Locus 5009

Sequence ID 3R_DroMel_CAF1
Location 13,199,413 – 13,199,507
Length 94
Max. P 0.572860
window8190

overview

Window 0

Location 13,199,413 – 13,199,507
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 88.25
Mean single sequence MFE -23.38
Consensus MFE -18.06
Energy contribution -18.28
Covariance contribution 0.22
Combinations/Pair 1.09
Mean z-score -2.47
Structure conservation index 0.77
SVM decision value 0.08
SVM RNA-class probability 0.572860
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13199413 94 + 27905053
GGCGGCUGUAUUUAAUAAUAAAGCAGCCAAAUCCGCAAAUAAAGUGUAAAUGAUAAAAUUUUUAUUGAGAACGAAGGCGAGCGACGGCGGCGGA---------
(((.(((.((((....)))).))).)))...(((((.......((...(((((........)))))....))...(.((.....)).).)))))--------- ( -22.60)
>DroSec_CAF1 227270 100 + 1
GGCGGCUGUAUUUAAUAAUAAAGCAGCCAAAUCCGCAAAUAAAGUGUAAAUGAUAAAAUUUUUAUUGAGAGCGAAGGCGAGGGACGGCGGCGGUAAAAAA---
(((.(((.((((....)))).))).)))....((((......((((.((((......)))).))))....((....))...........)))).......--- ( -21.70)
>DroSim_CAF1 213757 103 + 1
GGCGGCUGUAUUUAAUAAUAAAGCAGCCAAAUCCGCAAAUAAAGUGUAAAUGAUAAAAUUUUUAUUGAGAGCGAAGGCGAGCGACGGCGGCGGUAAAAAAAAA
(((.(((.((((....)))).))).)))....((((......((((.((((......)))).))))....((....))..((....)).)))).......... ( -22.60)
>DroEre_CAF1 217843 93 + 1
GGCGGCUGUAUUUAAUAAUAAAGCAGCCAAAUCCGCAAAUAAAGUGUAAAUGAUAAAAUUUUUAUUGAGAGCGAAGGCGAGCGACAGCGGCGG----------
(((.(((.((((....)))).))).)))....((((......((((.((((......)))).))))....((....))..((....)).))))---------- ( -22.60)
>DroYak_CAF1 227131 95 + 1
GGCGGCUGUAUUUAAUAAUAAAGCAGCCAAAUCCGCAAAUAAAGUGUAAAUGAUAAAAAUUUUAUUGAGAGCGAAGGCGAGCGACAGCGGCGGGA--------
(((.(((.((((....)))).))).)))...(((((.((((((((.............))))))))....((....))..((....)).))))).-------- ( -26.12)
>DroAna_CAF1 213990 93 + 1
GGGCGCUGUAUUUAAUAAUAUAGCGGCCAAAUCCGCAAAUAAUGUGUAAAUGAUAAAAAUUUUAUUGAGAGAAAAGGCGGACAAAAGCCGUGA----------
((.(((((((((....))))))))).))...(((((............(((((........)))))..........)))))............---------- ( -24.65)
>consensus
GGCGGCUGUAUUUAAUAAUAAAGCAGCCAAAUCCGCAAAUAAAGUGUAAAUGAUAAAAUUUUUAUUGAGAGCGAAGGCGAGCGACAGCGGCGG__________
(((.(((.((((....)))).))).)))....((((.......((...(((((........)))))....))....((........)).)))).......... (-18.06 = -18.28 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:12 2006