Locus 4269

Sequence ID 2L_DroMel_CAF1
Location 12,203,694 – 12,203,808
Length 114
Max. P 0.655236
window6735

overview

Window 5

Location 12,203,694 – 12,203,808
Length 114
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 74.55
Mean single sequence MFE -19.03
Consensus MFE -10.38
Energy contribution -10.62
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.55
SVM decision value 0.25
SVM RNA-class probability 0.655236
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12203694 114 - 22407834
CAGAAUUCUGAGCAAAAUGUUACUAAAAUAGGGGCAUUGCAAAUGCAAGAAGCCCAUACGAACGUAUUUUCUGAAGACAAAUUAACAAAUACA--UUAUCAUUAAACAUUAAGUAC
(((....))).((..((((((..........((((.((((....))))...))))........((((((..(((.......)))..)))))).--.........))))))..)).. ( -20.40)
>DroSec_CAF1 32622 98 - 1
CGGAACUCAGAAGAAAAUGGUACUA-AAUAGGGGCAUUGCAAAUGCAAGAAGCCCAU---------------GAAGACAAAUUACCAAAUAAA--UCCAUAUUAAACAUUUAGUAC
.(((..((....))...(((((((.-...))((((.((((....))))...))))..---------------..........)))))......--))).((((((....)))))). ( -18.80)
>DroSim_CAF1 30079 98 - 1
CAGAACUCAGAGGAAAAUGGUACUA-AAUAGGGGCAUUGCAAAUGCAAGAAGCCCAU---------------GAAGACAAAUUUUGAAAUAAA--UCCAUAUUAAACAUUUUGUAC
...........(.((((((...((.-...))((((.((((....))))...))))..---------------.....................--...........)))))).).. ( -14.80)
>DroYak_CAF1 31429 115 - 1
CAGAACUCAUAGCAAAAUGCUUCUA-AAUAGGGGCAUUGCAAAUGCAAGAAGCCAAUACGAAAGUAUUUUAUGAAGGCAAUUUAUCAUUUACUAGAUAACAUAAAUAAAUAAAUAC
...........(((.(((((((((.-...))))))))).....))).....((((((((....))))).......)))...(((((........)))))................. ( -22.11)
>consensus
CAGAACUCAGAGCAAAAUGGUACUA_AAUAGGGGCAUUGCAAAUGCAAGAAGCCCAU_______________GAAGACAAAUUAUCAAAUAAA__UCAACAUUAAACAUUAAGUAC
...............................((((.((((....))))...))))............................................................. (-10.38 = -10.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:50 2006