Locus 3039

Sequence ID 3L_DroMel_CAF1
Location 8,727,286 – 8,727,376
Length 90
Max. P 0.733336
window4749

overview

Window 9

Location 8,727,286 – 8,727,376
Length 90
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 78.01
Mean single sequence MFE -20.86
Consensus MFE -12.33
Energy contribution -12.86
Covariance contribution 0.53
Combinations/Pair 1.07
Mean z-score -1.71
Structure conservation index 0.59
SVM decision value 0.43
SVM RNA-class probability 0.733336
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8727286 90 + 23771897
------UAUGCUGGA-ACUAAUAAUGAUACCCUCAUU---CAGGGUAUGUUUAAAACAUUUAUUUGUUUCUCGAUUGCAAUUUACGAAU---GCGAUCGCCGA
------...((.(((-((.(((((..(((((((....---.)))))))((.....))..))))).)))))..(((((((.........)---))))))))... ( -21.60)
>DroSec_CAF1 8338 91 + 1
------UAGGUUGGGGACUAAUAAUGAUACCCUCUUU---CAGGGUAUGUUAAAAACUUUUAUUUCUUUCUCGAUUGCAAUUUACAAAU---GCGAUCGCCGA
------..(((.(((((..(((((..(((((((....---.)))))))((.....))..)))))...)))))(((((((.........)---))))))))).. ( -22.10)
>DroSim_CAF1 8438 90 + 1
------UAGGUUGUGG-UUAGUCCCAAUACCCUCUUU---CAGGGUAUGUUAAAAACUUUUAUUUCUUUCUCGAUUGCAAUUUACAAAU---GCGAUCGCCGA
------..(((..(((-......)))(((((((....---.)))))))........................(((((((.........)---))))))))).. ( -20.00)
>DroEre_CAF1 10068 90 + 1
------UAUGUUUGA-ACUAACAGCGAUACCCUGUUU---CAGGGUAUGCUAAGAACUUUUAUUUGUUUCUCGAUUGCAAUUUACAAAU---GCGAUCGCCGA
------...(((...-...)))(((.((((((((...---)))))))))))..((((........))))..((((((((.........)---))))))).... ( -23.40)
>DroYak_CAF1 8294 90 + 1
------UAUGUUGGA-ACUAAUAAUGCUACCCUUCUU---UAGGGUAUGCCAAGAACUCUUAUUUGUUUCUCGAUUGCAAUUUACAAAU---GCGAUCGCCGA
------......(((-((.(((...((((((((....---.)))))).)).(((....)))))).))))).((((((((.........)---))))))).... ( -22.20)
>DroPer_CAF1 11364 102 + 1
ACCAAACAUUCUGUU-CAUAAUGCUGAUACCCUUUGCUGGGAGAGUGUUCUAAGAACUUUUAUUUAUUUCUCUAUUGCAAUUUACAAACGCAGCGAUCAUCGA
...............-.....(((((.......((((..((((((.((((...))))..........))))))...))))..........)))))........ ( -15.83)
>consensus
______UAUGUUGGA_ACUAAUAAUGAUACCCUCUUU___CAGGGUAUGCUAAAAACUUUUAUUUGUUUCUCGAUUGCAAUUUACAAAU___GCGAUCGCCGA
..........................(((((((........))))))).......................(((((((..............))))))).... (-12.33 = -12.86 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:09 2006