Locus 4367

Sequence ID 2L_DroMel_CAF1
Location 12,567,742 – 12,567,839
Length 97
Max. P 0.793100
window6879 window6880

overview

Window 9

Location 12,567,742 – 12,567,839
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -20.37
Consensus MFE -13.84
Energy contribution -14.27
Covariance contribution 0.44
Combinations/Pair 1.16
Mean z-score -1.56
Structure conservation index 0.68
SVM decision value -0.04
SVM RNA-class probability 0.513348
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12567742 97 + 22407834
UGAUUCGCAGGAAAAUUUCCUUGGCCAUGCCGUUUGACCAUUUCCACUCUCUCCCCAUCGAGCUGCUUUUCCGAGCUGCUUUUCCGGCCUUUGCCAU
.........((((((.(..(((((....((.((((((....................)))))).))....)))))..).))))))(((....))).. ( -22.05)
>DroSec_CAF1 132914 92 + 1
UGAUUCGCAGGAAAAUUUCCUUGGCCGUGCCGUUUGACCAUUUCCACUCUCUCCCCU-----CGGCUUUUCCGAGCUGCUUUUCCGGCCUUUGCCAU
.........((((((.(..(((((....((((.........................-----))))....)))))..).))))))(((....))).. ( -21.11)
>DroSim_CAF1 135589 92 + 1
UGAUUCGCAGGAAAAUUUCCUUGGCCAUGCCGUUUGACCAAUUCCACUCUCUCCCCU-----CGGCCUUUUCGAGCUGCUUUUCCGGCCUUUGCCAU
.........((((((.(..(((((....((((.........................-----))))....)))))..).))))))(((....))).. ( -17.91)
>DroEre_CAF1 131714 78 + 1
UGAUUCGCAGGAAAAUUUCUUCGG------------UCCAAUUCCACUCCCC--CCG-----CGGCCCAUCUGCGCCGCUUUUCCGGCCUUUGCCAU
.........((((((.......((------------.......)).......--..(-----((((.(....).)))))))))))(((....))).. ( -20.40)
>consensus
UGAUUCGCAGGAAAAUUUCCUUGGCCAUGCCGUUUGACCAAUUCCACUCUCUCCCCU_____CGGCCUUUCCGAGCUGCUUUUCCGGCCUUUGCCAU
.........((((((.......((.((.......)).)).......................((((((....)))))).))))))(((....))).. (-13.84 = -14.27 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,567,742 – 12,567,839
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 80.95
Mean single sequence MFE -25.98
Consensus MFE -18.26
Energy contribution -19.07
Covariance contribution 0.81
Combinations/Pair 1.12
Mean z-score -1.84
Structure conservation index 0.70
SVM decision value 0.59
SVM RNA-class probability 0.793100
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12567742 97 - 22407834
AUGGCAAAGGCCGGAAAAGCAGCUCGGAAAAGCAGCUCGAUGGGGAGAGAGUGGAAAUGGUCAAACGGCAUGGCCAAGGAAAUUUUCCUGCGAAUCA
.((((....((((....(((.(((......))).))).........((..((....))..))...))))...))))((((.....))))........ ( -24.80)
>DroSec_CAF1 132914 92 - 1
AUGGCAAAGGCCGGAAAAGCAGCUCGGAAAAGCCG-----AGGGGAGAGAGUGGAAAUGGUCAAACGGCACGGCCAAGGAAAUUUUCCUGCGAAUCA
.((((....((((.........(((((.....)))-----))....((..((....))..))...))))...))))((((.....))))........ ( -27.60)
>DroSim_CAF1 135589 92 - 1
AUGGCAAAGGCCGGAAAAGCAGCUCGAAAAGGCCG-----AGGGGAGAGAGUGGAAUUGGUCAAACGGCAUGGCCAAGGAAAUUUUCCUGCGAAUCA
.((((....))))((...((((((((.......))-----))....((((((....(((((((.......)))))))....))))))))))...)). ( -27.30)
>DroEre_CAF1 131714 78 - 1
AUGGCAAAGGCCGGAAAAGCGGCGCAGAUGGGCCG-----CGG--GGGGAGUGGAAUUGGA------------CCGAAGAAAUUUUCCUGCGAAUCA
.((((....))))((.....(((.(....).)))(-----(((--(..((.(((.......------------)))......))..)))))...)). ( -24.20)
>consensus
AUGGCAAAGGCCGGAAAAGCAGCUCGGAAAAGCCG_____AGGGGAGAGAGUGGAAAUGGUCAAACGGCAUGGCCAAGGAAAUUUUCCUGCGAAUCA
.((((....))))((...((((..........((.......))...((((((....(((((((.......)))))))....))))))))))...)). (-18.26 = -19.07 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:07 2006