Locus 4150

Sequence ID	X_DroMel_CAF1
Location	10,888,520 – 10,888,615
Length	95
Max. P	0.981804

overview

Window 5

Location	10,888,520 – 10,888,615
Length	95
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	69.51
Mean single sequence MFE	-21.96
Consensus MFE	-12.83
Energy contribution	-13.35
Covariance contribution	0.52
Combinations/Pair	1.12
Mean z-score	-2.03
Structure conservation index	0.58
SVM decision value	1.90
SVM RNA-class probability	0.981804
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10888520 95 + 22224390
ACGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGAUGAACAACA-AAGGUGGCAG--AGAGAAUGAGGAGG--UGAUGUGCGGGGUAUAUGGAUAU--------
.((((((((......)))))))).((((((((((............((-....)).((.--......))......--..))))))))))...........-------- ( -20.10)
>DroSim_CAF1 45456 96 + 1
ACGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGAUGAACAACA-AAGGCGAUGGUCAGGGGUUUGGGAGG--U-AGGUGCGGGAUAUAUGGAUAU--------
.((((((((......))))))))..(((((((.((....(((((..(.-..(((....))).)..))))).....--)-).)))))))............-------- ( -22.00)
>DroEre_CAF1 19443 87 + 1
AUGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGAAGAACAACA-AAGAAGUUGG---------------A--U---GUGCGGGGUAUAUGGAUAUAUGGGUAU
..(((((((......)))))))((((.(((((((.........((((.-.....)))).---------------)--)---))))))))).................. ( -23.50)
>DroYak_CAF1 43259 82 + 1
GCGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGAUAAACAACA-AAGGAGGAGG---------------G--UGAGGUGCGGGUUAUAUGGAUAU--------
(((((((((......))))))))).(((((((...........(....-..).......---------------.--....)))))))............-------- ( -18.10)
>DroAna_CAF1 53677 92 + 1
CAUUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAGGACUAAAAUGUCCUGAAGAUG-----AAAAUGCACAGGCAUCGGGUGUGGGGAAAAUGGA-----------
(((((((...((...((((..((((...((((((.(((((......)))))....)))-----....)))...))))))))..))...)))))))..----------- ( -26.10)
>consensus
ACGUUUCAAAACUAAUUGAAAUGCCCUCGCACAUAAAGAUGAACAACA_AAGGAGAUGG________U____AGG__U_AGGUGCGGGGUAUAUGGAUAU________
.((((((((......)))))))).((((((((.................................................))))))))................... (-12.83 = -13.35 +   0.52)

alignment

secondary structure

dotplot

Window 6

Location	10,888,520 – 10,888,615
Length	95
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	69.51
Mean single sequence MFE	-17.13
Consensus MFE	-10.05
Energy contribution	-10.33
Covariance contribution	0.28
Combinations/Pair	1.07
Mean z-score	-1.92
Structure conservation index	0.59
SVM decision value	1.60
SVM RNA-class probability	0.966709
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10888520 95 - 22224390
--------AUAUCCAUAUACCCCGCACAUCA--CCUCCUCAUUCUCU--CUGCCACCUU-UGUUGUUCAUCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACGU
--------...........((((((((((..--......((......--..........-...)).........))))))).)))..((((((......))))))... ( -15.94)
>DroSim_CAF1 45456 96 - 1
--------AUAUCCAUAUAUCCCGCACCU-A--CCUCCCAAACCCCUGACCAUCGCCUU-UGUUGUUCAUCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACGU
--------.....................-.--.....................(((((-(((....(((....))).)))))))).((((((......))))))... ( -14.80)
>DroEre_CAF1 19443 87 - 1
AUACCCAUAUAUCCAUAUACCCCGCAC---A--U---------------CCAACUUCUU-UGUUGUUCUUCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACAU
...................((((((((---(--(---------------.((((.....-.)))).........))))))).)))..((((((......))))))... ( -19.10)
>DroYak_CAF1 43259 82 - 1
--------AUAUCCAUAUAACCCGCACCUCA--C---------------CCUCCUCCUU-UGUUGUUUAUCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACGC
--------............(((((((....--.---------------..........-................))))).))((.((((((......)))))).)) ( -12.98)
>DroAna_CAF1 53677 92 - 1
-----------UCCAUUUUCCCCACACCCGAUGCCUGUGCAUUUU-----CAUCUUCAGGACAUUUUAGUCCUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAAAUG
-----------..(((((((...((....(((((((.(((((...-----.......(((((......)))))...))))).))))))).......))...))))))) ( -22.82)
>consensus
________AUAUCCAUAUACCCCGCACCU_A__CCU____A________CCACCUCCUU_UGUUGUUCAUCUUUAUGUGCGAGGGCAUUUCAAUUAGUUUUGAAACGU
...................((((((((.................................................))))).)))..((((((......))))))... (-10.05 = -10.33 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:34 2006