Locus 3887

Sequence ID 2R_DroMel_CAF1
Location 12,862,320 – 12,862,423
Length 103
Max. P 0.626771
window6276

overview

Window 6

Location 12,862,320 – 12,862,423
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.70
Mean single sequence MFE -21.57
Consensus MFE -13.07
Energy contribution -13.85
Covariance contribution 0.78
Combinations/Pair 1.06
Mean z-score -1.99
Structure conservation index 0.61
SVM decision value 0.19
SVM RNA-class probability 0.626771
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12862320 103 + 20766785
AUUUGCAUAAAAAUCCGUUUUAUUAACAUUCAAAGGCGAUUCCUAUCGCCGCUAAAUUGAAGAAAAGUAGCUAGAGUUGUU----------------CGGCAAAAAAAAAAGGGGGAAA-
.(((((((((((.....)))))).(((((((...((((((....))))))((((..((.....))..))))..))).))))----------------..)))))...............- ( -20.80)
>DroGri_CAF1 247457 108 + 1
AUUUGCAUAAAAAUCCAUUUUAUUAACAUUCAAAGGCGAUUUCUAUCGUCGCCAAAUUGAAGAAAAGAAGCUAAACCUUUGCAAAAGGA-----C--UUGCAAAAAAAAAU----GCGA-
..((((((....................(((((.((((((.......))))))...)))))................(((((((.....-----.--))))))).....))----))))- ( -21.30)
>DroSim_CAF1 217622 103 + 1
AUUUGCAUAAAAAUCCGUUUUAUUAACAUUCAAAGGCGAUUCCUAUCGCCGCUAAAUUGAAGAAAAGUAGCUAGAGUUGUU----------------CGGCAAAAAAAAAAAGGGGGAA-
.(((((((((((.....)))))).(((((((...((((((....))))))((((..((.....))..))))..))).))))----------------..)))))...............- ( -20.80)
>DroEre_CAF1 209806 97 + 1
AUUUGCAUAAAAAUCCGUUUUAUUAACAUUCAAAGGCGAUUCCUAUCGCCGCUAAAUUGAAGAAAAGUAGCUAGAGUUGUU----------------CGG--AAAAAAAA----GGGAA-
.............(((.((((.(((((((((...((((((....))))))((((..((.....))..))))..))).))))----------------...--.)).))))----.))).- ( -20.90)
>DroWil_CAF1 314750 120 + 1
AUUUGCAUAAAAAUCCGUUUUAUUAACAUUCAAAGGCGAUUUCUAUCGUCGCCAAAUUGAAGAAAAGUAGCUAAAAUUGAGUAUACAGAUAAGGCUACUACAAAAAGACAGAACGAGAGA
.............((((((((.......(((((.((((((.......))))))...)))))....(((((((....(((......)))....)))))))..........)))))).)).. ( -24.80)
>DroYak_CAF1 215680 99 + 1
AUUUGCAUAAAAAUCCGUUUUAUUAACAUUCAAAGGCGAUUCCUAUCGCCGCUAAAUUGAAGAAAAGUAGCUAGAGUUGUU----------------CGGCAAAAAAAAA----GGGAA-
.(((((((((((.....)))))).(((((((...((((((....))))))((((..((.....))..))))..))).))))----------------..)))))......----.....- ( -20.80)
>consensus
AUUUGCAUAAAAAUCCGUUUUAUUAACAUUCAAAGGCGAUUCCUAUCGCCGCUAAAUUGAAGAAAAGUAGCUAGAGUUGUU________________CGGCAAAAAAAAA____GGGAA_
.(((((............................((((((....))))))((((..((.....))..))))............................)))))................ (-13.07 = -13.85 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:27 2006