Locus 2936

Sequence ID 2R_DroMel_CAF1
Location 10,164,505 – 10,164,625
Length 120
Max. P 0.575804
window4844

overview

Window 4

Location 10,164,505 – 10,164,625
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.39
Mean single sequence MFE -30.68
Consensus MFE -26.75
Energy contribution -27.25
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.87
SVM decision value 0.08
SVM RNA-class probability 0.575804
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10164505 120 + 20766785
GAGAGAGAGAGGGCAGAUACCGGCGAAACAGAGACAGACAGAUAGAUGGACGGAAACCAACUGCGGUCACACUGUAAAUUAAAUAUAAAAUGUCCUGCGGACUGUCGCUCUUUAUGCCAU
..........((.......))((((.((.((((...(((((......(((((....)....(((((.....)))))...............))))......))))).)))))).)))).. ( -30.60)
>DroSec_CAF1 4243 117 + 1
AAGAGAGA---GGCAGAUACCGGCGAAACAGAGACAGACAGAUAGAUGGACGGAAACCAACUGCGGUCACACUGUAAAUUAAAUAUAAAAUGUCCUGCGGACUGUCGCUCUUUAUGCCAU
........---((......))((((.((.((((...(((((......(((((....)....(((((.....)))))...............))))......))))).)))))).)))).. ( -29.80)
>DroSim_CAF1 4190 117 + 1
AAGAGAGA---GGCAGAUACCGGCGAAACAGAGACAGACAGAUAGAUGGACGGAAACCAACUGCGGUCACACUGUAAAUUAAAUAUAAAAUGUCCUGCGGACUGUCGCUCUUUAUGCCAU
........---((......))((((.((.((((...(((((......(((((....)....(((((.....)))))...............))))......))))).)))))).)))).. ( -29.80)
>DroYak_CAF1 4076 110 + 1
---AGCGA---GAGAGAUACCGGCGAAAGAGAGA----CAGAUAGAUGGACGGAAACCAGCUGCGGUCACACUGUAAAUUAAAUAUAAAAUGUCCUGCGGACUGUCGCUCUUUAUGCCAU
---.....---..........((((((((((.((----(((......(((((....)....(((((.....)))))...............))))......))))).)))))).)))).. ( -32.50)
>consensus
AAGAGAGA___GGCAGAUACCGGCGAAACAGAGACAGACAGAUAGAUGGACGGAAACCAACUGCGGUCACACUGUAAAUUAAAUAUAAAAUGUCCUGCGGACUGUCGCUCUUUAUGCCAU
.....................((((.((.((((...(((((......(((((....)....(((((.....)))))...............))))......))))).)))))).)))).. (-26.75 = -27.25 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:13 2006