Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010906.1 Kokia drynarioides strain JFW-HI SEQ_125874, 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: 8475
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32


Found at i:1363 original size:21 final size:21

Alignment explanation


    Indices: 1316--1371  Score: 76
    Period size: 21  Copynumber: 2.7  Consensus size: 21

       1306 ATTGGGAAAG

                   *            *
       1316 TTCTACCCATACAAGTATGAC
          1 TTCTACCGATACAAGTATGAA

             *                *  
       1337 TACTACCGATACAAGTATTAA
          1 TTCTACCGATACAAGTATGAA

                          
       1358 TTCTACCGATACAA
          1 TTCTACCGATACAA

       1372 CAAACTCCAA


Statistics
Matches: 30,  Mismatches: 5, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   30  1.00

ACGTcount: A:0.38, C:0.25, G:0.09, T:0.29


Consensus pattern (21 bp):   
TTCTACCGATACAAGTATGAA

Found at i:2285 original size:94 final size:94

Alignment explanation


    Indices: 2116--2566  Score: 580
    Period size: 94  Copynumber: 4.8  Consensus size: 94

       2106 AAATTGTCTC

                  *                  *        *                    *   *     
       2116 TGTTACTAGTATACGATGCTGCTCATACTAAGCTAATGAGGACTCGCAACATATGTGGTGCCTCA
          1 TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATGAGGACTCGCAACATATGCGGTACCTCA

                 *     *                 
       2181 GCCATTGATACGGTATCTGTACATATAAT
         66 GCCATCGATACAGTATCTGTACATATAAT

                                                 *    * *                    
       2210 TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATAAGGATTTGCAACATATGCGGTACCTCA
          1 TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATGAGGACTCGCAACATATGCGGTACCTCA

            *               *            
       2275 ACCATCGATACAGTATTTGTACATATAAT
         66 GCCATCGATACAGTATCTGTACATATAAT

                  * *       * *                 *         *  *               
       2304 TGTTACTACTATACGAAGTTGCTCACACTAAGCTGACGAGGACTCGTAAAATATGCGGTACCTCA
          1 TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATGAGGACTCGCAACATATGCGGTACCTCA

              *  *     *    *           *
       2369 GCTATTGATACGGTATTTGTACATATAAC
         66 GCCATCGATACAGTATCTGTACATATAAT

                         *             *                   *                 
       2398 TGTTACCAGTATATGATGCTGCTCACAATAAGCTGATGAGGAC-CAGTAACATATGCGGTACCTC
          1 TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATGAGGACTC-GCAACATATGCGGTACCTC

               *         *                
       2462 AGCTATCGATACAATATCTGTACATATAAT
         65 AGCCATCGATACAGTATCTGTACATATAAT

             *         *                             *    *          *       
       2492 TCTTACCAGTAAACGATGCTGCTCACACTAAGCTGATGAGGGCTCGAAACATATGCGATACCTCA
          1 TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATGAGGACTCGCAACATATGCGGTACCTCA

                      
       2557 GCCATCGATA
         66 GCCATCGATA

       2567 TGGCCTGTAA


Statistics
Matches: 307,  Mismatches: 48, Indels: 4
        0.86            0.13        0.01

Matches are distributed among these distances:
  93    1  0.00
  94  305  0.99
  95    1  0.00

ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29


Consensus pattern (94 bp):   
TGTTACCAGTATACGATGCTGCTCACACTAAGCTGATGAGGACTCGCAACATATGCGGTACCTCA
GCCATCGATACAGTATCTGTACATATAAT

Done.