Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011619.1 Kokia drynarioides strain JFW-HI SEQ_126609, 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: 5376
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35


Found at i:1244 original size:23 final size:23

Alignment explanation


    Indices: 1209--1347  Score: 109
    Period size: 23  Copynumber: 6.3  Consensus size: 23

       1199 CACTAGCACA

                    *               
       1209 CTCTCTGAATAGCA-TTGTGTGTG
          1 CTCTCTGATTAGCACTT-TGTGTG

                   *            *   
       1232 CTCTCTGTTTAGCACGTTT-CGTG
          1 CTCTCTGATTAGCAC-TTTGTGTG

                                     
       1255 CTCTCTGTTATTAGCACTTTGTG-G
          1 CTCTCTG--ATTAGCACTTTGTGTG

                                   
       1279 CTCTCTGATTAGCACTTTGTGTG
          1 CTCTCTGATTAGCACTTTGTGTG

                        *         *
       1302 --CTC-----AGTACTTTGTGTA
          1 CTCTCTGATTAGCACTTTGTGTG

                   *               
       1318 CTCTCTGTTTAGCACTTTGTGTG
          1 CTCTCTGATTAGCACTTTGTGTG

              *    
       1341 CTTTCTG
          1 CTCTCTG

       1348 TTACCCAGCA


Statistics
Matches: 93,  Mismatches: 10, Indels: 26
        0.72            0.08        0.20

Matches are distributed among these distances:
  16   11  0.12
  18    3  0.03
  21    3  0.03
  22   14  0.15
  23   40  0.43
  24   12  0.13
  25   10  0.11

ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45


Consensus pattern (23 bp):   
CTCTCTGATTAGCACTTTGTGTG

Found at i:1260 original size:25 final size:22

Alignment explanation


    Indices: 1209--1382  Score: 89
    Period size: 23  Copynumber: 7.8  Consensus size: 22

       1199 CACTAGCACA

                   **               
       1209 CTCTCTGAATAGCA-TTGTGTGTG
          1 CTCTCTGTTTAGCACTT-TGTG-G

                                    
       1232 CTCTCTGTTTAGCACGTTTCGT-G
          1 CTCTCTGTTTAGCAC-TTT-GTGG

                                    
       1255 CTCTCTGTTATTAGCACTTTGTGG
          1 CTCTCTG-T-TTAGCACTTTGTGG

                   *              
       1279 CTCTCTGATTAGCACTTTGT-G
          1 CTCTCTGTTTAGCACTTTGTGG

                         *         *
       1300 -TGCTC-----AGTACTTTGTGTA
          1 CT-CTCTGTTTAGCACTTTGTG-G

                                   
       1318 CTCTCTGTTTAGCACTTTGTGTG
          1 CTCTCTGTTTAGCACTTTGTG-G

              *         *             
       1341 CTTTCTGTTACCCAGCACTTATGT-G
          1 CTCTCTGTT---TAGCACTT-TGTGG

                        *    
       1366 CTCTCTGTTTAGTACTT
          1 CTCTCTGTTTAGCACTT

       1383 CAATACTTTT


Statistics
Matches: 120,  Mismatches: 12, Indels: 39
        0.70            0.07        0.23

Matches are distributed among these distances:
  16    9  0.08
  18    3  0.03
  19    1  0.01
  20    1  0.01
  21    4  0.03
  22   18  0.15
  23   41  0.34
  24   13  0.11
  25   20  0.17
  26    7  0.06
  27    3  0.03

ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44


Consensus pattern (22 bp):   
CTCTCTGTTTAGCACTTTGTGG
Done.