Locus 3996

Sequence ID 2L_DroMel_CAF1
Location 11,628,320 – 11,628,410
Length 90
Max. P 0.587406
window6302

overview

Window 2

Location 11,628,320 – 11,628,410
Length 90
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 77.18
Mean single sequence MFE -17.67
Consensus MFE -11.21
Energy contribution -11.43
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -1.30
Structure conservation index 0.63
SVM decision value 0.11
SVM RNA-class probability 0.587406
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11628320 90 - 22407834
UAGCAAUUUCACAACUUACUGUGGCCCACCGUACAUG-AGACCUCAACAACGCGGUCCUUU-CUCGUACUUGCCACAUUGUAAGUAGCCGCA
.............((((((((((((.....((((..(-(((((.(......).))))...)-)..))))..))))))..))))))....... ( -22.90)
>DroSec_CAF1 81670 90 - 1
UGGCAAUUUCACAACUUACUCUGCCCCACCGUACAUG-AGACCUCAACAACGCGGUCCUUU-CUCGUACUUGCCACAUUGUAAGUAGCCGCA
.(((.......................(((((...((-(....))).....))))).....-....(((((((......))))))))))... ( -17.30)
>DroSim_CAF1 85448 90 - 1
UGGCAAUUUCACAACUUACUCUGCCCCACCGUACAUG-AGACCUCAACAACGCGGUCCUUU-CUCGUACUUGCCACAUUGUAAGUAGCCGCA
.(((.......................(((((...((-(....))).....))))).....-....(((((((......))))))))))... ( -17.30)
>DroEre_CAF1 111975 84 - 1
------UCUAAAAACUUACUUUGCCCCACAGUGCUCG-AAACCUCAACAUCGCGGUCCUCU-CUCGAACUUGCCACAUUGUAAGUAGCCGCU
------..........((((.((...)).))))....-.............(((((..((.-...))((((((......)))))).))))). ( -11.80)
>DroYak_CAF1 85082 90 - 1
UAAUAACUUAACAACUUAAUUUGCCCCACAGUGCCUG-AAACCUCAACCACGCGGUCCUAU-CUCGUACUUGCCACAUUGUAAGUAGCCGCA
..............................(((..((-(....)))..)))(((((.....-....(((((((......)))))))))))). ( -17.10)
>DroAna_CAF1 95114 73 - 1
-------------------UUGAAGCCACGGUGCCUGGCAACCUCAGGCUCGUAGUCCUUUGCUCGCACUUGCCACUUUGUAAGUAGCCACA
-------------------.....((.((((.((((((.....)))))))))).)).........((((((((......)))))).)).... ( -19.60)
>consensus
U_GCAAUUUCACAACUUACUUUGCCCCACCGUACAUG_AAACCUCAACAACGCGGUCCUUU_CUCGUACUUGCCACAUUGUAAGUAGCCGCA
...................................................(((((..........(((((((......)))))))))))). (-11.21 = -11.43 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:45 2006