Locus 2339

Sequence ID 2L_DroMel_CAF1
Location 6,338,700 – 6,338,819
Length 119
Max. P 0.600504
window3772

overview

Window 2

Location 6,338,700 – 6,338,819
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.03
Mean single sequence MFE -41.82
Consensus MFE -25.04
Energy contribution -25.52
Covariance contribution 0.48
Combinations/Pair 1.32
Mean z-score -1.74
Structure conservation index 0.60
SVM decision value 0.14
SVM RNA-class probability 0.600504
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6338700 119 - 22407834
CGUCGAAUCGCGGUGUGGAUUUCUCAGUUGCGCGCACUUUCCAGCACUGGAGUUGGAACGGAUAACAGAGCUAUGCCAGCACGCCACCUAUGUGUCCAGUAGCUCUGUUAAGUUUGAUA-
.(((((((..(((((((.(.........).)))))...(((((((......)))))))))..((((((((((((....(((((.......)))))...)))))))))))).))))))).- ( -40.30)
>DroSec_CAF1 29781 103 - 1
CGCUGAAUCGCGGCGUGGAUUUCUCAUUUGCGC---------------GUAGUUGGAGCGGAUAACAGAGCUUUGCCAACACGCCACCUAGGUGUGCAGUAGCUCUGUUAGCUCUG-UA-
(((......)))(((..(((.....)))..)))---------------......(((((...((((((((((((((....(((((.....))))))))).))))))))))))))).-..- ( -41.50)
>DroSim_CAF1 31734 119 - 1
CGCUGAAUCGUGGAGUGGAUUUCUCAGUUGCACGCACUUUCCAGCACUGUAGUUGGAACGGAUAACAGAGCCCUGCCAACACGCCACCUAGGUGUGCAGUAGCUCUGUUAAGUUUGAUA-
..(((...((((.((..((....))..)).))))....(((((((......)))))))))).(((((((((.((((....(((((.....)))))))))..))))))))).........- ( -38.80)
>DroEre_CAF1 30433 117 - 1
CGCUGAAU-GCGGUGUGGAUUUCUUAGUUGCGCGCACUUUACAGCACUGGAUUUUAAGCGGAUAACAGGGCUCUGCCAAUACGCCACCUAUACGUGCAGUAGCUCUGUUA-GCUCGU-AU
.((((...-...(((((((((....)))).)))))......))))............((((.((((((((((((((....(((.........))))))).))))))))))-..))))-.. ( -35.90)
>DroYak_CAF1 29882 120 - 1
CGCUGAAUCGCGGUGUGGAAUUCGCAGUGGCGCGCGCUUUUCAGCACUGCAUUUGGAGCGGAUAACAGGGCGCUGCCAACACGCCACCUAUGCGGGCAGCUGCUCUGUUACGCUCGUUAC
.........(((((((((((..(((........)))..))))).)))))).....(((((..(((((((((((((((....(((.......))))))))).))))))))))))))..... ( -52.60)
>consensus
CGCUGAAUCGCGGUGUGGAUUUCUCAGUUGCGCGCACUUUCCAGCACUGGAGUUGGAGCGGAUAACAGAGCUCUGCCAACACGCCACCUAUGUGUGCAGUAGCUCUGUUAAGUUUGAUA_
(((......)))(((((.(.........).)))))....................((((...((((((((((((((....((((.......)))))))).)))))))))).))))..... (-25.04 = -25.52 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:40 2006