Locus 45

Sequence ID 4_DroMel_CAF1
Location 413,449 – 413,563
Length 114
Max. P 0.561273
window70

overview

Window 0

Location 413,449 – 413,563
Length 114
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 75.37
Mean single sequence MFE -17.12
Consensus MFE -13.50
Energy contribution -12.75
Covariance contribution -0.75
Combinations/Pair 1.29
Mean z-score -1.21
Structure conservation index 0.79
SVM decision value 0.06
SVM RNA-class probability 0.561273
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 413449 114 - 1281640
UGCAUAUAGACAGUCACUGUAUUCUUCCAACAAAAAAAACCUCGUAAAGAGGUAAAAGCAACCGAAAUACGCACCAAACCACCAAUUAUACAAAUGGCAGCAAGAUAACAUUUC
(((((((((.......))))))....(((.........(((((.....)))))....((...........))......................)))..)))............ ( -14.30)
>DroSec_CAF1 30390 110 - 1
UGCAUGCAGACAGUCACUGUAUUUUUCCAACAAAA-AAACCUCGUAAAGAGGUAAAGGCAACCGAAAAACGCACCAAAUCACCAAUUAUUCAAAUGGAAGCAAGA---CAUUUC
(((((((((.......))))))..(((((......-..(((((.....)))))...(....)................................))))))))...---...... ( -19.60)
>DroEre_CAF1 38498 93 - 1
UGCAUACAGACCGUCACUGUAUUUGUCCAUCAAAA-GAACCUCGUG-AGAGGUAAAAGCAGUCGAAUAACGCAAUAAUUUACCAACUAUUC-------------------AUUU
(((((((((.......)))))).............-..(((((...-.)))))....)))...(((((..................)))))-------------------.... ( -18.17)
>DroYak_CAF1 41661 113 - 1
UGUAUACAGACAGUCACUGUAUUUGUCCAACAAAA-GAACCUCGUAAAGAGGUAAAAGCGUUCGAAUAACUCAGUAAUUCACCAACUAUUAUAAUGGCAAUAAAAUAAUAUUUC
...((((((.......))))))(((.(((......-..(((((.....)))))..........((((.((...)).))))..............)))))).............. ( -16.40)
>consensus
UGCAUACAGACAGUCACUGUAUUUGUCCAACAAAA_AAACCUCGUAAAGAGGUAAAAGCAACCGAAAAACGCACCAAAUCACCAACUAUUCAAAUGGCAGCAAGA___CAUUUC
(((((((((.......))))))................(((((.....)))))....)))...................................................... (-13.50 = -12.75 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:23 2006