Locus 4471

Sequence ID 3R_DroMel_CAF1
Location 11,819,124 – 11,819,244
Length 120
Max. P 0.557104
window7312

overview

Window 2

Location 11,819,124 – 11,819,244
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -20.63
Consensus MFE -20.42
Energy contribution -20.75
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.99
SVM decision value 0.05
SVM RNA-class probability 0.557104
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11819124 120 - 27905053
CGUCUCGUGUACAGCUUUAAAUAUUUCGAAAUAUUCGAUGCGAGCUCCACGCUCCCGCACUCGCCUACUCACUCUUUCUCUUUUUGUGGAUCCCUCUCUUUGGCUCCUCUCUUCCUUCGC
......((((...((.(..((((((....))))))..).))((((.....))))..))))..(((..........(((.(.....).)))...........)))................ ( -18.30)
>DroSec_CAF1 23386 120 - 1
CGUCUCGUGUACAGCUUUUAAUAUUUCGAAAUAUUCGAUGCGAGCUCCACGCUCUCGCACUCGCCCACUCCUUCUUUCUCUUUUUGGGGAUCCCUCUCUUUGGCUCCUCUCUUCCUUCGC
......((((...((.((.((((((....)))))).)).))((((.....))))..))))..(((...........(((((....)))))...........)))................ ( -21.35)
>DroSim_CAF1 24407 120 - 1
CGUCUCGUGUACAGCUUUAAAUAUUUCGAAAUAUUCGAUGCGAGCUCCACGCUCUCGCACUCGCCCACUCACUCUUUCUCUUUUUGGGGAUCCCUCUCUUUGGCUCCUCUCUUCCUUCGC
......((((...((.(..((((((....))))))..).))((((.....))))..))))..(((...........(((((....)))))...........)))................ ( -22.25)
>consensus
CGUCUCGUGUACAGCUUUAAAUAUUUCGAAAUAUUCGAUGCGAGCUCCACGCUCUCGCACUCGCCCACUCACUCUUUCUCUUUUUGGGGAUCCCUCUCUUUGGCUCCUCUCUUCCUUCGC
......((((...((.(..((((((....))))))..).))((((.....))))..))))..(((...........(((((....)))))...........)))................ (-20.42 = -20.75 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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