Locus 958

Sequence ID 2L_DroMel_CAF1
Location 2,756,829 – 2,756,938
Length 109
Max. P 0.644052
window1538

overview

Window 8

Location 2,756,829 – 2,756,938
Length 109
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 83.42
Mean single sequence MFE -11.44
Consensus MFE -8.05
Energy contribution -8.05
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.70
SVM decision value 0.23
SVM RNA-class probability 0.644052
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2756829 109 + 22407834
AAAUUAGACGUUACAUUUGUGAAUGAAUGAUCGAUCGAAAGAAGCAAAAAUACAAAAGUGAACAUUUGAAAAUGAACAUGAUUAUGAACAUG-AAAAAGAAACAGCAAAU
......((((((.((((....)))))))).))..((....)).((.......((((.(....).))))........((((........))))-...........)).... ( -13.80)
>DroSec_CAF1 175360 97 + 1
AAAUUAGACGUUACAUUUGUGAAUGAAUGAUCGAUCGAAAGAAGCAAAAAUACAAAAGUGAACAUUUGAAAAUGAA------------CAUG-AAAAGAAAACAGCAAAU
.........(((.(((((.((((((.........((....))........(((....)))..)))))).)))))))------------)...-................. ( -11.40)
>DroSim_CAF1 181412 93 + 1
AAUUUAGACGUUACAUUUGUGAAUGAAGGA----UCGAAAGAAGCAAAAAUACAAAAGUGAACAUUUGAAAAUGAA------------CAUG-AAAGGAAAACAGGAAAU
.........(((.(((((.((((((.....----((....))........(((....)))..)))))).)))))))------------)...-................. ( -11.40)
>DroEre_CAF1 193760 82 + 1
AAAUUAGACGUUACAUUUGUGAAUG--------AUCGAAAGAAGCAAAAAUACAAAAGUGAACAUUUGAAA-UGAA-------------------AAAGAAACGGCAAAU
...(((((..((((.((((((..((--------.((....))..))....)))))).))))...)))))..-....-------------------............... ( -10.00)
>DroYak_CAF1 185513 89 + 1
AAAUUAGACGUUACAUUUGUGAAUG--------AUCGAAAGAAGCAAAAAUACAAAAGUGAACAUUUGAAA-UGAA------------AAUGGAAAAAGAAACAGCAAAU
..........((((.((((((..((--------.((....))..))....)))))).)))).(((((....-...)------------)))).................. ( -10.60)
>consensus
AAAUUAGACGUUACAUUUGUGAAUGAA_GA___AUCGAAAGAAGCAAAAAUACAAAAGUGAACAUUUGAAAAUGAA____________CAUG_AAAAAGAAACAGCAAAU
...(((((.(((.(((((.((.((..........((....)).......)).)).)))))))).)))))......................................... ( -8.05 =  -8.05 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:38 2006