Locus 4003

Sequence ID 2L_DroMel_CAF1
Location 11,638,046 – 11,638,146
Length 100
Max. P 0.722058
window6311

overview

Window 1

Location 11,638,046 – 11,638,146
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.48
Mean single sequence MFE -23.68
Consensus MFE -14.09
Energy contribution -15.53
Covariance contribution 1.45
Combinations/Pair 1.10
Mean z-score -1.82
Structure conservation index 0.59
SVM decision value 0.40
SVM RNA-class probability 0.722058
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11638046 100 - 22407834
GCAAG--------------UAAAUCUGCAAGUCUAAAACCGG-GGC-AAAAAAUA----CAAGCAAUGCGAAAUUUUUGCAUUUUGCAUAUGCAGAAACACAGACGCUUUGGACUUGAGU
.((((--------------(...((((((.((((.......)-)))-........----...(((((((((.....))))))..)))...))))))....((((...)))).)))))... ( -23.20)
>DroPse_CAF1 85994 120 - 1
GCCAGAUCUAUAUGCCCUGCCCGGCUGCUGGUCUAAAACCGAAAGCAAAAAAAUACUUCCAGCUAAAGCGAAUAUUUUGCAUUUUGCAUAUGCAGAAACACAGACGCUUUGGACUUGACC
...(((((.....(((......)))....))))).....(....)............((.((((((((((....((((((((.......)))))))).......)))))))).)).)).. ( -26.50)
>DroSec_CAF1 91408 100 - 1
GCAAG--------------UAAAUCUGCAAGUCUGAAAC-GG-GACAAAAAAAUA----CAAGCAAUGCGAAAUUUUUGCAUUUUGCAUAUGCAGAAACACAGACGCUUUGGACUUGAGU
.((((--------------(...((((((.((((.....-.)-))).........----...(((((((((.....))))))..)))...))))))....((((...)))).)))))... ( -24.00)
>DroEre_CAF1 121537 100 - 1
GCAAG--------------UAAAUCUGCAAGUCUAAAUCCGG-GGC-AAAAAGUA----CAAGCAAUGCGAAAUUUUUGCAUUUUGCAUAUGCAGAAACACAGACGCUUUGGACUUGAGU
.....--------------.....((.((((((((((..((.-.((-(((((...----...((...))....))))))).((((((....)))))).......)).)))))))))))). ( -24.50)
>DroYak_CAF1 94874 100 - 1
GCAAG--------------UAAAUCUGCAAGUCUAAAACCGG-AGC-AAAAAAUA----CAAGCAAUGCGAAAUUUUUGCAUUUUGCAUAUGCAGAAACACAGACGCUUUGGACUUGAGU
.....--------------.....((.((((((((((..((.-.((-(((((...----...((...))....))))))).((((((....)))))).......)).)))))))))))). ( -23.30)
>DroAna_CAF1 105070 83 - 1
GGUAG--------------CAAAUCUGCA-------------------AAAAGUA----CAACCAAAGCGAAUAUUUUGCAUUUUCCAUAUGCAGAAACACAGACGCUUUGGACUUGAGU
....(--------------((....))).-------------------.......----...((((((((....((((((((.......)))))))).......))))))))........ ( -20.60)
>consensus
GCAAG______________UAAAUCUGCAAGUCUAAAACCGG_GGC_AAAAAAUA____CAAGCAAUGCGAAAUUUUUGCAUUUUGCAUAUGCAGAAACACAGACGCUUUGGACUUGAGU
...........................((((((((((..............................((((.....)))).((((((....))))))..........))))))))))... (-14.09 = -15.53 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:54 2006