Locus 5548

Sequence ID 2R_DroMel_CAF1
Location 17,694,079 – 17,694,196
Length 117
Max. P 0.612703
window8899

overview

Window 9

Location 17,694,079 – 17,694,196
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.20
Mean single sequence MFE -39.60
Consensus MFE -29.07
Energy contribution -29.13
Covariance contribution 0.06
Combinations/Pair 1.25
Mean z-score -1.34
Structure conservation index 0.73
SVM decision value 0.16
SVM RNA-class probability 0.612703
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17694079 117 + 20766785
---UUACCAUCUGUCCUUUCAGACCAUGCCGAAUGGUUUGGAUGACCAGGAGAAGCUGCUCGCUGAAGCCAUUGGACUAGCGAGGAAGCAGGCCUUUCAAAUGAACCACUUUCUGGAUAA
---...((.((((..(.((((((((((.....)))))))))).)..))))(((((((.(((((((...((...))..)))))))..))).((...(((....)))))...)))))).... ( -36.30)
>DroVir_CAF1 15 117 + 1
---AUGCUAUGUCUCAUUCCAGACGAUGCCGAAUGGUUUGGACGACCAGGAGAAGCUGCUAGCCGAGGCGGUCGGUGCAGCACGCAAACAGGCAUUCCAAAUGAAUCACUUUCUGGACAA
---......((((.((..(((..((....))..)))..)))))).(((((((..(((((..(((((.....))))))))))..((......))................))))))).... ( -35.50)
>DroPse_CAF1 2874 120 + 1
CACCUUCUAUGUCUCGUUUCAGACCAUGCCCAAUGGUUUGGAUGACCAGGAGAAGCUGCUCGCCGAGGCCGUCGGGGCAGCCCGCAAGCAGGCCUUCCAGAUGAACCACUUCCUGGACAA
.........(((((((((.((((((((.....))))))))))))).((((((......(((...((((((((((((....))))...)).))))))...)).)......)))))))))). ( -41.20)
>DroWil_CAF1 614 117 + 1
---UUGCUAUACUUCUUUCCAGACCAUGCCCAAUGGUUUGGAUGACCAGGAGAAGCUACUGGCCGAGGCGGUAGGUGCGGCCCGCAAGCAGGCAUUCCAGAUGAAUCAUUUUCUGGACAA
---.((((...(((((.((((((((((.....)))))))))).....)))))..(((.(.(((((..((.....)).))))).)..))).)))).((((((..........))))))... ( -42.40)
>DroAna_CAF1 1 101 + 1
-------------------CAGACCAUGCCGAAUGGUUUGGAUGACCAGGAGAAGCUGCUCGCGGAGGCGAUCGGAGCGGCCCGCAAGCAGGCCUUCCAGAUGAACCAUUUCCUGGACAA
-------------------((((((((.....))))))))..((.((((((((....(.((((....)))).)((((.(((((....)..))))))))..........)))))))).)). ( -41.00)
>DroPer_CAF1 432 120 + 1
CACCUUCUAUGUCUCGUUUCAGACCAUGCCCAAUGGUUUGGAUGACCAGGAGAAGCUGCUCGCCGAGGCCGUCGGGGCAGCCCGCAAGCAGGCCUUCCAGAUGAACCACUUCCUGGACAA
.........(((((((((.((((((((.....))))))))))))).((((((......(((...((((((((((((....))))...)).))))))...)).)......)))))))))). ( -41.20)
>consensus
___CUGCUAUGUCUCGUUUCAGACCAUGCCCAAUGGUUUGGAUGACCAGGAGAAGCUGCUCGCCGAGGCCGUCGGAGCAGCCCGCAAGCAGGCCUUCCAGAUGAACCACUUCCUGGACAA
.................((((((((((.....))))))))))...(((((((..(((((...((((.....)))).))))).........((....))...........))))))).... (-29.07 = -29.13 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:27 2006