Locus 10341

Sequence ID 3R_DroMel_CAF1
Location 27,823,536 – 27,823,627
Length 91
Max. P 0.999586
window16457 window16458

overview

Window 7

Location 27,823,536 – 27,823,627
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 90.99
Mean single sequence MFE -18.78
Consensus MFE -15.92
Energy contribution -15.88
Covariance contribution -0.04
Combinations/Pair 1.07
Mean z-score -1.57
Structure conservation index 0.85
SVM decision value 0.85
SVM RNA-class probability 0.866783
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27823536 91 + 27905053
UCAUAUCGCAGUUUUGGUAAAUACAAAGGUCAGCACCUGACCAUGCUUAUCACGAUGCUGUUCCUGUUUAUUCACCAACCGCCCCUUCUAU
.......((.((..((((.((((...(((.((((((.(((.........))).).)))))..)))...)))).)))))).))......... ( -18.80)
>DroSec_CAF1 138146 91 + 1
UCAUAUCGCAGUGUUGGCAAAUACAGAGGUCAGCACCUGACCAUACUUAUCACGAUGCUGUUCCUGUUUAUCCACCAACCGACCCUUCUAU
.....(((...((.(((.....((((.(..((((((.(((.........))).).)))))..)))))....))).))..)))......... ( -18.30)
>DroSim_CAF1 139484 91 + 1
UCAUAUCGCAGUGUUGGCAAAUACAAAGGUCAGCACCUGACCAUACUUAUCACGAUGCUGUUCCUGUUUAUCCACCAACCGACCCUUCUAU
.....(((....(((((...(((...(((.((((((.(((.........))).).)))))..)))...)))...))))))))......... ( -16.80)
>DroEre_CAF1 158160 89 + 1
UCAUAUCGCGGUGUUGGUAAAUACAAAGGUCAGCACCUGACCAUGCUUAUCACGAUGCUGUUCUCGUUUAUCCACCAACGACCCCUUCC--
.........(((((((((.........((((((...)))))).........((((........))))......)))))).)))......-- ( -21.40)
>DroYak_CAF1 142070 91 + 1
UCAUAUCGCGGUGUUGUUAAAUACAAAGGUCAGCACCUGACCAUGCUUAUCACGAUGCUGUUCUCGUUUAUCCACCACCGACCCCUUCCAU
........(((((.((.(((((.....((((((...))))))..((..........)).......)))))..)).)))))........... ( -18.60)
>consensus
UCAUAUCGCAGUGUUGGUAAAUACAAAGGUCAGCACCUGACCAUGCUUAUCACGAUGCUGUUCCUGUUUAUCCACCAACCGCCCCUUCUAU
.......(((((((((...........((((((...))))))..........))))))))).............................. (-15.92 = -15.88 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 27,823,536 – 27,823,627
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 90.99
Mean single sequence MFE -31.12
Consensus MFE -26.02
Energy contribution -25.78
Covariance contribution -0.24
Combinations/Pair 1.19
Mean z-score -3.44
Structure conservation index 0.84
SVM decision value 3.75
SVM RNA-class probability 0.999586
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27823536 91 - 27905053
AUAGAAGGGGCGGUUGGUGAAUAAACAGGAACAGCAUCGUGAUAAGCAUGGUCAGGUGCUGACCUUUGUAUUUACCAAAACUGCGAUAUGA
.........((((((((((((((...(((..(((((((.((((.......))))))))))).)))...)))))))))..)))))....... ( -32.40)
>DroSec_CAF1 138146 91 - 1
AUAGAAGGGUCGGUUGGUGGAUAAACAGGAACAGCAUCGUGAUAAGUAUGGUCAGGUGCUGACCUCUGUAUUUGCCAACACUGCGAUAUGA
........(((((((((..((((...(((..(((((((.((((.......))))))))))).)))...))))..)))))....)))).... ( -31.50)
>DroSim_CAF1 139484 91 - 1
AUAGAAGGGUCGGUUGGUGGAUAAACAGGAACAGCAUCGUGAUAAGUAUGGUCAGGUGCUGACCUUUGUAUUUGCCAACACUGCGAUAUGA
........(((((((((..((((...(((..(((((((.((((.......))))))))))).)))...))))..)))))....)))).... ( -31.50)
>DroEre_CAF1 158160 89 - 1
--GGAAGGGGUCGUUGGUGGAUAAACGAGAACAGCAUCGUGAUAAGCAUGGUCAGGUGCUGACCUUUGUAUUUACCAACACCGCGAUAUGA
--....(.(((.(((((((((((...(((..(((((((.((((.......)))))))))))..)))..)))))))))))))).)....... ( -34.40)
>DroYak_CAF1 142070 91 - 1
AUGGAAGGGGUCGGUGGUGGAUAAACGAGAACAGCAUCGUGAUAAGCAUGGUCAGGUGCUGACCUUUGUAUUUAACAACACCGCGAUAUGA
.........(.(((((.((((((...(((..(((((((.((((.......)))))))))))..)))..))))))....))))))....... ( -25.80)
>consensus
AUAGAAGGGGCGGUUGGUGGAUAAACAGGAACAGCAUCGUGAUAAGCAUGGUCAGGUGCUGACCUUUGUAUUUACCAACACUGCGAUAUGA
.......((...(((((((((((...(((..(((((((.((((.......)))))))))))..)))..))))))))))).))......... (-26.02 = -25.78 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:26 2006