Locus 5139

Sequence ID X_DroMel_CAF1
Location 13,410,897 – 13,411,011
Length 114
Max. P 0.998912
window8348

overview

Window 8

Location 13,410,897 – 13,411,011
Length 114
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 93.47
Mean single sequence MFE -39.44
Consensus MFE -34.30
Energy contribution -34.50
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.87
SVM decision value 3.28
SVM RNA-class probability 0.998912
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13410897 114 + 22224390
ACCACCAAGACCGUGGACGGAGUUAUUGUGGUGGCACCGCCAAGCCGCCGCCGCAUCAGCAUCAGCAUCAGCAGUAUCC---UGCACUAUAGGCACAUCACCGCCAGCCCGUCCAAC
.............(((((((.(((..(((((((((..(.....)..)))))))))..)))....((....((((....)---)))......(((........))).))))))))).. ( -42.40)
>DroSec_CAF1 6724 111 + 1
ACCACCAAGACCGUGGACGGAGUUAUUGUGGUGGCACCGCCAAGCCGCCGCCGCAUCAGCAUCAGCAUCA---GUAUCC---UGCACUAUAGGCACAUCACCGCCAGUCCGUCCAAC
.............(((((((((((..(((((((((..(.....)..)))))))))..)))....(((...---......---)))......(((........)))..)))))))).. ( -38.20)
>DroSim_CAF1 6260 111 + 1
ACCACCAAGACCGUGGACGGAGUUAUUGUGGUGGCACCGCCAAGCCGCCGCCGCAUCAGCAUCAGCAUCA---GUAUCC---UGCACUAUAGGCACAUCACCGCCAGCCCGUCCAAC
.............(((((((.(((..(((((((((..(.....)..)))))))))..)))....((..((---(....)---)).......(((........))).))))))))).. ( -37.60)
>DroEre_CAF1 1107 105 + 1
ACCACCAAGACCGUGGACGGAGUUAUUGUGGUGGCACCGCCAAGCCGCCGCCGCAUCAGCAU------CA---GUAUCC---UGCACUAUAGGCACAUCACCGCCGGCCCGUCCACC
............((((((((.........((((((........))))))((((((...((..------..---))....---)))......(((........)))))))))))))). ( -38.80)
>DroYak_CAF1 15137 114 + 1
ACCACCAAGAACGUGGACGGAGUUAUUGUGGUGGCACCGCCAAGCCGCCGCCGCAUCAGCAUCAGCAUCA---GUAUCCUGCUGCACUAUAGGCACAUCACAGCCAGCCAGUCCACC
............((((((((.(((..(((((((((..(.....)..)))))))))..)))....(((.((---(....))).)))......(((........)))..)).)))))). ( -40.20)
>consensus
ACCACCAAGACCGUGGACGGAGUUAUUGUGGUGGCACCGCCAAGCCGCCGCCGCAUCAGCAUCAGCAUCA___GUAUCC___UGCACUAUAGGCACAUCACCGCCAGCCCGUCCAAC
.............(((((((.(((..(((((((((..(.....)..)))))))))..)))...............................(((........)))...))))))).. (-34.30 = -34.50 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:55 2006