Locus 6950

Sequence ID 3R_DroMel_CAF1
Location 18,323,529 – 18,323,638
Length 109
Max. P 0.607971
window11271

overview

Window 1

Location 18,323,529 – 18,323,638
Length 109
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 82.21
Mean single sequence MFE -24.20
Consensus MFE -15.17
Energy contribution -17.20
Covariance contribution 2.03
Combinations/Pair 1.17
Mean z-score -1.83
Structure conservation index 0.63
SVM decision value 0.15
SVM RNA-class probability 0.607971
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18323529 109 + 27905053
AUAAUGAGGCCACUAUAGU----GGCUAUGGCCUACGAAUACGAACGGCUGGGAAAGUGAAAACGUGAUUGCAUGGCAGGAACAUAAAUUAAAACUUUGCCUUUUAACUCAAU
....(((((((((....))----)))...((((..((....))...))))((.(((((.......(((((..(((.......))).)))))..))))).))......)))).. ( -26.50)
>DroSec_CAF1 9143 92 + 1
AUAAUGAGGCCACUAUAGU----GGCUAUG-----------------GCUGGGAAAGUGAAAACGUGAUGGCAUGGCAGGAACAUAAAUUAAAACUUUGCCUUUUAACUCAAU
....(((((((((....))----)))...(-----------------((..((...((....))((....((...))....))...........))..)))......)))).. ( -22.00)
>DroSim_CAF1 9376 89 + 1
AUAAUGAGGC---UAUAGU----GGCUAUG-----------------GCUGGGAAAGUGAAAACGUGAUGGCAUGGCAGGAACAUAAAUUAAAACUUUGCCUUUUAACUCAAU
....((((((---(((((.----..)))))-----------------)).((.(((((.......((((...(((.......)))..))))..))))).))......)))).. ( -18.90)
>DroEre_CAF1 9428 107 + 1
AUAAUAAGGCCACUGUAGCCAUAGGCCAUAGCCUACGAAU------GGCUGCGAAAGUGAAAAUGUGAUGGCAUGGCAGGAACAUAAAUUAAAACUUUGCCUAUUAACUCAAU
.(((((.(((((((((((((((((((....)))))....)------))))))...))))...((((....((...))....)))).............))))))))....... ( -28.60)
>DroYak_CAF1 9776 94 + 1
AUAAUGAGGCCACUAUAGU----GGCUAUAGCCUGGG---------------UAAAGUGAAAACGCGAUGGCAUGGCAGGAACAUAAAUUAAAACUUUGCCUUUUAACUCAAU
....(((((((((....))----)))........(((---------------((((((......((....))(((.......)))........))))))))).....)))).. ( -25.00)
>consensus
AUAAUGAGGCCACUAUAGU____GGCUAUGGCCU__G__________GCUGGGAAAGUGAAAACGUGAUGGCAUGGCAGGAACAUAAAUUAAAACUUUGCCUUUUAACUCAAU
....(((((((((((((((.....))))))).........................((....))....))))..((((((...............))))))......)))).. (-15.17 = -17.20 +   2.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:58 2006