Locus 1637

Sequence ID 3R_DroMel_CAF1
Location 4,771,551 – 4,771,682
Length 131
Max. P 0.979910
window2694 window2695

overview

Window 4

Location 4,771,551 – 4,771,660
Length 109
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.61
Mean single sequence MFE -34.53
Consensus MFE -24.31
Energy contribution -24.25
Covariance contribution -0.06
Combinations/Pair 1.19
Mean z-score -1.79
Structure conservation index 0.70
SVM decision value 0.35
SVM RNA-class probability 0.701262
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4771551 109 + 27905053
CUGUGGCUCCUGCCGCUUUUU---UACUUUUUUCUGGCUUGUUUCAUGCUGACCCACUUUUAGUGGCAAUACGUGAGCCCGAACAGUGGGGCAAAACCUUAGUGAAAGCUUC--------
..(((((....))))).((((---((((.......((......(((((.....((((.....)))).....)))))((((........))))....))..))))))))....-------- ( -29.70)
>DroSec_CAF1 6943 109 + 1
CUGUGGCUGCUGCCGCUUUUU---UACUUUUUUCUGGCUUGUUUCAUGCUGACCCACUUUUGGUGGCAAUACGUGAGCCCGAACAGUGGGUCGAAACCUUAGUGAAAUCUAC--------
..(((((....)))))..(((---((((..((((.(((.........)))((((((((.((.(.(((.........)))).)).))))))))))))....))))))).....-------- ( -36.60)
>DroSim_CAF1 5382 109 + 1
CUGUGGCUGCUGCCGCUUUUU---UACUUUUUUCUGGCUUGUUUCAUGCUGACCCACUUUUGGUGGCAAUACGUGAGCCCGAACAGUGGGCCAAAACCUUAGUGAAAUCUAC--------
..(((((....)))))..(((---((((......(((((..((((..(((.((((((.....))))......)).)))..)))..)..))))).......))))))).....-------- ( -31.62)
>DroAna_CAF1 6807 120 + 1
CUGCGGCUGCUGCCGCUUUUUUCCUACUCUUUUCUGGCUUGUUUCAUGUUGACCCACUUUUGGUGGCAAUACGUGAGCCAGCACAGUGGGCCUUAGCAGCGGUGAAAGCUAACAAUGCAU
.(((((((..(((((((.((..((((((.....(((((.....((((((....((((.....))))....)))))))))))...))))))....)).)))))))..))))......))). ( -40.20)
>consensus
CUGUGGCUGCUGCCGCUUUUU___UACUUUUUUCUGGCUUGUUUCAUGCUGACCCACUUUUGGUGGCAAUACGUGAGCCCGAACAGUGGGCCAAAACCUUAGUGAAAGCUAC________
..(((((....)))))........((((......(((((..((((..(((.((((((.....))))......)).)))..)))..)..))))).......))))................ (-24.31 = -24.25 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,771,588 – 4,771,682
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.00
Mean single sequence MFE -26.14
Consensus MFE -17.82
Energy contribution -17.98
Covariance contribution 0.17
Combinations/Pair 1.09
Mean z-score -1.93
Structure conservation index 0.68
SVM decision value 1.85
SVM RNA-class probability 0.979910
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4771588 94 - 27905053
-----------------AUUUUUAAAGCUCUUUUACAGC---------GAAGCUUUCACUAAGGUUUUGCCCCACUGUUCGGGCUCACGUAUUGCCACUAAAAGUGGGUCAGCAUGAAAC
-----------------.........(((........((---------((((((((....))))))))))((((((.....(((.........)))......))))))..)))....... ( -26.40)
>DroSec_CAF1 6980 85 - 1
-----------------AUUUGUAAAGCUC------------------GUAGAUUUCACUAAGGUUUCGACCCACUGUUCGGGCUCACGUAUUGCCACCAAAAGUGGGUCAGCAUGAAAC
-----------------.........(((.------------------...((..((.....))..))((((((((.....(((.........)))......)))))))))))....... ( -24.10)
>DroSim_CAF1 5419 85 - 1
-----------------AUUUGUAAAGCUC------------------GUAGAUUUCACUAAGGUUUUGGCCCACUGUUCGGGCUCACGUAUUGCCACCAAAAGUGGGUCAGCAUGAAAC
-----------------...(((((((((.------------------.(((......))).))))))((((((((.....(((.........)))......)))))))).)))...... ( -23.60)
>DroEre_CAF1 7194 94 - 1
-----------------AUCAUUAAAGCUCUUUGAGAAC---------GAGGCUUUCUCUAAGGUUUAGGCCCACUGUUCGGGCUCACGUAUUGCCACCAAAAGUGGGUCAGCAUGAAAC
-----------------.((((..((((.(((.(((((.---------......))))).))))))).((((((((.....(((.........)))......))))))))...))))... ( -29.10)
>DroYak_CAF1 7131 94 - 1
-----------------AUUUUAAAAGCUCUUUAAGAAC---------GCAGCUUUCUCUAAGGUGUUGACCCACUGUUCGAGCUCACGUAUUGCCACCAAAAGUGGGUCAGCAUGAAAC
-----------------......(((((((.........---------).)))))).......(((((((((((((......((.........)).......)))))))))))))..... ( -25.92)
>DroAna_CAF1 6847 120 - 1
AAAAGUAAACUUAACUACUAACUAAAAAUUCUCGAAACGGAUGCAUUGUUAGCUUUCACCGCUGCUAAGGCCCACUGUGCUGGCUCACGUAUUGCCACCAAAAGUGGGUCAACAUGAAAC
...((((..........(((((.....((((.......)))).....)))))..........))))..((((((((.((.((((.........)))).))..)))))))).......... ( -27.75)
>consensus
_________________AUUUUUAAAGCUCUUU_A_A_C_________GUAGCUUUCACUAAGGUUUUGGCCCACUGUUCGGGCUCACGUAUUGCCACCAAAAGUGGGUCAGCAUGAAAC
....................................................................((((((((.....(((.........)))......)))))))).......... (-17.82 = -17.98 +   0.17)

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 10:15:27 2006