Locus 9277

Sequence ID	3R_DroMel_CAF1
Location	24,734,584 – 24,734,695
Length	111
Max. P	0.868637

overview

Window 4

Location	24,734,584 – 24,734,695
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.82
Mean single sequence MFE	-43.27
Consensus MFE	-28.97
Energy contribution	-29.58
Covariance contribution	0.62
Combinations/Pair	1.33
Mean z-score	-2.20
Structure conservation index	0.67
SVM decision value	0.86
SVM RNA-class probability	0.868637
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24734584 111 - 27905053
GCU---------GCAGCUCCUUCUGAGCGGCCUCCGCAACUGUGGGAUCAAAUAUAGCCAAUUUUUUGGCAGUCUUUGCAUCCACCUUAAAGGGUUGUCCUGCAUCGCCCAACUGGGCAC
((.---------(((((.((((....((((...))))....(((((..((((.((.(((((....))))).)).))))..)))))....)))))))))...))...((((....)))).. ( -39.80)
>DroVir_CAF1 19730 111 - 1
UUU---------GCAGCUCCUUCUGGGCCGCCUCGGCGACCGUGGGAUCAAAUAUGGCCAGCUUCUUGGCCGUCUUGGCAUCCACCUUGAAGGGCUGCCCAGCAUCGCCUAGCUGCGCAC
...---------(((((.(((((..((.(((....))).))(((((.((((..((((((((....)))))))).))))..)))))...)))))))))).((((........))))..... ( -46.00)
>DroGri_CAF1 8284 111 - 1
UCU---------GCAACUCUUUCUGUGCCGCCUCGGCUACAGUGGGAUCAAAGAUGGCCAGCUUUUUGGCCGUCUUCGCGUCCACCUUGAAGGGCUGUCCAGCAUCGCCCAGCUGUGCAC
...---------((...(((..((((((((...)))).))))..)))...(((((((((((....))))))))))).))((((........))))((..((((........))))..)). ( -42.90)
>DroEre_CAF1 18782 111 - 1
UCU---------GCAGUUCCUUUUGGGCGGCCUCGGCAACUGUGGGAUCAAAAAUAGCCAAUUUCUUGGCAGUCUUAGCGUCCACCUUAAAGGGUUGCCCUGCAUCGCCCAACUGGGCAC
..(---------(((.........(((((((((.(....).(((((..........(((((....)))))..........)))))......)))))))))))))..((((....)))).. ( -38.05)
>DroWil_CAF1 7461 120 - 1
GCUGCUCUCUUAGUAACUCCUUUUGUGCAGCUUCUGCCACCGUGGGAUCAAAUAUGGCCAACUUCUUGGCCGUCUUGGCGUCGACUUUGAAUGGCUGACCUGCAUCUCCCAGUUGGGCAC
(((((.(....((......))...).)))))...((((....(((((.(((..((((((((....)))))))).)))((((((.((......)).))))..))...)))))....)))). ( -37.70)
>DroAna_CAF1 8182 111 - 1
GCU---------GCAGCUCCUUCUGGGCCGCCUCGGCCACAGUCGGAUCGAAGAUGGCCAGCUUCUUGGCCGUCUUGGCGUCCACCUUGAAGGGCUGCCCGGCAUCCCCCAACUGGGCGC
(((---------(((((.((((((((((((...))))).))...(((((.(((((((((((....))))))))))).).)))).....))))))))))..)))....(((....)))... ( -55.20)
>consensus
GCU_________GCAGCUCCUUCUGGGCCGCCUCGGCAACAGUGGGAUCAAAUAUGGCCAACUUCUUGGCCGUCUUGGCGUCCACCUUGAAGGGCUGCCCUGCAUCGCCCAACUGGGCAC
............(((((.(((((...((((...))))....(((((....((.((((((((....)))))))).))....)))))...))))))))))........((((....)))).. (-28.97 = -29.58 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:32 2006