Locus 5488

Sequence ID 3L_DroMel_CAF1
Location 15,016,560 – 15,016,654
Length 94
Max. P 0.916465
window8679

overview

Window 9

Location 15,016,560 – 15,016,654
Length 94
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 74.10
Mean single sequence MFE -23.27
Consensus MFE -6.74
Energy contribution -8.86
Covariance contribution 2.12
Combinations/Pair 1.11
Mean z-score -2.01
Structure conservation index 0.29
SVM decision value 1.11
SVM RNA-class probability 0.916465
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15016560 94 - 23771897
UGACGGAAGAGUUGGCAGA---------UAAAACUGCAAUAUUUACUUUUGUACAUAUAUGGC--AAUCUACAGAUUGCACAGCUUGGCAGGUAAAAUUUUUCUG----
...((((((((((.((((.---------.....)))).....(((((..(((.((....((((--((((....)))))).))...))))))))))))))))))))---- ( -25.90)
>DroSec_CAF1 34517 94 - 1
UGACGGAAGAGUUGGCAGA---------UAAAACUGCAUUAUUUACUUUUGUACAUAUAUGAC--AAUCUACAGAUUGCACAGCUUGGCAGGUUAAACUUUUCUG----
...((((((((((.((((.---------.....))))..........(((((.......((.(--((((....))))))).......)))))...))))))))))---- ( -22.44)
>DroSim_CAF1 34503 94 - 1
AGACGGAAGAGUUGGCAGA---------UAAAACUGCAUUAUUUACUUUUGUACAUAUAUGAC--AAUCUACAGAUUGCACAGCUUGGCAGGCAAAACUUUUCUG----
...((((((((((.((((.---------.....))))..(((.(((....))).)))..((.(--((((....)))))))..(((.....)))..))))))))))---- ( -22.40)
>DroYak_CAF1 36538 90 - 1
UGACGGAAGAGUUGGCAGA---------UGAAACUGCAGUAUUUGCCUUUGU----AUACGGC--AAUUUACAGAUUGCACAGCUUGGCAGAUACAACUUUUCAG----
.....((((((((.((((.---------.....)))).(((((((((...((----.....((--((((....))))))...))..)))))))))))))))))..---- ( -32.70)
>DroAna_CAF1 32640 102 - 1
AGACGGAAU----UUCAGCUACAAUAAGUACAAUUACAC--UUUAUUUGUUUCCAUAUAUAGCUGAAUACAAAUAUUAAACAGCUUG-CAGCCGAGACUUUACUUUAGA
...(((...----((((((((........((((.((...--..)).)))).........))))))))...............(....-)..)))............... ( -12.93)
>consensus
UGACGGAAGAGUUGGCAGA_________UAAAACUGCAUUAUUUACUUUUGUACAUAUAUGGC__AAUCUACAGAUUGCACAGCUUGGCAGGUAAAACUUUUCUG____
...((((((((((.((((...............))))......................................((((........))))....)))))))))).... ( -6.74 =  -8.86 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:34 2006