Locus 1559

Sequence ID X_DroMel_CAF1
Location 4,467,749 – 4,467,869
Length 120
Max. P 0.945616
window2563

overview

Window 3

Location 4,467,749 – 4,467,869
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.39
Mean single sequence MFE -55.13
Consensus MFE -53.36
Energy contribution -53.03
Covariance contribution -0.33
Combinations/Pair 1.07
Mean z-score -2.28
Structure conservation index 0.97
SVM decision value 1.35
SVM RNA-class probability 0.945616
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4467749 120 - 22224390
UUCGCCUUGGUGGUGAAGGCAUAGUUGCACACGGCGCACUCGUACGGACGAUCUCCGUUGUGGGUACGCAUGUGACGCACCAGGGCGGCCUUGUCGCAAACGGCGUAGGGACACAUGUUG
.(((((((((((((....(((....))).(((((((.((((..(((((.....)))))...)))).))).)))))).)))))))))))(((((.(((.....)))))))).......... ( -50.90)
>DroSec_CAF1 69396 120 - 1
UUCGCCUUGGUGGUGAAGGCAUAGUUGCACACGGCGCACUCGUACGGACGAUCUCCGUUGUGGGUGCGCAUGUGGCGCACCAAGGCGGCCUUGUCGCAAACGGCGUAGGGACACAUGUUG
.(((((((((((((....(((....))).((((((((((((..(((((.....)))))...)))))))).)))))).)))))))))))(((((.(((.....)))))))).......... ( -58.30)
>DroYak_CAF1 70276 120 - 1
UUCGCCUUGGUGGUGAAGGCGUAGUUGCACACGGCGCACUCGUACGGACGAUCGCCGUUGUGGGUGCGCAUGUGCCGCACCAGGGCGGCCUUGUCGCAAACGGCAUAGGGACACAUGUUG
.((((((((((((((...(((((.(..((.((((((...((((....)))).))))))))..).)))))...))))..))))))))))((((((((....))))).)))(((....))). ( -56.20)
>consensus
UUCGCCUUGGUGGUGAAGGCAUAGUUGCACACGGCGCACUCGUACGGACGAUCUCCGUUGUGGGUGCGCAUGUGACGCACCAGGGCGGCCUUGUCGCAAACGGCGUAGGGACACAUGUUG
.(((((((((((.((...(((....))).((((((((((((..((((.......))))...)))))))).)))).)))))))))))))((((((((....))))).)))(((....))). (-53.36 = -53.03 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:30 2006