Locus 3678

Sequence ID 2R_DroMel_CAF1
Location 12,226,811 – 12,226,912
Length 101
Max. P 0.613814
window5982

overview

Window 2

Location 12,226,811 – 12,226,912
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.17
Mean single sequence MFE -28.48
Consensus MFE -13.41
Energy contribution -13.55
Covariance contribution 0.14
Combinations/Pair 1.13
Mean z-score -2.94
Structure conservation index 0.47
SVM decision value 0.16
SVM RNA-class probability 0.613814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12226811 101 - 20766785
AAGUUUGCUGGCAACAAAGGAAACGAUUUGUG--------GCCAGUUGUCAUAGAUUAUCAAAUCAAGUCUGC---CGGCAAAGAAAUGGGAAA------ACAAAUA--AUUUGAUUUGA
...((((((((((((...(....)((((((((--------((.....))))))))))..........)).)))---)))))))...........------.(((((.--.....))))). ( -28.70)
>DroSec_CAF1 87933 101 - 1
AAGUUUGCUGGCAACAAUGGAAACGAUUUGUG--------GCCAGUUGUCAUAGAUUAUCAAAUCAAGUCUGC---CGGCAAUGAAAUGGGAAA------ACAAAUA--GUUUGUUUUGA
....(((((((((((...(....)((((((((--------((.....))))))))))..........)).)))---)))))).........(((------((((...--..))))))).. ( -28.80)
>DroSim_CAF1 84353 101 - 1
AAGUUUGCUGGCAACAAAGGAAACGAUUUGUG--------GCCAGUUGUCAUAGAUUAUCAAAUCAAGUCUGC---CGGCAAAGAAAUGGGAAA------ACCAAUA--GUUUGAUUUGA
...((((((((((((...(....)((((((((--------((.....))))))))))..........)).)))---)))))))....(((....------.)))...--........... ( -29.70)
>DroEre_CAF1 95790 104 - 1
AAGUUUGCUGGCCACAAAGGAAACGAUUUGUG--------GCCAGUUGUCAUAGAUUAUCAAAUCAAGUCUGCUGCUGGCACAGAAAUGGGAAA------ACAAAUA--AUUUGAUUUGA
..(...(((((((((((.(....)...)))))--------))))))...)........(((((((((((.(((.....)))((....)).....------.......--))))))))))) ( -35.20)
>DroYak_CAF1 90952 101 - 1
AAGUUUGUUGGCAACAAAGGCAACGAUUUGUG--------GCCAGUUGUCAUAGAUUAUCAAAUCAAGUCUGC---CGGACGAGAAAUAGGAAA------AUAAAUA--AUUUGAUUUGA
.(((((((.((((((...(((.((.....)).--------))).))))))))))))).((((((((((((...---..))).(....)......------.......--..))))))))) ( -24.20)
>DroPer_CAF1 90865 104 - 1
AAGUUUGUUGGCCACAGAGGAAACGAUUUGUGGGCUGCCUGCCAGUCAUCAUAGAUUAUCAUCUCAAGA----------------AGGGGGAAAUAGACUACAGAUGGGAUUUGAUUUGA
.(((((((((.((((((((....)..))))))).)...((.((((((......))))....((....))----------------.)).)).)))))))).(((((........))))). ( -24.30)
>consensus
AAGUUUGCUGGCAACAAAGGAAACGAUUUGUG________GCCAGUUGUCAUAGAUUAUCAAAUCAAGUCUGC___CGGCAAAGAAAUGGGAAA______ACAAAUA__AUUUGAUUUGA
..(...((((((.((((.(....)...)))).........))))))...)........(((((((((((........................................))))))))))) (-13.41 = -13.55 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:42 2006