Locus 957

Sequence ID 3R_DroMel_CAF1
Location 3,138,658 – 3,138,757
Length 99
Max. P 0.611363
window1534

overview

Window 4

Location 3,138,658 – 3,138,757
Length 99
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 89.89
Mean single sequence MFE -38.55
Consensus MFE -30.77
Energy contribution -33.52
Covariance contribution 2.75
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.80
SVM decision value 0.16
SVM RNA-class probability 0.611363
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3138658 99 + 27905053
AUGCUUGGUCAUGGACGCCAAAUGGUUGACAGACUCUCCCGACAGCUGCAAUGGCGCAGGGGCAGGGUUUGCAUGUGGCUUAUGGCCAGGCUUUG--------GGCC
..((((((((((((..((((......((.(((((((((((.....((((......))))))).))))))))))..))))))))))))))))....--------.... ( -41.50)
>DroSec_CAF1 14542 94 + 1
AUGCUUGGUCAUGGACGCCAAAUGGUUGACAGACUCUCCCGACAGCUGCAAUGGCGCAGGGGCAGGGUUUGCAUGUGGCUUAUGG-----CUGAG--------GGCU
...((..(((((((..((((......((.(((((((((((.....((((......))))))).))))))))))..))))))))))-----)..))--------.... ( -35.90)
>DroSim_CAF1 15321 94 + 1
AUGCUUGGUCAUGGACGCCAAAUGGUUGACAGACUCUCCCGACAGCUGCAAUGGCGCAGGGGCAGGGUUUGCAUGUGGCUUAUGG-----CUGAG--------GGCU
...((..(((((((..((((......((.(((((((((((.....((((......))))))).))))))))))..))))))))))-----)..))--------.... ( -35.90)
>DroEre_CAF1 16070 106 + 1
AUGCUUGGUCAUGGACGCCAAAUGGUUGACAGACUCUCCCGACAGCUGCAAUGGCGCAGGGGCAGGGUUUGCAUGUGG-UUAUGGCCAGGCUCUGGUCUUCUGGUCU
..(((((((((((...((((......((.(((((((((((.....((((......))))))).))))))))))..)))-))))))))))))...(..(....)..). ( -40.90)
>consensus
AUGCUUGGUCAUGGACGCCAAAUGGUUGACAGACUCUCCCGACAGCUGCAAUGGCGCAGGGGCAGGGUUUGCAUGUGGCUUAUGG_____CUGAG________GGCU
..((((((((((((..((((......((.(((((((((((.....((((......))))))).))))))))))..))))))))))))))))................ (-30.77 = -33.52 +   2.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:37 2006