Locus 4884

Sequence ID 3R_DroMel_CAF1
Location 12,847,167 – 12,847,277
Length 110
Max. P 0.916166
window7995

overview

Window 5

Location 12,847,167 – 12,847,277
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.57
Mean single sequence MFE -22.79
Consensus MFE -10.94
Energy contribution -10.10
Covariance contribution -0.84
Combinations/Pair 1.43
Mean z-score -1.94
Structure conservation index 0.48
SVM decision value 1.11
SVM RNA-class probability 0.916166
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12847167 110 + 27905053
UAUGAUUUUAGUUGGCGGAAA-GAACACA--CAUUCUAUAAAGUUUA----UGUGGUAGCCACAACAUAGGCU--UUUAAGUAACAGUUAAAUCCAAAACCAAA-AGCCAAUAAAAAUCU
...((((((.(((((((((..-.(((...--....((..((((((((----(((.((....)).)))))))))--))..)).....)))...))).........-.)))))).)))))). ( -24.60)
>DroSec_CAF1 16525 100 + 1
UAUGAUUUAAGUUGGCGGAAA-GAACAUA--CAUUCUACAAAGUUUA----UGUGGUAGCCAAUGUUUUGGUU------------AUUUAAAGCUAAAAGCAAA-AGUCUAUAAAAAUCU
...(((((..((((((.....-..(((((--.(((......))).))----)))....)))))).((((((((------------......))))))))....)-))))........... ( -17.70)
>DroSim_CAF1 16705 97 + 1
UAUGAUUUAAGUUGGCGGAAA-GAACAUA--CAUUCUACAAAGUUUA----UGUGGUAGCCAAU---UCGGUU------------AUUUAAAGCCAAAACCAAA-AGUCAAUAAAAAUCU
...(((((..((((((((...-..(((((--.(((......))).))----))).....))...---..((((------------......)))).........-.))))))..))))). ( -19.00)
>DroEre_CAF1 16730 115 + 1
UACGUUUUUAGUUGGCAGAAAAAGACAGA--CAUUAUGCCAAGUUAAGUUUGGUGGUAGCUAAAGUUUUUGUUGCUUUGAUUAACAAUUAAAGCG---ACCAAAAAACCAAUAAAAAGCU
...((((((.(((((.....((((((...--.....(((((((.....))))))).........))))))(((((((((((.....)))))))))---)).......))))).)))))). ( -27.83)
>DroYak_CAF1 16744 115 + 1
UACGUUUUUAGUUGGUUGAGA-GCACAGGUCAAGUAUGUUAAGUUAAGUAUGGUGGUAGCUAAUGUUUCGGUUGUUUUAACUAACAAUUAAAGCG---ACCAAA-AAUCAAUAAAAAGCU
...((((((.((((((((...-.)...((((...................((((....))))..((((..((((((......))))))..)))))---)))...-))))))).)))))). ( -24.80)
>consensus
UAUGAUUUUAGUUGGCGGAAA_GAACAGA__CAUUCUACAAAGUUUA____UGUGGUAGCCAAUGUUUCGGUU__UUU_A_UAACAAUUAAAGCCAAAACCAAA_AGUCAAUAAAAAUCU
...((((((.((((((...................(((((...........))))).((((........)))).................................)))))).)))))). (-10.94 = -10.10 +  -0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:10 2006