Locus 8292

Sequence ID 3R_DroMel_CAF1
Location 22,149,614 – 22,149,726
Length 112
Max. P 0.748059
window13372

overview

Window 2

Location 22,149,614 – 22,149,726
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.35
Mean single sequence MFE -37.10
Consensus MFE -27.95
Energy contribution -29.70
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.75
SVM decision value 0.47
SVM RNA-class probability 0.748059
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22149614 112 + 27905053
UUUGGGGGCGAGUGCGUUUGCAAGGAUUUUGACUUCAAGUUUUGCCAGCUUACCACAUGGCGUAUAC--------UUGAUCGAUUUGCCAAAUGUUGAAUGUGAGCCGCGCUUACCGCAU
....(.((..((((((((..((............((((((..(((((..........)))))...))--------))))(((((.........))))).))..)).))))))..)).).. ( -34.70)
>DroSec_CAF1 80064 111 + 1
UAUGG-GGCGAGUGCGUUUGCAAGGAUUUUGACUUCAAGUUUUGCCAGCUUACCACACGGCGUAUAC--------UUGAUCGAUUUGCCAAAUGUUGAAUGUGAGCCGCGCUUGCCGCAU
.(((.-((((((((((((..((............((((((..((((............))))...))--------))))(((((.........))))).))..)).)))))))))).))) ( -39.20)
>DroSim_CAF1 74539 111 + 1
UAUGG-GGCGAGUGCGUUUGCAAGGAUUUUGACUUCAAGUUUUGCCAGCUUACCACACGGCGUAUAC--------UUGAUCGAUUUGCCAAAUGUUGAAUGUGAGCCGCGCUUGCCGCAU
.(((.-((((((((((((..((............((((((..((((............))))...))--------))))(((((.........))))).))..)).)))))))))).))) ( -39.20)
>DroYak_CAF1 72985 111 + 1
UUUGGGGGCGAGUGCGUUUGCCAGGAUUUUGACUUCAA---------GCUUACCACACGGCGUAUACGAUUUUCAUAUAUCGAUUUGCCAAAUGUUGAAUGUGAGCCGCGCUUGCCGCAU
....(.((((((((((............(((....)))---------((((((.(((.((((.((.((((........)))))).))))...))).....)))))))))))))))).).. ( -35.30)
>consensus
UAUGG_GGCGAGUGCGUUUGCAAGGAUUUUGACUUCAAGUUUUGCCAGCUUACCACACGGCGUAUAC________UUGAUCGAUUUGCCAAAUGUUGAAUGUGAGCCGCGCUUGCCGCAU
....(.((((((((((...((((((...(((....))).))))))..((((((.(((.((((.......................))))...))).....)))))))))))))))).).. (-27.95 = -29.70 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:05 2006