Locus 1771

Sequence ID 3L_DroMel_CAF1
Location 5,060,785 – 5,060,888
Length 103
Max. P 0.945935
window2741 window2742

overview

Window 1

Location 5,060,785 – 5,060,888
Length 103
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 95.94
Mean single sequence MFE -25.94
Consensus MFE -23.40
Energy contribution -24.04
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.57
Structure conservation index 0.90
SVM decision value 1.36
SVM RNA-class probability 0.945935
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5060785 103 + 23771897
AGCAA-AACAGAACCAGAUCACGUUCUGUGUCCCAAUGGGUCACGGGAAAGACGUUGACGCGUCGCCAACGAAAUUGCGAAGAAAUCUAAAAAUAAAUAGGGAA
.....-.(((((((........))))))).((((..((.((((((.......)).)))).))((((..........))))...................)))). ( -25.00)
>DroSec_CAF1 267251 103 + 1
AGCAA-AACAGAACCAGAUCACGUUCUGUGUCCCAUUGGGUCACGGGAAAGACGUUGACGCGUCGCCAGUGAAAUUGCGAAGAAAUCUAAAAAUAAAUAGGGGA
.((((-.(((((((........)))))))..(((...)))((((.((...(((((....))))).)).))))..)))).......((((........))))... ( -27.00)
>DroSim_CAF1 288553 103 + 1
AGCAA-AACAGAACCAGAUCACGUUCUGUGUCCCAAUGGGUCACGGGAAAGACGUUGACGCGUCGCCAGUGAAAUUGCGAAGAAAUCUAAAAAUAAAUAGGGGA
.((((-.(((((((........)))))))..(((...)))((((.((...(((((....))))).)).))))..)))).......((((........))))... ( -27.00)
>DroEre_CAF1 274050 103 + 1
UGCAA-AACAGAACCAGAUCACGUUCUGCGUCCCAAUGGGUCACGGGAAAGACGUUGACGCGUCGCCAGUGAAAUUACGAAGAAAUCUAAAAAUAAAUAGGGGA
.....-..((((((........))))))..(((((((...((((.((...(((((....))))).)).)))).)))..........(((........))))))) ( -24.90)
>DroYak_CAF1 277757 104 + 1
UGCAAAAACAGAACCAGAUCACGUUCUGUGUCCCAAUGGGUCACGCGAAAGACGUUGUCGCGUCGCCAGUGAAAUUGCGAAGAAAUCUAAAAAUAAAUAGGGGA
.......(((((((........))))))).((((....(((.((((((.........)))))).))).((......)).....................)))). ( -25.80)
>consensus
AGCAA_AACAGAACCAGAUCACGUUCUGUGUCCCAAUGGGUCACGGGAAAGACGUUGACGCGUCGCCAGUGAAAUUGCGAAGAAAUCUAAAAAUAAAUAGGGGA
.......(((((((........))))))).((((......((((.((...(((((....))))).)).))))........((....))...........)))). (-23.40 = -24.04 +   0.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 5,060,785 – 5,060,888
Length 103
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 95.94
Mean single sequence MFE -24.94
Consensus MFE -21.96
Energy contribution -21.52
Covariance contribution -0.44
Combinations/Pair 1.15
Mean z-score -1.37
Structure conservation index 0.88
SVM decision value 0.49
SVM RNA-class probability 0.757339
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5060785 103 - 23771897
UUCCCUAUUUAUUUUUAGAUUUCUUCGCAAUUUCGUUGGCGACGCGUCAACGUCUUUCCCGUGACCCAUUGGGACACAGAACGUGAUCUGGUUCUGUU-UUGCU
....(((........)))........((((...((((((((...))))))))....(((((........))))).(((((((........))))))).-)))). ( -26.40)
>DroSec_CAF1 267251 103 - 1
UCCCCUAUUUAUUUUUAGAUUUCUUCGCAAUUUCACUGGCGACGCGUCAACGUCUUUCCCGUGACCCAAUGGGACACAGAACGUGAUCUGGUUCUGUU-UUGCU
....(((........)))........((((..((((.((.((((......))))...)).))))...((((((((.((((......))))))))))))-)))). ( -23.70)
>DroSim_CAF1 288553 103 - 1
UCCCCUAUUUAUUUUUAGAUUUCUUCGCAAUUUCACUGGCGACGCGUCAACGUCUUUCCCGUGACCCAUUGGGACACAGAACGUGAUCUGGUUCUGUU-UUGCU
....(((........)))........((((..((((.((.((((......))))...)).))))(((...)))..(((((((........))))))).-)))). ( -23.60)
>DroEre_CAF1 274050 103 - 1
UCCCCUAUUUAUUUUUAGAUUUCUUCGUAAUUUCACUGGCGACGCGUCAACGUCUUUCCCGUGACCCAUUGGGACGCAGAACGUGAUCUGGUUCUGUU-UUGCA
(((((((........)))..............((((.((.((((......))))...)).))))......)))).((((((((.((......))))))-)))). ( -25.60)
>DroYak_CAF1 277757 104 - 1
UCCCCUAUUUAUUUUUAGAUUUCUUCGCAAUUUCACUGGCGACGCGACAACGUCUUUCGCGUGACCCAUUGGGACACAGAACGUGAUCUGGUUCUGUUUUUGCA
....(((........)))........(((((..((.(((..((((((.........))))))...))).))..).(((((((........)))))))..)))). ( -25.40)
>consensus
UCCCCUAUUUAUUUUUAGAUUUCUUCGCAAUUUCACUGGCGACGCGUCAACGUCUUUCCCGUGACCCAUUGGGACACAGAACGUGAUCUGGUUCUGUU_UUGCU
....(((........)))........((((..((((.((.((((......))))...)).))))(((...)))..(((((((........)))))))..)))). (-21.96 = -21.52 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:55 2006