Locus 42

Sequence ID 3R_DroMel_CAF1
Location 298,621 – 298,729
Length 108
Max. P 0.773277
window67

overview

Window 7

Location 298,621 – 298,729
Length 108
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 84.12
Mean single sequence MFE -30.30
Consensus MFE -21.84
Energy contribution -22.08
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.72
SVM decision value 0.54
SVM RNA-class probability 0.773277
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 298621 108 - 27905053
UGAUGGCCGACAAGGGGUCAGAUUUGCAUUUGGCUGUGUAGAACAGAAAUCGA----------ACGAAAAGAAAGUAGCGAGCGCGGAGAACAUAAAAUCGUAUUUCCAGUUGGCCAA
...((((((((..((..((.(.(((((((......))))))).).))..))..----------..............((....))(((((((........)).))))).)))))))). ( -28.60)
>DroSec_CAF1 34109 108 - 1
UGAUGGCCGGCAAGGGGUCAGAUUUGCAUUUGGCUGUGUAGAACAGAAAUCGA----------ACGAAAAGAAAGUAGCGAGCGCGGAGAAUAUAAAAUCGUAUUUCCAGUUGGCCAA
...((((((((..(..((..(((((..((((..((((((..........(((.----------((.........))..))))))))).))))...)))))..))..)..)))))))). ( -28.30)
>DroSim_CAF1 35806 108 - 1
UGAUGGCCGACAAGGGGUCAGAUUUGCAUUUGGCUGUGUAGAACAGAAAUCGA----------ACGAAAAGAAAGUAGCGAGCGCGGAGAAUAUAAAAUCGUAUUUCCAGUUGGCCAA
...((((((((..(..((..(((((..((((..((((((..........(((.----------((.........))..))))))))).))))...)))))..))..)..)))))))). ( -28.80)
>DroEre_CAF1 36672 111 - 1
---UGGCCGACAAGGG-UCAUAUUUGCAUUUGGCUGUGUAGAACAGCAGCUGGCCG---CCGCUUGAAAAGAAAGUAGCGGGCGCGGAGAAUAUAAAACCGUAUUUCCAGUUGGCCAA
---((((((((.....-........((....((((((........))))))(.(((---(..(((.......)))..)))).)))(((((.(((......)))))))).)))))))). ( -42.70)
>DroYak_CAF1 37903 108 - 1
UAAUGACCGACAAGGG-U---------AUCUGGCUGUGUAGAACAGAUAUCGACAAAAUCGAUUCGAAAAGAAAGUAGCGAACGCGGAGAAUAUAAAAUCGUAUUUCCAGUUGGCCAA
...((.(((((...((-(---------(((((...........))))))))...........(((.....)))....((....))(((((.(((......)))))))).))))).)). ( -23.10)
>consensus
UGAUGGCCGACAAGGGGUCAGAUUUGCAUUUGGCUGUGUAGAACAGAAAUCGA__________ACGAAAAGAAAGUAGCGAGCGCGGAGAAUAUAAAAUCGUAUUUCCAGUUGGCCAA
...((((((((......................((((.....))))...............................((....))(((((.(((......)))))))).)))))))). (-21.84 = -22.08 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:08 2006