Locus 2286

Sequence ID 3L_DroMel_CAF1
Location 6,430,680 – 6,430,770
Length 90
Max. P 0.814812
window3534

overview

Window 4

Location 6,430,680 – 6,430,770
Length 90
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 83.69
Mean single sequence MFE -14.58
Consensus MFE -10.06
Energy contribution -10.34
Covariance contribution 0.28
Combinations/Pair 1.13
Mean z-score -2.07
Structure conservation index 0.69
SVM decision value 0.66
SVM RNA-class probability 0.814812
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6430680 90 - 23771897
------------AAGA---GGAAAAAAUGUGAAAAACUGAAGAAGGAAAAACAAAUAAAAACUGGAAUCACAGUUGAGUUGAUUUCCUACAUGCACACAUAUUCU
------------....---((((...(((((.....(....).((((((..(((.....(((((......)))))...))).)))))).......))))).)))) ( -15.00)
>DroSec_CAF1 168664 90 - 1
------------AAGA---GGAAAAAAUGUGAAAAACUGAAGAAGGAAAAACAAAUAAAAACUGGAAUCACAGUUGAGUUGAUUUCCAACAUGCACACACAAUCU
------------....---........((((.....(....)..(((((..(((.....(((((......)))))...))).)))))..........)))).... ( -12.70)
>DroSim_CAF1 174048 90 - 1
------------AAGA---GGAAAAAAUGUGAAAAACUGAAGAAGGAAAAACAAAUAAAAACUGGAAUCACAGUUGAGUUGAUUUCCAACAUGCACACACAAUCU
------------....---........((((.....(....)..(((((..(((.....(((((......)))))...))).)))))..........)))).... ( -12.70)
>DroEre_CAF1 172917 93 - 1
------------AAAAGAAGCAAAAAGUGGGAAAACCUGAGGAGGGAAAAGUAAAUAAAAACUGGAAUCACAGUCGAGUUGAUUUCCUACAUGCACAAAUAGUCU
------------.......(((....((((((((.(((....)))..............((((.((.......)).))))..)))))))).)))........... ( -18.00)
>DroYak_CAF1 182205 105 - 1
AAUGCAAAACAAAAAAAAAAUUAAAAAUGGGAAAAACUGAAGGAGGAAAAAUAAAUAAAAACUGGUAUCACAGUUGAGUUGAUUUCCUACAUGCACAAAUAGUCU
..((((......................((......))...(.((((((....(((...(((((......)))))..)))..)))))).).)))).......... ( -14.50)
>consensus
____________AAGA___GGAAAAAAUGUGAAAAACUGAAGAAGGAAAAACAAAUAAAAACUGGAAUCACAGUUGAGUUGAUUUCCUACAUGCACACAUAAUCU
.........................................(.((((((..(((.....(((((......)))))...))).)))))).)............... (-10.06 = -10.34 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:42 2006