Locus 640

Sequence ID	X_DroMel_CAF1
Location	1,796,430 – 1,796,534
Length	104
Max. P	0.773233

overview

Window 0

Location	1,796,430 – 1,796,534
Length	104
Sequences	3
Columns	104
Reading direction	forward
Mean pairwise identity	92.93
Mean single sequence MFE	-31.47
Consensus MFE	-27.57
Energy contribution	-28.13
Covariance contribution	0.56
Combinations/Pair	1.06
Mean z-score	-2.15
Structure conservation index	0.88
SVM decision value	0.54
SVM RNA-class probability	0.773233
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1796430 104 + 22224390
AACCAGAUGGAUGCUCAUCUUGCACACUGUCACCAGUGUUGGUAACCGAGUGCAUUGUGAGCGGAACGUUCCGACACCUACUUUGUUUAUUUAUUGUUAUUAAU
....((((((((((((((..(((((.(.((.(((......))).)).).)))))..))))))(((....)))............))))))))............ ( -29.00)
>DroSec_CAF1 4929 103 + 1
AACCAGCUGGGUGCUCAUCUUGCACGCUGUUACUAGUGUUGGUAACCGAGUGCAUCGUGGACGGAACGU-CCGGCACCUACUUUGUUUAUUUAUUGUUAUAAAU
....((.(((((((((((..(((((.(.(((((((....))))))).).)))))..)))).(((.....-))))))))))))..((((((........)))))) ( -32.70)
>DroSim_CAF1 4926 103 + 1
AACCAGCUGGGUGCUCAUCUUGCACGCUGUUACUAGUGUUGGUAACCGAGUGCAUCGUGGACGGAACGU-CCGGCACCUACUUUGUUUAUUUAUUGUUAUAAAU
....((.(((((((((((..(((((.(.(((((((....))))))).).)))))..)))).(((.....-))))))))))))..((((((........)))))) ( -32.70)
>consensus
AACCAGCUGGGUGCUCAUCUUGCACGCUGUUACUAGUGUUGGUAACCGAGUGCAUCGUGGACGGAACGU_CCGGCACCUACUUUGUUUAUUUAUUGUUAUAAAU
(((.((.(((((((((((..(((((.(.(((((((....))))))).).)))))..)))).(((......)))))))))).)).)))................. (-27.57 = -28.13 +   0.56)

alignment

secondary structure

dotplot

Window 1

Location	1,796,430 – 1,796,534
Length	104
Sequences	3
Columns	104
Reading direction	reverse
Mean pairwise identity	92.93
Mean single sequence MFE	-30.27
Consensus MFE	-22.36
Energy contribution	-21.70
Covariance contribution	-0.66
Combinations/Pair	1.14
Mean z-score	-2.79
Structure conservation index	0.74
SVM decision value	0.14
SVM RNA-class probability	0.605007
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1796430 104 - 22224390
AUUAAUAACAAUAAAUAAACAAAGUAGGUGUCGGAACGUUCCGCUCACAAUGCACUCGGUUACCAACACUGGUGACAGUGUGCAAGAUGAGCAUCCAUCUGGUU
.....................((.((((((..(((....)))(((((...(((((.(.(((((((....))))))).).)))))...)))))...)))))).)) ( -33.20)
>DroSec_CAF1 4929 103 - 1
AUUUAUAACAAUAAAUAAACAAAGUAGGUGCCGG-ACGUUCCGUCCACGAUGCACUCGGUUACCAACACUAGUAACAGCGUGCAAGAUGAGCACCCAGCUGGUU
((((((....))))))......(((.((((((((-(((...)))))....(((((.(.(((((........))))).).)))))....).)))))..))).... ( -28.80)
>DroSim_CAF1 4926 103 - 1
AUUUAUAACAAUAAAUAAACAAAGUAGGUGCCGG-ACGUUCCGUCCACGAUGCACUCGGUUACCAACACUAGUAACAGCGUGCAAGAUGAGCACCCAGCUGGUU
((((((....))))))......(((.((((((((-(((...)))))....(((((.(.(((((........))))).).)))))....).)))))..))).... ( -28.80)
>consensus
AUUUAUAACAAUAAAUAAACAAAGUAGGUGCCGG_ACGUUCCGUCCACGAUGCACUCGGUUACCAACACUAGUAACAGCGUGCAAGAUGAGCACCCAGCUGGUU
.................(((......((((((((......))).......(((((.(.(((((........))))).).)))))......)))))......))) (-22.36 = -21.70 +  -0.66)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:02 2006