Locus 3963

Sequence ID 3R_DroMel_CAF1
Location 10,721,419 – 10,721,572
Length 153
Max. P 0.909657
window6357 window6358

overview

Window 7

Location 10,721,419 – 10,721,532
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -33.98
Consensus MFE -28.10
Energy contribution -28.22
Covariance contribution 0.12
Combinations/Pair 1.13
Mean z-score -1.49
Structure conservation index 0.83
SVM decision value 0.48
SVM RNA-class probability 0.752883
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10721419 113 + 27905053
CCUUUAUCCCUUAAAGUAUAUUUAUUUUAGUGCAUAUCCAGUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUUGCUGCCAUGUUGGACAG
....(((.(.((((((((....)))))))).).)))..........(((((((..((((((((((((......)))))))))))).(((((....)))))....))))))).. ( -31.40)
>DroSec_CAF1 9161 112 + 1
-CUGCAUUCCUUAAAGUAUAUUUAUUUUAGUGCAUAUCCAGUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGACAG
-.(((((....(((((((....))))))))))))............((((((((((((((((((.(((((((((.....)))))))))))).))))))))....))))))).. ( -37.30)
>DroSim_CAF1 9145 112 + 1
-CUGCAUCCCUUAAAGUACAUUUAUUUUAGUGCAUAUCCAGUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGACAG
-.(((((....(((((((....))))))))))))............((((((((((((((((((.(((((((((.....)))))))))))).))))))))....))))))).. ( -36.40)
>DroEre_CAF1 10536 113 + 1
UCUUCAUACCUUAGAGUAGAUUUAUUCUAGUGCAUAACCAGUUCUAGUUGAAUCAGUCGCCUGUUGGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUUGACAG
...(((.((......((.((((((..((((.((.......)).)))).)))))).((((((((((.(......).))))))))))))((((.......))))..)).)))... ( -32.50)
>DroYak_CAF1 9073 113 + 1
UCUUCAUAACUUAAAUUAGAUUUAUUCUAGUGCAUAACCAGUUCUAGUUGAAUCAGUCGCCUGUUGGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGAUAG
...((.((((........((((((..((((.((.......)).)))).)))))).((((((((((.(......).))))))))))..((((.......))))..))))))... ( -32.30)
>consensus
_CUUCAUACCUUAAAGUAGAUUUAUUUUAGUGCAUAUCCAGUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGACAG
..........((((((((....))))))))................(((((((..((((((((((((......))))))))))))..((((.......))))..))))))).. (-28.10 = -28.22 +   0.12)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,721,459 – 10,721,572
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 93.45
Mean single sequence MFE -44.54
Consensus MFE -41.12
Energy contribution -41.28
Covariance contribution 0.16
Combinations/Pair 1.14
Mean z-score -1.37
Structure conservation index 0.92
SVM decision value 1.07
SVM RNA-class probability 0.909657
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10721459 113 + 27905053
GUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUUGCUGCCAUGUUGGACAGGGCUUUGGCUCGCUGCCGGAGUUGCUGCAUCUGGGUCUGU
......(((((((..((((((((((((......)))))))))))).(((((....)))))....)))))))..(((((((((.....)))))))))................. ( -40.40)
>DroSec_CAF1 9200 113 + 1
GUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGACAGGGCUUUGGCCCGCUGCCGGAGUUGCUGCAUCUGGCUAAGU
......((((((((((((((((((.(((((((((.....)))))))))))).))))))))....))))))).((((....))))...((((((((....)).))))))..... ( -48.70)
>DroSim_CAF1 9184 113 + 1
GUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGACAGGGCUUUGGCCCGCUGCCGGAGUUUCUGCAUCUGGCUAAGU
......((((((((((((((((((.(((((((((.....)))))))))))).))))))))....))))))).((((....))))...((((((((....)).))))))..... ( -48.70)
>DroEre_CAF1 10576 113 + 1
GUUCUAGUUGAAUCAGUCGCCUGUUGGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUUGACAGGGCUUUGGCCCGCUGCCGGAGCUGCUGCAUCUCGCUCUGU
......((..(((..((((((((((.(......).))))))))))..((((.......))))..)))..)).((((....)))).....((((((...........)))))). ( -41.60)
>DroYak_CAF1 9113 113 + 1
GUUCUAGUUGAAUCAGUCGCCUGUUGGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGAUAGGCCUUUGGCCCGCUGCCGGAGCUGCUGCAUCUGGCUCUGU
((((.....))))..((((((((((.(......).))))))))))..(((.....((((.((.....))...))))....)))((..((((((((....)).))))))..)). ( -43.30)
>consensus
GUUCGAGUUCAAUCAGUCGCUUGUUCGUGUCGUUGGGCAGGCGAUACGGCAUAGUGGCUGCCAUGUUGGACAGGGCUUUGGCCCGCUGCCGGAGUUGCUGCAUCUGGCUCUGU
......(((((((..((((((((((((......))))))))))))..((((.......))))..))))))).((((....))))...((((((((....)).))))))..... (-41.12 = -41.28 +   0.16)

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 11:14:41 2006