Locus 1567

Sequence ID 2L_DroMel_CAF1
Location 4,223,579 – 4,223,670
Length 91
Max. P 0.826111
window2522 window2523

overview

Window 2

Location 4,223,579 – 4,223,670
Length 91
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 90.20
Mean single sequence MFE -39.23
Consensus MFE -33.00
Energy contribution -34.33
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 0.84
SVM decision value 0.70
SVM RNA-class probability 0.826111
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4223579 91 + 22407834
-----------UGCGGAUUGGGAGCCCAACAACAACCAGAAUCGGCGAGGCAACCUCAGCCGAGUCCCGCGACUCGCUGGCUGCCUCGUAAAACUGUCACUU
-----------((..(.((((....)))))..))..(((.....((((((((...(((((.(((((....)))))))))).))))))))....)))...... ( -33.90)
>DroSim_CAF1 5268 102 + 1
GAGCUGGGAGUUGCGGAUUGGGAGCCCAACAACAACCUGAAUCGGCGAGGCAACCUCUGCCGAGUCCCGCGACUCGCUGGCUGCCUCGUAAAACUGUCACUU
.(((..((((((((((.((((....)))).........((.(((((((((...)))).))))).))))))))))).)..))).................... ( -42.70)
>DroYak_CAF1 5640 102 + 1
GAGCUGGGAGUUGCGGAUUGGGAACCCAACAACAACCUGAAACGGCGAGGCAACCUCAGCCGAGUCCCGCGACUCGCUGGCUGCCUCGUAAAACUGUCACUU
.(((..((((((((((.((((....)))).........((..((((((((...)))).))))..))))))))))).)..))).................... ( -41.10)
>consensus
GAGCUGGGAGUUGCGGAUUGGGAGCCCAACAACAACCUGAAUCGGCGAGGCAACCUCAGCCGAGUCCCGCGACUCGCUGGCUGCCUCGUAAAACUGUCACUU
.......((((.((((.((((....))))...............((((((((.((...((.(((((....))))))).)).))))))))....)))).)))) (-33.00 = -34.33 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,223,579 – 4,223,670
Length 91
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 90.20
Mean single sequence MFE -40.07
Consensus MFE -36.40
Energy contribution -36.73
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.91
SVM decision value 0.35
SVM RNA-class probability 0.700942
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4223579 91 - 22407834
AAGUGACAGUUUUACGAGGCAGCCAGCGAGUCGCGGGACUCGGCUGAGGUUGCCUCGCCGAUUCUGGUUGUUGUUGGGCUCCCAAUCCGCA-----------
..(((.(((..((.((((((((((((((((((....))))).)))..))))))))))..))..)))......(((((....))))).))).----------- ( -40.20)
>DroSim_CAF1 5268 102 - 1
AAGUGACAGUUUUACGAGGCAGCCAGCGAGUCGCGGGACUCGGCAGAGGUUGCCUCGCCGAUUCAGGUUGUUGUUGGGCUCCCAAUCCGCAACUCCCAGCUC
.......((((...((((((((((.(((((((....))))).))...))))))))))........((((((.(((((....)))))..))))))...)))). ( -38.80)
>DroYak_CAF1 5640 102 - 1
AAGUGACAGUUUUACGAGGCAGCCAGCGAGUCGCGGGACUCGGCUGAGGUUGCCUCGCCGUUUCAGGUUGUUGUUGGGUUCCCAAUCCGCAACUCCCAGCUC
..............((((((((((((((((((....))))).)))..))))))))))..(((...((((((.(((((....)))))..))))))...))).. ( -41.20)
>consensus
AAGUGACAGUUUUACGAGGCAGCCAGCGAGUCGCGGGACUCGGCUGAGGUUGCCUCGCCGAUUCAGGUUGUUGUUGGGCUCCCAAUCCGCAACUCCCAGCUC
..(((((((.....((((((((((((((((((....))))).)))..))))))))))((......)))))).(((((....))))).)))............ (-36.40 = -36.73 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:36 2006