Locus 1558

Sequence ID X_DroMel_CAF1
Location 4,467,395 – 4,467,549
Length 154
Max. P 0.889574
window2561 window2562

overview

Window 1

Location 4,467,395 – 4,467,509
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.68
Mean single sequence MFE -48.27
Consensus MFE -43.85
Energy contribution -44.07
Covariance contribution 0.23
Combinations/Pair 1.05
Mean z-score -2.17
Structure conservation index 0.91
SVM decision value 0.96
SVM RNA-class probability 0.889574
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4467395 114 - 22224390
GAACUGGAGCUGGUCAUGUUCAGGAUGCUCUGGAUAUCGGCCAGAUCCUUGGUGUCCGCCGGCUCAUGUUUGAUGGGCGAUGGCGGAUGCGAGAUGGCUCCGCAU------CCAUUUGCU
.....(((((((((((((((((((....))))))))).)))).....((((.(((((((((((((((.....))))))..)))))))))))))..))))))(((.------.....))). ( -51.90)
>DroSec_CAF1 69042 114 - 1
GAACUAGAGCUGGUCAUGUUCAGGAUGCUCUGGAUAUCGGCCAGAUCCUUGGUGUCCGCCGGCUCGUGUUUGAUCGGCGAUGGCGGAUGUGAGAUGGCCCCGCAU------CCAUUUGCU
..(((((..(((((((((((((((....))))))))).))))))....)))))(((((((((.(((....)))))))))..)))(((((((.(......))))))------))....... ( -43.70)
>DroYak_CAF1 69916 120 - 1
GAACUGGAGCUGGUCAUGUUCAGUAUGCUCUGGAUAUCGGCCAGAUCCUUGCUGUCCGCCGGCUCAUGUUUAAUGGGCGAUGGCGGAUGCGAGAUGGCACCGCCCCCACCACCAUUUGCU
....(((..((((((((((((((......)))))))).))))))...(((((.((((((((((((((.....))))))..)))))))))))))..(((...))).......)))...... ( -49.20)
>consensus
GAACUGGAGCUGGUCAUGUUCAGGAUGCUCUGGAUAUCGGCCAGAUCCUUGGUGUCCGCCGGCUCAUGUUUGAUGGGCGAUGGCGGAUGCGAGAUGGCACCGCAU______CCAUUUGCU
.....(((.((((((((((((((......)))))))).)))))).))).....((((((((((((((.....))))))..))))))))((.((((((..............)))))))). (-43.85 = -44.07 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,467,429 – 4,467,549
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -47.60
Consensus MFE -42.99
Energy contribution -44.10
Covariance contribution 1.11
Combinations/Pair 1.02
Mean z-score -1.86
Structure conservation index 0.90
SVM decision value 0.24
SVM RNA-class probability 0.649586
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4467429 120 - 22224390
GGGCGUGUUCACGGACUGCUCAAAGUUGCGCAGAAAACUGGAACUGGAGCUGGUCAUGUUCAGGAUGCUCUGGAUAUCGGCCAGAUCCUUGGUGUCCGCCGGCUCAUGUUUGAUGGGCGA
.((((.((((.(((.((((.((....)).))))....))))))).(((.(((((((((((((((....))))))))).)))))).)))........)))).((((((.....)))))).. ( -47.40)
>DroSec_CAF1 69076 120 - 1
GGGCGUGUUCACCGACUGCUCAAAGUUGCGCAGGAAACUGGAACUAGAGCUGGUCAUGUUCAGGAUGCUCUGGAUAUCGGCCAGAUCCUUGGUGUCCGCCGGCUCGUGUUUGAUCGGCGA
(((((.((((..(((((......)))))..(((....)))))))..((.(((((((((((((((....))))))))).)))))).)).....)))))(((((.(((....)))))))).. ( -47.60)
>DroYak_CAF1 69956 120 - 1
GGGCGUGUUCACCGACUGCUCAAAAUUGCGCAGGAAACUGGAACUGGAGCUGGUCAUGUUCAGUAUGCUCUGGAUAUCGGCCAGAUCCUUGCUGUCCGCCGGCUCAUGUUUAAUGGGCGA
.((((.((((.......((........)).(((....))))))).(((.((((((((((((((......)))))))).)))))).)))........)))).((((((.....)))))).. ( -47.80)
>consensus
GGGCGUGUUCACCGACUGCUCAAAGUUGCGCAGGAAACUGGAACUGGAGCUGGUCAUGUUCAGGAUGCUCUGGAUAUCGGCCAGAUCCUUGGUGUCCGCCGGCUCAUGUUUGAUGGGCGA
.((((.(..((((((((((.((....)).))))............(((.((((((((((((((......)))))))).)))))).))))))))).))))).((((((.....)))))).. (-42.99 = -44.10 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:29 2006