Locus 997

Sequence ID 3R_DroMel_CAF1
Location 3,181,950 – 3,182,060
Length 110
Max. P 0.998265
window1614 window1615

overview

Window 4

Location 3,181,950 – 3,182,060
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 93.45
Mean single sequence MFE -24.38
Consensus MFE -20.44
Energy contribution -21.12
Covariance contribution 0.68
Combinations/Pair 1.08
Mean z-score -2.75
Structure conservation index 0.84
SVM decision value 3.05
SVM RNA-class probability 0.998265
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3181950 110 + 27905053
AGAAAAAACACAUUCAUAUACGUAAGAGAAUUGGGUCAAGCGGAAAAAAUCAUUUCCGUUUUAGCCAACCGAAAAGGGUGCCCAAAACAGAUGUGACAAAAUUAUGCAAC
........((((((......(....)....((((((.(((((((((......)))))))))......(((......)))))))))....))))))............... ( -24.70)
>DroSec_CAF1 1433 110 + 1
AGAAAAAACACAUUCAAAUACGUAAGAGAAUUGGGUCAAGCGGAAAAAAUCAUUUCCGUUUUAGCCAACCGAAAAGGGUCCCCAAAACAGAUGGGACAAAAUUAUGCAAC
....................(((((.....((((.(.(((((((((......))))))))).).))))((.....))(((((..........)))))....))))).... ( -25.10)
>DroSim_CAF1 7394 110 + 1
AGAAAAAACACAUUCAUAUACGUAAGAGAAUUGGGUCAAGCGGAAAAAAUCAUUUCCGUUUUAGCCAACCGAAAAGGGUGCCCAAAACAGAUGGCACAAAAUUAUGCAAC
....................(((((.....((((.(.(((((((((......))))))))).).))))((.....))(((((..........)))))....))))).... ( -24.90)
>DroEre_CAF1 2332 109 + 1
AGGA-AAAUACAUUCAUAUACGCAAGAGAAUUGGGUCAAGCGGAAAAAAUCAUUUCCGUUUUAGCCAACCGAAAAGGGUGCCCAAAACAGAUGGCACAAAAUUAUGCACC
....-................(((......((((.(.(((((((((......))))))))).).))))((.....))(((((..........))))).......)))... ( -26.50)
>DroYak_CAF1 7170 110 + 1
AGAAAAAAUACAUUCAUAUAUGUAAAAGAAUAGGGUCAAGCGGAAAAAAUUAUUUCCGUAUAAGCCAACCGAAAAGGGUGCCCAAAACAUAUGGGACAAUAUUAUGCAAC
........(((((......))))).........(((...(((((((......)))))))....)))..((.....))((.((((.......))))))............. ( -20.70)
>consensus
AGAAAAAACACAUUCAUAUACGUAAGAGAAUUGGGUCAAGCGGAAAAAAUCAUUUCCGUUUUAGCCAACCGAAAAGGGUGCCCAAAACAGAUGGGACAAAAUUAUGCAAC
.....................(((......((((.(.(((((((((......))))))))).).))))((.....))(((((..........))))).......)))... (-20.44 = -21.12 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,181,950 – 3,182,060
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 93.45
Mean single sequence MFE -23.29
Consensus MFE -18.86
Energy contribution -18.90
Covariance contribution 0.04
Combinations/Pair 1.13
Mean z-score -1.46
Structure conservation index 0.81
SVM decision value 0.19
SVM RNA-class probability 0.624093
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3181950 110 - 27905053
GUUGCAUAAUUUUGUCACAUCUGUUUUGGGCACCCUUUUCGGUUGGCUAAAACGGAAAUGAUUUUUUCCGCUUGACCCAAUUCUCUUACGUAUAUGAAUGUGUUUUUUCU
...((........((((..((((((((((.((.((.....)).)).))))))))))..)))).......))...............(((((......)))))........ ( -22.06)
>DroSec_CAF1 1433 110 - 1
GUUGCAUAAUUUUGUCCCAUCUGUUUUGGGGACCCUUUUCGGUUGGCUAAAACGGAAAUGAUUUUUUCCGCUUGACCCAAUUCUCUUACGUAUUUGAAUGUGUUUUUUCU
...(((((.....(((((..........))))).......((((((...((.((((((......)))))).))...))))))................)))))....... ( -21.60)
>DroSim_CAF1 7394 110 - 1
GUUGCAUAAUUUUGUGCCAUCUGUUUUGGGCACCCUUUUCGGUUGGCUAAAACGGAAAUGAUUUUUUCCGCUUGACCCAAUUCUCUUACGUAUAUGAAUGUGUUUUUUCU
...(((((.((.(((((.....(((((((.((.((.....)).)).)))))))(((((......)))))....................))))).)).)))))....... ( -24.20)
>DroEre_CAF1 2332 109 - 1
GGUGCAUAAUUUUGUGCCAUCUGUUUUGGGCACCCUUUUCGGUUGGCUAAAACGGAAAUGAUUUUUUCCGCUUGACCCAAUUCUCUUGCGUAUAUGAAUGUAUUU-UCCU
((..((......))..)).((((((((((.((.((.....)).)).))))))))))....((((....(((..((........))..))).....))))......-.... ( -28.60)
>DroYak_CAF1 7170 110 - 1
GUUGCAUAAUAUUGUCCCAUAUGUUUUGGGCACCCUUUUCGGUUGGCUUAUACGGAAAUAAUUUUUUCCGCUUGACCCUAUUCUUUUACAUAUAUGAAUGUAUUUUUUCU
..(((((.(((((((((((.......)))).(((......))).((.(((..((((((......))))))..))).)).........))).))))..)))))........ ( -20.00)
>consensus
GUUGCAUAAUUUUGUCCCAUCUGUUUUGGGCACCCUUUUCGGUUGGCUAAAACGGAAAUGAUUUUUUCCGCUUGACCCAAUUCUCUUACGUAUAUGAAUGUGUUUUUUCU
...((.................(((((((.((.((.....)).)).)))))))(((((......)))))))...............(((((......)))))........ (-18.86 = -18.90 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:57 2006