Locus 10194

Sequence ID 3R_DroMel_CAF1
Location 27,356,838 – 27,356,967
Length 129
Max. P 0.912399
window16232 window16233

overview

Window 2

Location 27,356,838 – 27,356,930
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 89.13
Mean single sequence MFE -23.83
Consensus MFE -17.35
Energy contribution -18.35
Covariance contribution 1.00
Combinations/Pair 1.18
Mean z-score -1.55
Structure conservation index 0.73
SVM decision value 0.03
SVM RNA-class probability 0.549540
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27356838 92 - 27905053
AUGUUCCUCUACCACAGUGGUUUCACUUCUGGCACCCCAUCGCGAAGUCGUAAGACUCCUGGCAAAAAAUGAUUGCGAUUCUUUUACUAUGU
...........(((.((((....))))..)))......(((((((((((....)))).....((.....)).)))))))............. ( -16.10)
>DroSec_CAF1 102288 92 - 1
AUGUUUCUCUACCACAGUGGUUUUUCCUCUGGCACCCCAUCGGGAAGUCGUAAGACUUCUGGCGAAAAAUGAUUGCGGUUCUUUUACUAUGU
..((......(((.((((.(((((((...(((....))).(.(((((((....))))))).).))))))).)))).)))......))..... ( -27.90)
>DroSim_CAF1 66485 92 - 1
AUGUUUCUCUACCACAGUGGUUUUUCCUCUGGCACCCCAUCGGGAAGUCGUAAGACUUCUGGCGAAAAAUGAUUGCGGUUCUUUUACUAUGU
..((......(((.((((.(((((((...(((....))).(.(((((((....))))))).).))))))).)))).)))......))..... ( -27.90)
>DroEre_CAF1 66715 92 - 1
AUGUUUCUCUAUCACAAUGGGUUUUUUACUGGCCCCCCGUCGGGAAGUCGUAAGACGCCUGGCGAAAAAUGAUUGCUAUACUUUUACCAUGU
..((......((((....(((((.......)))))..(((((((..(((....))).))))))).....))))......))........... ( -23.40)
>consensus
AUGUUUCUCUACCACAGUGGUUUUUCCUCUGGCACCCCAUCGGGAAGUCGUAAGACUCCUGGCGAAAAAUGAUUGCGAUUCUUUUACUAUGU
..((......(((.((((.(((((((...(((....)))((((((.(((....))))))))).))))))).)))).)))......))..... (-17.35 = -18.35 +   1.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 27,356,863 – 27,356,967
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 81.42
Mean single sequence MFE -32.14
Consensus MFE -17.28
Energy contribution -18.24
Covariance contribution 0.96
Combinations/Pair 1.28
Mean z-score -2.54
Structure conservation index 0.54
SVM decision value 1.08
SVM RNA-class probability 0.912399
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27356863 104 - 27905053
UUAGUGCCGUCCAGUGGAAAAAUAGGAAACGAUUUCCAUGUUCCUCUACCACAGUGGUUUCACUUCUGGCACCCCAUCGCGAAGUCGUAAGACUCCUGGCAAAA
...(((((.....(((((..((((((((.....)))).))))..)))))...((((....))))...)))))......((.(((((....))))..).)).... ( -28.30)
>DroSec_CAF1 102313 104 - 1
UUAGUGCCGUCCAGUGGAAAAAUAGGAAACGAUUUUCAUGUUUCUCUACCACAGUGGUUUUUCCUCUGGCACCCCAUCGGGAAGUCGUAAGACUUCUGGCGAAA
....((((((((((.((((((((((((((((.......)))))).)))((.....))))))))).)))).)).......(((((((....)))))))))))... ( -37.20)
>DroSim_CAF1 66510 104 - 1
UUAGUGCCGUCCAGUGGAAAAAUAGGAAACGAUUUUCAUGUUUCUCUACCACAGUGGUUUUUCCUCUGGCACCCCAUCGGGAAGUCGUAAGACUUCUGGCGAAA
....((((((((((.((((((((((((((((.......)))))).)))((.....))))))))).)))).)).......(((((((....)))))))))))... ( -37.20)
>DroEre_CAF1 66740 103 - 1
UU-GGCCAGUGCAGAGGAAAAAUAAGAAAUGAUUUCCAUGUUUCUCUAUCACAAUGGGUUUUUUACUGGCCCCCCGUCGGGAAGUCGUAAGACGCCUGGCGAAA
..-((((((((.((((((((....(....)..))))).......(((((....))))).))).))))))))...(((((((..(((....))).)))))))... ( -34.50)
>DroYak_CAF1 59676 91 - 1
UU-GUCCAGUGCAGUGGUAAAAUGGGAAAUGAUUUCCAUGUUUCUCUAUCUUAGUGGUUUUACUACUGCCACCCUAUCGUGAAGUCGUACGA------------
..-.....((((((((((((((((((((....)))))))......((((....)))).)))))))))).)))....(((((......)))))------------ ( -23.50)
>consensus
UUAGUGCCGUCCAGUGGAAAAAUAGGAAACGAUUUCCAUGUUUCUCUACCACAGUGGUUUUUCUUCUGGCACCCCAUCGGGAAGUCGUAAGACUCCUGGCGAAA
........(.((((.(((((((..(((((((.......)))))))((((....))))))))))).)))))......((((((.(((....)))))))))..... (-17.28 = -18.24 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:07 2006