Locus 1407

Sequence ID X_DroMel_CAF1
Location 4,231,396 – 4,231,494
Length 98
Max. P 0.958399
window2245 window2246

overview

Window 5

Location 4,231,396 – 4,231,494
Length 98
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 76.93
Mean single sequence MFE -23.47
Consensus MFE -15.85
Energy contribution -16.05
Covariance contribution 0.20
Combinations/Pair 1.25
Mean z-score -1.81
Structure conservation index 0.68
SVM decision value 1.27
SVM RNA-class probability 0.938248
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4231396 98 + 22224390
UUAUCUUAAAAAUGUGCUACAAUUAUG-AAUUUAUUGCUUUUCUUGCAGUGCCUUAAAGCAACAUAAGGAUGAAGGCGGCAAGUGCCGCCAUACACACA
(((((((....(((((((.((....))-....((((((.......))))))......))).)))).))))))).((((((....))))))......... ( -26.30)
>DroSec_CAF1 18674 97 + 1
-UGUCUUAGAAAUGUGCUACACUUAUG-AAUUUAUUGCUUUUUUUGCAGUGCCUUAAAGCAACAUGAGGAUGAAGGCGGCAAGUGCCGCCAUACACACA
-...........((((.....((((((-.....(((((.......)))))((......))..))))))......((((((....))))))...)))).. ( -28.00)
>DroSim_CAF1 24350 97 + 1
-UGUCUUAGAAAUGUGCUACAAUUAUG-AAUUUAUUGCUUUUUUUGCAGUGCCUUAAAGCAACAUGAGGAUGAAGGCGGCAAGUGCCGCCAUACACACA
-.(((((....(((((((.((....))-....((((((.......))))))......))).)))).)))))...((((((....))))))......... ( -26.60)
>DroEre_CAF1 24361 97 + 1
-UAUUUUUGAAAUGCCCUACUUUUAGG-UAUUAAUUGUUUUUCUUGCAGUGCCCUCCAGCAACAUGAGGACGAAGGCUGCAAGUGCCGCCACACACACA
-.........((((((.........))-))))..((((((((..((...(((......))).)).)))))))).(((.((....)).)))......... ( -19.00)
>DroYak_CAF1 18506 98 + 1
-UAUUUUAGAAAUUCACUACUAUUAUGUUAUUUAUUGUAUUUUUUGCAGUGCCUUUAAGCAACAUGAGGAUAAAGGCGGCAAGUGCCGCCACACACACA
-.....................(((((((....((((((.....))))))((......))))))))).......((((((....))))))......... ( -23.20)
>DroAna_CAF1 21630 74 + 1
---------------------GUAAUU-GAUUU---AUAUUUCGUACAGUGCUUGCCACAAAAUUAAGGAUGAAGGCGGCAAGUGCCGCCACACACACA
---------------------(((...-(((..---..)))...))).(((..((((..........)).....((((((....)))))).))..))). ( -17.70)
>consensus
_UAUCUUAGAAAUGUGCUACAAUUAUG_AAUUUAUUGCUUUUCUUGCAGUGCCUUAAAGCAACAUGAGGAUGAAGGCGGCAAGUGCCGCCACACACACA
...................................(((.......)))(((((((..........)))).....((((((....))))))...)))... (-15.85 = -16.05 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 4,231,396 – 4,231,494
Length 98
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.93
Mean single sequence MFE -24.73
Consensus MFE -15.06
Energy contribution -15.15
Covariance contribution 0.09
Combinations/Pair 1.23
Mean z-score -2.17
Structure conservation index 0.61
SVM decision value 1.49
SVM RNA-class probability 0.958399
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4231396 98 - 22224390
UGUGUGUAUGGCGGCACUUGCCGCCUUCAUCCUUAUGUUGCUUUAAGGCACUGCAAGAAAAGCAAUAAAUU-CAUAAUUGUAGCACAUUUUUAAGAUAA
.((((((..((((((....))))))..........(((((((((...((...))....)))))))))....-..........))))))........... ( -27.90)
>DroSec_CAF1 18674 97 - 1
UGUGUGUAUGGCGGCACUUGCCGCCUUCAUCCUCAUGUUGCUUUAAGGCACUGCAAAAAAAGCAAUAAAUU-CAUAAGUGUAGCACAUUUCUAAGACA-
.((((((..((((((....))))))..........(((((((((...((...))....)))))))))....-..........))))))..........- ( -27.90)
>DroSim_CAF1 24350 97 - 1
UGUGUGUAUGGCGGCACUUGCCGCCUUCAUCCUCAUGUUGCUUUAAGGCACUGCAAAAAAAGCAAUAAAUU-CAUAAUUGUAGCACAUUUCUAAGACA-
.((((((..((((((....))))))..........(((((((((...((...))....)))))))))....-..........))))))..........- ( -27.90)
>DroEre_CAF1 24361 97 - 1
UGUGUGUGUGGCGGCACUUGCAGCCUUCGUCCUCAUGUUGCUGGAGGGCACUGCAAGAAAAACAAUUAAUA-CCUAAAAGUAGGGCAUUUCAAAAAUA-
..(((...(((..((.(((((((.....((((((.........)))))).)))))))..............-((((....))))))...)))...)))- ( -23.40)
>DroYak_CAF1 18506 98 - 1
UGUGUGUGUGGCGGCACUUGCCGCCUUUAUCCUCAUGUUGCUUAAAGGCACUGCAAAAAAUACAAUAAAUAACAUAAUAGUAGUGAAUUUCUAAAAUA-
(((((.((..(.(((....)))(((((((..(.......)..))))))).)..))....)))))..................................- ( -21.40)
>DroAna_CAF1 21630 74 - 1
UGUGUGUGUGGCGGCACUUGCCGCCUUCAUCCUUAAUUUUGUGGCAAGCACUGUACGAAAUAU---AAAUC-AAUUAC---------------------
.(..((...((((((....))))))..))..)...((((((((.((.....))))))))))..---.....-......--------------------- ( -19.90)
>consensus
UGUGUGUAUGGCGGCACUUGCCGCCUUCAUCCUCAUGUUGCUUUAAGGCACUGCAAAAAAAACAAUAAAUU_CAUAAUUGUAGCACAUUUCUAAGAUA_
.(..((...((((((....))))))..))..)......((((....))))................................................. (-15.06 = -15.15 +   0.09)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:44 2006