Locus 4680

Sequence ID	X_DroMel_CAF1
Location	12,199,317 – 12,199,425
Length	108
Max. P	0.718885

overview

Window 8

Location	12,199,317 – 12,199,425
Length	108
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	88.29
Mean single sequence MFE	-35.30
Consensus MFE	-25.40
Energy contribution	-27.90
Covariance contribution	2.50
Combinations/Pair	1.00
Mean z-score	-1.87
Structure conservation index	0.72
SVM decision value	0.39
SVM RNA-class probability	0.718885
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12199317 108 + 22224390
CCCAAAACUGUUGGCUCUGCGGCUUUUGCCGGCGGUUGACUGACGCGUAUGCGUUAUUAAAUCUGCAUGUGUGU------GCGUACUCGCAUCCUACACAUGUAUACGUUUGUA
....((((.((..(((...((((....))))..)))..))((((((....)))))).......(((((((((((------(((....)))))...)))))))))...))))... ( -36.90)
>DroSec_CAF1 25658 108 + 1
CCCAAAACUGAUGGCUCUGCGGCUUUUGCCGGCGGUUGACUGACGCGUAUGCGUUAUUAAAUCUGCAUGUGUGU------GCGUACUCGCAUCCUACACAUGUAUACGUUUGUA
......((.((((...(((((((....))).))))((((.((((((....))))))))))...(((((((((((------(((....)))))...)))))))))..)))).)). ( -35.10)
>DroSim_CAF1 26839 108 + 1
CCCAAAACUGUUGGCUCUGCGGCUUUUGCCGGCGGUUGACUGACGCGUAUGCGUUAUUAAAUCUGCAUGUGUGU------GCGUACUCGCAUCCUACACAUGUAUACGUUUGUA
....((((.((..(((...((((....))))..)))..))((((((....)))))).......(((((((((((------(((....)))))...)))))))))...))))... ( -36.90)
>DroYak_CAF1 10397 97 + 1
CCCAAAACUGUUGGCUCUGCGGCUUUUGCCGGCGGUUGACUGACGCGUAUGCGUUAUUAAAUCUGCAUGUGUGUGCGUGUGCGUACUCGCAUCCU-----------------CG
.((((.....)))).....((((....))))((((((((.((((((....))))))))))..))))(((((.(((((....))))).)))))...-----------------.. ( -32.30)
>consensus
CCCAAAACUGUUGGCUCUGCGGCUUUUGCCGGCGGUUGACUGACGCGUAUGCGUUAUUAAAUCUGCAUGUGUGU______GCGUACUCGCAUCCUACACAUGUAUACGUUUGUA
.....((((((((((............))))))))))...((((((....)))))).......((((((((((.......(((....)))....)))))))))).......... (-25.40 = -27.90 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:49 2006