Locus 4287

Sequence ID 3R_DroMel_CAF1
Location 11,411,956 – 11,412,076
Length 120
Max. P 0.979959
window6974 window6975

overview

Window 4

Location 11,411,956 – 11,412,076
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.50
Mean single sequence MFE -36.02
Consensus MFE -31.16
Energy contribution -32.16
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.87
SVM decision value 0.20
SVM RNA-class probability 0.630618
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11411956 120 + 27905053
UCGAUGUCUUCAGUGGCGCGUAAAAACAAAGGACUGCGGUCCGAGGUCAACCCUCUUGGAAAAGGUAACCUCGCCGGAUUUACUUUGCCGCCAGGACAUCUUAAGGAUUUAACUUGCUUU
..((((((((..((((((.(((((..(...((((....))))(((((..(((...((....))))).)))))...)..)))))..)))))).)))))))).((((.......)))).... ( -38.10)
>DroSec_CAF1 159597 120 + 1
UCGAUGUCUUCAGUGGCGCGUAAAAACAAAGGACUGCGGUCCGAGGUCAACCCUCUUGGAAAAGGUAACCUCACCGGAUUUACUUAGCCGCCAGGACAUCUUAAGGAUUUAACUUGCUUU
..((((((((..(((((..(((((..(...((((....))))(((((..(((...((....))))).)))))...)..)))))...))))).)))))))).((((.......)))).... ( -38.50)
>DroSim_CAF1 151060 120 + 1
UCGAUGUCUUCAGUGGCGCGUAAAAACAAAGGACUGCGGUCCGAGGUCAACCCUCUUGGAAAAGGUAACCUCACCGGAUUUACUUUGCCGCCAGGACAUCUUAAGGAUUUAACUUGCUUU
..((((((((..((((((.(((((..(...((((....))))(((((..(((...((....))))).)))))...)..)))))..)))))).)))))))).((((.......)))).... ( -38.10)
>DroEre_CAF1 147367 120 + 1
UCGAUGUCUUCAGUGGCGCGUAAAAACAAAGGACUGCGGUCCGAGGUCAACCCUCUUGGAAAAGGUAACCUCAGCGGAUUUACUUUGCCGGCAGGACAUCUUAAGGAUUUAACUUGCCUU
..((((((((...(((((.(((((..(...((((....))))(((((..(((...((....))))).)))))...)..)))))..)))))..))))))))..((((..........)))) ( -35.00)
>DroYak_CAF1 151324 120 + 1
UCGCUGUCUUCAAUGGCGCGUAAAAACAAAGGACUGCGUUCGGAGGUCAACCCUCUUGGAAAAGGUAACCUCACCGGAUUUACUUUGCCGCCAGGACAUCUUAAGGAUUUAACGUGCCUU
..............((((((((((..(..((((....(((((((((.....)))))(((..(((((((((.....))..)))))))....))))))).))))..)..))).))))))).. ( -30.40)
>consensus
UCGAUGUCUUCAGUGGCGCGUAAAAACAAAGGACUGCGGUCCGAGGUCAACCCUCUUGGAAAAGGUAACCUCACCGGAUUUACUUUGCCGCCAGGACAUCUUAAGGAUUUAACUUGCUUU
..(((((((...(((((..(((((..(...((((....))))(((((..(((...........))).)))))...)..)))))...)))))..))))))).................... (-31.16 = -32.16 +   1.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 11,411,956 – 11,412,076
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.50
Mean single sequence MFE -37.16
Consensus MFE -34.80
Energy contribution -35.48
Covariance contribution 0.68
Combinations/Pair 1.03
Mean z-score -1.63
Structure conservation index 0.94
SVM decision value 1.85
SVM RNA-class probability 0.979959
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11411956 120 - 27905053
AAAGCAAGUUAAAUCCUUAAGAUGUCCUGGCGGCAAAGUAAAUCCGGCGAGGUUACCUUUUCCAAGAGGGUUGACCUCGGACCGCAGUCCUUUGUUUUUACGCGCCACUGAAGACAUCGA
....................((((((..((.(((...(((((..(((.((((((((((((.....))))).)))))))((((....)))).)))..)))))..))).))...)))))).. ( -39.90)
>DroSec_CAF1 159597 120 - 1
AAAGCAAGUUAAAUCCUUAAGAUGUCCUGGCGGCUAAGUAAAUCCGGUGAGGUUACCUUUUCCAAGAGGGUUGACCUCGGACCGCAGUCCUUUGUUUUUACGCGCCACUGAAGACAUCGA
....................((((((..((.(((...(((((..(((.((((((((((((.....))))).)))))))((((....)))).)))..)))))..))).))...)))))).. ( -39.70)
>DroSim_CAF1 151060 120 - 1
AAAGCAAGUUAAAUCCUUAAGAUGUCCUGGCGGCAAAGUAAAUCCGGUGAGGUUACCUUUUCCAAGAGGGUUGACCUCGGACCGCAGUCCUUUGUUUUUACGCGCCACUGAAGACAUCGA
....................((((((..((.(((...(((((..(((.((((((((((((.....))))).)))))))((((....)))).)))..)))))..))).))...)))))).. ( -39.70)
>DroEre_CAF1 147367 120 - 1
AAGGCAAGUUAAAUCCUUAAGAUGUCCUGCCGGCAAAGUAAAUCCGCUGAGGUUACCUUUUCCAAGAGGGUUGACCUCGGACCGCAGUCCUUUGUUUUUACGCGCCACUGAAGACAUCGA
((((..........))))..((((((.....(((...(((((..(...((((((((((((.....))))).)))))))((((....))))...)..)))))..)))......)))))).. ( -37.10)
>DroYak_CAF1 151324 120 - 1
AAGGCACGUUAAAUCCUUAAGAUGUCCUGGCGGCAAAGUAAAUCCGGUGAGGUUACCUUUUCCAAGAGGGUUGACCUCCGAACGCAGUCCUUUGUUUUUACGCGCCAUUGAAGACAGCGA
.(((.(((((..........))))))))((((((((((......((..((((((((((((.....))))).)))))))....)).....)))))).......)))).............. ( -29.41)
>consensus
AAAGCAAGUUAAAUCCUUAAGAUGUCCUGGCGGCAAAGUAAAUCCGGUGAGGUUACCUUUUCCAAGAGGGUUGACCUCGGACCGCAGUCCUUUGUUUUUACGCGCCACUGAAGACAUCGA
....................((((((..((.(((...(((((..((..((((((((((((.....))))).)))))))((((....))))..))..)))))..))).))...)))))).. (-34.80 = -35.48 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:46 2006