Locus 5160

Sequence ID 3L_DroMel_CAF1
Location 14,174,309 – 14,174,418
Length 109
Max. P 0.886692
window8163

overview

Window 3

Location 14,174,309 – 14,174,418
Length 109
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 63.21
Mean single sequence MFE -21.27
Consensus MFE -9.45
Energy contribution -10.15
Covariance contribution 0.70
Combinations/Pair 1.36
Mean z-score -1.77
Structure conservation index 0.44
SVM decision value 0.94
SVM RNA-class probability 0.886692
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14174309 109 - 23771897
CCC-----CCCUCUCCUCAUCG-UAAGUCACCUGACAAAGGGACUCGUCUCAUAACGAGUUAACUCUUUACACAGAAGUGG---CAACCAGUUUAACGUAUGUACAUACAUAUGUAUA
...-----..............-...((((((((..((((((((((((......))))))...))))))...)))..))))---)..........((((((((....))))))))... ( -25.60)
>DroSec_CAF1 8734 99 - 1
CC------CCCUCUCCUUAUCU-UAAGUCACCUGACAAAGGGACUCGUCUCAUAACGAGUUAACUCUUUACACAGAAGUGG---CAACCAGUUUGACGUAC---------UACGUACA
..------..............-...((((.(((..((((((((((((......))))))...)))))).(((....))).---....)))..))))((((---------...)))). ( -21.00)
>DroSim_CAF1 8808 100 - 1
CCG-----CCCUCUCCUCAUCU-UAAGUCACCUGACAAAGGGACUCGUCUCAUAACGAGUUAACUCUUUACACAGAAGUGG---CAACCAGUUUGACGUAC---------UACGUACA
..(-----((((((........-...(((....)))((((((((((((......))))))...))))))....)).)).))---)............((((---------...)))). ( -21.40)
>DroWil_CAF1 13105 96 - 1
AUA-----------CAUUAACUUAAAGUCACCUGACAAAGGGUCGCCUCUUAUUGGGUCUUAAGU--------AGAAGCUUUUGUUGC--CUUUAAC-UAUCUCAAUGCAGGUGGAUA
...-----------.............(((((((.(.(((((....)))))((((((...((..(--------(((.((.......))--.))))..-)).))))))))))))))... ( -20.60)
>DroYak_CAF1 11065 94 - 1
CCCCUUCUCCCUCCCCUCAUCC-CAAGGCACCUGACAGAGGAACUCGUCUCAUAACGAGUUAACUCUUUACGCAGAAGUGG---CAACCAGUUUGCCG--------------------
...(((((.(....((((....-..((....))....))))(((((((......)))))))..........).))))).((---(((.....))))).-------------------- ( -22.90)
>DroAna_CAF1 7847 93 - 1
UCUCA-CAAGCACUCUUAAAGU-AAAGUCACCUGACAAUGGGAACCUCCUCAUAACAAGUUGAAUCUUUACACAGAAAUAU---CAACCUGUUUGACU--------------------
.....-((((((........((-(((((((.((....(((((......)))))....)).)))..))))))...((....)---)....))))))...-------------------- ( -16.10)
>consensus
CCC_____CCCUCUCCUCAUCU_UAAGUCACCUGACAAAGGGACUCGUCUCAUAACGAGUUAACUCUUUACACAGAAGUGG___CAACCAGUUUGACGUA__________UA_GUA_A
..........................(((((((.....)))(((((((......)))))))................................))))..................... ( -9.45 = -10.15 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:19 2006