Locus 3974

Sequence ID 3L_DroMel_CAF1
Location 11,560,396 – 11,560,490
Length 94
Max. P 0.560022
window6193

overview

Window 3

Location 11,560,396 – 11,560,490
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 67.77
Mean single sequence MFE -20.35
Consensus MFE -8.19
Energy contribution -10.00
Covariance contribution 1.81
Combinations/Pair 1.06
Mean z-score -1.64
Structure conservation index 0.40
SVM decision value 0.05
SVM RNA-class probability 0.560022
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11560396 94 + 23771897
AGAAAAUGUUUCGCAUGUACAUGGAAAUGUACUUGCCGUAGUGGAGUUCAUCGAAUCUGUUGGGUAGGAAGUAUUUUACUAUGAAUCUUG-------AAAA
........(((((((.((((((....)))))).)))(((((((((((.(.((..(((.....)))..)).).)))))))))))......)-------))). ( -25.60)
>DroVir_CAF1 60401 79 + 1
AGAAGAUGUUGCGCAUAUAGUGCGAUAUAUAUUUGCCGUAAUGCAGCUCAUCGAAGCUGUGUCAAAAUUGAAA------AACG--CA--------------
.(((.(((((((((.....)))))))))...)))((.((...((((((......)))))).(((....)))..------.)))--).-------------- ( -19.10)
>DroGri_CAF1 49277 83 + 1
AGAAUAUGUUGCGCAUAUAAUGCGAUAUAUAUUUUCCGUAGUGCAGUUCAUCAAAACUGUGAAAAAGUUGAUAGUU-G-AGCA--AA--------------
(((((((((..(((((...)))))..)))))))))..........(((((.....(((((.((....)).))))))-)-))).--..-------------- ( -16.60)
>DroSec_CAF1 57432 83 + 1
AGAAAAUGUUGCGCAUGUACAUGGAAAUGUACUUGCCGUAGUGGAGUUCAUCGAAUCUGUUCGGUAGAAAGUAUUUUAUUAUA------------------
..........(.(((.((((((....)))))).))))((((((((((((((((((....)))))).))....)))))))))).------------------ ( -21.50)
>DroSim_CAF1 57479 83 + 1
AGAAAAUGUUGCGCAUGUACAUGGAAAUGUACUUGCCGUAGUGGAGUUCAUCGAAUCUGUCGGGUAGAAAGUAUUUUAUUGUA------------------
.(((..(..((((((.((((((....)))))).)).))))..)...)))..(((.....)))(((((((....)))))))...------------------ ( -18.80)
>DroYak_CAF1 59346 101 + 1
AGAAAAUGUUGCGCAUGUACAUGGAGAUGUACUUGCCGUAGUGCAGUUCAUCAAAACUGUUGGAUAAAGAGUAUUGUAAUAUAAUUUUUUCAUUCUUCAAG
.((((((((((((((.((((((....)))))).))).((...((((((......))))))...))..........))))))).....)))).......... ( -20.50)
>consensus
AGAAAAUGUUGCGCAUGUACAUGGAAAUGUACUUGCCGUAGUGCAGUUCAUCGAAUCUGUUGGAUAGAAAGUAUUUUA_UAUA__________________
.(((..(..((((((.((((((....)))))).)).))))..)...))).................................................... ( -8.19 = -10.00 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:27 2006