Locus 4941

Sequence ID X_DroMel_CAF1
Location 12,896,209 – 12,896,307
Length 98
Max. P 0.999423
window8057 window8058

overview

Window 7

Location 12,896,209 – 12,896,307
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.00
Mean single sequence MFE -36.98
Consensus MFE -29.28
Energy contribution -32.00
Covariance contribution 2.72
Combinations/Pair 1.15
Mean z-score -4.26
Structure conservation index 0.79
SVM decision value 3.59
SVM RNA-class probability 0.999423
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12896209 98 + 22224390
GGAAAACUGAAU----------------------GGGCCAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACCACAGGAAUCCUCAUAAAACUGGUAUAAG
............----------------------.(((........))).((((((((.(((((((..(((((....)))))((((.((......)).))))))))))).)))))))).. ( -30.00)
>DroSec_CAF1 97051 120 + 1
GGAAACCUGAAUGAUUUAUGCACCUGGUUUGAUUGGGCCAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUAAG
(....)...................((((((((((...)))).)))))).((((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))).. ( -39.00)
>DroSim_CAF1 81072 120 + 1
GGAAACCUGAAUGAAUUAUGCACCUGAUUUGAUUGGGCCAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUAAG
((...((..(.(((((((......))))))).)..))))...........((((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))).. ( -39.90)
>DroEre_CAF1 94167 118 + 1
GCA-ACCCGAAUUAAUUAUGCAGCUGGUUUGAGUUGGCCAAUAAAAACUCUAUACCAGAUUUACGAUACGUUCUUCGGAAUGGGAAACCUCU-UAGGUAUCCUCGUAAAACUGGUAUAAG
.((-((.(((((((..........))))))).))))..............((((((((.(((((((..(((((....)))))(((.(((...-..))).)))))))))).)))))))).. ( -39.20)
>DroYak_CAF1 105742 120 + 1
GAAAACCUGAAUUAAUUAUGCAGCUGCUUUCAUUUGGCCAAUAAAAACUCGAUACCAGAUUUAUGAUAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUGAG
......(..(((.((....((....)).)).)))..)..........(((.(((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))))) ( -36.80)
>consensus
GGAAACCUGAAUGAAUUAUGCACCUGGUUUGAUUGGGCCAAUACAAGCUGUAUACCAGAUUUAUGACAUAUUCUUCGGAAUGGGAUACCACUUUAGGUAUCCUCAUAAGACUGGUAUAAG
..................................................((((((((.(((((((..(((((....)))))(((((((......)))))))))))))).)))))))).. (-29.28 = -32.00 +   2.72)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,896,209 – 12,896,307
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.00
Mean single sequence MFE -32.12
Consensus MFE -26.38
Energy contribution -26.62
Covariance contribution 0.24
Combinations/Pair 1.07
Mean z-score -3.18
Structure conservation index 0.82
SVM decision value 3.06
SVM RNA-class probability 0.998291
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12896209 98 - 22224390
CUUAUACCAGUUUUAUGAGGAUUCCUGUGGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUGGCCC----------------------AUUCAGUUUUCC
..((((((((.(((((((.(((((.((..((((....))))..))..)))).).))))))).))))))))..(((......)))..----------------------............ ( -26.90)
>DroSec_CAF1 97051 120 - 1
CUUAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUGGCCCAAUCAAACCAGGUGCAUAAAUCAUUCAGGUUUCC
..((((((((..(((((((((((((......))))))).((((....))))...))))))..)))))))).((((((.(((.((((..........)).))...)))....))))))... ( -34.30)
>DroSim_CAF1 81072 120 - 1
CUUAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUGGCCCAAUCAAAUCAGGUGCAUAAUUCAUUCAGGUUUCC
..((((((((..(((((((((((((......))))))).((((....))))...))))))..)))))))).((((((.((((((((..........)).)).)))).....))))))... ( -34.80)
>DroEre_CAF1 94167 118 - 1
CUUAUACCAGUUUUACGAGGAUACCUA-AGAGGUUUCCCAUUCCGAAGAACGUAUCGUAAAUCUGGUAUAGAGUUUUUAUUGGCCAACUCAAACCAGCUGCAUAAUUAAUUCGGGU-UGC
..((((((((.((((((((((.(((..-...))).)))..(((....)))....))))))).))))))))(((((.((((((((............)))).))))..)))))....-... ( -29.60)
>DroYak_CAF1 105742 120 - 1
CUCAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUAUCAUAAAUCUGGUAUCGAGUUUUUAUUGGCCAAAUGAAAGCAGCUGCAUAAUUAAUUCAGGUUUUC
.(((((((((..(((((((((((((......))))))).((((....))))...))))))..))))))).))(((((((((.....)))))))))..(((.((.....)).)))...... ( -35.00)
>consensus
CUUAUACCAGUCUUAUGAGGAUACCUAAAGUGGUAUCCCAUUCCGAAGAAUAUGUCAUAAAUCUGGUAUACAGCUUGUAUUGGCCCAAUCAAACCAGCUGCAUAAUUAAUUCAGGUUUCC
..((((((((..(((((((((((((......))))))).((((....))))...))))))..))))))))..(((......))).................................... (-26.38 = -26.62 +   0.24)

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 11:36:35 2006