Locus 3367

Sequence ID	X_DroMel_CAF1
Location	8,981,905 – 8,982,019
Length	114
Max. P	0.979413

overview

Window 6

Location	8,981,905 – 8,982,019
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.74
Mean single sequence MFE	-34.58
Consensus MFE	-28.67
Energy contribution	-28.63
Covariance contribution	-0.04
Combinations/Pair	1.09
Mean z-score	-2.08
Structure conservation index	0.83
SVM decision value	1.84
SVM RNA-class probability	0.979413
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8981905 114 + 22224390
GCGAGGCGAAA-AAACAUUUUU--UGCCCAAC-UUUUUUUCUUUUUCGGGAGUCCCGGGAAAAGUUUU-GGGUU-UCGGCUUGACUCCAGUGCAACAUGUUGCAUGUUGGAAAUUGCCAA
..(.(((((((-(.....))))--)))))(((-((.....(((((((.((....)).)))))))....-)))))-..(((.....((((((((((....))))))..))))....))).. ( -35.50)
>DroSec_CAF1 10441 114 + 1
GCGAGGCGAAA-AAACAUUUUU--UGCCCAAC-UUUUUUUCUUUUUCGGGAGUCCCGGGAAAAGUUUU-GGGUU-UCGGCUUGACUCCAGUGCAACAUGUUGCAUGUUGGAAAUUGCCAA
..(.(((((((-(.....))))--)))))(((-((.....(((((((.((....)).)))))))....-)))))-..(((.....((((((((((....))))))..))))....))).. ( -35.50)
>DroSim_CAF1 6180 114 + 1
GCGAGGCGAAA-AAACAUUUUU--UGCCCAAC-UUUUUUUCUUUUUCGGGAGUCCCGGGAAAAGUUUU-GGGUU-UCGGCUUGACUCCAGUGCAACAUGUUGCAUGUUGGAUAUUGCCAA
..(.(((((((-(.....))))--)))))(((-((.....(((((((.((....)).)))))))....-)))))-..(((.....((((((((((....))))))..))))....))).. ( -35.50)
>DroEre_CAF1 4091 117 + 1
GCCAGGCGAAAAAAACAUUUUUUUUCCCCAAC-UUUUUUCUUAUUUCGGGAGUCCCGGGAAAAGUUUU-GGGUU-UCGGCUUGACUCCAGUGCAACAUGUUGCAUGUUGGAAAUUGCCAA
((((((((((((((.....)))))))(((((.-.(((((((.....((((...)))))))))))..))-)))..-...)))))..((((((((((....))))))..))))....))... ( -35.70)
>DroYak_CAF1 3106 119 + 1
GCGAGGCGAAA-AAACAUUUUUUUUUCCAAUUUUUUUUUCUUAUUUUGGGAGUCCCGGGAAAAGUUUUUGGGUUUUGGGUUUGACUCCAGUGCAACAUGUUGCAUGUUGGAAAUUGCCAA
....(((((..-...........((((((((.................((((((((((((...(....)...)))))))....))))).((((((....))))))))))))))))))).. ( -30.71)
>consensus
GCGAGGCGAAA_AAACAUUUUU__UGCCCAAC_UUUUUUUCUUUUUCGGGAGUCCCGGGAAAAGUUUU_GGGUU_UCGGCUUGACUCCAGUGCAACAUGUUGCAUGUUGGAAAUUGCCAA
....(((((......((........((((.....(((((((.....((((...))))))))))).....))))........))..((((((((((....))))))..))))..))))).. (-28.67 = -28.63 +  -0.04)

alignment

secondary structure

dotplot

Window 7

Location	8,981,905 – 8,982,019
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.74
Mean single sequence MFE	-28.45
Consensus MFE	-21.03
Energy contribution	-21.83
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	0.74
SVM decision value	0.49
SVM RNA-class probability	0.758090
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8981905 114 - 22224390
UUGGCAAUUUCCAACAUGCAACAUGUUGCACUGGAGUCAAGCCGA-AACCC-AAAACUUUUCCCGGGACUCCCGAAAAAGAAAAAAA-GUUGGGCA--AAAAAUGUUU-UUUCGCCUCGC
(((((...(((((...(((((....))))).)))))....)))))-.....-....(((((..((((...)))).))))).......-((.(((((--((((....))-))).)))).)) ( -29.30)
>DroSec_CAF1 10441 114 - 1
UUGGCAAUUUCCAACAUGCAACAUGUUGCACUGGAGUCAAGCCGA-AACCC-AAAACUUUUCCCGGGACUCCCGAAAAAGAAAAAAA-GUUGGGCA--AAAAAUGUUU-UUUCGCCUCGC
(((((...(((((...(((((....))))).)))))....)))))-.....-....(((((..((((...)))).))))).......-((.(((((--((((....))-))).)))).)) ( -29.30)
>DroSim_CAF1 6180 114 - 1
UUGGCAAUAUCCAACAUGCAACAUGUUGCACUGGAGUCAAGCCGA-AACCC-AAAACUUUUCCCGGGACUCCCGAAAAAGAAAAAAA-GUUGGGCA--AAAAAUGUUU-UUUCGCCUCGC
(((((....((((...(((((....))))).)))).....)))))-.....-....(((((..((((...)))).))))).......-((.(((((--((((....))-))).)))).)) ( -28.90)
>DroEre_CAF1 4091 117 - 1
UUGGCAAUUUCCAACAUGCAACAUGUUGCACUGGAGUCAAGCCGA-AACCC-AAAACUUUUCCCGGGACUCCCGAAAUAAGAAAAAA-GUUGGGGAAAAAAAAUGUUUUUUUCGCCUGGC
(((((...(((((...(((((....))))).)))))....)))))-.....-....(((....((((...))))....)))......-((..(((((((((.....))))))).))..)) ( -31.90)
>DroYak_CAF1 3106 119 - 1
UUGGCAAUUUCCAACAUGCAACAUGUUGCACUGGAGUCAAACCCAAAACCCAAAAACUUUUCCCGGGACUCCCAAAAUAAGAAAAAAAAAUUGGAAAAAAAAAUGUUU-UUUCGCCUCGC
..(((..(((((((((((...)))))))....(((((....(((....................))))))))........)))).........(((((((.....)))-))))))).... ( -22.85)
>consensus
UUGGCAAUUUCCAACAUGCAACAUGUUGCACUGGAGUCAAGCCGA_AACCC_AAAACUUUUCCCGGGACUCCCGAAAAAGAAAAAAA_GUUGGGCA__AAAAAUGUUU_UUUCGCCUCGC
..(((....((((((.(((((....)))))..((((((...(((...................)))))))))................))))))..........(.......)))).... (-21.03 = -21.83 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:40 2006