Locus 826

Sequence ID 3R_DroMel_CAF1
Location 2,850,090 – 2,850,180
Length 90
Max. P 0.529754
window1312

overview

Window 2

Location 2,850,090 – 2,850,180
Length 90
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -22.97
Consensus MFE -14.52
Energy contribution -16.22
Covariance contribution 1.70
Combinations/Pair 1.19
Mean z-score -1.44
Structure conservation index 0.63
SVM decision value -0.01
SVM RNA-class probability 0.529754
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2850090 90 + 27905053
GCCAUAUUUAUGCCGCAUUGUGCGCAUAAGUAGCGUCAGCAAAAAAAAAAGA---------AACUGGGCGGGGAGGGUAUCGCUUGCCAAAAUCCUUUG
(((.(((((((((.((.....)))))))))))((....))............---------.....)))(((((.((((.....))))....))))).. ( -27.00)
>DroSec_CAF1 125199 86 + 1
GCCAUAUUUAUGCCGCAUUGUGCGCAUAAGUAGCGUCAGCAAAAAAAA-------------AACUGGGCGGGGAGAGUAUCCCUUGCCAAAAUCCUUCG
....(((((((((.((.....)))))))))))((....))........-------------.....((((((((.....)))).))))........... ( -25.40)
>DroSim_CAF1 129994 86 + 1
GCCAUAUUUAUGCCGCAUUGUGCGCAUAAGUAGCGUCAGCAAAAAAAA-------------AACUGGGCGGGGAGAGUAUCCCUUGCCAAAAUCCUUCG
....(((((((((.((.....)))))))))))((....))........-------------.....((((((((.....)))).))))........... ( -25.40)
>DroEre_CAF1 128151 80 + 1
GCCAUAUCUAUGCCGCAUUGUGCGCAUAAGUAGCGUCAGCAAA----A-------------AACUGGGCG--GCAAGUAUCCCUUGCCAAAAUCCUUCG
(((.((..(((((.((.....)))))))..))((....))...----.-------------.....)))(--(((((.....))))))........... ( -24.40)
>DroYak_CAF1 138209 83 + 1
GCCAAAUUUAUGUCGCAUUGUGCGCAGAAGUAGCGUCAGCAAAAA--A-------------AACUGGGCGA-GAAAGUAUUCCUUGCCAAAAUCCUUUG
.....((((.((.(((.....))))).)))).((....)).....--.-------------.....(((((-(.........))))))........... ( -15.60)
>DroAna_CAF1 117602 99 + 1
AGAUACUUUAUGCCGCAUUGCAAGCCUUAGUAUCGUCAGCAAAAAAAAAAAAUAACGCAAAGGCAGGGCGGGGAGAAAAUCCUUUGCCAAAAUCCUUAG
.((((((...(((......)))......)))))).........................((((...((((((((.....))).))))).....)))).. ( -20.00)
>consensus
GCCAUAUUUAUGCCGCAUUGUGCGCAUAAGUAGCGUCAGCAAAAAAAA_____________AACUGGGCGGGGAGAGUAUCCCUUGCCAAAAUCCUUCG
....((((((((((((...))).)))))))))((....))..........................(((((((........)))))))........... (-14.52 = -16.22 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:03 2006