Locus 1304

Sequence ID 3L_DroMel_CAF1
Location 3,787,627 – 3,787,739
Length 112
Max. P 0.614559
window2041

overview

Window 1

Location 3,787,627 – 3,787,739
Length 112
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 78.04
Mean single sequence MFE -40.82
Consensus MFE -20.16
Energy contribution -20.41
Covariance contribution 0.26
Combinations/Pair 1.38
Mean z-score -1.98
Structure conservation index 0.49
SVM decision value 0.16
SVM RNA-class probability 0.614559
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3787627 112 + 23771897
GGCCCAAUAGCGAGGGCUGUAGCUUCAUCUCCAUCUGCAUUAGUUGCUGCGAUCGCAUGGGCUGGAACAAGUGCUGUUUCAGCUGAUAUGAGAGUUCAUCCAGCUUCCGAAA
((((((...((((..((.((((((....(.......)....)))))).))..)))).))))))((((((.....))))))(((((..(((......))).)))))....... ( -35.30)
>DroGri_CAF1 181411 112 + 1
GUCCCAUCAGCGAUGGAUGCAAAUGGAGAUUGAUGGCGAGCAGCUGCUGGGCACGCAUCGGUUGAAAGAGCUGCUGACGCAGCUGCAGGGAGAGCUCAUCCAGCUGGCGAAA
.((((....((.((.(((..........))).)).))..(((((((((.((((.((.((........)))))))).).)))))))).)))).((((.....))))....... ( -39.70)
>DroSec_CAF1 185310 112 + 1
GGCCCAACAGCGAGGGCUGUAGCUUCAUGUCCAUCUGCAUUAGUUGCUGCGAUCGCAUGGGAUGGAACAAGUGCUGUUUGAGCUGAUAGGAGAGUUCAUCCAGCUUUCUAAA
..((((...((((..((.((((((..((((......)))).)))))).))..)))).)))).(((((.....((((..((((((........))))))..)))).))))).. ( -38.70)
>DroEre_CAF1 180123 112 + 1
GGCCCAAGAGCGAUGGCUGCAGCUUCUUCUCCAUCUGCAUUAGCUGCUGCGAUCGCAUGGGCUGGAACACAUGCUGCUUGAGCUGGUAGGACAGCUCAUCCAGCUUCCGAAA
((((((...(((((.((.((((((....(.......)....)))))).)).))))).))))))((((.....((((..(((((((......)))))))..)))))))).... ( -53.00)
>DroYak_CAF1 170290 112 + 1
GGCCCAACAGCGAUGGCUGCAGCUUGUUUUCCAUCUGCAUUAGUUGCUGCGAUCGCAUGGGCUGGAAUACAUGCUGCUUGAGCUGAUAGGAGAGCUCAUCCAGCUUACGAAA
((((((...(((((.((.(((((((((.........)))..)))))).)).))))).)))))).........((((..((((((........))))))..))))........ ( -45.40)
>DroAna_CAF1 181431 112 + 1
GUCCCAGCAACGAUGGCUGCAGGUUCUGGGCCAUCUGCGUCAGCUGCUGCGAUCUCAUUGGCUGGAAAAGAUUCUGCUUCAACUGAAAUGAUAGUUCAUCCAGUUUCCGGAA
(((.(((((..(((((((.(((...)))))))))).((....))))))).)))........(((((((.(((...((((((.......))).)))..)))...))))))).. ( -32.80)
>consensus
GGCCCAACAGCGAUGGCUGCAGCUUCAUCUCCAUCUGCAUUAGCUGCUGCGAUCGCAUGGGCUGGAACAAAUGCUGCUUCAGCUGAUAGGAGAGCUCAUCCAGCUUCCGAAA
.........((((..((.((((((.................)))))).))..))))..((((((((...((.......))((((........))))..))))))))...... (-20.16 = -20.41 +   0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:22 2006