Locus 2003

Sequence ID 3R_DroMel_CAF1
Location 5,682,658 – 5,682,755
Length 97
Max. P 0.845772
window3281

overview

Window 1

Location 5,682,658 – 5,682,755
Length 97
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 83.19
Mean single sequence MFE -24.26
Consensus MFE -19.18
Energy contribution -19.70
Covariance contribution 0.52
Combinations/Pair 1.14
Mean z-score -1.89
Structure conservation index 0.79
SVM decision value 0.77
SVM RNA-class probability 0.845772
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5682658 97 + 27905053
ACAAAGGCAGCUCAGUUGGU-UUGGGUU-UUGUUCAGCUCGAAA--AAGAAAAAACAAAAAAACAAACAAAAAGUUGAGGCAUUCUGCCAGACGAGCGUUG
.....(((.((((.....((-(((..((-(((((....((....--..))...)))))))...))))).....(((..(((.....))).)))))))))). ( -23.90)
>DroSec_CAF1 23980 89 + 1
ACAAAGGCAGCCCAGUUGGC-UUGGGUUUUUGUUCGGCUCGAAA--AAAA---------AAAACCAACAAAAAGUUGAGGCAUUCUGCCAGACGAGCGUCG
.....((((((((((.....-)))))))........(((((...--....---------.....((((.....)))).(((.....)))...)))))))). ( -26.60)
>DroSim_CAF1 25154 90 + 1
ACAAAGGCAGCCCAGUUGGU-UUGGGUUUUUGUUCGGCUCGAAA--AAAA--------AAAAACAAACAAAAAGUUGAGGCAUUCUGCCAGACGAGCGUCG
.....(((((((((..(.((-(((..(((((.((((...)))).--..))--------)))..)))))....)..)).)))....)))).(((....))). ( -25.00)
>DroEre_CAF1 21489 74 + 1
ACAAAGGCAGCCCAGUGGGU-UUGGGUU-UUGUUCA-------------------------CUCAAACAAAAAGUUGAGGCAUUCUGCCAGACGAGCGUCG
.....((((((((((.....-)))))..-.......-------------------------(((((........))))).....))))).(((....))). ( -21.20)
>DroYak_CAF1 24729 92 + 1
ACAAAGGCAACCCAGUUGGUUUUGGGUU-UUGUUCGGCUCGAACCAAAAA--------GAAAACAAACAAAAAGUUGAGGCAUUCUGCCAGACGAGCGUCG
.....((((((((((......)))))))-.......(((((.........--------.......(((.....)))..(((.....)))...)))))))). ( -24.60)
>consensus
ACAAAGGCAGCCCAGUUGGU_UUGGGUU_UUGUUCGGCUCGAAA__AAAA_________AAAACAAACAAAAAGUUGAGGCAUUCUGCCAGACGAGCGUCG
.....((((((((((......)))))))........(((((........................(((.....)))..(((.....)))...)))))))). (-19.18 = -19.70 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:56 2006