Locus 6055

Sequence ID X_DroMel_CAF1
Location 15,544,397 – 15,544,517
Length 120
Max. P 0.505484
window9840

overview

Window 0

Location 15,544,397 – 15,544,517
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 98.75
Mean single sequence MFE -41.63
Consensus MFE -39.62
Energy contribution -39.05
Covariance contribution -0.56
Combinations/Pair 1.09
Mean z-score -1.67
Structure conservation index 0.95
SVM decision value -0.06
SVM RNA-class probability 0.505484
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15544397 120 + 22224390
CACACGCACGCACGGAGCAGCUGCUGAAAAGUGCCUGCUGCCUGUUACCGUUUUCGGUAGAAAAAGAGAGAGACGACUGAACGGAACAGAACGGGAGAAAGGCUCCACGUGGUGGCGAUG
....(((.(((..(.(((((..(((....)))..))))).)(((((.(((((((((.................)))..))))))))))).(((((((.....)))).))).))))))... ( -41.73)
>DroSec_CAF1 6254 120 + 1
CACACGCACGCACGGAGCAGCUGCUGAAAAGUGCCUGCUGCCUGUUACCGUUUUCGGUAGAAAAAGAGAGAGACGACUGAACGGAACAGAACGGGAGAAAGGCUCCACGUGGUGGCGAUG
....(((.(((..(.(((((..(((....)))..))))).)(((((.(((((((((.................)))..))))))))))).(((((((.....)))).))).))))))... ( -41.73)
>DroSim_CAF1 4398 120 + 1
CACACGCACGCACGGAGCAGCUGCUGAAAAGUGCCUGCUGCCUGUUACCGUUUUCGGUAGAAAAAGAGAGAGACGACUGAACGGAACAGAACGGGAGAAAGGCUCCACGUGGUGGCGAUG
....(((.(((..(.(((((..(((....)))..))))).)(((((.(((((((((.................)))..))))))))))).(((((((.....)))).))).))))))... ( -41.73)
>DroYak_CAF1 6285 120 + 1
CACACGCACGCACGGAGCAGCUGCUGAAAAGUGCCUGCUGCCUGUUACCGUUUUCGGUAGAAAAAGAGAGAGACGACUGAACGGAACGGAACGGGAGAAAGGUUCCACGUGGUGGUGAUG
..(((.(((.((((.(((((..(((....)))..))))).((((((.(((((((((((.................)))))...))))))))))))............))))))))))... ( -41.33)
>consensus
CACACGCACGCACGGAGCAGCUGCUGAAAAGUGCCUGCUGCCUGUUACCGUUUUCGGUAGAAAAAGAGAGAGACGACUGAACGGAACAGAACGGGAGAAAGGCUCCACGUGGUGGCGAUG
....(((((.((((..(((((.((........))..)))))(((((.(((((((((.................)))..)))))))))))....((((.....)))).)))))).)))... (-39.62 = -39.05 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:04 2006