Locus 437

Sequence ID X_DroMel_CAF1
Location 1,281,859 – 1,281,965
Length 106
Max. P 0.877535
window672 window673

overview

Window 2

Location 1,281,859 – 1,281,965
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 85.67
Mean single sequence MFE -42.62
Consensus MFE -30.14
Energy contribution -33.20
Covariance contribution 3.06
Combinations/Pair 1.11
Mean z-score -2.20
Structure conservation index 0.71
SVM decision value 0.90
SVM RNA-class probability 0.877535
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1281859 106 + 22224390
CCGCCCCUCCAACAGUUGCACUUUCUGCCACCCUCUUUCCGAAUCUGAACCAGAGUCUGGAGUCUGGAGGGUGGAUGGUGGAGGGCAAAUAGUGGCGGAGGGACUG
....((((((..((.((((.(((((..(((((((((((((((.((((...)))).)).))))...))))))))).....)))))))))....))..)))))).... ( -46.80)
>DroSec_CAF1 14585 106 + 1
CCGCCCCUCCAACAGUUGCACUUUCUGCCGCCCUCUUUCCGAAUCUGAACCAGAGUCUGGAGUCUGGAGGGUGGAUGGUGGAGGGCAGAUAGUGGCGUAGGGACUG
....(((((((....((((.(((((..(((((((((((((((.((((...)))).)).))))...))))))))).....)))))))))....)))...)))).... ( -42.20)
>DroSim_CAF1 12135 105 + 1
CGGCCCCUCCAACAGUUGCACUUUCUGCCGCCCUCUUUCCAAAUCUGAACCAGAGUCUGGAGUCUGGAGGGUAGA-GUUGGAGGGCAGAUAGUGGCGGAGGGACUG
(((.((((((..(....)((((.((((((((((((((((((..((((...))))...)))))...)))))))...-.......)))))).))))..)))))).))) ( -44.50)
>DroEre_CAF1 16337 92 + 1
-UGCCCCUCCAACAGUUGCACUUUCAGCCGCCCUCUUACCGAAUCUGAACCAGAGUCUCGAGUCUGGAGGGUGGC-GGUGGAA------------CUACGGAACUG
-......(((...((((.((((....((((((((((.(((((.((((...))))...))).))..))))))))))-)))).))------------))..))).... ( -37.00)
>consensus
CCGCCCCUCCAACAGUUGCACUUUCUGCCGCCCUCUUUCCGAAUCUGAACCAGAGUCUGGAGUCUGGAGGGUGGA_GGUGGAGGGCAGAUAGUGGCGGAGGGACUG
....((((((..((.((((.(((((..((((((((((((((..((((...))))...)))))...))))))))).....)))))))))....))..)))))).... (-30.14 = -33.20 +   3.06) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,281,859 – 1,281,965
Length 106
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 85.67
Mean single sequence MFE -38.03
Consensus MFE -27.67
Energy contribution -29.91
Covariance contribution 2.25
Combinations/Pair 1.17
Mean z-score -1.86
Structure conservation index 0.73
SVM decision value 0.55
SVM RNA-class probability 0.780038
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1281859 106 - 22224390
CAGUCCCUCCGCCACUAUUUGCCCUCCACCAUCCACCCUCCAGACUCCAGACUCUGGUUCAGAUUCGGAAAGAGGGUGGCAGAAAGUGCAACUGUUGGAGGGGCGG
..(((((((((.((....((((.((.......((((((((.....(((.((.((((...)))).)))))..)))))))).....)).)))).)).))))))))).. ( -41.80)
>DroSec_CAF1 14585 106 - 1
CAGUCCCUACGCCACUAUCUGCCCUCCACCAUCCACCCUCCAGACUCCAGACUCUGGUUCAGAUUCGGAAAGAGGGCGGCAGAAAGUGCAACUGUUGGAGGGGCGG
..((((((..((((((.((((((.(((.(..(((.....(((((........))))).........)))..).))).)))))).)))).....))...)))))).. ( -35.94)
>DroSim_CAF1 12135 105 - 1
CAGUCCCUCCGCCACUAUCUGCCCUCCAAC-UCUACCCUCCAGACUCCAGACUCUGGUUCAGAUUUGGAAAGAGGGCGGCAGAAAGUGCAACUGUUGGAGGGGCCG
..((((((((((((((.((((((.......-....(((((.....((((((.((((...))))))))))..))))).)))))).)))).....).))))))))).. ( -42.40)
>DroEre_CAF1 16337 92 - 1
CAGUUCCGUAG------------UUCCACC-GCCACCCUCCAGACUCGAGACUCUGGUUCAGAUUCGGUAAGAGGGCGGCUGAAAGUGCAACUGUUGGAGGGGCA-
..(((((.(((------------((.(((.-(((.(((((...((.((((..((((...))))))))))..))))).))).....))).))))).....))))).- ( -32.00)
>consensus
CAGUCCCUCCGCCACUAUCUGCCCUCCACC_UCCACCCUCCAGACUCCAGACUCUGGUUCAGAUUCGGAAAGAGGGCGGCAGAAAGUGCAACUGUUGGAGGGGCGG
..(((((((((.((((.((((((.(((....(((.....(((((........))))).........)))....))).)))))).)))).......))))))))).. (-27.67 = -29.91 +   2.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:34 2006