Locus 1200

Sequence ID 3L_DroMel_CAF1
Location 3,384,099 – 3,384,197
Length 98
Max. P 0.528552
window1889

overview

Window 9

Location 3,384,099 – 3,384,197
Length 98
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 92.86
Mean single sequence MFE -31.07
Consensus MFE -30.70
Energy contribution -30.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 0.99
SVM decision value -0.01
SVM RNA-class probability 0.528552
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3384099 98 - 23771897
AA---------AAAAUGCUGAAA-AAAGAACAGAAUGUUGCUGCCGUCGCCGAUGUGUUGCUGCUGUUGCUGUUGCACAAACAUUGCGGGCGGCGGCAUCUCACCGAC
..---------............-........(((((((((((((..(((.(((((..(((.((....))....)))...))))))))))))))))))).))...... ( -30.70)
>DroSec_CAF1 51608 96 - 1
-----------AAAAUGCUGAAA-AAAGAACAGAAUGUUGCUGCCGUCGCCGAUGUGUUGCUGCUGUUGCUGUUGCACAAACAUUGCGGGCGGCGGCAUCUCACCGAC
-----------............-........(((((((((((((..(((.(((((..(((.((....))....)))...))))))))))))))))))).))...... ( -30.70)
>DroSim_CAF1 49736 96 - 1
-----------AAAAUGCUGAAA-AAAGAACAGAAUGUUGCUGCCGUCGCCGAUGUGUUGCUGCUGUUGCUGUUGCACAAACAUUGCGGGCGGCGGCAUCUCACCGAC
-----------............-........(((((((((((((..(((.(((((..(((.((....))....)))...))))))))))))))))))).))...... ( -30.70)
>DroYak_CAF1 50596 108 - 1
AAAAAAGGAAAAAAAGGCCGAAAAAAAGAACAGAAUGUUGCUGCCGUCGCCGAUGUGUUGCUGCUGUUGCUGUUGCACAAACAUUGCGGGCGGCGGCAUCUCACCGAC
......((.......(..(........)..).(((((((((((((..(((.(((((..(((.((....))....)))...))))))))))))))))))).)).))... ( -32.20)
>consensus
___________AAAAUGCUGAAA_AAAGAACAGAAUGUUGCUGCCGUCGCCGAUGUGUUGCUGCUGUUGCUGUUGCACAAACAUUGCGGGCGGCGGCAUCUCACCGAC
................................(((((((((((((..(((.(((((..(((.((....))....)))...))))))))))))))))))).))...... (-30.70 = -30.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:00 2006