Locus 6467

Sequence ID	3L_DroMel_CAF1
Location	17,239,976 – 17,240,130
Length	154
Max. P	0.999965

overview

Window 8

Location	17,239,976 – 17,240,090
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.61
Mean single sequence MFE	-29.48
Consensus MFE	-27.20
Energy contribution	-27.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-3.02
Structure conservation index	0.92
SVM decision value	4.96
SVM RNA-class probability	0.999965
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17239976 114 + 23771897
------AAAAGUCAAAAAGCUGGGCAAAAUAAACGACAUUGUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCAC
------............((((((((((((.......))).))))))((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).....))).... ( -28.40)
>DroSec_CAF1 123903 113 + 1
-------AGAGUCAAAAAGCUGGGCAAAAUAAACGACAUUGUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCAC
-------...........((((((((((((.......))).))))))((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).....))).... ( -28.40)
>DroSim_CAF1 117811 113 + 1
-------AGAGUCAAAAAGCUGGGCAAAAUAAACGACAUUGUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCAC
-------...........((((((((((((.......))).))))))((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).....))).... ( -28.40)
>DroEre_CAF1 127095 112 + 1
AAGG--------CAAAAAGCUGUGCAAAAUAAACGACAUUGUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCAC
...(--------(.....((.(((((((((((((((.....((((......))))......))))..))))))))))))).(((((((((((.....)))))))))))........)).. ( -31.10)
>DroYak_CAF1 130452 120 + 1
AAGGCAAAAAGGCAAAAAGCUGUGCAAAAUAAACGACAUUGUUGCCAGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCAC
...........((.....((.(((((((((((((((.....((((......))))......))))..))))))))))))).(((((((((((.....)))))))))))........)).. ( -31.10)
>consensus
_______AAAGUCAAAAAGCUGGGCAAAAUAAACGACAUUGUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCAC
..................(((..(((((((((((((.....((((......))))......))))..))))))))).....(((((((((((.....))))))))))).....))).... (-27.20 = -27.20 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	17,240,010 – 17,240,130
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.33
Mean single sequence MFE	-29.68
Consensus MFE	-29.24
Energy contribution	-29.08
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.00
Structure conservation index	0.99
SVM decision value	2.45
SVM RNA-class probability	0.994156
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17240010 120 + 23771897
GUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCACAUGGCCAAUAUGCAAAAAUGUGGAGGCAAAAAACGGAAAC
.((((((((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).........(((((.((......))....)))))).))))).....(....) ( -29.80)
>DroSec_CAF1 123936 120 + 1
GUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCACAUGGCCAAUAUGCAAAAAUGCGGAGGCAAAAAACGGAAAC
.((((((((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).......((((....((......)).....))))).))))).....(....) ( -29.50)
>DroSim_CAF1 117844 120 + 1
GUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCACAUGGCCAAUAUGCAAAAAUGCGGAGGCAAAAAACGGAAAC
.((((((((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).......((((....((......)).....))))).))))).....(....) ( -29.50)
>DroEre_CAF1 127127 120 + 1
GUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCACAUGGCCAAUAUGCAAAAAUGCGGAGGCAAAAAACGGAAAC
.((((((((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).......((((....((......)).....))))).))))).....(....) ( -29.50)
>DroYak_CAF1 130492 120 + 1
GUUGCCAGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCACAUGGCCAAUAUGCAAAAAUGCGGAGGCAAAAAACGGAAAC
.(((((.((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).......((((....((......)).....))))..))))).....(....) ( -30.10)
>consensus
GUUGCCCGCCUGCAAAUAUUUUCGUAAUUAUUUUGCAUGCAAAGUGAGGAUUUUUCCAAUUUUCACUUAUCAAAGCGCACAUGGCCAAUAUGCAAAAAUGCGGAGGCAAAAAACGGAAAC
.(((((.((.((((((.(((.....)))...)))))).)).(((((((((((.....))))))))))).......((((....((......)).....))))..))))).....(....) (-29.24 = -29.08 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:11 2006