Locus 8569

Sequence ID 3R_DroMel_CAF1
Location 22,893,713 – 22,893,814
Length 101
Max. P 0.954734
window13767

overview

Window 7

Location 22,893,713 – 22,893,814
Length 101
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 74.88
Mean single sequence MFE -22.09
Consensus MFE -13.64
Energy contribution -15.32
Covariance contribution 1.69
Combinations/Pair 1.09
Mean z-score -2.06
Structure conservation index 0.62
SVM decision value 1.45
SVM RNA-class probability 0.954734
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22893713 101 + 27905053
CGA--UUUUAGAAUUAUCAGCACUUUUAGUGCUACUCUUUAAAAUAUUUCUAUGUUAUAUAUAU--------AUGUAUAUGCAGUGAUAUAAAUAAGCCUUGAUAAUA-GCC
...--.......(((((((((((.....)))))..........(((((....(((.((((((..--------..)))))))))..)))))...........)))))).-... ( -16.40)
>DroSec_CAF1 10898 104 + 1
CGAGUCUUUAGACUUAUCAGCACUUUGAGUGCUACUCUCUAAAAUAUUUGUAGGGUAUAUACAU--------AUGUAUAUGCUGUGGCAUAUAUAAGCCUUGAUAAUAAACC
.(((((....)))))(((((..(((...(((((((...(((.........)))(((((((((..--------..))))))))))))))))....)))..)))))........ ( -26.10)
>DroSim_CAF1 11035 112 + 1
CAAGUCUUUAGACUUAUCAGCACUUUCAGUGCUACUCUCUAAAAUAUUUGUAGGGUAUAUACAUAUGUACAUAUGUAUAUCCAGUGGCAUAUAUAAGCCUUGAUAAUAAACC
.(((((....)))))(((((..(((...((((((((..(((.........)))((.((((((((((....))))))))))))))))))))....)))..)))))........ ( -28.90)
>DroEre_CAF1 40603 87 + 1
-----------ACUUAUCAGCACUUUGUGUGCUAUUCCUU-AAAUACUUGUAUGGCAUAAACA------------UAUACGCAGUGGGAUGAAAACGCCUUGAUAAUA-GUC
-----------..((((((((((.....))))((((((..-.......((((((.......))------------))))......)))))).........))))))..-... ( -16.96)
>consensus
CGA__CUUUAGACUUAUCAGCACUUUGAGUGCUACUCUCUAAAAUAUUUGUAGGGUAUAUACAU________AUGUAUAUGCAGUGGCAUAAAUAAGCCUUGAUAAUA_ACC
.............((((((((((.....))))).....................((((((((((((....))))))))))))...................)))))...... (-13.64 = -15.32 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:19 2006