Locus 8546

Sequence ID 3R_DroMel_CAF1
Location 22,817,497 – 22,817,606
Length 109
Max. P 0.672484
window13735

overview

Window 5

Location 22,817,497 – 22,817,606
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 92.12
Mean single sequence MFE -17.87
Consensus MFE -14.12
Energy contribution -14.48
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.57
Structure conservation index 0.79
SVM decision value 0.30
SVM RNA-class probability 0.672484
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22817497 109 - 27905053
AAGAAGGCAACUGCAAACCAAACAUGCAAAUCAUGCUUAAAAAAAGUUUAUAAAAAAAAGCAGAUCACAAGUAGAUGUUAUAUAUUUAACUGGGGCUUCAGCCCACACU
.....((((.((((...........(((.....))).........((((........)))).........)))).)))).............((((....))))..... ( -17.40)
>DroSec_CAF1 26429 104 - 1
AAAAAGGCAACUGCAAACCAAACAUGCAAAUCAUGCUCCAAA-AAAUUUAUAAAA-AA---AGUUCGCAAGUAGAUGUUAUAUAUUUAACUGGGACUACAGCCCACACU
.....(((...((((.........))))..............-............-..---(((((.((..(((((((...)))))))..)))))))...)))...... ( -15.20)
>DroSim_CAF1 26817 105 - 1
AAAAAGGCAACUGCAAGCAAAACAUGCAAAUCAUGCUCCAAA-AAGUUUAUAAAAAAA---AGAUCGCAAGUAGAUGUUAUAUAUUUAACUGGGGCUUCAGCCCACACU
.....(((...((((.(.....).))))......((((((..-((((.(((((.....---....(....)......))))).))))...))))))....)))...... ( -19.56)
>DroEre_CAF1 26444 105 - 1
AAAAAGGCAGCUGCAAACAAAACAUGCAAAUCAUGCUCCAAA-AAGUUCAUUAAAAAA---AGAUCGCAAGUAGAUGUUAUAUAUUUAACUGGGGCUUCAGCCCACACU
.....(((...((((.........))))......((((((..-...............---..(((.......)))((((......))))))))))....)))...... ( -18.00)
>DroYak_CAF1 26656 105 - 1
AAAAAGGCAACUGCAAACGAAACAUGCAAAUCAUGCUUCAAA-AAGUUCAUAAAAAAA---AGAUCGCAGGUAGAUGUUAUAUAUUUAACUGGGGCUUCAGCCCACACU
....((....))......(((.((((.....)))).)))...-...............---......(((.(((((((...))))))).)))((((....))))..... ( -19.20)
>consensus
AAAAAGGCAACUGCAAACAAAACAUGCAAAUCAUGCUCCAAA_AAGUUUAUAAAAAAA___AGAUCGCAAGUAGAUGUUAUAUAUUUAACUGGGGCUUCAGCCCACACU
.....(((...((((.........))))......((((((.......................(((.......)))((((......))))))))))....)))...... (-14.12 = -14.48 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:48 2006