Locus 7083

Sequence ID X_DroMel_CAF1
Location 17,766,504 – 17,766,594
Length 90
Max. P 0.830965
window11565 window11566

overview

Window 5

Location 17,766,504 – 17,766,594
Length 90
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 83.13
Mean single sequence MFE -19.20
Consensus MFE -13.00
Energy contribution -13.24
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.67
Structure conservation index 0.68
SVM decision value 0.04
SVM RNA-class probability 0.553980
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17766504 90 + 22224390
GUAGCAAGUAAGUUGUAUUUUGAAUGCAAAUGUGCUAAGCGUGCGCCGUUGUGUAUAUUUCUUGCAAAAGUUUUGCAAUUUGUUUUGUUU------
..((((((..(((((((.......(((((((((((..((((.....))))..))))))...))))).......)))))))...)))))).------ ( -18.74)
>DroSec_CAF1 25444 84 + 1
UUAGCAAGUAAGUAGC-UUUUU-AUGCAAAUGUGCUAGCCGUGCGCCUUUGUGUAGAUACUUUGCAAUAGUAUCUCAAUUUGUUUU----------
..(((((((.......-....(-(((((((.((((.......)))).))))))))((((((.......))))))...)))))))..---------- ( -20.80)
>DroSim_CAF1 26399 85 + 1
GUAGCAAGUAAGUUGUAUUUUU-AUGCAAAUGUGCUAAGCGUGCGCCGUUGUGUAUAUUUCUUGCAAAAGUUUUGCAAUUUGUUUU----------
...(((((....(((((....(-(((((...((((.......)))).....)))))).....)))))....)))))..........---------- ( -19.10)
>DroEre_CAF1 23900 94 + 1
GUAGCAAGUAAGUUGUAUUUUU-AUGCAAAUGUGCUAAGCGUGCGCCGUUGUGUAUAUUUCUUGCUUU-UUUUUGCAAUUUGUUUUGUUUUUUUGG
...(((((.((((........(-((((((..((((.......))))..)))))))........)))).-..))))).................... ( -18.19)
>DroYak_CAF1 24156 83 + 1
GUAGCAAGUAAGUUGUAUUUUU-AUGCAAAUGUGCUAAGCGUGCGCCGUUGUGUAUAUUUCUUGCUUU---UUUGCAGUUUGUUUUU---------
...(((((.((((........(-((((((..((((.......))))..)))))))........)))).---)))))...........--------- ( -19.19)
>consensus
GUAGCAAGUAAGUUGUAUUUUU_AUGCAAAUGUGCUAAGCGUGCGCCGUUGUGUAUAUUUCUUGCAAUAGUUUUGCAAUUUGUUUU__________
.......(((((..((((.....((((((..((((.......))))..))))))))))..)))))............................... (-13.00 = -13.24 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,766,504 – 17,766,594
Length 90
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 83.13
Mean single sequence MFE -11.42
Consensus MFE -8.70
Energy contribution -8.94
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.91
Structure conservation index 0.76
SVM decision value 0.71
SVM RNA-class probability 0.830965
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17766504 90 - 22224390
------AAACAAAACAAAUUGCAAAACUUUUGCAAGAAAUAUACACAACGGCGCACGCUUAGCACAUUUGCAUUCAAAAUACAACUUACUUGCUAC
------.........................(((((.............(((....)))..(((....))).................)))))... ( -10.50)
>DroSec_CAF1 25444 84 - 1
----------AAAACAAAUUGAGAUACUAUUGCAAAGUAUCUACACAAAGGCGCACGGCUAGCACAUUUGCAU-AAAAA-GCUACUUACUUGCUAA
----------.........(((((((((.......))))))).))....(((.....))).(((....)))..-....(-((.........))).. ( -12.30)
>DroSim_CAF1 26399 85 - 1
----------AAAACAAAUUGCAAAACUUUUGCAAGAAAUAUACACAACGGCGCACGCUUAGCACAUUUGCAU-AAAAAUACAACUUACUUGCUAC
----------.....................(((((.............(((....)))..(((....)))..-..............)))))... ( -10.50)
>DroEre_CAF1 23900 94 - 1
CCAAAAAAACAAAACAAAUUGCAAAAA-AAAGCAAGAAAUAUACACAACGGCGCACGCUUAGCACAUUUGCAU-AAAAAUACAACUUACUUGCUAC
...........................-..((((((.............(((....)))..(((....)))..-..............)))))).. ( -11.90)
>DroYak_CAF1 24156 83 - 1
---------AAAAACAAACUGCAAA---AAAGCAAGAAAUAUACACAACGGCGCACGCUUAGCACAUUUGCAU-AAAAAUACAACUUACUUGCUAC
---------................---..((((((.............(((....)))..(((....)))..-..............)))))).. ( -11.90)
>consensus
__________AAAACAAAUUGCAAAACUAUUGCAAGAAAUAUACACAACGGCGCACGCUUAGCACAUUUGCAU_AAAAAUACAACUUACUUGCUAC
...............................(((((.............(((....)))..(((....))).................)))))... ( -8.70 =  -8.94 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:42 2006