Locus 5573

Sequence ID 2R_DroMel_CAF1
Location 17,819,362 – 17,819,464
Length 102
Max. P 0.527688
window8929

overview

Window 9

Location 17,819,362 – 17,819,464
Length 102
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 95.54
Mean single sequence MFE -29.84
Consensus MFE -25.18
Energy contribution -25.62
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.32
Structure conservation index 0.84
SVM decision value -0.01
SVM RNA-class probability 0.527688
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17819362 102 + 20766785
---GCACCCGACGACACGUCUCGACUUUGGAGUUGCCCCAACUGAACAAAGCUCGAUACCUGCGAGAAUCGAGUACCGUAUAGAACGUGAACCGAAAAUCGGGGA
---...(((((((.((.((.(((((((((.(((((...)))))...))))).)))).)).))))....(((.((.((((.....))).).)))))...))))).. ( -29.90)
>DroSec_CAF1 86488 102 + 1
---GCACCCGACGACACGUCUCGACUUUGGAGUUGCCCCAACUGAACAAAGCUCGAUACCUGCGAAAAUCGAGUACCGUAUAGAACGUGAACCGAAAAUCGGGGA
---...(((((((.((.((.(((((((((.(((((...)))))...))))).)))).)).))))....(((.((.((((.....))).).)))))...))))).. ( -29.90)
>DroSim_CAF1 84102 102 + 1
---GCACCCGACGACACGUCUCGACUUUGGAGUUGCCCCAACUGAACAAAGCUCGAUACCUGCGAAAAUCGAAUACCGUAUAGAACGUGAACCGAAAAUCGGGGA
---...(((((((.((.((.(((((((((.(((((...)))))...))))).)))).)).))))....(((.....(((.....))).....)))...))))).. ( -27.30)
>DroEre_CAF1 87875 102 + 1
---GCACCCGACGACACGUCUCGACUUUGGAGUUGCCCGAACUGAACAAAGCUCGAGGCCUGCGAAAAUCGGGUACCGUAUAGAACGUGAACCGAAAAUCGGAGA
---..((((((((.((.((((((((((((.((((.....))))...))))).))))))).))))....)))))).((((.....))).)..(((.....)))... ( -33.10)
>DroYak_CAF1 91564 105 + 1
CACGCACCCGACGACACGUCUCGACUUUGGAGUUGCCCGAACUGAACAAAGCUCGAUACCUGCGAAAAUCGGGUACCGUAUAGAACGUGAACCGAAAAUCGGAGA
((((.((((((((.((.((.(((((((((.((((.....))))...))))).)))).)).))))....))))))..(.....)..))))..(((.....)))... ( -29.00)
>consensus
___GCACCCGACGACACGUCUCGACUUUGGAGUUGCCCCAACUGAACAAAGCUCGAUACCUGCGAAAAUCGAGUACCGUAUAGAACGUGAACCGAAAAUCGGGGA
......(((((((.((.((.(((((((((.((((.....))))...))))).)))).)).))))....(((.((.((((.....))).).)))))...))))).. (-25.18 = -25.62 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:57 2006