Locus 621

Sequence ID 3L_DroMel_CAF1
Location 1,839,410 – 1,839,523
Length 113
Max. P 0.625140
window956

overview

Window 6

Location 1,839,410 – 1,839,523
Length 113
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 72.33
Mean single sequence MFE -22.04
Consensus MFE -6.02
Energy contribution -7.00
Covariance contribution 0.98
Combinations/Pair 1.35
Mean z-score -2.21
Structure conservation index 0.27
SVM decision value 0.19
SVM RNA-class probability 0.625140
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1839410 113 - 23771897
UUUACAAGUGCCCAAUUAAUCUUAAUGUCUCAUUAAAAAUAU---UUUAUUUACAUUUGUGACAGGUUCACCCUGCACAAUGGGUCAUAUUUACAUGUACCCAAAAUGUGUAAGGA
...........((........((((((...))))))......---.....(((((((((((.((((.....)))))))))((((((((......))).)))))....)))))))). ( -24.90)
>DroSec_CAF1 15229 113 - 1
UUUACAAGUACCCAAUUAAUCUUAAUGUCUCAUUAAAAAUAU---UUUAUUUACAUUUGUGACAGGCUCACCCUGCACAGUGGGUCAUAUUUACAUGUACCCAAAAUGUGUAAGGA
.((((((((............((((((...))))))(((((.---..)))))..))))))))........((.((((((.((((((((......))).)))))...)))))).)). ( -24.50)
>DroSim_CAF1 16013 112 - 1
UUUACAAGUACCCAAUUAAUCUUAAUGUCUCAUUAAAAAUAU---U-UAUUUACAUUUGUGACAGGUUCACCCUGCACAAUGGGUCAUAUUUACAUGUACCCAAAAUGUGUAAGGA
...........((........((((((...))))))......---.-...(((((((((((.((((.....)))))))))((((((((......))).)))))....)))))))). ( -24.90)
>DroEre_CAF1 15032 111 - 1
UUUACAAGUGCCCAAUUAAUCUUAAUGUCUCAUUAAAAAUAU---UUUAUUAAGAUUUGUGACAAGUUCACCCUAUA--AUGGGGUAUAUUUACAGGUACCUAAAAUGGGUAAGGA
....(...((((((...((((((((((...............---..))))))))))(((((...((..(((((...--..)))))..)))))))...........))))))..). ( -22.73)
>DroWil_CAF1 22631 90 - 1
-------------------UCUCGGUUUCUGCUUAAACAUCAACAGAUAUUAAGAUAGAGC----AUUAGCCCCAU---AUAGGUUAACCAAGUAUUUACUUAAAAAACAAAAAAA
-------------------....(((((((((((((..(((....))).))))).))))).----..(((((....---...))))))))((((....)))).............. ( -12.60)
>DroYak_CAF1 15769 106 - 1
UUUACAAGUACCUAAUUAAUCUUAAUGUCCC-----AAAUAU---UUUAUUAAGAUUUGUGACAGGAUCACCCUACA-AAUGGGUUAUAUUUACAGGUACCCA-AAUGUGUAAGGA
((((((.((((((....((((((((((....-----......---..)))))))))).((((....((.((((....-...)))).))..))))))))))...-....)))))).. ( -22.60)
>consensus
UUUACAAGUACCCAAUUAAUCUUAAUGUCUCAUUAAAAAUAU___UUUAUUAACAUUUGUGACAGGUUCACCCUACA_AAUGGGUCAUAUUUACAUGUACCCAAAAUGUGUAAGGA
.........................((((.((.....((((......))))......)).))))......((.((((...(((((.((........))))))).....)))).)). ( -6.02 =  -7.00 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:59 2006