Locus 7840

Sequence ID X_DroMel_CAF1
Location 19,532,770 – 19,532,860
Length 90
Max. P 0.550017
window12855

overview

Window 5

Location 19,532,770 – 19,532,860
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 82.68
Mean single sequence MFE -25.42
Consensus MFE -17.75
Energy contribution -18.12
Covariance contribution 0.38
Combinations/Pair 1.10
Mean z-score -1.55
Structure conservation index 0.70
SVM decision value 0.03
SVM RNA-class probability 0.550017
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19532770 90 - 22224390
AGAGCUCUGGAGGCUGGAGCACGGACACUACUGACACAGAUACGCGGACGCGCGUAAGUGGAGACACAGACGGUGUGUGAGACAAAAAGA
...((((..(...)..)))).(..((((.((((.......((((((....)))))).(((....)))...))))))))..)......... ( -31.10)
>DroSec_CAF1 851 89 - 1
GGAGCUCC-AAGGCUGGAGCACGGACACUACUGAAACAGAUACGCGGACGCACGUAAGGGGAGACACAGACGGUGUGUGAGAUGGAGAGA
...(((((-(....)))))).((.(((((.(((.......((((.(....).))))...(....).)))..))))).))........... ( -24.50)
>DroSim_CAF1 857 89 - 1
GGAGCUCC-AAGACUGGAGCACGGACACUACUGAAACAGAUACGCGGACGCACGUAAGGGGAGACACAGACGGUGUGUGGGAUGGAGAGA
...(((((-(....)))))).(((......))).........(.((.((((.(((....(....)....))))))).)).)......... ( -25.20)
>DroYak_CAF1 852 81 - 1
AGAGCUCC-AAGGUUGGAGCACGGACAGUACUGACACAGAUACGAUGACGCACGUAAGGGGCGACACAGAAAAGGUGAGUGA--------
...(((((-(....)))))).(((......))).(((...........(((.(....)..))).(((.......))).))).-------- ( -20.90)
>consensus
AGAGCUCC_AAGGCUGGAGCACGGACACUACUGAAACAGAUACGCGGACGCACGUAAGGGGAGACACAGACGGUGUGUGAGAUGGAGAGA
...(((((.......))))).((.(((((.(((.......((((........))))...(....).)))..))))).))........... (-17.75 = -18.12 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:44 2006