Locus 2863

Sequence ID 3R_DroMel_CAF1
Location 7,685,504 – 7,685,623
Length 119
Max. P 0.557457
window4627

overview

Window 7

Location 7,685,504 – 7,685,623
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.82
Mean single sequence MFE -40.98
Consensus MFE -25.76
Energy contribution -27.23
Covariance contribution 1.48
Combinations/Pair 1.13
Mean z-score -1.55
Structure conservation index 0.63
SVM decision value 0.05
SVM RNA-class probability 0.557457
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7685504 119 + 27905053
UGAAUGCCAUCUAAUGAUCGAUUGAUCACCUCCUUUGUAUGUAUAACAGGGCAACGUCCAGUCCAUCUAUGGACCGGGUCCGCCUCCUUUUCGAGGAGUGGGCGGCCGGGAGGA-GCAGC
....(((.......(((((....)))))((((((((((.......))))(((.....((.(((((....))))).))((((((.(((((...))))))))))).))))))))).-))).. ( -45.00)
>DroSec_CAF1 35360 116 + 1
UCAAUGCCAUCUAAUGAUCGAUUGAUCAUCUCCUUUG----UAUAACAGGGCAACGUCCAGUCCAUCUAUGUACCAUGUCCGCCUCCUUUUCGAGGAGUGGGCGGCCGGGAGCAGGCAGC
....((((.....((((((....))))))(((((..(----((((...((((........)))).....)))))..(((((((.(((((...))))))))))))...)))))..)))).. ( -37.20)
>DroSim_CAF1 35363 116 + 1
ACAAUGCCAUCUAAUGAUCGAUUGAUCAUCUCCUUUG----UAUAACAGGGCAACGUCCAGUCCAUCUAUGGACAAGGUCCGCCUCCUUUUCGAGGAGUGGGCGGCCGGGAGGAGGCAGC
....((((......(((((....)))))((((((...----.......((((...)))).(((((....)))))..((.(((((..((((....))))..))))))))))))).)))).. ( -45.30)
>DroEre_CAF1 35936 115 + 1
CCAAUGCCAUCUUAUGAUCGAUUGAUCAGCUCGUUUG----UAUACCAGGGCAACGUCCAGUCCAUCUAUGGACCAGGUCCGCCUCCUUUUCGAGGAGUGGGCGGACGGGAGGA-GCAGC
....((((.(((..(((((....)))))((((.....----.......))))..(((((.(((((....)))))...((((((.(((((...))))))))))))))))))).).-))).. ( -41.80)
>DroYak_CAF1 35744 115 + 1
UCAAUGCCAUCUAACGAUCGAUUGAUCACCUCCUUUG----UAGAACAGGGCAACGUCCAGUCCAUCUAUGGACCAGGUCCGCCUCCUUUUCGAGGAGUGGGCGGACGGGAGGA-GCAGC
....(((........((((....)))).(((((.(((----(........))))(((((.(((((....)))))...((((((.(((((...))))))))))))))))))))).-))).. ( -45.20)
>DroAna_CAF1 37910 99 + 1
UAAGGGUCAAACACCGAUCAGUUGGUCAUUCCGAGCC----AUUAGCAGGGCAACGUCCAGUCCAUCUGCGGA----GUCCAC--------CGAGCAGUGGGCGGCA-----UAGGAUGC
...((........))((((....))))..(((..(((----.......((((...)))).(((((.((((((.----.....)--------)..)))))))))))).-----..)))... ( -31.40)
>consensus
UCAAUGCCAUCUAAUGAUCGAUUGAUCAUCUCCUUUG____UAUAACAGGGCAACGUCCAGUCCAUCUAUGGACCAGGUCCGCCUCCUUUUCGAGGAGUGGGCGGCCGGGAGGA_GCAGC
....(((........((((....))))..(((((..............((((...)))).((((......))))...((((((.((((.....))))))))))....)))))...))).. (-25.76 = -27.23 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:34 2006