Locus 8204

Sequence ID 3L_DroMel_CAF1
Location 21,568,456 – 21,568,607
Length 151
Max. P 0.880234
window13422 window13423

overview

Window 2

Location 21,568,456 – 21,568,567
Length 111
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.00
Mean single sequence MFE -19.60
Consensus MFE -14.08
Energy contribution -13.97
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -2.60
Structure conservation index 0.72
SVM decision value 0.91
SVM RNA-class probability 0.880234
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21568456 111 + 23771897
GGUAAAUAUAAUGAAGCAAUUAACAUCUA---------UAUUCUAUACAUCCUUCUGGUACUUUUACAUUCUAUUUUUUAUGAUGUAAUUGUGCCUCAUUUCCUACUCGAAUUUUCUCUU
((.((((.((((......)))).......---------..................(((((..(((((((.((.....)).)))))))..)))))..))))))................. ( -15.90)
>DroSec_CAF1 16082 120 + 1
GGUAAACAUAAUGAAGGAAUUAAGAUUUAUUUGUUAUUUAUUCCAUACAUCCCUUUGGUACUUUUACUUUCUAUUUCUUAUGAAGUAAUUGUGCCUCAUUUCUUACGCGAUUUUUCUCUU
.((((....(((((.(((((...(((......)))....)))))............(((((..(((((((.((.....)).)))))))..))))))))))..)))).............. ( -22.90)
>DroSim_CAF1 16259 116 + 1
GGUAAAAAUAAUG----AAUUAACAUUUAUUUGUUAUUUAUUCCAUACAUCCUUUUGGUACUUUUACUUUCUAUUUCUCAUGAAGUAAUUGUGCCUCAUUUCUUACGCGAUUUUUCUCUU
((...((((((..----(((........)))..))))))...))............(((((..(((((((...........)))))))..)))))......................... ( -20.00)
>consensus
GGUAAAAAUAAUGAAG_AAUUAACAUUUAUUUGUUAUUUAUUCCAUACAUCCUUUUGGUACUUUUACUUUCUAUUUCUUAUGAAGUAAUUGUGCCUCAUUUCUUACGCGAUUUUUCUCUU
.(((....((((......))))..................................(((((..(((((((.((.....)).)))))))..)))))........))).............. (-14.08 = -13.97 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,568,487 – 21,568,607
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.74
Mean single sequence MFE -20.77
Consensus MFE -14.18
Energy contribution -14.40
Covariance contribution 0.22
Combinations/Pair 1.05
Mean z-score -2.46
Structure conservation index 0.68
SVM decision value 0.16
SVM RNA-class probability 0.613373
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21568487 120 + 23771897
UUCUAUACAUCCUUCUGGUACUUUUACAUUCUAUUUUUUAUGAUGUAAUUGUGCCUCAUUUCCUACUCGAAUUUUCUCUUAAGCUACAAGGGUAUUGUAAUGAACAGAAAAGCUCAAACA
................(((((..(((((((.((.....)).)))))))..))))).............((.((((((.((....(((((.....)))))...)).))))))..))..... ( -21.80)
>DroSec_CAF1 16122 119 + 1
UUCCAUACAUCCCUUUGGUACUUUUACUUUCUAUUUCUUAUGAAGUAAUUGUGCCUCAUUUCUUACGCGAUUUUUCUCUUAAGCUUUACUUUUAA-GUUAAGAACAGAUAAGCUCAAAUA
................(((((..(((((((.((.....)).)))))))..)))))...........((...(((..((((((.(((.......))-)))))))..)))...))....... ( -21.10)
>DroSim_CAF1 16295 119 + 1
UUCCAUACAUCCUUUUGGUACUUUUACUUUCUAUUUCUCAUGAAGUAAUUGUGCCUCAUUUCUUACGCGAUUUUUCUCUUAAGCUUUACUUUUAA-GUUAAGAACAGAUAAGCUCAAAUA
................(((((..(((((((...........)))))))..)))))...........((...(((..((((((.(((.......))-)))))))..)))...))....... ( -19.40)
>consensus
UUCCAUACAUCCUUUUGGUACUUUUACUUUCUAUUUCUUAUGAAGUAAUUGUGCCUCAUUUCUUACGCGAUUUUUCUCUUAAGCUUUACUUUUAA_GUUAAGAACAGAUAAGCUCAAAUA
................(((((..(((((((.((.....)).)))))))..)))))..........................(((((.......................)))))...... (-14.18 = -14.40 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:21 2006