Locus 4899

Sequence ID 3L_DroMel_CAF1
Location 13,639,544 – 13,639,634
Length 90
Max. P 0.717066
window7731

overview

Window 1

Location 13,639,544 – 13,639,634
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.58
Mean single sequence MFE -19.86
Consensus MFE -15.52
Energy contribution -16.05
Covariance contribution 0.53
Combinations/Pair 1.05
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.39
SVM RNA-class probability 0.717066
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13639544 90 + 23771897
AAUAGCA--------AAUCGCAGGCCAAAGAAAGGA-AAUCAUGCUCUGCUGGCCAAAAAUCAUUAAGAGCAAUGCAUAUUCAAUUAACAGGGCCAUAU---------------------
....((.--------....)).((((........((-(((((((((((..(((.......)))...))))).))).)).))).........))))....--------------------- ( -18.53)
>DroPse_CAF1 31497 118 + 1
GAAAGCACAGGCCAAAGUCCCAGGCCAUAGAACCAAAAAUCAUGCUCUGUUGGCCAAAAAUCAUUAAGAGCAAUGCCUGUUCAAUUAACAUGGCCAUACU--CGUACAAAUGCUACCGAA
...((((..(((((........(((((((((..............)))).)))))............(((((.....)))))........))))).((..--..))....))))...... ( -26.44)
>DroSec_CAF1 47043 91 + 1
AAUAGCA--------AAUCGCAGGCGAAAGAAAGGAAAAUCAUGCUCUGCUGGCCAAAAAUCAUUAAGAGCAAUGCAUAUUCAAUUAACAGGGCCAUAU---------------------
....((.--------....)).(((.........(((.((((((((((..(((.......)))...))))).))).)).)))..........)))....--------------------- ( -15.21)
>DroSim_CAF1 57013 91 + 1
AAUAGCA--------AAUCGCAGGCCAAAGAAAGGAAAAUCAUGCUCUGCUGGCCAAAAAUCAUUAAGAGCAAUGCAUAUUCAAUUAACAGGGCCAUAU---------------------
....((.--------....)).((((........(((.((((((((((..(((.......)))...))))).))).)).))).........))))....--------------------- ( -19.73)
>DroEre_CAF1 49438 97 + 1
AAUAGCA--------AAUCGCUGGCCAAAGAAAGGAAAAUCAUGCUCUGCUGGCCAAAAAUCAUUAAGAGCAAUGCAUAUUCAAUUAACAGGGCCAUAUACAAG------U---------
...(((.--------....)))((((........(((.((((((((((..(((.......)))...))))).))).)).))).........)))).........------.--------- ( -20.13)
>DroYak_CAF1 54187 97 + 1
AAUAGCA--AUAGGAAAUCGCUGGCCAAAGAAAGGAAAAUCAUGCUCUGCUGGCCAAAAAUCAUUAGGAGCAAUGCAUAUUCAAUUAACAGGGCCAUAU---------------------
...(((.--..........)))((((........(((.((((((((((..(((.......)))...))))).))).)).))).........))))....--------------------- ( -19.13)
>consensus
AAUAGCA________AAUCGCAGGCCAAAGAAAGGAAAAUCAUGCUCUGCUGGCCAAAAAUCAUUAAGAGCAAUGCAUAUUCAAUUAACAGGGCCAUAU_____________________
......................((((........(((.((((((((((..(((.......)))...))))).))).)).))).........))))......................... (-15.52 = -16.05 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:26 2006