Locus 3743

Sequence ID 3L_DroMel_CAF1
Location 10,833,148 – 10,833,241
Length 93
Max. P 0.521634
window5844

overview

Window 4

Location 10,833,148 – 10,833,241
Length 93
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 89.54
Mean single sequence MFE -10.29
Consensus MFE -8.67
Energy contribution -8.83
Covariance contribution 0.16
Combinations/Pair 1.07
Mean z-score -1.30
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.521634
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10833148 93 + 23771897
--UCCUCAACUUGACAGUCAAUAAAAUUUGGCUGGCUAAA------AAUAAUC-CACGCCUGGCUAAAAAUAAAACAAUUUAUAAACAGAAAGUACAAAAAU
--......((((..(((((((......)))))))......------.......-.....(((..((.((((......)))).))..))).))))........ ( -13.50)
>DroSec_CAF1 42136 101 + 1
UCUCCUCAACUUGACAGUCAAUAAAAUCUGGCUGGCUAAAUAUAAUAAUAAUC-CACGCCUGGCUAAAAAUAAAACAAUUUAUAAACGAAAAGUGCAAAAAU
..............((((((........))))))...................-...((((........(((((....)))))........)).))...... (  -9.59)
>DroSim_CAF1 46007 95 + 1
GCUCCUCAACUUGACAGUCAAUAAAAUCUGGCUGGCUAAA------AAUAAUC-CACGCCUGGCUAAAAAUAAAACAAUUUAUAAACGCAAAGUGCAAAAAU
((.(..........((((((........))))))((....------......(-((....)))......(((((....)))))....))...).))...... ( -10.70)
>DroEre_CAF1 43747 94 + 1
--CUCUCAACUUGACAGUCAAUAAAAUCUGACUGGCUAAA------AAUAAUCACACACCUGGCUAAAAAUAAAACAAUUUAUAAACACAAAGUACAAAAAU
--......((((..((((((........))))))((((..------..............))))..........................))))........ ( -10.39)
>DroYak_CAF1 43439 94 + 1
--CUCUCAACUUGACAGUCAAUAAAAUCCGACUGGCUAAA------AAUAAUCACAGACCAGGCUAAAAAUAAAACAAUUUAUAAACACAAAGUACAAAAAU
--......((((..(((((..........)))))(((...------...............)))..........................))))........ (  -7.27)
>consensus
__UCCUCAACUUGACAGUCAAUAAAAUCUGGCUGGCUAAA______AAUAAUC_CACGCCUGGCUAAAAAUAAAACAAUUUAUAAACACAAAGUACAAAAAU
........((((..((((((........))))))((((......................))))..........................))))........ ( -8.67 =  -8.83 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:39 2006