Locus 7898

Sequence ID	X_DroMel_CAF1
Location	19,678,038 – 19,678,151
Length	113
Max. P	0.767132

overview

Window 6

Location	19,678,038 – 19,678,151
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.22
Mean single sequence MFE	-31.64
Consensus MFE	-30.58
Energy contribution	-30.78
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.15
Structure conservation index	0.97
SVM decision value	0.40
SVM RNA-class probability	0.720311
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19678038 113 + 22224390
AAAUGGAUACGGGAAUGGGAAUGGG-----AGUCGCAUUUGAAUUGGGAGCAAGCCAACUGAUUUACAGUGUGACCGAAGGCCCAUUUAACGCAGAGUUCAGUGUGCUAAAUAAUCCC--
....((((....(((((((..(..(-----.(((((((((((((..(...........)..))))).)))))))))..)..))))))).((((........))))........)))).-- ( -31.20)
>DroSec_CAF1 51927 113 + 1
AAAUGGAUACGGGAAUGGGAAUGGG-----AGUCGCAUUUGAAUUGGGAGCAAGCCAACUGAUUUACAGUGUGACCGAAGGCCCAUUUAACGCAGAGUUCAGUGUGCUAAAUAAUCCC--
....((((....(((((((..(..(-----.(((((((((((((..(...........)..))))).)))))))))..)..))))))).((((........))))........)))).-- ( -31.20)
>DroSim_CAF1 39471 113 + 1
AAAUGGAUACGGGAAUGGGAAUGGG-----AGUCGCAUUUGAAUUGGGAGCAAGCCAACUGAUUUACAGUGUGACCGAAGGCCCAUUUAACGCAGAGUUCAGUGUGCUAAAUAAUCCC--
....((((....(((((((..(..(-----.(((((((((((((..(...........)..))))).)))))))))..)..))))))).((((........))))........)))).-- ( -31.20)
>DroEre_CAF1 63125 115 + 1
AAAUGGAUACGGGAAUGGGAAUGGG-----AGUCGCAUUUGAAUUGGGAGCAAGCCAACUGAUUUACAGUGUGACCGAAGGCCCAUUUGACGCAGAGUUCAGUGUGCUAAAUAAUCCCAU
..........((((....(((((((-----.(((((((((((((..(...........)..))))).))))))))(....)))))))).((((........)))).........)))).. ( -32.40)
>DroYak_CAF1 65214 120 + 1
AAAUGGAUACGGGAAUGGGAAUGGGAAUGGAGCCGCAUUUGAAUUGGGAGCAAGCCAACUGAUUUACAGUGUGACCGAAGUCCCAUUUAACGCAGAGUUCAGUGUGCUAAAUAAUCCCAU
..........((((....((((((((.(((...(((((((((((..(...........)..))))).)))))).)))...)))))))).((((........)))).........)))).. ( -32.20)
>consensus
AAAUGGAUACGGGAAUGGGAAUGGG_____AGUCGCAUUUGAAUUGGGAGCAAGCCAACUGAUUUACAGUGUGACCGAAGGCCCAUUUAACGCAGAGUUCAGUGUGCUAAAUAAUCCC__
..........((((....(((((((......(((((((((((((..(...........)..))))).))))))))......))))))).((((........)))).........)))).. (-30.58 = -30.78 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	19,678,038 – 19,678,151
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.22
Mean single sequence MFE	-25.60
Consensus MFE	-24.12
Energy contribution	-24.32
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.22
Structure conservation index	0.94
SVM decision value	0.52
SVM RNA-class probability	0.767132
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19678038 113 - 22224390
--GGGAUUAUUUAGCACACUGAACUCUGCGUUAAAUGGGCCUUCGGUCACACUGUAAAUCAGUUGGCUUGCUCCCAAUUCAAAUGCGACU-----CCCAUUCCCAUUCCCGUAUCCAUUU
--((((...(((((....)))))...((((((((.((((.....(((((.((((.....)))))))))....)))).))..))))))...-----.....))))................ ( -24.50)
>DroSec_CAF1 51927 113 - 1
--GGGAUUAUUUAGCACACUGAACUCUGCGUUAAAUGGGCCUUCGGUCACACUGUAAAUCAGUUGGCUUGCUCCCAAUUCAAAUGCGACU-----CCCAUUCCCAUUCCCGUAUCCAUUU
--((((...(((((....)))))...((((((((.((((.....(((((.((((.....)))))))))....)))).))..))))))...-----.....))))................ ( -24.50)
>DroSim_CAF1 39471 113 - 1
--GGGAUUAUUUAGCACACUGAACUCUGCGUUAAAUGGGCCUUCGGUCACACUGUAAAUCAGUUGGCUUGCUCCCAAUUCAAAUGCGACU-----CCCAUUCCCAUUCCCGUAUCCAUUU
--((((...(((((....)))))...((((((((.((((.....(((((.((((.....)))))))))....)))).))..))))))...-----.....))))................ ( -24.50)
>DroEre_CAF1 63125 115 - 1
AUGGGAUUAUUUAGCACACUGAACUCUGCGUCAAAUGGGCCUUCGGUCACACUGUAAAUCAGUUGGCUUGCUCCCAAUUCAAAUGCGACU-----CCCAUUCCCAUUCCCGUAUCCAUUU
((((((...(((((....)))))...(((((.((.((((.....(((((.((((.....)))))))))....)))).))...)))))...-----...........))))))........ ( -24.60)
>DroYak_CAF1 65214 120 - 1
AUGGGAUUAUUUAGCACACUGAACUCUGCGUUAAAUGGGACUUCGGUCACACUGUAAAUCAGUUGGCUUGCUCCCAAUUCAAAUGCGGCUCCAUUCCCAUUCCCAUUCCCGUAUCCAUUU
((((((...(((((....)))))..(((((((((.(((((....(((((.((((.....)))))))))...))))).))..)))))))..................))))))........ ( -29.90)
>consensus
__GGGAUUAUUUAGCACACUGAACUCUGCGUUAAAUGGGCCUUCGGUCACACUGUAAAUCAGUUGGCUUGCUCCCAAUUCAAAUGCGACU_____CCCAUUCCCAUUCCCGUAUCCAUUU
..((((...(((((....)))))...((((((((.((((.....(((((.((((.....)))))))))....)))).))..)))))).............))))................ (-24.12 = -24.32 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:16 2006