Locus 2941

Sequence ID 2L_DroMel_CAF1
Location 8,443,836 – 8,443,979
Length 143
Max. P 0.645161
window4667 window4668

overview

Window 7

Location 8,443,836 – 8,443,956
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.11
Mean single sequence MFE -26.62
Consensus MFE -19.13
Energy contribution -19.80
Covariance contribution 0.67
Combinations/Pair 1.11
Mean z-score -2.26
Structure conservation index 0.72
SVM decision value 0.23
SVM RNA-class probability 0.643229
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8443836 120 - 22407834
UGUAUCCUUUUGCGAGGACUCGUCUUCAAUCGCUGCAUUGUUUUUUCGGAAUCUUCUAUGCUUUCUAUGCGGCGUUUCCAAAUUUUGAAAAGUAUUCUUUUGCAAGGACUCGUCUUCAAU
.(((......)))((((((..((((.....((((((((.........(((....))).........))))))))..........((((((((....))))).)))))))..))))))... ( -27.97)
>DroSec_CAF1 3254 117 - 1
UGUAUCUUUUUCCAAGGAUACGCCUUCAAUCGCUGCAUUGUUUUUUCGGACCCUUCUGUGCUUUCCAUGCGGCUCUUCCAAAUUUGGAAAAGUAUUCUUUUCU---UUCUCGUCUUCAAU
.((((((((....))))))))..........(((((((.(......((((....))))......).)))))))............(((((((....)))))))---.............. ( -24.90)
>DroSim_CAF1 2806 117 - 1
UGUAUCUUUUUGCAAGGACUCGUCUUCAAUCGCUGCAUUGUUUUUUCGGACCCUUCUGUGCUUUCCAUGCGGCGCUUCCAAGUUUGGAAGAGUACUCUUUUCU---UUCUCGUCUUCAAU
((((......))))(((((...........((((((((.(......((((....))))......).))))))))((((((....)))))).............---.....))))).... ( -27.00)
>consensus
UGUAUCUUUUUGCAAGGACUCGUCUUCAAUCGCUGCAUUGUUUUUUCGGACCCUUCUGUGCUUUCCAUGCGGCGCUUCCAAAUUUGGAAAAGUAUUCUUUUCU___UUCUCGUCUUCAAU
((((......))))(((((............(((((((.(......((((....))))......).)))))))............(((((((....)))))))........))))).... (-19.13 = -19.80 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,443,876 – 8,443,979
Length 103
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 81.32
Mean single sequence MFE -23.69
Consensus MFE -18.19
Energy contribution -18.53
Covariance contribution 0.34
Combinations/Pair 1.12
Mean z-score -1.58
Structure conservation index 0.77
SVM decision value 0.23
SVM RNA-class probability 0.645161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8443876 103 - 22407834
-------UUUCCA------UUUUCCAAAUUUGAAAAUGUAUCCUUUUGCGAGGACUCGUCUUCAAUCGCUGCAUUGUUUUUUCGGAAUCUUCUAUGCUUUCUAUGCGGCGUUUCCA
-------......------..........(((((.(((..(((((....)))))..))).))))).((((((((.........(((....))).........))))))))...... ( -22.37)
>DroSec_CAF1 3291 116 - 1
UCUGUGCUUUCCAAGUCGCAUUUUCAUAGUUGGAAAUGUAUCUUUUUCCAAGGAUACGCCUUCAAUCGCUGCAUUGUUUUUUCGGACCCUUCUGUGCUUUCCAUGCGGCUCUUCCA
..((((((.....)).))))........((((((..(((((((((....)))))))))..)))))).(((((((.(......((((....))))......).)))))))....... ( -26.90)
>DroSim_CAF1 2843 116 - 1
UCUGUGCUUUCCAUGCGGCUUUUCCAAAUUUAAAAAUGUAUCUUUUUGCAAGGACUCGUCUUCAAUCGCUGCAUUGUUUUUUCGGACCCUUCUGUGCUUUCCAUGCGGCGCUUCCA
((((......(.(((((((.................((((......))))((((....)))).....))))))).)......)))).......(((((........)))))..... ( -21.80)
>consensus
UCUGUGCUUUCCA_G__GCUUUUCCAAAUUUGAAAAUGUAUCUUUUUGCAAGGACUCGUCUUCAAUCGCUGCAUUGUUUUUUCGGACCCUUCUGUGCUUUCCAUGCGGCGCUUCCA
.............................(((((.(((..(((((....)))))..))).)))))..(((((((.(......((((....))))......).)))))))....... (-18.19 = -18.53 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:05 2006