Locus 1668

Sequence ID 3R_DroMel_CAF1
Location 4,796,165 – 4,796,281
Length 116
Max. P 0.692725
window2753

overview

Window 3

Location 4,796,165 – 4,796,281
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 82.46
Mean single sequence MFE -23.24
Consensus MFE -16.40
Energy contribution -16.80
Covariance contribution 0.40
Combinations/Pair 1.10
Mean z-score -1.76
Structure conservation index 0.71
SVM decision value 0.33
SVM RNA-class probability 0.692725
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4796165 116 - 27905053
UAAAAUUACUGCCUCAAGCCGUGGAUCCCAUAA-AAACGGUGGUAAAGGAAGUACAUUUACAUAUCUUUGCUAAUGGGUAAUAAAUAAUAUAUAUGUAUAACCCAUAUGGGUUCAUA
......(((.((.....)).)))((.((((((.-......(((((((((..(((....)))...))))))))).(((((.(((.(((.....))).))).))))))))))).))... ( -27.30)
>DroSec_CAF1 31531 113 - 1
UAAAAUUACUGCCCCAAGCCGUGGACCCUAUAAAAAACGGUGGUAAAGGAAGUACAUUUACAUAUCUUUGCUAAUGGGUAAUACAUAAUAUAUA----UAACCCAUAUGGGUUCAUA
....................((((((((............(((((((((..(((....)))...)))))))))((((((.(((.........))----).))))))..)))))))). ( -26.70)
>DroSim_CAF1 27588 111 - 1
UAAAAUUACUGCCCCAAGCCGUGGAUCCUAUAAAAAACGGUGGUAAAGGAAGUACAUUUACAUAUCUUUGCUAAUGGGUAAUACAUAAUAUAUA----UAAACCA--UGGGUUCAUA
.........(((((...(((((..............)))))((((((((..(((....)))...))))))))...)))))............((----(.((((.--..)))).))) ( -19.84)
>DroEre_CAF1 32298 100 - 1
UAAAAUUAUUGCCCCAUGCCGUGGAUCCUAUAA-AAACGGUGGUAAAGGAAUUACAUUUACAUAUCUUUGCAGAUGGGCAAUAACAAGU--UUG----U----------UUUUCGUA
.....(((((((((...(((((...........-..))))).(((((((.((.........)).)))))))....))))))))).....--...----.----------........ ( -21.92)
>DroYak_CAF1 32717 102 - 1
UAAAAUUAUUGCCCCAAGCCGUGGAUCCUAUAA-AAACGGUGGUUAAGGAAUUACAUUUACAUAUCUUUGCUAAUGGGCAAUAACAAAUGUUUU----U----------CCUUUAUA
..........(((....(((((...........-..)))))))).((((((..((((((........(((((....)))))....))))))..)----)----------)))).... ( -20.42)
>consensus
UAAAAUUACUGCCCCAAGCCGUGGAUCCUAUAA_AAACGGUGGUAAAGGAAGUACAUUUACAUAUCUUUGCUAAUGGGUAAUAAAUAAUAUAUA____UAA_CCA__UGGGUUCAUA
.........(((((...(((((..............)))))((((((((..(((....)))...))))))))...)))))..................................... (-16.40 = -16.80 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:23 2006