Locus 1280

Sequence ID 3L_DroMel_CAF1
Location 3,702,802 – 3,702,896
Length 94
Max. P 0.520878
window1998

overview

Window 8

Location 3,702,802 – 3,702,896
Length 94
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 84.78
Mean single sequence MFE -25.49
Consensus MFE -16.86
Energy contribution -17.61
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.66
SVM decision value -0.02
SVM RNA-class probability 0.520878
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3702802 94 - 23771897
AAAAUCUUUUUAUUAUUCGCUACUAUUUCGCGUGCCACUGUAGCUGUAGCCAGUG---GAUGAUAGAGAAAGACCUAGUGCUGUGUGAACGUGGAUG
...((((.(((((....(((((((.((((.(((.((((((..((....)))))))---))))...)))).))...)))))....)))))...)))). ( -22.70)
>DroSec_CAF1 98080 88 - 1
AAAGUCUUUAUAUUACGCGCUACUAUUUCGCGUGCCACUGU------AGCCAGUG---GAUGAUAGAGAAAUAACUGGUGCUGUGUGCACGUGGAUG
..........................((((((((((((.((------(.(((((.---...............)))))))).))).))))))))).. ( -26.49)
>DroSim_CAF1 93735 88 - 1
AAAAUUCUUAUAAUAUUCGCUACUAUUUCGCGUGCCACUGU------AGCCAGUG---GAUGAUAGAGAAAUAACUGGUGCUGUGUGCACGUGGAUG
..........................((((((((((((.((------(.(((((.---...............)))))))).))).))))))))).. ( -26.49)
>DroYak_CAF1 80838 96 - 1
AAAAUGUGUAUAUUACACGUUAAUAUUUCGCGUGCCACUGUAGAUG-AGCCAGAGCAAGAUGAUAGAGAAAGACCUAGUGCUGUGUGCACGUGGAUG
..((((((((...)))))))).....((((((((((((.(((....-.((....)).......(((........))).))).))).))))))))).. ( -26.30)
>consensus
AAAAUCUUUAUAUUACUCGCUACUAUUUCGCGUGCCACUGU______AGCCAGUG___GAUGAUAGAGAAAGAACUAGUGCUGUGUGCACGUGGAUG
..........................((((((((((((.((.......(((((.....................))))))).))).))))))))).. (-16.86 = -17.61 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:41 2006