Locus 3034

Sequence ID 2R_DroMel_CAF1
Location 10,467,455 – 10,467,545
Length 90
Max. P 0.800376
window4998

overview

Window 8

Location 10,467,455 – 10,467,545
Length 90
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.05
Mean single sequence MFE -21.95
Consensus MFE -12.93
Energy contribution -13.38
Covariance contribution 0.45
Combinations/Pair 1.32
Mean z-score -1.94
Structure conservation index 0.59
SVM decision value 0.61
SVM RNA-class probability 0.800376
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10467455 90 + 20766785
GAUUAUGUUCGAAAUCGGAAUGGGAUGAGAACAGAAUGGAUUACCAGGUCAG--UGAUAGGGGUUUA-AGCCAGAAU-UUUGGUUCGAACUCAG
.(((((((((...(((.......)))..)))).((.(((....)))..)).)--))))..(((((..-((((((...-.))))))..))))).. ( -22.90)
>DroSec_CAF1 71151 90 + 1
GAUUAUGUUCGAAAUCGGAAUGGGAUGAGAACAGAAUGGAUAACCAGGUCAG--UGAUAGGGGUUUA-AGCCAGAAU-UUUGGUUUGAACUCAG
.(((((((((...(((.......)))..)))).((.(((....)))..)).)--))))..(((((((-((((((...-.))))))))))))).. ( -25.60)
>DroSim_CAF1 71428 90 + 1
GAUUAUGUUCGAAAUCGGAAUGGGAUGAGAACAGAAUGGAUAACCAGGUCAG--UGAUAGGGGUUUA-AGCCAGAAU-UUUGGUUUGAACUCAG
.(((((((((...(((.......)))..)))).((.(((....)))..)).)--))))..(((((((-((((((...-.))))))))))))).. ( -25.60)
>DroEre_CAF1 68946 90 + 1
GAUUAUGUUCGAAAUCGGAAUGGGAUGAGAACAGAAUGGAUAACCAGGUCAG--UGAUAUGGGCUUU-AGCCAGAAU-UUUGGUUUGAACUCAG
......((((.((((((((((.((..(((..((..((.(((......))).)--)....))..))).-..))...))-)))))))))))).... ( -20.30)
>DroYak_CAF1 72232 91 + 1
GAUUAUGUUCGAAAUCGGAAUGGGAUGAGAACAGAAUGCAUAACCAGGUCAG--UGAUCGGGGUUUUAAGCCAGAAU-UUUGGUUCGAACUCAG
......(((((((.(((((((.((...(((((.(....)....((.((((..--.)))).)))))))...))...))-)))))))))))).... ( -22.30)
>DroAna_CAF1 75430 74 + 1
GAGGAGGUGG-----------GGG--------AGGAUAAAGAAUCGGGUCAGAAUAAAAGGAGUUCU-UCAAAGGAUCUCUUGGCCAAACUCUG
..........-----------.((--------(((((.....))).(((((........((((.(((-.....))).)))))))))...)))). ( -15.00)
>consensus
GAUUAUGUUCGAAAUCGGAAUGGGAUGAGAACAGAAUGGAUAACCAGGUCAG__UGAUAGGGGUUUA_AGCCAGAAU_UUUGGUUCGAACUCAG
.....(((((...(((.......)))..)))))((.(((....)))..))..........((((((...((((((...))))))..)))))).. (-12.93 = -13.38 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:39 2006