Locus 3754

Sequence ID 3L_DroMel_CAF1
Location 10,872,952 – 10,873,061
Length 109
Max. P 0.858146
window5856

overview

Window 6

Location 10,872,952 – 10,873,061
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.60
Mean single sequence MFE -30.61
Consensus MFE -25.69
Energy contribution -26.13
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value 0.82
SVM RNA-class probability 0.858146
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10872952 109 + 23771897
UAAU-----------CCACUUCGGUGCGAAGAGACGGCGAACGCACACAGUCUCACGUUUUGCGCUUGCUUUUCUCGCUUUAUUCACGUUUAUUCUAUUCACUUUCAAAGAGUGUGACCG
....-----------......((((((((.((((.(((((.((((.((........))..)))).))))))))))))).....................(((((.....)))))..)))) ( -25.60)
>DroSec_CAF1 868 109 + 1
UAAU-----------CCACUUCGGUGCGAAGAGACGGCGAACGCACACAGUCUCACGUUUAGCGCUUGCUUUUCUCGCUUUAUUCACGCUUAUUCUAUUCACUUUCAAAGAGUGUGACCG
....-----------......((((((((.((((.(((((.(((..((........))...))).)))))))))))))......(((((((..................))))))))))) ( -26.97)
>DroSim_CAF1 863 109 + 1
UAAU-----------CCACUUCGGUGCGAAGAGACGGCGAACGCACACAGUCUCACGUUUUGCGCUUGCUUUUCUCGCUUUAUUCACGCUUAUUCUAUUCACUUUCAAAGAGUGUGACCG
....-----------......((((((((.((((.(((((.((((.((........))..)))).)))))))))))))......(((((((..................))))))))))) ( -28.37)
>DroEre_CAF1 263 120 + 1
UAAUCAAAGUGCGCUCCACUUCGGUGCGAGGAGACGGCGAACGCACACAGUCUCACGUUUUGCGUUUGCUUUUCUCGCUUUAUUCACGCUUAUUCUAUUCACUUUCCAACAGUGUGACCG
.....(((((...((((((....))).)))((((.((((((((((.((........))..))))))))))..)))))))))..(((((((....................)))))))... ( -36.05)
>DroYak_CAF1 750 120 + 1
UAAUCAAAGUGCGCUCCACUUCGGUGCGAGGAGACGGCGAACGCACACAGUCUCACGUUUUGCGUUUGCUUUUCUCGCUUUAUUCACGCUUAUUCUAUUCACUUUCCAACAGUGUGACCG
.....(((((...((((((....))).)))((((.((((((((((.((........))..))))))))))..)))))))))..(((((((....................)))))))... ( -36.05)
>consensus
UAAU___________CCACUUCGGUGCGAAGAGACGGCGAACGCACACAGUCUCACGUUUUGCGCUUGCUUUUCUCGCUUUAUUCACGCUUAUUCUAUUCACUUUCAAAGAGUGUGACCG
.....................((((((((.((((.(((((.((((....(.....)....)))).)))))))))))))......(((((((..................))))))))))) (-25.69 = -26.13 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:51 2006