Locus 6771

Sequence ID	X_DroMel_CAF1
Location	16,835,037 – 16,835,127
Length	90
Max. P	0.999748

overview

Window 0

Location	16,835,037 – 16,835,127
Length	90
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	92.34
Mean single sequence MFE	-24.40
Consensus MFE	-21.26
Energy contribution	-21.90
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-2.94
Structure conservation index	0.87
SVM decision value	3.99
SVM RNA-class probability	0.999748
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16835037 90 + 22224390
----------AAUAUUCGAUGGCCCCUUUGGCGAGUGAGCGAUUGAAUGAAUAAAUCAUUCGAUUUAUUCAAAUGCCAUAUCGAUUUCUUAACGUCCAAC
----------.....((((((.......(((((..((((.((((((((((.....))))))))))..))))..)))))))))))................ ( -22.51)
>DroSec_CAF1 32559 90 + 1
----------AAUAUUCUAUGGCCCCUUUGGCGAGUGAGCGAUUGAAUGAAUAAAUCAUUCGAUUUAUUCAAAUGCCAUAUCGAUUUCUUAACGGCCAAC
----------.........(((((....(((((..((((.((((((((((.....))))))))))..))))..)))))....(....).....))))).. ( -26.00)
>DroSim_CAF1 18054 90 + 1
----------AAUAUUCGAUGGCCCCUUUGGCGAGUGAGCGAUUGAAUGAAUAAAUCAUUCGAUUUAUUCAAAUGCCAUAUCGAUUUCUUAACGGCCAAC
----------.........(((((....(((((..((((.((((((((((.....))))))))))..))))..)))))....(....).....))))).. ( -26.00)
>DroEre_CAF1 20392 90 + 1
----------AACAUUCUAUGGCCCCUUUGGCGAGCCAGCGAUUGAAUGAAUAAAUCAUUCGAUUUAUUCAAAUGCCAUAUCGAUUUCUUAACGUCCAAC
----------.......((((((..(.((((....)))).)......((((((((((....))))))))))...)))))).................... ( -20.30)
>DroYak_CAF1 18258 100 + 1
UUCAAUGUUCAACAUUCAAUGGCCCCUUUGGCGAGUGAGCGAUUGAAUGAAUAAAUCAUUCGAUUUAUUCAAAUGCCGUAUCGAUUUCUUAACGGCCAAC
(((((((((((........(.(((.....))).).))))).))))))((((((((((....))))))))))...(((((............))))).... ( -27.20)
>consensus
__________AAUAUUCGAUGGCCCCUUUGGCGAGUGAGCGAUUGAAUGAAUAAAUCAUUCGAUUUAUUCAAAUGCCAUAUCGAUUUCUUAACGGCCAAC
...................(((((....(((((..((((.((((((((((.....))))))))))..))))..)))))....(....).....))))).. (-21.26 = -21.90 +   0.64)

alignment

secondary structure

dotplot

Window 1

Location	16,835,037 – 16,835,127
Length	90
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	92.34
Mean single sequence MFE	-23.48
Consensus MFE	-18.48
Energy contribution	-18.92
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-2.00
Structure conservation index	0.79
SVM decision value	1.02
SVM RNA-class probability	0.901894
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16835037 90 - 22224390
GUUGGACGUUAAGAAAUCGAUAUGGCAUUUGAAUAAAUCGAAUGAUUUAUUCAUUCAAUCGCUCACUCGCCAAAGGGGCCAUCGAAUAUU----------
................((((..((((...((((((((((....))))))))))............(((......))))))))))).....---------- ( -21.00)
>DroSec_CAF1 32559 90 - 1
GUUGGCCGUUAAGAAAUCGAUAUGGCAUUUGAAUAAAUCGAAUGAUUUAUUCAUUCAAUCGCUCACUCGCCAAAGGGGCCAUAGAAUAUU----------
..(((((((..(....)..)).((((...((((((((((....)))))))))).......(......)))))....))))).........---------- ( -22.20)
>DroSim_CAF1 18054 90 - 1
GUUGGCCGUUAAGAAAUCGAUAUGGCAUUUGAAUAAAUCGAAUGAUUUAUUCAUUCAAUCGCUCACUCGCCAAAGGGGCCAUCGAAUAUU----------
(.(((((((..(....)..)).((((...((((((((((....)))))))))).......(......)))))....))))).).......---------- ( -22.60)
>DroEre_CAF1 20392 90 - 1
GUUGGACGUUAAGAAAUCGAUAUGGCAUUUGAAUAAAUCGAAUGAUUUAUUCAUUCAAUCGCUGGCUCGCCAAAGGGGCCAUAGAAUGUU----------
....((((((.......((((.(((....((((((((((....)))))))))).))))))).((((((.......))))))...))))))---------- ( -23.10)
>DroYak_CAF1 18258 100 - 1
GUUGGCCGUUAAGAAAUCGAUACGGCAUUUGAAUAAAUCGAAUGAUUUAUUCAUUCAAUCGCUCACUCGCCAAAGGGGCCAUUGAAUGUUGAACAUUGAA
(((.(((((...(....)...)))))....(((((((((....)))))))))(((((((.((((.((......)))))).)))))))....)))...... ( -28.50)
>consensus
GUUGGCCGUUAAGAAAUCGAUAUGGCAUUUGAAUAAAUCGAAUGAUUUAUUCAUUCAAUCGCUCACUCGCCAAAGGGGCCAUAGAAUAUU__________
....(((((...(....)...)))))....(((((((((....)))))))))((((.((.((((.((......)))))).)).))))............. (-18.48 = -18.92 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:34 2006