Locus 6016

Sequence ID 3R_DroMel_CAF1
Location 15,842,776 – 15,842,892
Length 116
Max. P 0.641422
window9817

overview

Window 7

Location 15,842,776 – 15,842,892
Length 116
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 81.03
Mean single sequence MFE -39.87
Consensus MFE -24.23
Energy contribution -26.07
Covariance contribution 1.84
Combinations/Pair 1.29
Mean z-score -1.86
Structure conservation index 0.61
SVM decision value 0.22
SVM RNA-class probability 0.641422
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15842776 116 - 27905053
CCAGGGACAUGGCUUCCAUGUCCCGAUUGCCGUUCUCAUAGACGUGGAUGUCCGAGUUGGAGACAGCCACUGAGCCCGUUCGAAUGAGGACGUCUGUACGAGAAUCAAGUGACCGA
...(((((((((...)))))))))(.(..(.((((((((((((((((.(((((......).)))).)))).......((((......))))))))))..))))))...)..).).. ( -44.00)
>DroSec_CAF1 5419 116 - 1
CCAGGGACAUAGCCUCCAUGUCCCGAUUGCCGUUCUCAAAGACAUGGAUGUCCGAGUUGGAGACGGCCACUGAGCCCGUUCGAAUGAGGACGUCUGUCCGCGAAAGGAGUGAUCGA
...(((((((.......)))))))(((((((((.(((...(((.(((....))).))).))))))))......((((.((((.....((((....)))).)))).)).)))))).. ( -42.90)
>DroSim_CAF1 9025 116 - 1
CCAGGGACAUAGCUUCCAUGUCCCGAUUGCCGUUCUCAAAGACAUGGAUGUCCGAGUUGGAGACGGCCACUGAGCCCGUUCGAAUGAGGACGUCUGUCCGAGAAACGAGUGAUCGA
...(((((((.......)))))))(((..((((((((...((((..(((((((..(((.(((..(((......)))..))).)))..))))))))))).))).)))).)..))).. ( -48.60)
>DroEre_CAF1 5326 116 - 1
CCAGGGACAUGCCUUCUAUGUCCCGAUUGCCGUUCUCAUAGACAUGGAUGUCCGAGUUCGAGAUGGCCACUGAGGCCGUCCGGAUAAGGACGUCUUUAUAAGAAACGAAAGAUUGA
...((((((((.....))))))))((((..((((((.((((....((((((((..(((((.(((((((.....))))))))))))..)))))))))))).)).))))...)))).. ( -48.50)
>DroWil_CAF1 7502 114 - 1
CUAAGGUCAUACCCUCUACAUCCCGAUUGCCGUUCUCAUAUACAUGGAUAUCCGACCCGGUAAUUGCCACCGAACCAGUGCGUAUUAGAACAUCUGUA--AGAUGCAAAUAGUUAA
...(((......)))...........((((.(((((.(((..(((((....))....((((.......)))).....)))..))).)))))(((....--.)))))))........ ( -19.60)
>DroYak_CAF1 6858 116 - 1
CCAGGGACAUGGCUUCUAUGUCUUUAUUGCCGUUCUCGUAGACAUGGAUGUCCGAGUUCGAGACGGCCACUGAGCCCGUCCGAAUAAGAACGUCUGUAUAAGAAAGGAGAGAUCGA
..((((((((((...)))))))))).....((.(((((....)((((((((.(..(((((.(((((.(.....).))))))))))..).))))))))...........)))).)). ( -35.60)
>consensus
CCAGGGACAUAGCUUCCAUGUCCCGAUUGCCGUUCUCAUAGACAUGGAUGUCCGAGUUGGAGACGGCCACUGAGCCCGUUCGAAUGAGGACGUCUGUACGAGAAACGAGUGAUCGA
...((((((((.....))))))))(((((((((.(((...(((.(((....))).))).)))))))).........(((((......)))))..................)))).. (-24.23 = -26.07 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:31 2006