Locus 6709

Sequence ID 3R_DroMel_CAF1
Location 17,642,236 – 17,642,349
Length 113
Max. P 0.521084
window10903

overview

Window 3

Location 17,642,236 – 17,642,349
Length 113
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 82.56
Mean single sequence MFE -23.38
Consensus MFE -16.05
Energy contribution -16.55
Covariance contribution 0.50
Combinations/Pair 1.06
Mean z-score -1.53
Structure conservation index 0.69
SVM decision value -0.02
SVM RNA-class probability 0.521084
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17642236 113 - 27905053
UGCUGUAGAGAAUGUUUUAUUAUGAACUUAUGUCUGCAGAAGGAAUUUUAAGAUUGUUAUUUUGAAAUACAUAUUUUUUUAAGUGUACACACAUAUAGCAGCUAAUGCAACCA
..(((((((.(..((((......))))...).)))))))..((.((((((((((....))))))))))..............(((....))).....(((.....)))..)). ( -23.40)
>DroSec_CAF1 37048 112 - 1
UGCUGUAGAGAAUGUUUUAUUAUGAACUUGUGUCUGCACAAGGAAUUGUCUGAUUGUUAUUUUGAAAUAUAUA-UUUUUUAAGUGUAAGCACAUAUAGCAGCUAAUGCAACCA
(((((((....((((((((..((((.((((((....)))))).((((....)))).))))..))))))))...-........(((....))).)))))))((....))..... ( -25.50)
>DroSim_CAF1 36874 108 - 1
UGCUGUAGAGAAUGUUUUAUUAUGAACUUGUGUCUGCACAAGG---UUUGUGAUUGUUAAUUUGAUAUAUAU--UUUUUUAAGUGUAAGCACAUAUAGCAGCUAAUGCAACCA
(((((((..((((.....((((..((((((((....))))).)---))..)))).....)))).........--........(((....))).)))))))((....))..... ( -25.00)
>DroYak_CAF1 42235 101 - 1
UGCUCUAGAGAAAGUUUUAGUAUGAACUUAUGCGUAAAUAAGA--------AACUGUUGGUUUACCAUAU----UUGUUUAAGUGUAAGCACAUAUAGCAGCUAAUGCAACCA
((((((((((....))))))((((..(((((((.((((((((.--------......(((....)))..)----))))))).)))))))..)))).))))((....))..... ( -19.60)
>consensus
UGCUGUAGAGAAUGUUUUAUUAUGAACUUAUGUCUGCACAAGG___UUU_UGAUUGUUAUUUUGAAAUAUAU__UUUUUUAAGUGUAAGCACAUAUAGCAGCUAAUGCAACCA
(((((((...................((((((....))))))........................................(((....))).)))))))((....))..... (-16.05 = -16.55 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:06 2006