Locus 3630

Sequence ID	2R_DroMel_CAF1
Location	12,027,999 – 12,028,093
Length	94
Max. P	0.909961

overview

Window 6

Location	12,027,999 – 12,028,093
Length	94
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	75.15
Mean single sequence MFE	-25.97
Consensus MFE	-12.95
Energy contribution	-12.04
Covariance contribution	-0.91
Combinations/Pair	1.32
Mean z-score	-1.70
Structure conservation index	0.50
SVM decision value	0.02
SVM RNA-class probability	0.545964
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12027999 94 + 20766785
ACAUGCAAUUAUG--------------UUUUGUG-----------UGCGAUAACUUGUCAUUAUGCAAAAUAUGCUGCAUUAUUUAUAGCAUAAACACAGGCGCUGACAUUGCAUGUCA
(((((((...(((--------------((....(-----------((((((.....))).((((((.(((((........)))))...))))))......)))).)))))))))))).. ( -23.30)
>DroVir_CAF1 31546 102 + 1
ACACGCGUUUAUU----UGAUUCGAUGU-AUUUGGCC------------GUAAGUUGUCAUUAUGCAAAAUAUGUUGCAUUAUUUAUAGCAUAAAUACAGGCGCUGACAUUGCAUGUCU
....(((((....----........(((-(((((((.------------.(((((.......((((((......)))))).)))))..)).))))))))))))).(((((...))))). ( -22.10)
>DroPse_CAF1 80960 107 + 1
ACAUGCAAUUAUUACACUGC-------UUUUGUGG-----UUUUUUGCUAGAGCUUGUCAUUAUGCAAAAUAUGCUGCAUUAUUUAUGGCAUAAACACAGGCGCUGACGUUGCGUGCCG
.((((((((......((..(-------....)..)-----).....(.(((.((((((..((((((.(((((........)))))...))))))..)))))).))).)))))))))... ( -28.80)
>DroMoj_CAF1 37878 115 + 1
ACGCGCGUUUAUU----UGCUUCGAUGUUAUUUGGUCGACUCGAGAGUCGAGAGUUGUCAUUAUGCAAAAUAUGUUGCAUUAUUUAUAGCAUAAAUACAGGCGCUGACAUUGCAUGUCC
..((((.(.((((----((..(((((........)))))((((.....)))).(((((....((((((......)))))).....))))).)))))).).)))).(((((...))))). ( -29.70)
>DroAna_CAF1 24809 93 + 1
ACAUGCCAUUAUG--------------UU-UGUG-----------UGCGAUAACUUGUCAUUAUGCAAAAUAUGCUGCAUUAUUUAUAGCAUAAACACAGGCGCUGACAUUGCAUGUCA
((((((....(((--------------((-...(-----------((((((.....))).((((((.(((((........)))))...))))))......)))).))))).)))))).. ( -22.70)
>DroPer_CAF1 77767 107 + 1
ACAUGCAAUUAUUACACUGC-------UUUUGUGG-----UUUUUCGCUAGAGCUUGUCAUUAUGCAAAAUAUGCUGCAUUAUUUAUGGCAUAAACACAGGCGCUGACGUUGCGUGCCG
.(((((((.......((..(-------....)..)-----)....((.(((.((((((..((((((.(((((........)))))...))))))..)))))).))).)))))))))... ( -29.20)
>consensus
ACAUGCAAUUAUU____UGC_______UUUUGUGG__________UGCGAUAACUUGUCAUUAUGCAAAAUAUGCUGCAUUAUUUAUAGCAUAAACACAGGCGCUGACAUUGCAUGUCA
.((((((((......................((...................))..((((...(((....(((((((.(.....).))))))).......))).))))))))))))... (-12.95 = -12.04 +  -0.91)

alignment

secondary structure

dotplot

Window 7

Location	12,027,999 – 12,028,093
Length	94
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	75.15
Mean single sequence MFE	-22.29
Consensus MFE	-14.73
Energy contribution	-14.68
Covariance contribution	-0.05
Combinations/Pair	1.24
Mean z-score	-1.58
Structure conservation index	0.66
SVM decision value	1.07
SVM RNA-class probability	0.909961
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12027999 94 - 20766785
UGACAUGCAAUGUCAGCGCCUGUGUUUAUGCUAUAAAUAAUGCAGCAUAUUUUGCAUAAUGACAAGUUAUCGCA-----------CACAAAA--------------CAUAAUUGCAUGU
..(((((((((.........(((((....(((....((.((((((......)))))).))....)))....)))-----------)).....--------------....))))))))) ( -22.87)
>DroVir_CAF1 31546 102 - 1
AGACAUGCAAUGUCAGCGCCUGUAUUUAUGCUAUAAAUAAUGCAACAUAUUUUGCAUAAUGACAACUUAC------------GGCCAAAU-ACAUCGAAUCA----AAUAAACGCGUGU
..((((((..(((((.......(((((((...)))))))((((((......))))))..))))).....(------------((......-...))).....----.......)))))) ( -18.20)
>DroPse_CAF1 80960 107 - 1
CGGCACGCAACGUCAGCGCCUGUGUUUAUGCCAUAAAUAAUGCAGCAUAUUUUGCAUAAUGACAAGCUCUAGCAAAAAA-----CCACAAAA-------GCAGUGUAAUAAUUGCAUGU
..(((.((((.(..((.((.(((..((((((...(((((........))))).))))))..))).)).))..)......-----.(((....-------...)))......)))).))) ( -21.00)
>DroMoj_CAF1 37878 115 - 1
GGACAUGCAAUGUCAGCGCCUGUAUUUAUGCUAUAAAUAAUGCAACAUAUUUUGCAUAAUGACAACUCUCGACUCUCGAGUCGACCAAAUAACAUCGAAGCA----AAUAAACGCGCGU
.(((((...))))).((((...((((..((((.......((((((......))))))...........((((((....))))))..............))))----))))...)))).. ( -27.90)
>DroAna_CAF1 24809 93 - 1
UGACAUGCAAUGUCAGCGCCUGUGUUUAUGCUAUAAAUAAUGCAGCAUAUUUUGCAUAAUGACAAGUUAUCGCA-----------CACA-AA--------------CAUAAUGGCAUGU
((((((...))))))..(((((((((((((((.((.....)).)))))....((((((((.....))))).)))-----------...)-))--------------))))..))).... ( -20.80)
>DroPer_CAF1 77767 107 - 1
CGGCACGCAACGUCAGCGCCUGUGUUUAUGCCAUAAAUAAUGCAGCAUAUUUUGCAUAAUGACAAGCUCUAGCGAAAAA-----CCACAAAA-------GCAGUGUAAUAAUUGCAUGU
..(((.((((((..((.((.(((..((((((...(((((........))))).))))))..))).)).))..)).....-----.(((....-------...)))......)))).))) ( -23.00)
>consensus
CGACAUGCAAUGUCAGCGCCUGUGUUUAUGCUAUAAAUAAUGCAGCAUAUUUUGCAUAAUGACAAGUUAUAGCA__________CCACAAAA_______GCA____AAUAAUUGCAUGU
..((((((...((((.......(((((((...)))))))((((((......))))))..))))..((....))........................................)))))) (-14.73 = -14.68 +  -0.05)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:17 2006