Locus 5230

Sequence ID 3R_DroMel_CAF1
Location 13,680,606 – 13,680,703
Length 97
Max. P 0.796227
window8533

overview

Window 3

Location 13,680,606 – 13,680,703
Length 97
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 85.89
Mean single sequence MFE -17.08
Consensus MFE -12.70
Energy contribution -12.90
Covariance contribution 0.20
Combinations/Pair 1.15
Mean z-score -1.94
Structure conservation index 0.74
SVM decision value 0.60
SVM RNA-class probability 0.796227
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13680606 97 - 27905053
CACCCUUCAUCCAUUUUCCACCCACUUUCCAUCCAUU-UUCCUUGGUUUUCAUCGCCCUCUGUCUGGUCGCUGACUGAUAGGCAGCUUUUGCCCGGCU
................................(((..-.....)))........(((...((((.((((...))))))))(((((...))))).))). ( -14.00)
>DroSec_CAF1 7975 97 - 1
CACCCUUCACCUACUUUCCACCCACUUUCCACCCAUU-UCCCUUGCUUUUCAUCGCCCUCUGUCUGCUCGCUGACUGAUAGGCAGCUUUUGCCGGGCU
.....................................-................((((((.(((........))).))..(((((...))))))))). ( -16.70)
>DroSim_CAF1 8018 92 - 1
------CUCCCUACUACCCACCCACUUUCCACCCAUUUUUCCUUGCUUUUCAUCGCCCUCUGUCUGCUCGCUGACUGAUAGGCAGCUUUUGCCGGGCU
------................................................((((((.(((........))).))..(((((...))))))))). ( -16.70)
>DroEre_CAF1 2522 97 - 1
CGCUUUCCACCCACUUUCCACCCACUUUCCACCCAUU-UUCCUUGCUUUUCAUCGGCCACUGUCUGGCCGCUGACUGAUAGGCAGCUUUUGCCAGGCU
.((((................................-...........(((.((((((.....)))))).)))......(((((...))))))))). ( -20.70)
>DroYak_CAF1 2502 93 - 1
---CUUUC-CCUAUUUCCCACCCACUUUUCACCCAUU-UUACUUGCUUUUCAUCGCCCGCUGUCUGGCCGCUGACUGAUAGGCAGCUUUUGCCAGGCU
---.....-............................-.......................(((((((.((((.((....))))))....))))))). ( -17.30)
>consensus
C_CCCUUCACCUACUUUCCACCCACUUUCCACCCAUU_UUCCUUGCUUUUCAUCGCCCUCUGUCUGGUCGCUGACUGAUAGGCAGCUUUUGCCAGGCU
.............................................................(((((((.((((.((....))))))....))))))). (-12.70 = -12.90 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:38 2006