Locus 6309

Sequence ID 2R_DroMel_CAF1
Location 19,761,958 – 19,762,056
Length 98
Max. P 0.574306
window10084

overview

Window 4

Location 19,761,958 – 19,762,056
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 77.55
Mean single sequence MFE -27.92
Consensus MFE -18.43
Energy contribution -19.02
Covariance contribution 0.58
Combinations/Pair 1.16
Mean z-score -1.20
Structure conservation index 0.66
SVM decision value 0.08
SVM RNA-class probability 0.574306
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19761958 98 + 20766785
CCCUACCAGGCGCUGACCCUCCACAUGGCCAGUCAGUGCCUGGACGGAUCGCACGAGUCCUUCUACUAAGCGCUACCAGUGGUGGUCGUAAUCCCCCA
.....((((((((((((...((....))...))))))))))))..((((..(...(((......)))....((((((...)))))).)..)))).... ( -37.60)
>DroPse_CAF1 1800 75 + 1
CCCUAUCAGACGCUUACCAUCCACAUGUCCAGCCAGUGCCUGGAUGGAUCCCACGAAUCCUAUUACUAACUG-----------GGC------------
..........................((((((..((((...((((...........))))...))))..)))-----------)))------------ ( -14.50)
>DroSec_CAF1 1805 97 + 1
CCCUACCAGGCGCUGACCCUCCACAUGGCCAACCAGUGCCUGGACGGAUCGCACGAGUCCUUCUACUAAGCGCUACCAGUGGUGGUCGUAAUCC-CCA
.....((((((((((.....((....)).....))))))))))..((((..(...(((......)))....((((((...)))))).)..))))-... ( -32.50)
>DroSim_CAF1 1722 96 + 1
CCCUACCAGGCGCUGACCCUCCACAUGGCCAGCCAGUGCCUGGACGGAUCGCACGAGUCCUUCUACUAAGCGCUACCAGUGGUGGUCGUAAUCC--CA
.....((((((((((.(...((....))...).))))))))))..((((..(...(((......)))....((((((...)))))).)..))))--.. ( -32.60)
>DroEre_CAF1 1773 85 + 1
CCCUACCAGGCGCUGACCCUGCACAUGGCCAGCCAGUGCCUGGACGGAUCCCACGAGUCCUUCUACUAGGCGCCACCAGUUGCGG-------------
.((((((((((((((...((((.....).))).))))))))))..((((.......))))......))))(((........))).------------- ( -29.10)
>DroAna_CAF1 2457 83 + 1
CCCUACCAGGCCCUGACACUCCACAUGGCCAGCCAGUGCUUGGACGAGUCGCACGAGUCCUUCUACUAACC-----------UGGUCGAAGUCC----
..(.((((((...........(((.(((....))))))...((((..(.....)..)))).........))-----------)))).)......---- ( -21.20)
>consensus
CCCUACCAGGCGCUGACCCUCCACAUGGCCAGCCAGUGCCUGGACGGAUCGCACGAGUCCUUCUACUAAGCGCUACCAGUGGUGGUCGUAAUCC____
.((..((((((((((.....((....)).....))))))))))..(((((....)).))).......................))............. (-18.43 = -19.02 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:56 2006