Locus 1531

Sequence ID 3R_DroMel_CAF1
Location 4,368,785 – 4,368,880
Length 95
Max. P 0.595822
window2540

overview

Window 0

Location 4,368,785 – 4,368,880
Length 95
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 88.07
Mean single sequence MFE -20.18
Consensus MFE -17.28
Energy contribution -17.56
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.39
Structure conservation index 0.86
SVM decision value 0.13
SVM RNA-class probability 0.595822
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4368785 95 + 27905053
CACACACACAGCUCCCU-----CCGCCCAUCCGGCAGAACAAAGAAAACAGAUAUAUUAGCGACCAAAUGCAUACAUGCACCGGAGUAUCUGGGAGAACG
...............((-----(((((.....))).............(((((((........((...((((....))))..)).))))))))))).... ( -19.00)
>DroSim_CAF1 46174 86 + 1
---------ACCUCCCU-----CCGCCCAUCCGGCAGAACAAAGAAAACAGAUAUAUUAGCGACCAAAUGCAUACAUGCACUGGAGUAUCUGGGAGAACG
---------......((-----(((((.....))).............(((((((.((((........((((....)))))))).))))))))))).... ( -21.50)
>DroEre_CAF1 57232 90 + 1
-----ACACACCUCCCC-----CCGCCCAUCCGGCAGAACAAAGAAAACAGAUAUAUUAGCGACCAAAUGCAUACAUGCACUGGAGUAUCUGGGAGAACG
-----......((((..-----..(((.....))).............(((((((.((((........((((....)))))))).))))))))))).... ( -20.60)
>DroYak_CAF1 48469 95 + 1
-----ACACACCUCCCUCACAUCCGCCCAUCCGGCAGAACAAAGAAAACAGAUAUAUUAGCGACCAAAUGCAUACAUGCACUGGAGUAUCUGGGAGAACG
-----......(((((.....((.(((.....))).))...........((((((.((((........((((....)))))))).))))))))))).... ( -21.50)
>DroAna_CAF1 53753 89 + 1
------CACCCUUCCUC-----CAGCUCUUCCGGCAGAACAAAGAAAACAGAUAUAUUAGCGACCAACAGCAUACAUGCACUGGAGUAUCUGUGAGAGCG
------...........-----..((((((..(......).......((((((((.((((.(.....).(((....))).)))).)))))))))))))). ( -18.30)
>consensus
_____ACACACCUCCCU_____CCGCCCAUCCGGCAGAACAAAGAAAACAGAUAUAUUAGCGACCAAAUGCAUACAUGCACUGGAGUAUCUGGGAGAACG
...........((((.........(((.....))).............(((((((.((((........((((....)))))))).))))))))))).... (-17.28 = -17.56 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:55 2006