Locus 3550

Sequence ID 3L_DroMel_CAF1
Location 10,396,791 – 10,396,887
Length 96
Max. P 0.947765
window5540

overview

Window 0

Location 10,396,791 – 10,396,887
Length 96
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 77.95
Mean single sequence MFE -26.36
Consensus MFE -14.38
Energy contribution -15.26
Covariance contribution 0.88
Combinations/Pair 1.17
Mean z-score -2.27
Structure conservation index 0.55
SVM decision value 1.38
SVM RNA-class probability 0.947765
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10396791 96 - 23771897
AACCCAAACCCAAACCCAAUGCGAUACCGAA----UCCAAACAUCAAAUCGAAAA----GUUUUCGGGCUCGGGAAA-AAAGGGUUUGGCC------GUGAUAUUUCAUGU
.........((((((((.........((((.----.((((((.((.....))...----))))..))..))))....-...)))))))).(------((((....))))). ( -25.29)
>DroPse_CAF1 294657 92 - 1
-------CCCCUCCCC-----CGCACCCCGG----UCCGAAAACCCAAUCGAAAGAGCGCUUUUUGGGAUCGUGA---AAAGGGUUUGGCUGGCUGUGUGAUAUUUCAUGU
-------.........-----(((((.((((----((...((((((..((....))(((.((.....)).)))..---...))))))))))))..)))))........... ( -25.60)
>DroSec_CAF1 268064 97 - 1
AACCAAAACCCAAACCCAAAGCGAUACCGAA----UCCCAACUCCCAAUCGAAAA----GUUUUGGGGCUCGGGAAAAAAAGGGUUUGGCU------GUGAUAUUUCAUGU
.........((((((((.........((((.----.(((((..(...........----)..)))))..))))........))))))))..------((((....)))).. ( -28.13)
>DroSim_CAF1 280063 97 - 1
AACCAAAACCCAAACCCAAAGCGAUACCGAA----UCCCAACUCCCAAUCGAAAA----GUUUUCGGGCUCGGGAAAAAAAGGGUUUGGCU------GUGAUAUUUCAUGU
.........((((((((...(.(((.....)----)).)...((((..(((((..----...)))))....))))......))))))))..------((((....)))).. ( -24.30)
>DroYak_CAF1 280978 101 - 1
AAUCCAAACCCAAACCCAAAGCGAUACCGAAUCAAUCCCAACUCCAAAUCGAAAA----GUUUUUGGGUUCGGGAAAAAAAGGGUUUGGCU------GUGAUAUUUCAUGU
.........((((((((.....(((.....)))..(((((((.(((((.......----...)))))))).))))......))))))))..------((((....)))).. ( -28.50)
>consensus
AACCAAAACCCAAACCCAAAGCGAUACCGAA____UCCCAACUCCCAAUCGAAAA____GUUUUCGGGCUCGGGAAAAAAAGGGUUUGGCU______GUGAUAUUUCAUGU
.........((((((((....((....))............(((....(((((((.....)))))))....))).......))))))))........((((....)))).. (-14.38 = -15.26 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:48 2006