Locus 1102

Sequence ID 3R_DroMel_CAF1
Location 3,340,848 – 3,340,956
Length 108
Max. P 0.701912
window1803

overview

Window 3

Location 3,340,848 – 3,340,956
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.72
Mean single sequence MFE -28.63
Consensus MFE -25.00
Energy contribution -24.53
Covariance contribution -0.47
Combinations/Pair 1.21
Mean z-score -0.73
Structure conservation index 0.87
SVM decision value 0.35
SVM RNA-class probability 0.701912
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3340848 108 - 27905053
-GGCCAG-CGGCGUGAGACCACAG--CAAGAUGUCAUUCGAUAUAGCCGUGGCCGAUCAGAUGCGCAUUGCACUGAAGUAAGUCC---CCC--CUCCCCCAC-AGUCC--UUCAAGUGGC
-(((((.-(((((((....)))..--....(((((....))))).)))))))))..((((.(((.....))))))).........---...--.....((((-.....--.....)))). ( -33.10)
>DroSec_CAF1 34884 96 - 1
-GGCCAG-CGGCGUGAGACCACAG--CAAGAUGUCAUUCGAUAUAGCCGUGGCCGAUCAGAUGCGCAUUGCACUGAAGUAAGUAC---CCU--C-------CAAAUCC--UUCA------
-(((((.-(((((((....)))..--....(((((....))))).)))))))))..((((.(((.....))))))).........---...--.-------.......--....------ ( -29.80)
>DroSim_CAF1 28860 101 - 1
-GGCCAG-CGGCGUGAGACCACAG--CAAGAUGUCAUUCGAUAUAGCCGUGGCCGAUCAGAUGCGCAUUGCACUGAAGUAAGUCC---CCC--C-------C-AAUCC--UUCAAUUGUC
-(((((.-(((((((....)))..--....(((((....))))).)))))))))..((((.(((.....))))))).........---...--.-------.-.....--.......... ( -29.80)
>DroEre_CAF1 27751 112 - 1
-GGCCAG-CGGCGUGAGACCACAG--CAAGAUGUCAUUCGAUAUAGCCGUGGCCGAUCAGAUGCGCAUUGCACUGAAGUAAGUCC---CAUAAUUCAGCUAC-AGCCAUAUUCAAUUGCC
-(((((.-(((((((....)))..--....(((((....))))).)))))))))((((((.(((.....))))))).........---.........((...-.)).....))....... ( -30.40)
>DroYak_CAF1 28920 89 - 1
-GGCCAG-CGGCGUGAGACCACAG--CAAGAUGUCAUUCGAUAUAGCCGUGGCUGAUCAGAUGCGCAUUGCACUGAAGUAAGUCC---CAAAGUAA------------------------
-(((((.-(((((((....)))..--....(((((....))))).)))))))))..((((.(((.....))))))).........---........------------------------ ( -27.10)
>DroMoj_CAF1 41935 98 - 1
UGGCGAGCUGCUGCAAAGCCACAAGAGAACAUGUCAUUCGAUAUUGCCAUCGCCGAUCAGAUGCGCAUUGCAUUGAAGUAAGUGAAUACA-------------AAU---AUUUA------
((((..((....))...))))........(((....((((((..(((((((........)))).)))....))))))....)))......-------------...---.....------ ( -21.60)
>consensus
_GGCCAG_CGGCGUGAGACCACAG__CAAGAUGUCAUUCGAUAUAGCCGUGGCCGAUCAGAUGCGCAUUGCACUGAAGUAAGUCC___CAC__C_______C_AAUCC__UUCA______
.(((((..(((((((....)))........(((((....))))).)))))))))..((((.(((.....)))))))............................................ (-25.00 = -24.53 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:55 2006