Locus 1971

Sequence ID 3L_DroMel_CAF1
Location 5,447,897 – 5,448,015
Length 118
Max. P 0.933287
window3088

overview

Window 8

Location 5,447,897 – 5,448,015
Length 118
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 92.37
Mean single sequence MFE -26.00
Consensus MFE -22.11
Energy contribution -22.30
Covariance contribution 0.19
Combinations/Pair 1.09
Mean z-score -2.20
Structure conservation index 0.85
SVM decision value 1.23
SVM RNA-class probability 0.933287
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5447897 118 + 23771897
UGUUGUAAUAUGCAAAUUAUUUUCUAAUCUGGUUCUCGAUAAUUUGCUUAUGCAAUGGCACGAAAGUGUUAAAUAUUUUCAAUUAUGUGAUUGCGAAUGAAAAUUGUUUUUAUGCAUA
...........((((((((((.((......)).....)))))))))).((((((.((((((....))))))..(((((.(((((....))))).))))).............)))))) ( -25.90)
>DroSec_CAF1 9439 108 + 1
UGUUGUAAUAUGAAAAUUAUUUUCUAAUCUGGUUCUCGAUAAUUUGCUUAUGCAAUGGCACGAAAGUGUUAAACAUUUUCAAUUAUGUGAUUGUGAAUGAAAAUUGUU----------
.((((((.((...((((((((.((......)).....))))))))...))))))))(((((....))))).((((((((((.((((......)))).)))))).))))---------- ( -20.30)
>DroSim_CAF1 9489 118 + 1
UGUUGUAAUAUGCAAAUUAUUUUCUAAUCUGGUUCUCGAUAAUUUGCUUAUGCAAUGGCACGAAAGUGUUAAACAUUUUCAAUUAUGUGAUUGCGAAUGAAAAUUGUUUUUAUGCAUA
...........((((((((((.((......)).....)))))))))).((((((.((((((....))))))..(((((.(((((....))))).))))).............)))))) ( -28.00)
>DroEre_CAF1 9204 118 + 1
UGUCGUAAUAUGCAAAUUAUUUUCUAAUCUGGUUCUCGAUAAUUUGCUUAUGCAAUCGCGCGAAAGUGUUAAACAUUUUCAAUUAUGCGAUUGCAAAUGAAAAUUGUUUUUAUGCAUA
((.(((((...((((((((((.((......)).....))))))))))...((((((((((.(((((((.....))))))).....))))))))))..............))))))).. ( -29.80)
>consensus
UGUUGUAAUAUGCAAAUUAUUUUCUAAUCUGGUUCUCGAUAAUUUGCUUAUGCAAUGGCACGAAAGUGUUAAACAUUUUCAAUUAUGUGAUUGCGAAUGAAAAUUGUUUUUAUGCAUA
.((((((.((.((((((((((.((......)).....)))))))))).))))))))(((((....)))))...(((((.(((((....))))).)))))................... (-22.11 = -22.30 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:28 2006