Locus 2578

Sequence ID 3R_DroMel_CAF1
Location 6,968,334 – 6,968,427
Length 93
Max. P 0.681731
window4204

overview

Window 4

Location 6,968,334 – 6,968,427
Length 93
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 85.66
Mean single sequence MFE -26.48
Consensus MFE -16.74
Energy contribution -16.62
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -2.28
Structure conservation index 0.63
SVM decision value 0.31
SVM RNA-class probability 0.681731
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6968334 93 - 27905053
UUUGGUUUUUCUUCUAUUUUCAUGUGGCAUUUGUGGCUGUUUACCUCGCCAGCGGCCAAAAUGCAAUUUAUGUG-------------UUGAGAGC--GAGUUUCAUUU
..(((..(((.((((.....((((..((((((.((((((((.........))))))))))))))....))))..-------------...)))).--)))..)))... ( -24.10)
>DroSec_CAF1 6260 93 - 1
UUUGGUUUUUCUUCUAUUUUCAUGUGGCAUUUGUGGCUGUUUACCUCGCCAGCGGCCAAAAUGCAAUUUAUGUG-------------UUGAGAGC--GAGAUUCAUUU
....(..((((((((.....((((..((((((.((((((((.........))))))))))))))....))))..-------------...)))).--))))..).... ( -24.90)
>DroSim_CAF1 8088 93 - 1
UUUGGUUUUUCUUCUAUUUUCAUGUGGCAUUUGUGGCUGUUUACCUCGCCAGCGGCCAAAAUGCAAUUUAUGUG-------------UUGAGAGC--GAGUUUCAUUU
..(((..(((.((((.....((((..((((((.((((((((.........))))))))))))))....))))..-------------...)))).--)))..)))... ( -24.10)
>DroEre_CAF1 8017 93 - 1
UGUGGUUUUUCUUCUAUUUUCAUGUGGCAUUUGUGGCUGUUUACCUCGCCAGCGGCCAAAAUGCAAUUUAUGUG-------------UUGAGAGC--GAGUUUCAUUU
.((((..(((.((((.....((((..((((((.((((((((.........))))))))))))))....))))..-------------...)))).--)))..)))).. ( -25.00)
>DroMoj_CAF1 4661 105 - 1
CGAGAUUCUUCUCUCAUUU---UGUGGCAUUUGCGGCUGUUUACCUCGCCAGCGGCCAAAAUGCAAUUUAUGUGCGUUGGCCAAGUGUUGAGAGUUUGGAUUUUUGCU
(((((.(((.((((((...---..((((......(((((((.........)))))))..((((((.......)))))).)))).....))))))...))).))))).. ( -34.30)
>consensus
UUUGGUUUUUCUUCUAUUUUCAUGUGGCAUUUGUGGCUGUUUACCUCGCCAGCGGCCAAAAUGCAAUUUAUGUG_____________UUGAGAGC__GAGUUUCAUUU
........(((((.(((......)))((((((.((((((((.........)))))))))))))).........................))))).............. (-16.74 = -16.62 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:44 2006