Locus 8466

Sequence ID	X_DroMel_CAF1
Location	21,031,599 – 21,031,747
Length	148
Max. P	0.970674

overview

Window 5

Location	21,031,599 – 21,031,707
Length	108
Sequences	4
Columns	112
Reading direction	reverse
Mean pairwise identity	85.24
Mean single sequence MFE	-27.45
Consensus MFE	-23.66
Energy contribution	-23.97
Covariance contribution	0.31
Combinations/Pair	1.05
Mean z-score	-2.28
Structure conservation index	0.86
SVM decision value	1.66
SVM RNA-class probability	0.970674
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21031599 108 - 22224390
CUUUUGUGCAGAUUGCCCUCCCCCUUGCACUCCC--CCUCCCGCGCUGGCAUUAUGCAAAUCGCGUUGCCACGCCCCUUU--CCCCGCCCUUCGGGAGCACAAAAGAGUCGG
(((((((((.((.(((..........))).))..--......(((.(((((..((((.....))))))))))))......--.((((.....)))).)))))))))...... ( -33.90)
>DroSec_CAF1 2383 107 - 1
CUUUUGUGCACAUCGCCCCUCCCCACCC-CUUCC--CCCCUCCCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUU--CACCGCCCUUCCGGAGCACAAAAGAGUCGG
(((((((((...................-.....--..........((((((..(((.....))))))))).........--..(((......))).)))))))))...... ( -25.30)
>DroSim_CAF1 2900 107 - 1
CUUUUGUGCACAUCGCCCCUCGCCACCC-CUUCC--CCCCUCCCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUU--CACCGCCCUUCCGGAGCACAAAAGAGUCGG
(((((((((...................-.....--..........((((((..(((.....))))))))).........--..(((......))).)))))))))...... ( -25.30)
>DroYak_CAF1 2620 110 - 1
CUUUUGUGCACUUGGCCCUUCACCUCCC-CCUUCACCUUCUCUCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUGCCC-CCCGCCCUUCCGGAGCACAAAAGAGUCGG
(((((((((.((.(((............-.................((((((..(((.....))))))))).((....))..-...))).....)).)))))))))...... ( -25.30)
>consensus
CUUUUGUGCACAUCGCCCCUCCCCACCC_CUUCC__CCCCUCCCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUU__CACCGCCCUUCCGGAGCACAAAAGAGUCGG
(((((((((.....................................((((((..(((.....))))))))).............(((......))).)))))))))...... (-23.66 = -23.97 +   0.31)

alignment

secondary structure

dotplot

Window 6

Location	21,031,629 – 21,031,747
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	82.66
Mean single sequence MFE	-26.18
Consensus MFE	-21.38
Energy contribution	-21.62
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-2.22
Structure conservation index	0.82
SVM decision value	1.51
SVM RNA-class probability	0.960180
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21031629 118 - 22224390
UUCGGCCUUUCUCCGACACUCAAGUGCUCGUAGUUCUCCGCUUUUGUGCAGAUUGCCCUCCCCCUUGCACUCCC--CCUCCCGCGCUGGCAUUAUGCAAAUCGCGUUGCCACGCCCCUUU
..(((.....((.((((((....))).))).))....))).....((((((.............))))))....--......(((.(((((..((((.....))))))))))))...... ( -28.42)
>DroSec_CAF1 2413 117 - 1
UUCGGCCUUUCUCCGGCACUCAAGUGCUCGUAGUUCUCCGCUUUUGUGCACAUCGCCCCUCCCCACCC-CUUCC--CCCCUCCCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUU
...(((........(((......((((.((.(((.....)))..)).))))...)))...........-.....--..........((((((..(((.....))))))))).)))..... ( -23.70)
>DroSim_CAF1 2930 117 - 1
UUCGGCCUUUCUCCGGCACUCAAGUGCUCGUAGUUCUCCGCUUUUGUGCACAUCGCCCCUCGCCACCC-CUUCC--CCCCUCCCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUU
...(((........(((......((((.((.(((.....)))..)).))))...(.....))))....-.....--..........((((((..(((.....))))))))).)))..... ( -24.70)
>DroEre_CAF1 2470 95 - 1
UUCGGCCCUGCUCCGGCACUCAAGUGCUCGUAGUUCUCCGCUUUUGUGCAC-------------------------CCCAUCCCACUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUC
...(((.((((...(((((....))))).))))......((......))..-------------------------..........((((((..(((.....))))))))).)))..... ( -24.60)
>DroYak_CAF1 2651 119 - 1
UUCGGCCUUUCUCCGGCACUCAAGUGCUCGUAGUUCUCCGCUUUUGUGCACUUGGCCCUUCACCUCCC-CCUUCACCUUCUCUCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUGC
...(((........(((...(((((((.((.(((.....)))..)).))))))))))...........-.................((((((..(((.....))))))))).)))..... ( -29.50)
>consensus
UUCGGCCUUUCUCCGGCACUCAAGUGCUCGUAGUUCUCCGCUUUUGUGCACAUCGCCCCUCCCCACCC_CUUCC__CCCCUCCCUCUGGCAUUAUGCAAAUCGCAAUGCCACGCCCCUUU
...(((.........((((..(((((............)))))..)))).....................................((((((..(((.....))))))))).)))..... (-21.38 = -21.62 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:40 2006