Locus 3700

Sequence ID X_DroMel_CAF1
Location 9,861,872 – 9,861,968
Length 96
Max. P 0.500000
window6057

overview

Window 7

Location 9,861,872 – 9,861,968
Length 96
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 86.05
Mean single sequence MFE -29.12
Consensus MFE -20.21
Energy contribution -20.53
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.40
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9861872 96 - 22224390
GCAGCCGCAAAAGCCAGUUAAAGUCUGUUAAACCAGUUAACAUGGCACUUUUGGCCAAGUUAACA--ACUGCCAGGCAGCGGGC-------GA--GAAACACGU------ACG
((..((((....(((((((((...(((......)))))))).))))...((((((..(((.....--)))))))))..))))))-------..--.........------... ( -24.90)
>DroSec_CAF1 6662 102 - 1
GCAGCCGCAAAAGCCAGUUAAAGUCUGUUAAACCAGUUAACAUGGCACUUUUGGCCAAGUUAAGC--ACUGCCAGCCAGCGGGC-------GA--GAAAGACGUAAAGGCACG
...(((((....))........((((..........(((((.((((.(....))))).)))))((--.((((......))))))-------..--...)))).....)))... ( -27.50)
>DroSim_CAF1 6375 102 - 1
GCAGCCGCAAAAGCCAGUUAAAGUCUGUUAAACCAGUUAACAUGGCACUUUUGGCCAAGUUAAGC--ACUGCCAGCCAGCGGGC-------GA--GAAAGACGUAAAGGCACG
...(((((....))........((((..........(((((.((((.(....))))).)))))((--.((((......))))))-------..--...)))).....)))... ( -27.50)
>DroYak_CAF1 5971 113 - 1
GCAGCCGCAAAAGCCUGUUAAAGUCUGUUAAACCAGUUAACAUGGCACUUUUGGCCAAGUUAACUUGGCGGCCAGGCAGCAGGCAUCAGGCGAAAAAAACACGUUAAAGCACA
...(((......(((((((...(((((.....(((((((((.((((.(....))))).)))))).)))....))))))))))))....)))...................... ( -36.60)
>consensus
GCAGCCGCAAAAGCCAGUUAAAGUCUGUUAAACCAGUUAACAUGGCACUUUUGGCCAAGUUAACC__ACUGCCAGCCAGCGGGC_______GA__GAAACACGUAAAGGCACG
...(((((....(((((((((...(((......)))))))).))))....(((((..(((.......))))))))...)).)))............................. (-20.21 = -20.53 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:57 2006