Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: C10445

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: 1165
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26


Found at i:830 original size:23 final size:23

Alignment explanation


    Indices: 803--850  Score: 87
    Period size: 23  Copynumber: 2.1  Consensus size: 23

        793 AAGTTCCGTA

                            *      
        803 AATAGGAACGTAAATAGGAACGT
          1 AATAGGAACGTAAATAAGAACGT

                                   
        826 AATAGGAACGTAAATAAGAACGT
          1 AATAGGAACGTAAATAAGAACGT

              
        849 AA
          1 AA

        851 ATAAGAGCGT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  23   24  1.00

ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17


Consensus pattern (23 bp):   
AATAGGAACGTAAATAAGAACGT

Left flanking sequence: Indices 303 -- 802
AAACCATGATACGGTGGGCATCCTTTGGAGCATTTAACTCCGGGTGGTATGCAGGAGTGGAGTAA
ACATCCCAACAACACCCCACAGATGGAGCATGGAATGACTGTAGGGATGAGTTGGAGGCAGGAGG
GGAGTTTAAAGCGTGGCTGTTGGTTTGGCTACTGTTGTGGCTACTGATGTGTAGTGTGTTTTCTC
GTATCGTGCCGGCGCAAGGGTTGTTGTCGTCAGCTGCCAATTGAGTGGGTCGATGGATATCTCCA
TCGTACATCGTAAATCTCACGTAAGCGGATTTGCGTGCTTATTAATCAAGGCCAGCCAACACTTT
AAATTAAGCGCTAAGATTATGGCGGTCAAAAGATGTGCCTTTTAGATGTTGATTTGGAAGTCTCT
TCTAATCTGTTTGAATATTTCTGTGTAGGTTACGATTTAAGACGTTGAACCGTCAATGACTCCTG
CCATTACAATACAACAATCATCTTGAAAAATAGGTAAGTTCCGTA


Right flanking sequence: Indices 851 -- 1165
ATAAGAGCGTTCCATAAAAAAACGTCCCGTAAATAGAAACGTTTAAATTGGATCGTTCAATTGTC
TGAACGTTCATTTACTCGGATTGGAACGTCGTTTACTCTTGTTCTAGCTACTCTCATTATCACCT
ACTTAGACATGTCAATCACCGCACGGATACAGTCGCCCTTGTGCATGTCGTCAAACGCAGTGTTG
ATGTCAGCGAGCGGGTGGCGGTGGGTAATAAACTCGTCCACCTTGAGCTTGCCGTCCATGTAGTC
GTTGACGATCTGGGGCATCTGAGTCCGGCCCTTGACACCGCCAAAGGCAGCCCCC



Found at i:856 original size:12 final size:12

Alignment explanation


    Indices: 799--853  Score: 94
    Period size: 12  Copynumber: 4.7  Consensus size: 12

        789 AGGTAAGTTC

                        
        799 CGTAAATAGGAA
          1 CGTAAATAGGAA

                        
        811 CGTAAATAGGAA
          1 CGTAAATAGGAA

                        
        823 CGT-AATAGGAA
          1 CGTAAATAGGAA

                    *   
        834 CGTAAATAAGAA
          1 CGTAAATAGGAA

                    
        846 CGTAAATA
          1 CGTAAATA

        854 AGAGCGTTCC


Statistics
Matches: 41,  Mismatches: 1, Indels: 2
        0.93            0.02        0.05

Matches are distributed among these distances:
  11   11  0.27
  12   30  0.73

ACGTcount: A:0.51, C:0.09, G:0.22, T:0.18


Consensus pattern (12 bp):   
CGTAAATAGGAA

Left flanking sequence: Indices 299 -- 798
TTGAAAACCATGATACGGTGGGCATCCTTTGGAGCATTTAACTCCGGGTGGTATGCAGGAGTGGA
GTAAACATCCCAACAACACCCCACAGATGGAGCATGGAATGACTGTAGGGATGAGTTGGAGGCAG
GAGGGGAGTTTAAAGCGTGGCTGTTGGTTTGGCTACTGTTGTGGCTACTGATGTGTAGTGTGTTT
TCTCGTATCGTGCCGGCGCAAGGGTTGTTGTCGTCAGCTGCCAATTGAGTGGGTCGATGGATATC
TCCATCGTACATCGTAAATCTCACGTAAGCGGATTTGCGTGCTTATTAATCAAGGCCAGCCAACA
CTTTAAATTAAGCGCTAAGATTATGGCGGTCAAAAGATGTGCCTTTTAGATGTTGATTTGGAAGT
CTCTTCTAATCTGTTTGAATATTTCTGTGTAGGTTACGATTTAAGACGTTGAACCGTCAATGACT
CCTGCCATTACAATACAACAATCATCTTGAAAAATAGGTAAGTTC


Right flanking sequence: Indices 854 -- 1165
AGAGCGTTCCATAAAAAAACGTCCCGTAAATAGAAACGTTTAAATTGGATCGTTCAATTGTCTGA
ACGTTCATTTACTCGGATTGGAACGTCGTTTACTCTTGTTCTAGCTACTCTCATTATCACCTACT
TAGACATGTCAATCACCGCACGGATACAGTCGCCCTTGTGCATGTCGTCAAACGCAGTGTTGATG
TCAGCGAGCGGGTGGCGGTGGGTAATAAACTCGTCCACCTTGAGCTTGCCGTCCATGTAGTCGTT
GACGATCTGGGGCATCTGAGTCCGGCCCTTGACACCGCCAAAGGCAGCCCCC


Done.