Locus 1985

Sequence ID 2R_DroMel_CAF1
Location 7,487,460 – 7,487,559
Length 99
Max. P 0.616249
window3282

overview

Window 2

Location 7,487,460 – 7,487,559
Length 99
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 75.64
Mean single sequence MFE -30.20
Consensus MFE -19.66
Energy contribution -19.54
Covariance contribution -0.12
Combinations/Pair 1.25
Mean z-score -1.48
Structure conservation index 0.65
SVM decision value 0.17
SVM RNA-class probability 0.616249
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7487460 99 + 20766785
CCACUACGAGCCCAACACUGGGCGCUGGUCAACUAUCUUCAGACGCAGAAAAGGUGCGGUUUUUAGUCCUACUUGUCUAUGCUUAU--------------GGCAUCUUUAAGU
.........(((((....))))).((((((...........))).))).((((((((.((...(((.(......).))).....))--------------.)))))))).... ( -24.80)
>DroSec_CAF1 566 93 + 1
CCACUGCGCGCCCAACACUGGGCGCUGGUCAACUAUCUUCAGACGCAGAAAAGGUACGGUUUUUAGUUCUACUUGUCCAU--------------------GGCAUCUUUUAGU
...(((((((((((....)))))))..(((...........)))))))(((((((.(.((....((.....)).....))--------------------.).)))))))... ( -26.50)
>DroSim_CAF1 566 113 + 1
CCACUGCGCGCCCAACACUGGGCGUUGGUCAACUAUCUUCAGACGCAGAAAAGGUACGGUUUUUAGUUCUACUUGUCCAUGCUUAUCACUGUCUUAAGAUGGCAAUUUUUAGU
(((....(((((((....))))))))))....(((((((.(((((..((..(((((.((.....((.....))...)).))))).))..))))).)))))))........... ( -30.60)
>DroEre_CAF1 572 105 + 1
CCACUGCGCGCCCAGCACUGGGCGCUGGUCAACUACCUUCAGACGCAGAAAAGGUGAAUCGUUCAGUUAUACUUU-CCCUUAAUAU---UGUUUUAGGAUGG---UUUGCAG-
...(((((((((((....))))))).....((((((((..(((((.....((((.(((..((........)).))-))))).....---))))).))).)))---)).))))- ( -32.50)
>DroYak_CAF1 568 105 + 1
CCACUGCGCGCCCAGCACUGGGCGCUGGUCAACUAUCUUCAGACGCAGAAAAGGUGCGUCUCUCAGUUGUAUUCC-CCAUACUUGU---UGUUUUAAGAUGG---UUUGUAG-
...(((((((((((....))))))).((.(((((......(((((((.......)))))))...)))))....))-((((.((((.---.....))))))))---...))))- ( -36.60)
>consensus
CCACUGCGCGCCCAACACUGGGCGCUGGUCAACUAUCUUCAGACGCAGAAAAGGUGCGGUUUUUAGUUCUACUUGUCCAUGCUUAU___UGU_UUA_GAUGGCA_UUUUUAGU
((.(((((((((((....)))))))..(((...........)))))))...(((((.(((.....))).)))))..........................))........... (-19.66 = -19.54 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:05 2006