Locus 6821

Sequence ID 3R_DroMel_CAF1
Location 18,032,971 – 18,033,073
Length 102
Max. P 0.901202
window11074

overview

Window 4

Location 18,032,971 – 18,033,073
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.57
Mean single sequence MFE -26.65
Consensus MFE -20.76
Energy contribution -21.90
Covariance contribution 1.14
Combinations/Pair 1.08
Mean z-score -2.59
Structure conservation index 0.78
SVM decision value 1.02
SVM RNA-class probability 0.901202
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18032971 102 + 27905053
AAU-------AAAA---------AAAAUUGA-ACUUGGGGAGUGAGCACAUGUCGGCACAUGACGA-GAAGGCAGAUCAACUUCAUUCACAAUUAAGCUAAAAAUACAAGCCCCACAGUU
...-------....---------.......(-((((((((..(((((.(((((....)))))....-((((.........))))............))).......))..))))).)))) ( -21.41)
>DroSec_CAF1 75540 95 + 1
-----------------------AAAAUUGA-ACUGGGGGAGUGAGCACAUGUCGGCACAUGACGA-GAAGGCAGAUCAACUUCAUUCACAAUUAAUCUAAAAAUACAAACCCCCCAGUU
-----------------------.......(-((((((((.(((((..(((((....)))))....-((((.........)))).))))).(((........)))......))))))))) ( -26.40)
>DroSim_CAF1 77461 95 + 1
-----------------------AAAAUUGA-ACUGGGGGAGUGAGCACAUGUCGGCACAUGACGA-GAAGGCAGAUCAACUUCAUUCACAAUUAAGCUAAAAAUACAAGCCCCCCAGUU
-----------------------.......(-((((((((.(((((..(((((....)))))....-((((.........)))).)))))......(((.........)))))))))))) ( -29.60)
>DroEre_CAF1 77436 119 + 1
AAAAACCGCCAAAAAAAAAAGAAAAAAUUGAAACUGGGGGAGUGGGCACAUGUCGGCACAUGACGA-GAAGGCAGAUCAACUUCAUUCACAAUUAAGCUAAAAAUACAAGCCCCCCAGUU
...............................(((((((((.(((((..(((((....)))))....-((((.........)))).)))))......(((.........)))))))))))) ( -28.50)
>DroYak_CAF1 79264 110 + 1
UAAAGCCGCCAAAAA---------AAAUUGAAACUGGGGGAGUGAGCUCAUGUCGGCACAUGACGA-GAAGGCAGAUCAACUUCAUUCACAAUUAAGCUAAAAAUACAUGCCCCCCAGUU
...............---------.......(((((((((.(((((.((((((....))))))...-((((.........)))).)))))......((...........))))))))))) ( -29.60)
>DroAna_CAF1 72091 103 + 1
AAU-------AAGA---------AAUAUUGCGACAGGGGGUGUGGGCUCAUGUCAGCACUCGACGGCGGAGGCAGAUCAACUUCAUUCACAAUUAAGCUAAAAAUACAAGCCC-CCAGCU
...-------....---------......((....((((((.(((.(((.((((.......))))...))).).((......))......................)).))))-)).)). ( -24.40)
>consensus
AA________AAAA_________AAAAUUGA_ACUGGGGGAGUGAGCACAUGUCGGCACAUGACGA_GAAGGCAGAUCAACUUCAUUCACAAUUAAGCUAAAAAUACAAGCCCCCCAGUU
................................((((((((.(((((....(((((.....)))))..((((.........)))).)))))......(((.........))))))))))). (-20.76 = -21.90 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:48 2006