Locus 5718

Sequence ID 2R_DroMel_CAF1
Location 18,115,276 – 18,115,382
Length 106
Max. P 0.577790
window9157

overview

Window 7

Location 18,115,276 – 18,115,382
Length 106
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -22.00
Consensus MFE -16.20
Energy contribution -16.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.07
Structure conservation index 0.74
SVM decision value 0.09
SVM RNA-class probability 0.577790
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18115276 106 - 20766785
UGCACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAA------GAAAGAAGUUUCAAACAAUUAGCA--ACCCACAACACAGAUACAGUUCAUAGAAAA---
(((..((((.((((..((((((((.....)))))..)))..))))))))...------((((....)))).........)))--..............................--- ( -20.00)
>DroGri_CAF1 819 102 - 1
UGGACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAAUGGGAUAAAAUAAG-U----ACAAUUAGCACGAGUUACUUUCUAAAUUCAUCUUA----------
.....((((.((((..((((((((.....)))))..)))..))))))))...((((((.......(-(----.......))..(((((........)))))))))))---------- ( -20.20)
>DroSec_CAF1 1208 106 - 1
UGCACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAA------GAAAGAAGUUUCAAACAAUUAGCA--ACCCACAAUGCAGAUACAGUUCAUAGAAAA---
.......(((((((..((((((((.....)))))..)))..)))(((((((.------((((....)))).........(..--.....)..)))))))...))))........--- ( -21.90)
>DroSim_CAF1 904 106 - 1
UGCACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAA------GAAAGAAGAUUCAAACAAUUAGCA--ACCUACAAUACAGAUACAGUAUAUAGAAAA---
(((..((((.((((..((((((((.....)))))..)))..))))))))...------(((......))).........)))--..(((..((((.......)))).)))....--- ( -20.80)
>DroEre_CAF1 1270 109 - 1
UGCACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAA------GAAAGAAUGAUCAAGGAAUUAGCA--ACCCGCAAUUUAGAAACAGUUCAUAGAAUACAU
.......((((.(((((((((((.((((((.((((.((...)).)))).)))------))).))..)))))))))....((.--....))............))))........... ( -30.00)
>DroYak_CAF1 1226 91 - 1
UGCACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAA------GAGAGAAUGUUCAAAGAAUUAGCA--A-------UAUAG--------CAUAGAACG---
(((..((((.((((..((((((((.....)))))..)))..))))))))...------(((......))).........)))--.-------.....--------.........--- ( -19.10)
>consensus
UGCACCAGAAUGUCCUUGAUCUCCUUCUUGGAGGCCUCAUCGACGUCUGCAA______GAAAGAAGGUUCAAACAAUUAGCA__ACCCACAAUACAGAUACAGUUCAUAGAAAA___
.....((((.((((..((((((((.....)))))..)))..)))))))).................................................................... (-16.20 = -16.20 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:36 2006