Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024273.1 Corchorus olitorius cultivar O-4 contig24306, 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: 4057
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:2032 original size:21 final size:21
Alignment explanation
Indices: 2006--2047 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1996 GCATCTTAGG
2006 CAACTCCGATGAGCTTGAAAC
1 CAACTCCGATGAGCTTGAAAC
*
2027 CAACTCTGATGAGCTTGAAAC
1 CAACTCCGATGAGCTTGAAAC
2048 TTCTTCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (21 bp):
CAACTCCGATGAGCTTGAAAC
Found at i:2475 original size:154 final size:154
Alignment explanation
Indices: 2157--2796 Score: 1052
Period size: 154 Copynumber: 4.2 Consensus size: 154
2147 TGGCGCATCA
* *
2157 CTAACTATAATCGTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTAATTTGGAACACTTTT
1 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTT
* *
2222 TATTTTGTGCCTATCGGGGCGC-TTAGTTCCGTTTTGAATCGTCTTCGATTT-CGCAACCCTCAA
66 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGC-CAACCCTCAA
2285 TGCTTTTCTTTCCATTGTTTATGGC
130 TGCTTTTCTTTCCATTGTTTATGGC
* * * *
2310 CTAATTATAATCATTTTGGTTAGATTAGTCCTCTGTGAAGTTTTTAACTCATTTGGAACACTTTT
1 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTT
* ** *
2375 TATTTTGGGCCGATCGGGGCCCATTAGTGACGTTTTAAATCGTCTTCGATTTGCCAACCCTCAAT
66 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAACCCTCAAT
2440 GCTTTTCTTTCCATTGTTTATGGC
131 GCTTTTCTTTCCATTGTTTATGGC
* * * **
2464 CTAACTGTAATCATTTTGGAGAGATTAGTCCTCTGTGAAGTTTTTAGCTCATTTACAACACTTTT
1 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTT
*
2529 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAAT
66 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAACCCTCAAT
2594 GCTTTTCTTTCCATTGTTTATGGC
131 GCTTTTCTTTCCATTGTTTATGGC
* * *
2618 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGATGTTCTTAGCTCATTTGGAACACTTAT
1 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTT
*
2683 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAAT
66 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAACCCTCAAT
2748 GCTTTTCTTTCCATTGTTTATGGC
131 GCTTTTCTTTCCATTGTTTATGGC
2772 CTAACTATAATCA-TTTGGTGAGATT
1 CTAACTATAATCATTTTGGTGAGATT
2797 TGATGCGCCA
Statistics
Matches: 453, Mismatches: 32, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
153 90 0.20
154 362 0.80
155 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (154 bp):
CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTTT
TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAACCCTCAAT
GCTTTTCTTTCCATTGTTTATGGC
Done.