Locus 5957

Sequence ID	3L_DroMel_CAF1
Location	15,968,284 – 15,968,394
Length	110
Max. P	0.960385

overview

Window 4

Location	15,968,284 – 15,968,394
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	92.27
Mean single sequence MFE	-25.40
Consensus MFE	-19.04
Energy contribution	-19.36
Covariance contribution	0.32
Combinations/Pair	1.13
Mean z-score	-2.98
Structure conservation index	0.75
SVM decision value	1.51
SVM RNA-class probability	0.960385
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15968284 110 + 23771897
ACAAACACAACAGACAGGCACAACUGGCGUGAAAAUAACACUAUUAUUAAGUAUUGUUAUUCAUCGCAGUGAAAACCUGUGCAAGCCCAUUUAUUUAAAUGUAAAUGCAU
.............(((((....((((.(((((..((((((.((((....)))).))))))))).)))))).....)))))(((....(((((....)))))....))).. ( -23.50)
>DroSec_CAF1 70876 110 + 1
ACAAACACAACAGACAGGCACAACUGGCGUGAAAAUAACACUAUUAUUAAGUAUUGUUAUUCGUCGCAGUGAAAACCUGUGCAAGCCCAUUUAUUUAAAUGUGAAUGCAA
.............(((((....((((.(((((..((((((.((((....)))).))))))))).)))))).....)))))(((..(.(((((....))))).)..))).. ( -24.90)
>DroSim_CAF1 70110 110 + 1
ACAAACACAACAGACAGGCACAACUGGCGUGAAAAUAACACUAUUAUUAAGUGUUGUUAUUCGUCGCAGUGAAAACCUGUGCAAGCCCAUUUAUUUAAAUGUGAAUGCAU
.............(((((....((((.(((((((((((((((.......))))))))).)))).)))))).....)))))(((..(.(((((....))))).)..))).. ( -30.00)
>DroEre_CAF1 67500 110 + 1
ACAAACACAACAGACAGCCACAACUGGCGCGAAAAUAACACUAUUAUUAAGAAUUGUUAUUCAUCGCAGUGAAAGCCUGUGCAAGACCAUUUAUUUAAAUGUAAACGCAC
.....(((........((((....))))((((.(((((((..(((......))))))))))..)))).))).......((((.....(((((....))))).....)))) ( -22.10)
>DroYak_CAF1 78528 110 + 1
ACAAACACAACAGGCAGACACAACUGCCGCGAAAAUAACACUAUUAUUAUGUAUUGUUAUACAUCGCAGUGAAAACCUGUGCAAGCCCAUUCAUUUGAAUGUUAACUCAC
.....(((....(((((......)))))((((..((((((.(((......))).))))))...)))).))).......(((......(((((....)))))......))) ( -26.50)
>consensus
ACAAACACAACAGACAGGCACAACUGGCGUGAAAAUAACACUAUUAUUAAGUAUUGUUAUUCAUCGCAGUGAAAACCUGUGCAAGCCCAUUUAUUUAAAUGUAAAUGCAC
.....(((......(((......)))..((((.(((((((.(((......))).)))))))..)))).))).......(((((....(((((....)))))....))))) (-19.04 = -19.36 +   0.32)

alignment

secondary structure

dotplot

Window 5

Location	15,968,284 – 15,968,394
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	92.27
Mean single sequence MFE	-27.05
Consensus MFE	-21.77
Energy contribution	-21.81
Covariance contribution	0.04
Combinations/Pair	1.12
Mean z-score	-1.67
Structure conservation index	0.80
SVM decision value	0.65
SVM RNA-class probability	0.810438
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15968284 110 - 23771897
AUGCAUUUACAUUUAAAUAAAUGGGCUUGCACAGGUUUUCACUGCGAUGAAUAACAAUACUUAAUAAUAGUGUUAUUUUCACGCCAGUUGUGCCUGUCUGUUGUGUUUGU
..(((....(((((....)))))....)))((((((....((((((.((((....((((((.......))))))...)))))).))))...))))))............. ( -25.90)
>DroSec_CAF1 70876 110 - 1
UUGCAUUCACAUUUAAAUAAAUGGGCUUGCACAGGUUUUCACUGCGACGAAUAACAAUACUUAAUAAUAGUGUUAUUUUCACGCCAGUUGUGCCUGUCUGUUGUGUUUGU
..(((..((((.........((((((..(((((.......((((((..((((((((.((........)).))))))))...)).)))))))))..))))))))))..))) ( -25.11)
>DroSim_CAF1 70110 110 - 1
AUGCAUUCACAUUUAAAUAAAUGGGCUUGCACAGGUUUUCACUGCGACGAAUAACAACACUUAAUAAUAGUGUUAUUUUCACGCCAGUUGUGCCUGUCUGUUGUGUUUGU
..(((..((((.........((((((..(((((.......((((((..(((....((((((.......))))))...))).)).)))))))))..))))))))))..))) ( -26.31)
>DroEre_CAF1 67500 110 - 1
GUGCGUUUACAUUUAAAUAAAUGGUCUUGCACAGGCUUUCACUGCGAUGAAUAACAAUUCUUAAUAAUAGUGUUAUUUUCGCGCCAGUUGUGGCUGUCUGUUGUGUUUGU
(((((....(((((....)))))....)))))((((.......((((.((((((((..............))))))))))))((((....)))).))))........... ( -27.54)
>DroYak_CAF1 78528 110 - 1
GUGAGUUAACAUUCAAAUGAAUGGGCUUGCACAGGUUUUCACUGCGAUGUAUAACAAUACAUAAUAAUAGUGUUAUUUUCGCGGCAGUUGUGUCUGCCUGUUGUGUUUGU
(..(((...(((((....))))).)))..)(((((....(((.((((...((((((.((........)).))))))..))))(((((......)))))....)))))))) ( -30.40)
>consensus
AUGCAUUCACAUUUAAAUAAAUGGGCUUGCACAGGUUUUCACUGCGAUGAAUAACAAUACUUAAUAAUAGUGUUAUUUUCACGCCAGUUGUGCCUGUCUGUUGUGUUUGU
.............(((((((((((((..(((((.......((((((..((((((((..............))))))))...)).)))))))))..))))))).)))))). (-21.77 = -21.81 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:07 2006