Locus 3040

Sequence ID X_DroMel_CAF1
Location 8,118,564 – 8,118,660
Length 96
Max. P 0.610413
window4974

overview

Window 4

Location 8,118,564 – 8,118,660
Length 96
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 80.09
Mean single sequence MFE -28.45
Consensus MFE -18.29
Energy contribution -18.73
Covariance contribution 0.44
Combinations/Pair 1.15
Mean z-score -1.73
Structure conservation index 0.64
SVM decision value 0.16
SVM RNA-class probability 0.610413
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8118564 96 + 22224390
CUUUGCGCGCUGUUAACGCUAACAGCACUG-----------UAACAGAAGCGCAGUACUUUGCAGCGGUUCUAUAAUCGAUA---GCCGUUGAUUUCACGUUAUAUUUGC
..(((((((((((((....))))))).(((-----------...)))..)))))).......((((((..((((.....)))---))))))).................. ( -27.40)
>DroSec_CAF1 21603 104 + 1
CUUUGCCCGCUGUUAACGCUAACAGCACUGCAACAGAAGCGUAACAGAAGCACAGUACUUUGCAGCGGUUUUAUAAUCGAUA---ACCGCUGAUUUCACGUUACACG---
((((((..(((((((....)))))))...)))).))..(.(((((.((((.......)))).((((((((...........)---))))))).......))))).).--- ( -29.50)
>DroSim_CAF1 10076 104 + 1
CUUUGCCCGCUGUUAACGCUAACAGCGCAGCAACAGAAGCGUAACAGAAGCGCAGUACUUUGCAGCGGUUCUAUAAUCGAUA---ACCGUUGAUUUCACGUUACACG---
((((((.((((((((....))))))))..)))).))..(.(((((((((.(((.((.....)).))).))))..(((((((.---...)))))))....))))).).--- ( -32.10)
>DroEre_CAF1 8957 108 + 1
CUUGGCCCGCUGUUAACGCUAACAGCACUGCAACAUGAGCAUAACAGCAG--UAGUACUUUUCGGCGGUUCUAUAAUCGAUAUACACGUUUGAUAUCACGCUAUUGGUCC
...((((.(((((((..((.....))..(((.......))))))))))((--((((..........((((....))))(((((.((....)))))))..)))))))))). ( -24.80)
>consensus
CUUUGCCCGCUGUUAACGCUAACAGCACUGCAACAGAAGCGUAACAGAAGCGCAGUACUUUGCAGCGGUUCUAUAAUCGAUA___ACCGUUGAUUUCACGUUACACG___
........(((((((....)))))))..............(((((.((((.......)))).(((((((..(((.....)))...))))))).......)))))...... (-18.29 = -18.73 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:32 2006