Locus 2449

Sequence ID 3L_DroMel_CAF1
Location 6,916,306 – 6,916,397
Length 91
Max. P 0.882765
window3775 window3776

overview

Window 5

Location 6,916,306 – 6,916,397
Length 91
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 78.59
Mean single sequence MFE -22.42
Consensus MFE -14.57
Energy contribution -14.90
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.65
SVM decision value 0.92
SVM RNA-class probability 0.882765
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6916306 91 + 23771897
UGCUCUACCAGA-----------------------AAAGUUUAUUUACUUCUUCUAUGCGUGUAUUUUCCGAUAUCGAUACCGAUAUCGAUGGUACGAAAAAGAAUGCAUAUCG
.........(((-----------------------(((((......)))).))))((((((...(((((((((((((....)))))))).......)))))...)))))).... ( -20.61)
>DroSec_CAF1 169643 113 + 1
UGCUCUAAAAGCCAAAACAAA-AAAGACAAAAUCCAAAUUUUGCUUACUUCUUCUUCGCGGGUAUUUUUCGAUAUCGAUACCGAUAUCGAUGGUACGAAAAACAAUGCAUAUCG
(((.......((.........-.(((.((((((....)))))))))...........))..(((((..(((((((((....))))))))).)))))..........)))..... ( -21.90)
>DroSim_CAF1 171209 114 + 1
UGCUCUACCAGCAAAAACAAAAAAAGACAAAAUCCAAAUUUUGCUUACUUUUUCUUCGCGGGUAUUUUUCGAUAUCGAUACCGAUAUCGAUGGUUCGAAAAACAAUGCAUAUCG
(((..((((.((...........(((.((((((....)))))))))...........)).))))((((((((((((((((....))))))))..))))))))....)))..... ( -24.75)
>consensus
UGCUCUACCAGC_AAAACAAA_AAAGACAAAAUCCAAAUUUUGCUUACUUCUUCUUCGCGGGUAUUUUUCGAUAUCGAUACCGAUAUCGAUGGUACGAAAAACAAUGCAUAUCG
.........................................................(((....(((((((.((((((((....))))))))...)))))))...)))...... (-14.57 = -14.90 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,916,306 – 6,916,397
Length 91
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 78.59
Mean single sequence MFE -26.87
Consensus MFE -15.01
Energy contribution -15.23
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -2.16
Structure conservation index 0.56
SVM decision value 0.21
SVM RNA-class probability 0.633540
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6916306 91 - 23771897
CGAUAUGCAUUCUUUUUCGUACCAUCGAUAUCGGUAUCGAUAUCGGAAAAUACACGCAUAGAAGAAGUAAAUAAACUUU-----------------------UCUGGUAGAGCA
...............(((.((((.(((((((((....))))))))).............((((((.((......)))))-----------------------)))))))))).. ( -19.50)
>DroSec_CAF1 169643 113 - 1
CGAUAUGCAUUGUUUUUCGUACCAUCGAUAUCGGUAUCGAUAUCGAAAAAUACCCGCGAAGAAGAAGUAAGCAAAAUUUGGAUUUUGUCUUU-UUUGUUUUGGCUUUUAGAGCA
.....(((.....(((((((....(((((((((....))))))))).........)))))))((((((((((((((...((((...)))).)-)))))))..))))))...))) ( -27.52)
>DroSim_CAF1 171209 114 - 1
CGAUAUGCAUUGUUUUUCGAACCAUCGAUAUCGGUAUCGAUAUCGAAAAAUACCCGCGAAGAAAAAGUAAGCAAAAUUUGGAUUUUGUCUUUUUUUGUUUUUGCUGGUAGAGCA
.....(((....((((((((...(((((((....))))))).))))))))((((.(((((((.((((.(((((((((....)))))).))).)))).))))))).))))..))) ( -33.60)
>consensus
CGAUAUGCAUUGUUUUUCGUACCAUCGAUAUCGGUAUCGAUAUCGAAAAAUACCCGCGAAGAAGAAGUAAGCAAAAUUUGGAUUUUGUCUUU_UUUGUUUU_GCUGGUAGAGCA
.....(((..(((((((((....(((((((....)))))))..)))))))))...)))............................................(((.....))). (-15.01 = -15.23 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:33 2006