Locus 1565

Sequence ID 2R_DroMel_CAF1
Location 5,908,724 – 5,908,824
Length 100
Max. P 0.519876
window2624

overview

Window 4

Location 5,908,724 – 5,908,824
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.44
Mean single sequence MFE -26.80
Consensus MFE -16.16
Energy contribution -17.13
Covariance contribution 0.98
Combinations/Pair 1.18
Mean z-score -1.49
Structure conservation index 0.60
SVM decision value -0.03
SVM RNA-class probability 0.519876
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5908724 100 + 20766785
UUAGGGU------CUAACAAAAAACUUUCAAAGGGUUCGCUACAGCUCAAAGAUGU--------------CCCCGACUGGAUUACACAUUCCGGUCAAUAUGUGGAGCCCAAAUGUUCCC
...((((------...(((.............(((..((((.........)).)).--------------.)))(((((((........)))))))....)))...)))).......... ( -25.80)
>DroSec_CAF1 50767 100 + 1
UUUGGGU------CUAACAAAAAACUUUCAAAGGGUUUGCCAGAGCUCAAAGAUGU--------------CCCCGACUGGAUUACACAUUCCGGUCAAUAUGUGGAGCCCAAAUGCUGCC
(((((((------...(((.............((((((....))))))........--------------....(((((((........)))))))....)))...)))))))....... ( -27.50)
>DroSim_CAF1 43961 100 + 1
UUUGGGU------CUGACAAAAAACUUUCAAAGGGUUUGCCAGAGCUCAAAGAUGU--------------CCCCGACUGGAUUACACAUUCCGGUCAAUAUGUGGAGCCCAAAUGCUGCC
((((((.------.(.(((.............((((((....))))))........--------------....(((((((........)))))))....))).)..))))))....... ( -28.90)
>DroEre_CAF1 42986 100 + 1
UUAGGGU------CGAACAAAAAACUUUCAAAGGGUUUGACAGAGCCGAAAUAUGU--------------CCCCGACUGGAUUACACAUUCCGGUCAAUAUAUGGAGCCCAAAUGGUCCC
...((..------((((.........)))...((((((((((...........)))--------------)...(((((((........)))))))........))))))....)..)). ( -26.80)
>DroYak_CAF1 43251 106 + 1
UUAGGGUUUAGCCCGAACAAAAAAAUUUCAAAGGGUUUUACAGAGGUCAAAGAUGU--------------ACCCGACUGGAUUACACAUUCCGGUCAAUGUGUGGAGCCCAAAUGGUCCC
...(((.....)))..................((((((((((.((((((....)).--------------))).(((((((........)))))))..).)))))))))).......... ( -33.40)
>DroAna_CAF1 50220 108 + 1
UUAAGGG------CUUACA--AAACUUUCCAAGGGUU-GACAAAUUUCAAAGUUGUUUGAACCAUUUUUGCGCUGACUCGAUUACAUAUUCCGGUCAAUAUUUGGGC---CAUUUCCCCC
.....((------((..((--(..((.....))..))-).(((((((((((....))))))............(((((.((........)).)))))..))))))))---)......... ( -18.40)
>consensus
UUAGGGU______CUAACAAAAAACUUUCAAAGGGUUUGACAGAGCUCAAAGAUGU______________CCCCGACUGGAUUACACAUUCCGGUCAAUAUGUGGAGCCCAAAUGCUCCC
...((((.........................((((((....))))))..........................(((((((........)))))))..........)))).......... (-16.16 = -17.13 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:37 2006