Locus 6411

Sequence ID 2L_DroMel_CAF1
Location 17,999,647 – 17,999,741
Length 94
Max. P 0.831856
window10230 window10231

overview

Window 0

Location 17,999,647 – 17,999,741
Length 94
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 75.86
Mean single sequence MFE -24.24
Consensus MFE -13.86
Energy contribution -14.00
Covariance contribution 0.14
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.57
SVM decision value 0.39
SVM RNA-class probability 0.717729
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17999647 94 + 22407834
UAUAUCCAGUUAUGUAUAGAAGAGAGC----AGA-----UUUUUGCAGUGCAUCAACUGGCAAAUU-CAACUGGCUGCAUCGACUGAAACCGAAGCCGGUUUCG
.....((((((((((((.(.(((((..----...-----))))).).)))))).))))))......-.((((((((...(((........)))))))))))... ( -25.60)
>DroSec_CAF1 215720 94 + 1
UAUAUAUAGGUAUUUAUAGAAGAGAGU----AGA-----UUUUUGCAGUGCAUGAACUGGCAAAUU-CAACUGGCUGCAUCGACUGAAACCGAAGCCGGUUUCG
........(((.........((..(((----.((-----..((((((((......))).))))).)-).)))..))......)))(((((((....))))))). ( -21.66)
>DroSim_CAF1 214293 94 + 1
UAUAUAUAGGUAUUUAUAGAAGAGAGU----AGA-----UUUUUGCAGUGCAUGAACUGGCAAAUU-CAACUGGCUGCAUCGACUGAAACCGAAGCCGGUUUCG
........(((.........((..(((----.((-----..((((((((......))).))))).)-).)))..))......)))(((((((....))))))). ( -21.66)
>DroEre_CAF1 206323 86 + 1
UAAGU------AUUU------GAGACUCACCUCA-----UUUUUGCAGUGUGCCAACCGGCAAAUU-CAACUGGCUGCAUCGACUGAAACCGAAGCCGGUUUCG
..(((------...(------(((......))))-----....((((((.((((....))))....-......))))))...)))(((((((....))))))). ( -24.80)
>DroYak_CAF1 222061 86 + 1
UAGAU------AUUA------GGGAGCCUAAUCA-----UUUUUGCAGUGUGCCAACUGGCAAAUU-CAACUGGCUGCAUCGACUGAAACCGAAGCCGGUUUCG
..(((------((((------((...))))))..-----.....(((((.((((....))))....-......))))))))....(((((((....))))))). ( -24.70)
>DroAna_CAF1 205572 89 + 1
CAUCU-----------CAAAAUAGAUU----AAAUGUUUUUUUUUGAGUGCACCAACUGGCAACUGCCAGCUAACUGCAUCGACUGAAACCGAAGCCGGUUUCG
...((-----------(((((.(((..----......))).)))))))((((....(((((....))))).....))))......(((((((....))))))). ( -27.00)
>consensus
UAUAU______AUUU_UAGAAGAGAGU____AGA_____UUUUUGCAGUGCACCAACUGGCAAAUU_CAACUGGCUGCAUCGACUGAAACCGAAGCCGGUUUCG
...........................................((((((((........))......(....)))))))......(((((((....))))))). (-13.86 = -14.00 +   0.14)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,999,647 – 17,999,741
Length 94
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 75.86
Mean single sequence MFE -23.27
Consensus MFE -13.38
Energy contribution -13.35
Covariance contribution -0.03
Combinations/Pair 1.12
Mean z-score -1.76
Structure conservation index 0.57
SVM decision value 0.72
SVM RNA-class probability 0.831856
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17999647 94 - 22407834
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGCCAGUUG-AAUUUGCCAGUUGAUGCACUGCAAAAA-----UCU----GCUCUCUUCUAUACAUAACUGGAUAUA
.(((((((....)))))))...........(((((((-....(((........)))..(((....-----..)----)).............)))))))..... ( -21.30)
>DroSec_CAF1 215720 94 - 1
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGCCAGUUG-AAUUUGCCAGUUCAUGCACUGCAAAAA-----UCU----ACUCUCUUCUAUAAAUACCUAUAUAUA
.(((((((....)))))))(((.(((((((.....((-(((......)))))....)))))....-----)).----)))........................ ( -19.40)
>DroSim_CAF1 214293 94 - 1
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGCCAGUUG-AAUUUGCCAGUUCAUGCACUGCAAAAA-----UCU----ACUCUCUUCUAUAAAUACCUAUAUAUA
.(((((((....)))))))(((.(((((((.....((-(((......)))))....)))))....-----)).----)))........................ ( -19.40)
>DroEre_CAF1 206323 86 - 1
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGCCAGUUG-AAUUUGCCGGUUGGCACACUGCAAAAA-----UGAGGUGAGUCUC------AAAU------ACUUA
.(((((((....)))))))....((.((.(((((..(-.......)..))))).((((.((....-----)).)))).)).))------....------..... ( -24.40)
>DroYak_CAF1 222061 86 - 1
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGCCAGUUG-AAUUUGCCAGUUGGCACACUGCAAAAA-----UGAUUAGGCUCCC------UAAU------AUCUA
.(((((((....)))))))......((((((((..((-.......))..))))....))))....-----..((((((...))------))))------..... ( -24.00)
>DroAna_CAF1 205572 89 - 1
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGUUAGCUGGCAGUUGCCAGUUGGUGCACUCAAAAAAAAACAUUU----AAUCUAUUUUG-----------AGAUG
.(((((((....)))))))......((((.(((((((((....)))))))))))))(((((((..........----......)))))-----------))... ( -31.09)
>consensus
CGAAACCGGCUUCGGUUUCAGUCGAUGCAGCCAGUUG_AAUUUGCCAGUUGAUGCACUGCAAAAA_____UCU____ACUCUCUUCUA_AAAU______AUAUA
.(((((((....)))))))......(((((...((........))..((....)).)))))........................................... (-13.38 = -13.35 +  -0.03)

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 12:10:21 2006