Locus 5227

Sequence ID 2R_DroMel_CAF1
Location 17,029,879 – 17,029,989
Length 110
Max. P 0.748361
window8351

overview

Window 1

Location 17,029,879 – 17,029,989
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.67
Mean single sequence MFE -32.43
Consensus MFE -19.85
Energy contribution -20.85
Covariance contribution 1.00
Combinations/Pair 1.04
Mean z-score -1.96
Structure conservation index 0.61
SVM decision value 0.47
SVM RNA-class probability 0.748361
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17029879 110 + 20766785
UACUGCAACUUGUUGCGAGCGAGAGAGAGAGAGCGAAGUUCGAUUCGAACAUCGAGCGAAACGGGCAAAUCGGUU---------A-AACGGUUCGGCCGAAGCUAUAUAAGCAACCCGCA
...(((((....))))).(((.........(..(((.(((((...))))).)))..)....(((.(.(((((...---------.-..))))).).)))..(((.....)))....))). ( -31.10)
>DroSec_CAF1 124581 103 + 1
UGCUGCAACUUAUUGCGAGCGCGAGAG--------AAGUUCGUUUCGAACAUUGAGCGAAACGGGCAAAUCGGUA---------AAAACGGUUCGACCGAAGCUAUAUAAGCAACUCGCA
.(((((((....)))).)))(((((..--------..((((((((((.........))))))))))...(((((.---------.((....))..))))).(((.....)))..))))). ( -35.30)
>DroSim_CAF1 132379 103 + 1
UGCUGCAACUUGUUGCGAGCGCGAGAG--------AAGUUCGUUUCGAACAUUGAGCGAAACGGGCAAAUCGGUA---------AAAACGGUUCAACCGAAGCUAUAUAAGCAACUCGCA
.(((((((....)))).)))(((((..--------..((((((((((.........))))))))))...(((((.---------...........))))).(((.....)))..))))). ( -36.20)
>DroYak_CAF1 134875 104 + 1
CACUGCAACAUGUUGCGACCG----------------GUUCGAUUCGAGCAACGAGCGAAACGGGCCAAUCGGUUAAGACGGUUAAAACGGUUUGACGGAAGCUAUAUAAGGAACCCGCA
....((...((((.((..(((----------------(((((.((((..(...)..)))).)))))).....((((((.((.......)).))))))))..)).))))..((...)))). ( -27.10)
>consensus
UACUGCAACUUGUUGCGAGCGCGAGAG________AAGUUCGAUUCGAACAUCGAGCGAAACGGGCAAAUCGGUA_________AAAACGGUUCGACCGAAGCUAUAUAAGCAACCCGCA
...(((((....))))).(((................((((((((((.........)))))))))).....(((..............(((.....)))..(((.....))).)))))). (-19.85 = -20.85 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:37 2006