Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006996.1 Kokia drynarioides strain JFW-HI SEQ_121602, 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: 2508
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:1023 original size:27 final size:27

Alignment explanation


    Indices: 976--1030  Score: 83
    Period size: 27  Copynumber: 2.0  Consensus size: 27

        966 ATTTGGCAAT

                          *            
        976 AGTTTGACATTCCTTTATTTTGTAAAC
          1 AGTTTGACATTCCTATATTTTGTAAAC

                  *         *          
       1003 AGTTTGTCATTCCTATCTTTTGTAAAC
          1 AGTTTGACATTCCTATATTTTGTAAAC

             
       1030 A
          1 A

       1031 TTTTAGTGTT


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   25  1.00

ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47


Consensus pattern (27 bp):   
AGTTTGACATTCCTATATTTTGTAAAC

Found at i:1172 original size:17 final size:18

Alignment explanation


    Indices: 1133--1171  Score: 60
    Period size: 20  Copynumber: 2.1  Consensus size: 18

       1123 ATTTAGCTGG

                               
       1133 TATGATTATTGACCATTTA
          1 TATGATTATTGACCA-TTA

                               
       1152 TATGTATTATTGACCATTA
          1 TATG-ATTATTGACCATTA

             
       1171 T
          1 T

       1172 GATTTCTTCA


Statistics
Matches: 19,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  19    8  0.42
  20   11  0.58

ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49


Consensus pattern (18 bp):   
TATGATTATTGACCATTA

Found at i:2318 original size:14 final size:14

Alignment explanation


    Indices: 2299--2325  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

       2289 TCACTTGAGG

                          
       2299 TCTGATAATTTTTT
          1 TCTGATAATTTTTT

                         
       2313 TCTGATAATTTTT
          1 TCTGATAATTTTT

       2326 CCTCTTTTTC


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

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63


Consensus pattern (14 bp):   
TCTGATAATTTTTT
Done.