Locus 4238

Sequence ID X_DroMel_CAF1
Location 11,119,343 – 11,119,444
Length 101
Max. P 0.945815
window6962

overview

Window 2

Location 11,119,343 – 11,119,444
Length 101
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 78.59
Mean single sequence MFE -26.76
Consensus MFE -9.79
Energy contribution -11.43
Covariance contribution 1.64
Combinations/Pair 1.17
Mean z-score -2.46
Structure conservation index 0.37
SVM decision value 1.36
SVM RNA-class probability 0.945815
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11119343 101 - 22224390
AAUAGUUUGUUUUGCCGCUCCAUUAAAAGACAACUUGUUUUAGUGGCGAAAA--AAGGCCAAUUACCAGGCUGGCAAUUUCAAUUGCGA-AAGU-GCCAAGAACG
....((((.((((((((((.......(((((.....))))))))))))))).--..((((........))))((((.((((......))-)).)-)))..)))). ( -29.41)
>DroSec_CAF1 34705 100 - 1
AAUAGUUUGUUUUGCCGCUCCAUUAAAAGACAACUUGUUUUAGUGGCGAAAA--AA-GCCAAUUACCAGGCUGGCAAUUUCAAUUGCGA-AAGU-GCCAAGAACA
....((((.((((((((((.......(((((.....))))))))))))))).--.(-(((........))))((((.((((......))-)).)-)))..)))). ( -29.41)
>DroEre_CAF1 33413 101 - 1
AAUAGUUUGCUUUGCCGCUCCAUUAAAAGACAACUUGUUUUAGUGGCGAAAA--AA-GGCAAUUACCAGGCUGGCAAUUUCAAUUGCGAAAAGU-GCCAAGAACU
...((((((..(((((.(.(((((((((.(.....).))))))))).)....--..-)))))....))))))((((.((((......))))..)-)))....... ( -26.50)
>DroYak_CAF1 37386 102 - 1
AAUAGUUUGUUUUGCCGCUCCAUUAAAACCCAACUUGUUUUAGUGGCGAAAAAUAA-UGCAAUUACCAGGCUGGCAAUUUCAAUUGCGA-AAGU-GCCAAGAACA
.......(((((((((....(((((((((.......)))))))))(((........-)))........)))(((((.((((......))-)).)-)))))))))) ( -25.30)
>DroAna_CAF1 34938 80 - 1
AAUAGUUUGCU-UGCCGCUCCAUUAAAAGGCC----------------A--A--AA-GCAAUUAACCAAGUUGGCCUGGCCCAGUCUGAGUCCUGGCCAGGA---
......(((((-((((............))).----------------.--.--))-))))....((.....))(((((((.((........))))))))).--- ( -23.20)
>consensus
AAUAGUUUGUUUUGCCGCUCCAUUAAAAGACAACUUGUUUUAGUGGCGAAAA__AA_GCCAAUUACCAGGCUGGCAAUUUCAAUUGCGA_AAGU_GCCAAGAACA
...((((((((((((((((......................))))))))))...............))))))(((.((((..........)))).)))....... ( -9.79 = -11.43 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:55 2006