Locus 6187

Sequence ID 2L_DroMel_CAF1
Location 17,252,059 – 17,252,156
Length 97
Max. P 0.740144
window9887

overview

Window 7

Location 17,252,059 – 17,252,156
Length 97
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.99
Mean single sequence MFE -30.21
Consensus MFE -16.67
Energy contribution -18.34
Covariance contribution 1.67
Combinations/Pair 1.15
Mean z-score -1.99
Structure conservation index 0.55
SVM decision value 0.45
SVM RNA-class probability 0.740144
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17252059 97 - 22407834
AAACGCUGGCUAUUAAAGGAGGCAAGGGGUGGGAGAA-AA---GGGGGGAUUUUCCA-AACAGCCUCAAGUGGUUUCUACGGCCAUAAACAAG--UGCCAGUGA
...(((((((........(((((...(..(((((((.-..---.......)))))))-..).)))))..((((((.....)))))).......--.))))))). ( -34.10)
>DroSec_CAF1 94783 96 - 1
AAACGUUGGCCAUUAAGGUUGGCAAGGGGUUGGAAAA--A---AGGGGGAUUUUCCA-AACAGCCUCAAGUGGUUUCUACGGCCAUAAACAAG--UGCCAGUGG
((((((..(((.....)))..))..((((((((((((--.---.......)))))))-....))))).....))))((((((((........)--.))).)))) ( -27.80)
>DroSim_CAF1 99771 98 - 1
AAACGCUGGCCAUUAAGGUUGGCAAGGGGUUGGAAAAGAA---GGGGGGAUUUUCCA-AACAGCCUCAAGUGGUUUCUACGGCCAUAAACAAG--UGCCAGUGG
...(((((((.........((((..(((((((.....(((---((.....)))))..-..)))))))..((((...)))).))))........--.))))))). ( -32.77)
>DroEre_CAF1 94041 98 - 1
AAACGCUGCCCAUUAGAGGAGGCAAGCGGUUGGUGAA-AG---GGGGGGAUUUUUCAAAACAGCCUCAAGUGGCUUCUGCGGCCAUAAACAAG--UGCCAGUGG
...((((..((......)).((((.(.(((((.((((-((---(......)))))))...))))).)..((((((.....)))))).......--)))))))). ( -30.50)
>DroYak_CAF1 95761 97 - 1
AAGCGCUGGCCAUUAGAGGAGGCAAAAGUUUGGUGAA-AG---GGGGGGAUUUUUCC-AACAGCCUCAAGUGGCUUCUACGGCCAUAAACAAG--UGCCAGUGA
...((((((((.......(((((.....(((.....)-))---.(..(((....)))-..).)))))..((((((.....))))))......)--.))))))). ( -32.70)
>DroAna_CAF1 165034 87 - 1
AAACGCUGCACAUUAGU---GGCCAGGAC-GGGUAGC-AGGGGGAGUGGACCUUCC--AACAGCCUCAAGUGG----------CAUAAACAAGAAAGCCAGUGG
...((((((((....))---)((((....-((((.(.-.(((((.(....))))))--..).))))....)))----------)..............))))). ( -23.40)
>consensus
AAACGCUGGCCAUUAAAGGAGGCAAGGGGUUGGAAAA_AA___GGGGGGAUUUUCCA_AACAGCCUCAAGUGGUUUCUACGGCCAUAAACAAG__UGCCAGUGG
...(((((((...............(((((((............................)))))))..((((((.....))))))..........))))))). (-16.67 = -18.34 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:42 2006