Locus 690

Sequence ID X_DroMel_CAF1
Location 1,913,555 – 1,913,658
Length 103
Max. P 0.550123
window1107

overview

Window 7

Location 1,913,555 – 1,913,658
Length 103
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 81.14
Mean single sequence MFE -44.47
Consensus MFE -28.72
Energy contribution -31.08
Covariance contribution 2.36
Combinations/Pair 1.04
Mean z-score -1.50
Structure conservation index 0.65
SVM decision value 0.03
SVM RNA-class probability 0.550123
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1913555 103 + 22224390
--U-----G-CCAGAAGGCAAGGCAAAGUCCAAGCUAUCGUAGGGACC---GCUGCAAUUGCUCUUGGACGAGCCGCGGCUCAGGUUCUGGCUCAGACUUUUGGAGUAGCUACC
--.-----.-(((((((..........((((((((.((.((((.....---.)))).)).)))..)))))((((((..((....))..))))))...))))))).......... ( -35.50)
>DroVir_CAF1 5470 107 + 1
AAUGUCCGGCACGGAGGGCAGCACAAAGUCCAGGCUCUCAUAGG---C---GCUGCAGUUGCUCUUGGAUGAGCCGCGGCUCAGGUUCUGGCUGAGGCUCUUCGAAUAGCUGC-
.......(((.(.((((((.((.....))....))))))...).---.---)))(((((((...(((((.(((((.((((.(((...))))))).)))))))))).)))))))- ( -39.50)
>DroPse_CAF1 5503 104 + 1
----------CCGGAGGGCAGGACAAAGUCCAGGCUAUCGUAGGCCCCGGCGCUGCAGUUGCUCUUCGAGGAGCCGCGGCUCAAGUUCUGGCUGAGGCUCUUCGAGUAGCUGCC
----------((((.((((........)))).((((......))))))))....((((((((((...((((((((.(((((........))))).)))))))))))))))))). ( -52.30)
>DroMoj_CAF1 5650 107 + 1
AAUGUCCGGCACGGAGGGCAGCACAAAGUCCAGACUCUCGUAGG---C---GCUGCAGUUGCUCUUGGAGGAGCCGCGGCUCAGAUUCUGGCUGAGGCUCUUCGAGUAGCUGC-
......((.((((((((((........))))....)).))).).---)---)..((((((((((...((((((((.((((.(((...))))))).))))))))))))))))))- ( -45.90)
>DroAna_CAF1 7447 103 + 1
--U-----G-CCGGAGGGCAGGGCAAAGUCCAGGCUGUCGUACGGACC---GCUGCAGUUGCUCUUCGAGGAGCCGCGACUCAGAUUCUGGCUCAAGGACUUGGAGUAGCUGCC
--(-----(-((....))))((((...)))).(((.(((.....))).---)))(((((((((((((...((((((.((.......))))))))...))...))))))))))). ( -41.30)
>DroPer_CAF1 5223 104 + 1
----------CCGGAGGGCAGGACAAAGUCCAGGCUAUCGUAGGCCCCGGCGCUGCAGUUGCUCUUCGAGGAGCCGCGGCUCAAGUUCUGGCUGAGGCUCUUCGAGUAGCUGCC
----------((((.((((........)))).((((......))))))))....((((((((((...((((((((.(((((........))))).)))))))))))))))))). ( -52.30)
>consensus
__U_____G_CCGGAGGGCAGGACAAAGUCCAGGCUAUCGUAGG__CC___GCUGCAGUUGCUCUUCGAGGAGCCGCGGCUCAGGUUCUGGCUGAGGCUCUUCGAGUAGCUGCC
...............((((........)))).......................((((((((((...((((((((.((((.((.....)))))).)))))))))))))))))). (-28.72 = -31.08 +   2.36) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:14 2006