Locus 939

Sequence ID 2L_DroMel_CAF1
Location 2,693,973 – 2,694,070
Length 97
Max. P 0.861849
window1510 window1511

overview

Window 0

Location 2,693,973 – 2,694,070
Length 97
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 79.91
Mean single sequence MFE -28.58
Consensus MFE -22.60
Energy contribution -22.52
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.79
SVM decision value 0.83
SVM RNA-class probability 0.861849
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2693973 97 + 22407834
------GCUCGAAUGUGUUUGU--G------UGUGUGUGUGUGGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUCGGAAUUUACUGCGCUUCGUUUUGCUCUUCUCG
------((.((((.((((..((--(------......((((..((((((....))))))..))))((((((........))))))))).))))))))....))........ ( -25.40)
>DroPse_CAF1 141755 105 + 1
CCCUGUGCACGGGUGUGUACGGAUA------UCUGUGUGUGCGGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUUGGAAUUUACUGCGCUCCGUUUCGUUCCUUUUG
..((((((((....))))))))...------...(((((((((((((((....)))))))))))(((((((((....)))))))))...)))).................. ( -33.60)
>DroEre_CAF1 128123 91 + 1
------GCUCGAAUGU--------------GUGUGUGUGUGUGGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUCGGAAUUUACUGCGCUUCGUUUCGCCGCUCUCG
------((.((((.((--------------(((.(((((((..((((((....))))))..))))((((((........))))))))))))))))))....))........ ( -24.30)
>DroYak_CAF1 118190 105 + 1
------GCUCGAAUGUGUUAGUAAGUCUGUGUAUGUGUGUGUUGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUCGGAAUUUACUGCGCUUCGUUUCGCUCCUCUCG
------((.((((.((((.(((((((((((((((...(((((.((((((....)))))).))))).......))))).))).)))))))))))))))....))........ ( -29.00)
>DroAna_CAF1 196540 88 + 1
-----UACCCGAAUGU------------------AUGUGUGCGGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUUGGAAUUUACUGCGCUUCGUUUCGCUCUUUUCG
-----....((((...------------------..(((((((((((((....))))))))).((((((((((....))))))))))..)))).....))))......... ( -25.60)
>DroPer_CAF1 138636 105 + 1
CCCUGUGCACGGGUGUGUACGGAUA------UCUGUGUGUGCGGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUUGGAAUUUACUGCGCUCCGUUUCGUUCCUUUUG
..((((((((....))))))))...------...(((((((((((((((....)))))))))))(((((((((....)))))))))...)))).................. ( -33.60)
>consensus
______GCUCGAAUGUGU__G__________UCUGUGUGUGCGGUAAGUUAAUAUUUGCUGCAUAAAUUCCAGUGCGUCGGAAUUUACUGCGCUUCGUUUCGCUCCUCUCG
.........((((.((((....................(((((((((((....)))))))))))(((((((........)))))))...)))))))).............. (-22.60 = -22.52 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,693,973 – 2,694,070
Length 97
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.91
Mean single sequence MFE -18.87
Consensus MFE -15.11
Energy contribution -14.42
Covariance contribution -0.69
Combinations/Pair 1.11
Mean z-score -0.99
Structure conservation index 0.80
SVM decision value -0.04
SVM RNA-class probability 0.514745
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2693973 97 - 22407834
CGAGAAGAGCAAAACGAAGCGCAGUAAAUUCCGACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACCACACACACACA------C--ACAAACACAUUCGAGC------
((((....((........))(((.(((((((((......)))))))))))).............................------.--.........))))...------ ( -15.80)
>DroPse_CAF1 141755 105 - 1
CAAAAGGAACGAAACGGAGCGCAGUAAAUUCCAACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACCGCACACACAGA------UAUCCGUACACACCCGUGCACAGGG
.............(((((.((((.(((((((((......)))))))))))).((...............)).......).------..))))).....(((.......))) ( -22.96)
>DroEre_CAF1 128123 91 - 1
CGAGAGCGGCGAAACGAAGCGCAGUAAAUUCCGACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACCACACACACACAC--------------ACAUUCGAGC------
((((..((......))..(((((.(((((((((......)))))))))))).))...........................--------------...))))...------ ( -17.20)
>DroYak_CAF1 118190 105 - 1
CGAGAGGAGCGAAACGAAGCGCAGUAAAUUCCGACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACAACACACACAUACACAGACUUACUAACACAUUCGAGC------
((((.(..((........))(((.(((((((((......)))))))))))).............................................).))))...------ ( -16.60)
>DroAna_CAF1 196540 88 - 1
CGAAAAGAGCGAAACGAAGCGCAGUAAAUUCCAACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACCGCACACAU------------------ACAUUCGGGUA-----
((((....((........))(((.(((((((((......))))))))))))..........................------------------...))))....----- ( -17.70)
>DroPer_CAF1 138636 105 - 1
CAAAAGGAACGAAACGGAGCGCAGUAAAUUCCAACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACCGCACACACAGA------UAUCCGUACACACCCGUGCACAGGG
.............(((((.((((.(((((((((......)))))))))))).((...............)).......).------..))))).....(((.......))) ( -22.96)
>consensus
CGAAAGGAGCGAAACGAAGCGCAGUAAAUUCCAACGCACUGGAAUUUAUGCAGCAAAUAUUAACUUACCACACACACACA__________C__ACACAUUCGAGC______
..............(((.(((((.(((((((((......)))))))))))).))...((......))................................)))......... (-15.11 = -14.42 +  -0.69)

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 09:49:13 2006