Locus 9204

Sequence ID 3R_DroMel_CAF1
Location 24,542,788 – 24,542,881
Length 93
Max. P 0.808837
window14721

overview

Window 1

Location 24,542,788 – 24,542,881
Length 93
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 88.24
Mean single sequence MFE -21.93
Consensus MFE -18.10
Energy contribution -18.38
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.83
SVM decision value 0.64
SVM RNA-class probability 0.808837
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24542788 93 + 27905053
AAGAUUCAAUGCUCACAGGGCUUUGUCUGCUGAGUUUAAAAGCUUUUU-------CCA-CCCAAUAUAUACAAAGCCGGUAGCCAAACACCUGUAGGCCCU----
..........((..(((((..((((.((((((.((((...........-------...-.............)))))))))).))))..)))))..))...---- ( -22.83)
>DroSec_CAF1 41055 93 + 1
AAGAUUCAAUGCUCACAGGGCUUUGUCUGCAGAGUUUAAAAGCUUUUU-------CCA-CCCAAUAUAUACAAAGGCGGUAGCCAAACACCUGUAGGCCCU----
..........((..(((((((((((....)))))).............-------...-...............(((....))).....)))))..))...---- ( -22.20)
>DroSim_CAF1 42376 93 + 1
AAGAUUCAAUGCUCACAGGGCUUUGUCCCCAGAGUUUAAAAGCUUUUU-------CCA-CCCAAUAUAUACAAAGGCGGUAGCCAAACACCUGUAGGCCCU----
..........((..(((((((((((....)))))).............-------...-...............(((....))).....)))))..))...---- ( -21.00)
>DroEre_CAF1 45383 92 + 1
AAGAUUCAAUGCUCACAGGGUUUUGUCUGCUGAGUUUAAAAGCAUUU--------AUA-CCCAAUAUAUACAAAGGCGUUAGCCAAACACCUGUAGGCCCU----
..........((..(((((((((....((((.........))))...--------...-...............(((....))))))).)))))..))...---- ( -21.40)
>DroYak_CAF1 42045 105 + 1
AAGAAUCAAUGCUCACAGGACUUUGUCUGCAGAGUUUAAAAGCUUUUCACCCCCAAUAGCCCAAUACAUACAAAGGCGUUAGCCAAACACCUGUAGGCCCCUUCU
.((((.....((..(((((((((((....))))))......(((.............)))..............(((....))).....)))))..))...)))) ( -22.22)
>consensus
AAGAUUCAAUGCUCACAGGGCUUUGUCUGCAGAGUUUAAAAGCUUUUU_______CCA_CCCAAUAUAUACAAAGGCGGUAGCCAAACACCUGUAGGCCCU____
..........((..(((((((((((....)))))).......................................(((....))).....)))))..))....... (-18.10 = -18.38 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:52 2006