Locus 1782

Sequence ID 2R_DroMel_CAF1
Location 6,673,074 – 6,673,184
Length 110
Max. P 0.767137
window2964

overview

Window 4

Location 6,673,074 – 6,673,184
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.82
Mean single sequence MFE -26.34
Consensus MFE -15.74
Energy contribution -16.94
Covariance contribution 1.20
Combinations/Pair 1.17
Mean z-score -2.02
Structure conservation index 0.60
SVM decision value 0.52
SVM RNA-class probability 0.767137
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6673074 110 + 20766785
GCAAUAAAUUAAAGCGCUUACAAAUAGGUGCAAUAAUUAAUUAUCCCAAGAAGGGAUUAGUUGUGGCUUUAAAGGC-UCAAAGGGGGUAAAAGCGGUUUUAGUUUGUGGGA---------
...(((((((((((((((((....))))))).(((((((...(((((.....)))))))))))).(((((....((-((.....)))).)))))...))))))))))....--------- ( -29.20)
>DroSec_CAF1 21378 110 + 1
GCAAUAAAUUAAAGCGCUUACAAAUAGGUGCAGCAAUUAAUUAUUCCAGGAAGGGAUUAGUUGUGGAUUUAAGAACGUUAAAGGGGGUAAAAGC-AUUUUAGUUUGUGGGA---------
...(((((((((((.((((.....(((((.((.(((((((((.(((...)))..))))))))))).)))))...((.((....)).))..))))-.)))))))))))....--------- ( -22.00)
>DroSim_CAF1 23789 111 + 1
GCAAUAAAUUAAAGCGCUUACAAAUAGGUGCAGUAAUUAAUUAUCCCAGGAAGGGAUUAGUUGUGGAUUUAAGAACGUUAAAGGGGGUAAAAGCGAUUUUAGUUUGUGAGA---------
...((((((((((((((((.....(((((.((.((((((...(((((.....))))))))))))).)))))...((.((....)).))..))))).)))))))))))....--------- ( -25.10)
>DroEre_CAF1 19969 119 + 1
GCAAUAAAUUAAAGCGCUUACAAGUAGAUGCAAUAAUUAAUUAUCCCAGAAAGGGAUUCGUUUUUCAUUUCAGAAGUUCAAAGGGG-UAAGAGCGAAUUGAACUGCUGGCAAUUUCUAAG
...............(((....(((((...((((........(((((.....)))))((((((((.((..(...........)..)-)))))))))))))..)))))))).......... ( -23.70)
>DroYak_CAF1 21621 120 + 1
GCAAUAAAUUAAAGCGCUUACAAGUAGAUGCAAUAAUUAAUUAUCCCAGAAAGGGAUUAAUUUUGCAUUUCAGGGAAUCGAAGGGGUUAAAAGCGAUUUUAGCUUGUGGCGAUUUCUAAG
.......................(.((((((((.(((((...(((((.....))))))))))))))))))).((((((((.(.(((((((((....))))))))).)..))))))))... ( -31.70)
>consensus
GCAAUAAAUUAAAGCGCUUACAAAUAGGUGCAAUAAUUAAUUAUCCCAGGAAGGGAUUAGUUGUGGAUUUAAGAACGUCAAAGGGGGUAAAAGCGAUUUUAGUUUGUGGGA_________
...(((((((((((((((((....))))))).(((((((...(((((.....)))))))))))).................................))))))))))............. (-15.74 = -16.94 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:02 2006