Locus 1860

Sequence ID dm3.chr2L
Location 14,437,492 – 14,437,594
Length 102
Max. P 0.721410
window2562

overview

Window 2

Location 14,437,492 – 14,437,594
Length 102
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 86.74
Shannon entropy 0.22188
G+C content 0.51756
Mean single sequence MFE -30.46
Consensus MFE -21.50
Energy contribution -21.22
Covariance contribution -0.28
Combinations/Pair 1.15
Mean z-score -2.06
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.721410
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14437492 102 - 23011544
CAUAUGGAGACUCGAUCCGAACACCGAGCUCCCCAGACCAGACAUGGCAUUAAUUCUAAGCCGCUGGAAAUCGUUUGCUUCGAAAUCCAGUGGCAUCCUUCC
.....((((.((((..........))))))))...(.(((....))))...........(((((((((..(((.......)))..)))))))))........ ( -32.50, z-score =  -3.17, R)
>droEre2.scaffold_4929 6191741 94 - 26641161
--CAGAUGGACUCCAUCCGAACUCU-AGCUUC-----CCAGACAGGGCCUUAAUUCUAAGCCGCUGAAAAUCGUUUGCCUCGAAAUCCAGUGGCAUCGUUGC
--..(((((...)))))(((.....-.....(-----((.....)))............(((((((....(((.......)))....))))))).))).... ( -23.00, z-score =  -0.44, R)
>droYak2.chr2L 14542347 95 - 22324452
-GCAUAUGGACUGGAUCCGCACUCU-AGCUUC-----CCAGACAGGGCAUUAAUUCUAAGCCGCUGGAAAUCGUUUGCUCCGAAAUCCAGUGGCAUCGUUGC
-((...((..((((....((.....-.))...-----)))).))..))...........(((((((((..(((.......)))..)))))))))........ ( -29.20, z-score =  -1.29, R)
>droSec1.super_3 696682 97 - 7220098
CAUAUGGGGACUCCAUCCGAACUGCGAGCUCC-----CCAGACAGGGCAUUAAUUCUAAGCCGCUGGAAAUCGUUUGCUUCGAAAUCCAGUGGCAUCCUUCC
....(((((((((((.......)).))).)))-----)))((.((((..(((....)))(((((((((..(((.......)))..))))))))).)))))). ( -34.70, z-score =  -2.86, R)
>droSim1.chr2L 14186246 97 - 22036055
CAUAUGGGGACUCCAUCCGAACUCCGAGCUCC-----CCAGACAGGGCAUUAAUUCUAAGCCGCUGGAAAUCGUUUGCUUCGAAAUCCAGUGGCAUCCUUCC
....(((((((((............))).)))-----)))((.((((..(((....)))(((((((((..(((.......)))..))))))))).)))))). ( -32.90, z-score =  -2.55, R)
>consensus
CAUAUGGGGACUCCAUCCGAACUCCGAGCUCC_____CCAGACAGGGCAUUAAUUCUAAGCCGCUGGAAAUCGUUUGCUUCGAAAUCCAGUGGCAUCCUUCC
.....((((..................((((.............))))...........(((((((((..(((.......)))..))))))))).))))... (-21.50 = -21.22 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:40:14 2011