Locus 844

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

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

secondary structure

dotplot

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

secondary structure

dotplot

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