Locus 5556

Sequence ID 2L_DroMel_CAF1
Location 15,822,175 – 15,822,273
Length 98
Max. P 0.517618
window8814

overview

Window 4

Location 15,822,175 – 15,822,273
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 95.29
Mean single sequence MFE -24.16
Consensus MFE -20.86
Energy contribution -22.10
Covariance contribution 1.24
Combinations/Pair 1.04
Mean z-score -1.23
Structure conservation index 0.86
SVM decision value -0.03
SVM RNA-class probability 0.517618
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15822175 98 + 22407834
GGCGGCAGUGGAAAAGCAUCCAAAACAGCUUUGCAAAGGCAAAAAGGAGCGACUGGAGAAGUUUUCCAACUGUGGCUGAUUCUCUCACAAAUACACUC
(((.(((((((((((...((((.....(((((((....))).....))))...))))....)))))).))))).)))..................... ( -27.30)
>DroSec_CAF1 16755 98 + 1
GGCGGCAGUGGAAAAGCAACCAAAACAGCUUUGCAAAAGCAAAAAGGAGCGACUGGAGAAGUUUUCCAACUGUGGCUGAUUCUCUCACAAAUACACUC
(((.(((((((((((....(((.....(((((((....))).....))))...))).....)))))).))))).)))..................... ( -24.40)
>DroSim_CAF1 17007 98 + 1
GGCGGCAGUGGAAAAGCAACCAAAACAGCUUUGCAAAAGCAAAAAGGAGCGACUGGAGAAGUUUUCCAACUGUGGCUGAUUCUCUCACAAAUACACUC
(((.(((((((((((....(((.....(((((((....))).....))))...))).....)))))).))))).)))..................... ( -24.40)
>DroEre_CAF1 16527 94 + 1
GG---CAGUGGA-AAGCAUCCAAAACAGCUUUGCAAAGGCAAAAGGGAGCGACUGGAGAAGUUUUCCAACUGUGGCUGAUUCUCUCACAAAUACACUC
.(---(((((((-((((.((((.....(((((((....))).....))))...))))...))))))).)))))......................... ( -24.10)
>DroYak_CAF1 43806 95 + 1
GG---CAGUGGAAAAGCAUCCACAACAGCUUUGCAAAGGUAAAAAGGAGCGACUGGAGAAGUUUUCCAACUGUGGCUGAUUCUCUCACAAAUACACUC
((---(.(((((......))))).((((.(((((....)))))..((((.((((.....))))))))..)))).)))..................... ( -20.60)
>consensus
GGCGGCAGUGGAAAAGCAUCCAAAACAGCUUUGCAAAGGCAAAAAGGAGCGACUGGAGAAGUUUUCCAACUGUGGCUGAUUCUCUCACAAAUACACUC
(((.(((((((((((...((((.....(((((((....))).....))))...))))....)))))).))))).)))..................... (-20.86 = -22.10 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:03 2006