Locus 3784

Sequence ID 3R_DroMel_CAF1
Location 10,256,099 – 10,256,204
Length 105
Max. P 0.716595
window6068

overview

Window 8

Location 10,256,099 – 10,256,204
Length 105
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 68.30
Mean single sequence MFE -30.47
Consensus MFE -16.66
Energy contribution -20.46
Covariance contribution 3.80
Combinations/Pair 1.14
Mean z-score -1.58
Structure conservation index 0.55
SVM decision value 0.39
SVM RNA-class probability 0.716595
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10256099 105 + 27905053
CCCGAAUGGGGAUAAUUCUCUGGGCUUACUCCGAUACCCUUUCCAGGGAGUUGUCACCAUUUAUGGGAUGGAAAUUA------GUCA------CUUUCCAAGGGAAAAUUAUUUGAA-
(((((((((.((((((((((((((.................)))))))))))))).))))))......((((((...------....------.)))))).))).............- ( -34.53)
>DroSec_CAF1 113783 105 + 1
CCCGAAUGGGGAUAAUUCUCUGGGCUUACAUCGAUACCCUUUCCAGGGAGCAGCCACCAUUUAUGGGAUGGAAAUUG------GUCA------UUUUCCAAGGGAAAAUUCUUGGAA-
(((((((((((....(((((((((.................)))))))))...)).))))))..)))..........------....------..(((((((((....)))))))))- ( -29.93)
>DroSim_CAF1 112361 105 + 1
CCCGAAUGGGGAUCAUUCUCUGGGCUUACAUCGAUACCCUUUCCAGGGAGUUGUCACCACUUAUUGGAUGGAAAUUG------GUCA------UUUUCCAAGGGAAAAUUCUUUGAA-
(((...(((.(((.((((((((((.................)))))))))).))).))).........((((((...------....------.)))))).))).............- ( -28.23)
>DroEre_CAF1 114268 104 + 1
CCCGAGUGCGGAUGA-UCUCUGGGCUCAGUGCGAUACCCUUUCCAGGGAGCCUUCCCCUCCAAGUGAAUGAGAAUGGCACUCUACUAUCAUCUAUCUACAAGUAG-------------
...((((.((((...-..)))).))))(((((.((.(.(.((((..((((.......))))..).))).).).)).)))))(((((..............)))))------------- ( -26.44)
>DroYak_CAF1 120663 107 + 1
CCCGAGUAGGGAUAAUUCUCUGGGCUCAGUUCG-UACCCUUUCCAGUGAGUUUUCCCCUUUAA-----UGGAAAAGAAGAUCCACUAU-----AUUUACAGGGGAAAAUGGGGUAUAU
...(((((((((....)))))..)))).....(-((((((.........((((((((((.(((-----((((........))))....-----..))).))))))))))))))))).. ( -33.20)
>consensus
CCCGAAUGGGGAUAAUUCUCUGGGCUUACUUCGAUACCCUUUCCAGGGAGUUGUCACCAUUUAUGGGAUGGAAAUUG______GUCA______AUUUCCAAGGGAAAAUUCUUUGAA_
(((((((((.((((((((((((((.................)))))))))))))).))))))......((((((....................)))))).))).............. (-16.66 = -20.46 +   3.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:02 2006