Locus 6230

Sequence ID 2L_DroMel_CAF1
Location 17,321,162 – 17,321,257
Length 95
Max. P 0.959477
window9956

overview

Window 6

Location 17,321,162 – 17,321,257
Length 95
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 90.98
Mean single sequence MFE -20.70
Consensus MFE -15.42
Energy contribution -15.10
Covariance contribution -0.32
Combinations/Pair 1.14
Mean z-score -2.87
Structure conservation index 0.75
SVM decision value 1.50
SVM RNA-class probability 0.959477
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17321162 95 + 22407834
AAAAUUGCAGCCAAAUAAGCCAAAUGGCUGAACAGGUUCAAGGCGAAAGCAGAUUAAUCGUAAAAAAUAGAUCAAGAAAACAAGAAG--AGAUUUAC
....((((((((.....((((....)))).....))))....((....)).........))))....((((((..............--.)))))). ( -17.86)
>DroSec_CAF1 18751 94 + 1
AAAAUUGCAGCCA-AUAAGCCAAAUGGCUGAACAGGUUCAAGGCGAAAGCAGGUUAAUCGUAAAAAAUAGAUCAAGAAAACAAGAAG--AGAUUUAC
....((((((((.-...((((....)))).....))))....((....)).........))))....((((((..............--.)))))). ( -17.46)
>DroSim_CAF1 21105 95 + 1
ACCAUUGCAGCCAAAUAAGCCAAAUGGCUGAACAGGUUCGAGGCGAAAGCAGGUUAAUCGUAAAAAAUAGAUCAAGAAAACAGGAUG--AGAUUUAC
(((.(((.((((.....((((....)))).....))))))).((....)).))).............((((((..............--.)))))). ( -19.86)
>DroEre_CAF1 20681 97 + 1
AAAAUUGCAGCCAAAUAAGCCAAAUGGCUGAACAGGUUCAAGGCGAAAGCGGGUUUAUCGUUAAAAAUAGACGAUGAAAACAAGAAGAGAGAUUUAC
....(((.((((.....((((....)))).....))))))).((....))(..(((((((((.......)))))))))..)................ ( -26.50)
>DroYak_CAF1 13711 96 + 1
AAAACUGCAGCCAAAUAAGCCAAAUGGCUGAACAGGUUCCAGGCGAAAGCAGGUUAUUCG-UAAAAAUAGAUGAAGAAAACGAGAAGAGAGAUUUAC
....(((.((((.....((((....)))).....)))).)))((....))..(((.((((-(........)))))...)))................ ( -21.80)
>consensus
AAAAUUGCAGCCAAAUAAGCCAAAUGGCUGAACAGGUUCAAGGCGAAAGCAGGUUAAUCGUAAAAAAUAGAUCAAGAAAACAAGAAG__AGAUUUAC
....((((.(((.....((((....))))(((....)))..)))....))))............................................. (-15.42 = -15.10 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:51 2006