Locus 3046

Sequence ID 2R_DroMel_CAF1
Location 10,509,207 – 10,509,297
Length 90
Max. P 0.952336
window5017 window5018

overview

Window 7

Location 10,509,207 – 10,509,297
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 94.78
Mean single sequence MFE -15.40
Consensus MFE -13.73
Energy contribution -13.97
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.89
SVM decision value 0.26
SVM RNA-class probability 0.658721
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10509207 90 + 20766785
AUGCAAUUGAAAUUAAAUCGCUUGCAAAUGAUUCGCAAGCUACCUAAAAAAAAAUUGGGCAAUCCAAAAAAUGACAUCGUUUAUGCAGCC
.((((((((..........((((((.........))))))..(((((.......))))))))).....(((((....))))).))))... ( -17.60)
>DroSec_CAF1 9859 89 + 1
AUGCAAUUGAAAUUAAAUCGCUUGCAAAUGAUUCGCAAGCCACCUAAAA-AAAAUUGGGCAAUCCAAAAAAUUACAUCGUUUAUGCAGCC
.((((..(((.........((((((.........))))))..(((((..-....))))).................)))....))))... ( -15.50)
>DroEre_CAF1 10047 88 + 1
AUGCAAUUGAAAUUAAAUCGCCUGCAAAUGAUUCGCAAGCCACCUAAAA--AAAUUGGCCAAUCCAAAAAAUGACAUCGUUUAUGCAGCC
.((((..(((.......)))..))))........(((.((((.......--....)))).........(((((....))))).))).... ( -12.60)
>DroYak_CAF1 6587 88 + 1
AUGCAAUUGAAAUUAAAUCGCUUGCAAAUGAUUCGCAAGCCACCUAAAA--AAAUUGGGAAAUCCAAAAAAUGACAUCGCUUAUGCAGGC
.((((..............((((((.........))))))..(((((..--...)))))........................))))... ( -15.90)
>consensus
AUGCAAUUGAAAUUAAAUCGCUUGCAAAUGAUUCGCAAGCCACCUAAAA__AAAUUGGGCAAUCCAAAAAAUGACAUCGUUUAUGCAGCC
.((((..............((((((.........))))))..............((((.....))))................))))... (-13.73 = -13.97 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,509,207 – 10,509,297
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 94.78
Mean single sequence MFE -21.35
Consensus MFE -20.84
Energy contribution -20.65
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.95
Structure conservation index 0.98
SVM decision value 1.42
SVM RNA-class probability 0.952336
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10509207 90 - 20766785
GGCUGCAUAAACGAUGUCAUUUUUUGGAUUGCCCAAUUUUUUUUUAGGUAGCUUGCGAAUCAUUUGCAAGCGAUUUAAUUUCAAUUGCAU
...((((................((((.....)))).......((((((.((((((((.....)))))))).)))))).......)))). ( -19.20)
>DroSec_CAF1 9859 89 - 1
GGCUGCAUAAACGAUGUAAUUUUUUGGAUUGCCCAAUUUU-UUUUAGGUGGCUUGCGAAUCAUUUGCAAGCGAUUUAAUUUCAAUUGCAU
.............((((((((..((((.....))))....-..((((((.((((((((.....)))))))).))))))....)))))))) ( -22.60)
>DroEre_CAF1 10047 88 - 1
GGCUGCAUAAACGAUGUCAUUUUUUGGAUUGGCCAAUUU--UUUUAGGUGGCUUGCGAAUCAUUUGCAGGCGAUUUAAUUUCAAUUGCAU
((((((((.....))))((.....))....)))).....--..((((((.((((((((.....)))))))).))))))............ ( -20.80)
>DroYak_CAF1 6587 88 - 1
GCCUGCAUAAGCGAUGUCAUUUUUUGGAUUUCCCAAUUU--UUUUAGGUGGCUUGCGAAUCAUUUGCAAGCGAUUUAAUUUCAAUUGCAU
..........(((((........((((.....))))...--..((((((.((((((((.....)))))))).)))))).....))))).. ( -22.80)
>consensus
GGCUGCAUAAACGAUGUCAUUUUUUGGAUUGCCCAAUUU__UUUUAGGUGGCUUGCGAAUCAUUUGCAAGCGAUUUAAUUUCAAUUGCAU
...((((................((((.....)))).......((((((.((((((((.....)))))))).)))))).......)))). (-20.84 = -20.65 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:57 2006