Locus 5585

Sequence ID	3R_DroMel_CAF1
Location	14,762,592 – 14,762,700
Length	108
Max. P	0.890392

overview

Window 5

Location	14,762,592 – 14,762,700
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	85.56
Mean single sequence MFE	-27.80
Consensus MFE	-20.56
Energy contribution	-22.82
Covariance contribution	2.26
Combinations/Pair	1.10
Mean z-score	-2.18
Structure conservation index	0.74
SVM decision value	0.96
SVM RNA-class probability	0.890392
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14762592 108 + 27905053
UAUUGCAUGUGGCAUACGGCGAAAUGCAGCGCAUAAGUCGCGCUUGAAAGUCCAAAUUGCAAAUACAUUAUUGAUGAUGUAAACAGCAGCUGCUGCUGGGAUAUAAAU
...(((((.(.((.....)).).)))))((((.......))))......((((..........(((((((....)))))))..((((((...))))))))))...... ( -30.80)
>DroSec_CAF1 21501 108 + 1
UAAUGCAUGUGGCAUACGGCGAAAUGCAGCGCAAAAGUCGCGCUUGAAAGUCCAAAUUGCAAAUACAUUAUUGAUGAUGUAAACAGCAGCUGCCGCUGGGACAUAAAU
...(((((.(.((.....)).).)))))((((.......))))......((((..........(((((((....)))))))..((((.......))))))))...... ( -30.20)
>DroSim_CAF1 22663 108 + 1
UAAUGCAUGUGGCAUACGGCGAAAUGCAGCGCAAAAGUCGCGCUUGAAAGUCCAAAUUGCAAAUGCAUUAUUGAUGAUGUAAACAGCAGCUGCUGCUGGGACAUAAAU
((((((((...(((....(.((....((((((.......)))).))....)))....)))..))))))))......((((...((((((...))))))..)))).... ( -33.20)
>DroEre_CAF1 21746 87 + 1
---------------------AAGUGCAGCGCAGAAGUCGCGCAUGAAAGUAAAAAUUGCAAAUACAUUAUUGAUGAUGUAAACAGCAGCUGCUGGUGGGACAUAAAU
---------------------...((((((((.......))))((....))......))))..(((((((....)))))))..((((....))))............. ( -19.70)
>DroYak_CAF1 22166 108 + 1
UAAUGCAUGUGGCAUACGGUGAAAUGCAGCGCAGAAGUAGCUCAUGAAAGUAAAAAUUGCAAAUACAUUAUUAAUGAUGUAAACAGCAGCUGCUGCUGGAACAUAACU
...(((((.(.((.....)).).)))))...(((.(((((((..((...(((.....)))...(((((((....)))))))..))..))))))).))).......... ( -25.10)
>consensus
UAAUGCAUGUGGCAUACGGCGAAAUGCAGCGCAAAAGUCGCGCUUGAAAGUCCAAAUUGCAAAUACAUUAUUGAUGAUGUAAACAGCAGCUGCUGCUGGGACAUAAAU
...(((((.(.((.....)).).)))))((((.......))))......((((..........(((((((....)))))))..((((((...))))))))))...... (-20.56 = -22.82 +   2.26)

alignment

secondary structure

dotplot

Window 6

Location	14,762,592 – 14,762,700
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	85.56
Mean single sequence MFE	-23.56
Consensus MFE	-15.75
Energy contribution	-16.40
Covariance contribution	0.65
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.67
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14762592 108 - 27905053
AUUUAUAUCCCAGCAGCAGCUGCUGUUUACAUCAUCAAUAAUGUAUUUGCAAUUUGGACUUUCAAGCGCGACUUAUGCGCUGCAUUUCGCCGUAUGCCACAUGCAAUA
..........((((((...))))))................(((((..(((...(((.......((((((.....))))))........)))..)))...)))))... ( -23.46)
>DroSec_CAF1 21501 108 - 1
AUUUAUGUCCCAGCGGCAGCUGCUGUUUACAUCAUCAAUAAUGUAUUUGCAAUUUGGACUUUCAAGCGCGACUUUUGCGCUGCAUUUCGCCGUAUGCCACAUGCAUUA
....((((..((((((...))))))...))))......((((((((..(((...(((.......(((((((...)))))))........)))..)))...)))))))) ( -27.46)
>DroSim_CAF1 22663 108 - 1
AUUUAUGUCCCAGCAGCAGCUGCUGUUUACAUCAUCAAUAAUGCAUUUGCAAUUUGGACUUUCAAGCGCGACUUUUGCGCUGCAUUUCGCCGUAUGCCACAUGCAUUA
....((((..((((((...))))))...))))......((((((((..(((...(((.......(((((((...)))))))........)))..)))...)))))))) ( -30.16)
>DroEre_CAF1 21746 87 - 1
AUUUAUGUCCCACCAGCAGCUGCUGUUUACAUCAUCAAUAAUGUAUUUGCAAUUUUUACUUUCAUGCGCGACUUCUGCGCUGCACUU---------------------
...............((((((((....(((((........)))))...)))................(((.....))))))))....--------------------- ( -16.70)
>DroYak_CAF1 22166 108 - 1
AGUUAUGUUCCAGCAGCAGCUGCUGUUUACAUCAUUAAUAAUGUAUUUGCAAUUUUUACUUUCAUGAGCUACUUCUGCGCUGCAUUUCACCGUAUGCCACAUGCAUUA
(((.((((..((((((...))))))...)))).)))..((((((((.((..................((.......))...((((........)))))).)))))))) ( -20.00)
>consensus
AUUUAUGUCCCAGCAGCAGCUGCUGUUUACAUCAUCAAUAAUGUAUUUGCAAUUUGGACUUUCAAGCGCGACUUCUGCGCUGCAUUUCGCCGUAUGCCACAUGCAUUA
...............((((((((....(((((........)))))...)))................(((.....))))))))........(((((...))))).... (-15.75 = -16.40 +   0.65)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:45 2006