Locus 9712

Sequence ID 3R_DroMel_CAF1
Location 25,687,511 – 25,687,603
Length 92
Max. P 0.599718
window15511

overview

Window 1

Location 25,687,511 – 25,687,603
Length 92
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 82.45
Mean single sequence MFE -26.08
Consensus MFE -15.32
Energy contribution -14.85
Covariance contribution -0.47
Combinations/Pair 1.27
Mean z-score -2.28
Structure conservation index 0.59
SVM decision value 0.13
SVM RNA-class probability 0.599718
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25687511 92 + 27905053
------AACA--GCACCGAGUGUACUGUAGAGCGCGCGCUAACAGC---------GCAGAGUUGCCCAACCGCGGCAACUGUCAAAAAGAUAACCCUA-CUUUUUUGACA
------.(((--(.((.....)).)))).....((((.......))---------))..((((((((....).)))))))(((((((((.((....))-.))))))))). ( -27.80)
>DroSec_CAF1 3339 92 + 1
------AACA--GCACCGACUGUACUGUAAUGCGCGCGCUAACAGC---------GCAGCGUUGCCCAACCGCGGCAACUGUCAAAAAAAUAACCCUA-CUUUUUUGACA
------.(((--(.((.....)).))))...((..((((.....))---------)).))(((((((....).)))))).(((((((((.((....))-.))))))))). ( -29.20)
>DroSim_CAF1 3318 92 + 1
------AACA--GCACCGACUGUACUGUAAUGCGCGCGCUAACAGC---------GCAGCGUUGCCCAACUGCGGCAAUUGUCAAAAAGAUAACCCUA-CUUUUUUGACA
------....--...(((...((...(((((((..((((.....))---------)).)))))))...))..)))....((((((((((.((....))-.)))))))))) ( -28.10)
>DroEre_CAF1 3891 92 + 1
------AACA--GCACCGAGUGUACUGUAAUGCGCGCGUUAACAGC---------ACAGCGUUGCCCAACAGCGGCAACUGUCAAAAAGAUAACCCUA-CUUUUUUGACA
------....--((.....(((((......)))))((.......))---------...))(((((((....).)))))).(((((((((.((....))-.))))))))). ( -24.20)
>DroWil_CAF1 4040 110 + 1
UUGUCUAACAGUGCACCGAACGUGCUGCAAUGCGCAAAAUGCCAAUGUUAAUGCGCUAGCGUUGCCCAUCUUAGCCAAUUGUCAAAAAAAUAACCUAAAAUAUUUUGACA
(((.((((..(.(((.((...((((.(((.((.((.....)))).)))....))))...)).))).)...)))).))).((((((((...............)))))))) ( -22.76)
>DroYak_CAF1 3837 92 + 1
------AACA--GCACCGAGUGUACUGUAAUGCGCGCGCUAACAGC---------ACAGCGUUGCCCAACCGCGGCAACUGUCAAAAAGAUAACCCUA-CUUUUUUGACA
------....--((.....(((((......)))))(.((.....))---------.).))(((((((....).)))))).(((((((((.((....))-.))))))))). ( -24.40)
>consensus
______AACA__GCACCGAGUGUACUGUAAUGCGCGCGCUAACAGC_________GCAGCGUUGCCCAACCGCGGCAACUGUCAAAAAGAUAACCCUA_CUUUUUUGACA
........................((((.........((.....)).........)))).((((((.......))))))((((((((((...........)))))))))) (-15.32 = -14.85 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:23 2006