Locus 6872

Sequence ID X_DroMel_CAF1
Location 17,159,867 – 17,159,963
Length 96
Max. P 0.877506
window11245 window11246

overview

Window 5

Location 17,159,867 – 17,159,963
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 89.58
Mean single sequence MFE -20.37
Consensus MFE -16.27
Energy contribution -15.90
Covariance contribution -0.37
Combinations/Pair 1.24
Mean z-score -1.60
Structure conservation index 0.80
SVM decision value 0.27
SVM RNA-class probability 0.663396
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17159867 96 + 22224390
UCGCCCCAUUUCCUCACAACAAUGUAGUUGUGGAAAUCAGAAUAACAUCAAUUUAAAUGGUUAUCCAAUUCGUUGGAUAUUUAUUUAUAUUUAGGG
....(((((((((..(((((......)))))))))))............(((.(((((((.(((((((....))))))).))))))).)))..))) ( -23.40)
>DroSec_CAF1 4975 96 + 1
UCGCCCCAUUUCCUCACAACAAUAUAGUUGUGGAAAUCACAAUAACAUUAAUUUAAGUGCUUAUCCAAUUCGUUGGGUAUUUUUUUAUAUUUAGGG
....(((((((((..(((((......)))))))))))...........(((..((((....(((((((....)))))))....))))...)))))) ( -19.30)
>DroSim_CAF1 11120 96 + 1
UCGCCCCAAUUCCUCACAACAAUGUAGUUGUGGAAAUCACAAUAACAUUAAUUUAAGUGCUUAUCCAAUUCGUUGGGUAUUUUUUUAUAUUUAGGG
....(((.............(((((.((((((.....)))))).)))))....((((....(((((((....)))))))....))))......))) ( -19.90)
>DroEre_CAF1 11032 95 + 1
UCGCCCCAUUUGCUCACAACAAUGAAGUUGCGCAAAUCGCAAUCACAUCAAUUUAAAUGGUUAUCCGAUUCGUUGGGUGUUUUUGUGUAUUUAG-G
.....((((((((...((((......)))).))))))(((((..(((((........(((....)))........)))))..)))))......)-) ( -18.89)
>consensus
UCGCCCCAUUUCCUCACAACAAUGUAGUUGUGGAAAUCACAAUAACAUCAAUUUAAAUGCUUAUCCAAUUCGUUGGGUAUUUUUUUAUAUUUAGGG
....(((((((((..(((((......)))))))))))................((((....(((((((....)))))))....))))......))) (-16.27 = -15.90 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,159,867 – 17,159,963
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 89.58
Mean single sequence MFE -22.02
Consensus MFE -16.75
Energy contribution -16.50
Covariance contribution -0.25
Combinations/Pair 1.20
Mean z-score -2.27
Structure conservation index 0.76
SVM decision value 0.90
SVM RNA-class probability 0.877506
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17159867 96 - 22224390
CCCUAAAUAUAAAUAAAUAUCCAACGAAUUGGAUAACCAUUUAAAUUGAUGUUAUUCUGAUUUCCACAACUACAUUGUUGUGAGGAAAUGGGGCGA
((((((((.(((((...(((((((....)))))))...))))).))).............((((((((((......)))))).)))).)))))... ( -23.20)
>DroSec_CAF1 4975 96 - 1
CCCUAAAUAUAAAAAAAUACCCAACGAAUUGGAUAAGCACUUAAAUUAAUGUUAUUGUGAUUUCCACAACUAUAUUGUUGUGAGGAAAUGGGGCGA
(((((...............((((....)))).......((((...((((((..(((((.....)))))..))))))...))))....)))))... ( -19.80)
>DroSim_CAF1 11120 96 - 1
CCCUAAAUAUAAAAAAAUACCCAACGAAUUGGAUAAGCACUUAAAUUAAUGUUAUUGUGAUUUCCACAACUACAUUGUUGUGAGGAAUUGGGGCGA
((((((..............((((....)))).......((((...((((((..(((((.....)))))..))))))...))))...))))))... ( -22.60)
>DroEre_CAF1 11032 95 - 1
C-CUAAAUACACAAAAACACCCAACGAAUCGGAUAACCAUUUAAAUUGAUGUGAUUGCGAUUUGCGCAACUUCAUUGUUGUGAGCAAAUGGGGCGA
.-.................((((.(((((((.(....((((......))))....).)))))))((((((......))))))......)))).... ( -22.50)
>consensus
CCCUAAAUAUAAAAAAAUACCCAACGAAUUGGAUAACCACUUAAAUUAAUGUUAUUGUGAUUUCCACAACUACAUUGUUGUGAGGAAAUGGGGCGA
...................((((..(((((((((((.((((......))))))))).)))))).((((((......))))))......)))).... (-16.75 = -16.50 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:54 2006