Locus 6251

Sequence ID 2L_DroMel_CAF1
Location 17,357,040 – 17,357,132
Length 92
Max. P 0.872216
window9988 window9989

overview

Window 8

Location 17,357,040 – 17,357,132
Length 92
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 93.13
Mean single sequence MFE -19.54
Consensus MFE -15.54
Energy contribution -16.02
Covariance contribution 0.48
Combinations/Pair 1.09
Mean z-score -1.88
Structure conservation index 0.80
SVM decision value 0.88
SVM RNA-class probability 0.872216
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17357040 92 + 22407834
UUAUUAAUGCAGCGUUCCAUUAAAGAAAUUAAUGGCGA-ACAAA-AAAUAAGGGUGCUGCAAGCUGGACCUGGCGAGAAAAUCGAAAAGAGGGC
.......(((((((..(((((((.....))))))(...-.)...-......)..))))))).......(((..(((.....))).....))).. ( -18.60)
>DroSec_CAF1 58890 93 + 1
UUAUUAAUGCAGCAUUCCAUUAAAGAAAUUAAUGGCGAAACAAA-AAAUAAGGGUGCUGCAAGCAGGACCUGGCAAGAAAAUCGAAAAGAGGGC
.......(((......(((((((.....))))))).........-......((((.(((....))).)))).)))................... ( -18.10)
>DroSim_CAF1 59493 93 + 1
UUAUUAAUGCAGCAUUCCAUUAAAGAAAUUAAUGGCGAAACAAA-AAAUAAGGGUGCUGCAAGCAGGACCUGGCGAGAAAAUCGAAAAGAGGGC
.......((((((((((((((((.....))))))).........-.......))))))))).......(((..(((.....))).....))).. ( -20.29)
>DroEre_CAF1 56667 93 + 1
UUAUUAAUGCAGCAUUCCAUUAAAGAACUUAAUGGCGA-ACAAAAAAAUAAGGGUCCUGCAAGCAGGACCUGGCGAGAAAAUCGGAAAGAGGGC
........((.((...(((((((.....)))))))...-............((((((((....)))))))).))((.....)).........)) ( -22.60)
>DroYak_CAF1 53068 92 + 1
UUAUUAAUGCAGCAUUCCAUUAAAGAAAAUAAUGGCGA-ACAAA-AAGUAAGGGUGCUGCAAGCAGUAUCUAAAGAGAAAAUCGGAAAGAGGGC
.......(((((((((((((((.......)))))((..-.....-..))..)))))))))).((....(((...((.....))....)))..)) ( -18.10)
>consensus
UUAUUAAUGCAGCAUUCCAUUAAAGAAAUUAAUGGCGA_ACAAA_AAAUAAGGGUGCUGCAAGCAGGACCUGGCGAGAAAAUCGAAAAGAGGGC
.......((((((((((((((((.....))))))).................))))))))).......(((..(((.....))).....))).. (-15.54 = -16.02 +   0.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,357,040 – 17,357,132
Length 92
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 93.13
Mean single sequence MFE -17.31
Consensus MFE -12.74
Energy contribution -13.58
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -1.89
Structure conservation index 0.74
SVM decision value -0.02
SVM RNA-class probability 0.521320
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17357040 92 - 22407834
GCCCUCUUUUCGAUUUUCUCGCCAGGUCCAGCUUGCAGCACCCUUAUUU-UUUGU-UCGCCAUUAAUUUCUUUAAUGGAACGCUGCAUUAAUAA
((...(((..(((.....)))..)))....)).((((((.....((...-..)).-...(((((((.....)))))))...))))))....... ( -16.90)
>DroSec_CAF1 58890 93 - 1
GCCCUCUUUUCGAUUUUCUUGCCAGGUCCUGCUUGCAGCACCCUUAUUU-UUUGUUUCGCCAUUAAUUUCUUUAAUGGAAUGCUGCAUUAAUAA
...................(((..(((.(((....))).))).......-...((....(((((((.....)))))))...)).)))....... ( -15.60)
>DroSim_CAF1 59493 93 - 1
GCCCUCUUUUCGAUUUUCUCGCCAGGUCCUGCUUGCAGCACCCUUAUUU-UUUGUUUCGCCAUUAAUUUCUUUAAUGGAAUGCUGCAUUAAUAA
((...(((..(((.....)))..)))....)).(((((((.........-.........(((((((.....)))))))..)))))))....... ( -17.65)
>DroEre_CAF1 56667 93 - 1
GCCCUCUUUCCGAUUUUCUCGCCAGGUCCUGCUUGCAGGACCCUUAUUUUUUUGU-UCGCCAUUAAGUUCUUUAAUGGAAUGCUGCAUUAAUAA
....................((..(((((((....)))))))...........((-...((((((((...))))))))...)).))........ ( -21.60)
>DroYak_CAF1 53068 92 - 1
GCCCUCUUUCCGAUUUUCUCUUUAGAUACUGCUUGCAGCACCCUUACUU-UUUGU-UCGCCAUUAUUUUCUUUAAUGGAAUGCUGCAUUAAUAA
.................................(((((((.....((..-...))-...((((((.......))))))..)))))))....... ( -14.80)
>consensus
GCCCUCUUUUCGAUUUUCUCGCCAGGUCCUGCUUGCAGCACCCUUAUUU_UUUGU_UCGCCAUUAAUUUCUUUAAUGGAAUGCUGCAUUAAUAA
((...(((..(((.....)))..)))....)).(((((((...................(((((((.....)))))))..)))))))....... (-12.74 = -13.58 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:24 2006