Locus 1282

Sequence ID 2R_DroMel_CAF1
Location 5,019,458 – 5,019,548
Length 90
Max. P 0.997589
window2221

overview

Window 1

Location 5,019,458 – 5,019,548
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 73.64
Mean single sequence MFE -22.28
Consensus MFE -7.99
Energy contribution -10.18
Covariance contribution 2.20
Combinations/Pair 1.17
Mean z-score -3.36
Structure conservation index 0.36
SVM decision value 2.89
SVM RNA-class probability 0.997589
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5019458 90 + 20766785
UAAAAAGGUUAAGGAUAUGCAAGUUGAGCUACAGCCAAUUUAAAUGCAAAGGAGAAAAACGCUGAAGAGCGGCAAAGCCUUGGCUUUUUA
..((((((((((((...(((((((((.((....))))))))..................((((....)))))))...)))))))))))). ( -27.40)
>DroVir_CAF1 97023 69 + 1
UAAAAAGGUUAAGGAUAUGCUUGUUGAUGUAG-UCUAAUUUAAAUGCAAAACGGC-AAAUGCUU--------------UAAG-----GGA
........((((((((.((((.(((..((((.-...........)))).))))))-).)).)))--------------))).-----... ( -10.10)
>DroSec_CAF1 73866 90 + 1
UAAAAAGGUUAAGGAUAUGCAAGUUGAGCUACAGCCAAUUUAAAUGCAAAGAAGAAAGCCGCUGAAGAGCGGCAAAGCCUUGGCUUUUUA
..((((((((((((...(((((((((.((....)))))))....)))).........((((((....))))))....)))))))))))). ( -32.10)
>DroSim_CAF1 77120 90 + 1
UAAAAAGGUUAAGGAUAUGCAAGUUGAGCUACAGCCAAUUUAAAUGCAAAGGAGAAAGCCGCUGAAGAGCGGCAAAGCCUUGGCUUUUUA
..((((((((((((...(((((((((.((....)))))))....)))).........((((((....))))))....)))))))))))). ( -32.10)
>DroEre_CAF1 70737 71 + 1
UAAGAAGGUUAAGGAUAUGCAAGUUGAGCUGCAGCCAAUUUAAAUGCAAAGGAGAAGG------------------CUGCUGGCU-UUUG
...((((((((.......((.......)).((((((....................))------------------)))))))))-))). ( -15.15)
>DroYak_CAF1 79154 71 + 1
UAAAAAGGUUAAGGAUAUGCAAGUUGAGCUACAGCCAAUUUAAAUGCAAAGGAGAAAA------------------GCCUUGGCU-UUUA
...(((((((((((...(((((((((.((....)))))))....))))..........------------------.))))))))-))). ( -16.84)
>consensus
UAAAAAGGUUAAGGAUAUGCAAGUUGAGCUACAGCCAAUUUAAAUGCAAAGGAGAAAA_CGCUG____________GCCUUGGCU_UUUA
......((((((((...(((((((((.((....)))))))....))))...........((((....))))......))))))))..... ( -7.99 = -10.18 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:53 2006