Locus 5800

Sequence ID 2L_DroMel_CAF1
Location 16,441,943 – 16,442,033
Length 90
Max. P 0.543760
window9199

overview

Window 9

Location 16,441,943 – 16,442,033
Length 90
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 71.11
Mean single sequence MFE -15.92
Consensus MFE -9.56
Energy contribution -9.20
Covariance contribution -0.36
Combinations/Pair 1.20
Mean z-score -1.20
Structure conservation index 0.60
SVM decision value 0.02
SVM RNA-class probability 0.543760
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16441943 90 + 22407834
AUAGUAGG-------AACUAUUUUAUUAACCAC---CUAAUCAAUCAUUUCG-UUAGGGUACUUCGAUGUCCCCAAACUGCAUCCCCAGUUCGACUAUAUA
(((((..(-------((((.............(---(((((.((....)).)-))))).......(((((.........)))))...))))).)))))... ( -17.10)
>DroSec_CAF1 66429 93 + 1
AUAGUAGG-------AACUAUUUUAUUAACCACUUCCUUAUCAUUCUUUUCG-UUAGGGUACUUUGAUGUCCCCAAACUGCAUCCCCAGUUCGACUAUAUA
(((((..(-------((((.......(((........)))...........(-((.(((.((......)).))).))).........))))).)))))... ( -13.70)
>DroSim_CAF1 66754 93 + 1
AUAGUAGG-------AACUAUUUUAUUAACCACUUCCUUAUCAUUCUUUUCG-UUAGGGUACUUUGAUGUCCCCAAACUGCACCCCCAGUUCGACUAUAUA
(((((..(-------((((.......(((........)))...........(-((.(((.((......)).))).))).........))))).)))))... ( -13.70)
>DroEre_CAF1 63928 74 + 1
------CU-------ACCACUUUU-------------CAAUCAAACUCUUCG-CCAGGGUACUUUGAUGUGCCCAAGCUGCAUCCCCAGUUCGACUACAUC
------..-------.........-------------............(((-...((((((......)))))).(((((......))))))))....... ( -14.20)
>DroYak_CAF1 67641 77 + 1
GUAGUAGA-------AACAAUUUU---------------AUCAACCUUUUUG--CAGGGUACUUUGAUGUCCCCAAACUGCAUCCCCAGUUCGAAUAUAUC
...(((((-------((.......---------------.......))))))--).(((.((......)).))).(((((......))))).......... ( -11.14)
>DroPer_CAF1 41154 90 + 1
-GAGCAGGCCAUGGAAAUGGGCGU----AGCAC-----UGA-AAUCCUUUCGUUUAGGGUACUUCGAUGUCCCCAAGCUGCAUCCCCAGCUGGACUACAUC
-..((.(.((((....)))).)..----.))..-----.((-((((((.......)))))..)))(((((..(((.((((......)))))))...))))) ( -25.70)
>consensus
AUAGUAGG_______AACUAUUUU____ACCAC____UUAUCAAUCUUUUCG_UUAGGGUACUUUGAUGUCCCCAAACUGCAUCCCCAGUUCGACUAUAUA
........................................................(((.((......)).))).(((((......))))).......... ( -9.56 =  -9.20 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:14 2006