Locus 883

Sequence ID 2R_DroMel_CAF1
Location 4,035,952 – 4,036,135
Length 183
Max. P 0.612235
window1540 window1541

overview

Window 0

Location 4,035,952 – 4,036,055
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.42
Mean single sequence MFE -26.21
Consensus MFE -17.98
Energy contribution -18.50
Covariance contribution 0.52
Combinations/Pair 1.10
Mean z-score -1.66
Structure conservation index 0.69
SVM decision value 0.16
SVM RNA-class probability 0.612235
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4035952 103 - 20766785
CACAAAUGUGGGCAAACAGAAAGUGCGUAGGCAUUAAGCUGCCUGUCCUGUGUCAGCAAAUAAGGACAUCCGGCUGGAAA-----AGAUAGAAA------------AAUGGAUACGCAAA
(((....))).............((((((..((((.(((((..((((((.((....))....))))))..))))).....-----.........------------))))..)))))).. ( -26.76)
>DroSec_CAF1 18609 115 - 1
CACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAAGCUGCCUGUCCUGUGUCAGCAAAUAAGGACAUCCGGCUGGAAC-----AGAUAGAAAAAAAUGAAAUAAAAUGGUUACGCAAA
(((....))).............(((((((.((((.(((((..((((((.((....))....))))))..)))))....(-----(............))......)))).))))))).. ( -29.40)
>DroSim_CAF1 20740 115 - 1
CACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAAGCUGCCUGUCCUGUGUCACCAAAUAAGGACAUCCGGCUGGAAC-----AGAUAGAAAAAAAUGAAAUAAAAUGGUUACGCAAA
(((....))).............(((((((.((((.(((((..((((((.((....))....))))))..)))))....(-----(............))......)))).))))))).. ( -28.20)
>DroEre_CAF1 17790 103 - 1
------UGUGAGCAAACAGAAAGUGCGUAGGCAUUAAUCUGCCUGUCCUGUGUCAGCAAAUAAGGACAUCCGGCUCGAAC-----AGAAAGAAAA------AAUAAAAUGGGCACCAGGA
------..(((((...((((.(((((....)))))..))))..((((((.((....))....))))))....)))))...-----..........------.......(((...)))... ( -22.80)
>DroYak_CAF1 21856 114 - 1
CACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAGGCUGCCUCUUCUGUGUCAGCAAAUAAGAACCUCCGGAUUGUAUCUGUUAUUUGAAAAU------AAUGAAAUGGGUACGCAGA
(((....))).((........(((.((.(((..(((.((((.(.(....).).))))...)))...))).)).)))((((((.(((((.......------)))))...))))))))... ( -23.90)
>consensus
CACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAAGCUGCCUGUCCUGUGUCAGCAAAUAAGGACAUCCGGCUGGAAC_____AGAUAGAAAA______AAUAAAAUGGGUACGCAAA
......(((......))).....((((((((((......))))((((((.((....))....))))))............................................)))))).. (-17.98 = -18.50 +   0.52)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,036,015 – 4,036,135
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.19
Mean single sequence MFE -29.20
Consensus MFE -20.70
Energy contribution -24.07
Covariance contribution 3.37
Combinations/Pair 1.08
Mean z-score -1.63
Structure conservation index 0.71
SVM decision value 0.12
SVM RNA-class probability 0.594992
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4036015 120 - 20766785
CUUUUAAAACGGUCUAAGCAUUUGCGUUCCUGCUUUGCAGUCUAUUGCAAAUGUAAACAGUUGCCAGUAAGCUCUUUUCACACAAAUGUGGGCAAACAGAAAGUGCGUAGGCAUUAAGCU
...........(((((.((((((......(((.(((((((..((((((((.((....)).))).)))))..))....(((((....))))))))))))).)))))).)))))........ ( -29.90)
>DroSec_CAF1 18684 120 - 1
CUUUUAAAACGGCCUAAGCAUUUGCGUUCCUGCUUUGCAGCCUAUUGCAAAUGUAAACAGUUGCCAGUAAGCUCUUUUCACACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAAGCU
...........(((((.((((((......(((.((((((((.((((((((.((....)).))).))))).)))....(((((....))))))))))))).)))))).)))))........ ( -34.80)
>DroSim_CAF1 20815 120 - 1
CUUUUAAAACGGCCUAAGCAUUUGCGUUCCUGCUUUCCAGUCUAUUGCAAAUGUAAACAGUUGCCAGUAAGCUCUUUUCACACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAAGCU
...........(((((.((((((..(((..(((.....((..((((((((.((....)).))).)))))..))....(((((....)))))))))))...)))))).)))))........ ( -30.50)
>DroYak_CAF1 21930 98 - 1
CUUUUAAAACGGU----------------------CGCAGUCUAUUGCAAAUGUAAACAGUUGCCAGUAAGCUCUUUUCACACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAGGCU
..........(((----------------------(((((..((((((((.((....)).))).)))))..))....(((((....)))))))........(((((....))))).)))) ( -21.60)
>consensus
CUUUUAAAACGGCCUAAGCAUUUGCGUUCCUGCUUUGCAGUCUAUUGCAAAUGUAAACAGUUGCCAGUAAGCUCUUUUCACACAAAUGUGAGCAAACAGAAAGUGCGUAGGCAUUAAGCU
...........(((((.((((((......(((.((((((((.((((((((.((....)).))).))))).)))....(((((....))))))))))))).)))))).)))))........ (-20.70 = -24.07 +   3.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:00 2006