Locus 5438

Sequence ID 3R_DroMel_CAF1
Location 14,349,759 – 14,349,867
Length 108
Max. P 0.531082
window8846

overview

Window 6

Location 14,349,759 – 14,349,867
Length 108
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 78.28
Mean single sequence MFE -19.40
Consensus MFE -15.59
Energy contribution -16.28
Covariance contribution 0.70
Combinations/Pair 1.06
Mean z-score -0.84
Structure conservation index 0.80
SVM decision value -0.00
SVM RNA-class probability 0.531082
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14349759 108 - 27905053
CUUGUCCAGCGGCGUUCGUUCCGCUAGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCUC---UCCCGUACCUUUCUCCUUUCCCCC-----CAAGCCCCCCUUUCAGCCA
((((...(((((........))))).(((((((..((........))..))))))).........---........................-----))))............... ( -17.70)
>DroSec_CAF1 128496 105 - 1
CUUGGCCAGCGGCGUUCGUUCCGCCAGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCUC---UCCC-UACCUUUCUCCUCUCCCCC-------AACCCCCCUUUCAGCCA
..((((....((((.......)))).(((((((..((........))..))))))).........---....-...................-------.............)))) ( -20.40)
>DroSim_CAF1 124252 105 - 1
CUUGGCCAGCGGCGUUCGUUCCGCCAGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCUC---UCCC-UACCUUUCUCCUUUCCCCC-------AACCCCCACUUCAGCCA
..((((....((((.......)))).(((((((..((........))..))))))).........---....-...................-------.............)))) ( -20.40)
>DroEre_CAF1 136656 110 - 1
CUCGGCCAGCGGCCUCCGUUCCGCCAGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCUC---CCU---ACCUUUCUCCUUUCUCCCUGCUCCACCCGCCCUUUUCCGCCA
...(((..((((........))))..(((((((..((........))..))))))).........---...---......................................))). ( -19.50)
>DroYak_CAF1 137507 88 - 1
CUUGGCCAGCGGCGUUCGUUCCGCCCGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCUC---UCUC-CACCCUUCU------------------------UUUUCAGCCA
..((((..(.((((.......)))))(((((((..((........))..))))))).........---....-.........------------------------......)))) ( -19.80)
>DroAna_CAF1 120337 90 - 1
CUUGGCCAGAGGCGCUCGUUCCGCCAGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCCCCGGUUCC-UACCCAUUU----UCCAC-----------CCCC----------
...((((...((((.......)))).(((((((..((........))..)))))))..........))))..-.........----.....-----------....---------- ( -18.60)
>consensus
CUUGGCCAGCGGCGUUCGUUCCGCCAGCGUUGUCGACAUCCACGAGUUAGCAAUGUCACUUUCUC___UCCC_UACCUUUCUCCUUUCCCCC_______A_CCCCCCUUUCAGCCA
...(((....((((.......)))).(((((((..((........))..)))))))........................................................))). (-15.59 = -16.28 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:39 2006