Locus 3706

Sequence ID 3R_DroMel_CAF1
Location 10,059,461 – 10,059,559
Length 98
Max. P 0.571496
window5939

overview

Window 9

Location 10,059,461 – 10,059,559
Length 98
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.12
Mean single sequence MFE -23.25
Consensus MFE -17.14
Energy contribution -17.67
Covariance contribution 0.53
Combinations/Pair 1.05
Mean z-score -1.25
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.571496
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10059461 98 + 27905053
CA--C-UCACU--CUCACC-AA--CCGCCCACUGUGUGGCAAGUUAAAAGCGCUAAACGUUUUAUUACCACCAGCGCAGCGCAGCGCGCAAAACUCCCGGCCACUU
..--.-.....--......-..--...........(((((.((((....(((((....((......))....))))).((((...))))..))))....))))).. ( -23.60)
>DroSec_CAF1 127484 91 + 1
CA--C-CCCCG--CUCGCC-AAACC----CACUGUGUGGCAAGUUAAAAGCGCUAAACGUUUUAUUACCACCAGCGC-----AGCGCGGAAAACUCCCGGCCACUU
..--.-..(((--(.((((-(.((.----....)).)))).........(((((....((......))....)))))-----.).))))................. ( -22.10)
>DroSim_CAF1 129397 100 + 1
AA--C-CCCCG--CUCGCC-AAACCCACCCACUGUGUGGCAAGUUAAAAGCGCUAAACGUUUUAUUACCGCCAGCGCAGCGCAGCGCGGAAAACUCCCGGCCACUU
..--.-....(--((.(((-(....(((.....))))))).)))..((((((.....))))))......(((.((((......))))(((....))).)))..... ( -25.00)
>DroEre_CAF1 132609 92 + 1
CA--C-CCCCA--UUC-CC-AA--CCGCCCACUGUGUGGCAAGUUAAAAGCGCUAAACGUUUUAUUACCACCAGCGC-----AGCGCGGAAAACUCCCGGCCACUU
..--.-.....--...-..-..--...........(((((.........(((((....((......))....)))))-----..((.(((....)))))))))).. ( -21.10)
>DroYak_CAF1 134272 95 + 1
CCCGCCCCCUU--UUC-CC-AG--CCGCCCACUGUGUGGCAAGUUAAAAGCGCUAAACGUUUUAUUACCACCAGCGC-----AGCGCGGAAAACUCCCGGCCACUU
...(((...((--(((-(.-.(--((((.......))))).........(((((...((((...........)))).-----))))))))))).....)))..... ( -24.90)
>DroAna_CAF1 144736 99 + 1
CCCCUUGCCAUUUCUCGGAAAA--UCACUCGAUGUGCGGCAAGUUAACAGCGUUAAACGUUUUAUUACCAACAGCGC-----UUGGUGGAAAACUCUCGGCCACUU
...((((((.....((((....--....)))).....)))))).....((((((....((......))....)))))-----)((((.((......)).))))... ( -22.80)
>consensus
CA__C_CCCCU__CUCGCC_AA__CCGCCCACUGUGUGGCAAGUUAAAAGCGCUAAACGUUUUAUUACCACCAGCGC_____AGCGCGGAAAACUCCCGGCCACUU
...................................(((((.((((.((((((.....))))))..........((((......))))....))))....))))).. (-17.14 = -17.67 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:53 2006