Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: C7449
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, 376
Length: 627
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--35 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
*
1 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36 AAAATATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Left flanking sequence: None
Right flanking sequence: Indices 36 -- 535
AAAATATGTATATGCGGTTAGCAGGAGTCGAACCTACACGAGTTTCCTCTGGACATCTTAAGTGT
CCTATGTCTACCATTTCATCATAACCGCTCACCTTTATATATATGTATAAATAAATAAATAAATA
TATATAAATAATAACAATGAATATATGTGGCCGCATAGCGGGTGAAAATAAATATAAAAATAGTA
TATTAACCAATAAATATAATTCCATTAATAAAGTAAATTAAAGCAGGAATAAATAAAGCTAAAGC
AAATAATAGAGGTAAGAAAACAACTCAACACATATTAATTAATTTATCATATCTAACTCTAGGTA
AAGTAGCTCTAACTCAAATATAAGTAAATGCAAAGAAGTTAGCTTTAAGAGCTAAGAATATACCA
GTACCACCACCAAAGAATAAGATAGCAGTTAAAGTAGATAAGAATAAAATAGAAGTATACTCAGA
TAAGAAGAATAAAACAAAAATAGAAGAAGAGTATTCAGTCATATG
Found at i:24 original size:18 final size:18
Alignment explanation
Indices: 1--48 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
1 ATATATATATATATATAA
1 ATATATATATATATATAA
19 ATATATATATATATATAA
1 ATATATATATATATATAA
* *
37 AAATATGTATAT
1 ATATATATATAT
49 GCGGTTAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATATATATATATATAA
Left flanking sequence: None
Right flanking sequence: Indices 49 -- 548
GCGGTTAGCAGGAGTCGAACCTACACGAGTTTCCTCTGGACATCTTAAGTGTCCTATGTCTACCA
TTTCATCATAACCGCTCACCTTTATATATATGTATAAATAAATAAATAAATATATATAAATAATA
ACAATGAATATATGTGGCCGCATAGCGGGTGAAAATAAATATAAAAATAGTATATTAACCAATAA
ATATAATTCCATTAATAAAGTAAATTAAAGCAGGAATAAATAAAGCTAAAGCAAATAATAGAGGT
AAGAAAACAACTCAACACATATTAATTAATTTATCATATCTAACTCTAGGTAAAGTAGCTCTAAC
TCAAATATAAGTAAATGCAAAGAAGTTAGCTTTAAGAGCTAAGAATATACCAGTACCACCACCAA
AGAATAAGATAGCAGTTAAAGTAGATAAGAATAAAATAGAAGTATACTCAGATAAGAAGAATAAA
ACAAAAATAGAAGAAGAGTATTCAGTCATATGACCAGAAACTAAC
Found at i:42 original size:10 final size:10
Alignment explanation
Indices: 1--47 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
*
1 ATATATATAT
1 ATATATAAAT
11 ATATATAAAT
1 ATATATAAAT
*
21 ATATATATAT
1 ATATATAAAT
*
31 ATATAAAAAT
1 ATATATAAAT
*
41 ATGTATA
1 ATATATA
48 TGCGGTTAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
ATATATAAAT
Left flanking sequence: None
Right flanking sequence: Indices 48 -- 547
TGCGGTTAGCAGGAGTCGAACCTACACGAGTTTCCTCTGGACATCTTAAGTGTCCTATGTCTACC
ATTTCATCATAACCGCTCACCTTTATATATATGTATAAATAAATAAATAAATATATATAAATAAT
AACAATGAATATATGTGGCCGCATAGCGGGTGAAAATAAATATAAAAATAGTATATTAACCAATA
AATATAATTCCATTAATAAAGTAAATTAAAGCAGGAATAAATAAAGCTAAAGCAAATAATAGAGG
TAAGAAAACAACTCAACACATATTAATTAATTTATCATATCTAACTCTAGGTAAAGTAGCTCTAA
CTCAAATATAAGTAAATGCAAAGAAGTTAGCTTTAAGAGCTAAGAATATACCAGTACCACCACCA
AAGAATAAGATAGCAGTTAAAGTAGATAAGAATAAAATAGAAGTATACTCAGATAAGAAGAATAA
AACAAAAATAGAAGAAGAGTATTCAGTCATATGACCAGAAACTAA
Done.