Locus 5550

Sequence ID 3L_DroMel_CAF1
Location 15,238,241 – 15,238,331
Length 90
Max. P 0.866422
window8773

overview

Window 3

Location 15,238,241 – 15,238,331
Length 90
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.76
Mean single sequence MFE -23.13
Consensus MFE -16.88
Energy contribution -17.80
Covariance contribution 0.92
Combinations/Pair 1.08
Mean z-score -1.45
Structure conservation index 0.73
SVM decision value 0.85
SVM RNA-class probability 0.866422
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15238241 90 - 23771897
UUUAGCCACAAAUCUACACAACUGCCCCAAUGCAACCAGAAAUGCGUUCUGUUGGUUUUGGCUUCGGGUUUAGCCCAU-----UG-----CCCA-CUGC-UU------------------
...(((((.(((((.(((.((((((......)))..((....)).))).))).))))))))))..((((.........-----.)-----))).-....-..------------------ ( -21.00)
>DroSec_CAF1 127512 83 - 1
UUUAGCCACAAAUCUACACAACUGCCCCAAUGCAGCCAGAAAUGCGUUCUGUUGGUUUUGGCUUCGGGCUUAGCCCAU-----U-------------GC-UC------------------
...(((((.(((((.(((.((((((......)))((.(....)))))).))).))))))))))..((((...))))..-----.-------------..-..------------------ ( -22.70)
>DroSim_CAF1 135394 83 - 1
UUUAGCCACAAAUCUACACAACUGCCCCAAUGCAGCCAGAAAUGCGUUCUGUUGGUUUUGGCUUCGGGCUUAGCCCAC-----U-------------GC-UC------------------
...(((((.(((((.(((.((((((......)))((.(....)))))).))).))))))))))..((((...))))..-----.-------------..-..------------------ ( -22.70)
>DroEre_CAF1 127446 89 - 1
UUUAGCCACAAAUCUACACAACUGCCCCAAUGCCGCCAGAAAUGCGUUCUGUUGGCUGUGGCU-UGGGCUUAGCCCAC-----UG-----CCCA-CUGC-UC------------------
...(((((((......((....)).......((((.(((((.....))))).)))))))))))-(((((.........-----.)-----))))-....-..------------------ ( -26.60)
>DroYak_CAF1 133391 108 - 1
UUUAGCCACAAAUCUACACAACUGCCCCAAUGCAGCCAGAAAUGCGUUCUGUUGGUUUUGGCUUUGGGCUUAGCCCAU-----UG-----CUCA-CUGC-CCACUGCCCACUGCCCACUG
...(((((.............((((......)))).(((((.....))))).)))))..(((..(((((..(((....-----.)-----))..-..))-)))..)))............ ( -27.30)
>DroAna_CAF1 120855 95 - 1
UUUAGCCACAAAUCUACACAACUGCCCCCAUGCAGCCAGAAAUGCGUU-UGUUGGUUUUGGUUU------UAACCCGCCCAGAUGCAGGACCCCCUUGAUUU------------------
.....((..............((((......)))).......((((((-((..(((...(((..------..))).))))))))))))).............------------------ ( -18.50)
>consensus
UUUAGCCACAAAUCUACACAACUGCCCCAAUGCAGCCAGAAAUGCGUUCUGUUGGUUUUGGCUUCGGGCUUAGCCCAC_____UG_____CCCA_CUGC_UC__________________
...(((((.(((((.(((.((((((......)))..((....)).))).))).))))))))))..((((...))))............................................ (-16.88 = -17.80 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:04 2006