Locus 3216

Sequence ID	3L_DroMel_CAF1
Location	9,386,764 – 9,386,860
Length	96
Max. P	0.999971

overview

Window 7

Location	9,386,764 – 9,386,860
Length	96
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	90.82
Mean single sequence MFE	-30.92
Consensus MFE	-25.28
Energy contribution	-25.52
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-3.22
Structure conservation index	0.82
SVM decision value	3.24
SVM RNA-class probability	0.998832
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9386764 96 + 23771897
-----GCAUUCGCUGUGCGCUGAAAUGAACUGAUGUUGUCCACCAGCUGAAGCAUUUCAGCGCACAAUUCGAACCGCACUUAUCAUGUAUAAUGUUGCUCU
-----((.((((.((((((((((((((..((...((((.....))))...))))))))))))))))...))))..)).........(((......)))... ( -31.50)
>DroSec_CAF1 9703 101 + 1
CUUACGCAUUCGCUGUGCGCUGAAAUGAACUGAUGUUGUCCACCAGUUGAAGCAUUUCAGCGCACAAGUCGAACCGCACUUAUCAUGUAUAAUGUUGCUCU
.....((.((((((((((((((((((((((((.((.....)).)))))....))))))))))))).)).))))..)).........(((......)))... ( -33.70)
>DroSim_CAF1 9201 95 + 1
------CAUUCACUGUGCGCUGAAAUGAACUGAUGUUGUCCACCAGCUGAAGCAUUUCAGCGCACAAGUCGAACCGCACUUAUCAUGUAUAAUGUUGCUCU
------..(((((((((((((((((((..((...((((.....))))...))))))))))))))).))).)))..(((.....(((.....))).)))... ( -30.60)
>DroEre_CAF1 10100 98 + 1
CUUACGCAUUCGCUGUGCGCUGAAAUGAACUGAU---GUCCACUAGCUGAAGCAUUUCAGCGCACAAGUCGAACCGCACAUAUCAUGUAUAAUGUUGCUCC
.....((.(((((((((((((((((((..((...---((......))...))))))))))))))).)).))))..)).........(((......)))... ( -29.80)
>DroYak_CAF1 7571 98 + 1
CUUAAGCAUUCGCUGUGCACUGAAAUGAACUGAU---GCCCACCAGCUGAAGCAUUUCAGCGCACAAGUCGAAGCGCACAUAUCAUGUAUAAUGUUGCUCU
.....((.((((((((((.((((((((..((...---((......))...)))))))))).)))).)).))))))((((((..........))).)))... ( -29.00)
>consensus
CUUA_GCAUUCGCUGUGCGCUGAAAUGAACUGAUGUUGUCCACCAGCUGAAGCAUUUCAGCGCACAAGUCGAACCGCACUUAUCAUGUAUAAUGUUGCUCU
........((((.((((((((((((((..(((...........)))......))))))))))))))...))))..(((.....(((.....))).)))... (-25.28 = -25.52 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	9,386,764 – 9,386,860
Length	96
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	90.82
Mean single sequence MFE	-38.72
Consensus MFE	-36.50
Energy contribution	-37.22
Covariance contribution	0.72
Combinations/Pair	1.09
Mean z-score	-4.58
Structure conservation index	0.94
SVM decision value	5.06
SVM RNA-class probability	0.999971
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9386764 96 - 23771897
AGAGCAACAUUAUACAUGAUAAGUGCGGUUCGAAUUGUGCGCUGAAAUGCUUCAGCUGGUGGACAACAUCAGUUCAUUUCAGCGCACAGCGAAUGC-----
...(((...((((.....)))).))).(((((...((((((((((((((....((((((((.....)))))))))))))))))))))).)))))..----- ( -41.40)
>DroSec_CAF1 9703 101 - 1
AGAGCAACAUUAUACAUGAUAAGUGCGGUUCGACUUGUGCGCUGAAAUGCUUCAACUGGUGGACAACAUCAGUUCAUUUCAGCGCACAGCGAAUGCGUAAG
...(((...((((.....)))).))).(((((.((.(((((((((((((....((((((((.....))))))))))))))))))))))))))))....... ( -41.60)
>DroSim_CAF1 9201 95 - 1
AGAGCAACAUUAUACAUGAUAAGUGCGGUUCGACUUGUGCGCUGAAAUGCUUCAGCUGGUGGACAACAUCAGUUCAUUUCAGCGCACAGUGAAUG------
...(((...((((.....)))).))).((((.(((.(((((((((((((....((((((((.....)))))))))))))))))))))))))))).------ ( -40.10)
>DroEre_CAF1 10100 98 - 1
GGAGCAACAUUAUACAUGAUAUGUGCGGUUCGACUUGUGCGCUGAAAUGCUUCAGCUAGUGGAC---AUCAGUUCAUUUCAGCGCACAGCGAAUGCGUAAG
.......................(((((((((.((.((((((((((((((....))....((((---....))))))))))))))))))))))).)))).. ( -33.40)
>DroYak_CAF1 7571 98 - 1
AGAGCAACAUUAUACAUGAUAUGUGCGCUUCGACUUGUGCGCUGAAAUGCUUCAGCUGGUGGGC---AUCAGUUCAUUUCAGUGCACAGCGAAUGCUUAAG
...(((.(((..........))))))((((((.((.(((((((((((((....(((((((....---)))))))))))))))))))))))))).))..... ( -37.10)
>consensus
AGAGCAACAUUAUACAUGAUAAGUGCGGUUCGACUUGUGCGCUGAAAUGCUUCAGCUGGUGGACAACAUCAGUUCAUUUCAGCGCACAGCGAAUGC_UAAG
...(((...((((.....)))).))).(((((...((((((((((((((....((((((((.....)))))))))))))))))))))).)))))....... (-36.50 = -37.22 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:16 2006