Locus 7346

Sequence ID 3R_DroMel_CAF1
Location 19,442,005 – 19,442,110
Length 105
Max. P 0.779799
window11877 window11878

overview

Window 7

Location 19,442,005 – 19,442,110
Length 105
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 91.86
Mean single sequence MFE -27.44
Consensus MFE -24.84
Energy contribution -24.04
Covariance contribution -0.80
Combinations/Pair 1.15
Mean z-score -1.21
Structure conservation index 0.91
SVM decision value 0.26
SVM RNA-class probability 0.659623
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19442005 105 + 27905053
AUGCGCAAUUGGAAGCGCUCCAAAUUGCUGGCAUUUGCACUGCAAAGA--GAGAUGAGAAAGUUGUUCGGGUUCAGAGAU------------AGUGCGGGCAAAAGGGAAACAAAAUGG
..((((........))))(((...(((((.(((((..(.(((.((.((--(.(((......))).)))...))))).)..------------))))).)))))...))).......... ( -27.60)
>DroSec_CAF1 41331 105 + 1
AUGCGCAAUUGGAAGCGCUCCAAAUUGCUGGCAUUUGCACUGCAAAGA--GAGAUGAGAAAGUUGUUCGGGUUCAGAGAU------------AGUGCGGGCAAAAGGGAAACAAACUGG
..((((........))))(((...(((((.(((((..(.(((.((.((--(.(((......))).)))...))))).)..------------))))).)))))...))).......... ( -27.60)
>DroSim_CAF1 50337 105 + 1
AUGCGCAAUUGGAAGCGCUCCAAAUUGCUGGCAUUUGCACUGCAAGGA--GAGAUGAGAAAGUUGUUCGGGUUCAGAGAU------------AGUGCGGGCAAAAGGGAAACAAAAUGG
..((((........))))(((...(((((.(((((..(.((((..(((--..(((......))).)))..)..))).)..------------))))).)))))...))).......... ( -26.40)
>DroEre_CAF1 40846 105 + 1
AUGCGCAAUUGGAAGUGCUCCAAAUUGCUGGCAUUUGCACUGCAAGGA--GAGAUGGGAAAGUUGUUCGGGUUCAGAUAU------------GGUGCGGGCAAAAGGGAAACAAAAUGG
.((((((((((((.....))).))))))..)))(((((.(((((....--.(..((((...(.....)...))))..)..------------..))))))))))..(....)....... ( -25.40)
>DroYak_CAF1 50847 119 + 1
AUGCGCAAUUGGAAGCGCUCCAAAUUGCUGGCAUUUGCACUGUAAAGAGAGAGAUGGGAAAGUUGUUCGGGUUCAGAUAUACUUAUACUCGUAGUGCGGGCAAAAGGGAAACAAAAUGG
..((((........))))(((...(((((.(((((.((.((....))...((((((((....(((........))).....))))).)))))))))).)))))...))).......... ( -30.20)
>consensus
AUGCGCAAUUGGAAGCGCUCCAAAUUGCUGGCAUUUGCACUGCAAAGA__GAGAUGAGAAAGUUGUUCGGGUUCAGAGAU____________AGUGCGGGCAAAAGGGAAACAAAAUGG
..((((........))))(((...(((((.((((((((...)))))....(((.((((.......))))..)))....................))).)))))...))).......... (-24.84 = -24.04 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,442,005 – 19,442,110
Length 105
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.86
Mean single sequence MFE -19.79
Consensus MFE -17.30
Energy contribution -17.70
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.87
SVM decision value 0.55
SVM RNA-class probability 0.779799
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19442005 105 - 27905053
CCAUUUUGUUUCCCUUUUGCCCGCACU------------AUCUCUGAACCCGAACAACUUUCUCAUCUC--UCUUUGCAGUGCAAAUGCCAGCAAUUUGGAGCGCUUCCAAUUGCGCAU
(((..(((((.....((((((.(((..------------.....(((....(((.....))))))....--....))).).)))))....)))))..))).((((........)))).. ( -21.26)
>DroSec_CAF1 41331 105 - 1
CCAGUUUGUUUCCCUUUUGCCCGCACU------------AUCUCUGAACCCGAACAACUUUCUCAUCUC--UCUUUGCAGUGCAAAUGCCAGCAAUUUGGAGCGCUUCCAAUUGCGCAU
((((.(((((.....((((((.(((..------------.....(((....(((.....))))))....--....))).).)))))....))))).)))).((((........)))).. ( -20.76)
>DroSim_CAF1 50337 105 - 1
CCAUUUUGUUUCCCUUUUGCCCGCACU------------AUCUCUGAACCCGAACAACUUUCUCAUCUC--UCCUUGCAGUGCAAAUGCCAGCAAUUUGGAGCGCUUCCAAUUGCGCAU
(((..(((((.....((((((.(((..------------.....(((....(((.....))))))....--....))).).)))))....)))))..))).((((........)))).. ( -21.26)
>DroEre_CAF1 40846 105 - 1
CCAUUUUGUUUCCCUUUUGCCCGCACC------------AUAUCUGAACCCGAACAACUUUCCCAUCUC--UCCUUGCAGUGCAAAUGCCAGCAAUUUGGAGCACUUCCAAUUGCGCAU
(((..(((((.....((((((.(((..------------......((....(((.....)))...))..--....))).).)))))....)))))..))).((.(........).)).. ( -15.44)
>DroYak_CAF1 50847 119 - 1
CCAUUUUGUUUCCCUUUUGCCCGCACUACGAGUAUAAGUAUAUCUGAACCCGAACAACUUUCCCAUCUCUCUCUUUACAGUGCAAAUGCCAGCAAUUUGGAGCGCUUCCAAUUGCGCAU
(((..(((((.....(((((.(.......(((...((((...((.......))...))))......)))..........).)))))....)))))..))).((((........)))).. ( -20.23)
>consensus
CCAUUUUGUUUCCCUUUUGCCCGCACU____________AUCUCUGAACCCGAACAACUUUCUCAUCUC__UCUUUGCAGUGCAAAUGCCAGCAAUUUGGAGCGCUUCCAAUUGCGCAU
(((..(((((.....((((((.(((....................(....)(((.....))).............))).).)))))....)))))..))).((((........)))).. (-17.30 = -17.70 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:39 2006