Locus 109

Sequence ID 2R_DroMel_CAF1
Location 1,353,479 – 1,353,593
Length 114
Max. P 0.724731
window238

overview

Window 8

Location 1,353,479 – 1,353,593
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.57
Mean single sequence MFE -31.64
Consensus MFE -24.62
Energy contribution -25.70
Covariance contribution 1.08
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.41
SVM RNA-class probability 0.724731
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1353479 114 - 20766785
A------GUCGGGGUUUUCCAUAAAUUUGUAUUUAUUUGCUCGCACGCGUGAGUAAGUUUAUUUAAAUUUUUAUGCUGAGAGCCGUAAAAAACGGAGAGCACUUGAGACUCGGACAAAGU
.------(((.(((((((....(((((((.((..((((((((((....))))))))))..)).)))))))...((((.....((((.....))))..))))...))))))).)))..... ( -34.00)
>DroSec_CAF1 71601 103 - 1
GGCCGGGGUCGGGGUUUUCCAUAAAUUUGUAUUUAUUUGCUCGCACGCGUGAGUGAGUUUAUUUAAAUUUUUAUGCUGAG-----------------AGCACUUGAGACUCGGACAAAGU
..(((((.(((((((((((((((((((((.((..(((..(((((....)))))..)))..)).)))))..)))))..)))-----------------))).)))))..)))))....... ( -33.50)
>DroSim_CAF1 49768 120 - 1
GGCCGGGGUCGGGGUUUUCCAUAAAUUUGUAUUUAUUUGCUCGCACGCGUGAGUGAGUUUAUUUAAAUUUUUAUGCUGAGAGCCGUAAAAAACGGAGAGCACUUGAGACUCGGACAAUGU
..(((((.((((((((((((.....((((.((..(((..(((((....)))))..)))..)).))))((((((((.(....).))))))))..))))))).)))))..)))))....... ( -39.60)
>DroEre_CAF1 52226 114 - 1
AG------GCGGGGUUUUCCAUAAAUUUGUAUUUAUUUGCUCGCACGCGUGAGUGAGUUUAUUUAAAUUUUUAUGCUGGGAGCCGUAAAAAGCGGAGAGCACUUGAGACUUGGACAAAGU
..------.(((((((((((((((((....))))))..((((.((.((((((..((((((....)))))))))))))).))))..........))))))).))))..((((.....)))) ( -29.70)
>DroYak_CAF1 39480 114 - 1
AG------GCGGGGUUUUCCAUAAAUUUGUAUUUAUUUGCUCGCACGCGUGACUGCGUUUAUUUAAAUUUUUAUGCUGAAAGCCGUAAAAAACAGAAAGCACUUGAGACUUGGACAAAGU
..------((..(((((((((((((....((..((..(((((((....))))..)))..))..))....))))))..)))))))((.....)).....)).......((((.....)))) ( -21.40)
>consensus
AG_____GUCGGGGUUUUCCAUAAAUUUGUAUUUAUUUGCUCGCACGCGUGAGUGAGUUUAUUUAAAUUUUUAUGCUGAGAGCCGUAAAAAACGGAGAGCACUUGAGACUCGGACAAAGU
.......(((.(((((((....(((((((.((..((((((((((....))))))))))..)).)))))))...((((.....((((.....))))..))))...))))))).)))..... (-24.62 = -25.70 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:27:36 2006