Locus 4378

Sequence ID 3L_DroMel_CAF1
Location 12,852,168 – 12,852,275
Length 107
Max. P 0.891743
window6776

overview

Window 6

Location 12,852,168 – 12,852,275
Length 107
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 88.88
Mean single sequence MFE -30.92
Consensus MFE -24.82
Energy contribution -25.26
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -1.87
Structure conservation index 0.80
SVM decision value 0.97
SVM RNA-class probability 0.891743
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12852168 107 + 23771897
CUUUUUUUUUUUU-UUUGGCUUAUAAUUGAGCCGGCGGCUUGCUUUUGAGCCCG----CCCAAGAUGUGUGAGGCUGUGGAAUCGGAAAAAUGUCACGCAACUUUAAUUAUU
.............-...((((((....))))))((((((((......))).)))----)).(((.(((((((.((((......))).....).))))))).)))........ ( -30.10)
>DroSec_CAF1 90565 107 + 1
UUUCAUUUUUUUU-UUUGGCUUGUAAUUCAGCCGGCGGCUUGUUAUUGAGCCCG----CCAAAGAUGUGUGAGGCUGCGAAAUCGGAAAAAUGUCACGCAGCUUUAAUUAUU
...(((((((...-...((((........))))((((((((......))).)))----)))))))))..((((((((((....((......))...))))))))))...... ( -34.40)
>DroSim_CAF1 91203 108 + 1
UUUCAUUUUUUUUUUCUGGCUUGUAAUUGAGCCGGCGGCUUGCUAUUGAGCCCG----CCCAAGAUGUGUGAGGCUGCGAAAUCGGAAAAAUGUCACGCAGCUUUAAUUAUU
...((((((........(((((......)))))((((((((......))).)))----)).))))))..((((((((((....((......))...))))))))))...... ( -34.70)
>DroEre_CAF1 95631 101 + 1
------UUUUUUU-UCUGGCUUGUAAUUGAGCCGGCGGCUUGCUAUUGAACCCG----GCCAAGAUGUGUGAGGCUGCGAAAUCGGAAAAAUGUCACGCAGCUUUAAUUAUU
------.......-.(((((((......))))))).((((.............)----)))..((((..((((((((((....((......))...))))))))))..)))) ( -27.82)
>DroYak_CAF1 101654 109 + 1
UUU--UUUUUUUU-UUUGGCUUGUAAUUGAGCCGGCGGCCUACUAUUGAACCCAAGAUGCCGAGAUGUGUGAGGCUGCGAAAUCGGAAAAAUGUCACGCAGCUUUAAUUAUU
...--........-.(((((((......)))))))((((......(((....)))...)))).((((..((((((((((....((......))...))))))))))..)))) ( -27.60)
>consensus
UUU__UUUUUUUU_UUUGGCUUGUAAUUGAGCCGGCGGCUUGCUAUUGAGCCCG____CCCAAGAUGUGUGAGGCUGCGAAAUCGGAAAAAUGUCACGCAGCUUUAAUUAUU
...............((((((((....)))))))).(((((......)))))...........((((..((((((((((....((......))...))))))))))..)))) (-24.82 = -25.26 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:58 2006