Locus 8190

Sequence ID	X_DroMel_CAF1
Location	20,351,842 – 20,351,995
Length	153
Max. P	0.816478

overview

Window 2

Location	20,351,842 – 20,351,962
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.33
Mean single sequence MFE	-42.26
Consensus MFE	-35.68
Energy contribution	-36.68
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.63
Structure conservation index	0.84
SVM decision value	0.67
SVM RNA-class probability	0.816478
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20351842 120 + 22224390
ACACGAGUCCCUACUUAACCCCCGAGAAUCUCAUCGAGCGCACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGAUCUCCACAUGUGGUGCGUACUCAUAUCU
....((((..............(((........))).((((((((((...(.((.((((((((.......)))))))).)).)..))).((....))......)))))))))))...... ( -42.60)
>DroSec_CAF1 19651 120 + 1
ACACCAGUCCCUACUUGACCCCCGAGAAUCUCAUCGAGCGCACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCGCCACAUGUGGUGCGUACCCAUAUCU
.(((((.........((((((((((........)))........(((...(.((.((((((((.......)))))))).)).)..)))))))))).......)))))............. ( -41.29)
>DroSim_CAF1 20764 120 + 1
ACACGAGUCCCUACUUGACCCCCGAGAAUCUCAUCGAGCGCACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCUCCACAUGUGGUGCGUACCCAUAUCU
....(((.((((.(((((((...(((...))).((((.((...))))))......((((((((.......)))))))).)))))))..)))).)))...((((((.......)))))).. ( -42.30)
>DroEre_CAF1 16917 120 + 1
ACACGAGUCCCUACUUGACCCCCGAGAAUCUCAUCGAGCGCACCGUCGACGUCCUGCUCGCCGAGCAUCCUGGCGAGCUGGUCAAGACGGGAUCUCCACAUGUGGUGGGUACUCAUAUCU
....(((((((..((((.....)))).(((.(((.(((..(.(((((...(.((.((((((((.......)))))))).)).)..))))))..)))...))).)))))).))))...... ( -45.10)
>DroYak_CAF1 20476 120 + 1
ACACGAGUCCCUACUUGACCCCCGAGAAUCUCAUCGAGCGCACCGUCGACGUCCUGCUAGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCUCCACAUGUGGUGGGUACACCUAUCU
....(((.((((.(((((((..(((........)))((((((.((....))...)))..((((.......))))..))))))))))..)))).))).......((((((....)))))). ( -40.00)
>consensus
ACACGAGUCCCUACUUGACCCCCGAGAAUCUCAUCGAGCGCACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCUCCACAUGUGGUGCGUACCCAUAUCU
...(((((....))))).....(((........))).((((((((((...(.((.((((((((.......)))))))).)).)..))).((....))......))))))).......... (-35.68 = -36.68 +   1.00)

alignment

secondary structure

dotplot

Window 3

Location	20,351,882 – 20,351,995
Length	113
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	85.26
Mean single sequence MFE	-34.53
Consensus MFE	-29.28
Energy contribution	-29.29
Covariance contribution	0.00
Combinations/Pair	1.05
Mean z-score	-1.60
Structure conservation index	0.85
SVM decision value	0.37
SVM RNA-class probability	0.707854
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20351882 113 + 22224390
CACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGAUCUCCACAUGUGGUGCGUACUCAUAUCUCA-------UAACUGCAAAGAUUUUAACUUUCAGCAAACU
..(((((...(.((.((((((((.......)))))))).)).)..))))).........(((.((((.(....).)))).))-------)..(((.((((.......)))))))...... ( -33.00)
>DroSec_CAF1 19691 113 + 1
CACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCGCCACAUGUGGUGCGUACCCAUAUCUCA-------UAACUGCAAAGAUUUUUACUUUAAGCAAACU
...((((...(.((.((((((((.......)))))))).)).)..))))(((((((((....)))))...))))........-------....(((((((.......))))..))).... ( -37.70)
>DroSim_CAF1 20804 113 + 1
CACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCUCCACAUGUGGUGCGUACCCAUAUCUCA-------UAGCUGCAAAGAUUUUUACUUUAAGCAAACU
...((((...(.((.((((((((.......)))))))).)).)..))))(((((.(((....)))...).))))........-------..(((..((((.......)))).)))..... ( -36.80)
>DroYak_CAF1 20516 103 + 1
CACCGUCGACGUCCUGCUAGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCUCCACAUGUGGUGGGUACACCUAUCUCAUCUCUCAUAGCUGCACAGAUU-----------------
..(((((...(.((.(((.((((.......)))).))).)).)..)))))(((......(((.((((((....)))))).)))........))).........----------------- ( -30.64)
>consensus
CACCGUCGACGUCCUGCUCGCCGAACAUCCUGGCGAGCUGGUCAAGACGGGGUCUCCACAUGUGGUGCGUACCCAUAUCUCA_______UAACUGCAAAGAUUUUUACUUUAAGCAAACU
..(((((...(.((.((((((((.......)))))))).)).)..)))))..........((..((.........................))..))....................... (-29.28 = -29.29 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:05 2006