Locus 7640

Sequence ID	X_DroMel_CAF1
Location	19,053,219 – 19,053,313
Length	94
Max. P	0.999219

overview

Window 1

Location	19,053,219 – 19,053,313
Length	94
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	93.78
Mean single sequence MFE	-31.40
Consensus MFE	-28.06
Energy contribution	-28.90
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-2.34
Structure conservation index	0.89
SVM decision value	3.44
SVM RNA-class probability	0.999219
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19053219 94 + 22224390
GGGCUUUGGGUGGGGACACCCGAGAUAAAUGGCCAGAUACAAUUGUAUCUUUAUUUGAAUGUCAGCGCAGACUCGUACUCGUUAUGUCAUUUGC------
.(((((((((((....))))))).......))))((((((....))))))......(((((.(((((.((.......)))))..)).)))))..------ ( -29.11)
>DroSec_CAF1 5048 94 + 1
GGGUUUUGGGUGGGGACACCCGAGAUAAAUGGCCAGAUACAAUUGUAUCUUUAUUUGAAUGCCAGCGCAGACGCGUACUCGUUAUGUCAUUUGC------
..((((((((((....))))))))))(((((((.((((((....)))))).......((((...((((....))))...))))..)))))))..------ ( -33.90)
>DroSim_CAF1 6408 94 + 1
GGGUUUUGGGGGGGGACACCCGAGAUAAAUGGCCAGAUACAAUUGUAUCUUUAUUUGAAUGCCAGCGCAGACGCGUACUCGUUAUGUCAUUUGC------
..((((((((.(....).))))))))(((((((.((((((....)))))).......((((...((((....))))...))))..)))))))..------ ( -29.20)
>DroEre_CAF1 5862 94 + 1
GGCUUUUGGGUGGCGACACCCGAGAUAAAUGGCCAGAUACAAUUGUAUCUUUAUUUGAAAGCCAGCGCAGACUUGUACUCGUUAUGUCAUUUGC------
((((((((((((....)))))))))(((((((..((((((....)))))))))))))...)))...(((((..((.((.......)))))))))------ ( -29.60)
>DroYak_CAF1 6160 100 + 1
GGCUUUUGGGUGGGGACACCCGAGAUAAAUGGCCAGAUACAAUUGUAUCUUUAUUUGAAUGCCAGCGCAGACGCGUACUCGUUAUGUCAUUUGCACAUUU
((((((((((((....)))))))))(((((((..((((((....)))))))))))))...))).(.(((((.(((((.....)))))..))))).).... ( -35.20)
>consensus
GGGUUUUGGGUGGGGACACCCGAGAUAAAUGGCCAGAUACAAUUGUAUCUUUAUUUGAAUGCCAGCGCAGACGCGUACUCGUUAUGUCAUUUGC______
...(((((((((....)))))))))((((((((.((((((....)))))).......((((...((((....))))...))))..))))))))....... (-28.06 = -28.90 +   0.84)

alignment

secondary structure

dotplot

Window 2

Location	19,053,219 – 19,053,313
Length	94
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	93.78
Mean single sequence MFE	-24.00
Consensus MFE	-18.86
Energy contribution	-19.86
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.76
Structure conservation index	0.79
SVM decision value	0.45
SVM RNA-class probability	0.741471
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19053219 94 - 22224390
------GCAAAUGACAUAACGAGUACGAGUCUGCGCUGACAUUCAAAUAAAGAUACAAUUGUAUCUGGCCAUUUAUCUCGGGUGUCCCCACCCAAAGCCC
------(((((((.......((((....(((......)))))))......((((((....))))))...))))).....(((((....)))))...)).. ( -21.40)
>DroSec_CAF1 5048 94 - 1
------GCAAAUGACAUAACGAGUACGCGUCUGCGCUGGCAUUCAAAUAAAGAUACAAUUGUAUCUGGCCAUUUAUCUCGGGUGUCCCCACCCAAAACCC
------..............(((...(((....)))((((..........((((((....)))))).)))).....)))(((((....)))))....... ( -25.00)
>DroSim_CAF1 6408 94 - 1
------GCAAAUGACAUAACGAGUACGCGUCUGCGCUGGCAUUCAAAUAAAGAUACAAUUGUAUCUGGCCAUUUAUCUCGGGUGUCCCCCCCCAAAACCC
------......(((((..((((...(((....)))((((..........((((((....)))))).)))).....)))).))))).............. ( -23.50)
>DroEre_CAF1 5862 94 - 1
------GCAAAUGACAUAACGAGUACAAGUCUGCGCUGGCUUUCAAAUAAAGAUACAAUUGUAUCUGGCCAUUUAUCUCGGGUGUCGCCACCCAAAAGCC
------(((...(((.............))))))(((((((.........((((((....)))))))))).........(((((....)))))...))). ( -23.62)
>DroYak_CAF1 6160 100 - 1
AAAUGUGCAAAUGACAUAACGAGUACGCGUCUGCGCUGGCAUUCAAAUAAAGAUACAAUUGUAUCUGGCCAUUUAUCUCGGGUGUCCCCACCCAAAAGCC
......((............(((...(((....)))((((..........((((((....)))))).)))).....)))(((((....)))))....)). ( -26.50)
>consensus
______GCAAAUGACAUAACGAGUACGCGUCUGCGCUGGCAUUCAAAUAAAGAUACAAUUGUAUCUGGCCAUUUAUCUCGGGUGUCCCCACCCAAAACCC
....................(((...(((....)))((((..........((((((....)))))).)))).....)))(((((....)))))....... (-18.86 = -19.86 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:05 2006