Locus 9416

Sequence ID	3R_DroMel_CAF1
Location	24,942,034 – 24,942,125
Length	91
Max. P	0.999490

overview

Window 5

Location	24,942,034 – 24,942,125
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	92.53
Mean single sequence MFE	-23.28
Consensus MFE	-16.94
Energy contribution	-17.58
Covariance contribution	0.64
Combinations/Pair	1.05
Mean z-score	-2.12
Structure conservation index	0.73
SVM decision value	0.20
SVM RNA-class probability	0.629991
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24942034 91 + 27905053
UUUCCUAUUGAACGCUGUCCAACACUGACGACAUCUAUUUUUUCGAUAUCAGCCUAUCGUUUAGCAAUAGGUGUCCUCAUAUCGAUAGCGA
............(((((((......(((.((((((((((.((.(((((......)))))...)).)))))))))).)))....))))))). ( -27.50)
>DroSec_CAF1 3078 91 + 1
UUUCCUAUUGAACGCUGUCCAACACUGACGACAGCUAUUUUUUCGAUACCAGCCUAUCGUUCUGCAAUAGGUGUCCUGAUAUCGAUAGCGA
............(((((((((....))..((((.(((((....(((((......)))))......))))).))))........))))))). ( -21.90)
>DroSim_CAF1 3069 91 + 1
UUUUCUAUUGAGCGCUGUCUAACACUGACGACAGCUAUUUUUUCGAUACCAGCCUAUCGUUCUGCAAUAGGUGUCCUGAUAUCGAUAGCGA
...........((((((((..........)))))).......((((((.((((((((.(.....).)))))....))).))))))..)).. ( -23.90)
>DroEre_CAF1 3129 91 + 1
UUUGCUAUUGAACGCUGUCCAACACUGACGACAGCUCUUUUUCCGAUACCGGCCUAUCGUUCUGCAAUAGGUGUCCUGAUAUCGAUAACGA
.(((.((((((..((((((..........)))))).........((((((.((..........))....))))))......)))))).))) ( -20.90)
>DroYak_CAF1 2968 91 + 1
UUUGCUAUUGAACGCUGUCCAACACUGACAACAGCUCUUUUUCCGAUACCGGCCUAUCGUUCUGCAAUAGGUGUCCUGGUAUCGAUAACGA
.............(((((.((....))...)))))........((((((((((((((.(.....).)))))....)))))))))....... ( -22.20)
>consensus
UUUCCUAUUGAACGCUGUCCAACACUGACGACAGCUAUUUUUUCGAUACCAGCCUAUCGUUCUGCAAUAGGUGUCCUGAUAUCGAUAGCGA
....(((((((..((((((..........)))))).........((((((.((..........))....))))))......)))))))... (-16.94 = -17.58 +   0.64)

alignment

secondary structure

dotplot

Window 6

Location	24,942,034 – 24,942,125
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	92.53
Mean single sequence MFE	-29.96
Consensus MFE	-25.06
Energy contribution	-25.14
Covariance contribution	0.08
Combinations/Pair	1.17
Mean z-score	-3.38
Structure conservation index	0.84
SVM decision value	3.65
SVM RNA-class probability	0.999490
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24942034 91 - 27905053
UCGCUAUCGAUAUGAGGACACCUAUUGCUAAACGAUAGGCUGAUAUCGAAAAAAUAGAUGUCGUCAGUGUUGGACAGCGUUCAAUAGGAAA
.((((.(((((((...(((.(((((((.....)))))))..((((((.........))))))))).)))))))..))))............ ( -26.40)
>DroSec_CAF1 3078 91 - 1
UCGCUAUCGAUAUCAGGACACCUAUUGCAGAACGAUAGGCUGGUAUCGAAAAAAUAGCUGUCGUCAGUGUUGGACAGCGUUCAAUAGGAAA
((.(((((((((((((....(((((((.....))))))))))))))))).......((((((..........))))))......))))).. ( -30.30)
>DroSim_CAF1 3069 91 - 1
UCGCUAUCGAUAUCAGGACACCUAUUGCAGAACGAUAGGCUGGUAUCGAAAAAAUAGCUGUCGUCAGUGUUAGACAGCGCUCAAUAGAAAA
..((..((((((((((....(((((((.....))))))))))))))))).......((((((..........))))))))........... ( -31.30)
>DroEre_CAF1 3129 91 - 1
UCGUUAUCGAUAUCAGGACACCUAUUGCAGAACGAUAGGCCGGUAUCGGAAAAAGAGCUGUCGUCAGUGUUGGACAGCGUUCAAUAGCAAA
..((((((((((((.((...(((((((.....))))))))))))))))(((.....((((((..........)))))).))).)))))... ( -28.80)
>DroYak_CAF1 2968 91 - 1
UCGUUAUCGAUACCAGGACACCUAUUGCAGAACGAUAGGCCGGUAUCGGAAAAAGAGCUGUUGUCAGUGUUGGACAGCGUUCAAUAGCAAA
..((((((((((((.((...(((((((.....))))))))))))))))).....((((.((((((.......))))))))))..))))... ( -33.00)
>consensus
UCGCUAUCGAUAUCAGGACACCUAUUGCAGAACGAUAGGCUGGUAUCGAAAAAAUAGCUGUCGUCAGUGUUGGACAGCGUUCAAUAGCAAA
......((((((((((....(((((((.....))))))))))))))))).......((((((..........))))))............. (-25.06 = -25.14 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:13 2006