Locus 2335

Sequence ID 2R_DroMel_CAF1
Location 8,545,326 – 8,545,440
Length 114
Max. P 0.999987
window3851 window3852

overview

Window 1

Location 8,545,326 – 8,545,440
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.50
Mean single sequence MFE -28.32
Consensus MFE -26.06
Energy contribution -26.70
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.64
Structure conservation index 0.92
SVM decision value 1.86
SVM RNA-class probability 0.980219
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8545326 114 + 20766785
------CAUUUUAUCACUGAGCUAAGCUUUCGGGAUAUCCUCUGCAGUGUCAUAAAGUUUACACUUUAUGUGCGUUUGCCGUUUAUCCUUUAAUAUUUUUAAAGCCCAGGGAGCCUUUCU
------...................(((..((((.........((((...((((((((....)))))))).....))))........((((((.....))))))))).)..)))...... ( -23.60)
>DroSec_CAF1 20947 120 + 1
UGGGUCCAUGUUAUCCCUGAGCUAAGCUUUCAAGAUAUCCUCUGCAGUGUCAUAAAGUUUACACUUUAUGUGCGUUUGCCGUUUAUCCUUUAAUAUUUUUAAAGCCCAGGGAGCCUUUCU
.((((........((((((.(((..........((((..(...((((...((((((((....)))))))).....)))).)..))))..((((.....))))))).)))))))))).... ( -27.30)
>DroSim_CAF1 24558 120 + 1
UGGGUCCAUGUUAUCCCUGAGCCAAGCUUUCGGGAUAUCCUCUGCAGUGUCAUAAAGUUUACACUUUAUGUGCGUUUGCCGUUUAUCCUUUAAUAUUUUUAAAGCCCAGGGAGCCUUUCU
.((.(((....((((((.((((...))))..))))))....(((..(((.((((((((....)))))))))))..............((((((.....))))))..)))))).))..... ( -30.50)
>DroEre_CAF1 10251 120 + 1
UGGGUCCAUUUUAUCCCUGAGCUAAGCUUUCGGGAAAUCCUCUGCAGUGUCAUAAAGUUUACACUUUAUGUGCGUUUGCCGUUUAUCCUUUAAUAUUUUUAAAGCCCAGGGAGCCUUCCU
.((((........((((((.(((((((....(((....)))..((((...((((((((....)))))))).....)))).)))))...(((((.....))))))).)))))))))).... ( -28.60)
>DroYak_CAF1 24239 120 + 1
UGGGUCCAUUUUAUCCCUGAGCUAAGCUUUCGGGAUAUCCUCUGCAGUGUCAUAAAGUUUACACUUUAUGUGCGUUUGCCGUUUAUCCUUUAAUAUUUUUAAAGCCCAGGGAGCCUUUCU
.((((........((((((.(((........((((((..(...((((...((((((((....)))))))).....)))).)..))))))((((.....))))))).)))))))))).... ( -31.60)
>consensus
UGGGUCCAUUUUAUCCCUGAGCUAAGCUUUCGGGAUAUCCUCUGCAGUGUCAUAAAGUUUACACUUUAUGUGCGUUUGCCGUUUAUCCUUUAAUAUUUUUAAAGCCCAGGGAGCCUUUCU
.............((((((.(((........((((((..(...((((...((((((((....)))))))).....)))).)..))))))((((.....))))))).))))))........ (-26.06 = -26.70 +   0.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 8,545,326 – 8,545,440
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.50
Mean single sequence MFE -31.58
Consensus MFE -31.44
Energy contribution -31.36
Covariance contribution -0.08
Combinations/Pair 1.11
Mean z-score -2.82
Structure conservation index 1.00
SVM decision value 5.44
SVM RNA-class probability 0.999987
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8545326 114 - 20766785
AGAAAGGCUCCCUGGGCUUUAAAAAUAUUAAAGGAUAAACGGCAAACGCACAUAAAGUGUAAACUUUAUGACACUGCAGAGGAUAUCCCGAAAGCUUAGCUCAGUGAUAAAAUG------
........((.(((((((..............(((((..(.(((......((((((((....))))))))....)))...)..)))))(....)...))))))).)).......------ ( -27.10)
>DroSec_CAF1 20947 120 - 1
AGAAAGGCUCCCUGGGCUUUAAAAAUAUUAAAGGAUAAACGGCAAACGCACAUAAAGUGUAAACUUUAUGACACUGCAGAGGAUAUCUUGAAAGCUUAGCUCAGGGAUAACAUGGACCCA
........((((((((((.............((((((..(.(((......((((((((....))))))))....)))...)..))))))........))))))))))............. ( -31.70)
>DroSim_CAF1 24558 120 - 1
AGAAAGGCUCCCUGGGCUUUAAAAAUAUUAAAGGAUAAACGGCAAACGCACAUAAAGUGUAAACUUUAUGACACUGCAGAGGAUAUCCCGAAAGCUUGGCUCAGGGAUAACAUGGACCCA
........((((((((((..............(((((..(.(((......((((((((....))))))))....)))...)..)))))(....)...))))))))))............. ( -34.20)
>DroEre_CAF1 10251 120 - 1
AGGAAGGCUCCCUGGGCUUUAAAAAUAUUAAAGGAUAAACGGCAAACGCACAUAAAGUGUAAACUUUAUGACACUGCAGAGGAUUUCCCGAAAGCUUAGCUCAGGGAUAAAAUGGACCCA
........((((((((((.......((((....))))...(((....(((((((((((....))))))))....))).(.((....)))....))).))))))))))............. ( -30.70)
>DroYak_CAF1 24239 120 - 1
AGAAAGGCUCCCUGGGCUUUAAAAAUAUUAAAGGAUAAACGGCAAACGCACAUAAAGUGUAAACUUUAUGACACUGCAGAGGAUAUCCCGAAAGCUUAGCUCAGGGAUAAAAUGGACCCA
........((((((((((..............(((((..(.(((......((((((((....))))))))....)))...)..)))))(....)...))))))))))............. ( -34.20)
>consensus
AGAAAGGCUCCCUGGGCUUUAAAAAUAUUAAAGGAUAAACGGCAAACGCACAUAAAGUGUAAACUUUAUGACACUGCAGAGGAUAUCCCGAAAGCUUAGCUCAGGGAUAAAAUGGACCCA
........((((((((((..............(((((..(.(((......((((((((....))))))))....)))...)..)))))(....)...))))))))))............. (-31.44 = -31.36 +  -0.08)

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 10:27:15 2006