Locus 844

Sequence ID 2L_DroMel_CAF1
Location 2,405,242 – 2,405,378
Length 136
Max. P 0.950187
window1369 window1370

overview

Window 9

Location 2,405,242 – 2,405,348
Length 106
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 79.78
Mean single sequence MFE -28.68
Consensus MFE -19.23
Energy contribution -18.72
Covariance contribution -0.50
Combinations/Pair 1.17
Mean z-score -2.22
Structure conservation index 0.67
SVM decision value 1.40
SVM RNA-class probability 0.950187
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2405242 106 + 22407834
AGGAGUGAGUUAUUCAUAAAAUUCGCUUCAUUUGACGAGAAGCUGCUGUCAAUUAGGGAGUGUGUG-UGUGGGUGUGGGUGGAUGUGGCUCAAAAGUCAUACAUACA
.((((((((((........))))))))))..(((((.((......)))))))........((((((-(((((.(.(((((.......)))))..).))))))))))) ( -31.60)
>DroSec_CAF1 23149 85 + 1
--------------------AUUCUCUUCAUUUGACGAGAAGCUGCUGUCAAUUAGGGAGUGUGUGGUGUG--UGUGGGUGGAUGUGACUCAAAAGUCAUACAUACA
--------------------(((((((....(((((.((......)))))))..))))))).....(((((--(((((.(.((......))...).)))))))))). ( -24.30)
>DroSim_CAF1 23945 94 + 1
AGGAGUU-------------AUUCGCUUCAUUUGACGAGAAGCUGCUGUCAAUUAGGGAGUGUGUGGUGUGUGUGUGGGUGGAUGUGACUCAAAAGUCAUACAUACA
.....((-------------((.((((((..(((((.((......)))))))....)))))).))))(((((((((((.(.((......))...).))))))))))) ( -26.10)
>DroYak_CAF1 25317 104 + 1
AUGGAUCCCUCAUUCAUAAAAUUCGCUUCAUUUGACGAGAAGCUGUUGUCAAUUAGGGAGUGUGUC---UGUGUAUGGGUGGGUAUGACUCAAAAGUCAUACAUGCA
......(((((((.((((.(...((((((..(((((((.......)))))))....))))))..).---)))).))))).))((((((((....))))))))..... ( -32.70)
>consensus
AGGAGU______________AUUCGCUUCAUUUGACGAGAAGCUGCUGUCAAUUAGGGAGUGUGUG_UGUGUGUGUGGGUGGAUGUGACUCAAAAGUCAUACAUACA
.......................((((((..(((((.((......)))))))....))))))................(((..(((((((....)))))))..))). (-19.23 = -18.72 +  -0.50) 

alignment

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secondary structure

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dotplot

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Window 0

Location 2,405,278 – 2,405,378
Length 100
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 75.68
Mean single sequence MFE -29.57
Consensus MFE -12.90
Energy contribution -15.34
Covariance contribution 2.44
Combinations/Pair 1.18
Mean z-score -2.13
Structure conservation index 0.44
SVM decision value 0.54
SVM RNA-class probability 0.775961
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2405278 100 + 22407834
GAGAAGCUGCUGUCAAUUAGGGAGUGUGUG-UGUGGGUGUGGGUGGAU-------GUGGCUCAAAAGUCAUACAUACACAAAAGGACACGCACCCACACAG------ACCCAUC-
.....(((.((........)).)))((.((-((((((((((.(((..(-------((((((....)))))))..))).(....)....)))))))))))).------)).....- ( -36.00)
>DroPse_CAF1 33298 92 + 1
AAAAAGCUGCUGUCAAUUAGGGUGU-------------GUGGAUGGAUACUCAAAAUCACUCAAAAGUCAUACA----GGAAAAGCCACGCCCCCACACAC------ACACACAG
......((((((.....))).((((-------------(((..(((............(((....)))......----((.....))......)))..)))------)))).))) ( -17.40)
>DroSec_CAF1 23165 99 + 1
GAGAAGCUGCUGUCAAUUAGGGAGUGUGUGGUGUG--UGUGGGUGGAU-------GUGACUCAAAAGUCAUACAUACACAAAAGGACACGCCCCCACACAG------ACCCAUC-
.....(((.((........)).)))(((.(((.((--((((((.((.(-------((((((....)))))))...........(....).)))))))))).------)))))).- ( -33.70)
>DroSim_CAF1 23968 100 + 1
GAGAAGCUGCUGUCAAUUAGGGAGUGUGUGGUGUGUGUGUGGGUGGAU-------GUGACUCAAAAGUCAUACAUACACAA-AGGACACGCCCCCACACAG------ACCCAUC-
...................(((..(((((((.((((((.(..(((..(-------((((((....)))))))....)))..-.).))))))..))))))).------.)))...- ( -36.40)
>DroYak_CAF1 25353 104 + 1
GAGAAGCUGUUGUCAAUUAGGGAGUGUGUC---UGUGUAUGGGUGGGU-------AUGACUCAAAAGUCAUACAUGCACAAAAGGACACGCCCCCACACACACAGCCACCCAUC-
.....((((((((......(((.(((((((---(((((((......((-------((((((....))))))))))))))....)))))))))))...))).)))))........- ( -36.50)
>DroPer_CAF1 34525 92 + 1
AAAAAGCUGCUGUCAAUUAGGGUGU-------------GUGGAUGGAUACUCAAAAUCACUCAAAAGUCAUACA----GGAAAAGCCACGCCCCCACACAC------ACACACAG
......((((((.....))).((((-------------(((..(((............(((....)))......----((.....))......)))..)))------)))).))) ( -17.40)
>consensus
GAGAAGCUGCUGUCAAUUAGGGAGUGUGUG___UG__UGUGGGUGGAU_______AUGACUCAAAAGUCAUACAUACACAAAAGGACACGCCCCCACACAC______ACCCAUC_
...................(((.((((((....((.(((((..............((((((....)))))).))))).)).....)))))).))).................... (-12.90 = -15.34 +   2.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:56 2006