Locus 7192

Sequence ID 3L_DroMel_CAF1
Location 19,306,683 – 19,306,773
Length 90
Max. P 0.840882
window11682 window11683

overview

Window 2

Location 19,306,683 – 19,306,773
Length 90
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 82.61
Mean single sequence MFE -22.61
Consensus MFE -15.61
Energy contribution -16.05
Covariance contribution 0.44
Combinations/Pair 1.36
Mean z-score -1.70
Structure conservation index 0.69
SVM decision value 0.12
SVM RNA-class probability 0.595463
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19306683 90 + 23771897
UUGCAGUUGAAAUUUUAAUGGGUUUUUAUGGAUGUGGACUCUGCCGGCGU--GGCAGAGGUUCUUAAAUUUUUAAAAUUCCCACUGCAGCCA
((((((((((....))))((((.(((((..(((..((((((((((.....--)))))))..)))...)))..)))))..))))))))))... ( -27.90)
>DroPse_CAF1 77484 75 + 1
UGGAAGUUGCAAUUUUAAUGGAUUUU----------------GUCUGCAUAUGGCAG-GGCUCUUACAUUUUUAAAAUUUUCAUUGCAGACC
((((((((...........(((((((----------------(((.......)))))-)).)))...........))))))))......... ( -11.75)
>DroSec_CAF1 140075 91 + 1
UUCGAGUUGAAAUUUUAAUGGGUUUUUAUGGAUGUGGACUCUGCCGGCGU-UGGCAGAGGUUCUUAAAUUUUUAAAAUUCCCACUGCAGCCA
...(.((((.........((((.(((((..(((..(((((((((((....-))))))))..)))...)))..)))))..))))...))))). ( -24.30)
>DroSim_CAF1 156701 91 + 1
UUCGAGUUGAAAUUUUAAUGGGUUUUUAUGGAUGUGGACUCUGCCGGCGU-UGGCAGAGGUUCUUAAAUUUUUAAAAUUCCCACUGCAGCCA
...(.((((.........((((.(((((..(((..(((((((((((....-))))))))..)))...)))..)))))..))))...))))). ( -24.30)
>DroEre_CAF1 140279 91 + 1
UUGCAGUUGAAAUUUUAAUGGGUUUUUAUGGAUGUGGACUCUGCCUGCAU-GGGCAGAGGUUUUUAAAUUUUUAAAAUUCCCAUUGCACCCA
...............(((((((.(((((..(((..(((((((((((....-))))))).))))....)))..)))))..)))))))...... ( -25.80)
>DroAna_CAF1 123763 92 + 1
UUGAAGUUGAAAUUUUAAUGGGUUUUUAUGGAUGUGAGUUCCGUCUGCAUAUGGCGGAGGUUUUUAAAUUUUUAAAAUUCUCAUUGCAGCCA
.....((((......(((((((.(((((..(((.((((..((.(((((.....)))))))..)))).)))..)))))..))))))))))).. ( -21.60)
>consensus
UUGAAGUUGAAAUUUUAAUGGGUUUUUAUGGAUGUGGACUCUGCCGGCAU_UGGCAGAGGUUCUUAAAUUUUUAAAAUUCCCACUGCAGCCA
..................((((.(((((..(((..((((((((((.......)))))))..)))...)))..)))))..))))......... (-15.61 = -16.05 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,306,683 – 19,306,773
Length 90
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 82.61
Mean single sequence MFE -19.02
Consensus MFE -12.65
Energy contribution -13.22
Covariance contribution 0.57
Combinations/Pair 1.21
Mean z-score -2.82
Structure conservation index 0.66
SVM decision value 0.75
SVM RNA-class probability 0.840882
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19306683 90 - 23771897
UGGCUGCAGUGGGAAUUUUAAAAAUUUAAGAACCUCUGCC--ACGCCGGCAGAGUCCACAUCCAUAAAAACCCAUUAAAAUUUCAACUGCAA
....((((((.((((((((((...((....)).(((((((--.....)))))))....................)))))))))).)))))). ( -25.20)
>DroPse_CAF1 77484 75 - 1
GGUCUGCAAUGAAAAUUUUAAAAAUGUAAGAGCC-CUGCCAUAUGCAGAC----------------AAAAUCCAUUAAAAUUGCAACUUCCA
.((((((((((....(((((......)))))...-....))).)))))))----------------.......................... ( -11.60)
>DroSec_CAF1 140075 91 - 1
UGGCUGCAGUGGGAAUUUUAAAAAUUUAAGAACCUCUGCCA-ACGCCGGCAGAGUCCACAUCCAUAAAAACCCAUUAAAAUUUCAACUCGAA
.......((((((..((((((....))))))..(((((((.-.....)))))))................))))))................ ( -20.90)
>DroSim_CAF1 156701 91 - 1
UGGCUGCAGUGGGAAUUUUAAAAAUUUAAGAACCUCUGCCA-ACGCCGGCAGAGUCCACAUCCAUAAAAACCCAUUAAAAUUUCAACUCGAA
.......((((((..((((((....))))))..(((((((.-.....)))))))................))))))................ ( -20.90)
>DroEre_CAF1 140279 91 - 1
UGGGUGCAAUGGGAAUUUUAAAAAUUUAAAAACCUCUGCCC-AUGCAGGCAGAGUCCACAUCCAUAAAAACCCAUUAAAAUUUCAACUGCAA
(((((...(((((..((((((....))))))..(((((((.-.....)))))))......)))))....))))).................. ( -24.10)
>DroAna_CAF1 123763 92 - 1
UGGCUGCAAUGAGAAUUUUAAAAAUUUAAAAACCUCCGCCAUAUGCAGACGGAACUCACAUCCAUAAAAACCCAUUAAAAUUUCAACUUCAA
((((((((..(((..((((((....))))))..))).......)))))..(((.......)))........))).................. ( -11.40)
>consensus
UGGCUGCAAUGGGAAUUUUAAAAAUUUAAGAACCUCUGCCA_ACGCAGGCAGAGUCCACAUCCAUAAAAACCCAUUAAAAUUUCAACUCCAA
.......((((((..((((((....))))))..(((((((.......)))))))................))))))................ (-12.65 = -13.22 +   0.57)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:30 2006