Locus 4929

Sequence ID 2R_DroMel_CAF1
Location 16,088,916 – 16,089,012
Length 96
Max. P 0.729402
window7894

overview

Window 4

Location 16,088,916 – 16,089,012
Length 96
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 82.91
Mean single sequence MFE -26.33
Consensus MFE -15.70
Energy contribution -15.38
Covariance contribution -0.32
Combinations/Pair 1.21
Mean z-score -2.16
Structure conservation index 0.60
SVM decision value 0.42
SVM RNA-class probability 0.729402
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16088916 96 + 20766785
AAAGGGUAUA------UUGCAAUCGUGCAAAUAAAUGC---------------ACAUAGUAUUUUUGCAUGUCUAAUGGAUUUACGGCACAUUAAGCUAACAUUUUCAUGGCGUGCA
..........------.(((.((.(((((......)))---------------)))).)))....((((((((..(((((.....(((.......)))......))))))))))))) ( -20.90)
>DroSec_CAF1 10406 96 + 1
AAAGGGUAUA------UUGCAAUCGUGCAAAUAAAUGC---------------ACAUAGCACUUUUGCAUGUCUAAUGGAUUUACGGCACAUUAGGCUAACAUUUCCAUGACGUGCA
..........------.(((.((.(((((......)))---------------)))).)))....((((((((..(((((.....(((.......)))......))))))))))))) ( -26.20)
>DroSim_CAF1 10659 96 + 1
AAAGGGUAUA------UUGCAAUCGUGCAAAUAAGUGC---------------ACAUAGUACUUUUGCAUGUCUAAUGGAUUUACGGCACAUUAGGCUAACAUUUCCAUGGCGUGCA
.((((((((.------..(....)(((((......)))---------------))...))))))))(((((((..(((((.....(((.......)))......)))))))))))). ( -25.50)
>DroEre_CAF1 10569 110 + 1
AAAGGGUAUA------UUGCAAUCGUGCAAUUAAAUGCUGCAGCAUUACUUGCA-GCAGUACUUUUGCAUAUCUAAUGGAUUUACGGCACAUUAAGUUAACAAUUUUGUGCCGUGCA
.(((((((((------(((((....))))))....((((((((......)))))-)))))))))))((..(((.....)))..((((((((...............)))))))))). ( -34.66)
>DroYak_CAF1 10882 111 + 1
AAAGGGUAUACAUUUAAUGCAAUCGUGCAAAUAAAUGCUGGAA------GUGCACACAGUACUUUUGCAUGUCUAAUGGAUUUACGGCACAUUAAGUUAACAUUUUUAUGCCGUGCA
....((((((...(((((..(((.((((......((((.((((------((((.....))))))))))))(((.....))).....)))))))..)))))......))))))..... ( -24.40)
>consensus
AAAGGGUAUA______UUGCAAUCGUGCAAAUAAAUGC_______________ACAUAGUACUUUUGCAUGUCUAAUGGAUUUACGGCACAUUAAGCUAACAUUUUCAUGCCGUGCA
.((((((((.........((....))(((......)))....................))))))))(((((((..(((((.....(((.......)))......)))))))))))). (-15.70 = -15.38 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:26 2006