Locus 1985

Sequence ID 3R_DroMel_CAF1
Location 5,616,727 – 5,616,823
Length 96
Max. P 0.959590
window3246

overview

Window 6

Location 5,616,727 – 5,616,823
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 81.88
Mean single sequence MFE -34.70
Consensus MFE -29.63
Energy contribution -30.30
Covariance contribution 0.67
Combinations/Pair 1.33
Mean z-score -2.74
Structure conservation index 0.85
SVM decision value 1.50
SVM RNA-class probability 0.959590
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5616727 96 - 27905053
AAACCAGGACAAUGAGAACGGAGGCAGCGGUCAGUUGUUUCCUGUUGGUAUUGCACAGGGUAUGCUGUCAGAGCGGCAACGAUGAGUCCUGGCUGA
...(((((((((((..((((((((((((.....))))))))).)))..))))...((..((.((((((....))))))))..)).))))))).... ( -37.60)
>DroSec_CAF1 391 96 - 1
AAACCAGGACAAUGAGAACGGAGGCAGCGGUCAGUUGUUUCCUGUUGGUAUUGCACACGGUAUGCUGUCAGAGUGGCAGCGAUGAGUCCUGGCUGA
...(((((((((((..((((((((((((.....))))))))).)))..))))..........(((((((.....)))))))....))))))).... ( -38.80)
>DroSim_CAF1 455 96 - 1
AAACCAGGGCAAUGAGAACGGAGGCAGCGGUCAGUUGUUUCCUGUUGGUAUUGCACAGGGUAUGCUGUCAGAGUGGCAGCGAUGAGUCCUGGCUGA
...(((((((((((..((((((((((((.....))))))))).)))..))))))........(((((((.....)))))))......))))).... ( -40.40)
>DroEre_CAF1 686 96 - 1
AAACCAGGACAAUGAGAACGGAGGCAGCGGUCAGUUGUUUUCUGUUGGCUCUGCACAGCGUGUGCUGCCAGAGCGGCAGCGAGGAGUCCUGGAUGG
...(((((((......((((((((((((.....)))).))))))))..(((.((((...))))((((((.....)))))))))..))))))).... ( -41.80)
>DroYak_CAF1 669 96 - 1
AAACAAGGACAAUGAGAACGGAGGCAGCGGUCAGUUGUUUUCUGUUGGUAUUGCACAGUGUGUGCUGUCAGAGCGGCAGCGAGGAGUCCUGGGUGG
..((.(((((((((..((((((((((((.....)))).))))))))..))))((((...))))((((((.....)))))).....)))))..)).. ( -32.30)
>DroPer_CAF1 499 96 - 1
AAAAAAGAGCAAUGAAAACAGGCACAAUAAUCAGUUGUUGCUUAUUGAUAUUUAAUAAUGUGUGCUGCCAGAGUGGUAGUGAACAAAAACCGAUAG
...(((...(((((......((((((((.....)))).)))))))))...))).....(((.(((((((.....))))))).)))........... ( -17.30)
>consensus
AAACCAGGACAAUGAGAACGGAGGCAGCGGUCAGUUGUUUCCUGUUGGUAUUGCACAGGGUAUGCUGUCAGAGCGGCAGCGAUGAGUCCUGGCUGA
...(((((((((((..((((((((((((.....))))))))).)))..))))..........(((((((.....)))))))....))))))).... (-29.63 = -30.30 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:22 2006