Locus 5663

Sequence ID 3L_DroMel_CAF1
Location 15,546,485 – 15,546,587
Length 102
Max. P 0.732103
window8955

overview

Window 5

Location 15,546,485 – 15,546,587
Length 102
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 78.81
Mean single sequence MFE -32.05
Consensus MFE -18.11
Energy contribution -18.03
Covariance contribution -0.08
Combinations/Pair 1.19
Mean z-score -1.89
Structure conservation index 0.57
SVM decision value 0.43
SVM RNA-class probability 0.732103
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15546485 102 + 23771897
AGGGAGUUACCAAGAAACUCGGUCGUUGGGAUGCUGUGGUGGCUCAACAGAGAUCUGCGGAGACGCAGGUGAAUGA--AUGCCAAUGCUAACAG------UGACAUACAC
...(((((.......))))).(((((((..(.((..((((..(((....)))(((((((....)))))))......--..))))..)))..)))------))))...... ( -32.50)
>DroVir_CAF1 4455 107 + 1
AGGGUGUAAAGAAAAAACUUGGUCGCUGGGACGCAGUCGUGGCCAAGCAGCGUUCUGCCGAGACGCAGGUGAGUAAUGAUUUGAAUAUUAUAAGAAAGUCUGUGCUU---
..(((....((((....(((((((((...(((...)))))))))))).....)))))))(((.((((((......(((((......))))).......)))))))))--- ( -25.42)
>DroSec_CAF1 9294 102 + 1
AGGGAGUCACCAAGAAGCUCGGUCGUUGGGAUGCUGUGGUGGCUCAACAGAGAUCUGCAGAGACGCAGGUUAGUAA--AUGCCAAUGCUAACAG------UGAGAUACAC
...(((((((((...(((...(((.....)))))).))))))))).........((((......))))(((((((.--.......)))))))..------.......... ( -31.10)
>DroSim_CAF1 9631 102 + 1
AGGGAGUCACCAAGAAGCUCGGUCGUUGGGAUGCUGUGGUGGCUCAACAGAGAUCUGCAGAGACGCAGGUUAGUAA--AUGCCAAUGCUAACAG------UGAGAUACAC
...(((((((((...(((...(((.....)))))).))))))))).........((((......))))(((((((.--.......)))))))..------.......... ( -31.10)
>DroEre_CAF1 9522 98 + 1
AGGGAGUGACCAAGAAGCUCGGUCGCUGGGAUGCAGUGGUGGCUCAACAGAGAUCUGCGGAGACGCAGGUAAGUGU--AUUUCAAUGCUUUCUG------UUAAA----G
...((((.((((.....(((((...)))))......)))).))))((((((.(((((((....)))))))((((((--......))))))))))------))...----. ( -37.40)
>DroYak_CAF1 29135 98 + 1
AGGGAGUGACCAAGAAGCUCGGUCGCUGGGAUGCUGUGGUGGCUCAACAGAGAUCUGCGGAGACGCAGGUAAGUGA--AUUUCAAUUCAUACGA------UGAAA----G
...((((.((((((...(((((...)))))...)).)))).))))..((..((((((((....)))))))..((((--((....)))))).)..------))...----. ( -34.80)
>consensus
AGGGAGUCACCAAGAAGCUCGGUCGCUGGGAUGCUGUGGUGGCUCAACAGAGAUCUGCGGAGACGCAGGUAAGUAA__AUGCCAAUGCUAACAG______UGAGAUA__C
.((((((.((((.....(((((...)))))......)))).)))).......((((((......))))))...........))........................... (-18.11 = -18.03 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:00 2006