Locus 386

Sequence ID 2R_DroMel_CAF1
Location 2,364,036 – 2,364,226
Length 190
Max. P 0.993957
window755 window756

overview

Window 5

Location 2,364,036 – 2,364,149
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.87
Mean single sequence MFE -25.56
Consensus MFE -24.82
Energy contribution -24.86
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.68
Structure conservation index 0.97
SVM decision value 2.44
SVM RNA-class probability 0.993957
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2364036 113 - 20766785
GGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAAAACAUUUGCUUUUUGAAGACAAAUUACUCGUGGUGAAACAAAUUGCUUUGCUCCUUGCCUGCCUUCC-------CCCAUC
((((((..((((((....((((.(((((..((((..((((.....))))..))))..))))).((((.....))))))))..)))))))))))).............-------...... ( -26.90)
>DroSec_CAF1 13562 120 - 1
GGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAAAACAUUUGCUUUUUGAAGACAAAUUACUCGUGGUGAAACAAAUUGCUUUGCUCCUUGCCUGCCUCCCUUCCCCCUUCCUU
((((((..((((((....((((.(((((..((((..((((.....))))..))))..))))).((((.....))))))))..)))))))))))).......................... ( -26.90)
>DroSim_CAF1 13663 113 - 1
GGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAAAACAUUUGCUUUUUGAAGACAAAUUACUCGUGGUGAAACAAAUUGCUUUGCUUCUUGCCUGCCUCCC-------UUCCUU
((.(((..(((((((........(((((..((((..((((.....))))..))))..))))).......(..((.......))..))))))))..)))...))....-------...... ( -25.00)
>DroEre_CAF1 13278 110 - 1
GGAGCAUA-AGCGAAAAAUGUUCUUGUUAACAAAUUGAAAAACAUUUGCUUUUUGAAGACAAAUUACUCGUGGUGAAACAAAUUGCUUUGCUCCUUGUCCGCCGCC---------CCAUC
((((((.(-(((((....(((..(((..(((((((........))))).))..)))..)))..((((.....))))......))))))))))))............---------..... ( -22.10)
>DroYak_CAF1 13037 111 - 1
GGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAAAACAUUUGCUUUUUGAAGACAAAUUACUCGUGGUGAAACAAAUUGCUUUGCUCCUCGCCUGCCGCC---------UCAUC
((((((..((((((....((((.(((((..((((..((((.....))))..))))..))))).((((.....))))))))..))))))))))))............---------..... ( -26.90)
>consensus
GGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAAAACAUUUGCUUUUUGAAGACAAAUUACUCGUGGUGAAACAAAUUGCUUUGCUCCUUGCCUGCCUCCC________UCAUC
((((((...(((((....((((.(((((..((((..((((.....))))..))))..))))).((((.....))))))))..))))).)))))).......................... (-24.82 = -24.86 +   0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,364,109 – 2,364,226
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.94
Mean single sequence MFE -25.60
Consensus MFE -21.76
Energy contribution -21.76
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.85
SVM decision value 0.86
SVM RNA-class probability 0.868460
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2364109 117 - 20766785
AACAAGCCGCCAAGCGCCUGCCAACAAAUACAUGCAGGGAAAAGC---AAAAAGUAAAACAAGGGACAAGAGGUUCGGUGGGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAA
(((((.(((((..((.(((((............))))).....))---...............((((.....)))))))))((((((..........)))))))))))............ ( -25.30)
>DroSec_CAF1 13642 120 - 1
AACAAGCCGCCAAGCGCCUGCCAACAAAUACAUGCAGGGAAAAGCAGGAAAAAGUGAAACAAGGGACGAGAGGUUCGGUGGGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAA
(((((.(((((..((.(((((............))))).....))..................((((.....)))))))))((((((..........)))))))))))............ ( -25.50)
>DroSim_CAF1 13736 120 - 1
AACAAGCCGCCAAGCGCCUGCCAACAAAUACAUGCAGGGAAAAGCAGGAAAAAGUGAAACAAGGGACGAGAGGUUCGGUGGGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAA
(((((.(((((..((.(((((............))))).....))..................((((.....)))))))))((((((..........)))))))))))............ ( -25.50)
>DroEre_CAF1 13349 113 - 1
AACAAGCCGCCAAGCGCCUGCCAACAAAUACAUGCAGGGAGGAGC---AAAAAGUAAAACAAGG-AC--GAGGUUCGGUGGGAGCAUA-AGCGAAAAAUGUUCUUGUUAACAAAUUGAAA
(((((.(((((..((.(((.((..((......))..)).))).))---..............((-((--...)))))))))((((((.-........)))))))))))............ ( -27.70)
>DroYak_CAF1 13108 112 - 1
AACAAGCCGCCAAGCGCCUGCCAACAAAUACAUGCAGGAAAAAGC---AAAAAGUAAAACAAGG-----GAGGUUCGGUGGGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAA
(((((.(((((....((((.((......(((.(((........))---)....)))......))-----.))))..)))))((((((..........)))))))))))............ ( -24.00)
>consensus
AACAAGCCGCCAAGCGCCUGCCAACAAAUACAUGCAGGGAAAAGC___AAAAAGUAAAACAAGGGAC_AGAGGUUCGGUGGGAGCAUAAAGCGAAAAAUGUUCUUGUUAACAAAUUGCAA
(((((.(((((.(((.(((((............)))))...............(.....)............))).)))))((((((..........)))))))))))............ (-21.76 = -21.76 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:08 2006