Locus 5659

Sequence ID 2L_DroMel_CAF1
Location 16,053,167 – 16,053,287
Length 120
Max. P 0.895643
window8972 window8973

overview

Window 2

Location 16,053,167 – 16,053,262
Length 95
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 75.66
Mean single sequence MFE -27.32
Consensus MFE -8.13
Energy contribution -7.66
Covariance contribution -0.47
Combinations/Pair 1.30
Mean z-score -2.77
Structure conservation index 0.30
SVM decision value 0.91
SVM RNA-class probability 0.880896
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16053167 95 - 22407834
AAUUUAUGUGCGAUGGUAAAUAAAAUGAGACCUCCAACGGC--GGCGAAAGCCGCAAAGACGAG-----GCAAUAAAAA--------U-------UUGAAGUGUGUGUAAAGCGCGG--
..((((((..((....(((((.......(.((((.....((--(((....)))))......)))-----)).......)--------)-------)))...))..))))))......-- ( -25.64)
>DroVir_CAF1 249908 112 - 1
AAUUUAUGUGCGCAGGUAAAUAAAAUGUG-CCUCCGCAGACCUGCUGAAAGCCGCA-AGACGAG-----GCAAUAAAAAACGUGUAAGAAAAUUGUGCAAGUGUGUGUUAAACAUUAAA
........(((((((.........(((((-((((.(((....))).....(.(...-.).))))-----))........)))).........)))))))(((((.......)))))... ( -23.77)
>DroPse_CAF1 264892 94 - 1
AAUUUAUGUUCU-CGGUAAAUAUACUGAGACCUCCAAUGGC--GGCGAAAGCCGCAAAGACGAG-----GCAAUAAAAA--------U-------CUGAAGAGUGUGUAAAGCAUGG--
....((((((((-(((((....))))))))((((.....((--(((....)))))......)))-----).........--------.-------................))))).-- ( -30.10)
>DroGri_CAF1 219352 109 - 1
AAUUUAUGUGCUGGGGUAAAUAAAAUGGG-CCUCCGCAGACCUGCUGAAAGCCGCA-AGACGAGUGGUGGCAAUAAAAA--------UAAAACUGCCAAAGUAUGUGUAAACCAUUCGA
..(((((.(((....))).))))).((((-(.((.(((....))).))..))).))-...((((((((((((.......--------......))))....((....)).)))))))). ( -24.62)
>DroAna_CAF1 161185 95 - 1
AAUUUAUGUGCGCUGGUAAAUAAAAUGAGACCUCCAAUGGC--GGCGAAAGCCGCAAAGACGAG-----GCAAUAAAAU--------U-------UUGAAGUGUGUGUAAAGUAUGG--
..((((((..((((..((((........(.((((.....((--(((....)))))......)))-----))........--------)-------))).))))..))))))......-- ( -29.69)
>DroPer_CAF1 294669 94 - 1
AAUUUAUGUUCU-CGGUAAAUAUACUGAGACCUCCAAUGGC--GGCGAAAGCCGCAAAGACGAG-----GCAAUAAAAA--------U-------CUGAAGAGUGUGUAAAGCAUGG--
....((((((((-(((((....))))))))((((.....((--(((....)))))......)))-----).........--------.-------................))))).-- ( -30.10)
>consensus
AAUUUAUGUGCG_CGGUAAAUAAAAUGAGACCUCCAAUGGC__GGCGAAAGCCGCAAAGACGAG_____GCAAUAAAAA________U_______CUGAAGUGUGUGUAAAGCAUGG__
....((..(((...((.................))........(((....)))...............................................)))..))............ ( -8.13 =  -7.66 +  -0.47)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,053,190 – 16,053,287
Length 97
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 81.32
Mean single sequence MFE -31.21
Consensus MFE -24.05
Energy contribution -24.38
Covariance contribution 0.33
Combinations/Pair 1.04
Mean z-score -2.20
Structure conservation index 0.77
SVM decision value 0.99
SVM RNA-class probability 0.895643
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16053190 97 - 22407834
---------------GUUCGACUGUGCGUGCGGUUCCUGAAAUUUAUGUGCGAUGGUAAAUAAAAUGAGACCUCCAACGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAA
---------------.....(((((.((..((..............))..)))))))...........(.((((.....(((((....)))))......)))))........ ( -26.74)
>DroPse_CAF1 264915 110 - 1
AGUGUGUAUGUAGCUAUGUAUGUGUGCGUGCGGUUUUU-AAAUUUAUGUUCU-CGGUAAAUAUACUGAGACCUCCAAUGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAA
.(..((((..((........))..))))..).......-...(((((..(((-(((((....))))))))((((.....(((((....)))))......))))..))))).. ( -37.20)
>DroEre_CAF1 222700 97 - 1
---------------GUUCGACUGUGCGUGCGGUUCGUGAAAUUUAUGUGCGAUGGUAAAUAAAAUGAGACCUCCAACGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAA
---------------...(((((((....)))).))).....(((((.(((....))).)))))....(.((((.....(((((....)))))......)))))........ ( -27.00)
>DroYak_CAF1 214870 97 - 1
---------------GUUCGACUGUGCGUGCGGUUUCUGAAAUUUAUGUGCGAUGGUAAAUAAAAUGAGACCUCCAACGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAA
---------------.((((.((...(((..((((((.....(((((.(((....))).)))))..))))))....)))(((((....)))))..)).)))).......... ( -28.50)
>DroAna_CAF1 161208 112 - 1
CCUGGAUACGCGGCAGUUGGAGUGUGCGUGCGGUUUUCGGAAUUUAUGUGCGCUGGUAAAUAAAAUGAGACCUCCAAUGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAU
.(((((..(((((((.........))).))))...)))))..(((((.(((....))).)))))....(.((((.....(((((....)))))......)))))........ ( -33.30)
>DroPer_CAF1 294692 110 - 1
AGUGUAUAUGUAGCUAUGUAUGUGUGCGUGCGGUUUUU-AAAUUUAUGUUCU-CGGUAAAUAUACUGAGACCUCCAAUGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAA
...(((((((((......)))))))))...........-...(((((..(((-(((((....))))))))((((.....(((((....)))))......))))..))))).. ( -34.50)
>consensus
_______________GUUCGACUGUGCGUGCGGUUUUUGAAAUUUAUGUGCGAUGGUAAAUAAAAUGAGACCUCCAACGGCGGCGAAAGCCGCAAAGACGAGGCAAUAAAAA
......................(((.(((..((((((....((((((........)))))).....)))))).......(((((....)))))....)))..)))....... (-24.05 = -24.38 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:36 2006