Locus 1918

Sequence ID 2L_DroMel_CAF1
Location 5,227,220 – 5,227,325
Length 105
Max. P 0.500000
window3090

overview

Window 0

Location 5,227,220 – 5,227,325
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.58
Mean single sequence MFE -29.04
Consensus MFE -21.77
Energy contribution -22.15
Covariance contribution 0.38
Combinations/Pair 1.06
Mean z-score -1.41
Structure conservation index 0.75
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5227220 105 - 22407834
GAAGUCGGUGGGACUUC-CCUCUCCACAGAAGCUUGGGCAGCAUC--------------CAUUCACAGCAUCCGGCUGCCCACGCACUAAAUUUUGUGAAAGAAAAAGCCUCUAAACUAG
......((((((....)-))(((.(((((((((.((((((((...--------------...............)))))))).))......)))))))..)))....))).......... ( -29.87)
>DroSec_CAF1 4667 99 - 1
GAAGUCGGUGGAACUCG-ACUCUCCACAGAAGCUUGGGCAGCAUC--------------C----ACAGCAUCCGGCUGCCCACGCACUAAAU-UUGUGAAAGAAAAAGCCUCA-AACUAG
..(((..(((((.....-....))))).((.(((((((((((...--------------.----..........))))))).((((......-.)))).......)))).)).-.))).. ( -27.14)
>DroSim_CAF1 5549 100 - 1
GAAGUCGGUGGGACUUG-GCUCUCCACAGAAGCUUGGGCAGCAUC--------------C----ACAGCAUCCGGCUGCCCACGCACUAAAU-UUGUGAAAGAAAAAGCCUCAAAACUAG
.(((((.....)))))(-(((((.((((((.((.((((((((...--------------.----..........)))))))).))......)-)))))..)))....))).......... ( -28.84)
>DroYak_CAF1 5750 118 - 1
GAAGUCGAUGGUACUUCCCCUUUCCACAGAAGCUUGGGCAGCAUCUACAGCAUCUACAGCAUCCACAGCAUCCGGCUGCCCACGCACUAAAU--UGGGAAAGAAAAAGACUCAAAACUAG
((.(((...((.....)).((((((......((.((((((((.......(......).((.......)).....)))))))).)).(.....--.))))))).....)))))........ ( -30.30)
>consensus
GAAGUCGGUGGGACUUC_CCUCUCCACAGAAGCUUGGGCAGCAUC______________C____ACAGCAUCCGGCUGCCCACGCACUAAAU_UUGUGAAAGAAAAAGCCUCAAAACUAG
....((.(((((..........))))).)).((.((((((((................................)))))))).))................................... (-21.77 = -22.15 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:43 2006