Locus 1089

Sequence ID 2R_DroMel_CAF1
Location 4,386,800 – 4,386,917
Length 117
Max. P 0.959650
window1927

overview

Window 7

Location 4,386,800 – 4,386,917
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.33
Mean single sequence MFE -42.70
Consensus MFE -32.90
Energy contribution -34.52
Covariance contribution 1.62
Combinations/Pair 1.13
Mean z-score -2.40
Structure conservation index 0.77
SVM decision value 1.50
SVM RNA-class probability 0.959650
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4386800 117 + 20766785
AAGAUGUCCAGCGGCUAUUGGUCAUGAUCGACCCGGAGACCUGGGACCAAGCCUUCGAAAGAGGUGAGUAGGCAAUUGCUCACAGCUUAGGU---CGGCUGGUAAAAGAACACUAGCGUU
.......((((.(.((...((((......))))...)).)))))((((((((.(((....)))((((((((....)))))))).)))).)))---).((((((........))))))... ( -43.30)
>DroSec_CAF1 1122 120 + 1
AAGAUGUCCAGCGGCUGUUGGUCAUGAUCGACCCAGAGACCUGGGACCAAGCCUUCGAGAGAGGUGAGUAAGGAAUUGAUCACAGCUAUGGUCGUCGGCUGGUAAAUGAACACUAACUAA
..((((.(((..((((((.(((((...((..(((((....)))))((...((((.(....)))))..))...))..))))))))))).))).))))((.((((........)))).)).. ( -41.00)
>DroSim_CAF1 1121 119 + 1
AAGAUGUCCAGCGGCUGUUGGUCAUGAUCGACCCGGAGACCUGGGACCAAGCCUUUGAGAGAGGUGAGUAAGG-AUUGAUCACAGCUUUGGUCGUCGGCUGGUAAAAGAACACUAGCAUU
..((((.((((.((((((.(((((..(((..(((((....)))))((...(((((.....)))))..))...)-))))))))))))))))).)))).((((((........))))))... ( -44.80)
>DroEre_CAF1 1701 117 + 1
AAGAUGUCCAGCGGCUGUUGGUCAUGAUCGACCCGGAGACCUGGGACCAAGCCUUCGAGAGGGGUGAGUAGGGAAUUGCUCACAGCUUUGGU---CGGCUGGUAAAAUUACACUAGCAUU
...(((.(((((....))))).)))...((((((((((.(.((....)).).)))))((((..((((((((....))))))))..)))))))---))((((((........))))))... ( -43.00)
>DroYak_CAF1 1700 117 + 1
AAGAUGUCCAGCGGCUGUUGGUCAUGAUCGACCCGGAGACUUGGGACCAAGCAUUCGAGAGAGGUGAGUAAGGAAUCGCAAACAGCUGUGGU---CGGCUCGUAAAAUACCAAUAGCCCU
.........((.((((((((((......(((.(((....)....((((((((.(((....)))((((........)))).....))).))))---))).)))......)))))))))))) ( -41.40)
>consensus
AAGAUGUCCAGCGGCUGUUGGUCAUGAUCGACCCGGAGACCUGGGACCAAGCCUUCGAGAGAGGUGAGUAAGGAAUUGCUCACAGCUUUGGU___CGGCUGGUAAAAGAACACUAGCAUU
...(((.(((((....))))).)))...((.(((((....)))))(((((((.(((....)))((((((((....)))))))).))).))))...))((((((........))))))... (-32.90 = -34.52 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:13 2006