Locus 82

Sequence ID 2R_DroMel_CAF1
Location 1,335,950 – 1,336,089
Length 139
Max. P 0.642878
window170 window171

overview

Window 0

Location 1,335,950 – 1,336,056
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.68
Mean single sequence MFE -34.46
Consensus MFE -27.06
Energy contribution -27.06
Covariance contribution 0.00
Combinations/Pair 1.06
Mean z-score -1.49
Structure conservation index 0.79
SVM decision value 0.12
SVM RNA-class probability 0.595561
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1335950 106 - 20766785
ACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCGCCUGCCACUCCGCUGGCUCUGG------------CCUGCCA--
..((((..(.(((.((((.((((..((.((.((((((((......(((((((((.......))))))))))))))))).)).))..))))))))))).)------------..)))).-- ( -40.90)
>DroSec_CAF1 54466 106 - 1
ACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCUGCCACUCCGCCGGCUCUGG------------CCUGACA--
..(((.....(((.((((.((((..((.((.(.((((((......(((((((((.......))))))))))))))).).)).))..))))))))))).)------------)).....-- ( -35.10)
>DroSim_CAF1 32655 106 - 1
ACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCUGCCACUCCGCCGGCUCUGG------------CCUGACA--
..(((.....(((.((((.((((..((.((.(.((((((......(((((((((.......))))))))))))))).).)).))..))))))))))).)------------)).....-- ( -35.10)
>DroEre_CAF1 35963 120 - 1
UCGGCAAUUGAGAUGCUGUGUGGUGUGCUAAGUGCUGUCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCUGCCACUCCGCUGGCUCUGACUCCGGCUCUGGCCUGACAGA
((((....(.(((.((((((..(((.((...(.((((((......(((((((((.......))))))))))))))))...)))))..))).)))))).)..)))).((((......)))) ( -35.70)
>DroYak_CAF1 23155 106 - 1
ACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUAAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCUGCCACUCCGCUGGAUCUAA------------CCUGAUA--
((((((.......))))))..(((((((..(((((.(.((((((....((((((.......))))))..)))))).)...).))))..)).)))))...------------.......-- ( -25.50)
>consensus
ACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCUGCCACUCCGCUGGCUCUGG____________CCUGACA__
..........(((.((((.((((..((.((.(.((((((......(((((((((.......))))))))))))))).).)).))..)))))))))))....................... (-27.06 = -27.06 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,335,976 – 1,336,089
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.40
Mean single sequence MFE -38.40
Consensus MFE -30.80
Energy contribution -31.24
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.48
Structure conservation index 0.80
SVM decision value 0.23
SVM RNA-class probability 0.642878
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1335976 113 - 20766785
-------CAUCGGACAUGGGGCUUCGGACGAGGGAUGCUCACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCGCCU
-------...(((((......((((....))))....(.(((((((.......))))))).))))))....((((((((......(((((((((.......))))))))))))))))).. ( -37.60)
>DroSec_CAF1 54492 120 - 1
CCUGGGACUUCGGACAUGGGGCUUCGGUCGAGGGAUGCUCACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCU
...((((((((((((....(((....)))........(.(((((((.......))))))).))))))..))))((((((......(((((((((.......)))))))))))))))))). ( -42.00)
>DroSim_CAF1 32681 120 - 1
UCUGGGAAUUCGGACAUGGGGCUUCGGUCGAGGGAUGCUCACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCU
...(((....(((((....(((....)))........(.(((((((.......))))))).))))))......((((((......(((((((((.......)))))))))))))))))). ( -40.00)
>DroEre_CAF1 36003 111 - 1
---------UCGGACCCGGGGCUUUGGGCGAGGGAAGCUCUCGGCAAUUGAGAUGCUGUGUGGUGUGCUAAGUGCUGUCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCU
---------........((((((..(((((((((...)))))((((....(((((((....))))).))...))))))))(((..(((((((((.......)))))))))))))))))). ( -36.40)
>DroYak_CAF1 23181 111 - 1
---------UCGGACAUGGGGCUUUGCACAAGGGAUGCUCACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUAAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCU
---------........(((((...((((..((.(.((((((((((.......))))))).))).).))..))))....(((((....((((((.......))))))..)))))))))). ( -36.00)
>consensus
_________UCGGACAUGGGGCUUCGGACGAGGGAUGCUCACGGCAAUUGAGAUGCUGUGUGGUCUGCUAAGUGCUGCCUGCUAAAUUAGCUUAAAUUCAAUAAGUUAAUGGCAGCCCCU
.................((((((.......(((.(.((.(((((((.......)))))))(((....)))...))).)))(((..(((((((((.......)))))))))))))))))). (-30.80 = -31.24 +   0.44)

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 09:26:16 2006