Locus 4583

Sequence ID 2R_DroMel_CAF1
Location 14,968,775 – 14,968,935
Length 160
Max. P 0.999983
window7351 window7352 window7353

overview

Window 1

Location 14,968,775 – 14,968,895
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.25
Mean single sequence MFE -37.06
Consensus MFE -33.92
Energy contribution -33.16
Covariance contribution -0.76
Combinations/Pair 1.15
Mean z-score -1.57
Structure conservation index 0.92
SVM decision value 1.48
SVM RNA-class probability 0.957901
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14968775 120 + 20766785
CAUUUUCCUGGAACAGCGCGAAAUGAUAGCCAAACUUUUAUUGUAUGGCCGUACCUUUGGCAAGCUCUUGCUGUAUUCGCUUGGCAUAGGCCAACAGCAAGUGCAGCAAGCAACCUUCGC
.........((...(((((.(((.((..((((.((.......)).))))..).).))).))..)))(((((((((((.(((((((....))))..))).)))))))))))...))..... ( -37.60)
>DroSec_CAF1 8356 120 + 1
CAUUUUCCUGGAACAGCGCGAACUGACAAGCAAACUUUUAUUGUACGGCCGUACCUUUGGCAAACUCUUGCUGUAUUCGCUGGGCUUAAGCCAACAGCAGGUGCAGCAAGCAACCUUCGC
.................(((((.......((((.......))))...((((......)))).....((((((((((..(((((((....)))..))))..)))))))))).....))))) ( -36.50)
>DroSim_CAF1 9089 120 + 1
CAUUUUCCUGGAACAGCGCGAACUGACAAGCAAACUUUUAUUGUACGGCCGUACCUUUGGCAAACUCUUGCUGUAUUCGCUGGGCUUAAGCCAACAGCAGGUGCAGCAAGCAACCUUCGC
.................(((((.......((((.......))))...((((......)))).....((((((((((..(((((((....)))..))))..)))))))))).....))))) ( -36.50)
>DroEre_CAF1 8498 120 + 1
CGUUUUCCUGGAACAGCGUGAAAUGACAGCAAAACUUUUAUUGUACAGCCGCACCUUUGGCAAGCUCUUGCUGUAUUCGCUGGGUUUAAGCCAACAGCAAGUGCAGCAGGCCACCUUCGC
........(((...((((((.(((((.((.....)).))))).))).((((......))))..)))(((((((((((.(((((((....)))..)))).))))))))))))))....... ( -36.30)
>DroYak_CAF1 8782 120 + 1
ACUUUUCCUGGAGCAGCGUGAAAUGACAGCCAAACUUUUAUUGUACGGCCGCACCUUUGGCAAGCUCUUGCUGUAUUCGCUGGGUUUGAGCCAACAGCAAGUGCAGCAGGCAACCUUCGC
......((((((((..((((.(((((.((.....)).))))).))))((((......))))..))))).((((((((.(((((((....)))..)))).))))))))))).......... ( -38.40)
>consensus
CAUUUUCCUGGAACAGCGCGAAAUGACAGCCAAACUUUUAUUGUACGGCCGUACCUUUGGCAAGCUCUUGCUGUAUUCGCUGGGCUUAAGCCAACAGCAAGUGCAGCAAGCAACCUUCGC
.................(((((.........................((((......)))).....(((((((((((.(((((((....)))..)))).))))))))))).....))))) (-33.92 = -33.16 +  -0.76)

alignment

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secondary structure

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Window 2

Location 14,968,815 – 14,968,935
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.58
Mean single sequence MFE -43.82
Consensus MFE -41.76
Energy contribution -41.28
Covariance contribution -0.48
Combinations/Pair 1.15
Mean z-score -2.92
Structure conservation index 0.95
SVM decision value 5.32
SVM RNA-class probability 0.999983
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14968815 120 + 20766785
UUGUAUGGCCGUACCUUUGGCAAGCUCUUGCUGUAUUCGCUUGGCAUAGGCCAACAGCAAGUGCAGCAAGCAACCUUCGCAUCCUGUUUUAUUGGGAUCUACCCAUAUGCCAUGCUGGCC
......(((((((....(((((.(((..(((((((((.(((((((....))))..))).)))))))))))).....................((((.....))))..)))))))).)))) ( -42.90)
>DroSec_CAF1 8396 120 + 1
UUGUACGGCCGUACCUUUGGCAAACUCUUGCUGUAUUCGCUGGGCUUAAGCCAACAGCAGGUGCAGCAAGCAACCUUCGCAUCGUGUUUUAUUGGGAUCUAUCCAUAUGCCAUGCUGGCC
......(((((((....(((((....((((((((((..(((((((....)))..))))..))))))))))........................(((....)))...)))))))).)))) ( -42.90)
>DroSim_CAF1 9129 120 + 1
UUGUACGGCCGUACCUUUGGCAAACUCUUGCUGUAUUCGCUGGGCUUAAGCCAACAGCAGGUGCAGCAAGCAACCUUCGCAUCCUGCUUUAUUGGGAUCUACCCAUAUGCCAUGCUGGCC
......(((((((....(((((....((((((((((..(((((((....)))..))))..))))))))))........((.....)).....((((.....))))..)))))))).)))) ( -46.00)
>DroEre_CAF1 8538 120 + 1
UUGUACAGCCGCACCUUUGGCAAGCUCUUGCUGUAUUCGCUGGGUUUAAGCCAACAGCAAGUGCAGCAGGCCACCUUCGCAUCCUGCUUUAUUGGCGUCUAUCCAUAUGCCAUGCUGGCC
.......((((((....(((((.....((((((((((.(((((((....)))..)))).))))))))))((((.....((.....)).....))))...........)))))))).))). ( -41.70)
>DroYak_CAF1 8822 120 + 1
UUGUACGGCCGCACCUUUGGCAAGCUCUUGCUGUAUUCGCUGGGUUUGAGCCAACAGCAAGUGCAGCAGGCAACCUUCGCGUCCUGCUUUAUUGGGCUCUACCCAUAUGCCAUGCUGGCC
......(((((((....((((((((....)))........(((((..(((((....((....))(((((((.........).))))))......))))).)))))..)))))))).)))) ( -45.60)
>consensus
UUGUACGGCCGUACCUUUGGCAAGCUCUUGCUGUAUUCGCUGGGCUUAAGCCAACAGCAAGUGCAGCAAGCAACCUUCGCAUCCUGCUUUAUUGGGAUCUACCCAUAUGCCAUGCUGGCC
......(((((((....(((((....(((((((((((.(((((((....)))..)))).)))))))))))......................((((.....))))..)))))))).)))) (-41.76 = -41.28 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,968,815 – 14,968,935
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.58
Mean single sequence MFE -44.72
Consensus MFE -39.60
Energy contribution -40.64
Covariance contribution 1.04
Combinations/Pair 1.08
Mean z-score -2.79
Structure conservation index 0.89
SVM decision value 4.07
SVM RNA-class probability 0.999785
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14968815 120 - 20766785
GGCCAGCAUGGCAUAUGGGUAGAUCCCAAUAAAACAGGAUGCGAAGGUUGCUUGCUGCACUUGCUGUUGGCCUAUGCCAAGCGAAUACAGCAAGAGCUUGCCAAAGGUACGGCCAUACAA
((((.((.((((...((((.....))))................(((((.(((((((...(((((..((((....)))))))))...))))))))))))))))...))..))))...... ( -43.30)
>DroSec_CAF1 8396 120 - 1
GGCCAGCAUGGCAUAUGGAUAGAUCCCAAUAAAACACGAUGCGAAGGUUGCUUGCUGCACCUGCUGUUGGCUUAAGCCCAGCGAAUACAGCAAGAGUUUGCCAAAGGUACGGCCGUACAA
((((.((.((((...(((.......)))...((((.....((....))..(((((((....(((((..(((....))))))))....))))))).))))))))...))..))))...... ( -39.00)
>DroSim_CAF1 9129 120 - 1
GGCCAGCAUGGCAUAUGGGUAGAUCCCAAUAAAGCAGGAUGCGAAGGUUGCUUGCUGCACCUGCUGUUGGCUUAAGCCCAGCGAAUACAGCAAGAGUUUGCCAAAGGUACGGCCGUACAA
((((.((.(((((..(((((..(..(((((..((((((.(((((((....)))..)))))))))))))))..)..)))))((.......)).......)))))...))..))))...... ( -43.60)
>DroEre_CAF1 8538 120 - 1
GGCCAGCAUGGCAUAUGGAUAGACGCCAAUAAAGCAGGAUGCGAAGGUGGCCUGCUGCACUUGCUGUUGGCUUAAACCCAGCGAAUACAGCAAGAGCUUGCCAAAGGUGCGGCUGUACAA
((((.((((((((..(((.......)))....((((((..((....))..))))))((.(((((((((.(((.......))).)..)))))))).)).)))))....)))))))...... ( -45.60)
>DroYak_CAF1 8822 120 - 1
GGCCAGCAUGGCAUAUGGGUAGAGCCCAAUAAAGCAGGACGCGAAGGUUGCCUGCUGCACUUGCUGUUGGCUCAAACCCAGCGAAUACAGCAAGAGCUUGCCAAAGGUGCGGCCGUACAA
((((.((((((((..((((.....))))....((((((..((....))..))))))((.(((((((((.(((.......))).)..)))))))).)).)))))....)))))))...... ( -52.10)
>consensus
GGCCAGCAUGGCAUAUGGGUAGAUCCCAAUAAAGCAGGAUGCGAAGGUUGCUUGCUGCACUUGCUGUUGGCUUAAGCCCAGCGAAUACAGCAAGAGCUUGCCAAAGGUACGGCCGUACAA
((((.((.(((((..((((.....))))....((((((..((....))..))))))((.(((((((((.(((.......))).)..)))))))).)).)))))...))..))))...... (-39.60 = -40.64 +   1.04)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:47 2006