Locus 1308

Sequence ID 3R_DroMel_CAF1
Location 3,849,859 – 3,849,966
Length 107
Max. P 0.671773
window2147

overview

Window 7

Location 3,849,859 – 3,849,966
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.74
Mean single sequence MFE -42.92
Consensus MFE -22.83
Energy contribution -22.75
Covariance contribution -0.08
Combinations/Pair 1.38
Mean z-score -1.55
Structure conservation index 0.53
SVM decision value 0.29
SVM RNA-class probability 0.671773
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3849859 107 + 27905053
-------GCUUGUC---CCUGUUUCUUUUUGCUUGUUGCCGC---UUCUGCCAGUUGUUGAGUAUAGGCUAGAAGUGUUCCCAGCAGCUGAGCUACCGCACAUCGCACUUCAUAGUUGCU
-------....((.---.((((........((((((((((((---(((((((.((........)).))).)))))))......))))).))))....((.....)).....))))..)). ( -25.90)
>DroVir_CAF1 8254 114 + 1
AGCCUGGGCUUGAG---CGGACUUCUUGUUGC---UCGCCGCCAGCUCGGCCAGCUGCUGUGUGUAGGCGAGCAGUGUGCCCAGCAGCUGGGCAACAGCGCAGCGCACCUCAUAGUUGCU
.(((((.(((.(((---((.((.....)))))---))((((((.....)))(((((((((.(.(((.((.....)).))))))))))))))))...))).))).)).............. ( -51.10)
>DroGri_CAF1 7338 109 + 1
--CGGGCGCUUGGG---CGGCUUUCUUGUUGU---UCGCCGC---CUCGGCCAACUGUUGGGUGUAGGCGAGCAGCGUGCCCAGCAGCUGGGCAACUGCGCAACGCACCUCAUAAUUGCU
--.(((((.(((.(---(((.......(((((---(((((((---((((((.....)))))).)).)))))))))).(((((((...))))))).)))).)))))).))........... ( -51.80)
>DroWil_CAF1 6932 107 + 1
-------GCUUGAUUUGCCAUCUUCUUAUUGC---UGGCCAU---CUCCGCCAGCUGUUGGGUAUAGGCUAGCAAAGUGCCCAAUAGCUGAGCAACUGCACAACGCACUUCGUAAUUACU
-------(((((....((((.(........).---))))...---....((((((((((((((((..(....)...)))))))))))))).)).......))).)).............. ( -34.70)
>DroAna_CAF1 6915 107 + 1
-------GCCUGGG---UCUGUUUCUUCUUCCCAGUGGCCAG---CUCAGCCAGUUGCUGGGUGUACGCCAGAAGAGUGCCCAGGAGCUGGGCCACGGCGCAGCGCACCUCGUAGUUGCU
-------(((((((---...(......)..))))((((((.(---(...))(((((.(((((..(.(.......).)..))))).))))))))))))))(((((((.....)).))))). ( -47.10)
>DroPer_CAF1 9865 104 + 1
-------GUCUGAU---UGG---CCUUCUUGUUUAGGGCCGC---CUCCGCCAGCUGCUGGGUGUAGGCCAGGAGCGUGCCCAGCAGCUGGGCCACAGCGCAGCGCACCUCGUAGUUGCU
-------(.(((..---.((---((((.......))))))..---.....((((((((((((..(..((.....)))..))))))))))))....))))(((((((.....)).))))). ( -46.90)
>consensus
_______GCUUGAG___CCGGUUUCUUCUUGC___UGGCCGC___CUCCGCCAGCUGCUGGGUGUAGGCCAGCAGAGUGCCCAGCAGCUGGGCAACAGCGCAGCGCACCUCAUAGUUGCU
.......(((((......................................((((((((((((((.............))))))))))))))((....)).))).)).............. (-22.83 = -22.75 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:27 2006