Locus 1985

Sequence ID 3L_DroMel_CAF1
Location 5,460,730 – 5,460,834
Length 104
Max. P 0.691021
window3109

overview

Window 9

Location 5,460,730 – 5,460,834
Length 104
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 73.79
Mean single sequence MFE -25.34
Consensus MFE -17.10
Energy contribution -16.50
Covariance contribution -0.60
Combinations/Pair 1.54
Mean z-score -1.36
Structure conservation index 0.67
SVM decision value 0.33
SVM RNA-class probability 0.691021
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5460730 104 - 23771897
UCUCGCUUUCCCCGCUCACUUUCUUCUACGACUUAUUUCGGUCUCGCUUGCAAAAGUGAAUCACUGACAAAGGAAUGUUCAGAAUGC---------AGUGGAGGAAAAUAUAU
......((((((((((((..((((...(((.(((...(((((.((((((....))))))...)))))..)))...)))..)))))).---------))))).)))))...... ( -25.70)
>DroVir_CAF1 1875 101 - 1
UUUCACUUUUGCCACUUCCAUUCGGCUGCCGCUU----GAGC--AGGGCAAAAAGUCAAAU----UACAAAGAAAUU--GUAAAUGCGAAAAUGUCUGCGGCCGCAGGUAAAC
((((..(((((((.((.(((..(((...)))..)----).).--))))))))).......(----(((((.....))--))))....)))).(..((((....))))..)... ( -24.60)
>DroSec_CAF1 22174 104 - 1
UCUCGCUUUCCCCGCUCACUUUCUUCUACGACUUAUUUCGGUCUCGCUUCCAAAAGUGAAUCACUGACAAAGGAAUGUUCAGAAUGC---------AGUGGAGGAAAAUAUAU
......((((((((((((..((((...(((.(((...(((((.((((((....))))))...)))))..)))...)))..)))))).---------))))).)))))...... ( -24.50)
>DroSim_CAF1 23619 104 - 1
UCUCGCUUUCCCCGCUCACUUUCUUCUACGACUUAUUUCGGUCUCGCUUCCAAAAGUGAAUCACUGACAAAGGAAUGUUCAGAAUGC---------AGUAGAGGAAAAUAUAU
....((.......))....((((((((((((((......))))((((((....))))))....((((((......)).)))).....---------.))))))))))...... ( -23.40)
>DroEre_CAF1 21867 104 - 1
UCUCGCUUUCCCCACUCACUUUCUACUGCGACUUAUUUCGGUUUCGCUUCCAAAAGCGAAUCACUGGCGAAGGAAUGUUCGGAAUGC---------AGUGGAGGAAAAUGUAU
......((((((((((((..((((...(((.(((...((((((((((((....)))))))..)))))..)))...)))..)))))).---------))))).)))))...... ( -28.50)
>consensus
UCUCGCUUUCCCCGCUCACUUUCUUCUACGACUUAUUUCGGUCUCGCUUCCAAAAGUGAAUCACUGACAAAGGAAUGUUCAGAAUGC_________AGUGGAGGAAAAUAUAU
...................((((((((((((((......))))((((((....))))))....((((((......)).))))...............))))))))))...... (-17.10 = -16.50 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:48 2006