Locus 1425

Sequence ID 3R_DroMel_CAF1
Location 4,130,714 – 4,130,831
Length 117
Max. P 0.721756
window2374

overview

Window 4

Location 4,130,714 – 4,130,831
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.43
Mean single sequence MFE -39.18
Consensus MFE -27.23
Energy contribution -28.85
Covariance contribution 1.62
Combinations/Pair 1.24
Mean z-score -1.76
Structure conservation index 0.69
SVM decision value 0.40
SVM RNA-class probability 0.721756
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4130714 117 + 27905053
AGCCAUCCGCCGUCAUGUGGACUCGCUUCUGGG---UAAUCUCCACAGCAUAGUUCUUAUCGACGGCGUUCUUCAGGAGCACGGUGAUGACCACCUUGGUCUCCGACUGGUACCAGUCGU
.(((....(((((((((.(((((.(((..((((---.....)))).)))..))))).))).))))))((((.....))))..)))((.((((.....))))))((((((....)))))). ( -45.20)
>DroSim_CAF1 945 117 + 1
AGCCAUCCGCCGUCAUGUGGACUCGGUUCUGGG---UAAUCUCCACAGCGUAGUUCUUCUCGACGGCGUUCUUCAGGAGCACGGUGAUGACCACCUUGGUCUCCGACUGGUACCAGUCGU
.(((....((((((..(.(((((((...(((((---......)).))))).)))))..)..))))))((((.....))))..)))((.((((.....))))))((((((....)))))). ( -44.10)
>DroWil_CAF1 1371 117 + 1
AGCCAUCGGCCGUCAGAUGUAUUU---UUUGUGACUCAAUUUUGACGUCAUAGUUCUUCUGGGCAGCGUUCUUUAGCAAAACAGUGAUAACCACUUUGGACUCUGAUUGAUACCAAUCGU
..(((...(((..((((.(.....---.((((((((((....))).)))))))..).))))))).((........)).....((((.....)))).))).....(((((....))))).. ( -24.90)
>DroYak_CAF1 950 117 + 1
AGCCAUCCGCCGUCAUGUGGACUCGCUUCUCGG---AAAUCUCCACAGCGAAGUUCUUAUCGGCGGCGUUCUUCAGGAGCACGGUGAUGACCACCUUUGUCUCCGAUUGAUACCAGUCAU
.......((((((((((.(((((((((....((---(....)))..)))).))))).))).))))))).......((((((.((((.....))))..)).))))(((((....))))).. ( -42.50)
>consensus
AGCCAUCCGCCGUCAUGUGGACUCGCUUCUGGG___UAAUCUCCACAGCAUAGUUCUUAUCGACGGCGUUCUUCAGGAGCACGGUGAUGACCACCUUGGUCUCCGACUGAUACCAGUCGU
.......((((((((((.(((((((((..((((........)))).)))).))))).))).))))))).......(((((..((((.....))))...).))))(((((....))))).. (-27.23 = -28.85 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:13 2006