Locus 724

Sequence ID 2L_DroMel_CAF1
Location 2,097,733 – 2,097,825
Length 92
Max. P 0.919619
window1185 window1186

overview

Window 5

Location 2,097,733 – 2,097,825
Length 92
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 68.77
Mean single sequence MFE -26.82
Consensus MFE -8.06
Energy contribution -8.42
Covariance contribution 0.36
Combinations/Pair 1.33
Mean z-score -2.14
Structure conservation index 0.30
SVM decision value 0.68
SVM RNA-class probability 0.819927
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2097733 92 + 22407834
CGUGGAGCACAGUUCCAGGCGGAAGAACAAGGAACAGAGAGGAAG-GAUCUCCUGU-----------CGGGAAGUCUGUCAAUAAGCGUUGCUCCACAAGAUUU
.(((((((((.(((((...(....).....)))))......((.(-((..(((...-----------..)))..))).)).......).))))))))....... ( -32.10)
>DroSec_CAF1 114822 74 + 1
----------AGAUCCAGGAGCAAGAACAAGGAGCAGAGAGCAGG-GAUCUGCUG-------------------UCUGUCAAUAAGCGUUGCUCCACAAGAUUC
----------.......((((((((......((.((((.(((((.-...))))).-------------------))))))......).)))))))......... ( -27.00)
>DroSim_CAF1 114690 74 + 1
----------AGAUCCAGGAGCAAGAACAAGGAGCAGAGAGCAGG-GAUCUGCUG-------------------UCUGUCAAUAAGCGUUGCUCCACAAGAUUC
----------.......((((((((......((.((((.(((((.-...))))).-------------------))))))......).)))))))......... ( -27.00)
>DroEre_CAF1 117455 92 + 1
GGUGGAAGGCAGGUCCAGGAGCAGGAACAAGGAGCAGAGAGCAAG-AAGCUCCGGG-----------CGGGAUGUCUGUCAAUAAGCAUUGCUCCACAAGAUGC
..((((.......))))(((((((......(((((..........-..))))).((-----------(((.....)))))........)))))))......... ( -27.20)
>DroYak_CAF1 119551 92 + 1
AGUGGAGGGCAGAUCCAGGAGCAAGAGCAAGGAGCACAGAGCAAG-AAGCUCCGGG-----------CAGGAUGUCUGUCAAUAAGCGUUGCUCCACAAGAUUC
..((((.......))))(((((((..((..(((((..........-..))))).((-----------(((.....))))).....)).)))))))......... ( -32.10)
>DroPer_CAF1 169434 97 + 1
UGAGG-----GGAGCCAAGAACC-CAGCAACCAGCAGCCAGCAC-CCAGCACCGAGCACACAGGACACAGACUGUCUGUCAAUAAGCCUUAUUCUACAAGAUUU
(((((-----((...........-..((.....)).....((..-...)).))((.((.((((........)))).))))......)))))............. ( -15.50)
>consensus
_GUGG_____AGAUCCAGGAGCAAGAACAAGGAGCAGAGAGCAAG_GAGCUCCGGG___________C_GGAUGUCUGUCAAUAAGCGUUGCUCCACAAGAUUC
.................(((((((.........(((((....................................))))).........)))))))......... ( -8.06 =  -8.42 +   0.36)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,097,733 – 2,097,825
Length 92
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 68.77
Mean single sequence MFE -26.38
Consensus MFE -8.17
Energy contribution -7.98
Covariance contribution -0.19
Combinations/Pair 1.33
Mean z-score -2.29
Structure conservation index 0.31
SVM decision value 1.13
SVM RNA-class probability 0.919619
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2097733 92 - 22407834
AAAUCUUGUGGAGCAACGCUUAUUGACAGACUUCCCG-----------ACAGGAGAUC-CUUCCUCUCUGUUCCUUGUUCUUCCGCCUGGAACUGUGCUCCACG
.......((((((((.....................(-----------(.(((((...-.))))).)).(((((..((......))..)))))..)))))))). ( -27.40)
>DroSec_CAF1 114822 74 - 1
GAAUCUUGUGGAGCAACGCUUAUUGACAGA-------------------CAGCAGAUC-CCUGCUCUCUGCUCCUUGUUCUUGCUCCUGGAUCU----------
..((((...(((((((.(..((..((((((-------------------.(((((...-.))))).)))).))..))..)))))))).))))..---------- ( -26.50)
>DroSim_CAF1 114690 74 - 1
GAAUCUUGUGGAGCAACGCUUAUUGACAGA-------------------CAGCAGAUC-CCUGCUCUCUGCUCCUUGUUCUUGCUCCUGGAUCU----------
..((((...(((((((.(..((..((((((-------------------.(((((...-.))))).)))).))..))..)))))))).))))..---------- ( -26.50)
>DroEre_CAF1 117455 92 - 1
GCAUCUUGUGGAGCAAUGCUUAUUGACAGACAUCCCG-----------CCCGGAGCUU-CUUGCUCUCUGCUCCUUGUUCCUGCUCCUGGACCUGCCUUCCACC
((((((...((((((.(((.....).))((((....(-----------(..(((((..-...)))))..))....))))..)))))).)))..)))........ ( -23.70)
>DroYak_CAF1 119551 92 - 1
GAAUCUUGUGGAGCAACGCUUAUUGACAGACAUCCUG-----------CCCGGAGCUU-CUUGCUCUGUGCUCCUUGCUCUUGCUCCUGGAUCUGCCCUCCACU
.......(((((((((......))).((((......(-----------(.((((((..-...)))))).))(((..((....))....)))))))..)))))). ( -27.60)
>DroPer_CAF1 169434 97 - 1
AAAUCUUGUAGAAUAAGGCUUAUUGACAGACAGUCUGUGUCCUGUGUGCUCGGUGCUGG-GUGCUGGCUGCUGGUUGCUG-GGUUCUUGGCUCC-----CCUCA
....((...(((((..(((.......(((.(((((.(..(((...(..(...)..).))-)..).))))))))...))).-.))))).))....-----..... ( -26.60)
>consensus
GAAUCUUGUGGAGCAACGCUUAUUGACAGACAUCC_G___________CCAGGAGAUC_CUUGCUCUCUGCUCCUUGUUCUUGCUCCUGGAUCU_____CCAC_
...(((...((((((..((.....(.(((......................................)))).....))...)))))).)))............. ( -8.17 =  -7.98 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:54 2006