Locus 6493

Sequence ID 2R_DroMel_CAF1
Location 20,282,484 – 20,282,589
Length 105
Max. P 0.538638
window10346

overview

Window 6

Location 20,282,484 – 20,282,589
Length 105
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 77.51
Mean single sequence MFE -32.33
Consensus MFE -18.34
Energy contribution -20.40
Covariance contribution 2.06
Combinations/Pair 1.16
Mean z-score -1.56
Structure conservation index 0.57
SVM decision value 0.01
SVM RNA-class probability 0.538638
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20282484 105 - 20766785
CAGUAGACUCCACACCAUGAAUGUGGACUUUGCGAGGGUGUGCGGGAAGCACAUAGGCGUCUACGAGGCCUACUACAAACUGGUAAGCGCACCACG--CCUCCAAGC
..(((((.((((((.......)))))).)))))((((((((((.....))))))..(((..(((.((............)).)))..)))......--))))..... ( -37.10)
>DroVir_CAF1 6813 92 - 1
AAGCGGAG---GCAAUAUGAAUUUGGAUUUUGCUCGGGUGUGCGGCAAGCACAAUCUCGUCUACGAGGCCUACUAUAAACAGGUAAUG----------CGUCC--GU
..(((((.---(((.(((.......((......))((((((((.....))))...((((....))))))))...........))).))----------).)))--)) ( -27.90)
>DroSec_CAF1 6180 105 - 1
CAGCGGACUCCACACCAUGAAUGUGGACUUUGCGAGGGUGUGCGGGAAGCACAUAGGCGUCUACGAGGCCUACUACAAACUGGUAAGCACACCACG--UAUCCAAGA
....(((.((((((.......))))))...((((..(((((((..........(((((.((...)).))))).(((......))).))))))).))--))))).... ( -35.50)
>DroSim_CAF1 6192 105 - 1
CAGUGGACUCCACACCAUGAAUGUGGACUUUGCGAGGGUGUGCGGGAAGCACAUAGGCGUCUACGAGGCCUACUACAAACUGGUAAGCACACCACG--AAUCCAAGC
..(..((.((((((.......)))))).))..)...(((((((..........(((((.((...)).))))).(((......))).)))))))...--......... ( -34.00)
>DroWil_CAF1 5908 91 - 1
---UGA-------AAUAUGAAUUUGGAUUUUGCCAAGGUGUGCGGCAAGCACAUAGGCAUCUAUGAGGCCUACUAUAAACAGGUGAGAAU------UGAAGCAGAGG
---...-------........((..(.(((..((...((((((.....))))))((((.((...)).))))..........))..))).)------..))....... ( -22.30)
>DroYak_CAF1 6221 103 - 1
CAGUGGACUCCACAUCAUGAAUGUGGACUUUGCGAGGGUGUGCGGGAAGCACAUAGGCGUCUACGAGGCCUACUACAAACUGGUAAGC--ACCACG--CCUCCAAGC
..(..((.(((((((.....))))))).))..)..((((((((.....))))))((((((....(..((.(((((.....))))).))--..))))--))))).... ( -37.20)
>consensus
CAGUGGACUCCACACCAUGAAUGUGGACUUUGCGAGGGUGUGCGGGAAGCACAUAGGCGUCUACGAGGCCUACUACAAACUGGUAAGCACACCACG__CAUCCAAGC
..(((((.((((((.......)))))).)))))..((((((((.....))))))((((.((...)).))))..............................)).... (-18.34 = -20.40 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:14 2006