Locus 376

Sequence ID 3L_DroMel_CAF1
Location 1,093,255 – 1,093,364
Length 109
Max. P 0.617282
window554

overview

Window 4

Location 1,093,255 – 1,093,364
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.04
Mean single sequence MFE -29.26
Consensus MFE -21.66
Energy contribution -21.26
Covariance contribution -0.40
Combinations/Pair 1.11
Mean z-score -1.65
Structure conservation index 0.74
SVM decision value 0.17
SVM RNA-class probability 0.617282
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1093255 109 - 23771897
GGCGCCCCAAGGGCAUCGAUUUCUGCUAAUCCAAGGGAAAAGAUCUUGAUGCGGAAAGCGCCUCAGUGAGAGC-----UAUGAUUAGGUUACCGACAA-AAGGAG-----UAAUGAAAAA
(((((((...))))...(.(((((((.....(((((.......)))))..))))))).))))..(((....))-----)........((((((.....-...).)-----))))...... ( -26.90)
>DroSec_CAF1 10661 110 - 1
GGCGCCCCAAGGGCAUCGAUUUCUGCUAAUCCAAGGGAAAAGAUCUUGAUGCGGAAAGCGCCUCAGUGAAAUC-----UAUGAUUAGGUUUCCGAAAAAAAGGAG-----UACUGAAAAA
(((((((...))))...(.(((((((.....(((((.......)))))..))))))).))))((((((.((((-----((....))))))(((........))).-----)))))).... ( -33.70)
>DroSim_CAF1 2590 110 - 1
GGCGCCCCAAGGGCAUCGAUUUCUGCUAAUCCAAGGGAAAAGAUCUUGAUGCGGAAAGCGCCUCAGUGAAAUC-----UAUGAUUAGGUUUCCGACAAAAAGGAG-----UACUGAAAAA
(((((((...))))...(.(((((((.....(((((.......)))))..))))))).))))((((((.((((-----((....))))))(((........))).-----)))))).... ( -33.70)
>DroEre_CAF1 4642 98 - 1
GGCGCCCCAAGGGCAUCGAUUUCUGCUAAUCCAAGAGAAAAGAUCUUGAUGCGAAAAGCGCCUC--------------AAUGAUUAGGUGUUCGACCAAAAG--------AAUCGAGAAU
(((((((...))(((((((..(((.((........))...)))..))))))).....)))))..--------------..(((((.(((.....))).....--------)))))..... ( -25.10)
>DroYak_CAF1 6274 120 - 1
GGCGCCCCAAGGGCAUCGAUUUCUGUUAAUCCCAGAGAAAAGAUCUUGAUGCGAAAAGCGCCUCAGUGAAAGCGCCCCAAUGAUUAGGUUUCCAACAAAAAGGACACAAAAAACGAGAAA
(((((..((.(((((((..((((((.......))))))...)))......((.....))))))...))...)))))...........((.(((........))).))............. ( -26.90)
>consensus
GGCGCCCCAAGGGCAUCGAUUUCUGCUAAUCCAAGGGAAAAGAUCUUGAUGCGGAAAGCGCCUCAGUGAAAGC_____UAUGAUUAGGUUUCCGACAAAAAGGAG_____UAAUGAAAAA
(((((((...))(((((((..(((.((........))...)))..))))))).....))))).......................................................... (-21.66 = -21.26 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:25 2006