Locus 3270

Sequence ID 2L_DroMel_CAF1
Location 9,475,647 – 9,475,755
Length 108
Max. P 0.693485
window5193

overview

Window 3

Location 9,475,647 – 9,475,755
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.20
Mean single sequence MFE -28.85
Consensus MFE -19.01
Energy contribution -20.05
Covariance contribution 1.04
Combinations/Pair 1.13
Mean z-score -2.07
Structure conservation index 0.66
SVM decision value 0.33
SVM RNA-class probability 0.693485
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9475647 108 + 22407834
---GGGGGACAGCCC-GAGGCUAGCGAAAUGCUAGCUAAAUGUU--------ACGAAAACAACAAAAUGUUUGUGCAUUAUUUACGCGUUGCUGGCAUUUUAUGCUAAUAAAUUACCAAU
---(((((....)))-.....(((((((((((((((....((((--------.....))))....(((((....)))))...........)))))))))))..))))........))... ( -28.00)
>DroPse_CAF1 40813 112 + 1
CCCGGGGGA--------GGGUUGGCAAAAUGUUAGCAGAAUGUUCUUUUGGCAAAACAACAACAAAAUGUUUUUGCAUUAUUUACGCGUUGCUGGCAUUUUAUGCUAAUAAAUUACCAAU
....((..(--------..(((((((((((((((((((..(((.......((((((..(((......))))))))).......)))..))))))))))))..)))))))...)..))... ( -32.84)
>DroSim_CAF1 40012 108 + 1
---GGGGGACAGCCC-GAGGCUAGCGAAAUGCUAGCUAAAUGUU--------ACGAAAACAACAAAAUGUUUGUGCAUUAUUUACGCGUUGCUGGCAUUUUAUGCUAAUAAAUUACCAAU
---(((((....)))-.....(((((((((((((((....((((--------.....))))....(((((....)))))...........)))))))))))..))))........))... ( -28.00)
>DroYak_CAF1 41435 108 + 1
---GGGGGACAGCCC-GAGGCAAGCGAAAUACUAGCUAAAUGUU--------ACGAAAACAACAAAAUGUUUGUGCAUUAUUUACGCGUUGCUGGCAUUUUAUGCUAAUAAAUUACCAAU
---(((((....)))-..(((((((((((((...((((((((((--------.............)))))))).))..))))).))).)))))(((((...))))).........))... ( -23.22)
>DroAna_CAF1 59098 109 + 1
---GAGUGCCUGCCUGGAGGUUAGCAAAAUGUUAGCUAAAUGUU--------GGGAAAACAACAAAAUGUUUGUGCAUUAUUUACGGGUUCCUGGCAUUUUAUGCUAAUAAAUUACCAAU
---...(((..(((....)))..)))...(((((((.((((((.--------.((((..(.....(((((....)))))......)..))))..))))))...))))))).......... ( -32.20)
>consensus
___GGGGGACAGCCC_GAGGCUAGCGAAAUGCUAGCUAAAUGUU________ACGAAAACAACAAAAUGUUUGUGCAUUAUUUACGCGUUGCUGGCAUUUUAUGCUAAUAAAUUACCAAU
...((......(((....)))(((((((((((((((..(((((.............(((((......))))).............)))))))))))))))..)))))........))... (-19.01 = -20.05 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:29 2006