Locus 1988

Sequence ID	2L_DroMel_CAF1
Location	5,379,127 – 5,379,241
Length	114
Max. P	0.906340

overview

Window 7

Location	5,379,127 – 5,379,241
Length	114
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	88.30
Mean single sequence MFE	-25.38
Consensus MFE	-20.17
Energy contribution	-19.30
Covariance contribution	-0.87
Combinations/Pair	1.24
Mean z-score	-2.13
Structure conservation index	0.80
SVM decision value	1.05
SVM RNA-class probability	0.906340
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5379127 114 - 22407834
CACUUUCUAUGGCACGAGCAUGGAAAACCUUUUUAGAUCCAAGCAUUGCUUAACAAUUUUUCCAGCUUGAACUUUACACUACCAGAUGUGAGCAUUGAGAAAAACCUGAUA-AUA
...(((((...((.(((((.(((((((.((....))....((((...))))......)))))))))))).......(((........))).))....))))).........-... ( -22.60)
>DroSec_CAF1 36473 113 - 1
CACUUUCUAUGGCACGAGCAUGGAAAACCUUUUUAGACCCAAGCAUUGCUUAACAAUUUUUCCAGCUUGAACUUUACACUACAAGAUGUAACCAUAG-GAAAAACCCGAUA-AUG
...(((((((((..(((((.(((((((.((....))....((((...))))......))))))))))))....(((((........)))))))))))-)))..........-... ( -25.60)
>DroSim_CAF1 37002 113 - 1
CACUUUCUAUGGCACGAGCAUGGAAAACCUUUUUAGACCCAAGCAUUGCUUAACAAUUUUUCCAGCUUGAACUUUACACUACAAGAUGUAACCAUAG-GAAAAACCCGAUA-AUA
...(((((((((..(((((.(((((((.((....))....((((...))))......))))))))))))....(((((........)))))))))))-)))..........-... ( -25.60)
>DroEre_CAF1 39636 114 - 1
AACUUUCUAUGGCACGAGCAUGGAAAACCUUUUUAGGCCUAGGCAUUGCUUAACAAUUUUUCCGGCUUGCACUGUACACUGCAAAAUGUACUCGUGG-CGAAGAGCUCAUACAUA
....((((.((.((((((..((((((((((....)))..(((((...))))).....)))))))..(((((........)))))......)))))).-)).)))).......... ( -27.70)
>consensus
CACUUUCUAUGGCACGAGCAUGGAAAACCUUUUUAGACCCAAGCAUUGCUUAACAAUUUUUCCAGCUUGAACUUUACACUACAAGAUGUAACCAUAG_GAAAAACCCGAUA_AUA
......((((((..(((((.(((((((.((....))....((((...))))......))))))))))))....(((((........))))))))))).................. (-20.17 = -19.30 +  -0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:35 2006