Locus 4837

Sequence ID X_DroMel_CAF1
Location 12,560,892 – 12,560,998
Length 106
Max. P 0.825412
window7905

overview

Window 5

Location 12,560,892 – 12,560,998
Length 106
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 88.41
Mean single sequence MFE -14.93
Consensus MFE -10.73
Energy contribution -11.16
Covariance contribution 0.44
Combinations/Pair 1.11
Mean z-score -2.22
Structure conservation index 0.72
SVM decision value 0.70
SVM RNA-class probability 0.825412
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12560892 106 + 22224390
AAAUAUUCAAAAUGGAAGUUCAAAACUUCUGCCAAAGUUACA--CAAACUACAAAAUAGUUUUGGCCCAAAACAAAGAGCAAA--AAAUGAGGUUGUAA--------AGAAACUAAAA
......(((....((((((.....))))))((((((..((..--............))..)))))).................--...)))((((....--------...)))).... ( -13.04)
>DroSec_CAF1 24335 108 + 1
AAAUAUUCAAAAUGGAAGUUCAAAACUUCUGCCAAAGUUACACACAAACUACAAAAUAGUUUUGGCCCA--ACAAAGAGCAAAAAAAAUGAGGUUGAAA--------AGAAACUAAAA
.....(((((...((((((.....))))))((((((((.....))..((((.....))))))))))...--......................))))).--------........... ( -13.50)
>DroEre_CAF1 25337 106 + 1
AAAUAUUCAAAAUGGAAGUUCAAAACUUCUGCAAAAGUUACA--CAAACUACAAAAUAGUUUUGGCUCA--ACAAAGAGCAAAA-AAACGAGGGUAAAAA-------AGAAACUAAAA
...(((((.....((((((.....)))))).....((((...--..))))........(((((.((((.--.....))))...)-))))..)))))....-------........... ( -17.20)
>DroYak_CAF1 15888 114 + 1
AAAUAUUCAAAAUGGAAGUUCAAAACUUCUGCCAAAGUUAUA--CAAACUACAAAAUAGUUUUGGCUCA--ACAAAGCCCAAAAAAAAUGAGGAUAAAAAGCAACUGAAAAACUAAAA
...(((((.....((((((.....))))))((((((..(((.--...........)))..))))))...--....................)))))...................... ( -16.00)
>consensus
AAAUAUUCAAAAUGGAAGUUCAAAACUUCUGCCAAAGUUACA__CAAACUACAAAAUAGUUUUGGCCCA__ACAAAGAGCAAAA_AAAUGAGGUUAAAA________AGAAACUAAAA
...(((((.....((((((.....))))))((((((..((................))..)))))).........................)))))...................... (-10.73 = -11.16 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:14 2006