Locus 4242

Sequence ID 3R_DroMel_CAF1
Location 11,379,858 – 11,379,965
Length 107
Max. P 0.942450
window6880

overview

Window 0

Location 11,379,858 – 11,379,965
Length 107
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 88.24
Mean single sequence MFE -45.40
Consensus MFE -34.62
Energy contribution -35.12
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -2.55
Structure conservation index 0.76
SVM decision value 1.33
SVM RNA-class probability 0.942450
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11379858 107 - 27905053
AACAUUUCGAGCUGGCAUAUUUAUGGGAUGUGCUGGGAGGCGUCUCACCUUGCCUUCCUGACCUGGGCUUGGCCUGGG----------CUUGUGGCCAGGGUUCUGGCCCUGGUUUU
.......(((((.((((((((.....))))))))((((((((........))))))))....(..(((...)))..))----------)))).(((((((((....))))))))).. ( -47.10)
>DroSec_CAF1 127527 107 - 1
AACAUUUCAAGCUGGCAUAUUUAUGAUAUGAGCUGGGAGGCAUCUCACCUUGCCUUCCUGACCUGGGCUUGGCCUGGG----------CUUGUGGGCAGGGUUCUGGCCCUGGUUUU
.........((((..((((((...))))))))))((((((((........)))))))).((((.(((((.(((((..(----------((....))).)))))..))))).)))).. ( -42.40)
>DroSim_CAF1 118533 107 - 1
AACAUUUCGAGCUGGCAUAUUUAUGGUAUGAGCUGGGAGGCAUCUCACCUUGCCUUCCUGACCUGGGCUUGGCCUGGG----------CUUGUGGACAGGGUUCUGGCCCUGGUUUU
.........((((..(((((.....)))))))))((((((((........)))))))).((((.(((((.(.((((..----------(....)..)))).)...))))).)))).. ( -40.90)
>DroYak_CAF1 117702 117 - 1
AACAUCUCGAGCUGGCAUAUUUAUGGGAUGAGCCGAGAGGCGUCUCACCUUGCCUUCCUGACCUGGGCUUGGUCUGGCCUGGCCGGGGCUUGUGGCCCUGGUUUUGGCCCGGGUUUU
.............((((......((((((..(((....)))))))))...)))).....((((((((((.((.....)).(((((((((.....)))))))))..)))))))))).. ( -51.20)
>consensus
AACAUUUCGAGCUGGCAUAUUUAUGGGAUGAGCUGGGAGGCAUCUCACCUUGCCUUCCUGACCUGGGCUUGGCCUGGG__________CUUGUGGCCAGGGUUCUGGCCCUGGUUUU
..((..((((((((((.((((.....)))).)))((((((((........)))))))).......)))))))..)).................(((((((((....))))))))).. (-34.62 = -35.12 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:13 2006