Locus 4664

Sequence ID 3R_DroMel_CAF1
Location 12,299,047 – 12,299,150
Length 103
Max. P 0.918295
window7655

overview

Window 5

Location 12,299,047 – 12,299,150
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 78.22
Mean single sequence MFE -27.03
Consensus MFE -20.57
Energy contribution -20.93
Covariance contribution 0.36
Combinations/Pair 1.21
Mean z-score -1.67
Structure conservation index 0.76
SVM decision value 1.12
SVM RNA-class probability 0.918295
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12299047 103 + 27905053
CAUUUAAUCGUCCAUUGUUUUCCAUUUUUUCAGAAACAUAAACCAUGUAUGGAAUGCUGUAUGAGAGUGUGCAGCACUACGUGCAGGAGGAGUAUGGCGUGGA
........((.((((..((((((.((((....)))).........((((((...((((((((......))))))))...))))))))))))..)))))).... ( -28.10)
>DroSec_CAF1 3048 87 + 1
CAUUUGA----------------AUUUUUUCAGAAACUUCAACCAUGUAUGGAAUGCUGUACGAGAGUGUGCAGCACUACGUGCAGGAGGAGUACGGCGUGGA
..(((((----------------(....))))))........((((((......(((((((((....)))))))))...(((((.......))))))))))). ( -29.00)
>DroSim_CAF1 3093 87 + 1
CAUUUGA----------------AUUUUUUCAGAAACUUCAACCAUGUAUGGAAUGCUGUACGAGAGUGUGCAGCACUACGUGCAGGAGGAGUACGGCGUGGA
..(((((----------------(....))))))........((((((......(((((((((....)))))))))...(((((.......))))))))))). ( -29.00)
>DroEre_CAF1 3235 102 + 1
UAUUAAUUAAUCCAUUCAUUUAAAUCUUUUCAGAAACACCAA-CAUGUAUGGAAUGCUGUACGAGAGUGUGCAGCACUACGUGCAGGAGGAGUACGGCGUGGA
..........(((((.(.......(((....))).((.((..-(.((((((...(((((((((....)))))))))...)))))))..)).))...).))))) ( -27.10)
>DroYak_CAF1 3122 102 + 1
CAUUUAUU-GUCUAUUCACUCAAUUUUUUUCAGAAACAUCAACCAUGUAUGGGAUGCUGUACGAGAGUGUGCAGCACUACGUGCAGGAGGAGUACGGCGUGGA
........-((((((((.(((...............((((..(((....)))))))(((((((..((((.....)))).))))))))))))))).)))..... ( -29.00)
>DroPer_CAF1 3231 90 + 1
---UUAC----------UUUCACAGAUUCACAGAUCCAUCAAUCAUGUAUGGCAUGCUCUAUGAGAGUGUCCAGCACUAUGUGCAGGAGGAGUACGGCACACA
---.(((----------(((((.(((....((...((((((....)).))))..)).))).))))))))(((.((((...)))).)))............... ( -20.00)
>consensus
CAUUUAA___________UU_A_AUUUUUUCAGAAACAUCAACCAUGUAUGGAAUGCUGUACGAGAGUGUGCAGCACUACGUGCAGGAGGAGUACGGCGUGGA
..........................................((((((......((((((((......))))))))...(((((.......))))))))))). (-20.57 = -20.93 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:48 2006