Locus 2771

Sequence ID X_DroMel_CAF1
Location 7,465,037 – 7,465,191
Length 154
Max. P 0.685557
window4524 window4525

overview

Window 4

Location 7,465,037 – 7,465,151
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.05
Mean single sequence MFE -28.84
Consensus MFE -24.61
Energy contribution -24.72
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.08
Structure conservation index 0.85
SVM decision value 0.32
SVM RNA-class probability 0.685557
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7465037 114 - 22224390
AAUGUUUGGCAAUUAUGCGAAGGGAAAACUUUGGGCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACCCAAC--A----UGUAUGUGUGUGCUUAUCAGUGCUUGCCAAUUAUGAGGGA
((((((((((.......(((((......))))).))))))))))...((((((((...(((......))).((--(----(....))))(..((....))..).....)))))))).... ( -29.70)
>DroSim_CAF1 73 112 - 1
AAUGUUUGGCAAUUAUGCGGAGGGAAAACUUUGGGCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACCAAAC--A----UGUAUGU--GUGCUUAUCAGUGCUUGCCAAUUAUGAGGGA
((((((((((.......(((((......))))).))))))))))...((((((((...((.(((((((.....--.----.))))))--(..((....))..).).)))))))))).... ( -27.20)
>DroYak_CAF1 81 118 - 1
AAUGUUUGGCAAUUAUGCGAAGGGAAAACUUUGGCCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACUACAUAUAUGUAUGUAUGU--GUGCUUAUCAGUGCUUGCCAAUUAUGAGGGA
(((((((((.......((.((((.....)))).)))))))))))...((((((((...((.(((((((((((....)))).))))))--(..((....))..).).)))))))))).... ( -29.61)
>consensus
AAUGUUUGGCAAUUAUGCGAAGGGAAAACUUUGGGCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACCAAAC__A____UGUAUGU__GUGCUUAUCAGUGCUUGCCAAUUAUGAGGGA
((((((((((.......(((((......))))).))))))))))...((((((((...((.(((((((.............))))))..(..((....))..).).)))))))))).... (-24.61 = -24.72 +   0.11)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,465,077 – 7,465,191
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.03
Mean single sequence MFE -23.43
Consensus MFE -18.95
Energy contribution -18.73
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.81
SVM decision value 0.19
SVM RNA-class probability 0.627771
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7465077 114 - 22224390
UUUACCAGAAAACCCUCGAAACCCCCCGAUGGAUGCCAAAAAUGUUUGGCAAUUAUGCGAAGGGAAAACUUUGGGCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACCCAAC--A----
.......((...((.(((........))).))........((((((((((.......(((((......))))).))))))))))...)).........(((......)))...--.---- ( -24.90)
>DroSim_CAF1 111 114 - 1
UUUACCAGAAAACCCUCGGAACCCCCCGACGGAUGCCAAAAAUGUUUGGCAAUUAUGCGGAGGGAAAACUUUGGGCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACCAAAC--A----
....((......((.((((......)))).))........((((((((((.......(((((......))))).))))))))))..............)).............--.---- ( -25.90)
>DroYak_CAF1 119 108 - 1
UUUAGCAGAAAACCCUCGAA------------AUGCCAAAAAUGUUUGGCAAUUAUGCGAAGGGAAAACUUUGGCCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACUACAUAUAUGUA
............((((..((------------.(((((((....))))))).....((.((((.....)))).))..................))..))))................... ( -19.50)
>consensus
UUUACCAGAAAACCCUCGAAACCCCCCGA_GGAUGCCAAAAAUGUUUGGCAAUUAUGCGAAGGGAAAACUUUGGGCCAAACAUUAUAUCAUAAUUAAAGGGAAUAUACCAAAC__A____
............((((..................((((((....))))))((((((((((((......)))))(......).......)))))))..))))................... (-18.95 = -18.73 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:48 2006