Locus 1729

Sequence ID	X_DroMel_CAF1
Location	4,813,334 – 4,813,435
Length	101
Max. P	0.995768

overview

Window 6

Location	4,813,334 – 4,813,435
Length	101
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	76.10
Mean single sequence MFE	-27.50
Consensus MFE	-16.64
Energy contribution	-19.94
Covariance contribution	3.30
Combinations/Pair	1.15
Mean z-score	-2.56
Structure conservation index	0.61
SVM decision value	2.61
SVM RNA-class probability	0.995768
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4813334 101 + 22224390
CUGCUCCACAUUUCCACGGAAAUUCCCAUGUCCGUUAACUUGCUGAAUAAGUUGGUGGAACAUAUAUAUA---UAUAUAGUGUUUUAUAGGGGGGAACAGCAUC
(((.(((..(((((....)))))(((((((((((..((((((.....))))))..))).)))).......---..(((((....)))))))))))).))).... ( -27.10)
>DroSec_CAF1 19929 87 + 1
CUGCUCCACCUUUCCACGGAAAUUCCCAUGUCCGUUA------------AGUUGGAGGAACAUAUAUAUA---UAUAUAG-GUUUUAUAGGG-GGAGCAGCAUC
(((((((...((((....))))..(((...((((...------------...))))(((((.(((((...---.))))).-)))))...)))-))))))).... ( -27.20)
>DroSim_CAF1 18613 94 + 1
CUGCUCCACCUUUCCACGGAAAUUCCCAUGUCCGUUAACUUACUGAAUAAGUUGGUGGAACAUGUGUAUA---U-----G-GUUUUAUAGGG-GGAGCAGCAUC
(((((((.((((.(((.((.....))((((((((..((((((.....))))))..))).)))))......---)-----)-)......))))-))))))).... ( -34.10)
>DroEre_CAF1 29345 94 + 1
CUGCUCCACCUUUCCUCGGAAAUUCCCAUGUCCGUUAACUUGCUGAAUAAGUUUAUGGAACAAAAAUAGA-------U-G-GUUUUAUAGGG-GGAGCAGCAUC
(((((((...((((....))))..(((.(((((((.((((((.....)))))).)))).)))...(((((-------.-.-..))))).)))-))))))).... ( -29.60)
>DroYak_CAF1 20372 87 + 1
--------------CUCGGAAAUUCCCAUGUCCGUUAGCUUGCUGAAUAAGUUCACGGAACAGAUAUAGUUUAUAUGU-A-GUUUAAAAGGG-GGAACAGCAUC
--------------........(((((.(((((((.((((((.....)))))).)))).))).(((((.....)))))-.-..........)-))))....... ( -19.50)
>consensus
CUGCUCCACCUUUCCACGGAAAUUCCCAUGUCCGUUAACUUGCUGAAUAAGUUGGUGGAACAUAUAUAUA___UAU_U_G_GUUUUAUAGGG_GGAGCAGCAUC
(((((((.((((.....((......)).((((((((((((((.....))))))))))).)))..........................)))).))))))).... (-16.64 = -19.94 +   3.30)

alignment

secondary structure

dotplot

Window 7

Location	4,813,334 – 4,813,435
Length	101
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	76.10
Mean single sequence MFE	-23.46
Consensus MFE	-12.05
Energy contribution	-15.18
Covariance contribution	3.13
Combinations/Pair	1.04
Mean z-score	-1.81
Structure conservation index	0.51
SVM decision value	0.24
SVM RNA-class probability	0.647648
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4813334 101 - 22224390
GAUGCUGUUCCCCCCUAUAAAACACUAUAUA---UAUAUAUAUGUUCCACCAACUUAUUCAGCAAGUUAACGGACAUGGGAAUUUCCGUGGAAAUGUGGAGCAG
....(((((((..(((((...(((.(((((.---...))))))))(((...(((((.......)))))...))).))))).(((((....)))))..))))))) ( -22.20)
>DroSec_CAF1 19929 87 - 1
GAUGCUGCUCC-CCCUAUAAAAC-CUAUAUA---UAUAUAUAUGUUCCUCCAACU------------UAACGGACAUGGGAAUUUCCGUGGAAAGGUGGAGCAG
....(((((((-.(((....(((-.(((((.---...))))).)))..(((....------------....)))((((((....))))))...))).))))))) ( -25.50)
>DroSim_CAF1 18613 94 - 1
GAUGCUGCUCC-CCCUAUAAAAC-C-----A---UAUACACAUGUUCCACCAACUUAUUCAGUAAGUUAACGGACAUGGGAAUUUCCGUGGAAAGGUGGAGCAG
....(((((((-.(((......(-(-----(---(.....(((((((....(((((((...)))))))...)))))))((.....))))))..))).))))))) ( -31.00)
>DroEre_CAF1 29345 94 - 1
GAUGCUGCUCC-CCCUAUAAAAC-C-A-------UCUAUUUUUGUUCCAUAAACUUAUUCAGCAAGUUAACGGACAUGGGAAUUUCCGAGGAAAGGUGGAGCAG
....(((((((-.(((.(((((.-.-.-------.....)))))((((...(((((.......)))))..((((.((....)).)))).))))))).))))))) ( -25.40)
>DroYak_CAF1 20372 87 - 1
GAUGCUGUUCC-CCCUUUUAAAC-U-ACAUAUAAACUAUAUCUGUUCCGUGAACUUAUUCAGCAAGCUAACGGACAUGGGAAUUUCCGAG--------------
((....(((((-(..........-.-(((.(((.....))).)))(((((...(((.......)))...)))))...)))))).))....-------------- ( -13.20)
>consensus
GAUGCUGCUCC_CCCUAUAAAAC_C_A_AUA___UAUAUAUAUGUUCCACCAACUUAUUCAGCAAGUUAACGGACAUGGGAAUUUCCGUGGAAAGGUGGAGCAG
....(((((((.((...............................(((...(((((.......)))))...)))((((((....))))))....)).))))))) (-12.05 = -15.18 +   3.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:38 2006