Locus 1542

Sequence ID 3R_DroMel_CAF1
Location 4,415,258 – 4,415,349
Length 91
Max. P 0.545188
window2552

overview

Window 2

Location 4,415,258 – 4,415,349
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 82.66
Mean single sequence MFE -30.43
Consensus MFE -17.91
Energy contribution -18.17
Covariance contribution 0.25
Combinations/Pair 1.21
Mean z-score -2.22
Structure conservation index 0.59
SVM decision value 0.02
SVM RNA-class probability 0.545188
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4415258 91 - 27905053
CCACUGUUGUUGGCCAAGUUGUAGUUGGUGUUGCUGUUGCUGUUACCCCUGUCACUGCAGCCGGCUAAUGACAGCCAAACGGCCACUUCAA
....(((..((((((..((((((((.((((..((....))...))))......)))))))).))))))..)))(((....)))........ ( -31.50)
>DroSec_CAF1 16279 85 - 1
CCGCUGUUGUUGGCCAAGUUGUAGU------UGCUGUUGCUGUUACCUCUGUCACUGCAGCCGGCUAAUGACAGCCAAACGGCCACUUCAA
..(((((..((((((..((((((((------.((.(..(......)..).)).)))))))).))))))..)))))................ ( -30.70)
>DroSim_CAF1 17975 85 - 1
CCGCUGUUGUUGGCCAAGUUGUAGU------UGCUGUUGCUGUUACCUCUGUCACUGCAGCCGGCUAAUGACAGCCAAACGGCCACUUCAA
..(((((..((((((..((((((((------.((.(..(......)..).)).)))))))).))))))..)))))................ ( -30.70)
>DroEre_CAF1 16044 88 - 1
CCGCUG---UUGGCCAAUUUGUAGUUGCUGUUGCGGCUGCUGUUAGCUCUGUCACUGCAGCCAGCUAAUGACGGCCAAACGGCCACUUGAA
..((((---((((((.....((((((((....)))))))).(((((((((((....))))..)))))))...)))).))))))........ ( -37.20)
>DroYak_CAF1 16494 88 - 1
CCGCUG---UUGGCCAAGUUGUAGUUGCUGUUGCUGCUGCUGUUAACUCUGUCACUGCAGCCAGCUAAUGACAGCCAAACGGCCACUUGAA
......---.(((((.....(((((.((....)).))))).(((....((((((..((.....))...))))))...))))))))...... ( -27.00)
>DroPer_CAF1 24692 79 - 1
---------UUGUCCGAGCCGUUGUCGA---AGGUGUUGUUGGUCCCUCUGUUACUGCAGCCGGCUAAUGACAGCCAAACGGCCACUUCAG
---------......(.((((((.....---.(((((..((((((...((((....))))..))))))..))).)).)))))))....... ( -25.50)
>consensus
CCGCUG___UUGGCCAAGUUGUAGUUG____UGCUGUUGCUGUUACCUCUGUCACUGCAGCCGGCUAAUGACAGCCAAACGGCCACUUCAA
..........(((((.(((.(((((.......))))).)))(((....((((((..((.....))...))))))...))))))))...... (-17.91 = -18.17 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:08 2006