Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: CotAD_74519

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 813

Length: 1356
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25


Found at i:765 original size:147 final size:147

Alignment explanation


    Indices: 498--792  Score: 590
    Period size: 147  Copynumber: 2.0  Consensus size: 147

        488 CACTTCCCCT

                                                                             
        498 GTTCCCTACTGCTCCAAGACAAACCAGGCCAAACCGTGGTCAGATGAACGGCAACACTTTTGGAG
          1 GTTCCCTACTGCTCCAAGACAAACCAGGCCAAACCGTGGTCAGATGAACGGCAACACTTTTGGAG

                                                                             
        563 GTTCTCATTCCGTTACATATGTGCCGCAATTGCAACAACAGAATCAAACAGTGACTTCCTCAAAA
         66 GTTCTCATTCCGTTACATATGTGCCGCAATTGCAACAACAGAATCAAACAGTGACTTCCTCAAAA

                             
        628 GATCAAAGTAACCAACA
        131 GATCAAAGTAACCAACA

                                                                             
        645 GTTCCCTACTGCTCCAAGACAAACCAGGCCAAACCGTGGTCAGATGAACGGCAACACTTTTGGAG
          1 GTTCCCTACTGCTCCAAGACAAACCAGGCCAAACCGTGGTCAGATGAACGGCAACACTTTTGGAG

                                                                             
        710 GTTCTCATTCCGTTACATATGTGCCGCAATTGCAACAACAGAATCAAACAGTGACTTCCTCAAAA
         66 GTTCTCATTCCGTTACATATGTGCCGCAATTGCAACAACAGAATCAAACAGTGACTTCCTCAAAA

                             
        775 GATCAAAGTAACCAACA
        131 GATCAAAGTAACCAACA

             
        792 G
          1 G

        793 CAGACTGGAC


Statistics
Matches: 148,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
 147  148  1.00

ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21


Consensus pattern (147 bp):   
GTTCCCTACTGCTCCAAGACAAACCAGGCCAAACCGTGGTCAGATGAACGGCAACACTTTTGGAG
GTTCTCATTCCGTTACATATGTGCCGCAATTGCAACAACAGAATCAAACAGTGACTTCCTCAAAA
GATCAAAGTAACCAACA

Found at i:1059 original size:18 final size:17

Alignment explanation


    Indices: 1014--1059  Score: 56
    Period size: 18  Copynumber: 2.6  Consensus size: 17

       1004 TCACAGGGAT

                             
       1014 TCTATTAGAACTGTTGC
          1 TCTATTAGAACTGTTGC

              *               
       1031 TCAATTCAGAACTGTTGC
          1 TCTATT-AGAACTGTTGC

              *        
       1049 TTTTATTAGAA
          1 -TCTATTAGAA

       1060 TCACCAGAAT


Statistics
Matches: 24,  Mismatches: 3, Indels: 3
        0.80            0.10        0.10

Matches are distributed among these distances:
  17    5  0.21
  18   15  0.62
  19    4  0.17

ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41


Consensus pattern (17 bp):   
TCTATTAGAACTGTTGC
Done.