Locus 2769

Sequence ID 2R_DroMel_CAF1
Location 9,687,645 – 9,687,737
Length 92
Max. P 0.988756
window4585 window4586

overview

Window 5

Location 9,687,645 – 9,687,737
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 92.28
Mean single sequence MFE -19.34
Consensus MFE -16.44
Energy contribution -16.44
Covariance contribution -0.00
Combinations/Pair 1.10
Mean z-score -2.06
Structure conservation index 0.85
SVM decision value 2.13
SVM RNA-class probability 0.988756
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9687645 92 + 20766785
AAAUUAAAGUACCCUCAGCCAGGGUAUAAAUAUAAUUAGCCGCCAUCGAGCAUGAAUGACAUCAUAAAUUUAUGGCAAAACAACAGGCCGUA
........(((((((.....)))))))...........((((((((.((..((((......))))...)).))))).........))).... ( -18.90)
>DroSec_CAF1 4039 92 + 1
AAAUUAAUAUACCCUCAGCCAGGGUAUAAAUAUAAUUAGCCGCCAUCGGGCAUGAAUGACAUCAUAAAUUUAUGGCAAAACAACAGGCCGUA
.......((((((((.....))))))))..........((((((....)))((((......))))........)))................ ( -20.90)
>DroSim_CAF1 2191 92 + 1
AAAUUAAUGUACCCUCAGCCAGGGUAUAAAUAUAAUUAGCCGCCAUCGGGCAUGAAUGACAUCAUAAAUUUAUGGCAAAACAACAGGCCGUA
.......((((((((.....))))))))..........((((((....)))((((......))))........)))................ ( -20.90)
>DroEre_CAF1 2143 92 + 1
AAAAUAAUGUACACUCUGGUAGGGUAUAAAUAUAAUUAGCCGCCAUCGAGCAUGAAUGACAUCAUAAAUUUAUGGCAAAACAACAGGCUGUA
.........((((..(((...((.((..........)).))(((((.((..((((......))))...)).))))).......)))..)))) ( -18.10)
>DroYak_CAF1 2154 88 + 1
----CAAAGUACCCUCUGCUAGGGUAUAAAUAUAAUUAGCCGCCAUCGAGCAUGAAUGACAUCAUAAAUUUAUGGCAAACCAACACGCCGUA
----....(((((((.....)))))))..............(((((.((..((((......))))...)).)))))................ ( -17.90)
>consensus
AAAUUAAUGUACCCUCAGCCAGGGUAUAAAUAUAAUUAGCCGCCAUCGAGCAUGAAUGACAUCAUAAAUUUAUGGCAAAACAACAGGCCGUA
........(((((((.....)))))))...........((((((((..(..((((......))))...)..))))).........))).... (-16.44 = -16.44 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 9,687,645 – 9,687,737
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 92.28
Mean single sequence MFE -20.76
Consensus MFE -18.76
Energy contribution -19.00
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.22
Structure conservation index 0.90
SVM decision value 0.33
SVM RNA-class probability 0.693707
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9687645 92 - 20766785
UACGGCCUGUUGUUUUGCCAUAAAUUUAUGAUGUCAUUCAUGCUCGAUGGCGGCUAAUUAUAUUUAUACCCUGGCUGAGGGUACUUUAAUUU
...((((.........(((((.....(((((......)))))....)))))))))...........((((((.....))))))......... ( -21.10)
>DroSec_CAF1 4039 92 - 1
UACGGCCUGUUGUUUUGCCAUAAAUUUAUGAUGUCAUUCAUGCCCGAUGGCGGCUAAUUAUAUUUAUACCCUGGCUGAGGGUAUAUUAAUUU
...((((.........(((((.....(((((......)))))....)))))))))(((((....((((((((.....)))))))).))))). ( -23.90)
>DroSim_CAF1 2191 92 - 1
UACGGCCUGUUGUUUUGCCAUAAAUUUAUGAUGUCAUUCAUGCCCGAUGGCGGCUAAUUAUAUUUAUACCCUGGCUGAGGGUACAUUAAUUU
...((((.........(((((.....(((((......)))))....)))))))))...........((((((.....))))))......... ( -21.10)
>DroEre_CAF1 2143 92 - 1
UACAGCCUGUUGUUUUGCCAUAAAUUUAUGAUGUCAUUCAUGCUCGAUGGCGGCUAAUUAUAUUUAUACCCUACCAGAGUGUACAUUAUUUU
...((((.........(((((.....(((((......)))))....))))))))).........(((((.(.....).)))))......... ( -15.40)
>DroYak_CAF1 2154 88 - 1
UACGGCGUGUUGGUUUGCCAUAAAUUUAUGAUGUCAUUCAUGCUCGAUGGCGGCUAAUUAUAUUUAUACCCUAGCAGAGGGUACUUUG----
........(((((((.(((((.....(((((......)))))....))))))))))))........((((((.....)))))).....---- ( -22.30)
>consensus
UACGGCCUGUUGUUUUGCCAUAAAUUUAUGAUGUCAUUCAUGCUCGAUGGCGGCUAAUUAUAUUUAUACCCUGGCUGAGGGUACAUUAAUUU
...((((.........(((((.....(((((......)))))....)))))))))...........((((((.....))))))......... (-18.76 = -19.00 +   0.24)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:01 2006