Locus 1627

Sequence ID 3L_DroMel_CAF1
Location 4,753,148 – 4,753,267
Length 119
Max. P 0.621465
window2519

overview

Window 9

Location 4,753,148 – 4,753,267
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.39
Mean single sequence MFE -31.88
Consensus MFE -27.06
Energy contribution -29.58
Covariance contribution 2.52
Combinations/Pair 1.11
Mean z-score -1.36
Structure conservation index 0.85
SVM decision value 0.18
SVM RNA-class probability 0.621465
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4753148 119 + 23771897
GAGACAGCACGAGUGUUGUAAUGAAACGUAACGAAAGAAAUCAAAGCAUGUGGCACGUGAGUGGCUGAACAUGCUCAUCUCGAUAUGGCAGAGCUCCUGCUGACCAGUAUGUUACU-GCA
....(((((.((((((..((.(((.......(....).......((((((((.(((....))).)...)))))))....))).))..))...)))).)))))..(((((...))))-).. ( -36.30)
>DroSec_CAF1 16549 120 + 1
GAGACAGCACGAUUGUUGUAAUGAAACGUAACGAAAGAAAUCAAAGCAUGUAGCACGUAAGUGGCUGAACAUGCUCAUCUCGAUAUGGCAGAGCUCCUGCUGACCAGUAUGUUACUAACA
....(((((.((((((..((.(((.......(....).......((((((((((((....)).)))..)))))))....))).))..))))...)).))))).................. ( -30.20)
>DroSim_CAF1 13941 119 + 1
GAGACAGCACGAUUGUUGUAAUGAAACGUAACGAAAGAAAUCAAAGCAUGUAGCACGUGAGUGGCUGAACAUGCUCAUCUCGAUAUGGCAGAGCUCCUGCUGACCAGUAUGUUACU-ACA
....(((((.((((((..((.(((.......(....).......((((((((((((....)).)))..)))))))....))).))..))))...)).)))))....(((......)-)). ( -31.50)
>DroEre_CAF1 5841 119 + 1
GAGACAGCUCGAUUGUUGUAAUGAAACGUAACAAAAGAAAUCAAAGCAUGUAGCACGUGAGUGGCUGAACAUGCUCAUCUCGAUAUGCCAGAGCUUCUGCUGACCAAUAUGUUGCU-ACA
.(((.(((((((((.((((.(((...))).))))....))))..((((((((((((....)).)))..)))))))...............))))))))((.(((......))))).-... ( -29.80)
>DroYak_CAF1 12233 119 + 1
GAGACAGCGAGAUUGUUGUAAUGAAACGUAACGAAAGAAAUCAAAGCAUGUAGCACGUGAGUGGCUGAACAUGCUCAUCUCGAUAUGGCAGAGCUUCUGCUGACCAAUAUGUUACU-ACA
..((((.((((((..................(....).......((((((((((((....)).)))..))))))).))))))....(((((.....)))))........))))...-... ( -31.60)
>consensus
GAGACAGCACGAUUGUUGUAAUGAAACGUAACGAAAGAAAUCAAAGCAUGUAGCACGUGAGUGGCUGAACAUGCUCAUCUCGAUAUGGCAGAGCUCCUGCUGACCAGUAUGUUACU_ACA
...(((((......)))))........((((((...........((((((((((((....)).)))..)))))))...........(((((.....)))))........))))))..... (-27.06 = -29.58 +   2.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:18 2006