Locus 236

Sequence ID 3R_DroMel_CAF1
Location 932,901 – 932,994
Length 93
Max. P 0.837668
window424

overview

Window 4

Location 932,901 – 932,994
Length 93
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 80.19
Mean single sequence MFE -25.49
Consensus MFE -15.33
Energy contribution -15.85
Covariance contribution 0.52
Combinations/Pair 1.12
Mean z-score -2.07
Structure conservation index 0.60
SVM decision value 0.74
SVM RNA-class probability 0.837668
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 932901 93 + 27905053
AACUAGGCAAACACAAACAGGGGCUACGAAAGCCCAACUAAGUUGCCGAAGCUACCGAUACCCUGGAGUUUCUAAGGCAAAG-----ACAGCCUAUUU
...(((((............(((((.....))))).......(((((((((((.(((......)))))))))...)))))..-----...)))))... ( -30.20)
>DroSec_CAF1 21859 98 + 1
AACUAGGCAAACACAAACAGGGGCUACGAAAGGCCAACUAAGUUGCCGAAGCUACUGAUACCCUGGGGUUUCUAAGGCAAAGACUUGACAGCUUAUUU
.....(((((...........((((......)))).......))))).(((((...((.(((....))).))((((.......))))..))))).... ( -22.67)
>DroSim_CAF1 27856 98 + 1
AACUAGGCAAACACAAACAGGGGCUACAAAAGGCCAACUAAGUUGCCGAAGCUACUGAUACCCUGGGGUUUCUAAGGCAAAGACUUGACAGCCUAUUU
...(((((.............((((......))))...((((((......(((...((.(((....))).))...)))...))))))...)))))... ( -24.80)
>DroEre_CAF1 22726 81 + 1
AACUAGGCAAACACAAACAGCGGCUGGG-AAGGCCAACUAAGUUGCCAAAGCAACCGAUACCUUGGGGUUUUCUCGGCAAAG----------------
......................((((((-((((((.......((((....))))((((....))))))))))))))))....---------------- ( -24.00)
>DroYak_CAF1 41988 82 + 1
AACUAGGCAAACACAUGCAGGGGCUAGCAAAGGCCAACUAAGUUGCCGAAGUUACCCAUACCCUGGGGUUUUCUCGGCAAAG----------------
...((((((......)))...((((......))))..)))..(((((((.(..((((........))))..).)))))))..---------------- ( -25.80)
>consensus
AACUAGGCAAACACAAACAGGGGCUACGAAAGGCCAACUAAGUUGCCGAAGCUACCGAUACCCUGGGGUUUCUAAGGCAAAG_____ACAGC_UAUUU
.....(((((...........((((......)))).......)))))...(((...((.(((....))).))...))).................... (-15.33 = -15.85 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:26 2006