Locus 9786

Sequence ID 3R_DroMel_CAF1
Location 25,966,938 – 25,967,039
Length 101
Max. P 0.919804
window15629

overview

Window 9

Location 25,966,938 – 25,967,039
Length 101
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 75.22
Mean single sequence MFE -28.80
Consensus MFE -12.27
Energy contribution -14.05
Covariance contribution 1.78
Combinations/Pair 1.10
Mean z-score -2.35
Structure conservation index 0.43
SVM decision value 1.13
SVM RNA-class probability 0.919804
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25966938 101 - 27905053
---AAGCAAUU---GCAU--UUUUCUCAGUGCACCAAAAAUGAUAAGAGGAAAAUCGCAAGU-------GUGCACUGCAGAUGCAGCGAGUUGGA-AACACUUUUCUGGCUGUUAUU
---..(((.((---((((--(((((((....((.......))....))))))))).))))..-------.))).((((....))))..(((..((-((....))))..)))...... ( -28.60)
>DroSec_CAF1 19027 100 - 1
---GAGCAACU---AAAU--UUUUCUCAGUGCG-CAAAAAUGAUUAGAGGAAAAUCGCAAGU-------GUGCACUGCAGAUGCAGCGAGCUGGA-AACACUUUUCUGGCUGUUAUU
---..(((...---....--...((((((((((-((....(((((.......)))))....)-------)))))))).))))))(((.(((..((-((....))))..))))))... ( -30.70)
>DroSim_CAF1 19427 100 - 1
---GAGCAACU---AUAU--UUUUCUCAGUGUG-UAAAAAUGAUAAGAGGAAAAUCGCAAGU-------GUGCACUGCAGAUGCAGCGAGCUGGA-AACACUUUUCUGGCUGUUAUU
---..(((...---....--...((((((((..-((....((((.........))))....)-------)..))))).))))))(((.(((..((-((....))))..))))))... ( -24.40)
>DroEre_CAF1 16932 106 - 1
---GAGCAGAG---GAGU--UUCUCUCAGUGCA-CA-AAGUGAUAAGAGAAAAAUCGCAAGUGCGAAGUGCGCACUGCAGAUGCAGCGAGCUGGA-AACACUUUCCUGGCCGUUAUU
---..(((((.---...(--((((((...(((.-..-..)))...)))))))..))(((.(((((.....))))))))...)))((((.((((((-(.....)))).)))))))... ( -33.60)
>DroYak_CAF1 17285 91 - 1
---------------AAU--UUCGCGCAGUGCA-CA-AAAUGAUAAGAGAAAAAUCGCAAGU-------GUGCACUGCAGAUGCAGCGAGCUGGAAAACACUUUUCUGGCUGUUAUU
---------------...--.((..((((((((-((-...((....((......)).))..)-------))))))))).))...(((.(((..((((.....))))..))))))... ( -30.80)
>DroAna_CAF1 20437 92 - 1
AUAAACCAAUUUUAAAACUCUUCUCUGAGUGCA-UU-UA---------------ACGAAAGC-------GCUGUGUGCAGAUGCAGCGAGCUGGA-AACACUUUUCUGGCUGUUAUU
................((((......))))...-..-((---------------((.....(-------(((((((....))))))))(((..((-((....))))..))))))).. ( -24.70)
>consensus
___GAGCAACU___AAAU__UUCUCUCAGUGCA_CA_AAAUGAUAAGAGGAAAAUCGCAAGU_______GUGCACUGCAGAUGCAGCGAGCUGGA_AACACUUUUCUGGCUGUUAUU
.......................((((((((((.............((......))..............))))))).))).(((((.((..((......))...)).))))).... (-12.27 = -14.05 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:08 2006