Locus 7598

Sequence ID 3L_DroMel_CAF1
Location 20,439,984 – 20,440,104
Length 120
Max. P 0.915224
window12344 window12345

overview

Window 4

Location 20,439,984 – 20,440,104
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.08
Mean single sequence MFE -40.06
Consensus MFE -31.70
Energy contribution -32.58
Covariance contribution 0.88
Combinations/Pair 1.11
Mean z-score -2.00
Structure conservation index 0.79
SVM decision value 1.10
SVM RNA-class probability 0.915224
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20439984 120 + 23771897
GGGGCCUGCUAACAAUGCCCAUGAUAGCCACUCUAAAGGAGACCUUCCCAGACCACACGUUCCUAAUGAACGGAUUGGUCAUGGGAGUCAAGGGAAUACUCUCGUUUCUGUCGUCGCCCC
(((((..((.......))..(((((((..((.........(((..((((((((((..(((((.....)))))...))))).))))))))..((((....))))))..))))))).))))) ( -43.50)
>DroSec_CAF1 49685 120 + 1
GGGGCCUGCUGACAAUGCCCAUGAUAGCCACUCUAAAGGAGACCUUCCCAGACCACACGUUCCUCAUGAACGGAUUGGUCAUGGGUGUCAAGGGAAUACUCUCGUUUCUAUCGUUGCCCC
(((((..((.......))..(((((((..((.........(((...(((((((((..(((((.....)))))...))))).)))).)))..((((....))))))..))))))).))))) ( -42.10)
>DroSim_CAF1 51440 120 + 1
GGGGCCUGCUGACAAUGCCCAUGAUAGCCACUCUAAAGGAGACCUUCCCAGAGCACACGUUCCUCAUGAACGGAUUGGUCAUGGGUGUCAAGGGAAUACUCUCGUUUCUAUCGUCGCCCC
(((((....((((...(((((((((..((.((((...((((...)))).)))).....((((.....))))))....))))))))))))).((((....))))............))))) ( -40.30)
>DroEre_CAF1 44695 120 + 1
GGGGCUUGCUGACAAUGCCGAUGAUAAGCACUUUAAAAGAAACCUUCCCAGACCACACGUUUCUAAUGAACGGAUUGGUCAUGGGUGUCAAGGGAAUACUAUCGUUUCUAUCGGCGCCCA
.(((((((....))).(((((((..((((.............(((((((((((((..(((((.....)))))...))))).))))....))))((......)))))).))))))))))). ( -39.60)
>DroYak_CAF1 69612 120 + 1
GGGGCCUUCUGACAAUGCCUAUGAUAGCCACCUUAAAGGAAACCUUCCCCGACCACACGUUCCUAAUGAACGGAUUAGUCAUGGGUGUCAAGGGAAUACUCUCGUUUCUAUCGGCGCCCC
((((((...((((...(((((((((..((........(((.....)))..........((((.....))))))....))))))))))))).((((....)))).........))).))). ( -34.80)
>consensus
GGGGCCUGCUGACAAUGCCCAUGAUAGCCACUCUAAAGGAGACCUUCCCAGACCACACGUUCCUAAUGAACGGAUUGGUCAUGGGUGUCAAGGGAAUACUCUCGUUUCUAUCGUCGCCCC
(((((..((((.((.......)).)))).........((((((...(((((((((..(((((.....)))))...))))).))))......((((....))))))))))......))))) (-31.70 = -32.58 +   0.88)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,439,984 – 20,440,104
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.08
Mean single sequence MFE -41.72
Consensus MFE -35.74
Energy contribution -36.30
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.60
Structure conservation index 0.86
SVM decision value 1.07
SVM RNA-class probability 0.909710
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20439984 120 - 23771897
GGGGCGACGACAGAAACGAGAGUAUUCCCUUGACUCCCAUGACCAAUCCGUUCAUUAGGAACGUGUGGUCUGGGAAGGUCUCCUUUAGAGUGGCUAUCAUGGGCAUUGUUAGCAGGCCCC
((((((..(((((..((....))...(((.(((.(((((.(((((...(((((.....)))))..)))))))))).((((.((....).).)))).))).)))..)))))..)..))))) ( -43.60)
>DroSec_CAF1 49685 120 - 1
GGGGCAACGAUAGAAACGAGAGUAUUCCCUUGACACCCAUGACCAAUCCGUUCAUGAGGAACGUGUGGUCUGGGAAGGUCUCCUUUAGAGUGGCUAUCAUGGGCAUUGUCAGCAGGCCCC
(((((...(((((..((.((((.....((((....((((.(((((...(((((.....)))))..)))))))))))))....))))...))..)))))....((.......))..))))) ( -43.40)
>DroSim_CAF1 51440 120 - 1
GGGGCGACGAUAGAAACGAGAGUAUUCCCUUGACACCCAUGACCAAUCCGUUCAUGAGGAACGUGUGCUCUGGGAAGGUCUCCUUUAGAGUGGCUAUCAUGGGCAUUGUCAGCAGGCCCC
(((((.......(((((....)).)))..(((((((((((((((.(..(((((.....)))))..)(((((((((.....))))..)))))))...)))))))...))))))...))))) ( -42.50)
>DroEre_CAF1 44695 120 - 1
UGGGCGCCGAUAGAAACGAUAGUAUUCCCUUGACACCCAUGACCAAUCCGUUCAUUAGAAACGUGUGGUCUGGGAAGGUUUCUUUUAAAGUGCUUAUCAUCGGCAUUGUCAGCAAGCCCC
.((((((((((......(((((((((.....(((.((((.(((((...(((((....).))))..)))))))))...)))........))))).)))))))))).(((....))))))). ( -38.62)
>DroYak_CAF1 69612 120 - 1
GGGGCGCCGAUAGAAACGAGAGUAUUCCCUUGACACCCAUGACUAAUCCGUUCAUUAGGAACGUGUGGUCGGGGAAGGUUUCCUUUAAGGUGGCUAUCAUAGGCAUUGUCAGAAGGCCCC
(((((((((((((..((....))..((((((((..(((.((((((...(((((.....)))))..))))))))).(((...))))))))).)))))))...))).....(....)))))) ( -40.50)
>consensus
GGGGCGACGAUAGAAACGAGAGUAUUCCCUUGACACCCAUGACCAAUCCGUUCAUUAGGAACGUGUGGUCUGGGAAGGUCUCCUUUAGAGUGGCUAUCAUGGGCAUUGUCAGCAGGCCCC
(((((...(((((..((.((((.....((((....((((.(((((...(((((.....)))))..)))))))))))))....))))...))..)))))...(((...))).....))))) (-35.74 = -36.30 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:14 2006