Locus 6502

Sequence ID 3R_DroMel_CAF1
Location 17,122,510 – 17,122,614
Length 104
Max. P 0.798863
window10576

overview

Window 6

Location 17,122,510 – 17,122,614
Length 104
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 73.36
Mean single sequence MFE -27.38
Consensus MFE -11.11
Energy contribution -11.33
Covariance contribution 0.22
Combinations/Pair 1.19
Mean z-score -2.06
Structure conservation index 0.41
SVM decision value 0.61
SVM RNA-class probability 0.798863
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17122510 104 + 27905053
AGUAUUGCAAAAUGCAGGGGC-AAGGGCCCACGUAGUAUUUUUCCACGUCGGGCAUUUAAUGCUCUCGAGUUGGAAACAAUGAAACCAUA-CGCAAACCCCCUGGA
.(((((....)))))(((((.-....((((((((.(.......).)))).))))......(((......((((....)))).........-.)))...)))))... ( -28.79)
>DroPse_CAF1 33762 89 + 1
CAUAUUCCAGCAUGG----CAACAACGCCAACGUAGUCUUUCUCAAUGUCGGGCAAUAUUUACUCAUAAGUUG-AAACAAAGAAAU------------ACGCUGGA
.....((((((.(((----(......))))..(((.(((((.(((((...(((.........)))....))))-)...)))))..)------------)))))))) ( -23.20)
>DroSec_CAF1 34819 104 + 1
AGUAUUGCAAAAUGCAGGGGC-AAGGGCCCACGUAGUAUUUUUCCACGUCGGGCAUUAAAUGCUCUCGAGUUGGAAACAAAGAAACCGAA-UGCAAACCCACUGGA
.(((((....))))).(((..-....((((((((.(.......).)))).))))......(((..(((..(((....)))......))).-.)))..)))...... ( -29.00)
>DroEre_CAF1 34718 98 + 1
AGUAUUGCAAAAUGCAA-------GGGCCCACGUAGUAUUUUUCCACGUCGGGCAUUAUUUGCUCUCGUGUUGGAAUCAAAGAAACCAGA-UGCAAACCCACUGGA
(((.((((.....))))-------((((((((((.(.......).)))).))))....((((((((.((.(((....)))....)).)))-.))))).)))))... ( -24.70)
>DroYak_CAF1 47127 105 + 1
AUUAUUGCAAAAUGCAAGGGC-AAGGGCCCACGUAGUAUUUUUCCACGUCGGGCAUUAUUGGCUCUCGAGUUGGAAACAAAGAAGUCAGACUGCAAACCCACUGGA
....((((.....))))(((.-..((((((((((.(.......).)))).))))....((((((.((...(((....))).)))))))).)).....)))...... ( -29.90)
>DroPer_CAF1 33912 89 + 1
CAUAUUCCAGCAUGG----CAACAACGCCAACGUAGUCUUUCUCAAUGUCGGGCAAUAUUUGCUCAUAAGUUG-AAACAAAGAAAU------------ACGCUGGA
.....((((((.(((----(......))))..(((.(((((.(((((...(((((.....)))))....))))-)...)))))..)------------)))))))) ( -28.70)
>consensus
AGUAUUGCAAAAUGCA___GC_AAGGGCCCACGUAGUAUUUUUCCACGUCGGGCAUUAUUUGCUCUCGAGUUGGAAACAAAGAAACCA_A_UGCAAACCCACUGGA
....((((.....)))).........((((((((.(.......).)))).))))................(((....))).......................... (-11.11 = -11.33 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:53 2006