Locus 5898

Sequence ID	X_DroMel_CAF1
Location	15,204,189 – 15,204,283
Length	94
Max. P	0.989493

overview

Window 6

Location	15,204,189 – 15,204,283
Length	94
Sequences	4
Columns	100
Reading direction	forward
Mean pairwise identity	78.87
Mean single sequence MFE	-31.88
Consensus MFE	-20.94
Energy contribution	-20.75
Covariance contribution	-0.19
Combinations/Pair	1.30
Mean z-score	-2.52
Structure conservation index	0.66
SVM decision value	2.17
SVM RNA-class probability	0.989493
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15204189 94 + 22224390
UUAUGGGUUAUGGGUUAUGGGCUAUGGGCUAUGGGCUAUGGGCU----GCAUGUGC--AGCAUGUGCUGUAUGUGCCCUAUGUGCCUUAUGUGCCAGGAG
.(((((.(((((...))))).)))))((((((((((((((((..----((((((((--(((....))))))))))))))))).))).)))).)))..... ( -38.20)
>DroSec_CAF1 24767 80 + 1
UUAUGGGUUA--------------UGGGCUAUGGGUUAUUGGCU----GCAUGUGC--AGCAUGUGCUCUAUGUGCCCUAUGUGCCUCAUGUGCCAGGAG
...(((..((--------------(((((((((((......(((----((....))--)))..(..(.....)..))))))).))).))))..))).... ( -28.80)
>DroSim_CAF1 23834 80 + 1
UUAUGGGUUA--------------UGGGCUAUGGGUUAUUGGCC----GCAUGUGC--AGCAUGUGCUCUAUGUGCCCUAUGUGCCUCAUGUUCUAGGAG
...(((..((--------------((((((((((((...(((.(----(((((...--..))))))..)))...)))).))).))).))))..))).... ( -26.50)
>DroYak_CAF1 24218 100 + 1
UUAUGGGUUCUCGGUUAUGGGUUAUGGGCUAUGGGCUAUGGACUAUGAGCAUGUGCUCGGUGUGUGCCCUAUGUGCCCUAUGUGCUUCAUGUGCCAGGAG
........((..((((((((((...(((((((((((.(((.(((..((((....))))))).))))))).))).)))).....)).))))).)))..)). ( -34.00)
>consensus
UUAUGGGUUA______________UGGGCUAUGGGCUAUGGGCU____GCAUGUGC__AGCAUGUGCUCUAUGUGCCCUAUGUGCCUCAUGUGCCAGGAG
..........................((((((((((...((((.....(((..(((...)))..))).......)))).....))).)))).)))..... (-20.94 = -20.75 +  -0.19)

alignment

secondary structure

dotplot

Window 7

Location	15,204,189 – 15,204,283
Length	94
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	78.87
Mean single sequence MFE	-19.03
Consensus MFE	-10.82
Energy contribution	-11.07
Covariance contribution	0.25
Combinations/Pair	1.09
Mean z-score	-2.04
Structure conservation index	0.57
SVM decision value	0.35
SVM RNA-class probability	0.698702
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15204189 94 - 22224390
CUCCUGGCACAUAAGGCACAUAGGGCACAUACAGCACAUGCU--GCACAUGC----AGCCCAUAGCCCAUAGCCCAUAGCCCAUAACCCAUAACCCAUAA
....(((.......(((.....((((.......((....(((--((....))----))).....)).....))))...)))......))).......... ( -19.72)
>DroSec_CAF1 24767 80 - 1
CUCCUGGCACAUGAGGCACAUAGGGCACAUAGAGCACAUGCU--GCACAUGC----AGCCAAUAACCCAUAGCCCA--------------UAACCCAUAA
....(((...(((.(((.....((((.......))....(((--((....))----)))......))....)))))--------------)...)))... ( -18.60)
>DroSim_CAF1 23834 80 - 1
CUCCUAGAACAUGAGGCACAUAGGGCACAUAGAGCACAUGCU--GCACAUGC----GGCCAAUAACCCAUAGCCCA--------------UAACCCAUAA
..........(((.((......((((.............(((--((....))----)))............)))).--------------...))))).. ( -15.51)
>DroYak_CAF1 24218 100 - 1
CUCCUGGCACAUGAAGCACAUAGGGCACAUAGGGCACACACCGAGCACAUGCUCAUAGUCCAUAGCCCAUAGCCCAUAACCCAUAACCGAGAACCCAUAA
(((.((((.......)).))..((((.....((((.......((((....)))).((.....))))))...)))).............)))......... ( -22.30)
>consensus
CUCCUGGCACAUGAGGCACAUAGGGCACAUAGAGCACAUGCU__GCACAUGC____AGCCAAUAACCCAUAGCCCA______________UAACCCAUAA
......................((((......(((....)))((((....)))).................))))......................... (-10.82 = -11.07 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:08 2006