Locus 390

Sequence ID 3L_DroMel_CAF1
Location 1,126,613 – 1,126,722
Length 109
Max. P 0.787753
window573

overview

Window 3

Location 1,126,613 – 1,126,722
Length 109
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 85.01
Mean single sequence MFE -16.59
Consensus MFE -13.28
Energy contribution -13.66
Covariance contribution 0.38
Combinations/Pair 1.11
Mean z-score -1.79
Structure conservation index 0.80
SVM decision value 0.58
SVM RNA-class probability 0.787753
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1126613 109 + 23771897
UUUAUACACUGAAAUCAGACCUUGGCGCCUCUAAAAUAAUAUAAUAACACAUUUGUUUACACA-AAGCAAAUUCCACCUGGCUGAAAUACAGCUAUUAAUUCUCGCCAUU
........(((....)))....(((((.......................((((((((.....-))))))))......((((((.....))))))........))))).. ( -19.90)
>DroSec_CAF1 20101 109 + 1
UUUAUACACUGAAAUAAGACCUUGGCGCCUCUAAAAUAAUAUAAUAACACAUUUGUUUACACA-AAGCACAUGCCACCUGGCUGAAAUACAGCUAUUAAUUCUUGCCAUU
......................((((.......................(((.(((((.....-))))).))).....((((((.....)))))).........)))).. ( -16.00)
>DroSim_CAF1 16685 108 + 1
UUUAUACACUGAAAUAAGACCUUGGCGCCUCUAAAAUAAUAUAAUAACACAUUUGUUUACACA-AAGCAAAUUCCACCUGGCUGAAAUACAGCCAUUUAUUCUUGCCAU-
......................((((........................((((((((.....-))))))))......((((((.....)))))).........)))).- ( -18.70)
>DroEre_CAF1 17803 98 + 1
------------CAUCAGACCUUGGCGCCUCUAAAAUAAUAUAAUAACAUUUUUGUUUACACAGAAGCAAAUUCCACCUGGCUGAAAUACAGCUAUUAAUGCCUGCCAUU
------------..........((((((.(((.....((((.((......)).)))).....))).))..........((((((.....)))))).........)))).. ( -16.60)
>DroYak_CAF1 20653 98 + 1
CUCAUGCACUGAAAUCAGACCUUGGCGCCUCUAAAAUAAUAUAAUAACACUUUUGUUUACGCA-AAGCAAAUUCCACCUGGC-----------UAUUCAUUCUUGCCAUU
....(((.(((....)))......(((....(((((..............)))))....))).-..))).........((((-----------...........)))).. ( -11.74)
>consensus
UUUAUACACUGAAAUCAGACCUUGGCGCCUCUAAAAUAAUAUAAUAACACAUUUGUUUACACA_AAGCAAAUUCCACCUGGCUGAAAUACAGCUAUUAAUUCUUGCCAUU
......................(((((........................(((((((......))))))).......((((((.....))))))........))))).. (-13.28 = -13.66 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:43 2006