Locus 1978

Sequence ID 3R_DroMel_CAF1
Location 5,590,713 – 5,590,804
Length 91
Max. P 0.652403
window3239

overview

Window 9

Location 5,590,713 – 5,590,804
Length 91
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 72.70
Mean single sequence MFE -33.77
Consensus MFE -22.06
Energy contribution -21.87
Covariance contribution -0.19
Combinations/Pair 1.41
Mean z-score -1.12
Structure conservation index 0.65
SVM decision value 0.25
SVM RNA-class probability 0.652403
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5590713 91 + 27905053
AGCCCAGCUCGCAAGCGGAGUGUCGGUGGCGGUGUGUCACUAAGCCGUCGCAGCUGCUUGCCCGUCUCCAAGCUAACAA-AGAGCAGCAUAA
.((...((((((((((((..((.((..(((((((...))))..)))..)))).))))))))..((......))......-.)))).)).... ( -32.10)
>DroPse_CAF1 970 91 + 1
AGUCCAUCCCGCAAGAUGGGCGCAGGCGGCGGGCUACCAGUAAGCCGCCGGAGCGUUUUGCCUAUACCCAAGACCAAAU-CUGGCAUUUCGC
.(((((((......)))))))...((((((..((.....))..))))))...(((...((((.................-..))))...))) ( -35.01)
>DroSec_CAF1 1088 91 + 1
AGCCCAGCUCGCA-GCGGAGUAUCGGCGGCGGUGUUCCACUAAGCCGUCGCAGCUGCUUGCCCGUCUCCAAGCUAACAAAAGAGCAACAUAA
......((((..(-((((((...((((((((((..........)))))))).((.....)).)).))))..))).......))))....... ( -28.70)
>DroEre_CAF1 1083 91 + 1
AGCCCAGCUCGCAAGCUGAGUGUCGGCGGUGGUCUGGCGGUAGGGCGCCGCAGCUGCUUGCCCGUUUCCAAGCUAACAA-AGGGUAGCAACA
.((((((((.((..((((.....))))((((.((((....)))).))))))))))(((((........)))))......-.))))....... ( -33.70)
>DroYak_CAF1 1285 91 + 1
AGCCCAGCUCGCAAGCUGAGUGUCGGCGGCGGUCUGGCGGUAAGCCGCCGCAGCUGCUUGCCCGUCUCCAAGCUACCAA-AGGGCAGCANNN
.((((((((.((..((((.....))))(((((.((.......)))))))))))))(((((........)))))......-.))))....... ( -38.10)
>DroPer_CAF1 970 91 + 1
AGUCCAUCCCGCAAGAUGGGCGCAGGCGGCGGGCUACCAGUAAGCCGCCGGAGCGUUUUGCCUAUACCCAAGACCAAAU-CUGGCAUUUCGC
.(((((((......)))))))...((((((..((.....))..))))))...(((...((((.................-..))))...))) ( -35.01)
>consensus
AGCCCAGCUCGCAAGCUGAGUGUCGGCGGCGGUCUGCCAGUAAGCCGCCGCAGCUGCUUGCCCGUCUCCAAGCUAACAA_AGGGCAGCACAA
.((((.....((((((((.....(((((((...(.....)...)))))))...))))))))..((......))........))))....... (-22.06 = -21.87 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:15 2006