Locus 9543

Sequence ID 3R_DroMel_CAF1
Location 25,219,791 – 25,219,886
Length 95
Max. P 0.761069
window15264

overview

Window 4

Location 25,219,791 – 25,219,886
Length 95
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 76.01
Mean single sequence MFE -21.91
Consensus MFE -15.42
Energy contribution -15.18
Covariance contribution -0.24
Combinations/Pair 1.23
Mean z-score -1.47
Structure conservation index 0.70
SVM decision value 0.50
SVM RNA-class probability 0.761069
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25219791 95 + 27905053
UGCAGAAGUGCAUGUGCACUAGGGUGCCCUGUACUUUAGUUUUACAAUGAAAUAAGAUAGCUUUG-------UAGAAUAGCA-------AAAAUCACUCAAUACGUAAC
(((.((((((((.(.((((....))))).)))))))).(((((((((...............)))-------)))))).)))-------.................... ( -23.36)
>DroSec_CAF1 78042 95 + 1
UGCAGAAGUGCAUGUGCACUAGGGUGUCCUGCACUUCAGUUAUACAAUGAAAUAUGAUAGCUUUG-------UAAAAUAGCA-------AAAAUCACUCAAUAGGCAAC
(((.((((((((.(..(((....)))..))))))))).(((((.((........)))))))((((-------(......)))-------)).............))).. ( -24.50)
>DroSim_CAF1 78394 95 + 1
UGCAGAAGUGCAUGUGCACUAGGGUGCCCUGCACUUCAGUUAUACCAUGAAAUAUGAUAGCUUUG-------UAGAAUAGCA-------AAAAUCACUAAAUAGGCAAC
(((.((((((((.(.((((....))))).)))))))).................((((...((((-------(......)))-------)).))))........))).. ( -25.60)
>DroEre_CAF1 81146 109 + 1
UGCAGAAGUGCAUGUGCAGUAGGGUGUCCUGUUCUUCGGAUGUAUAAUGAAAUAAGAUGGCUUUGUAAAACAUAAAAUGGCAAGUUGUGAAAAUCCCUCAAUUGGCUAG
((((....))))((((((.((((....)))).((....))))))))...............................((((.(((((.(.......).))))).)))). ( -18.00)
>DroYak_CAF1 81067 96 + 1
UGCAGAAGUGCAUGUGCACUAGGGUGCCCUGUACUUCGGAUGAAUAAUGAAAUA-------------UAAUAUAAAAUGGCAAGUUAAAAAAAUCACUCAAUUAAUUAA
(((.((((((((.(.((((....))))).))))))))......(((......))-------------)...........)))........................... ( -18.10)
>consensus
UGCAGAAGUGCAUGUGCACUAGGGUGCCCUGUACUUCAGUUAUACAAUGAAAUAAGAUAGCUUUG_______UAAAAUAGCA_______AAAAUCACUCAAUAGGCAAC
....((((((((.(.((((....))))).))))))))........................................................................ (-15.42 = -15.18 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:48 2006