Locus 5566

Sequence ID	X_DroMel_CAF1
Location	14,384,289 – 14,384,379
Length	90
Max. P	0.941792

overview

Window 3

Location	14,384,289 – 14,384,379
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.40
Mean single sequence MFE	-24.06
Consensus MFE	-16.32
Energy contribution	-16.57
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-2.68
Structure conservation index	0.68
SVM decision value	1.32
SVM RNA-class probability	0.941792
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14384289 90 + 22224390
-------------CA-C---------CCAUCUACCA--GCCAACCGG---CUGCU--UGUGGUUGCGCCGCCCAUUUCAUGUAACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
-------------((-.---------((((....((--(((....))---)))..--.)))).)).((((..(((((((((...))))))))).(((((((...)))))))))))..... ( -25.60)
>DroSec_CAF1 100365 90 + 1
-------------CA-C---------CCAUCUUCCA--GCCAACCGG---CUGCU--UGUGGUUGCGCCACCCAUUUCAUGUAACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
-------------((-.---------((((....((--(((....))---)))..--.)))).)).((((..(((((((((...))))))))).(((((((...)))))))))))..... ( -26.30)
>DroSim_CAF1 94452 90 + 1
-------------CA-C---------CCAUCUUGCA--GCCAACCGG---CUGCU--UGUGGUUGCGCCGCCCAUUUCAUGUAACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
-------------((-.---------((((...(((--(((....))---)))).--.)))).)).((((..(((((((((...))))))))).(((((((...)))))))))))..... ( -30.10)
>DroEre_CAF1 89367 99 + 1
-------------CGCCCACUUCCGCCCA-UUUCCA--CCCAACCGA---CUGCU--UGUGGUUGUGCCGCCCAUUUCAUGUAACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
-------------................-......--..(((((.(---(....--.)))))))(((((..(((((((((...))))))))).(((((((...)))))))))))).... ( -20.90)
>DroYak_CAF1 101969 94 + 1
-------------CAAC---------CCAUUUUCCA--CCCAAAAGGGCUUUGCU--UGUGGUUGUGCCGCCCAUUUCAUGUAACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
-------------((((---------(((.......--(((....))).......--)).)))))(((((..(((((((((...))))))))).(((((((...)))))))))))).... ( -24.94)
>DroAna_CAF1 165834 113 + 1
CCUUUUACUCCACCACCCACCAC---CCACCACCCACCACCAACCAC---CCACUCGUGUGGUUGCGCCGCCCGU-UCAUCUUACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
.......................---..............(((((((---.(....).))))))).((((....(-((((.....)))))....(((((((...)))))))))))..... ( -16.50)
>consensus
_____________CA_C_________CCAUCUUCCA__GCCAACCGG___CUGCU__UGUGGUUGCGCCGCCCAUUUCAUGUAACAUGAAAUGUUAAUGAGAAAUUUAUUAUGGCAAAUA
........................................((((((.............)))))).((((..(((((((((...))))))))).(((((((...)))))))))))..... (-16.32 = -16.57 +   0.25)

alignment

secondary structure

dotplot

Window 4

Location	14,384,289 – 14,384,379
Length	90
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.40
Mean single sequence MFE	-27.93
Consensus MFE	-14.15
Energy contribution	-14.76
Covariance contribution	0.61
Combinations/Pair	1.05
Mean z-score	-2.14
Structure conservation index	0.51
SVM decision value	0.01
SVM RNA-class probability	0.540529
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14384289 90 - 22224390
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUUACAUGAAAUGGGCGGCGCAACCACA--AGCAG---CCGGUUGGC--UGGUAGAUGG---------G-UG-------------
(((((((((..................(((((((((...)))))))))..((((((.......--.)).)---)))......--))))))))).---------.-..------------- ( -26.10)
>DroSec_CAF1 100365 90 - 1
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUUACAUGAAAUGGGUGGCGCAACCACA--AGCAG---CCGGUUGGC--UGGAAGAUGG---------G-UG-------------
...................((((((..(((((((((...))))))))).((((.....)))).--..(((---((....)))--))...)))))---------)-..------------- ( -25.80)
>DroSim_CAF1 94452 90 - 1
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUUACAUGAAAUGGGCGGCGCAACCACA--AGCAG---CCGGUUGGC--UGCAAGAUGG---------G-UG-------------
...................((((((..(((((((((...))))))))).(((((.(((((...--.....---..)))))))--)))..)))))---------)-..------------- ( -28.50)
>DroEre_CAF1 89367 99 - 1
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUUACAUGAAAUGGGCGGCACAACCACA--AGCAG---UCGGUUGGG--UGGAAA-UGGGCGGAAGUGGGCG-------------
.....(((.......(((((.((((..(((((((((...))))))))).......(((((((.--....)---).)))))))--))))))-)..((....)).))).------------- ( -29.00)
>DroYak_CAF1 101969 94 - 1
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUUACAUGAAAUGGGCGGCACAACCACA--AGCAAAGCCCUUUUGGG--UGGAAAAUGG---------GUUG-------------
....((((.((((.........)))).(((((((((...)))))))))...))))(((((.((--......((((....)))--)......)))---------))))------------- ( -26.10)
>DroAna_CAF1 165834 113 - 1
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUAAGAUGA-ACGGGCGGCGCAACCACACGAGUGG---GUGGUUGGUGGUGGGUGGUGG---GUGGUGGGUGGUGGAGUAAAAGG
..((..((((.....((..(((((((.(..(((((.....))))-)...((.((.(((((((........---))))))))).)).).))))))---)..))..))))..))........ ( -32.10)
>consensus
UAUUUGCCAUAAUAAAUUUCUCAUUAACAUUUCAUGUUACAUGAAAUGGGCGGCGCAACCACA__AGCAG___CCGGUUGGC__UGGAAGAUGG_________G_UG_____________
....((((.((((.........)))).(((((((((...)))))))))...))))(((((...............)))))........................................ (-14.15 = -14.76 +   0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:05 2006