Locus 3707

Sequence ID 2R_DroMel_CAF1
Location 12,300,176 – 12,300,267
Length 91
Max. P 0.769031
window6023

overview

Window 3

Location 12,300,176 – 12,300,267
Length 91
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 75.61
Mean single sequence MFE -18.70
Consensus MFE -8.62
Energy contribution -8.62
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.46
SVM decision value 0.52
SVM RNA-class probability 0.769031
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12300176 91 + 20766785
AAAAUAUGCACA---GAACCCAAAUUCCGUUUUUCAUUUUGUAUACAAAUUCGGAAGAACCGGAAACGGAUGACUAUAUCACUGGCCUGCCAUA
....((((..((---(........(((((((((((..((((....))))....)))))).))))).(((.(((.....))))))..))).)))) ( -18.20)
>DroSec_CAF1 12024 71 + 1
AAAAUGUGCACA---AA--------------------UUUGUAUACAAAUGCGGAGCAACCGGAAACGGAUGACUAUAUCACUGGUCUGCCAUA
....((((.(((---..--------------------..))).))))...(((((.((.(((....))).(((.....))).)).))))).... ( -18.60)
>DroSim_CAF1 10524 71 + 1
AAAAUGUGCACA---AA--------------------UUUGUAUACAAAUUCGGAGCAACCGGAAACGGAUGACUAUAUCACUGGCCUGCCAUA
...(((.((((.---((--------------------((((....)))))).).((((.(((....))).)).))............)))))). ( -15.90)
>DroEre_CAF1 12326 91 + 1
AAAUUAUGCACA---GAACCGAUAUUCCGUUUCGCAUUAUAUAUACAAAUUUGGAACAACCGGAAUCGGAGGCCUAUAUCACUGGCCUGCCAUA
.......((...---...(((((..(((((((((.(((.........))).))))))....))))))))(((((.........))))))).... ( -20.40)
>DroYak_CAF1 11658 94 + 1
AAAUUAUGCACAGUAGAACUCAUAUUCCGUUUUGCAUUGUAUAUACAAAUUGGAAAGAACCGGAAACGGAUGACCAUAUCACUGGCCUGCCAUA
.......((.((((.((..((((.(((((.((((.((.....)).)))).)))))....(((....))))))).....))))))))........ ( -20.40)
>consensus
AAAAUAUGCACA___GAAC__A_AUUCCGUUU__CAUUUUGUAUACAAAUUCGGAACAACCGGAAACGGAUGACUAUAUCACUGGCCUGCCAUA
...........................................................(((....))).............(((....))).. ( -8.62 =  -8.62 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:22 2006