Locus 6120

Sequence ID 3L_DroMel_CAF1
Location 16,216,555 – 16,216,669
Length 114
Max. P 0.839089
window9831

overview

Window 1

Location 16,216,555 – 16,216,669
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.78
Mean single sequence MFE -31.40
Consensus MFE -24.90
Energy contribution -25.14
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.78
Structure conservation index 0.79
SVM decision value 0.74
SVM RNA-class probability 0.839089
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16216555 114 - 23771897
CCCCUUCCCCCAGCCGGCGCACAGCCAGCAGCUGCAUUGCCUUUGAAGUCGGCUCUCAAAUCCGCAUCGAAUGUCGAGCUGCACAGGCAGCAACA------GCAGCAACAAAAGCAACCA
............((.(((.....))).)).(((((.((((.(((((.(.(((.........)))).))))).).)))(((((....)))))....------))))).............. ( -33.20)
>DroSec_CAF1 35311 102 - 1
CCCCUUCCCCCAGCCGGCGCACAGCCAGCAGCUGCAUUGCCUUUGAAGUCGGCUCUCAAAUCCGCCUCGAAUGUCGAGCUGCACAGGCAGCA------------------AAAGCAACCA
............((.(((.....))).)).(((...((((((.((.(((((((..((...........))..))))).)).)).))))))..------------------..)))..... ( -29.00)
>DroSim_CAF1 36896 114 - 1
CCCCUUCCCCCAGCCGGCGCACAGCCAGCAGCUGCAUUGCCUUUGAAGUCGGCUCUCAAAUCCGCCUCGAAUGUCGAGCUCCACAGGCAGCAACA------GCAACAACAAAAGCAACCA
............((.(((.....))).)).((((..((((((.((.(((((((..((...........))..))))).)).)).))))))...))------))................. ( -31.10)
>DroEre_CAF1 34788 120 - 1
CCUCUUCCCCCAGCCGGCGCACAGCCAGCAGCUGCAUUGCCUUUAAAGUCGGCUCUCAAAUCCGCCUCGAAUGUCGAGCUGCACAGGCAGCAACAGCAGCAGCAACAACAAAAACAACCU
............((.(((.....))).)).(((((..(((........(((((..((...........))..)))))(((((....)))))....))))))))................. ( -34.00)
>DroYak_CAF1 71777 114 - 1
CAUCUUCCCCCAGCCGGCGCACAGCCCGCAGCUGCCUUGCCUUUGAAGUCGGCUCUCAAAUCCGCCUCAAAUGUCGAGCUGCACAGGCAGCAACA------GCAACAACAAAAACAACCA
............((.(((.....))).)).((((((((((.(((((....(((..........))).......)))))..))).)))))))....------................... ( -29.70)
>consensus
CCCCUUCCCCCAGCCGGCGCACAGCCAGCAGCUGCAUUGCCUUUGAAGUCGGCUCUCAAAUCCGCCUCGAAUGUCGAGCUGCACAGGCAGCAACA______GCAACAACAAAAGCAACCA
............((((((.....))).((((((.(...((.(((((.(.(((.........)))).))))).)).)))))))...)))................................ (-24.90 = -25.14 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:34 2006