Locus 5359

Sequence ID 3L_DroMel_CAF1
Location 14,770,297 – 14,770,401
Length 104
Max. P 0.535396
window8470

overview

Window 0

Location 14,770,297 – 14,770,401
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.87
Mean single sequence MFE -32.12
Consensus MFE -20.58
Energy contribution -22.10
Covariance contribution 1.52
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.64
SVM decision value 0.00
SVM RNA-class probability 0.535396
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14770297 104 + 23771897
-----------CGAAAGCCGAAGCGGAAAGCCGAGCUUUUUGUCGAC-----UCGAGAACGGACGUAUAAAAUAGCGAUGGCUGGGCACAAAGCGAUUCAGUCGUCUAACGGAGUUCAAA
-----------.(((..(((...(((....))).(((((((((((.(-----.((....))).)).)))))).)))(((((((((((.....))...)))))))))...)))..)))... ( -30.00)
>DroSec_CAF1 13292 104 + 1
-----------CGAAAGCCGAAGCGGAAAGCCGAGCUUUUUGUCGAC-----UCGAGAACGGACGUAUAAAAUAGCGAUGGCUGGCCACAAAGCGAUUCAGUCGUCUAACGGAGUUCAAA
-----------.(((..(((..(.((..(((((.(((((((((((.(-----.((....))).)).)))))).)))..)))))..)).)...(((((...)))))....)))..)))... ( -30.50)
>DroEre_CAF1 12978 115 + 1
CCAAGUCGGCCAGAAAGCCGAAGCGGAAAGCCGAGCUUUUUGGCGAC-----UCGAGAACGGACGUAUAAAAUUGCGAUGGCUCGCCACAAAGCGAUUCAGUCGUCUAACGGAGUUGAAA
((.(((((.(((((((((((..((.....)))).)))))))))))))-----).......(((((.((..((((((..(((....)))....))))))..)))))))...))........ ( -39.10)
>DroYak_CAF1 13333 120 + 1
GCAAAUCGAACAGAAAACCGAAGCGGAAAGCCGAGCUUUUUGGCGACUCGACUCGAGAACGGACGUAUAAAAUUGCGAUGGCUCGCCACAAAGCGAUUCAGUCGUCUAACGGAGUUCAAA
.......((((......(((...)))....(((.(((((.((((((((((...))))......((((......)))).....)))))).)))))(((......)))...))).))))... ( -33.00)
>DroAna_CAF1 13397 99 + 1
ACAAAUUGA-CGAAGAACCGAAGACCAAAGCCGAGCUUU--------------------CGGACGUAUAAAAUUGCGACGAUUCCCCGAUGGGCGACUCAGUCGUCUAACGGAGUUGAAA
.....(..(-(...(((.((....(((((((...)))))--------------------.)).((((......)))).)).))).(((.((((((((...)))))))).))).))..).. ( -28.00)
>consensus
_CAA_U_G__CAGAAAGCCGAAGCGGAAAGCCGAGCUUUUUGGCGAC_____UCGAGAACGGACGUAUAAAAUUGCGAUGGCUCGCCACAAAGCGAUUCAGUCGUCUAACGGAGUUCAAA
............(((..(((...((((((((...))))))))..................(((((.((..((((((..(((....)))....))))))..)))))))..)))..)))... (-20.58 = -22.10 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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