Locus 4191

Sequence ID X_DroMel_CAF1
Location 10,999,502 – 10,999,622
Length 120
Max. P 0.860506
window6889 window6890

overview

Window 9

Location 10,999,502 – 10,999,622
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.89
Mean single sequence MFE -37.28
Consensus MFE -22.08
Energy contribution -24.32
Covariance contribution 2.25
Combinations/Pair 1.13
Mean z-score -2.00
Structure conservation index 0.59
SVM decision value 0.06
SVM RNA-class probability 0.563460
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10999502 120 + 22224390
AGUGAUUGUUGUGGGAACGGUAUUUCCCGCACCUGCUAGUGCCAAGUGUGACCAUACCCGGGUCACCAUUUGGUAUCGGUAUUUUUUGCAGUAUUUUUACACGAAUAAUUGGUGCGAAAG
.........((((((((......))))))))..(((..(((((((((((((((.......))))).))))))))))..)))..((((((((((....))).(((....))).))))))). ( -41.40)
>DroSim_CAF1 13875 120 + 1
AGUGAUUGUUGUGGGAACGUUAUUUCCCGCACCUGCUAGUGCCGAGUGUGACCAUACCCGGCUGGCCUUUUGGUAUCAGUAUUUUUUGCAGUAUUUCUACACGAAUAAUUGGUGCGAAAG
.........((((((((......))))))))...((((..((((.((((....)))).))))))))..(((.((((((((..(((.((.((.....)).)).)))..)))))))).))). ( -34.50)
>DroEre_CAF1 11096 113 + 1
AGG----GGUAAAGAAGCAGUAUUUUCCGCACCUGCUAGUGC--AGUGUGGCCAUACCCGGCUGGC-UAUUGGUAUCGGUAUUUUUUGCAGUAUUUUUGCACGAAUUAUUGGUGCGAAAG
...----(((.....(((.((((...((((((.(((....))--)))))))..))))...))).))-).((.(((((((((.(((.(((((.....))))).))).))))))))).)).. ( -35.70)
>DroYak_CAF1 11918 119 + 1
AGUGACUGGUAUAGAAACAGUAUUUUCAGCACCUG-UAGGACAGAGUGUGACCAUACCAGUCUGGCCUUUUGGUAUCAGUAUUUUUGGCAGUAUUUUUGCACGAAUAAUUGGUGCGAAAG
...(((((((((.((((......)))).(((((((-.....))).))))....)))))))))......(((.((((((((...((((((((.....)))).))))..)))))))).))). ( -37.50)
>consensus
AGUGAUUGGUAUAGAAACAGUAUUUCCCGCACCUGCUAGUGCCGAGUGUGACCAUACCCGGCUGGCCUUUUGGUAUCAGUAUUUUUUGCAGUAUUUUUACACGAAUAAUUGGUGCGAAAG
.......((((((((((......)))))))))).((((((.....((((....))))...))))))..(((.((((((((..(((.(((((.....))))).)))..)))))))).))). (-22.08 = -24.32 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,999,502 – 10,999,622
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.89
Mean single sequence MFE -29.65
Consensus MFE -19.30
Energy contribution -19.80
Covariance contribution 0.50
Combinations/Pair 1.13
Mean z-score -2.24
Structure conservation index 0.65
SVM decision value 0.83
SVM RNA-class probability 0.860506
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10999502 120 - 22224390
CUUUCGCACCAAUUAUUCGUGUAAAAAUACUGCAAAAAAUACCGAUACCAAAUGGUGACCCGGGUAUGGUCACACUUGGCACUAGCAGGUGCGGGAAAUACCGUUCCCACAACAAUCACU
.....(((((......(((.(((................))))))..((((...((((((.......))))))..))))........)))))(((((......)))))............ ( -30.89)
>DroSim_CAF1 13875 120 - 1
CUUUCGCACCAAUUAUUCGUGUAGAAAUACUGCAAAAAAUACUGAUACCAAAAGGCCAGCCGGGUAUGGUCACACUCGGCACUAGCAGGUGCGGGAAAUAACGUUCCCACAACAAUCACU
.....(((((..........(((....)))(((..............((....))...(((((((........)))))))....))))))))(((((......)))))............ ( -34.10)
>DroEre_CAF1 11096 113 - 1
CUUUCGCACCAAUAAUUCGUGCAAAAAUACUGCAAAAAAUACCGAUACCAAUA-GCCAGCCGGGUAUGGCCACACU--GCACUAGCAGGUGCGGAAAAUACUGCUUCUUUACC----CCU
.(((((((((.........((((.......))))...................-((((........)))).....(--((....)))))))))))).................----... ( -24.20)
>DroYak_CAF1 11918 119 - 1
CUUUCGCACCAAUUAUUCGUGCAAAAAUACUGCCAAAAAUACUGAUACCAAAAGGCCAGACUGGUAUGGUCACACUCUGUCCUA-CAGGUGCUGAAAAUACUGUUUCUAUACCAGUCACU
.....((((.........)))).........(((...................)))..(((((((((((((((((.(((.....-)))))).)))...........)))))))))))... ( -29.41)
>consensus
CUUUCGCACCAAUUAUUCGUGCAAAAAUACUGCAAAAAAUACCGAUACCAAAAGGCCAGCCGGGUAUGGUCACACUCGGCACUAGCAGGUGCGGAAAAUACCGUUCCCACAACAAUCACU
.(((((((((.........((((.......))))......(((.(((((....((....)).)))))))).................)))))))))........................ (-19.30 = -19.80 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:47 2006