Locus 1296

Sequence ID 3L_DroMel_CAF1
Location 3,763,249 – 3,763,384
Length 135
Max. P 0.992244
window2027 window2028

overview

Window 7

Location 3,763,249 – 3,763,350
Length 101
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 90.23
Mean single sequence MFE -26.90
Consensus MFE -20.88
Energy contribution -20.56
Covariance contribution -0.32
Combinations/Pair 1.11
Mean z-score -3.03
Structure conservation index 0.78
SVM decision value 2.32
SVM RNA-class probability 0.992244
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3763249 101 - 23771897
UCGCAGAGUCAAGUGCAGUGAACCAUU-UUGGGGCCCGUCGACGGGCAAACACAAAUGGAAAAUGGAAAAUGGGAAAC----GAAAAACGAUGAAAA-AGAGCACAU
............((((......(((((-(((..(((((....)))))...)).)))))).............(....)----...............-...)))).. ( -26.10)
>DroSec_CAF1 160864 94 - 1
UCGCAGAGUCAAGUGCAGUGAACCAUUUUUGGGGCCCGUCGACGGGCAAACACAAAUGG------GAAAAUGGGAAAC----GAA-AACGAUGUAA--AAAGCACAU
............((((......((((((.((..(((((....)))))...)).))))))------.......(....)----...-..........--...)))).. ( -27.50)
>DroSim_CAF1 155218 95 - 1
UCGCAGAGUCAAGUGCAGUGAACCAUU-UUGGGGCCCGUCGACGGGCAAACACAAAUGG------GAAAAUGGGAAAC----GAAAAACGAUGAAAA-AAAGCACAU
............((((......(((((-(((..(((((....)))))...)).))))))------.......(....)----...............-...)))).. ( -26.30)
>DroEre_CAF1 153258 95 - 1
UCGCAGAGUCAAGUGCAGUGAACCAUU-UUGGGGCCCGUCGAUGGGCAAACAGAAGUGG-------AAAAUGGGAAAC----GAAAAACGACGAAAAAAAAUCACAU
..(((........))).((((.(((((-((.(.(((((....)))))...).)))))))-------......(....)----...................)))).. ( -23.90)
>DroYak_CAF1 144294 100 - 1
UCGCAGAGUCAAGUGCAGUGAACCAUUUUUGGGGCCCGUCGACGGGCAAACAGAAAUGG-------AAAAUGGGAAACGAACGAAAAACGAUGAAAAAAAAUCACAU
..(((........))).((((.(((((((((..(((((....)))))...)))))))))-------......(....).......................)))).. ( -30.70)
>consensus
UCGCAGAGUCAAGUGCAGUGAACCAUU_UUGGGGCCCGUCGACGGGCAAACACAAAUGG______GAAAAUGGGAAAC____GAAAAACGAUGAAAA_AAAGCACAU
..(((........))).(((..(((((..((..(((((....)))))...))..))))).............(....)........................))).. (-20.88 = -20.56 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,763,275 – 3,763,384
Length 109
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 90.59
Mean single sequence MFE -32.80
Consensus MFE -27.07
Energy contribution -26.76
Covariance contribution -0.31
Combinations/Pair 1.11
Mean z-score -1.31
Structure conservation index 0.83
SVM decision value -0.02
SVM RNA-class probability 0.524642
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3763275 109 - 23771897
AGCCACGCCCCGUUUUU---C---CACCAACCGCCCACAAUCGCAGAGUCAAGUGCAGUGAACCAUU-UUGGGGCCCGUCGACGGGCAAACACAAAUGGAAAAUGGAAAAUGGGAA
........((((((((.---(---((.........(((...(((........)))..)))..(((((-(((..(((((....)))))...)).))))))....))))))))))).. ( -34.10)
>DroSec_CAF1 160888 104 - 1
AGCCCCGCCCCGUUUUU---C---CACCAACCGCCCACAAUCGCAGAGUCAAGUGCAGUGAACCAUUUUUGGGGCCCGUCGACGGGCAAACACAAAUGG------GAAAAUGGGAA
........(((((((((---(---((................(((........))).(((..(((....))).(((((....)))))...)))...)))------))))))))).. ( -35.80)
>DroSim_CAF1 155244 103 - 1
AGCCCCGCCCCGUUUUU---C---CACCAACCGCCCACAAUCGCAGAGUCAAGUGCAGUGAACCAUU-UUGGGGCCCGUCGACGGGCAAACACAAAUGG------GAAAAUGGGAA
........(((((((((---(---((.......((((.(((.(((........))).(....).)))-.))))(((((....))))).........)))------))))))))).. ( -34.50)
>DroEre_CAF1 153285 100 - 1
AGCCCCGCCCUGUUUU--------CCCCAGCCGCCCACAAUCGCAGAGUCAAGUGCAGUGAACCAUU-UUGGGGCCCGUCGAUGGGCAAACAGAAGUGG-------AAAAUGGGAA
........((((((((--------((.(.......(((...(((........)))..))).....((-(((..(((((....)))))...)))))).))-------)))))))).. ( -27.80)
>DroYak_CAF1 144325 109 - 1
AGCCCCGCCCUGUUUUUUUUCCAUCCCCAACCGCCCACAAUCGCAGAGUCAAGUGCAGUGAACCAUUUUUGGGGCCCGUCGACGGGCAAACAGAAAUGG-------AAAAUGGGAA
.........................((((......(((...(((........)))..)))..(((((((((..(((((....)))))...)))))))))-------....)))).. ( -31.80)
>consensus
AGCCCCGCCCCGUUUUU___C___CACCAACCGCCCACAAUCGCAGAGUCAAGUGCAGUGAACCAUU_UUGGGGCCCGUCGACGGGCAAACACAAAUGG______GAAAAUGGGAA
........(((((((((..................(((...(((........)))..)))..(((((..((..(((((....)))))...))..)))))......))))))))).. (-27.07 = -26.76 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:10 2006