Locus 5286

Sequence ID 3R_DroMel_CAF1
Location 13,806,528 – 13,806,629
Length 101
Max. P 0.888729
window8624

overview

Window 4

Location 13,806,528 – 13,806,629
Length 101
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 75.84
Mean single sequence MFE -28.45
Consensus MFE -14.36
Energy contribution -15.93
Covariance contribution 1.56
Combinations/Pair 1.08
Mean z-score -2.37
Structure conservation index 0.50
SVM decision value 0.95
SVM RNA-class probability 0.888729
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13806528 101 - 27905053
AACUUGGGCUUUGUUUCAAGCUUCUGGGGGUAUGUAGUAUGUUACUACAUA--------CUCGUAUGAACAUAUAUAAAAAAAAAAAGGCCACAGCUCUUGGAGCCCUU
.....(((((..(.....((((..(((((((((((((((...)))))))))--------)))((((....))))...............))).))))..)..))))).. ( -31.80)
>DroSec_CAF1 78604 101 - 1
ACCUUGGGCUUUGUUUCAGGCUACG-GGGGUA-GUAGUAUGUUACUACAUACCCGCGCACUCGUAUGAACAUAUA--A---AA-AAAGGCCACAGCUCUUGGAGCCCUU
.....((((((((((...((((.((-.(((((-((((((...)))))).))))).)).....((((....)))).--.---..-...))))..)))....))))))).. ( -32.00)
>DroSim_CAF1 80538 90 - 1
AACUUGGGCUUUGUUUCAGGCUUCG-GGGGCA-GCAGUAUGUUACUACAUA------------UAAAAACAUAUA--A---AAAAAAGGCCACAGCUCUUGGAGCCCUU
..................(((((((-(((((.-...((((((....)))))------------)...........--.---......(....).))))))))))))... ( -23.40)
>DroEre_CAF1 76653 92 - 1
AACCUGGGCUUUGUUUCAGGCUUCG-GGCGUA-G--------UACUACACCCAAGUAUACGAGCACAAACAUAUA-------AAAAAGGCCACAGCUCUCGGAGCCCUU
.....((((((((......((((.(-((.(((-.--------...))).)))))))....((((...........-------............)))).)))))))).. ( -26.60)
>consensus
AACUUGGGCUUUGUUUCAGGCUUCG_GGGGUA_GUAGUAUGUUACUACAUA________CUCGUAUAAACAUAUA__A___AAAAAAGGCCACAGCUCUUGGAGCCCUU
.....(((((((((((...((((....))))..(((((.....)))))..................))))...............(((((....)).)))))))))).. (-14.36 = -15.93 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:05 2006