Locus 4456

Sequence ID 3R_DroMel_CAF1
Location 11,800,654 – 11,800,769
Length 115
Max. P 0.849351
window7283

overview

Window 3

Location 11,800,654 – 11,800,769
Length 115
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 81.27
Mean single sequence MFE -24.88
Consensus MFE -17.06
Energy contribution -20.00
Covariance contribution 2.94
Combinations/Pair 1.10
Mean z-score -1.97
Structure conservation index 0.69
SVM decision value 0.78
SVM RNA-class probability 0.849351
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11800654 115 - 27905053
A-UACAAAUUUUUCAAAUUCAAUAAAGUACAUAUUAUGGGCUCAAUGGGUCAUCUGCUCAAAU-UCGCCGAAAAUGACACAUUUCGGCAUUGAUCGCGCCAUAUGUUUUUUAUA--UGC
.-...................((((((.(((((...((((((((((((((.....))))....-..(((((((........))))))))))))..)).)))))))).)))))).--... ( -25.70)
>DroSec_CAF1 5057 107 - 1
A-UACAAAUUGUUUUAAUUCAAUAGAUUACAUAUUAUGAGAUCAAUGGGUCAUCUGCUCAAAU-UCGCCGAAAA--------UUCGGCAUUGAUCGCGCCAUAUGUUUUUUAUA--UGC
.-...................(((((..((((((..((.(((((((((((.....))))....-..(((((...--------.)))))))))))).))..))))))..))))).--... ( -27.10)
>DroSim_CAF1 5061 107 - 1
A-UACAAAUUGUUUUAAUUCAAGAGGGUAAAUACUAUGAGAUCAAUGGGUCAUCUGCUCAAAU-UCGCCGAAAA--------UUCGGCAUUGAUCGCGCCAUAUGUUUUUUAUA--UGC
.-(((...(((........)))....)))..........(((((((((((.....))))....-..(((((...--------.))))))))))))....((((((.....))))--)). ( -22.80)
>DroEre_CAF1 5050 112 - 1
AUUAUAAAUAGUUUUAAUUCAAUAAAGUAUA-------UGAUCAAUAGGUCAUCUGCUGAAAUUUCGCCGAAACAGACACAUUUAGGCAGUGAUCGAGCCAUAUGUGUUUUAUAUUUGC
....(((((((((((..........((((.(-------(((((....)))))).))))...........)))))((((((((...(((.........)))..))))))))..)))))). ( -23.90)
>consensus
A_UACAAAUUGUUUUAAUUCAAUAAAGUACAUAUUAUGAGAUCAAUGGGUCAUCUGCUCAAAU_UCGCCGAAAA________UUCGGCAUUGAUCGCGCCAUAUGUUUUUUAUA__UGC
.....................(((((..((((((..((.(((((((((((.....)))).......(((((((........)))))))))))))).))..))))))..)))))...... (-17.06 = -20.00 +   2.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:43 2006