Locus 3935

Sequence ID 3R_DroMel_CAF1
Location 10,670,324 – 10,670,484
Length 160
Max. P 0.957542
window6301 window6302

overview

Window 1

Location 10,670,324 – 10,670,444
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.09
Mean single sequence MFE -42.42
Consensus MFE -37.69
Energy contribution -38.25
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.32
Structure conservation index 0.89
SVM decision value 1.48
SVM RNA-class probability 0.957542
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10670324 120 - 27905053
UAUGCAACUACUUUUCCUGAAGCUCAGAAACAUGCACUCUACUGUGGGCUGUCUGUGGAGGUCUGUGUGGACUUCCAGUGGAUUAGCAUAUUUGAGUGGGUUCUGGGCCAAGAGGCCAAG
..........(((..(((...(((((((...((.(((((....(((.(((((((((((((((((....))))))))).)))).)))).)))..))))).)))))))))....)))..))) ( -41.40)
>DroSim_CAF1 13336 117 - 1
UAUGCAACUACUUUUCCUGAGGCUCAGAAACAUGCACUCGACUGUGGGCUGUC---GGAGGUCUGUGUGGACUUCCAGUGGAUUAGCAUAUUUGAGUGGGUUCUGGGCCAUGAGGCCAAG
..........(((..(((.(((((((((...((.(((((((.((((..(..(.---((((((((....)))))))).)..).....)))).))))))).)))))))))).).)))..))) ( -44.70)
>DroEre_CAF1 8948 117 - 1
UAUGCAACUACUUUUCCUGAAGCUCAGAAACAUGCACUCGAAUGUGGGCAUUC---GGAGGUCUGUGUGGACUUCCAGUGGAUUUGCAUAUUUGAGUGGGUUUUGGGCCAUGAGGCCAAG
..........(((..(((.(.(((((((...((.((((((((((((.(.((((---((((((((....))))))))...)))).).)))))))))))).)))))))))..).)))..))) ( -41.90)
>DroYak_CAF1 3607 117 - 1
UAUGCAACUACUUUUCCUGAAGCUCGGAAAUAUGCACUCGAAUGUGGGCUGUC---GGAGGUCUGUGUGGACUUCCAGUGGAUUUGCAUAUUUGAGUGGGUUUUGGGCCAUGAGGCCAAG
....(((..((((((((........)))))....((((((((((((..(..(.---((((((((....)))))))).)..).....))))))))))))))).)))((((....))))... ( -41.70)
>consensus
UAUGCAACUACUUUUCCUGAAGCUCAGAAACAUGCACUCGAAUGUGGGCUGUC___GGAGGUCUGUGUGGACUUCCAGUGGAUUAGCAUAUUUGAGUGGGUUCUGGGCCAUGAGGCCAAG
..........(((..(((...(((((((...((.((((((((((((....(((...((((((((....))))))))....)))...)))))))))))).)))))))))....)))..))) (-37.69 = -38.25 +   0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,670,364 – 10,670,484
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.23
Mean single sequence MFE -35.42
Consensus MFE -31.08
Energy contribution -30.56
Covariance contribution -0.52
Combinations/Pair 1.13
Mean z-score -1.16
Structure conservation index 0.88
SVM decision value -0.04
SVM RNA-class probability 0.513177
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10670364 120 - 27905053
AUUACUUCCUCUGUGAGAUUCUGGAAAGGCAUUGUAGCUUUAUGCAACUACUUUUCCUGAAGCUCAGAAACAUGCACUCUACUGUGGGCUGUCUGUGGAGGUCUGUGUGGACUUCCAGUG
...........(.((((.(((.(((((((..(((((......)))))...))))))).))).)))).).(((.((((((......))).))).)))((((((((....)))))))).... ( -36.80)
>DroSec_CAF1 11818 114 - 1
AUUACUUUCUCUGUGAGAUUCUGGAAAGGCAUUGUAGCUUUAUGCAACUACUUUUGCUGAGGCUCAGAAACAUGCACUCGACUGUGGGCUGUC---GGAGGUCUGUGUGGACUUCCA---
..............(((...((....))((((((.(((((((.((((......))))))))))))).....)))).)))(((........)))---((((((((....)))))))).--- ( -33.20)
>DroSim_CAF1 13376 117 - 1
AUUACUUUCUCUGUGAGAUUCUGGAAAGGCAUUGUAGCUUUAUGCAACUACUUUUCCUGAGGCUCAGAAACAUGCACUCGACUGUGGGCUGUC---GGAGGUCUGUGUGGACUUCCAGUG
...........(.((((.(((.(((((((..(((((......)))))...))))))).))).)))).)......((((.(((........)))---((((((((....)))))))))))) ( -35.40)
>DroEre_CAF1 8988 117 - 1
AUUACUUUCUCUGUGAGAUUCUGGAAGGGCAUUGUAGCUUUAUGCAACUACUUUUCCUGAAGCUCAGAAACAUGCACUCGAAUGUGGGCAUUC---GGAGGUCUGUGUGGACUUCCAGUG
...........(.((((.(((.(((((((..(((((......)))))...))))))).))).)))).)......((((.(((((....)))))---((((((((....)))))))))))) ( -37.40)
>DroYak_CAF1 3647 117 - 1
AUUACUUUCUCUGGGAGGUUCUGGAAAGGCAUUGUGGCUUUAUGCAACUACUUUUCCUGAAGCUCGGAAAUAUGCACUCGAAUGUGGGCUGUC---GGAGGUCUGUGUGGACUUCCAGUG
.....(((((....(((.(((.(((((((....((.((.....)).))..))))))).))).))))))))...(((((((....)))).))).---((((((((....)))))))).... ( -34.30)
>consensus
AUUACUUUCUCUGUGAGAUUCUGGAAAGGCAUUGUAGCUUUAUGCAACUACUUUUCCUGAAGCUCAGAAACAUGCACUCGACUGUGGGCUGUC___GGAGGUCUGUGUGGACUUCCAGUG
.........((((.(...(((.(((((((..(((((......)))))...))))))).))).).))))......(((......)))..........((((((((....)))))))).... (-31.08 = -30.56 +  -0.52)

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 11:13:47 2006