Locus 3042

Sequence ID 2R_DroMel_CAF1
Location 10,490,551 – 10,490,650
Length 99
Max. P 0.941260
window5009

overview

Window 9

Location 10,490,551 – 10,490,650
Length 99
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 73.61
Mean single sequence MFE -20.47
Consensus MFE -14.78
Energy contribution -14.18
Covariance contribution -0.60
Combinations/Pair 1.25
Mean z-score -1.57
Structure conservation index 0.72
SVM decision value 1.32
SVM RNA-class probability 0.941260
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10490551 99 + 20766785
UUAUAUACAUACCU------------ACAUAGAUUCAUAAUUUUCUCGCUUUCCGUUAGCGGAGUCCAAAAUUGUUUUUUGGUUUUUUUGGUUUUCCGACUGACGCAUUCA
..............------------...........................(((((((((((.((((((..............))))))..))))).))))))...... ( -18.34)
>DroSec_CAF1 3949 109 + 1
UUAUAUACAUACGUACAAACAUAUGUACAUAGAUUCCUAUUUUUCUCGCGGUCCGUUAGCGGGGUCCAAAAUC-UUUUUUG-GUUUUUUGGUUUUCCGACUGACGCAUUCG
((((.((((((.((....)).)))))).))))................(((..(((((((((((.((((((.(-(.....)-)..))))))..))))).))))))...))) ( -25.10)
>DroSim_CAF1 3739 102 + 1
UUAUAUACAUACGUACA--------UACAUAGAUUCCUAUUUUUCUCGCGGUCCGUUAGCGGGUUCCAAAAUC-UUUUUUGGGUUUUUUGGUUUUCCGACUGACGCAUUCG
...........(((...--------...((((....)))).......)))...((((((((((..((((((.(-((....)))..))))))...)))).))))))...... ( -21.22)
>DroEre_CAF1 3990 76 + 1
UAAUAU--------------------------AUUCCUACAUUUCUCGGGUUCCGUUAGUGGGGACCAAAAUG-GU--------AUUUUGGUUUUCUGACUGACGCAUUCG
......--------------------------..............(((((..((((((((..(((((((((.-..--------)))))))))..)..))))))).))))) ( -21.10)
>DroYak_CAF1 4078 83 + 1
UUAUAU--------------------------AUUCCUACUUUUCUCGCGGUCCGUUAGUAAGGUCCAAAAUG-GUUUUUG-GUUUUUUGGUUUUCUGACUGACGCAUUCG
......--------------------------...............(((.((.(((((.((((.((((((..-.......-...))))))))))))))).)))))..... ( -16.60)
>consensus
UUAUAUACAUAC_U____________ACAUAGAUUCCUACUUUUCUCGCGGUCCGUUAGCGGGGUCCAAAAUC_UUUUUUG_GUUUUUUGGUUUUCCGACUGACGCAUUCG
.....................................................((((((((((..((((((..............))))))...)))).))))))...... (-14.78 = -14.18 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:49 2006