Locus 4674

Sequence ID X_DroMel_CAF1
Location 12,193,689 – 12,193,806
Length 117
Max. P 0.939256
window7668

overview

Window 8

Location 12,193,689 – 12,193,806
Length 117
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 79.86
Mean single sequence MFE -38.82
Consensus MFE -19.92
Energy contribution -21.48
Covariance contribution 1.56
Combinations/Pair 1.18
Mean z-score -2.47
Structure conservation index 0.51
SVM decision value 1.28
SVM RNA-class probability 0.939256
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12193689 117 + 22224390
UUUUCCAGCUUGAGGUUAAGUUGACGACGGCAGGC--AAAGGCAAAGGCAAUGGCAAUGGCAAAGGCAGCUAAUGCCCGUCUGCCGGCAUAUGUUUUGGCCAAAUGCUGUCAUAAAUUU
.....(((((((....)))))))..((((((((((--.((((((...((...((((..(((...((((.....)))).))))))).))...)))))).)))...)))))))........ ( -40.70)
>DroSec_CAF1 20062 117 + 1
UUUUCCAGCUUGAGGUUAAGUUGACGACGGCGGCG--GCAGGCAAAGGCAAUGGUAAUGGCAAAGGCAGCUAAUGCCCGUCUGCCGGCAUAUGUUUUGGCCAAAUGCUGUCAUAAAUUU
.....(((((((....)))))))..(((((((..(--((((((...((((.((((....((....)).)))).)))).)))))))(((..........)))...)))))))........ ( -43.00)
>DroSim_CAF1 21262 111 + 1
UUUUCCAGCUUGAGGUUAAGUUGACGACGGCGGCG--GCAGGCAAAGGCAA------UGGCAAAGGCAGCUAAUGCCCGUCUGCCGGCAUAUGUUUUGGCCAAAUGCUGUCAUAAAUUU
.....(((((((....)))))))..(((((((..(--((((((...((((.------((((.......)))).)))).)))))))(((..........)))...)))))))........ ( -43.20)
>DroEre_CAF1 19514 89 + 1
UUCUCCAGCUU-----------------------------GGCCAAGGCAGAGGCAAUGG-AAAGGCAGCUAAUGCCCGUCUGCCGGCAUAUGUUUUGGCCAAAUGCUGUCAUAAAUUU
.....((((((-----------------------------((((((((((...((..(((-(..((((.....))))..))))...))...))))))))))))..)))).......... ( -35.70)
>DroYak_CAF1 4586 113 + 1
UUUUCCAGCUGGAGGUUAAGUCGACGACAAAGACGAGGACGACGAAGGCGAAGGCGAUG------GCAGCUAAUGCCCGUCUGCCGGCAUAUGUUUUGGCCAAAUGCUGUCAUAAAUUU
..((((....))))(((..(((.........)))...)))(((...(((..(((((..(------(((.....))))))))))))(((((.((.......)).))))))))........ ( -31.50)
>consensus
UUUUCCAGCUUGAGGUUAAGUUGACGACGGCGGCG__GAAGGCAAAGGCAAAGGCAAUGGCAAAGGCAGCUAAUGCCCGUCUGCCGGCAUAUGUUUUGGCCAAAUGCUGUCAUAAAUUU
.....((((..........((((.......))))......(((.((((((...((..(((((..((((.....))))....)))))))...)))))).)))....)))).......... (-19.92 = -21.48 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:39 2006