Locus 3278

Sequence ID 3R_DroMel_CAF1
Location 8,757,680 – 8,757,774
Length 94
Max. P 0.971897
window5291

overview

Window 1

Location 8,757,680 – 8,757,774
Length 94
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 77.44
Mean single sequence MFE -19.78
Consensus MFE -15.62
Energy contribution -15.62
Covariance contribution 0.00
Combinations/Pair 1.12
Mean z-score -1.96
Structure conservation index 0.79
SVM decision value 1.68
SVM RNA-class probability 0.971897
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8757680 94 + 27905053
CAA-AAACUAUCUUUGUGGGCGUGAUGCAAAUGCAGAACAACAUUGUGUUCACUGAGAUAAAAACUGAGAUAUUAAAACAUUGCUGCUGGUAAAA
...-....((((((.(((((((..(((..............)))..))))))).))))))....................((((.....)))).. ( -18.84)
>DroSec_CAF1 178773 72 + 1
CAA-AAACUAUCUUUGUGGGCGUGAUGCAAAUGCAGAACAACAUCGGGUUCACUGAGAUUAAAACU----------------------GCUAAAA
...-.....(((((.((((((.(((((..............))))).)))))).))))).......----------------------....... ( -16.64)
>DroSim_CAF1 196044 72 + 1
CAA-AAACUAUCUUUGUGGGCGUGAUGCAAAUGCAGAACAACAUCGGGUUCACUGAGAUAAAAACU----------------------GCUAAGA
...-....((((((.((((((.(((((..............))))).)))))).))))))......----------------------....... ( -18.54)
>DroEre_CAF1 194993 94 + 1
AAA-AAACUAUCUUUGUGGGCGUGAUGCAAAUGCAGAACAACAUUGGGUUCACUGAGAUAAAUACUGAAAAAUUCAAGCAUUGCUGGUGCUGCAA
...-....((((((.((((((((..(((....)))..))..(....))))))).))))))................(((((.....))))).... ( -20.90)
>DroYak_CAF1 187889 95 + 1
AAAAAAACUAUCUUUGUGGGCGUGAUGCAAAUGCAGAACAACAUUGGGUUCACUCAGGUAAAUUCUGAGAAAUUCAAACAUUGCUGGCUCUGAAA
..........((...((.(((((..(((....)))..))....(((((((..((((((.....)))))).))))))).....))).))...)).. ( -24.00)
>consensus
CAA_AAACUAUCUUUGUGGGCGUGAUGCAAAUGCAGAACAACAUUGGGUUCACUGAGAUAAAAACUGA_A_AUU_AA_CAUUGCUG__GCUAAAA
........((((((.((((((.(((((..............))))).)))))).))))))................................... (-15.62 = -15.62 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:19 2006