Locus 1384

Sequence ID 2L_DroMel_CAF1
Location 3,685,022 – 3,685,113
Length 91
Max. P 0.908540
window2260 window2261

overview

Window 0

Location 3,685,022 – 3,685,113
Length 91
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 84.01
Mean single sequence MFE -32.62
Consensus MFE -27.05
Energy contribution -26.47
Covariance contribution -0.58
Combinations/Pair 1.12
Mean z-score -2.08
Structure conservation index 0.83
SVM decision value 0.72
SVM RNA-class probability 0.831426
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3685022 91 + 22407834
GG---UG----CACUCGGAGGA--GGAGACUGCUC--UCUUAAUGUUUCCGCUGGCGCACACGACAUCCGCUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
..---..----.....((((.(--(....)).)))--).((((...(((((.((((((((......((((.....)))).)))))))).))))).))))... ( -33.20)
>DroPse_CAF1 172844 84 + 1
G----------------GAGAACGAGAGGUUGCUC--UCUUAAUGUUUCCGCUGGCGCACACGACAUCCGCUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
.----------------......(((((....)))--))((((...(((((.((((((((......((((.....)))).)))))))).))))).))))... ( -30.10)
>DroEre_CAF1 152399 86 + 1
--------------UUGGGGGA--GGAGACUGCUCUCUCUUAAUGUUUCCGCUGGCGCACACGACAUCCGCUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
--------------..((((((--(....)).)))))..((((...(((((.((((((((......((((.....)))).)))))))).))))).))))... ( -32.70)
>DroYak_CAF1 157856 95 + 1
GG---GAGGCUUAUUUGGAGGA--GGAGACUGCUC--UCUUAAUGUUUCCGCUGGCGCACACGACAUCCGCUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
.(---((((((((...((((.(--(....)).)))--)..))).))))))..((((((((......((((.....)))).)))))))).............. ( -35.10)
>DroAna_CAF1 163498 94 + 1
AGUCAGG----GAAACAGGGGU--AGAGAUUGCUC--CCUUAAUGUUUCCGCUGGCGCACACGACAUCCGGUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
.((((((----((((((((((.--((......)))--)))...))))))).)))))((.(((....(((((...))))).))).))................ ( -34.50)
>DroPer_CAF1 172861 84 + 1
G----------------GAGAACGAGAGGUUGCUC--UCUUAAUGUUUCCGCUGGCGCACACGACAUCCGCUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
.----------------......(((((....)))--))((((...(((((.((((((((......((((.....)))).)))))))).))))).))))... ( -30.10)
>consensus
G_____________U_GGAGGA__AGAGACUGCUC__UCUUAAUGUUUCCGCUGGCGCACACGACAUCCGCUGACCGGAAGUGCGCCAAUGGAAUUUAAACG
.................((((....(((....)))..)))).....(((((.((((((((......((((.....)))).)))))))).)))))........ (-27.05 = -26.47 +  -0.58)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,685,022 – 3,685,113
Length 91
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 84.01
Mean single sequence MFE -31.80
Consensus MFE -26.25
Energy contribution -26.25
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.83
SVM decision value 1.06
SVM RNA-class probability 0.908540
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3685022 91 - 22407834
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCAGCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGA--GAGCAGUCUCC--UCCUCCGAGUG----CA---CC
........((((.(((((((((.((((.....))))......))))))))).)))).........--..(((.((...--......)).))----).---.. ( -30.70)
>DroPse_CAF1 172844 84 - 1
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCAGCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGA--GAGCAACCUCUCGUUCUC----------------C
........((((.(((((((((.((((.....))))......))))))))).)))).......((--((((........))))))----------------. ( -32.40)
>DroEre_CAF1 152399 86 - 1
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCAGCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGAGAGAGCAGUCUCC--UCCCCCAA--------------
........((((.(((((((((.((((.....))))......))))))))).)))).......(((.(((....))))--))......-------------- ( -29.90)
>DroYak_CAF1 157856 95 - 1
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCAGCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGA--GAGCAGUCUCC--UCCUCCAAAUAAGCCUC---CC
.(((((..((((.(((((((((.((((.....))))......))))))))).)))).......((--((....)))).--.........)))))...---.. ( -30.40)
>DroAna_CAF1 163498 94 - 1
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCACCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGG--GAGCAAUCUCU--ACCCCUGUUUC----CCUGACU
.(((.........(((((((((.(((((...)))))......))))))))).(((((((...(((--((....)))))--.....))))))----)..))). ( -35.00)
>DroPer_CAF1 172861 84 - 1
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCAGCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGA--GAGCAACCUCUCGUUCUC----------------C
........((((.(((((((((.((((.....))))......))))))))).)))).......((--((((........))))))----------------. ( -32.40)
>consensus
CGUUUAAAUUCCAUUGGCGCACUUCCGGUCAGCGGAUGUCGUGUGCGCCAGCGGAAACAUUAAGA__GAGCAAUCUCC__UCCUCC_A_____________C
........((((.(((((((((.((((.....))))......))))))))).))))...........(((....)))......................... (-26.25 = -26.25 +   0.00)

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 10:01:15 2006