Locus 8341

Sequence ID 3R_DroMel_CAF1
Location 22,256,227 – 22,256,334
Length 107
Max. P 0.517927
window13445

overview

Window 5

Location 22,256,227 – 22,256,334
Length 107
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 80.70
Mean single sequence MFE -25.62
Consensus MFE -18.72
Energy contribution -19.43
Covariance contribution 0.71
Combinations/Pair 1.08
Mean z-score -1.12
Structure conservation index 0.73
SVM decision value -0.03
SVM RNA-class probability 0.517927
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22256227 107 + 27905053
------CAACUGAAACUCCAUCUCGAUCCCCAAGUUGGACUCGCAUAACGGUUUGACAAUUUGCAAUGCGCCU------GCGCCGCCUGUCACUCCAGUUCAGCUCCUCGGGAUAUUUU
------...................(((((..(((((((((........((..(((((....((...(((...------.))).)).)))))..)))))))))))....)))))..... ( -26.80)
>DroSec_CAF1 28895 101 + 1
------C------AACUCCAUCUCGAUCCCCAAGUUGGACUCACAUAACGGUUUGACAAUUUGCAAUGCGCCU------GCGCCGCCUGUCACUCCAGUUCAGCUCCUCGGGAUUUUUU
------.------...........((((((..(((((((((........((..(((((....((...(((...------.))).)).)))))..)))))))))))....)))))).... ( -27.40)
>DroSim_CAF1 29016 101 + 1
------C------AACUCCAUCUCGAUCCCCAAGUUGGACUCACAUAACGGUUUGACAAUUUGCAAUGCGCCU------GCGCCGCCUGUCACUCCAGUUCAGCUCCUCGGGAUUUUUU
------.------...........((((((..(((((((((........((..(((((....((...(((...------.))).)).)))))..)))))))))))....)))))).... ( -27.40)
>DroEre_CAF1 38045 101 + 1
------------CAACUCCAUCUCGAUCCCAAAGUUGGCCUCGCAUAACGGUUUGACAAUUUGCAAUGCGCCU------GCGCCGCCUGUCACUCCAGUUCAGCUCCUCGGGAUUUUUU
------------............((((((..(((((..((........((..(((((....((...(((...------.))).)).)))))..))))..)))))....)))))).... ( -23.90)
>DroYak_CAF1 34093 119 + 1
CAACUGCAACUGCAACUGCAUCUCGAUCCCAAAGUUGGCCACGCAUAACGGUUUGACAAUUUGCAAUGCGCCUGAGCCUGUGCCGCCUGUCACUCCAGUUCAGCUCCUCGGGAUUUUUU
....((((........))))....((((((..(((((..(..(.....)((..(((((....(((..((......))...)))....)))))..)).)..)))))....)))))).... ( -28.00)
>DroAna_CAF1 30923 81 + 1
------G----GAGAU------UGGAUCUCCA-----GCAUCACAUAACGGUUUGACAAUUUGCAAUGCGCCU------GCG---CCUGUCACUCCAGUUCGGGUCCUCCG--------
------(----(((.(------(((....)))-----)...........((..(((((...((((.......)------)))---..)))))..))..........)))).-------- ( -20.20)
>consensus
______C______AACUCCAUCUCGAUCCCCAAGUUGGACUCACAUAACGGUUUGACAAUUUGCAAUGCGCCU______GCGCCGCCUGUCACUCCAGUUCAGCUCCUCGGGAUUUUUU
...................(((((((.......((((........))))((..(((((....((...((((........)))).)).)))))..))...........)))))))..... (-18.72 = -19.43 +   0.71)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:14 2006