Locus 6404

Sequence ID X_DroMel_CAF1
Location 16,053,048 – 16,053,161
Length 113
Max. P 0.751675
window10460

overview

Window 0

Location 16,053,048 – 16,053,161
Length 113
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 91.38
Mean single sequence MFE -23.40
Consensus MFE -20.84
Energy contribution -20.65
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.56
Structure conservation index 0.89
SVM decision value 0.48
SVM RNA-class probability 0.751675
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16053048 113 - 22224390
GGAAAAACGAAAGUGUUGACUAGCACUGUCCAACAUGAAAAAAAAAAAAAUGGGGGGGCGACAUCGAGAUGACCCCAGAGAAGAUAUUUCCAUUCGUUCCAAACAAUAUUAAA---
(((...(((((.((((((((.......)).))))))((((..........(((((...((....))......))))).........))))..)))))))).............--- ( -23.41)
>DroSec_CAF1 7312 107 - 1
GGAAAAACGAAAGUGUUGACUAGCACUGUCCAACAUGAAAAAAAGGA-----GGGGGGCGACAUCGAGAUGACCCCAGAGAAGAUAUUUCCAUUCGUUCCAAACAAUAUUAA----
(((...(((((.((((((((.......)).))))))........(((-----((((((...(((....))).))))..........))))).))))))))............---- ( -22.50)
>DroSim_CAF1 4010 108 - 1
GGAAAAACGAAAGUGUUGACUAGCACUGUCCAACAUGGAAAAAAAG------GGGGGGCGACAUCGAGAUGACCCCAGAGAAGAUAUUUCCAUUCGUUCCAAACAAUAUUAAAG--
(((...(((((.((((((((.......)).))))))(((((.....------.((((....(((....))).))))..........))))).))))))))..............-- ( -24.29)
>DroYak_CAF1 3624 110 - 1
GGAAAAACGAAAGUGUUGACUAGCACUGUCCAACAUGAAAAAAAAA------GGGGGGCGACAUCGAGAUGACCCCCGACAAGACAUUUCCAUUCGUUUCAAACAAAAUUAAAAAA
....(((((((.((((((((.......)).))))))..........------(((((....(((....))).)))))...............)))))))................. ( -23.40)
>consensus
GGAAAAACGAAAGUGUUGACUAGCACUGUCCAACAUGAAAAAAAAA______GGGGGGCGACAUCGAGAUGACCCCAGAGAAGAUAUUUCCAUUCGUUCCAAACAAUAUUAAA___
(((...(((((.((((((((.......)).))))))................((((..((....))......))))................))))))))................ (-20.84 = -20.65 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:57 2006