Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001494.1 Corchorus capsularis cultivar CVL-1 contig01494, whole genome shotgun sequence

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, 1000

Length: 5349
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29


Found at i:170 original size:41 final size:41

Alignment explanation


    Indices: 113--192  Score: 160
    Period size: 41  Copynumber: 2.0  Consensus size: 41

        103 TGATTTCCCA

                                                     
        113 GAAGTCCTAATTGGAGAAACACTTGTTTTCATCAAAATCGG
          1 GAAGTCCTAATTGGAGAAACACTTGTTTTCATCAAAATCGG

                                                   
        154 GAAGTCCTAATTGGAGAAACACTTGTTTTCATCAAAATC
          1 GAAGTCCTAATTGGAGAAACACTTGTTTTCATCAAAATC

        193 ATTAGAGTTG


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  41   39  1.00

ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30


Consensus pattern (41 bp):   
GAAGTCCTAATTGGAGAAACACTTGTTTTCATCAAAATCGG

Found at i:3428 original size:15 final size:14

Alignment explanation


    Indices: 3410--3445  Score: 56
    Period size: 15  Copynumber: 2.6  Consensus size: 14

       3400 AAGTATTCAT

                           
       3410 AAGAAAAGGAAGAAA
          1 AAGAAAAGGAA-AAA

                          
       3425 AAGAAAAGGAAAAA
          1 AAGAAAAGGAAAAA

                    
       3439 AA-AAAAG
          1 AAGAAAAG

       3446 AGCTGTTTTA


Statistics
Matches: 21,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  13    5  0.24
  14    5  0.24
  15   11  0.52

ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00


Consensus pattern (14 bp):   
AAGAAAAGGAAAAA
Done.