Locus 3663

Sequence ID	X_DroMel_CAF1
Location	9,798,880 – 9,798,992
Length	112
Max. P	0.984710

overview

Window 4

Location	9,798,880 – 9,798,992
Length	112
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.89
Mean single sequence MFE	-27.13
Consensus MFE	-23.59
Energy contribution	-25.37
Covariance contribution	1.78
Combinations/Pair	1.03
Mean z-score	-3.00
Structure conservation index	0.87
SVM decision value	1.28
SVM RNA-class probability	0.939601
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9798880 112 + 22224390
CCUCUUUGGAUAUCAUAAAAGUAAACAAGCACCAAACUAAAUGUGUUCAACAUGCAAUGCUACAAUGUUUAUCUUUCGAUAAUGCACUGGAACACAGCAUGU--------UCAGAUGACC
..((((((((((((......((......))...........(((((((....((((..((......))(((((....)))))))))...)))))))).))))--------))))).)).. ( -21.00)
>DroSec_CAF1 13552 120 + 1
CCUCUUUGAAUAUCAUAAAAGUAAAAAAGCACCAAACUAAAUGUGUUCAACAUGCAAUGCUACAAUGUUUAUCUUUCGAUAAUGCACUGGAGCACAGCAUGUUGCCUUAUUCAGAUGACC
..((((((((((...............(((((..........)))))((((((((..((((.((.((((((((....))))).))).)).))))..))))))))...)))))))).)).. ( -30.20)
>DroSim_CAF1 14678 120 + 1
CCUCUUUGAAUAUCAUAAAAGUAAAAAAGCACCAAACUAAAUGUGUUCAACAUGCAAUGCUACAAUGUUUAUCUUUCGAUAAUGCACUGGAGCACAGCAUGUUGCCUUAUUCAGAUGACC
..((((((((((...............(((((..........)))))((((((((..((((.((.((((((((....))))).))).)).))))..))))))))...)))))))).)).. ( -30.20)
>consensus
CCUCUUUGAAUAUCAUAAAAGUAAAAAAGCACCAAACUAAAUGUGUUCAACAUGCAAUGCUACAAUGUUUAUCUUUCGAUAAUGCACUGGAGCACAGCAUGUUGCCUUAUUCAGAUGACC
..((((((((((...............(((((..........)))))((((((((..((((.((.((((((((....))))).))).)).))))..))))))))...)))))))).)).. (-23.59 = -25.37 +   1.78)

alignment

secondary structure

dotplot

Window 5

Location	9,798,880 – 9,798,992
Length	112
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.89
Mean single sequence MFE	-35.80
Consensus MFE	-32.99
Energy contribution	-34.10
Covariance contribution	1.11
Combinations/Pair	1.03
Mean z-score	-3.59
Structure conservation index	0.92
SVM decision value	1.98
SVM RNA-class probability	0.984710
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9798880 112 - 22224390
GGUCAUCUGA--------ACAUGCUGUGUUCCAGUGCAUUAUCGAAAGAUAAACAUUGUAGCAUUGCAUGUUGAACACAUUUAGUUUGGUGCUUGUUUACUUUUAUGAUAUCCAAAGAGG
((..(((..(--------((((((.(((((.(((((..(((((....))))).))))).))))).)))))))(((((((((......))))..)))))........)))..))....... ( -32.40)
>DroSec_CAF1 13552 120 - 1
GGUCAUCUGAAUAAGGCAACAUGCUGUGCUCCAGUGCAUUAUCGAAAGAUAAACAUUGUAGCAUUGCAUGUUGAACACAUUUAGUUUGGUGCUUUUUUACUUUUAUGAUAUUCAAAGAGG
..(((.((((((....((((((((.(((((.(((((..(((((....))))).))))).))))).)))))))).....))))))..)))..........(((((.((.....))))))). ( -37.50)
>DroSim_CAF1 14678 120 - 1
GGUCAUCUGAAUAAGGCAACAUGCUGUGCUCCAGUGCAUUAUCGAAAGAUAAACAUUGUAGCAUUGCAUGUUGAACACAUUUAGUUUGGUGCUUUUUUACUUUUAUGAUAUUCAAAGAGG
..(((.((((((....((((((((.(((((.(((((..(((((....))))).))))).))))).)))))))).....))))))..)))..........(((((.((.....))))))). ( -37.50)
>consensus
GGUCAUCUGAAUAAGGCAACAUGCUGUGCUCCAGUGCAUUAUCGAAAGAUAAACAUUGUAGCAUUGCAUGUUGAACACAUUUAGUUUGGUGCUUUUUUACUUUUAUGAUAUUCAAAGAGG
..(((.((((((....((((((((.(((((.(((((..(((((....))))).))))).))))).)))))))).....))))))..)))..........(((((.((.....))))))). (-32.99 = -34.10 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:08 2006