Locus 7649

Sequence ID 3L_DroMel_CAF1
Location 20,566,073 – 20,566,191
Length 118
Max. P 0.817453
window12427

overview

Window 7

Location 20,566,073 – 20,566,191
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.09
Mean single sequence MFE -33.00
Consensus MFE -27.77
Energy contribution -29.40
Covariance contribution 1.63
Combinations/Pair 1.06
Mean z-score -1.77
Structure conservation index 0.84
SVM decision value 0.67
SVM RNA-class probability 0.817453
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20566073 118 - 23771897
GGUGUGGCACGUCGCAAAAAAAA-AACACAAAAUA-AAAAAAGGAAACUGGGAGGAGGAGAAGUCUGCUGCCUGUGAUGCUGCUACUCUAGCUGACUGGACCAAGACUCUUGGCCCAAGG
((.(((((((((((((.......-...........-.....((....))((.((.(((.....))).)).))))))))).)))))).)).......(((.(((((...))))).)))... ( -36.20)
>DroSec_CAF1 10872 116 - 1
GGUGUGGCACGUCGCAAAAAAAA-AAAACAAA---AAAAAAAGGAAACUGGGAGAAGGAGAAGUCUGCUGCCUGUGAUGCUGCUACUCUAGCUGACUGGACCAAGACUCUUGGCCCAAGG
((.((((((((((((........-........---......((....))(((...((.((....)).)).))))))))).)))))).)).......(((.(((((...))))).)))... ( -34.80)
>DroAna_CAF1 32122 106 - 1
GGUGUGGCACGUCGCAAAAAAACAAAAA--------AAAUAUAUAAACUGGGAGGAG----AGUCUGUUGCCUGUGAUGCUGCUACUCGGGCUGACUGGACCAAGAC--CUGGCCCGAAG
...(((((((((((((............--------.............((.((.((----...)).)).))))))))).))))))(((((((....((.......)--).))))))).. ( -29.41)
>DroEre_CAF1 4363 109 - 1
GGUGUGGCACGUCGCAAAAAGAA----AC-----A-AAAAAAGGAAACUGGGAGGAGGAGAAGU-GGCUGCCUGUGAUGCUGCUACUCUAGCUGACUGGACCAAGACUCUUGGCCCAAGG
((.(((((((((((((.......----..-----.-.....((....))((.((..........-..)).))))))))).)))))).)).......(((.(((((...))))).)))... ( -31.60)
>consensus
GGUGUGGCACGUCGCAAAAAAAA_AAAAC_______AAAAAAGGAAACUGGGAGGAGGAGAAGUCUGCUGCCUGUGAUGCUGCUACUCUAGCUGACUGGACCAAGACUCUUGGCCCAAGG
((.(((((((((((((.........................((....))((.((.(((.....))).)).))))))))).)))))).)).......(((.(((((...))))).)))... (-27.77 = -29.40 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:40 2006