Locus 8675

Sequence ID	X_DroMel_CAF1
Location	21,967,035 – 21,967,158
Length	123
Max. P	0.944830

overview

Window 3

Location	21,967,035 – 21,967,130
Length	95
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.24
Mean single sequence MFE	-35.52
Consensus MFE	-27.63
Energy contribution	-28.11
Covariance contribution	0.48
Combinations/Pair	1.12
Mean z-score	-1.47
Structure conservation index	0.78
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21967035 95 - 22224390
AUGCAACCAGUACAUCCUGUUGUCGUUGUGGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGGCGACAGGGUGCCUUAA-------------------------AUGCGGGUAGG
.....(((.((((((((((((((((((((..(((....((((((((...))))))))))))))).)))))))))))))......-------------------------.))).)))... ( -36.41)
>DroSec_CAF1 32139 95 - 1
AUGCAACCACUACAUCCUGUUGUCGUUGUCGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGUCGUCAGGGGGCCUUAA-------------------------AUGGGGGUAGG
.........((((.(((((.((.((((((..(((....((((((((...))))))))))))))).)).)).)))))..((((..-------------------------..)))))))). ( -28.40)
>DroSim_CAF1 18832 95 - 1
AUGCAACCACUACAUCCUGUUGUCGUUGUCGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGUCGUCAGGGGGCCUUAA-------------------------AUGGGGGUAGG
.........((((.(((((.((.((((((..(((....((((((((...))))))))))))))).)).)).)))))..((((..-------------------------..)))))))). ( -28.40)
>DroEre_CAF1 14741 120 - 1
AUGCAACCAGUACAUCCUGUUGUCGUUGUCAUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGGCGACAGAGGACCUCAGGCGAGAGGGGCAGGCGACAGGGGGGAAGGGGGCAGG
.(((..((..(...((((((((((((((((..(.....((((((((...))))))))......)..))))))...(..((((......))))..).))))))))))..)..))..))).. ( -47.30)
>DroYak_CAF1 21773 95 - 1
AUGCAACCAGUACAUCCUGUUGUCGUUGUCGUCAGACUUCCGAUUGCUGCAAUCGGAUGAGCAGUCGGCGGCAGGGGACCUCAA-------------------------AAGGGGGCAGG
.(((..........(((((((((((((((..(((....((((((((...))))))))))))))).)))))))))))..((((..-------------------------..))))))).. ( -37.10)
>consensus
AUGCAACCAGUACAUCCUGUUGUCGUUGUCGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGGCGACAGGGGGCCUUAA_________________________AUGGGGGUAGG
.(((..........(((((((((((((((..(((....((((((((...))))))))))))))).)))))))))))..((((.............................))))))).. (-27.63 = -28.11 +   0.48)

alignment

secondary structure

dotplot

Window 4

Location	21,967,050 – 21,967,158
Length	108
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.49
Mean single sequence MFE	-36.92
Consensus MFE	-28.26
Energy contribution	-29.18
Covariance contribution	0.92
Combinations/Pair	1.09
Mean z-score	-2.35
Structure conservation index	0.77
SVM decision value	1.35
SVM RNA-class probability	0.944830
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21967050 108 - 22224390
UCC------------UUGUUCAUUAAAUUAGGUGCAUUAAAUGCAACCAGUACAUCCUGUUGUCGUUGUGGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGGCGACAGGGUGCC
...------------...............(((((((...)))).)))....(((((((((((((((((..(((....((((((((...))))))))))))))).))))))))))))).. ( -39.40)
>DroSec_CAF1 32154 120 - 1
UCCCUUGGCAACCCUUUGUUAAUUAAAUUAAGUGCAUUAAAUGCAACCACUACAUCCUGUUGUCGUUGUCGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGUCGUCAGGGGGCC
(((((((((.((...(((((............(((((...))))).......(((((.(((((.((.((((.........)))).)).))))).))))))))))..)).))))))))).. ( -37.30)
>DroSim_CAF1 18847 120 - 1
UCCCUUGGAAACCCUUUGUUCAUUAAAUUAAGUGCAUUAAAUGCAACCACUACAUCCUGUUGUCGUUGUCGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGUCGUCAGGGGGCC
((((((((..((...((((((...........(((((...)))))........((((.(((((.((.((((.........)))).)).))))).))))))))))..))..)))))))).. ( -35.10)
>DroEre_CAF1 14781 119 - 1
UCCCUU-GCUACCCUUUGUUCAUUAAAUUAGCUGCAUUAAAUGCAACCAGUACAUCCUGUUGUCGUUGUCAUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGGCGACAGAGGACC
..(((.-((((...((((.....)))).))))(((((...)))))...........(((((((((((((..(((....((((((((...))))))))))))))).))))))))))))... ( -32.40)
>DroYak_CAF1 21788 120 - 1
UCCCUUGGCUACCAUUUGUUCAUUAAAUUAGCUGCAUUAAAUGCAACCAGUACAUCCUGUUGUCGUUGUCGUCAGACUUCCGAUUGCUGCAAUCGGAUGAGCAGUCGGCGGCAGGGGACC
(((((((.(..((..(((((((.......(((((.....((((((((.((......)))))).)))).....))).))((((((((...)))))))))))))))..))..)))))))).. ( -40.40)
>consensus
UCCCUUGGCAACCCUUUGUUCAUUAAAUUAGGUGCAUUAAAUGCAACCAGUACAUCCUGUUGUCGUUGUCGUCAGAUUUCCGAUUGCUGCAAUCGGAUGAACAGUCGGCGACAGGGGGCC
.................((((...........(((((...)))))..........((((((((((((((..(((....((((((((...))))))))))))))).)))))))))))))). (-28.26 = -29.18 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:05 2006