Locus 5677

Sequence ID X_DroMel_CAF1
Location 14,683,704 – 14,683,822
Length 118
Max. P 0.638303
window9220

overview

Window 0

Location 14,683,704 – 14,683,822
Length 118
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 79.86
Mean single sequence MFE -25.08
Consensus MFE -15.74
Energy contribution -16.74
Covariance contribution 1.00
Combinations/Pair 1.16
Mean z-score -1.80
Structure conservation index 0.63
SVM decision value 0.22
SVM RNA-class probability 0.638303
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14683704 118 - 22224390
CCAAAACAUGGCCCUUCCUCCGAAUUUCACAUCAAUGUCCUCUGUGAAAUCCCAGUCUUGUUCACAUUUUGGUUUCAUGUUCCCCUUUCGGCUGCUUUGGUUUUGUAAGGGCAUCCAA
..........((((((.(.((((((((((((...........)))))))..((((...((....))..))))......((..((.....))..)))))))....).))))))...... ( -22.80)
>DroSec_CAF1 3402 118 - 1
CCAAAACAUGGCCCUUCCUCCGAAUUUCAGAUCCAUGUCCUCUGUGAAAUCCCAGUCCUGUUUACAUUUCUGUUUCAUGUUCCCCUUUCGGAUGCUGGGAUUUUGUAAAGGCAUCCAA
.....((((((..((.............))..))))))(((.((..((((((((((..((...(((....)))..))...(((......))).))))))))))..)).)))....... ( -27.82)
>DroEre_CAF1 3647 99 - 1
CCAAAACAUGGCCCUUCCUCCAAAUUUCAGAUCCAUGUCCUCUGUGAAAUCCCUGUCCUGUUCA-------------------UUUUUUGGUUGCUGGGAUUUUGUAAGGGCAUCCAA
........(((........)))............(((((((.((..(((((((.((((......-------------------......))..)).)))))))..))))))))).... ( -23.30)
>DroYak_CAF1 1254 100 - 1
CCAAAACAUGGCCCUUCCUCCAAAUUUCAGUUCCAUGUCCUCUGUGAAAUCCCAGUCAUGUUCC------------------CCUUUUCGGUUGCUGCGAUUUGGUUAGGGCAUCCAA
..........(((((....(((((((.((((..((((....(((.(....).))).))))....------------------((.....))..)))).)))))))..)))))...... ( -26.40)
>consensus
CCAAAACAUGGCCCUUCCUCCAAAUUUCAGAUCCAUGUCCUCUGUGAAAUCCCAGUCCUGUUCA__________________CCCUUUCGGUUGCUGGGAUUUUGUAAGGGCAUCCAA
........(((........)))............(((((((.((..((((((((((.(((............................)))..))))))))))..))))))))).... (-15.74 = -16.74 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:50 2006