Locus 5293

Sequence ID 2R_DroMel_CAF1
Location 17,182,029 – 17,182,131
Length 102
Max. P 0.537231
window8463

overview

Window 3

Location 17,182,029 – 17,182,131
Length 102
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 89.22
Mean single sequence MFE -36.12
Consensus MFE -28.20
Energy contribution -28.00
Covariance contribution -0.20
Combinations/Pair 1.09
Mean z-score -1.44
Structure conservation index 0.78
SVM decision value 0.01
SVM RNA-class probability 0.537231
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17182029 102 + 20766785
UCGGUGGCAGGCAGUGCGGCGUAGAAGUACAAAAGUGUUGGAACAUCGCGUGCCACAGACAUACCAACAGGUGUCACAGCCAGCCGGGG-----------GAAACUGGGGGAA
((((((((.((((.((((..((...(((((....)))))...))..))))))))...(((((........)))))...)))).))))((-----------....))....... ( -33.90)
>DroSec_CAF1 6924 101 + 1
CCGGUGGCAGGCAGGGCGGCGUAGAAGUACAAAAGUGUUGGAACAUCGCGUGCCACAGACAUAACAACAGGUGUCACAGCCUGCCGGGG-----------GAAACUG-GGGAA
((..((((((((..((((.(((.((.((.(((.....)))..)).)))))))))...(((((........)))))...)))))))).((-----------....)))-).... ( -36.40)
>DroSim_CAF1 6926 101 + 1
UCGGUGGCAGGCAGUGCGGCGUAGAAGUACAAAAGUGUUGGAACAUCGCGUGCCACAGACAUAACAACAGGUGUCACAGCCUGCCGGGG-----------GACACGG-GGGAA
...((((((.((.((((.........))))....((((....)))).)).)))))).(((((........))))).....((.((((..-----------..).)))-.)).. ( -34.80)
>DroEre_CAF1 6944 101 + 1
UCCGUGGCAGGCGGUCCGGCGUAGAAGUACAAAAGUGUUCGAACAUCGCGUGCCACAGACAUACCAACAGGUGUCACAGCCUGCCAGGG-----------GAAACGG-GGGAA
(((.((((((((((..((.((..(((.(((....))))))......))))..))...(((((........)))))...)))))))).))-----------)......-..... ( -37.20)
>DroYak_CAF1 6747 112 + 1
UCCGUGGCAGGCGGUCCGGCGUGGAAGUACAAAAGUGUUCGAACAUCGCGUGCCACAGACAUACCAACAGGUGUCACAGCCUGCCAGGGGGAAAAGGUGGGAAAGGG-GGGAA
(((.((((((((((..((.((((...(.(((....))).)...)).))))..))...(((((........)))))...)))))))).))).................-..... ( -38.30)
>consensus
UCGGUGGCAGGCAGUGCGGCGUAGAAGUACAAAAGUGUUGGAACAUCGCGUGCCACAGACAUACCAACAGGUGUCACAGCCUGCCGGGG___________GAAACGG_GGGAA
....((((((((.....((((((....)))....(((.........)))..)))...(((((........)))))...))))))))........................... (-28.20 = -28.00 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:26 2006