Locus 6234

Sequence ID	2L_DroMel_CAF1
Location	17,326,220 – 17,326,343
Length	123
Max. P	0.999749

overview

Window 2

Location	17,326,220 – 17,326,318
Length	98
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	92.49
Mean single sequence MFE	-22.71
Consensus MFE	-19.36
Energy contribution	-19.76
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-3.41
Structure conservation index	0.85
SVM decision value	4.00
SVM RNA-class probability	0.999749
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17326220 98 + 22407834
--------CCUUCUGCAUAUAUUGACCAACUCAAUGACCUGCAGCUACUACAAAAUGUUGCAGUUCAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAG
--------....(((((..((((((.....))))))...)))))...........((((((((((..............))))))))))................. ( -20.44)
>DroSec_CAF1 23803 98 + 1
--------CAUUCUGCAUAUAUUGACCAACUCAAUGACCUGCAGCUACUACAAAAUGUUGCAGUUGAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAG
--------....(((((..((((((.....))))))...)))))...........(((((((((((............)))))))))))................. ( -23.70)
>DroSim_CAF1 26713 98 + 1
--------CAUUCUGCAUAUAUUGACCAACUCAAUGACCUGCAGCUACUACAAAAUGUUGCAGUUGAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAG
--------....(((((..((((((.....))))))...)))))...........(((((((((((............)))))))))))................. ( -23.70)
>DroEre_CAF1 25934 106 + 1
CACUCUGGCACUCUGCAUAUAUUGACCAACCCAAUGACCUGCAGCUACUGCAAAAUGUUGCAGUUCAAGAGGCUACGACAGCUGCAACAAUAAUAACAAUAUCAAG
.......(((..(((((..(((((.......)))))...)))))....)))....((((((((((...(......)...))))))))))................. ( -22.90)
>DroYak_CAF1 18774 98 + 1
--------CAUUCUGCAUAUAUUGACCAACUCUAUGCCCUGCAGCUACUGCAAAAUGUUGCAGUUCAAAAGGCUGCAACAGCUGCAACAAUAAUAACAAUAUCAAG
--------......(((((.............)))))..(((((((..........(((((((((.....)))))))))))))))).................... ( -22.82)
>consensus
________CAUUCUGCAUAUAUUGACCAACUCAAUGACCUGCAGCUACUACAAAAUGUUGCAGUUCAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAG
............(((((..((((((.....))))))...)))))...........((((((((((..............))))))))))................. (-19.36 = -19.76 +   0.40)

alignment

secondary structure

dotplot

Window 3

Location	17,326,245 – 17,326,343
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	95.45
Mean single sequence MFE	-21.92
Consensus MFE	-17.44
Energy contribution	-17.48
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.93
Structure conservation index	0.80
SVM decision value	0.65
SVM RNA-class probability	0.810535
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17326245 98 + 22407834
AUGACCUGCAGCUACUACAAAAUGUUGCAGUUCAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAGUGUGCGUACUUUAUGACUUGACCUG
.(((.(((((((...........))))))).)))...((((.....))))..................((((((...((((...)))))))))).... ( -19.20)
>DroSec_CAF1 23828 96 + 1
AUGACCUGCAGCUACUACAAAAUGUUGCAGUUGAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAGU--GCGUACUUUAUGACUUGACCUG
........(((...........(((((((((((............)))))))))))............((((((--.((((...)))))))))).))) ( -22.10)
>DroSim_CAF1 26738 96 + 1
AUGACCUGCAGCUACUACAAAAUGUUGCAGUUGAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAGU--GCGUACUUUAUGACUUGACCUG
........(((...........(((((((((((............)))))))))))............((((((--.((((...)))))))))).))) ( -22.10)
>DroEre_CAF1 25967 96 + 1
AUGACCUGCAGCUACUGCAAAAUGUUGCAGUUCAAGAGGCUACGACAGCUGCAACAAUAAUAACAAUAUCAAGU--GCGUACUUUAUGACUUGACCUG
......((((((((((((((....)))))))......(....)...)))))))...............((((((--.((((...)))))))))).... ( -24.00)
>DroYak_CAF1 18799 96 + 1
AUGCCCUGCAGCUACUGCAAAAUGUUGCAGUUCAAAAGGCUGCAACAGCUGCAACAAUAAUAACAAUAUCAAGU--GCGUACUUUAUGACUUCACCCG
......(((((((..........(((((((((.....)))))))))))))))).................((((--.((((...))))))))...... ( -22.20)
>consensus
AUGACCUGCAGCUACUACAAAAUGUUGCAGUUCAAAAGGCUACAACAGCUGCAACAAUAAUAACAAUAUCAAGU__GCGUACUUUAUGACUUGACCUG
......(((((((..........((((.((((.....)))).)))))))))))...............((((((...((((...)))))))))).... (-17.44 = -17.48 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:58 2006