Locus 9285

Sequence ID	3R_DroMel_CAF1
Location	24,748,927 – 24,749,087
Length	160
Max. P	0.991416

overview

Window 6

Location	24,748,927 – 24,749,047
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.97
Mean single sequence MFE	-33.07
Consensus MFE	-26.20
Energy contribution	-26.44
Covariance contribution	0.24
Combinations/Pair	1.18
Mean z-score	-1.85
Structure conservation index	0.79
SVM decision value	0.84
SVM RNA-class probability	0.863168
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24748927 120 - 27905053
ACAUAGGACGUAGGAUCAGCGGGUCCCAGCGCCCUCCUGGUCAUCCACUCCUCCUGGAAACUAUUAUAUAUCGAUGCUUACAAUUGUUGCUAAUAAGUUAAACAAAUCACCUACGUCCGC
.....(((((((((...(((((((.((((.......))))..))))..(((....))).................))).....((((((((....)))..)))))....))))))))).. ( -33.30)
>DroSec_CAF1 2973 118 - 1
ACAUAGGGCGUAGGAUCAGCGGGUCCUAGCGCCCUCCUGGUCAUCCACUCCUUCUGGAAACUAUUA--UAUCGAUGCUUACAAUGGUAGCUAAUAAGUUAAACAAAUCACCCACGUUCGC
....(((((((((((((....)))))).)))))))..(((...((((.......))))((((((((--(((((.((....)).)))))..)))).))))...........)))....... ( -29.20)
>DroSim_CAF1 2955 118 - 1
ACAUAGGGCGCAGGAUCAGCGGGUCCUAGCGCCCUCCUGGUCAUCCACUCCUUCUGGAAACUAUUA--UAUCGAUGCUUACAAUGGUUGCUAAUGUGUUAAGCAAAUCACCUACGUCCGC
....(((((((((((((....)))))).)))))))...((.(.((((.......))))........--......((((((((.(((...)))...)).))))))..........).)).. ( -33.60)
>DroEre_CAF1 2992 118 - 1
ACAUAGGGCGUAGGAUCAGCGGGCUCUAGCUCCCUCCUGGUCAUCCACUCCUGCUGGAAACUAUUA--CAUCGAUAAUUACAAUGGUUGCUAAUAAGGCAAACAAAUCACCUACGUCUUC
....((((((((((.((((((((.........((....)).........)))))))).........--...............((.(((((.....))))).)).....)))))))))). ( -32.87)
>DroYak_CAF1 2980 118 - 1
ACAUAGGCCGUAGGAUCAGCGGGCCCCAGUGCCCUCCUGGUCAUCCACUCCUCCUGGAAACUAUGG--CAUCGAUGCUUACAAUGGCUGCUAAUAAGGCACACAAAUCACCUACGUCCUC
((.((((((((((((((((.((((......))))..)))))).((((.......))))..))))))--)...((((((......)))((((.....)))).....)))..))).)).... ( -36.40)
>consensus
ACAUAGGGCGUAGGAUCAGCGGGUCCUAGCGCCCUCCUGGUCAUCCACUCCUCCUGGAAACUAUUA__UAUCGAUGCUUACAAUGGUUGCUAAUAAGUUAAACAAAUCACCUACGUCCGC
.....((((((((((((((.((((......))))..)))))).((((.......))))....................................................)))))))).. (-26.20 = -26.44 +   0.24)

alignment

secondary structure

dotplot

Window 7

Location	24,748,967 – 24,749,087
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.00
Mean single sequence MFE	-41.16
Consensus MFE	-34.58
Energy contribution	-35.86
Covariance contribution	1.28
Combinations/Pair	1.12
Mean z-score	-2.20
Structure conservation index	0.84
SVM decision value	2.27
SVM RNA-class probability	0.991416
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24748967 120 - 27905053
CGUGCGUCGCAUGAGCGGAAAACUUAUCAACGGAUUAGCCACAUAGGACGUAGGAUCAGCGGGUCCCAGCGCCCUCCUGGUCAUCCACUCCUCCUGGAAACUAUUAUAUAUCGAUGCUUA
...((((((...(((.(((..........(((..(((......)))..)))..((((((.((((......))))..)))))).))).))).....(....)..........))))))... ( -33.40)
>DroSec_CAF1 3013 118 - 1
CAUGCGUCGCAUGAGCGGAAAGCUUAUCAACGGAUUGGCCACAUAGGGCGUAGGAUCAGCGGGUCCUAGCGCCCUCCUGGUCAUCCACUCCUUCUGGAAACUAUUA--UAUCGAUGCUUA
...((((((.((((((.....))))))....((((.(((((...(((((((((((((....)))))).)))))))..)))))))))..(((....)))........--...))))))... ( -49.10)
>DroSim_CAF1 2995 118 - 1
CAUGCGUCGCAUGAGCGGAAAGCUUAUCAACGGAUUGGCCACAUAGGGCGCAGGAUCAGCGGGUCCUAGCGCCCUCCUGGUCAUCCACUCCUUCUGGAAACUAUUA--UAUCGAUGCUUA
...((((((.((((((.....))))))....((((.(((((...(((((((((((((....)))))).)))))))..)))))))))..(((....)))........--...))))))... ( -51.10)
>DroEre_CAF1 3032 118 - 1
CAUACGUCGCAUGAGCGGAAAACUUAUCAACGGAUUGGCCACAUAGGGCGUAGGAUCAGCGGGCUCUAGCUCCCUCCUGGUCAUCCACUCCUGCUGGAAACUAUUA--CAUCGAUAAUUA
.....((((((.(((.(((......(((....)))((((((...((((.((.(((((....)).))).)).))))..))))))))).))).))).(....).....--....)))..... ( -31.30)
>DroYak_CAF1 3020 118 - 1
CAUGCGUCGCAUGAGCGGAAAACUUAUCAAAGGAUUGGCCACAUAGGCCGUAGGAUCAGCGGGCCCCAGUGCCCUCCUGGUCAUCCACUCCUCCUGGAAACUAUGG--CAUCGAUGCUUA
...((((((..((.((.((...(((....)))..)).)))).....(((((((((((((.((((......))))..)))))).((((.......))))..))))))--)..))))))... ( -40.90)
>consensus
CAUGCGUCGCAUGAGCGGAAAACUUAUCAACGGAUUGGCCACAUAGGGCGUAGGAUCAGCGGGUCCUAGCGCCCUCCUGGUCAUCCACUCCUCCUGGAAACUAUUA__UAUCGAUGCUUA
...((((((.(((..................((((.(((((...(((((((((((((....)))))).)))))))..)))))))))..(((....)))..........)))))))))... (-34.58 = -35.86 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:44 2006