Locus 1983

Sequence ID 2L_DroMel_CAF1
Location 5,376,338 – 5,376,452
Length 114
Max. P 0.996982
window3202

overview

Window 2

Location 5,376,338 – 5,376,452
Length 114
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 76.99
Mean single sequence MFE -31.86
Consensus MFE -15.16
Energy contribution -17.28
Covariance contribution 2.12
Combinations/Pair 1.14
Mean z-score -2.82
Structure conservation index 0.48
SVM decision value 2.78
SVM RNA-class probability 0.996982
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5376338 114 + 22407834
CAUCGCCAA--UUUCUGGCCAAUUUCUUUGGGGUUCGUCCCACUCAAACCAUCUCCACAUCGACAACCACUCGGCUCCAAACCGGCCUCGAAAGUGGGCAGAGCCACAAAGAGAUC
....((((.--....))))..(((((((((.(((((..((((((.................((.......))((((.......)))).....))))))..))))).))))))))). ( -34.80)
>DroSec_CAF1 33697 114 + 1
CAUCGCCAA--UUUCUGGCCAAUUUCUUCGUGGUUCGACCCACUCAAGCCACCUCCACAUCGACAGCCACUCGGCUCCAAACCGGCCUCGAAAGUGGGCAGAGCCACAAAGAGAUC
....((((.--....))))..(((((((.(((((((..((((((...(((...((......)).((((....)))).......)))......))))))..))))))).))))))). ( -40.60)
>DroSim_CAF1 34279 114 + 1
CAUCGCCAA--UUUCUGGCCAAUUUCUUCGUGGUUCGACCCACUCAAGCCACCUCCACAUCGACAGCCACUCGGCUCCAAACCGGCCUCGAAAGUGGGCAGAGCCACAAAGAGAUC
....((((.--....))))..(((((((.(((((((..((((((...(((...((......)).((((....)))).......)))......))))))..))))))).))))))). ( -40.60)
>DroEre_CAF1 36885 95 + 1
CGCCGCCAA--UUUCUGGC-----------------GACCCACUCAAACCACCUCUACAUCGACAACCACUCGGCUGCAAACCGGCCUCGCAAGUGGGCAGAGCCACA--GAGAUU
...(((((.--....))))-----------------)...............((((................(((((.....)))))......((((......)))))--)))... ( -23.70)
>DroAna_CAF1 40759 103 + 1
CAUCGCUUGGCUUUCCG----CU---UUUCAAGUACAACCCACUCACUCCACCUCCG------UAAUAACUCAGUCCGAAACCGGCCUCAAAAGUGGGCAGAGCCAUAAAAAGAUU
.(((...((((((((((----((---(((..(((.......))).............------.........((.(((....))).)).)))))))))..))))))......))). ( -19.60)
>consensus
CAUCGCCAA__UUUCUGGCCAAUUUCUUCGUGGUUCGACCCACUCAAACCACCUCCACAUCGACAACCACUCGGCUCCAAACCGGCCUCGAAAGUGGGCAGAGCCACAAAGAGAUC
....((((.......))))............(((((..((((((.................((.......))((((.......)))).....))))))..)))))........... (-15.16 = -17.28 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:30 2006