Locus 1740

Sequence ID 3L_DroMel_CAF1
Location 5,035,858 – 5,035,968
Length 110
Max. P 0.980848
window2682

overview

Window 2

Location 5,035,858 – 5,035,968
Length 110
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 94.61
Mean single sequence MFE -29.35
Consensus MFE -29.60
Energy contribution -29.63
Covariance contribution 0.03
Combinations/Pair 1.04
Mean z-score -1.12
Structure conservation index 1.01
SVM decision value 1.87
SVM RNA-class probability 0.980848
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5035858 110 - 23771897
CCACACCGUAUACCUAUCGAAUAACGUUGCGUAUGUGUGAUA----UUGCGGUGCUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
.........................(((((((.(((((....----((((.((((((....)))))).))))....))).))....))))))).(((((((....))))).)). ( -28.90)
>DroSec_CAF1 242421 110 - 1
CCACACCGUAUACCUAUCGAAUAACGUUGCGUAUGUGUGAUA----UUGCGGUGCUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
.........................(((((((.(((((....----((((.((((((....)))))).))))....))).))....))))))).(((((((....))))).)). ( -28.90)
>DroSim_CAF1 263279 110 - 1
CCACACCGUAUACCUAUCGAAUAACGUUGCGUAUGUGUGAUA----UUGCGGUGCUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
.........................(((((((.(((((....----((((.((((((....)))))).))))....))).))....))))))).(((((((....))))).)). ( -28.90)
>DroEre_CAF1 245841 110 - 1
CCACAACGAAUACCUAUCGAAUAACGUUGCGUAUGUGUGAUA----UUGCGGUGCUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
.....((((................(((((((.(((((....----((((.((((((....)))))).))))....))).))....)))))))....((((....)))))))). ( -30.70)
>DroYak_CAF1 251999 110 - 1
CCACAACGAAUACCUAUCGAAUAACGUUGCGUAUGUGUGAUA----UUGCGGUGCUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
.....((((................(((((((.(((((....----((((.((((((....)))))).))))....))).))....)))))))....((((....)))))))). ( -30.70)
>DroAna_CAF1 253086 110 - 1
AC----CCAAUACCUAUCGACCAACAUUGCGUAUGUGUGAUAUGUGUUGCCGUGUUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
..----.................(((((((.......(((((.(((((((.((((.((...((((.((.....)).)).))...)))))).))))))))))))..))))).)). ( -28.00)
>consensus
CCACACCGAAUACCUAUCGAAUAACGUUGCGUAUGUGUGAUA____UUGCGGUGCUCAAGCGAGCGCAGCAAAUGGGCAUCAAAUGACGCAGCAACAUUGUCAAAGCAAUCGUA
.........................(((((((.....((((.....((((.((((((....)))))).))))......))))....))))))).(((((((....))))).)). (-29.60 = -29.63 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:58 2006