Locus 2276

Sequence ID 3R_DroMel_CAF1
Location 6,470,552 – 6,470,657
Length 105
Max. P 0.613041
window3683

overview

Window 3

Location 6,470,552 – 6,470,657
Length 105
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 90.60
Mean single sequence MFE -30.47
Consensus MFE -23.62
Energy contribution -24.06
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.16
SVM RNA-class probability 0.613041
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6470552 105 - 27905053
GGGAUUUUCUGGGCUGAGGGUUAAGGG-GUGGGCCUUAAUGGCUUCAAAAUUUGGUUGGGGAUUCUUGGGCUGAAUGAUUUAUGCCUUGCCCAGAUUCACAGCAAA
..((...(((((((.((((..((((..-.(.(((((......((((((.......))))))......))))).)....))))..))))))))))).))........ ( -32.70)
>DroSec_CAF1 234603 106 - 1
GAGAAGUUGGGGGUUGAGGGUUAAGGGUCUGGGGCUUAAUGGCUUCAAAAUUUGGUUGGGGGUUCUUGGGCUGAAUGAUUUAUGCCUUGCCCAGAUUCACAGCAAA
.....((((.(((((..((((.((((...(((((((....)))))))..(((..(((.(((...))).)))..)))........)))))))).))))).))))... ( -32.70)
>DroSim_CAF1 260273 106 - 1
GAGAAGUUGGGGGUUGAGGGUUAAGGGUCUGGGCUUUAAUGGCUUCAAAAUUUGGUUGGGGAUUCUUGGGCUGAAUGAUUUAUGCCUUGCCCAGAUUCACAGCAAA
.....((((....((((...))))((((((((((......(((......(((..(((.(((...))).)))..))).......)))..)))))))))).))))... ( -31.12)
>DroEre_CAF1 247940 99 - 1
GGGAAGUU-------GAGGGUUAAGGGUCUGGGGCUUAAUGGCUUCAAAAUUUGGUUGGGGUUUCUUGGGCUGAAUGAUUUAUGCCUUGCCCAGAUUCACAGCAAA
........-------....(((..(((((((((.(.....(((......(((..(((.(((...))).)))..))).......)))..))))))))))..)))... ( -27.02)
>DroYak_CAF1 242217 99 - 1
GGGAAGUU-------GGGGGUUAAGGGUCUGUGGCUUAAUGGCUUCAAAAUUUGGUUGGGGAUUCUUGGGCUGAAUGAUUUAUGCCAUGCCCAGAUUCACAGCAAA
........-------....(((..(((((((.(((...(((((......(((..(((.(((...))).)))..))).......)))))))))))))))..)))... ( -28.82)
>consensus
GGGAAGUU__GGG_UGAGGGUUAAGGGUCUGGGGCUUAAUGGCUUCAAAAUUUGGUUGGGGAUUCUUGGGCUGAAUGAUUUAUGCCUUGCCCAGAUUCACAGCAAA
...................(((..(((((((((.(.....(((......(((..(((.(((...))).)))..))).......)))..))))))))))..)))... (-23.62 = -24.06 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:25 2006