Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007353.1 Corchorus capsularis cultivar CVL-1 contig07374, 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: 2417
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Found at i:1684 original size:303 final size:303
Alignment explanation
Indices: 1123--1729 Score: 894
Period size: 303 Copynumber: 2.0 Consensus size: 303
1113 TGCTTCTCAA
* *
1123 GCAGAAGAAGATGGTGAAATGTCGATGACTTAGACACATGTGTTCCATGTTTTTGTACTCTTCTT
1 GCAGAAGAAGATGGTGAAATGTCGATGACTGAGACACATGTGTTCCATGTTTTTATACTCTTCTT
* * * * *
1188 TGCAATTGCTGACTCACTCAAATTTTTATATATAGGGTCTTCAAGAGTCTTCTTTACAAATGCAT
66 CGCAATTGCTGACTCACTCAAATCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT
* ** * * **
1253 CGTGACAAACTTTACCCAATACCTTGAGTTCACCGCAACACTTCTTAGTGACAGCTCCGGTTTTG
131 CGTGACAAACTTTACACAATAAATTGAGTTCACCGCAACACTTCTTAGTGACAACTCCGGTATAA
* ** * *
1318 AATATACTTGTGAAAACTTCCCTGACACAGGGCAGTTCCATTTTTGTTTTGCAATTGTTTTCCTT
196 AATATACTTGCGAAAACTTCCCTGACACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCCTT
* * *
1383 AATAATCAAGTCGGGGTTTTCTGCAGGTTAAATGACTCCGCTT
261 AATAATCAAGTCGGGGTTTTCTGCAGCTGAAACGACTCCGCTT
* *
1426 GCAGAAGAGGATGGTGAAATGTCGATGACTGAGGCACATGTGTTCCATGTTTTTATACTCTTCTT
1 GCAGAAGAAGATGGTGAAATGTCGATGACTGAGACACATGTGTTCCATGTTTTTATACTCTTCTT
* * * * *
1491 CGCAATTGTTGACTCGCTTAAGTCTTTATATAAAGGATCTTCAAGAGTCTTGTTAACAAATGCAT
66 CGCAATTGCTGACTCACTCAAATCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT
*
1556 CGTGACAAACTTTACACAATATAATT-AGTTCACCGCAACACTTTTTAGTGACAACTCCGGTATA
131 CGTGACAAACTTTACACAATA-AATTGAGTTCACCGCAACACTTCTTAGTGACAACTCCGGTATA
*
1620 AAATATACTTGCGAAAACTTCCCTGGA-ACAGGGCAGGCCCATTTTTGTCTTGCTATTATTTTCC
195 AAATATACTTGCGAAAACTTCCCT-GACACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCC
*
1684 TTAATAATCAAGTCTGGGTTTTCTGCAGCTGAAACGACTCCGCTT
259 TTAATAATCAAGTCGGGGTTTTCTGCAGCTGAAACGACTCCGCTT
1729 G
1 G
1730 TTAAAATAAG
Statistics
Matches: 270, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
303 266 0.99
304 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (303 bp):
GCAGAAGAAGATGGTGAAATGTCGATGACTGAGACACATGTGTTCCATGTTTTTATACTCTTCTT
CGCAATTGCTGACTCACTCAAATCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT
CGTGACAAACTTTACACAATAAATTGAGTTCACCGCAACACTTCTTAGTGACAACTCCGGTATAA
AATATACTTGCGAAAACTTCCCTGACACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCCTT
AATAATCAAGTCGGGGTTTTCTGCAGCTGAAACGACTCCGCTT
Done.