Locus 5219

Sequence ID 2R_DroMel_CAF1
Location 16,979,094 – 16,979,194
Length 100
Max. P 0.563195
window8336

overview

Window 6

Location 16,979,094 – 16,979,194
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 88.32
Mean single sequence MFE -27.82
Consensus MFE -18.00
Energy contribution -19.75
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -2.06
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.563195
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16979094 100 + 20766785
GACGAUACCCAAAUGCCAACACCACUUGAUAUUUGCAUACGUGACCCAAUCGAUGAAAAUCGUGGGGCAAGAGGAGAGGCAAACGGAAGGGGCACAGAGA
.......(((...((((....((.((((....(..(....)..)((((..((((....)))))))).)))).))...))))..(....))))........ ( -27.80)
>DroSec_CAF1 75836 91 + 1
GACGAUACCCAAAUGCCAAC-------GCCAUUUGCAUACGUGACCCAAUCGAUGAAAAUCGAGGGUGGAGAGGAGAGGCAAACGGAAGGGGC--AGAGA
.............((((...-------.((.(((((...(.(.((((..(((((....))))))))).)...).....))))).))....)))--).... ( -28.00)
>DroSim_CAF1 81007 98 + 1
GACGAUACCCAAAUGCCAACACCACUUGCCAUUUGCAUACGUGACCCAAUCGAUGAAAAUCGAGGGUGGAGAGGAGAGGCAAACGGAAGGGGC--AGAGA
.............((((....((..(((((.(((.(.....(.((((..(((((....))))))))).)...).))))))))..))....)))--).... ( -28.80)
>DroYak_CAF1 84048 93 + 1
GACGACACCCAAAUGCCAAC---ACUUGCCAUUUGCAUACGUGACCCAAUCGAUGAAAAUCG-GGGGGGAAAUGA-AGCCAAACGGAAGGGGC--ACAGA
.........((((((.((..---...)).))))))....(((..(((..(((((....))))-)..)))..))).-.(((...(....).)))--..... ( -26.70)
>consensus
GACGAUACCCAAAUGCCAAC___ACUUGCCAUUUGCAUACGUGACCCAAUCGAUGAAAAUCGAGGGGGGAGAGGAGAGGCAAACGGAAGGGGC__AGAGA
.......(((...((((...............(..(....)..)(((...((((....)))).)))...........))))..(....))))........ (-18.00 = -19.75 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:23 2006