Locus 8667

Sequence ID	X_DroMel_CAF1
Location	21,954,399 – 21,954,515
Length	116
Max. P	0.917775

overview

Window 9

Location	21,954,399 – 21,954,515
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.82
Mean single sequence MFE	-25.81
Consensus MFE	-14.50
Energy contribution	-17.70
Covariance contribution	3.20
Combinations/Pair	1.09
Mean z-score	-2.30
Structure conservation index	0.56
SVM decision value	1.12
SVM RNA-class probability	0.917775
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21954399 116 + 22224390
UACUACAACACAACAUGCUGCAGGCAUUAGUUUAGCCGA--CU--UGGUCGUUGACUUUAAUCCUCGGCCAAAUAGUCCCAACAAAAAAUUGCUUCUAUACCGACUUUACAUUUUGUGUU
......(((((((.(((..((((((.........)))((--((--((((((..((......))..))))))...))))............))).((......)).....))).))))))) ( -25.20)
>DroSec_CAF1 12667 98 + 1
UACUACAACACAAUAUGUGGCAGGCAUUAGUUUAGCCGAUAC----------------------UCGGCUAAAUUGUCCCAACAAAAAAUUGCUUCUAUGCCGGCUUUACUUUUUGUCUU
.........((((...(((((.(((((.((((((((((....----------------------.))))))).((((....))))......)))...))))).)))..))...))))... ( -25.10)
>DroSim_CAF1 4342 118 + 1
UAAUACAACACAAUAUGUUGCAGGCAUUAGUUUAGCCGAUACU--GGCUCGUUGACUUUAAUCCUCGGCUAAAUUGUCCCAACAAAAAAUUGCUUCUAUGCCGGCUUUACUUUUUGUCUU
.....(((((.....))))).(((((..(((..(((((....(--(((.((..((......))..))))))....................((......)))))))..)))...))))). ( -26.20)
>DroEre_CAF1 4253 119 + 1
UAAAACAACACAAAAUGUAGCAGGUAUUAGUUUACCCGAUACUUCUGGUCAUUGACUUUAAUCCUCAGCCAAAUUGUCGCAACAAAAA-UUCCAUCUAUGCCGGCUUUACUUUUUGUGUU
......(((((((((.((((.(((....((((.(((.((....)).)))....)))).....))))((((...((((....))))...-...((....))..)))).))).))))))))) ( -22.60)
>DroYak_CAF1 11009 120 + 1
UAAUACAACACAUAAUGUAGCAGGUAAUAGGUUGCCCGAUACUUUUGGUCGUUGACUUUAAUCCUCAGCCAAAUUGACCGAACAAAAACUUCCAUCUAUGCCUGCUCUACUUUUUGUGUU
......((((((....((((((((((.(((((...........((((((((((((.........)))))......)))))))...........)))))))))))))..))....)))))) ( -29.95)
>consensus
UAAUACAACACAAAAUGUAGCAGGCAUUAGUUUAGCCGAUACU__UGGUCGUUGACUUUAAUCCUCGGCCAAAUUGUCCCAACAAAAAAUUGCUUCUAUGCCGGCUUUACUUUUUGUGUU
......(((((((...(((((.((((.((((((((((((.......((((...)))).......)))))))))(((......)))..........))))))).)))..))...))))))) (-14.50 = -17.70 +   3.20)

alignment

secondary structure

dotplot

Window 0

Location	21,954,399 – 21,954,515
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.82
Mean single sequence MFE	-29.48
Consensus MFE	-17.96
Energy contribution	-19.23
Covariance contribution	1.27
Combinations/Pair	1.21
Mean z-score	-1.99
Structure conservation index	0.61
SVM decision value	0.65
SVM RNA-class probability	0.810318
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21954399 116 - 22224390
AACACAAAAUGUAAAGUCGGUAUAGAAGCAAUUUUUUGUUGGGACUAUUUGGCCGAGGAUUAAAGUCAACGACCA--AG--UCGGCUAAACUAAUGCCUGCAGCAUGUUGUGUUGUAGUA
(((((((.((((...((.(((((((.(((((....))))).......(((((((((.(((....)))..(.....--.)--))))))))))).))))).)).)))).)))))))...... ( -30.20)
>DroSec_CAF1 12667 98 - 1
AAGACAAAAAGUAAAGCCGGCAUAGAAGCAAUUUUUUGUUGGGACAAUUUAGCCGA----------------------GUAUCGGCUAAACUAAUGCCUGCCACAUAUUGUGUUGUAGUA
...((((........((.(((((((.(((((....))))).......((((((((.----------------------....)))))))))).))))).))(((.....))))))).... ( -26.80)
>DroSim_CAF1 4342 118 - 1
AAGACAAAAAGUAAAGCCGGCAUAGAAGCAAUUUUUUGUUGGGACAAUUUAGCCGAGGAUUAAAGUCAACGAGCC--AGUAUCGGCUAAACUAAUGCCUGCAACAUAUUGUGUUGUAUUA
..........(((...((((((.((((....)))).)))))).....(((((((((.(((....))).((.....--.)).)))))))))....))).((((((((...))))))))... ( -29.30)
>DroEre_CAF1 4253 119 - 1
AACACAAAAAGUAAAGCCGGCAUAGAUGGAA-UUUUUGUUGCGACAAUUUGGCUGAGGAUUAAAGUCAAUGACCAGAAGUAUCGGGUAAACUAAUACCUGCUACAUUUUGUGUUGUUUUA
(((((((((.........(((((.(((..((-(((((...((.(.....).)).)))))))...))).))).))....(((.((((((......)))))).))).)))))))))...... ( -29.20)
>DroYak_CAF1 11009 120 - 1
AACACAAAAAGUAGAGCAGGCAUAGAUGGAAGUUUUUGUUCGGUCAAUUUGGCUGAGGAUUAAAGUCAACGACCAAAAGUAUCGGGCAACCUAUUACCUGCUACAUUAUGUGUUGUAUUA
((((((.((.((..((((((......(((..(((....(((((((.....)))))))(((....))))))..)))........((....)).....)))))))).)).))))))...... ( -31.90)
>consensus
AACACAAAAAGUAAAGCCGGCAUAGAAGCAAUUUUUUGUUGGGACAAUUUGGCCGAGGAUUAAAGUCAACGACCA__AGUAUCGGCUAAACUAAUGCCUGCAACAUAUUGUGUUGUAUUA
(((((((...((...((.(((((((...((((.....))))......(((((((((........(((...)))........)))))))))))).)))).)).))...)))))))...... (-17.96 = -19.23 +   1.27)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:52 2006