Locus 264

Sequence ID 2R_DroMel_CAF1
Location 1,658,001 – 1,658,120
Length 119
Max. P 0.610160
window561 window562

overview

Window 1

Location 1,658,001 – 1,658,120
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.40
Mean single sequence MFE -16.83
Consensus MFE -11.80
Energy contribution -12.36
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.75
Structure conservation index 0.70
SVM decision value 0.16
SVM RNA-class probability 0.610160
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1658001 119 + 20766785
UUCGUAAGA-GGGAGAAAUACAGUUUUUGCUUUUUUUGCUCUGUACUUAUUUUACAUAGAUUUAUACAUCAAGAAUAUUAAAUACCCUCCCUUUCAUUUCACAAUUAAUAAUUAAAUUCU
......(((-(((((...(((((.....((.......)).))))).............(((......)))................)))))))).......................... ( -16.80)
>DroSec_CAF1 43852 101 + 1
UUCGUAAGAAAGGAAUAAUACAGUUUUUGCUUUU------CUGUACUUAUUUUACAUAGAUGUAUACAUCAAGAAUAUUAAAAACUCUCCCUUUCAUUU-------------UCGUUUCU
.......((((((........((((((((...((------(((((.......)))...((((....)))).))))...))))))))...))))))....-------------........ ( -16.50)
>DroSim_CAF1 40733 101 + 1
UUCGUAAGAAAGGAAUAAUACAGUUUUUGCUUUU------CUGUACUUAUUUUACUUAGAUGUAUACAUCAAGAAUAUUAAAAACUCUCCCUUUCAUUU-------------UCGUUUCU
.......((((((((((((((((...........------))))).)))))...(((.((((....)))))))................))))))....-------------........ ( -17.20)
>consensus
UUCGUAAGAAAGGAAUAAUACAGUUUUUGCUUUU______CUGUACUUAUUUUACAUAGAUGUAUACAUCAAGAAUAUUAAAAACUCUCCCUUUCAUUU_____________UCGUUUCU
.......((((((((((((((((.................))))).))))).......((((....))))...................))))))......................... (-11.80 = -12.36 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,658,001 – 1,658,120
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.40
Mean single sequence MFE -19.10
Consensus MFE -13.05
Energy contribution -13.83
Covariance contribution 0.78
Combinations/Pair 1.04
Mean z-score -1.74
Structure conservation index 0.68
SVM decision value 0.07
SVM RNA-class probability 0.569340
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1658001 119 - 20766785
AGAAUUUAAUUAUUAAUUGUGAAAUGAAAGGGAGGGUAUUUAAUAUUCUUGAUGUAUAAAUCUAUGUAAAAUAAGUACAGAGCAAAAAAAGCAAAAACUGUAUUUCUCCC-UCUUACGAA
................((((((......(((((((.(((((.((((....(((......))).)))).)))))(((((((.((.......)).....)))))))))))))-).)))))). ( -20.30)
>DroSec_CAF1 43852 101 - 1
AGAAACGA-------------AAAUGAAAGGGAGAGUUUUUAAUAUUCUUGAUGUAUACAUCUAUGUAAAAUAAGUACAG------AAAAGCAAAAACUGUAUUAUUCCUUUCUUACGAA
.....((.-------------....((((((((((((.......))))))((((....))))...........(((((((------...........)))))))...))))))...)).. ( -18.50)
>DroSim_CAF1 40733 101 - 1
AGAAACGA-------------AAAUGAAAGGGAGAGUUUUUAAUAUUCUUGAUGUAUACAUCUAAGUAAAAUAAGUACAG------AAAAGCAAAAACUGUAUUAUUCCUUUCUUACGAA
.....((.-------------....((((((((((((.......))))))((((....))))...........(((((((------...........)))))))...))))))...)).. ( -18.50)
>consensus
AGAAACGA_____________AAAUGAAAGGGAGAGUUUUUAAUAUUCUUGAUGUAUACAUCUAUGUAAAAUAAGUACAG______AAAAGCAAAAACUGUAUUAUUCCUUUCUUACGAA
.........................((((((((((((.......))))))((((....))))...........(((((((.................)))))))...))))))....... (-13.05 = -13.83 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:59 2006