Locus 6447

Sequence ID 3L_DroMel_CAF1
Location 17,226,239 – 17,226,334
Length 95
Max. P 0.530257
window10351

overview

Window 1

Location 17,226,239 – 17,226,334
Length 95
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.73
Mean single sequence MFE -22.38
Consensus MFE -15.48
Energy contribution -16.28
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.27
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.530257
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17226239 95 + 23771897
GCGAA-------UGGCGAAUGGCAAACGACACAAUGUAUCCCGAUCCCAAUCCCAAU------------------CCCAGACCGAAUCCUUUCGGGUCUGAAAUAUUGGCCUAGCGAUUU
((((.-------(((.((.(((...(((......)))...))).))))).))(((((------------------..(((((((((....))).))))))....)))))....))..... ( -23.70)
>DroSec_CAF1 109677 81 + 1
G---------------------CGAACGGCGCAAUGUAUUCUGAUCCCAAUCCCAAU------------------CCCAGACCGAAUCCUUUCGGGUCUGAAAUAUUGGCCUAGCGAUUU
(---------------------(....(((.((((((.....(((....))).....------------------..(((((((((....))).))))))..)))))))))..))..... ( -21.60)
>DroSim_CAF1 103380 81 + 1
G---------------------CAAACGGCACAAUGUAUUCUGAUCCCAAUCCCAAU------------------CCCAGACCGAAUCCUUUCGGGUCUGAAAUAUUGGCCUAGCGAUUU
(---------------------(....(((.((((((.....(((....))).....------------------..(((((((((....))).))))))..)))))))))..))..... ( -20.50)
>DroEre_CAF1 113554 120 + 1
GCAAAUGGUAAAUGGUAAAUGGCAAACGGCACAAUGUGUCCCGAUCCCAAUCCCAAUCCCAAUCCCAGACCGAAUCCCAGACCGAAUCCUUUCGGGUCUGAAAUAUUGGCCUAGCGAUUU
((...(((....(((....(((....(((.((.....)).)))...)))...)))...))).....((.((((((..(((((((((....))).))))))..)).)))).)).))..... ( -27.20)
>DroYak_CAF1 116328 82 + 1
GCAAA--------------UGGCAAACAGCACCAUGUAUUCCGAUCCCAAU------------------------CCCAGACCGAAUCCUUUCGGGUCUGAAAUAUUGGCCUAGCGAUUU
((...--------------(((...(((......)))...)))...(((((------------------------..(((((((((....))).))))))....)))))....))..... ( -18.90)
>consensus
GC_AA______________UGGCAAACGGCACAAUGUAUUCCGAUCCCAAUCCCAAU__________________CCCAGACCGAAUCCUUUCGGGUCUGAAAUAUUGGCCUAGCGAUUU
...........................(((.((((((.....(((....))).........................(((((((((....))).))))))..)))))))))......... (-15.48 = -16.28 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:06 2006