Locus 5014

Sequence ID	3L_DroMel_CAF1
Location	13,766,275 – 13,766,476
Length	201
Max. P	0.926999

overview

Window 3

Location	13,766,275 – 13,766,366
Length	91
Sequences	4
Columns	97
Reading direction	forward
Mean pairwise identity	93.44
Mean single sequence MFE	-27.83
Consensus MFE	-24.81
Energy contribution	-24.88
Covariance contribution	0.06
Combinations/Pair	1.03
Mean z-score	-1.64
Structure conservation index	0.89
SVM decision value	0.51
SVM RNA-class probability	0.764422
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13766275 91 + 23771897
GGUUGCCUCACCCUUAACAUCUGACUUGUAUUUGGCGUGAGUUGGUCG------GUUGUUGUUCGUUACAUGAAAGGGCAACUUUGUAACAACAGCA
(..(..(((((((...(((.......)))....)).)))))..)..).------..(((((((.((((((....(((....)))))))))))))))) ( -26.30)
>DroSec_CAF1 12877 91 + 1
GGUUGCCUCACCCUUAACAUCUGACUUGUAUUCGGCGUGAGUUGGUCG------GUUGUUGUUCGUUACAUGAAAGGGCAACUUUGUAACAACAGCA
(..(..(((((((...(((.......)))....)).)))))..)..).------..(((((((.((((((....(((....)))))))))))))))) ( -25.60)
>DroEre_CAF1 12136 97 + 1
GGUUCCCUCACCCUUAACAUCUGACUUGUAUUUGGCAUGAGUUGGUCGGGCUGGGUUGUUGUUCGUUACAUGAAAGGGCAACUUUGUAACAACAGCA
.........((((....(..(..(((..(.......)..)))..)..)....))))(((((((.((((((....(((....)))))))))))))))) ( -27.40)
>DroYak_CAF1 10161 91 + 1
GGCUCCCUCACCCUUAACAUCUGACUUGUGUUUGGCGUGAGUUGGUCG------CUUGUUGUUCGUUACAUGAAAGGGCAACUUUGUAACAACAGCA
((((..(((((((..(((((.......))))).)).)))))..)))).------..(((((((.((((((....(((....)))))))))))))))) ( -32.00)
>consensus
GGUUCCCUCACCCUUAACAUCUGACUUGUAUUUGGCGUGAGUUGGUCG______GUUGUUGUUCGUUACAUGAAAGGGCAACUUUGUAACAACAGCA
((((..(((((((...(((.......)))....)).)))))..)))).........(((((((.((((((....(((....)))))))))))))))) (-24.81 = -24.88 +   0.06)

alignment

secondary structure

dotplot

Window 4

Location	13,766,366 – 13,766,476
Length	110
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	96.38
Mean single sequence MFE	-30.42
Consensus MFE	-26.06
Energy contribution	-27.46
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.86
SVM decision value	1.18
SVM RNA-class probability	0.926999
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13766366 110 - 23771897
GGCUAACAAGUUGGGCAAGGGGUAGCUUAAGCGUCUAUCAACACGGUUUGUUGGAUUGCUUACUGGUUUUUAUUAUAAAACUGUGUACUUUGUU-UUGUUGUAUUUGGCCG
(((((((((...((((((((((((((......).))))).(((((((((....((..(((....)))..))......))))))))).)))))))-)..))))...))))). ( -31.60)
>DroSec_CAF1 12968 110 - 1
GGCUAACAAGUUGGGCAAGGGGUAGCUUAACCGUCUAUCAACACGGUUUGUUGGAUUGCUUACUGGUUUUUAUUAUAAAACUGUGUACUUUGUU-UUGUUGUAUUUGGCCG
(((((((((...((((((((((((((......).))))).(((((((((....((..(((....)))..))......))))))))).)))))))-)..))))...))))). ( -31.60)
>DroSim_CAF1 8202 110 - 1
GGCUAACAAGUUGGGCAAGGGGUAGCUUAACCGUCUAUCAACACGGUUUGUUGGAUUGCUUACUGGUUUUUAUUAUAAAACUGUGUACUUUGUU-UUGUUGUAUUUGGCCG
(((((((((...((((((((((((((......).))))).(((((((((....((..(((....)))..))......))))))))).)))))))-)..))))...))))). ( -31.60)
>DroEre_CAF1 12233 110 - 1
GGCAAACAAGCUGGGCAAGGGGUAGCUUAACCGUCUAUCAACACGGCUUGUUGGAUUGCUUACUGGUUUUUAUUAUAAAACUGUGUACACUGUU-UUGUUGUAUUUGGCCG
(((((((((((((.......((((((......).)))))....))))))))....)))))....((((..(((.(((((((.((....)).)))-)))).)))...)))). ( -29.10)
>DroYak_CAF1 10252 111 - 1
GGCUAACAAGUUGGCCAAGGGGUAGCUUAACCGUCUAUCAACACGGUUUGUUGCAUUGCUUACUGGUUUUUAUUAUAAAACUGUGUACUUUAUUUUUGUUGUAUUUGGCCG
((((((..(((.(((.((...(((((..((((((........)))))).))))).))))).)))((((((......))))))..((((..((....))..)))))))))). ( -28.20)
>consensus
GGCUAACAAGUUGGGCAAGGGGUAGCUUAACCGUCUAUCAACACGGUUUGUUGGAUUGCUUACUGGUUUUUAUUAUAAAACUGUGUACUUUGUU_UUGUUGUAUUUGGCCG
(((((((((....(((((((((((((......).))))).(((((((((....((..(((....)))..))......))))))))).)))))))....))))...))))). (-26.06 = -27.46 +   1.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:38 2006