGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACG
AAGGTTCGGAGATGGAACCAGAGTCTGTAGCCGAAGGACCCGTCT
Right flanking sequence: Indices 31700 -- 32108
CTACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCC
AGTACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGAC
CAGTCGCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCA
GTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGC
AGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGC
CGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGA
CCAGTCTCAGAGTCAGTGG
Found at i:31732 original size:15 final size:15
Alignment explanation
Indices: 31662--31696 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31652 GACTCAGAAC
*
31662 CAGAAGGACCAGTTT
1 CAGAAGGACCAGTCT
*
31677 CGGAAGGACCAGTCT
1 CAGAAGGACCAGTCT
31692 CAGAA
1 CAGAA
31697 CCACTACCGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.23, G:0.29, T:0.14
Consensus pattern (15 bp):
CAGAAGGACCAGTCT
Left flanking sequence: Indices 31162 -- 31661
TTGTCACCATCCTTGCCGAAAAAAATAGGAAGAACATGTAACTAGTGAGATTAATTATTATTACC
TTTATTGTGTATCGAAATGCTATTGTAGCAGCCATTAAAGTGTCATATATCACAAGAATTGAACG
AAAAATAAAACAAACAAACCTTCGAGTTCAAATTTAGCAAACCGAAATGTGGTTGGGAATTAAAG
ACGAACTCCGCAATGCAAGTGGTTGAAAAGAATTGGCACCTTCAACCAAGAGGTGTGAATAGTGG
TATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGACCATCAGGAACATC
GTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATGGGGGGAGG
GCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGTAGCCGAAG
GACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAAC
Right flanking sequence: Indices 31697 -- 32108
CCACTACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTGGG
GCCAGTACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAG
GACCAGTCGCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
TCAGTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGT
CGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
GGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAA
GGACCAGTCTCAGAGTCAGTGG
Found at i:31785 original size:51 final size:51
Alignment explanation
Indices: 31709--31854 Score: 240
Period size: 51 Copynumber: 2.9 Consensus size: 51
31699 ACTACCGGTA
*
31709 GGGCCAGT-CTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTG
1 GGGCCAGTAC-CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
*
31760 GGGCCAGTACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
1 GGGCCAGTACCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
* *
31811 GGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT
1 GGGCCAGTACCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT
31855 GCCAGAAGGA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 88 0.99
52 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.42, T:0.14
Consensus pattern (51 bp):
GGGCCAGTACCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
Left flanking sequence: Indices 31209 -- 31708
AGATTAATTATTATTACCTTTATTGTGTATCGAAATGCTATTGTAGCAGCCATTAAAGTGTCATA
TATCACAAGAATTGAACGAAAAATAAAACAAACAAACCTTCGAGTTCAAATTTAGCAAACCGAAA
TGTGGTTGGGAATTAAAGACGAACTCCGCAATGCAAGTGGTTGAAAAGAATTGGCACCTTCAACC
AAGAGGTGTGAATAGTGGTATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAG
AAGACCATCAGGAACATCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGT
GATAGTGATGGGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAAC
CAGAGTCTGTAGCCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCA
GAAGGACCAGTTTCGGAAGGACCAGTCTCAGAACCACTACCGGTA
Right flanking sequence: Indices 31855 -- 32108
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCGG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGA
AGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:31810 original size:15 final size:15
Alignment explanation
Indices: 31790--31818 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31780 AGTCGCAGAG
31790 TCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTC
31805 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
31819 GCCAGAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.24, G:0.48, T:0.21
Consensus pattern (15 bp):
TCAGTGGGGCCGGTC
Left flanking sequence: Indices 31290 -- 31789
CGAAAAATAAAACAAACAAACCTTCGAGTTCAAATTTAGCAAACCGAAATGTGGTTGGGAATTAA
AGACGAACTCCGCAATGCAAGTGGTTGAAAAGAATTGGCACCTTCAACCAAGAGGTGTGAATAGT
GGTATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGACCATCAGGAACA
TCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATGGGGGGA
GGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGTAGCCGA
AGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGAAGGACCAGTTTCGG
AAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCGCAGAG
Right flanking sequence: Indices 31819 -- 32108
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGG
GGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGA
GTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGG
TGCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:31852 original size:36 final size:36
Alignment explanation
Indices: 31805--31890 Score: 172
Period size: 36 Copynumber: 2.4 Consensus size: 36
31795 GGGGCCGGTC
31805 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
31841 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
31877 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
31891 CTCAGTGGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.24, G:0.43, T:0.13
Consensus pattern (36 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
Left flanking sequence: Indices 31305 -- 31804
ACAAACCTTCGAGTTCAAATTTAGCAAACCGAAATGTGGTTGGGAATTAAAGACGAACTCCGCAA
TGCAAGTGGTTGAAAAGAATTGGCACCTTCAACCAAGAGGTGTGAATAGTGGTATCATGAAGTGG
GTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGACCATCAGGAACATCGTCGAAACGTAGA
TCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATGGGGGGAGGGCAAATGTCAGAT
GACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGTAGCCGAAGGACCCGTCTCAGA
AGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGAAGGACCAGTTTCGGAAGGACCAGTCTCAG
AACCACTACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCAGTACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Right flanking sequence: Indices 31891 -- 32108
CTCAGTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAG
TCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGA
AGGACCAGTCTCAGAGTCAGTGG
Found at i:31896 original size:51 final size:51
Alignment explanation
Indices: 31841--31953 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
31831 AGTCGCAGAG
31841 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
* *
31892 TCAGTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
31943 TCAGTGGGGCC
1 TCAGTGGGGCC
31954 AGTCGCAGAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.16, C:0.26, G:0.43, T:0.15
Consensus pattern (51 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 31341 -- 31840
TGGTTGGGAATTAAAGACGAACTCCGCAATGCAAGTGGTTGAAAAGAATTGGCACCTTCAACCAA
GAGGTGTGAATAGTGGTATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAA
GACCATCAGGAACATCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGA
TAGTGATGGGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCA
GAGTCTGTAGCCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGA
AGGACCAGTTTCGGAAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGTCTCAGAAGGACCAG
TCGCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCGCAGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
Right flanking sequence: Indices 31954 -- 32108
AGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAG
TGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCA
GAAGGACCAGTCTCAGAGTCAGTGG
Found at i:31897 original size:15 final size:15
Alignment explanation
Indices: 31877--31992 Score: 72
Period size: 15 Copynumber: 6.9 Consensus size: 15
31867 AGTCGCAGAG
31877 TCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTC
31892 TCAGTGGGGCCGGTGC
1 TCAGTGGGGCCGGT-C
** *
31908 -CAGAAGGACCGGTCTC
1 TCAGTGGGGCCGG--TC
31924 AGAGTCAGTGGGGCCGGTC
1 ----TCAGTGGGGCCGGTC
*
31943 TCAGTGGGGCCAGTCGC
1 TCAGTGGGGCCGGT--C
31960 AGAGTCAGTGGGGCCGGTC
1 ----TCAGTGGGGCCGGTC
31979 TCAGTGGGGCCGGT
1 TCAGTGGGGCCGGT
31993 GCCAGAAGGA
Statistics
Matches: 79, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
15 50 0.63
16 2 0.03
17 2 0.03
19 3 0.04
21 22 0.28
ACGTcount: A:0.13, C:0.25, G:0.45, T:0.17
Consensus pattern (15 bp):
TCAGTGGGGCCGGTC
Left flanking sequence: Indices 31377 -- 31876
GGTTGAAAAGAATTGGCACCTTCAACCAAGAGGTGTGAATAGTGGTATCATGAAGTGGGTTGATT
CACCCGTGAATATTAAAATATTCTTAGAAGACCATCAGGAACATCGTCGAAACGTAGATCGTCTG
CGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATGGGGGGAGGGCAAATGTCAGATGACCAGG
CACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGTAGCCGAAGGACCCGTCTCAGAAGGACCG
GTCTCGGTAGGGACAGACTCAGAACCAGAAGGACCAGTTTCGGAAGGACCAGTCTCAGAACCACT
ACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAG
TACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCA
GTCGCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAG
Right flanking sequence: Indices 31993 -- 32108
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAG
TCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:31942 original size:21 final size:21
Alignment explanation
Indices: 31916--31982 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
31906 GCCAGAAGGA
31916 CCGGTCTCAGAGTCAGTGGGG
1 CCGGTCTCAGAGTCAGTGGGG
31937 CCGG--TC----TCAGTGGGG
1 CCGGTCTCAGAGTCAGTGGGG
* *
31952 CCAGTCGCAGAGTCAGTGGGG
1 CCGGTCTCAGAGTCAGTGGGG
31973 CCGGTCTCAG
1 CCGGTCTCAG
31983 TGGGGCCGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
15 12 0.33
17 1 0.03
19 2 0.06
21 21 0.58
ACGTcount: A:0.13, C:0.27, G:0.42, T:0.18
Consensus pattern (21 bp):
CCGGTCTCAGAGTCAGTGGGG
Left flanking sequence: Indices 31416 -- 31915
TAGTGGTATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGACCATCAGG
AACATCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATGGG
GGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGTAG
CCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGAAGGACCAGTT
TCGGAAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTC
AGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCT
CAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTC
GCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGA
Right flanking sequence: Indices 31983 -- 32108
TGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCG
GAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:31979 original size:36 final size:36
Alignment explanation
Indices: 31892--31989 Score: 135
Period size: 36 Copynumber: 2.7 Consensus size: 36
31882 GGGGCCGGTC
** * * *
31892 TCAGTGGGGCCGGTGC-CAGAAGGACCGGTCTCAGAG
1 TCAGTGGGGCCGGT-CTCAGTGGGGCCAGTCGCAGAG
31928 TCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAG
1 TCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAG
31964 TCAGTGGGGCCGGTCTCAGTGGGGCC
1 TCAGTGGGGCCGGTCTCAGTGGGGCC
31990 GGTGCCAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 1 0.02
36 55 0.98
ACGTcount: A:0.14, C:0.26, G:0.44, T:0.16
Consensus pattern (36 bp):
TCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAG
Left flanking sequence: Indices 31392 -- 31891
GCACCTTCAACCAAGAGGTGTGAATAGTGGTATCATGAAGTGGGTTGATTCACCCGTGAATATTA
AAATATTCTTAGAAGACCATCAGGAACATCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGT
CTCAGGGATGGTGATAGTGATGGGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTT
CGGAGATGGAACCAGAGTCTGTAGCCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACA
GACTCAGAACCAGAAGGACCAGTTTCGGAAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGT
CTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAG
TCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Right flanking sequence: Indices 31990 -- 32108
GGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGAC
CAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:31983 original size:51 final size:51
Alignment explanation
Indices: 31928--32079 Score: 234
Period size: 51 Copynumber: 3.0 Consensus size: 51
31918 GGTCTCAGAG
** *
31928 TCAGTGGGGCCGGT-CTCAGTGGGGCCAGTCGCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTGC-CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
31979 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
* * *
32030 TCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGT
1 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT
32080 GCCAGAAGGA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 93 0.99
52 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.43, T:0.16
Consensus pattern (51 bp):
TCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Left flanking sequence: Indices 31428 -- 31927
GAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGACCATCAGGAACATCGTCGAA
ACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATGGGGGGAGGGCAAAT
GTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGTAGCCGAAGGACCCG
TCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGAAGGACCAGTTTCGGAAGGACCA
GTCTCAGAACCACTACCGGTAGGGCCAGTCTCAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGT
CTCAGTGGGGCCAGTACCGGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGG
TGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTG
GGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAG
Right flanking sequence: Indices 32080 -- 32108
GCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:32030 original size:87 final size:87
Alignment explanation
Indices: 31778--32043 Score: 471
Period size: 87 Copynumber: 3.1 Consensus size: 87
31768 ACCGGAAGGA
31778 CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTC
1 CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTC
** *
31843 AGTGGGGCCGGTGC-CAGAAGGA
66 AGTGGGGCCGGT-CTCAGTGGGG
* *
31865 CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCGGTCTCAGAGTC
1 CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTC
31930 AGTGGGGCCGGTCTCAGTGGGG
66 AGTGGGGCCGGTCTCAGTGGGG
31952 CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTC
1 CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTC
32017 AGTGGGGCCGGTCTCAGTGGGG
66 AGTGGGGCCGGTCTCAGTGGGG
32039 CCAGT
1 CCAGT
32044 GCCGGAAGGA
Statistics
Matches: 171, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
86 1 0.01
87 170 0.99
ACGTcount: A:0.17, C:0.26, G:0.43, T:0.15
Consensus pattern (87 bp):
CCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTC
AGTGGGGCCGGTCTCAGTGGGG
Left flanking sequence: Indices 31278 -- 31777
ACAAGAATTGAACGAAAAATAAAACAAACAAACCTTCGAGTTCAAATTTAGCAAACCGAAATGTG
GTTGGGAATTAAAGACGAACTCCGCAATGCAAGTGGTTGAAAAGAATTGGCACCTTCAACCAAGA
GGTGTGAATAGTGGTATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGA
CCATCAGGAACATCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATA
GTGATGGGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGA
GTCTGTAGCCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGAAG
GACCAGTTTCGGAAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGTCTCAGAAGGACCAGTC
GCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGA
Right flanking sequence: Indices 32044 -- 32108
GCCGGAAGGACCAGTCTCAGAGTCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAGTCAGTGG
Found at i:32070 original size:36 final size:36
Alignment explanation
Indices: 32030--32108 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
32020 GGGGCCGGTC
*
32030 TCAGTGGGGCCAGTGCCGGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
*
32066 TCAGTGGGGCCGGTGCCAGAAGGACCAGTCTCAGAG
1 TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
32102 TCAGTGG
1 TCAGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.15
Consensus pattern (36 bp):
TCAGTGGGGCCAGTGCCAGAAGGACCAGTCTCAGAG
Left flanking sequence: Indices 31530 -- 32029
TGGTGATAGTGATGGGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATG
GAACCAGAGTCTGTAGCCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGA
ACCAGAAGGACCAGTTTCGGAAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGTCTCAGAAG
GACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTCGCAGAG
TCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGT
GCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCGG
TCTCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTG
GGGCCGGTGCCAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTC
Right flanking sequence: None
Found at i:32094 original size:138 final size:137
Alignment explanation
Indices: 31719--32108 Score: 556
Period size: 138 Copynumber: 2.8 Consensus size: 137
31709 GGGCCAGTCT
* *
31719 CAGAAGGACCAGTCGCGGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTACCGGAAGGACCAGTC
1 CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTC
* * *
31784 GCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGT-GCCAGAAGGACCAGT--CGCAGAGTCAGT
66 TCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCG-CAG-A-G-TCAGTGGCGCAGAGTCAGT
31846 GGGGCCGGTGC
127 GGGGCCGGTGC
* * *
31857 CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCGGTGCCAGAAGGACCGGTC
1 CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTC
* *
31922 TCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAGTCAGTGGGGCCG-GTCTCAGTGG
66 TCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAGTCAGTGGCGCAGAG--TCAGTGG
31986 GGCCGGTGC
129 GGCCGGTGC
31995 CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTC
1 CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTC
** * *
32060 TCAGAGTCAGTGGGGCCGGTGC-CAGAAGGACCAGTCTCAGAGTCAGTGG
66 TCAGAGTCAGTGGGGCCGGT-CTCAGTGGGGCCAGTCGCAGAGTCAGTGG
Statistics
Matches: 229, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
135 4 0.02
136 2 0.01
137 4 0.02
138 217 0.95
139 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.42, T:0.14
Consensus pattern (137 bp):
CAGAAGGACCAGTCGCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTGCCGGAAGGACCAGTC
TCAGAGTCAGTGGGGCCGGTCTCAGTGGGGCCAGTCGCAGAGTCAGTGGCGCAGAGTCAGTGGGG
CCGGTGC
Left flanking sequence: Indices 31219 -- 31718
TTATTACCTTTATTGTGTATCGAAATGCTATTGTAGCAGCCATTAAAGTGTCATATATCACAAGA
ATTGAACGAAAAATAAAACAAACAAACCTTCGAGTTCAAATTTAGCAAACCGAAATGTGGTTGGG
AATTAAAGACGAACTCCGCAATGCAAGTGGTTGAAAAGAATTGGCACCTTCAACCAAGAGGTGTG
AATAGTGGTATCATGAAGTGGGTTGATTCACCCGTGAATATTAAAATATTCTTAGAAGACCATCA
GGAACATCGTCGAAACGTAGATCGTCTGCGTGGTGGTGACAGTCTCAGGGATGGTGATAGTGATG
GGGGGAGGGCAAATGTCAGATGACCAGGCACTTGACGAAGGTTCGGAGATGGAACCAGAGTCTGT
AGCCGAAGGACCCGTCTCAGAAGGACCGGTCTCGGTAGGGACAGACTCAGAACCAGAAGGACCAG
TTTCGGAAGGACCAGTCTCAGAACCACTACCGGTAGGGCCAGTCT
Right flanking sequence: None
Done.