Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: OM066877

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: 28742
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27


Found at i:2703 original size:12 final size:12

Alignment explanation


    Indices: 2686--2710  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       2676 CATAGACAAG

                        
       2686 GCCAAAAACTAA
          1 GCCAAAAACTAA

                        
       2698 GCCAAAAACTAA
          1 GCCAAAAACTAA

             
       2710 G
          1 G

       2711 AAGCAAATCA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.56, C:0.24, G:0.12, T:0.08


Consensus pattern (12 bp):   
GCCAAAAACTAA

Left flanking sequence: Indices 2186 -- 2685
GAAAATGCTCCCACCTCCCTTTTAGTTCTGGTCAACTGTAGCACAATCGTGTGGAAAATAGGCTG
CGTGGGCCATACAAAGCATGAATAGAGGCCCTGACTCCGGATCATCCAACATTGAGTCTTGATCA
CAAAAGTATAGGTTCAGATAAGCCCCTGCAGCATGTATAGGTCTATGGAGCATGCCGGTCCACCT
CCTATCAATGATTTCCTATATTTTCTGGCATTTAGTTAGCTTCGGCCACACAAATCTCGGATGCG
TTCATTAGGATTGGTTTGGCCATAGCCTCAAAATCAAAGTCTCCCATGGCGGTCGGTTACTGAGC
ATCAGTGAGACTAACAAGCTCCCTACACTCCGTCCATCCATCACCCATCCCCCCTACTCGTGTGT
GTGGGGCCCGCATGCTGGCCTCATCTGCTTTTCTCTCAAAAGCTGAACTCATCCACTCCACTGAT
GAAAAAAAAACATGGGCAATGCTGCCCCATGTTCACATAGACAAG


Right flanking sequence: Indices 2711 -- 3210
AAGCAAATCAAGGCGCTTGAAGTAAAGTAAGGCGCTTGCGATGCGCTTGCGGGATGCACTCTTCT
TTTTGGCAACTAATTCATTGCGGGTATCTCTCTCAGTTGTTTAGCTAAGGAACTTCTTTCACTCG
TTCTGTCGTACATAGGACACCCCGAAAATACTTTCTTGAGCGAATTGAGGGGGATCTTCGGCTGG
AAACGGCTGGAAGCCGGAGATACCAATAGATAACAGTAGTAAGTAATTTAATATAGTTTGTAGCA
AAGGGAGGATGAAAAGCAAGCAGTCAACAGTCAACCGAGTTCAAGCCTGCCCTATTCAATGCCGT
AGATAGCTATTCAATGCCCTACTGCGCCTTTTATTTAAGCTTCGGGGGGAGAGACATGTAATAGC
GTTTTTCCGCCTACTCTATATGTTGTTTTTAATTCATCTTCAGCGGCGAAAGCAGTTCAGCCAGA
ACAGCAAGTTACCTTCACCGCGGCGCACTCAATCAGCGAAGGAAG



Found at i:18923 original size:13 final size:13

Alignment explanation


    Indices: 18905--18930  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

      18895 CATTAGGTGT

                         
      18905 AGGCGCTTTCCAG
          1 AGGCGCTTTCCAG

                         
      18918 AGGCGCTTTCCAG
          1 AGGCGCTTTCCAG

      18931 CGTTCTAGTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23


Consensus pattern (13 bp):   
AGGCGCTTTCCAG

Left flanking sequence: Indices 18405 -- 18904
GTTGTGGATTGGATGATGGAAAAACCAGCAAGCAGCAAGCGTAGGCTGTGTTGCCGTAGCGCGCC
CTACTGAGTTGTACAAAGTCAGCAACCGTTTTGGGGCGCAAGCGTAGGCAACACAGGACTTACGG
GGTGGGGCGCGCAGTGAACTGTAATTGTAAAAGGTTGGAAGATCTGGCCAAAGAAGGTGATAGCC
CTGTAGATTCGTTCCCATGGTTCGATCCTTCCCAGTAAAACGCGGCGTGTTCGAATTCTGATCGC
TTTTACGCGAGAAAGGGGGACCACCCTCTAAGCCTAAGTATTCCTCAATGACCGATAGCGTACAA
GTACCGTGAGGGAAAGGTGAAAAGAACCCCCATCGGGGAGTGCAATAGAGAACCTGAGATCCGAT
GCGAACAATCAGTCGAAGGAGCGGAGCGCGGGCGCACTCACTCTAACGGCGTACCTTTCGCATGA
TGGGTCAGCGAGGAAATGGGAACAGCGGCTTAAGCCATTAGGTGT


Right flanking sequence: Indices 18931 -- 19430
CGTTCTAGTTCTTCCTATTTGACCCGAAACCGATCGATCTAGCCATGAGCAGGTTGAAGAGAGCT
CTAACAGGCCTTGGAGGACCGAACCCACGTATGTGGCAAAATACGGGGATGACTTGTGGCTAGGG
GTGAAAGGCCAACCAAGATCGGATATAGCTGGTTTTCCGCGAAATCTATTTCAGTAGAGCGTATG
ATGTCGATGGCCCGAGGTAGAGCACTCAATGGGCTAGGGTGGCCCCATTTCGCTTTACCAACCCC
AGGGAAACTCCGAATACAGGCCGTCATCGTTTGTACAGACAGACTTTTTGGGTGCTAAGATCCAA
AGTCGAGAGGGAAACAGCCCAGATCGTACGCTAAGGTCCCTAAGCAATCACTTAGTGGAAAAGGA
AGTGATCGAGCGATGACAACCAGGAGGTGGGCTTGGAAGCAGCCATCCTTTGAAGAAAGCGTAAT
AGCTCACTGGTCTAGCTCCATGGCACCGAAAATGTATCAGGGCTC


Done.