Locus 729

Sequence ID 3L_DroMel_CAF1
Location 2,210,019 – 2,210,114
Length 95
Max. P 0.973923
window1117

overview

Window 7

Location 2,210,019 – 2,210,114
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 80.85
Mean single sequence MFE -19.89
Consensus MFE -14.20
Energy contribution -14.24
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -2.41
Structure conservation index 0.71
SVM decision value 1.72
SVM RNA-class probability 0.973923
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2210019 95 + 23771897
AGCCACCUCCCCCGUCCCCAUUGUCGUGUAUUCGUACUCGUAUACAUUCUCCAUGGGGGCUUAUUAAAUGAUUGACCUAGGCUCCUCAUUUACCU
.............((((((((.(..((((((.((....)).))))))...).))))))))....(((((((..(((....).)).)))))))... ( -24.50)
>DroSec_CAF1 261723 89 + 1
AGCCACCUAGCCCGUCCCCAUCCUCGUGUAUUC------GUAUACAUUCUCCAUGGGGGCUUAUUAAAUGAUUGACCUAGGCUCCUCACUCACCU
.....(((((...((((((((....((((((..------..)))))).....))))))))...((((....)))).))))).............. ( -21.60)
>DroSim_CAF1 262115 95 + 1
AGCCACCUAGCCCGUCCCCAUCCUCGUGUAUUCGUACUCGUAUACAUUCUCCAUGGGGGCUUAUUAAAUGAUUGACCUAGGCUCUUCACUCACCU
.....(((((...((((((((....((((((.((....)).)))))).....))))))))...((((....)))).))))).............. ( -23.60)
>DroEre_CAF1 268516 76 + 1
GGCCACCU---CCGUCCCCAUCC----------------AUACACAUUCUCCAUGGGGGCUUAUUAAAUGAUUGACCUAGGCUCCUCACUCAGCU
((((....---..((((((((..----------------.............))))))))...((((....))))....))))............ ( -15.66)
>DroYak_CAF1 261160 76 + 1
AGCCACCG---CCGUCCCCUUCC----------------AAACACAUUCUCCAUGGGGGCUUAUUAAAUGAUUGACCUAGGCUCCUCACUUACAU
((((....---..((((((....----------------...............))))))...((((....))))....))))............ ( -14.11)
>consensus
AGCCACCU__CCCGUCCCCAUCCUCGUGUAUUC______GUAUACAUUCUCCAUGGGGGCUUAUUAAAUGAUUGACCUAGGCUCCUCACUCACCU
((((.........((((((((...............................))))))))...((((....))))....))))............ (-14.20 = -14.24 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:37 2006