Locus 6379

Sequence ID 3R_DroMel_CAF1
Location 16,743,693 – 16,743,783
Length 90
Max. P 0.952211
window10395

overview

Window 5

Location 16,743,693 – 16,743,783
Length 90
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 77.81
Mean single sequence MFE -18.28
Consensus MFE -8.27
Energy contribution -8.43
Covariance contribution 0.16
Combinations/Pair 1.25
Mean z-score -2.37
Structure conservation index 0.45
SVM decision value 1.42
SVM RNA-class probability 0.952211
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16743693 90 + 27905053
AAUCCCGGUAGCACGUGCUGUAUUACCAGCACUCCCC-GAAACCCGUAACCCGAAAUACGAAAUGCGAAACCCAAGCCCAAUCGCAAUCCC------
......(((.(((.((((((......)))))).....-......((((........))))...)))...)))...((......))......------ ( -17.30)
>DroSec_CAF1 46130 89 + 1
AAUACCGGUGGCACGUGCUG-AUUACCAGCACUCCCC-AAAACCCGUCACCCGAAAUCCGAAAUGCGAAACCCAAGCCCAAUCGCAAUCCC------
....(.((((((..((((((-.....)))))).....-.......)))))).)..........(((((.............))))).....------ ( -19.16)
>DroSim_CAF1 39472 89 + 1
AAUCCCGGUGGCACGUGCUG-AUUACCAGCACUCCCC-AAAACCCGUCACCCGAAAUCCGAAAUGCGAAACCCAAGCCCAAUCGCAAUCCC------
......((((((..((((((-.....)))))).....-.......))))))............(((((.............))))).....------ ( -19.06)
>DroEre_CAF1 38110 88 + 1
AAUCCCGGUGGCACGUGCC--AUUACCAGCGCUCCCAGCAAACCCGUAACCAGAAAU-------GCGAAACCCAAUCCCAAUCGCCAUCCCCAUCCC
......((((((..((((.--.......))))............((((........)-------)))................))))))........ ( -16.40)
>DroYak_CAF1 21749 69 + 1
AAUCCCGGUGGCACGUGCUG-AUUACCAGCACUCCCC-AAAACCCGUAACCCAAUGU-------ACGAAACGCACACC-------------------
......((((((..((((((-.....)))))).....-......((((........)-------)))....)).))))------------------- ( -19.50)
>consensus
AAUCCCGGUGGCACGUGCUG_AUUACCAGCACUCCCC_AAAACCCGUAACCCGAAAU_CGAAAUGCGAAACCCAAGCCCAAUCGCAAUCCC______
......(((.....((((((......))))))............(((.................)))........)))................... ( -8.27 =  -8.43 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:59 2006