Locus 4290

Sequence ID 3L_DroMel_CAF1
Location 12,578,602 – 12,578,692
Length 90
Max. P 0.952635
window6635

overview

Window 5

Location 12,578,602 – 12,578,692
Length 90
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 85.92
Mean single sequence MFE -27.48
Consensus MFE -22.83
Energy contribution -23.06
Covariance contribution 0.23
Combinations/Pair 1.11
Mean z-score -2.10
Structure conservation index 0.83
SVM decision value 1.42
SVM RNA-class probability 0.952635
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12578602 90 + 23771897
----UUGCCAGCCAUCCAUGUGGAUCCACCAAUUACCGGAUCCGUAAUGCCGCACUUGCAAUUGGCCUUAACGUGGCCCAGGCAAACUCGUCAA
----(((((.(((((......((((((..........)))))).(((.(((((....))....))).)))..)))))...)))))......... ( -26.30)
>DroSec_CAF1 66696 89 + 1
----UUGCCAGCCAUCCAUGUGGAUCCAC-AAUUACCGGAUCCGUAAUGCCGCACUGGCAAUUGGCCUUAACGUGGCCCAGGCAAACUCGUCAA
----(((((((.....(((..((((((..-.......))))))...))).....)))))))..((((.......))))..(((......))).. ( -29.30)
>DroSim_CAF1 69395 89 + 1
----UUGCCAGCCAUCCAUGUGGAUCCAC-AAUUACCGGAUCCGUAAUGCCGCACUGGCAAUUGGCCUUAACGUGGCCCAGGCAAACUCGUCAA
----(((((((.....(((..((((((..-.......))))))...))).....)))))))..((((.......))))..(((......))).. ( -29.30)
>DroEre_CAF1 69170 76 + 1
--GCCAGCCAGCAAUCCAUGUGGA----------------UCCGUAAUGCCGCACUUGCAAUUGGCCUUAAGUUGGCCCAGGCAAACUCGUCAA
--(((.((((((.((((....)))----------------)...(((.(((((....))....))).))).))))))...)))........... ( -22.10)
>DroYak_CAF1 68769 93 + 1
CAGGCAGCCAGUCAUCCAUGUGGAUCCAC-AAUUACCGGAUCCGUAAUGCCGCACUUGCAAUUGGCCUUAACUUGGCCCGGGCAAGCUCGUCAA
..((((((.............((((((..-.......))))))....((((((....))....((((.......))))..)))).))).))).. ( -30.40)
>consensus
____UUGCCAGCCAUCCAUGUGGAUCCAC_AAUUACCGGAUCCGUAAUGCCGCACUUGCAAUUGGCCUUAACGUGGCCCAGGCAAACUCGUCAA
......(((.((((.......((((((..........))))))((......))..))))....((((.......))))..)))........... (-22.83 = -23.06 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:42 2006