Locus 1129

Sequence ID 2R_DroMel_CAF1
Location 4,522,258 – 4,522,356
Length 98
Max. P 0.500000
window1993

overview

Window 3

Location 4,522,258 – 4,522,356
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 85.27
Mean single sequence MFE -20.71
Consensus MFE -11.88
Energy contribution -13.88
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.82
Structure conservation index 0.57
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4522258 98 + 20766785
AGAACUUUCCCACAAUUGUGUUCUCACCCAAAAAGAAAAUAAUUUCAGAAAAAGGCUUAGAAGGGUGAGAAAGCAGUUAUCAUACUCAUGAUGAAAGU
...((((((....((((((.(((((((((.....((((....))))((.......)).....))))))))).))))))(((((....))))))))))) ( -26.80)
>DroSec_CAF1 56711 96 + 1
ACAACUUUCCCACAAUUGUGUUCUCACCCAAAA--AAAAUAAUAUCAGAAAAAUUCCGAGAAGGGUCAGAAAGCAGUUAUCAUACUCAUGAUGAAAGU
...((((((....((((((.((((.((((....--...........................)))).)))).))))))(((((....))))))))))) ( -18.88)
>DroSim_CAF1 55629 85 + 1
AGAACUUUCCCGCAAUUGUGUUCUCACCCAAA----AAAUAAUAUCAGGAAAAGGCCGAG---------AAAGCAGUUAUCAUACUCAUGAUGAAAGU
...((((((....((((((.(((((..((...----.................))..)))---------)).))))))(((((....))))))))))) ( -16.45)
>consensus
AGAACUUUCCCACAAUUGUGUUCUCACCCAAAA__AAAAUAAUAUCAGAAAAAGGCCGAGAAGGGU_AGAAAGCAGUUAUCAUACUCAUGAUGAAAGU
...((((((....((((((.((((.((((.................................)))).)))).))))))(((((....))))))))))) (-11.88 = -13.88 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:15 2006