Locus 2574

Sequence ID 2R_DroMel_CAF1
Location 9,085,803 – 9,085,949
Length 146
Max. P 0.942293
window4248 window4249

overview

Window 8

Location 9,085,803 – 9,085,909
Length 106
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 89.02
Mean single sequence MFE -27.88
Consensus MFE -23.94
Energy contribution -24.12
Covariance contribution 0.19
Combinations/Pair 1.09
Mean z-score -2.10
Structure conservation index 0.86
SVM decision value 1.32
SVM RNA-class probability 0.942293
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9085803 106 - 20766785
UUUAAAAAACGGUCUUUCUACAAAUUAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUGUUCAUCUGCUUUUGGUCCACCAA-----------CCGUGUGAAUUUUCCG
..........((((((..........))))))....((((((((.....))))))))..(((((..((((((..((..((((....))))-----------..))))))))))))). ( -27.70)
>DroSec_CAF1 50581 117 - 1
UUUAAAAAACGGUCUUUCUAAAAAUAAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUAUUCAUCUGCUUUUGGUCCUCCAACAGUUUGUCUACCGUGUGAAUUUUCCG
..........(((((((........)))))))....((((((((.....))))))))..(((((((..((((..(((.((((....)))).)))...........))))))))))). ( -27.52)
>DroSim_CAF1 52794 117 - 1
UUUAAAAAACGGUCUUUCUAAAAAUUAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUUUUCAUCUACUUUUGGUCCUUCAACAGAUUGUCUACCGUGUGAAUUUUCCG
..........((((((..........))))))....((((((((.....))))))))..(((((((((.(((.......(((((........)))))......))).))))))))). ( -25.82)
>DroEre_CAF1 57902 116 - 1
UUUAAAAAACGGUCUUUCUAAAAAUUAGGAUCUAUUCAGCUGCAACCACUGCAGCUGUGGGAAAAUAGUCAUCUGCUUUUGGAGGACCAACAG-UUGUCUACCGUGUGAAUUUUCCA
..........((((((..........))))))....((((((((.....))))))))..(((((((..((((.((....((((.(((.....)-)).)))).)).))))))))))). ( -30.50)
>consensus
UUUAAAAAACGGUCUUUCUAAAAAUUAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUAUUCAUCUGCUUUUGGUCCACCAACAG_UUGUCUACCGUGUGAAUUUUCCG
..........((((((..........))))))....((((((((.....))))))))..(((((((..((((.((((.((((....)))).)).........)).))))))))))). (-23.94 = -24.12 +   0.19)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 9,085,829 – 9,085,949
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.61
Mean single sequence MFE -24.92
Consensus MFE -18.76
Energy contribution -18.70
Covariance contribution -0.06
Combinations/Pair 1.13
Mean z-score -1.72
Structure conservation index 0.75
SVM decision value 0.34
SVM RNA-class probability 0.697060
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9085829 120 - 20766785
AGAAACCUGUUGAUUUCACAUGGAAACCUUACGUCCUUUGUUUAAAAAACGGUCUUUCUACAAAUUAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUGUUCAUCUGCUUUU
(((((.(((((..((..(((.(((.........)))..)))..))..)))))..)))))...........(((...((((((((.....))))))))..))).................. ( -23.30)
>DroSec_CAF1 50618 120 - 1
AGAAACCUGUUGAUUUCACAUGGUAACCUCCCCUUCUUUGUUUAAAAAACGGUCUUUCUAAAAAUAAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUAUUCAUCUGCUUUU
.(((((((((.(....)))).)))....((((..................(((((((........)))))))....((((((((.....)))))))).)))).....))).......... ( -25.80)
>DroSim_CAF1 52831 120 - 1
AGAAACCUGUUGAUUUCACAUGGAAACCUCCCCGCCUUUGUUUAAAAAACGGUCUUUCUAAAAAUUAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUUUUCAUCUACUUUU
.((((.(....).))))..(((((((..((((..................((((((..........))))))....((((((((.....)))))))).))))...)))))))........ ( -25.20)
>DroEre_CAF1 57938 109 - 1
AGAAAUCUGUUGAUUUC-----------UCCAUUUCUUUGUUUAAAAAACGGUCUUUCUAAAAAUUAGGAUCUAUUCAGCUGCAACCACUGCAGCUGUGGGAAAAUAGUCAUCUGCUUUU
.((((((....))))))-----------(((...................((((((..........))))))....((((((((.....))))))))..))).................. ( -25.40)
>consensus
AGAAACCUGUUGAUUUCACAUGGAAACCUCCCCUCCUUUGUUUAAAAAACGGUCUUUCUAAAAAUUAAGAUCUAUUCAGUUGCAACCACUGCAGCUGUGGGAAAAUAUUCAUCUGCUUUU
.((((.(....).))))...........((((..................((((((..........))))))....((((((((.....)))))))).)))).................. (-18.76 = -18.70 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:36 2006