Locus 1605

Sequence ID 3R_DroMel_CAF1
Location 4,623,492 – 4,623,597
Length 105
Max. P 0.935825
window2648

overview

Window 8

Location 4,623,492 – 4,623,597
Length 105
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 72.21
Mean single sequence MFE -38.47
Consensus MFE -14.96
Energy contribution -16.30
Covariance contribution 1.34
Combinations/Pair 1.44
Mean z-score -2.26
Structure conservation index 0.39
SVM decision value 1.25
SVM RNA-class probability 0.935825
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4623492 105 + 27905053
CUCUCUUUGAGUUUGGAGCCAGGAUCC--GUCCGG-CGGACCACAGUCCCAUUGUGGGGCGCCAGGAUAUGGGCGGUCCUGCUCAUUGUAUUACAUCCCUUGCUAGAG
..((((...(((..(((((.((((.((--((((((-((..(((((((...)))))))..)))).......))))))))))))))..((.....))...)..))))))) ( -40.51)
>DroVir_CAF1 31265 102 + 1
CUCUGUUUUUCAUUGGAGUCCCGCUCUUGCUCCAAUUUACGCACUGCCCCAUUGUGGGGCAACAAGAUGUGUGCGUUUCU-UU-----CAUUGAACCCUUUGCUAGAG
(((((......((((((((.........))))))))..((((((((((((.....))))))((.....))))))))....-..-----...............))))) ( -30.70)
>DroEre_CAF1 23470 102 + 1
CUCUCCUUGAGUUUGGAGCCAGGAUCC--GUCCGG-CGGCCCACAGUCCCAUUGUGGGGCGCCAGGAUAUGGGCGGUCCUGCUCA---UAUUACAUCCCUUGCUAGAG
(((.....)))....((((.((((.((--((((((-((.((((((((...)))))))).)))).......)))))))))))))).---.................... ( -44.01)
>DroYak_CAF1 23371 102 + 1
CUCUCUUUGAGUUUGGAGCCGGGAUCC--GUCCGG-CGGCCCACAGUCCCAUUGUGGGGCGCCAGGAUAUGGGCGGUCCUGCUCA---UAUUACAUCCCUUGCUAGAG
(((.....))).....(((.(((((..--((((((-((.((((((((...)))))))).)))).))))(((((((....))))))---).....)))))..))).... ( -44.50)
>DroMoj_CAF1 30727 102 + 1
CUCUGUUUCUCAUUAGGUUUUCUCUCGUACUCCUGUUUACGCACCGCCCCAUUGUGGGGCGACAGGAUGUGUGCGUUUCU-CU-----CAUUUAUACCUUUGCUAGAG
((((((.......(((((.......(((((((((((........((((((.....))))))))))))...))))).....-..-----.))))).......)).)))) ( -28.10)
>DroAna_CAF1 23328 102 + 1
CUUUCAUUGGGCUUGGAGCCAGGAUCC--GACCUG-UGCUUCAACGGUCCAUUGUGUGGCACUAGGAUGUGGGCGGUCCUGCUCC---CGUCGCAUCCCUUGCUAGAG
....((.((((((((((((((((....--..))))-.))))))..)))))).))(.(((((...((((((((.(((........)---))))))))))..))))).). ( -43.00)
>consensus
CUCUCUUUGAGUUUGGAGCCAGGAUCC__GUCCGG_CGGCCCACAGUCCCAUUGUGGGGCGCCAGGAUAUGGGCGGUCCUGCUCA___CAUUACAUCCCUUGCUAGAG
...............((((.((((((...................(((((.....))))).(((.....)))..))))))))))........................ (-14.96 = -16.30 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:41 2006