Locus 5965

Sequence ID 2L_DroMel_CAF1
Location 16,789,403 – 16,789,493
Length 90
Max. P 0.999947
window9479 window9480

overview

Window 9

Location 16,789,403 – 16,789,493
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 76.85
Mean single sequence MFE -21.70
Consensus MFE -11.03
Energy contribution -14.66
Covariance contribution 3.63
Combinations/Pair 1.11
Mean z-score -3.73
Structure conservation index 0.51
SVM decision value 3.22
SVM RNA-class probability 0.998761
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16789403 90 + 22407834
UUUGUUUACCUGUCUAAACAAAACGUGCUCUUAACAAAAGAGCUUUCUUCGAUUCUCUUUUUGUUUGCAAAGGUUUGUUAAGAGCACUAU
((((((((......))))))))..((((((((((((((((((..((....))..))))(((((....))))).))))))))))))))... ( -28.30)
>DroSec_CAF1 9518 90 + 1
UUUGUUUACCUGUGUAAACAAAACGUGCUCUUAACAAAAGAGCUUUCUUCAAUUCUCUUUUUGUUUGCAAAGGUUGCUUAAGAGCACUAU
(((((((((....)))))))))..((((((((((.(((((((..((....))..))))))).....(((.....)))))))))))))... ( -26.50)
>DroSim_CAF1 9617 90 + 1
UUUGUUUACCUGUGUAAAUAAAACGUGCUCUUAACAAAAGAGCUUUCCUCUAUUCUCUUUUUGUUUGGAAAUGAUGCCUAAGAGCACUAU
(((((((((....)))))))))..((((((((((((((((((..(......)..))).))))))..((........)))))))))))... ( -23.30)
>DroYak_CAF1 11835 72 + 1
----------UGUCUACGCAAUACGUUCACUUAUCAAAAAAACUUUGUUCAAUUCUCUUUCUCUUU--------UUGUUAAGAGAACUUU
----------..............((((.((((.((((((.......................)))--------))).)))).))))... (  -8.70)
>consensus
UUUGUUUACCUGUCUAAACAAAACGUGCUCUUAACAAAAGAGCUUUCUUCAAUUCUCUUUUUGUUUGCAAAGGUUGCUUAAGAGCACUAU
((((((((......))))))))..((((((((((((((((((..((....))..)))))))...............)))))))))))... (-11.03 = -14.66 +   3.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,789,403 – 16,789,493
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 76.85
Mean single sequence MFE -22.10
Consensus MFE -14.57
Energy contribution -14.51
Covariance contribution -0.06
Combinations/Pair 1.28
Mean z-score -3.77
Structure conservation index 0.66
SVM decision value 4.76
SVM RNA-class probability 0.999947
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16789403 90 - 22407834
AUAGUGCUCUUAACAAACCUUUGCAAACAAAAAGAGAAUCGAAGAAAGCUCUUUUGUUAAGAGCACGUUUUGUUUAGACAGGUAAACAAA
...(((((((((((((...((((....))))(((((..((...))...))))))))))))))))))..((((((((......)))))))) ( -26.10)
>DroSec_CAF1 9518 90 - 1
AUAGUGCUCUUAAGCAACCUUUGCAAACAAAAAGAGAAUUGAAGAAAGCUCUUUUGUUAAGAGCACGUUUUGUUUACACAGGUAAACAAA
...(((((((((((((.....))).....(((((((..((....))..))))))).))))))))))..(((((((((....))))))))) ( -29.30)
>DroSim_CAF1 9617 90 - 1
AUAGUGCUCUUAGGCAUCAUUUCCAAACAAAAAGAGAAUAGAGGAAAGCUCUUUUGUUAAGAGCACGUUUUAUUUACACAGGUAAACAAA
...(((((((((((........)).....(((((((............)))))))..)))))))))......(((((....))))).... ( -20.20)
>DroYak_CAF1 11835 72 - 1
AAAGUUCUCUUAACAA--------AAAGAGAAAGAGAAUUGAACAAAGUUUUUUUGAUAAGUGAACGUAUUGCGUAGACA----------
.....((((((.....--------.))))))(((((((((......))))))))).....((..(((.....)))..)).---------- ( -12.80)
>consensus
AUAGUGCUCUUAACAAACCUUUGCAAACAAAAAGAGAAUUGAAGAAAGCUCUUUUGUUAAGAGCACGUUUUGUUUACACAGGUAAACAAA
...(((((((((((...............(((((((............))))))))))))))))))........................ (-14.57 = -14.51 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:44 2006