Locus 1965

Sequence ID 3L_DroMel_CAF1
Location 5,444,421 – 5,444,541
Length 120
Max. P 0.994129
window3075

overview

Window 5

Location 5,444,421 – 5,444,541
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.36
Mean single sequence MFE -27.18
Consensus MFE -24.61
Energy contribution -23.80
Covariance contribution -0.81
Combinations/Pair 1.12
Mean z-score -2.99
Structure conservation index 0.91
SVM decision value 2.45
SVM RNA-class probability 0.994129
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5444421 120 - 23771897
AAUUAAAGUUGCAUUUUGGCUUUAAUUGAGCACGAGAAAUCUCUUAACACACAAUCGAGCAUUUGGCCACACAAAUGCUUCUUCAACUGGCACUUGCACACACAUCUGCCAUCCACCAUA
......(((((..(((((((((.....)))).)))))...................(((((((((......)))))))))...)))))((((..((......))..)))).......... ( -28.10)
>DroSec_CAF1 5959 120 - 1
AAUUAAAGUUGGAUUUUGGCUUUAAUUGAACACGAGAAAUCUCUUAACACACAAUCGAGCACUUGGCCACACAAAUGCUCCUUCAACUGGCACUUGCACACACAACUGCCACCCACCAUC
(((((((((..(...)..)))))))))(((...(((....))).............(((((.(((......))).))))).)))...(((((.(((......))).)))))......... ( -27.90)
>DroSim_CAF1 6010 118 - 1
AAUUAAAGUUGCAUUUUGGCUUUAAUUGAGCACGAGAAAUCUCUUAACAC--UUUCGAGCACUUGGCCACACAAAUGCUUCUUCAACUGGCACUUGCACACACAUCUGCCACCCACCAUC
......(((((..(((((((((.....)))).))))).............--....(((((.(((......))).)))))...)))))((((..((......))..)))).......... ( -24.40)
>DroEre_CAF1 5846 118 - 1
AUUUAAAGUUACAUUUUGGCUUUAAUUGAGCAGGGGAAAUCUCGUAACACACAAUCGAGCACUUGGCCACACAAAUGCUCCUUCAACUGGCACUUGCACACACAUCUGCCAUCCACCA--
.......(((((......((((.....))))..(((....))))))))........(((((.(((......))).))))).......(((((..((......))..))))).......-- ( -28.30)
>consensus
AAUUAAAGUUGCAUUUUGGCUUUAAUUGAGCACGAGAAAUCUCUUAACACACAAUCGAGCACUUGGCCACACAAAUGCUCCUUCAACUGGCACUUGCACACACAUCUGCCACCCACCAUC
..(((((((((.....)))))))))(((((...(((....))).............(((((.(((......))).))))).))))).(((((..((......))..)))))......... (-24.61 = -23.80 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:15 2006