Locus 4940

Sequence ID 3L_DroMel_CAF1
Location 13,697,883 – 13,697,975
Length 92
Max. P 0.791639
window7801

overview

Window 1

Location 13,697,883 – 13,697,975
Length 92
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 92.31
Mean single sequence MFE -27.60
Consensus MFE -24.64
Energy contribution -25.14
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.89
SVM decision value 0.59
SVM RNA-class probability 0.791639
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13697883 92 + 23771897
UUCGCACCCACA-----------UCCGUGCCACAUUCCUGCUCCUCCGACUCCUUGUGGCGCUAUCAAAGCGUCAGCAUCGACAAACUGCCGCACGACGGAGG
...((((.....-----------...))))............((((((..((..(((((((((.....)))(((......))).....)))))).)))))))) ( -28.70)
>DroSec_CAF1 105260 92 + 1
UUCGCACCCACA-----------UCCGUGCCACAUUCCUACCCCUCCGACUCCUUGUGGCGCUAUCAAAGCGUCAGCAUCGACAAACUGCCGCACGACGGAGG
...((((.....-----------...))))............((((((..((..(((((((((.....)))(((......))).....)))))).)))))))) ( -28.90)
>DroEre_CAF1 111334 103 + 1
UUCGCACCCACAUCCGCGCCACAUCCGUGCCACAUUCCUGCUCCUGCGACUCCUUGUGGCGCUAUCAAAGCGUCAGCAUCGACAAACUGCCGCACGACAGAGG
.......((......((((.......)))).......(((.((.((((........(((((((.....)))))))(((.........))))))).))))).)) ( -24.10)
>DroYak_CAF1 114508 92 + 1
UUCGCACCCACA-----------UCCGUGCCACAUUCCUGCUCCUCCGACUCCUUGUGGCGCUAUCAAAGCGUCAGCAUCGACAAACUGCCGCACGACGGAGG
...((((.....-----------...))))............((((((..((..(((((((((.....)))(((......))).....)))))).)))))))) ( -28.70)
>consensus
UUCGCACCCACA___________UCCGUGCCACAUUCCUGCUCCUCCGACUCCUUGUGGCGCUAUCAAAGCGUCAGCAUCGACAAACUGCCGCACGACGGAGG
...((((...................))))............((((((..((..(((((((((.....)))(((......))).....)))))).)))))))) (-24.64 = -25.14 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:32 2006