Locus 454

Sequence ID 2L_DroMel_CAF1
Location 1,338,972 – 1,339,082
Length 110
Max. P 0.551609
window734

overview

Window 4

Location 1,338,972 – 1,339,082
Length 110
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 81.94
Mean single sequence MFE -35.34
Consensus MFE -24.35
Energy contribution -25.68
Covariance contribution 1.33
Combinations/Pair 1.10
Mean z-score -1.44
Structure conservation index 0.69
SVM decision value 0.04
SVM RNA-class probability 0.551609
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1338972 110 - 22407834
UAGCAUUGGAAUCGAGGCACU---CCUGCCCUUGGCCAACUUGAUAUUUCUUGGGAUGGCACUGUGCUC-----CUGGCUCGGGCAGAUGUCAGCGUUUUGGCAUUAUAAUGCCAUUA
..((.(((....)))((((..---.((((((...((((.((..(......)..)).))))...(.((..-----...)).))))))).)))).))....((((((....))))))... ( -35.10)
>DroSec_CAF1 96355 110 - 1
UAGCAUCGGAAUCGAGGCACU---CCUGCCCUUGGCCAACUUGACAUUUCUUGGGAUGGCACUGUGCUC-----CUGGCUCGGGCAGAUGUCAGCGUUUUGGCAUUAUAAUGCCAUUA
..((.(((....)))((((..---.((((((...((((.((..(......)..)).))))...(.((..-----...)).))))))).)))).))....((((((....))))))... ( -37.10)
>DroSim_CAF1 100302 110 - 1
UAGCAUCGGAAUCGAGGCACU---CCUGCCCUUGGCCAACUUGACAUUUCUUGGGAUGGCACUGUGCUC-----CUGGCUCGGGCAGAUGUCAGCGUUUUGGCAUUAUAAUGCCAUUA
..((.(((....)))((((..---.((((((...((((.((..(......)..)).))))...(.((..-----...)).))))))).)))).))....((((((....))))))... ( -37.10)
>DroEre_CAF1 109585 109 - 1
CAGC-UCGGAAUCGAGGCACU---CGUGCCCUUGGCCAACUUGAUAUUUCUUGGGAUGGCGCUGGGCUC-----UUGGCUCGGGCAGAUGUCAGCGUUUUGGCAUUAUAAUGCCAUUA
..((-(((....)))((((.(---(.(((((...((((.((..(......)..)).))))...((((..-----...))))))))))))))).))....((((((....))))))... ( -39.10)
>DroYak_CAF1 100252 107 - 1
UGGCAUCGGAAUCAAGGCACU---CUUGCCCUUGGCCAACUGGCUGUUUCUUGGGAUGGCAGUGUGCUCUGCUGUUGGUUCGGGCAGAUGUCAG--------CAUUAUAAUGCCAUUA
((((((...(((...((((.(---((.((((..(((((((..(((((((....)))))))(((.......)))))))))).)))))))))))..--------.)))...))))))... ( -36.50)
>DroAna_CAF1 122751 94 - 1
UUG--------UUGAGCCACUUCCCUUGCCCUUGGCCAACUAGA-----------AUGCUACUCUCCAC-----UUGGCUGGGGCAGAUGUCAGCGUUUUGGCAUUAUAAUGCCAUUA
..(--------(((.((((.............)))))))).(((-----------((((((((((((.(-----(.....)))).))).)).))))))))(((((....))))).... ( -27.12)
>consensus
UAGCAUCGGAAUCGAGGCACU___CCUGCCCUUGGCCAACUUGAUAUUUCUUGGGAUGGCACUGUGCUC_____CUGGCUCGGGCAGAUGUCAGCGUUUUGGCAUUAUAAUGCCAUUA
...............((((.......(((((..(((((......(((((....)))))((.....))........))))).)))))((((((((....))))))))....)))).... (-24.35 = -25.68 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:36 2006