Locus 2397

Sequence ID 3R_DroMel_CAF1
Location 6,748,742 – 6,748,861
Length 119
Max. P 0.712802
window3884

overview

Window 4

Location 6,748,742 – 6,748,861
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.90
Mean single sequence MFE -29.55
Consensus MFE -24.94
Energy contribution -24.88
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.64
Structure conservation index 0.84
SVM decision value 0.38
SVM RNA-class probability 0.712802
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6748742 119 - 27905053
UCGGAGAAGUCCUUUGCUGGGUAAAAA-AAAAAUGUCAAAUUGCGCCUAAAAGCAGACCGCAAUAUUUCGUGAGCAGGAAAAGCUGUGGUAGAGGAAAAAAAAAACUAUUGCCUGGCGAU
..(((....))).((((..(((((...-............((((........))))((((((.(.((((.(....).)))).).))))))..................)))))..)))). ( -28.90)
>DroSec_CAF1 12980 118 - 1
UCAGAAAAGUCCUUUGCUGGGUAAAAA--AAAAUGUCAAAUUGCGCCUAAAAGCAGACCGCAAUAUUUCGUGGGCAGGAAAGGCGGUGGUAGAGGAAAAGAAAAACUAUUGCCUGGCGAU
.............((((..(((((...--...........((((........))))(((((....((((.(....).)))).))))).....................)))))..)))). ( -28.50)
>DroSim_CAF1 17293 120 - 1
UCAGAGAAGUCCUUUGCUGGGUAAAAAAAAAAAUGUCAAAUUGCGCCUAAAAGCAGACCGCAAUAUUUCGUGGGCAGGAAAGGCGGCGGAAGAGGAAAAGAAAAACUAUUGCCUGGCGAU
.............((((..(((((...........((...((.((((..........((((........))))((.......)))))).))...))............)))))..)))). ( -29.40)
>DroYak_CAF1 9100 115 - 1
UCGCAAAAGUCCUUCGCUGUGUAAA-----AAAUGUCAAAUUGCGCCUAAAAGCAGACCGCAAUAUUUUGUGGGCAGGAAAAGCGGUGGUGGAGGAAAAGAAAAACUAUUGCCUGGCGAU
((((....((..(((.((((.....-----..........((((........)))).((((((....)))))))))))))..))((..((((.............))))..))..)))). ( -31.42)
>consensus
UCAGAAAAGUCCUUUGCUGGGUAAAAA__AAAAUGUCAAAUUGCGCCUAAAAGCAGACCGCAAUAUUUCGUGGGCAGGAAAAGCGGUGGUAGAGGAAAAGAAAAACUAUUGCCUGGCGAU
.............(((((((((((................((((........))))(((((....((((.(....).))))....)))))..................))))))))))). (-24.94 = -24.88 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:35 2006