Locus 1140

Sequence ID 3L_DroMel_CAF1
Location 3,314,964 – 3,315,084
Length 120
Max. P 0.760962
window1773

overview

Window 3

Location 3,314,964 – 3,315,084
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.69
Mean single sequence MFE -36.00
Consensus MFE -25.97
Energy contribution -26.72
Covariance contribution 0.75
Combinations/Pair 1.23
Mean z-score -1.76
Structure conservation index 0.72
SVM decision value 0.50
SVM RNA-class probability 0.760962
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3314964 120 + 23771897
GGAGCAUCCGGUUGCCAAGAUUCCCAAGGGAGAAACCCUGCUGCCUUUGGGACAUCCCCAUCCUGCAGUGGCUUCCGCCUACAGCAACAGCAAUAAUGGUCAAAUCCAGUCGUCGACAUA
(((....((.(((((...((((((((((((((........)).))))))))).))).......(((.(((((....))).)).)))...)))))...)).....))).(((...)))... ( -35.40)
>DroSim_CAF1 11477 120 + 1
GGAGCAUCCGGUUGCCAAGAUUCCCAAGGGAGAAACCCUGCUGCCUUUGGGACAUCCCCAUCCUGCAGUGGCUUCCGCCUACAGCAACAGCAACAAUGGUCAAAUCCAGUCGCAGACAUA
(((....((.(((((...((((((((((((((........)).))))))))).))).......(((.(((((....))).)).)))...)))))...)).....))).(((...)))... ( -36.90)
>DroWil_CAF1 15460 114 + 1
AGAUCGUCCAGUGGCCAAGAUACCCAAGGGCGAAACUCUUCUACCCUUGGGUCAUCCACAUCCGGCGGUUGCCUCUGCCUACAAUC------ACAAUGGCAACAUUCAGACCCAAAGCUA
.....(((.((((((((.((((((((((((.(((....)))..))))))))).))).......(((((......))))).......------....))))..))))..)))......... ( -34.80)
>DroYak_CAF1 10800 120 + 1
GGAGCAUCCGGUUGCUAAGAUACCCAAGGGCGAAACCCUGCUGCCCCUGGGACAUCCUCAUCCCGCAGUGGCGUCCGCCUACAGCAACAGCAACACUGGUCAAAUCCAAUCCCAGACAUA
(((....(((((((((......((((.(((((.........))))).)))).............((.(((((....))).)).))...))))..))))).....)))............. ( -36.90)
>consensus
GGAGCAUCCGGUUGCCAAGAUACCCAAGGGAGAAACCCUGCUGCCCUUGGGACAUCCCCAUCCUGCAGUGGCUUCCGCCUACAGCAACAGCAACAAUGGUCAAAUCCAGUCCCAGACAUA
(((....((((((((...((((((((((((.............))))))))).))).......(((.(((((....))).)).)))...)))))..))).....)))............. (-25.97 = -26.72 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:09 2006