Locus 5472

Sequence ID 3R_DroMel_CAF1
Location 14,450,562 – 14,450,682
Length 120
Max. P 0.823148
window8913

overview

Window 3

Location 14,450,562 – 14,450,682
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.33
Mean single sequence MFE -27.56
Consensus MFE -22.72
Energy contribution -22.48
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.90
Structure conservation index 0.82
SVM decision value 0.69
SVM RNA-class probability 0.823148
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14450562 120 + 27905053
CUACGGAGGGCUACUCUCACAUUGUUUGCUGCAUAAAUAAUUUUAGAGUAAAUUAAUUUAUUCGUUGACAUGUGUCCUGCGUUUAUUUGAAAUUGCAUUGUCAUUAUGCAAAUGCACUUU
..(((.(((((((((((.(.((((((((.....)))))))).).))))))..(((((......))))).....))))).)))...........((((((((......)).)))))).... ( -25.00)
>DroSec_CAF1 7807 120 + 1
CUCCGCAGGGCUACUCUCACAUUGUUUGCUGCAUAAAUAAUUUUAGAGUAAAUUAAUUUAUUCGUUGACAUGUGUCCUGCGUUUAUUUGAAAUUGCAUUGUCAUUAUGCAAAUGCACUUU
...((((((((((((((.(.((((((((.....)))))))).).))))))..(((((......))))).....))))))))............((((((((......)).)))))).... ( -28.40)
>DroSim_CAF1 8376 120 + 1
CUCCGCAGGGCUACUCUCACAUUGUUUGCUGCAUAAAUAAUUUUAGAGUAAAUUAAUUUAUUCGUUGACAUGUGUCCUGCGUUUAUUUGAAAUUGCAUUGUCAUUAUGCAAAUGCACUUU
...((((((((((((((.(.((((((((.....)))))))).).))))))..(((((......))))).....))))))))............((((((((......)).)))))).... ( -28.40)
>DroEre_CAF1 7619 120 + 1
CUCUGGAGGGCUACUCUCACAUUGUUUGCUGCAUAAAUAAUGUUAGAGUAAAUUAAUUUAUUCGUUGACAUGUGUCCUGCGUUUAUUUGAAAUUGCAUUGUCAUUAUGCAAAUGCACUUU
.....((((((((((((.((((((((((.....)))))))))).))))))..((((..((..(((.(((....)))..)))..)).))))..((((((.......))))))..)).)))) ( -28.90)
>DroYak_CAF1 8466 120 + 1
CUCUGGAGGGCUACUCUCACAUUGUUUGCUGCAUAAAUAAUUUUAGAGUAAAUUAAUUUAUUCGUUGACAUGUGUCCUGCGUUUAUUUGAAAUUGCAUUGUCAUUAUGCAAAUGCAAAUG
...(((((((...))))).))..(((((((((((((.........(((((((....)))))))..(((((.((((....((......)).....))))))))))))))))...)))))). ( -27.10)
>consensus
CUCCGGAGGGCUACUCUCACAUUGUUUGCUGCAUAAAUAAUUUUAGAGUAAAUUAAUUUAUUCGUUGACAUGUGUCCUGCGUUUAUUUGAAAUUGCAUUGUCAUUAUGCAAAUGCACUUU
...((.(((((((((((.(.((((((((.....)))))))).).))))))..(((((......))))).....))))).))............((((((((......)).)))))).... (-22.72 = -22.48 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:41 2006