Locus 896

Sequence ID	3L_DroMel_CAF1
Location	2,712,184 – 2,712,344
Length	160
Max. P	0.618250

overview

Window 6

Location	2,712,184 – 2,712,304
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	84.56
Mean single sequence MFE	-44.83
Consensus MFE	-30.99
Energy contribution	-31.13
Covariance contribution	0.14
Combinations/Pair	1.23
Mean z-score	-2.42
Structure conservation index	0.69
SVM decision value	0.08
SVM RNA-class probability	0.571492
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2712184 120 - 23771897
CACCGUCGAGCUCAUCUCGAGCGCCGCCUGCAGUGGCCUCCUGGCCACCAGGCUCAGCGGCAAGGAUUUGGAGCACUCCUUUCAGGACAUAAUAUUGCUGCACGAGGCCUACGACGACAU
...(((((.((((.....))))((((((((..((((((....)))))))))))...(((((((.((...(((....)))..))...........)))))))....)))...))))).... ( -52.00)
>DroVir_CAF1 87314 120 - 1
CACCGUCGAGCUCAUCUCGAGCGACAGCUGCAACGGCCUGCUGGCCACACGGCUCAGCGGCAAGGCCUUGGAGCAUAAUUUUCAGAACAUAAUACUGCUGCAAGAGGCCUACGACGAUAU
...(((((.((((.....)))).............(((.(((((((....))).))))))).((((((((.((((..(((..........)))..)))).))..)))))).))))).... ( -44.60)
>DroGri_CAF1 78364 120 - 1
CACCGUCGAGCUCAUCUCGAGUGCCACUUGCAACGGCCUGCUGGCCACACGGCUCAGCGGUAAGGCCUUGGAGCAUACUUUUCAGGACAUCAUACUGCUGCAAGAGGCAUUCGACACUAU
....((((((.....)))(((((((.((((((.(((.(((((((((....))).))))))......(((((((......)))))))........))).)))))).))))))))))..... ( -48.00)
>DroWil_CAF1 88919 118 - 1
--CCGUUGAGCUAAUUUCGAGUGCCGCCUGCAACGGCCUGCUGGCCACCAGGCUCAGCGGCAAGGCCCUAGAGCAUACAUUUCAGGACAUCAUAUUACUGCACGAGGCCUUCGACGAUAU
--.((((((............(((((((......)))..(((((((....))).))))))))(((((...(.(((.......................))).)..))))))))))).... ( -37.70)
>DroMoj_CAF1 78900 120 - 1
CACCGUCGAGCUCAUCUCGAGCGGCACCUGCAACGGCCUGCUGGCCACACGGCUCAGCGGCAAAGCCUUGGAGCAUACCUUUCAGGAUAUAAUAUUCCUGCACGACGCCUACGACGAUAU
...(((((.((((.....))))(((..((.(((.((((((((((((....))).))))))....)))))).)).........(((((........)))))......)))..))))).... ( -46.40)
>DroAna_CAF1 72267 120 - 1
CACCGUCGAGCUCAUUUCGAGCGCCGCCUGCGGGGGCCUCCUCGCCACCCGGCUCAGUGGCAAGACCUUGGAGCACACCUUUCAAGAUAUAAUACUGCUGCACGAGACCUACGACGACAU
...(((((((....(((((.(((((((..((((((((......))).))).))...))))).....(((((((......))))))).............)).))))).)).))))).... ( -40.30)
>consensus
CACCGUCGAGCUCAUCUCGAGCGCCACCUGCAACGGCCUGCUGGCCACACGGCUCAGCGGCAAGGCCUUGGAGCAUACCUUUCAGGACAUAAUACUGCUGCACGAGGCCUACGACGAUAU
...(((((.((((.....))))......((((...(((.(((((((....))).))))))).....(((((((......)))))))............)))).........))))).... (-30.99 = -31.13 +   0.14)

alignment

secondary structure

dotplot

Window 7

Location	2,712,224 – 2,712,344
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	84.72
Mean single sequence MFE	-46.42
Consensus MFE	-35.21
Energy contribution	-34.72
Covariance contribution	-0.49
Combinations/Pair	1.27
Mean z-score	-2.04
Structure conservation index	0.76
SVM decision value	0.17
SVM RNA-class probability	0.618250
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2712224 120 - 23771897
GCUCCUCGCUGCUGGCCACCAUCUCCACGUCGCCACUGACCACCGUCGAGCUCAUCUCGAGCGCCGCCUGCAGUGGCCUCCUGGCCACCAGGCUCAGCGGCAAGGAUUUGGAGCACUCCU
..((((.(((((((((............((((....)))).........((((.....)))))))(((((..((((((....)))))))))))..)))))).))))...(((....))). ( -50.30)
>DroVir_CAF1 87354 120 - 1
GCUCUUCGCUGCUGGCCACCUUCUCCACAUCGCCGUUGACCACCGUCGAGCUCAUCUCGAGCGACAGCUGCAACGGCCUGCUGGCCACACGGCUCAGCGGCAAGGCCUUGGAGCAUAAUU
(((((..(((....(((..............(((((((.(..(.(((..((((.....))))))).)..))))))))..(((((((....))).)))))))..)))...)))))...... ( -47.90)
>DroGri_CAF1 78404 120 - 1
GCUCAUCGCUGCUGGCCACCAUCUCCACAUCGCCGCUGACCACCGUCGAGCUCAUCUCGAGUGCCACUUGCAACGGCCUGCUGGCCACACGGCUCAGCGGUAAGGCCUUGGAGCAUACUU
.......(((.(.((((...((......)).((((((((((....(((((.....))))).(((.....)))..((((....))))....)).))))))))..))))..).)))...... ( -42.00)
>DroWil_CAF1 88959 117 - 1
GCUCCCCGCUGCUGGCCACCAUAUCGAAAUCACCGCUAA---CCGUUGAGCUAAUUUCGAGUGCCGCCUGCAACGGCCUGCUGGCCACCAGGCUCAGCGGCAAGGCCCUAGAGCAUACAU
((((((.(((((((((.((....(((((((....(((..---......)))..))))))))))))(((((....((((....))))..)))))..))))))..)).....))))...... ( -42.40)
>DroMoj_CAF1 78940 120 - 1
GCUCAUCGCUGCUGGCCACCAUCUCGUCAUCACCGCUGGCCACCGUCGAGCUCAUCUCGAGCGGCACCUGCAACGGCCUGCUGGCCACACGGCUCAGCGGCAAAGCCUUGGAGCAUACCU
((((...(((((((((((.(..............).))))))...(((((.....)))))))))).....(((.((((((((((((....))).))))))....))))))))))...... ( -47.44)
>DroAna_CAF1 72307 120 - 1
GCUCCUCGCUGCUGGCCACCAUCUCCGCCUCGCCGCUGACCACCGUCGAGCUCAUUUCGAGCGCCGCCUGCGGGGGCCUCCUCGCCACCCGGCUCAGUGGCAAGACCUUGGAGCACACCU
(((((......(((((..........)))..((((((((..........((((.....))))((((...((((((....))))))....)))))))))))).)).....)))))...... ( -48.50)
>consensus
GCUCCUCGCUGCUGGCCACCAUCUCCACAUCGCCGCUGACCACCGUCGAGCUCAUCUCGAGCGCCACCUGCAACGGCCUGCUGGCCACACGGCUCAGCGGCAAGGCCUUGGAGCAUACCU
((((.((((((((((((.................((((((....)))).((((.....)))).......))...((((....))))....))).)))))))..)).....))))...... (-35.21 = -34.72 +  -0.49)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:50 2006