Locus 6339

Sequence ID 3L_DroMel_CAF1
Location 16,965,401 – 16,965,495
Length 94
Max. P 0.527541
window10161

overview

Window 1

Location 16,965,401 – 16,965,495
Length 94
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 69.98
Mean single sequence MFE -21.56
Consensus MFE -3.54
Energy contribution -3.70
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -1.71
Structure conservation index 0.16
SVM decision value -0.01
SVM RNA-class probability 0.527541
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16965401 94 - 23771897
GAUUCCCGAUUUUGAAUGGUGUCAAAUGGCAGCGA---UGUG---GCAAAUAUAUGGAAAAUAAAAAAACCAGUGGAACUAAU------CUAUACAGAGGG-GAAUU
(((((((..(((((..(((((((....)))..(.(---((((---.....))))).)...........))))(((((.....)------)))).)))))))-))))) ( -20.30)
>DroSec_CAF1 4637 74 - 1
GGUUCCCGAUUUUGAAUGGUGUCGAAUUGC---------------------AUAUU-GA----AAAAAAGCAGUGGAACUAAU------CUGUACAAAGGG-GAAUU
.((((((..(((((.((((.((...(((((---------------------...((-..----..))..)))))...))....------)))).)))))))-)))). ( -15.30)
>DroSim_CAF1 4668 82 - 1
GACUCCCGAUUUUGAAUGGUGUCGAAUGGU-----------G---ACAAAUAUAUUUAA----AAAAAAGCAGUGGAACUAAU------CUGUACAAAGGG-GAAUU
...((((..(((((((((.(((((.....)-----------)---)))....)))))))----))....((((..........------))))......))-))... ( -17.60)
>DroEre_CAF1 4738 101 - 1
GAUUCCCGAUUUUGAACGGUGUCGAAUGGCAGCGAAGGUGUGGUGGCAAAUGAAUGG-A----AAUGGAGCAGUGUCACCAACACAGCAAUAUACAGAGGG-GAAUU
(((((((..(((((..((.((((....)))).))...(((((((((((..((.((..-.----.))....)).))))))).)))).........)))))))-))))) ( -32.40)
>DroYak_CAF1 4557 99 - 1
GAUUCCCGAUUGUGAACGGUGUCGAAUGCCAGCGAAGGUGUG---GCGAAUAAAUGG-A----AAAAUGGCGGUGGAACUAAUACAGCACUAGACAGAGGGUGAAUU
(((((((.((((....))))(((...(((((((....)).))---))).........-.----....(((.(.((.........)).).))))))....)).))))) ( -22.20)
>consensus
GAUUCCCGAUUUUGAAUGGUGUCGAAUGGCAGCGA___UGUG___GCAAAUAUAUGG_A____AAAAAAGCAGUGGAACUAAU______CUAUACAGAGGG_GAAUU
(((((((...(((((......))))).............................................((.....))...................)).))))) ( -3.54 =  -3.70 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:00 2006