Locus 5830

Sequence ID X_DroMel_CAF1
Location 15,076,825 – 15,076,970
Length 145
Max. P 0.699429
window9459 window9460 window9461

overview

Window 9

Location 15,076,825 – 15,076,936
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 81.06
Mean single sequence MFE -27.48
Consensus MFE -21.85
Energy contribution -20.97
Covariance contribution -0.88
Combinations/Pair 1.21
Mean z-score -1.56
Structure conservation index 0.80
SVM decision value 0.35
SVM RNA-class probability 0.699429
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15076825 111 + 22224390
UUCGGGGAAUCAGUUGGAAGAGGCAUGGUUAGCGGGACGAGCAGGAAAAGCGGAAAAGCUGGAAAAAGGUAACAUGCCUAAGCAGUUUGUGCUUUUGUUGUUUUUUUUUUU
(((.(..((((((((......))).)))))..).))).((((((.(((((((...((((((.....((((.....))))...)))))).))))))).))))))........ ( -27.10)
>DroSim_CAF1 24021 100 + 1
UUCGGGGAACCAGUUGGGGUAGGCAUGGUUAGCGGGACGAGCGGGAAAAGCGGAAAAGCUGGAAAAAGGUAACAUGCCUAAGCAGUUGGUGCUUUUGUUU-----------
...((((.((((..((...((((((((....((.......))......(((......)))............))))))))..))..)))).)))).....----------- ( -26.80)
>DroEre_CAF1 28999 98 + 1
UUCGGGGAAGCAGCUGGGAAAGGUAUGGGAAGCGGUACCGGCAGGAAAAGCGGAAAAACUGGAAAAAGGUAACAUGCCUAAGCAGUUGUUGCCUUUGU-------------
(((((.......(((..(...(((((.(....).)))))..)......))).......))))).(((((((((((((....)))..))))))))))..------------- ( -28.54)
>consensus
UUCGGGGAACCAGUUGGGAAAGGCAUGGUUAGCGGGACGAGCAGGAAAAGCGGAAAAGCUGGAAAAAGGUAACAUGCCUAAGCAGUUGGUGCUUUUGUU____________
...((((.((((((((....(((((((....((.......))........(((.....)))...........)))))))...)))))))).))))................ (-21.85 = -20.97 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,076,825 – 15,076,936
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 81.06
Mean single sequence MFE -15.93
Consensus MFE -12.97
Energy contribution -12.87
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -1.34
Structure conservation index 0.81
SVM decision value 0.11
SVM RNA-class probability 0.588705
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15076825 111 - 22224390
AAAAAAAAAAACAACAAAAGCACAAACUGCUUAGGCAUGUUACCUUUUUCCAGCUUUUCCGCUUUUCCUGCUCGUCCCGCUAACCAUGCCUCUUCCAACUGAUUCCCCGAA
.................(((((.....)))))(((((((............(((......)))......((.......))....))))))).................... ( -15.30)
>DroSim_CAF1 24021 100 - 1
-----------AAACAAAAGCACCAACUGCUUAGGCAUGUUACCUUUUUCCAGCUUUUCCGCUUUUCCCGCUCGUCCCGCUAACCAUGCCUACCCCAACUGGUUCCCCGAA
-----------..........((((..((..((((((((............(((......)))......((.......))....))))))))...))..))))........ ( -17.60)
>DroEre_CAF1 28999 98 - 1
-------------ACAAAGGCAACAACUGCUUAGGCAUGUUACCUUUUUCCAGUUUUUCCGCUUUUCCUGCCGGUACCGCUUCCCAUACCUUUCCCAGCUGCUUCCCCGAA
-------------..(((((.((((..(((....))))))).)))))...(((((.....((.......)).((((..........))))......))))).......... ( -14.90)
>consensus
____________AACAAAAGCACCAACUGCUUAGGCAUGUUACCUUUUUCCAGCUUUUCCGCUUUUCCUGCUCGUCCCGCUAACCAUGCCUAUCCCAACUGAUUCCCCGAA
.................(((((.....)))))(((((((............(((......)))......((.......))....))))))).................... (-12.97 = -12.87 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,076,860 – 15,076,970
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 81.79
Mean single sequence MFE -28.07
Consensus MFE -17.21
Energy contribution -16.66
Covariance contribution -0.55
Combinations/Pair 1.15
Mean z-score -2.03
Structure conservation index 0.61
SVM decision value 0.10
SVM RNA-class probability 0.581685
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15076860 110 + 22224390
GACGAGCAGGAAAAGCGGAAAAGCUGGAAAAAGGUAACAUGCCUAAGCAGUUUGUGCUUUUGUUGUUUUUUUUUUUUUUUUGUUUUGCCCUCCUUUUGCUGGCAAUCAAU
(.(.(((((((..((.((.(((((..((((((((.((((.((..(((((.....)))))..))))))....))))))))..))))).))))..))))))).))....... ( -27.70)
>DroSim_CAF1 24056 93 + 1
GACGAGCGGGAAAAGCGGAAAAGCUGGAAAAAGGUAACAUGCCUAAGCAGUUGGUGCUUUUGUUU-----------------UUUUGCCCUCUUUUUGCUGGCAAUCAAU
(.(.((((((((..((((((((((.......((((.....))))(((((.....)))))..))))-----------------))))))....)))))))).))....... ( -23.90)
>DroEre_CAF1 29034 91 + 1
UACCGGCAGGAAAAGCGGAAAAACUGGAAAAAGGUAACAUGCCUAAGCAGUUGUUGCCUUUGU-------------------UUUUGCCCUCUUUUUGCUGGCAAUCAAU
..((((((((((.((.((((((((.....(((((((((((((....)))..))))))))))))-------------------)))).)))).))))))))))........ ( -32.60)
>consensus
GACGAGCAGGAAAAGCGGAAAAGCUGGAAAAAGGUAACAUGCCUAAGCAGUUGGUGCUUUUGUU__________________UUUUGCCCUCUUUUUGCUGGCAAUCAAU
..(.((((((((.((.((.((((......(((((((...(((....))).....))))))).....................)))).)))).)))))))).)........ (-17.21 = -16.66 +  -0.55)

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 11:57:24 2006