Locus 1960

Sequence ID 3R_DroMel_CAF1
Location 5,532,976 – 5,533,069
Length 93
Max. P 0.576396
window3217

overview

Window 7

Location 5,532,976 – 5,533,069
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 82.54
Mean single sequence MFE -23.27
Consensus MFE -15.56
Energy contribution -15.83
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -1.73
Structure conservation index 0.67
SVM decision value 0.09
SVM RNA-class probability 0.576396
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5532976 93 + 27905053
UAGCCCAGUGCUAUCGGUGACUUGGUGCAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUAGAAAUAAGGCAAUC------AAAUAAAUGCAA
..(((.....(((..((((.((...(((....((((((....))))))....)))...)).)))))))......)))....------............ ( -21.30)
>DroPse_CAF1 13565 96 + 1
UAGCCCAGGGCGAUGGGUGAUUUGGUGCAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUGAUAUGCAGGGAGCUCGGGCUAGA---AUUAAA
((((((.((((...(((((.((((.(((....((((((....))))))....)))..)))))))))(.....).....))))))))))..---...... ( -30.40)
>DroSim_CAF1 12614 93 + 1
UAGCCCAGUGCUAUCGGUGACUUGGUACAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUACGAACAAGGCAAUC------AAAUUAAUGCAA
..(((..((((((..(....).))))))....((((((....))))))...)))..((((....)))).......(((...------.......))).. ( -22.30)
>DroEre_CAF1 12432 93 + 1
UAGCCCAGUGCUAUCGGUGACUUGGUGCAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUAGAGACAAGGAAAUU------UGAUCAAUGCAA
........(((....((((.((...(((....((((((....))))))....)))...)).))))....((((((....))------)).))...))). ( -20.30)
>DroYak_CAF1 12199 93 + 1
UAGCCCAGUGCUAUCGGUGACUUUGUGCAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUAAAAACAAGCCAAUU------UAAUUGAUGCAA
((((.....))))..((((.((...(((....((((((....))))))....)))...)).)))).........((((((.------..))))..)).. ( -18.60)
>DroPer_CAF1 13537 99 + 1
UAGCCCAGAGCGAUGGGUGAUUUGGUGCAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUGAAAUGCAGGGAGUUCCGGCUAGAAAAAUUAAA
(((((....(((.((((((.((((.(((....((((((....))))))....)))..))))))))))...)))..((....)))))))........... ( -26.70)
>consensus
UAGCCCAGUGCUAUCGGUGACUUGGUGCAAAAGUUUUGAUCCCAGAACAAAGGCAAGUAGACACCUAAAAACAAGGCAAUU______AAAUAAAUGCAA
((((.....))))..((((.((...(((....((((((....))))))....)))...)).)))).................................. (-15.56 = -15.83 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:53 2006