Locus 8008

Sequence ID 3R_DroMel_CAF1
Location 21,472,788 – 21,472,906
Length 118
Max. P 0.506017
window12892

overview

Window 2

Location 21,472,788 – 21,472,906
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 89.07
Mean single sequence MFE -37.12
Consensus MFE -27.84
Energy contribution -29.36
Covariance contribution 1.52
Combinations/Pair 1.06
Mean z-score -1.50
Structure conservation index 0.75
SVM decision value -0.05
SVM RNA-class probability 0.506017
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21472788 118 - 27905053
AUGUAGUAGAGAUGCGACCGUGAGGCGAUUUCUUUCGCGCGAGACGCCCGACUUUGAACAUGCAGUCAACCCAGUUAGCACCACUCUAACUUCUGCUACGUUUGGGUUGUUUUAUUGU
((((...((((((.((.((....)))))))))).(((.(((...))).)))......))))(((((((((((((.(((((.............)))))...))))))))....))))) ( -32.52)
>DroSec_CAF1 79559 118 - 1
AUGUAGUAGAGAUGCGAGCGUGAGGCAAUUUCUUUCGCUCGUGACGGCCGACUUUGAACAUGCAGUCAAACCAGUUAGCACCACUCGGAUUUCUGCUACGUUUGGGUUGUUUUCUUGU
(((((((((((((.((((((.((((.....)))).)))))(((...((..(((((((........))))...)))..))..)))..).)))))))))))))................. ( -37.20)
>DroSim_CAF1 64698 118 - 1
AUGUAGUAGAGAUGCGAGCGUGAGGCAAUUUCUUUCGCUCGUGACGGCCGACUUUGAACAUGCAGUCAAACCAGUUAGCACCACUCGGAUUUCUGCUACGUUUGGGUUGUUUUCUUGU
(((((((((((((.((((((.((((.....)))).)))))(((...((..(((((((........))))...)))..))..)))..).)))))))))))))................. ( -37.20)
>DroEre_CAF1 80747 118 - 1
AUGUAGUAGAGAUGCGAGCAUGAGGCGAUUUCUUUCUCGCGUGACCGCCGACUUUGAAGAUGUACUCAAACAAGUUAGUAUCACUCGUAUUUCUGCUACGUUGUGGUUGUGUUAUUGA
(((((((((((((((((.......((((........))))((((..((..(((((((........)))...))))..)).)))))))))))))))))))))................. ( -36.50)
>DroYak_CAF1 71380 118 - 1
AUGUAGUAGAGAUGCGAGCGUGAGGCGAUUUCUUUCGCGCGUGACCGCCGACUUUGAACAUGUAGUCAAACCAGUUAGCAUCACUCGUGUUUCUGCUACGUUCGGUUGGUAUUAUUGG
(((((((((((((((((((((((((.(....)))))))))((((..((..(((((((........))))...)))..)).)))))))))))))))))))))................. ( -42.20)
>consensus
AUGUAGUAGAGAUGCGAGCGUGAGGCGAUUUCUUUCGCGCGUGACGGCCGACUUUGAACAUGCAGUCAAACCAGUUAGCACCACUCGGAUUUCUGCUACGUUUGGGUUGUUUUAUUGU
(((((((((((((.(((((((((((.......))))))))(((...((..(((((((........))))...)))..))..)))))).)))))))))))))................. (-27.84 = -29.36 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:15 2006