Locus 4843

Sequence ID 2R_DroMel_CAF1
Location 15,895,642 – 15,895,741
Length 99
Max. P 0.558190
window7782

overview

Window 2

Location 15,895,642 – 15,895,741
Length 99
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 84.22
Mean single sequence MFE -20.67
Consensus MFE -14.88
Energy contribution -15.35
Covariance contribution 0.47
Combinations/Pair 1.07
Mean z-score -1.97
Structure conservation index 0.72
SVM decision value 0.05
SVM RNA-class probability 0.558190
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15895642 99 + 20766785
--G--AUAGA------GCAGCAGUUAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUUUUUGCUGAAUUAAUUAGGAAAGAUGGUACGGCAAGGAA
--.--.....------.((((..((..((((((((.......))))))))..))..))))(.(((((.((((((.((((.....)))).))))))..))))))...... ( -21.60)
>DroSec_CAF1 23571 101 + 1
--GAGAUAGA------GCAGCAGUUAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUUUUUGCUGAAUUAAUUAGGAAAGAUGGUACGGCGAGGAA
--........------.((((..((..((((((((.......))))))))..))..))))(.(((((.((((((.((((.....)))).))))))..))))))...... ( -21.60)
>DroSim_CAF1 21012 101 + 1
--GAGAUAGA------GCAGCAGUUAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUUUUUGCUGAAUUAAUUAGGAAAGAUGGUACGGCGAGGAA
--........------.((((..((..((((((((.......))))))))..))..))))(.(((((.((((((.((((.....)))).))))))..))))))...... ( -21.60)
>DroYak_CAF1 24310 101 + 1
--GAUAGAGC------GCAGCAGUUAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUUUUUGCUGAAUUAAUUAGGAACGAUGGAACGGCAAGGCA
--........------((.((((((..((((((((.......))))))))(((....))))))))).....(((((((.....(((......)))....))))))))). ( -20.40)
>DroAna_CAF1 16546 90 + 1
-----GCAAG------CCGGCAGUUAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUUUUUGUUGAAUUAAUUAGGAAAGAGAAUUCC--------
-----(((..------(((((..((..((((((((.......))))))))..))..)))))..)))...(((((.((((.....)))).))))).......-------- ( -17.40)
>DroPer_CAF1 19520 103 + 1
GAGAGAGAGAGUCGCGGGAGCAGUAAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUU-UUGUUGAAUUAAUUAGGAAAAA-----CUGCGAGAAA
...........((((((..(((((...((((((((.......))))))))(((....))).)))))...((-((.((((.....)))).)))).-----)))))).... ( -21.40)
>consensus
__GAGAUAGA______GCAGCAGUUAAGCAUUUUAAAAUUUAUAAGAUGCCAAAAAGUUGGACUGUAAGUUUUUGCUGAAUUAAUUAGGAAAGAUGGUACGGCGAGGAA
...................((((((..((((((((.......))))))))(((....)))))))))..((((((.((((.....)))).)))))).............. (-14.88 = -15.35 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:38 2006