Locus 3385

Sequence ID	3R_DroMel_CAF1
Location	9,151,378 – 9,151,471
Length	93
Max. P	0.944104

overview

Window 6

Location	9,151,378 – 9,151,471
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	93.55
Mean single sequence MFE	-17.64
Consensus MFE	-14.40
Energy contribution	-14.60
Covariance contribution	0.20
Combinations/Pair	1.12
Mean z-score	-1.96
Structure conservation index	0.82
SVM decision value	1.34
SVM RNA-class probability	0.944104
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9151378 93 + 27905053
AUGCAUUCUUUGACAGUUAGGCCUUAAGCCCCAUAUUUAUGCAUCAAGCAUCAUAAUUAUGGCAACUGUCAGCUAUUUAUAAUUCAGUCAAAA
.........(((((((((.(((.....)))(((((.(((((.((.....))))))).))))).)))))))))..................... ( -20.70)
>DroSec_CAF1 42476 93 + 1
AUGCAUUCUUUGACAGUUAGGCCUUAAGCCCCUUCUUUAUGCAUCAUGCAUCAUAAUUAUGGCAACUGUCAGCUAUUUAUAAUUCAGUCAAAA
.........(((((((((.(((.....)))........((((.....))))............)))))))))..................... ( -16.40)
>DroSim_CAF1 37297 93 + 1
AUGCAUUCUUUGACAGUUAGGCCUUAAGCCCCUUCUUUAUGCAUCAUGCAUCAUAAUUAUGGCAACUGUCAGCUAUUUAUAAUUCAGUCAAAA
.........(((((((((.(((.....)))........((((.....))))............)))))))))..................... ( -16.40)
>DroEre_CAF1 47862 93 + 1
AUGCAUUCUCUGACAGUUAGGCCCUAAGCCCCUUCUUUAUGCAUCAUGCAUCAAAAUUAUGGCAUCUGUCAGCUAUUUAUAAUUCAGUCAAAU
.........(((((((....(((.(((...........((((.....)))).....))).)))..)))))))..................... ( -16.59)
>DroYak_CAF1 41663 93 + 1
AUGAAUUCUCUGACAGCUAGGCUUUAAGCCCCUUCUUUAUUUAUCAUGCAUCAUUAUUAUGGCAACUGUCAGCUAUUUAUAAUUCAGUCAAAU
((((((...(((((((...(((.....)))................(((..(((....)))))).)))))))..))))))............. ( -18.10)
>consensus
AUGCAUUCUUUGACAGUUAGGCCUUAAGCCCCUUCUUUAUGCAUCAUGCAUCAUAAUUAUGGCAACUGUCAGCUAUUUAUAAUUCAGUCAAAA
.........(((((((((.(((.....)))........((((.....))))............)))))))))..................... (-14.40 = -14.60 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	9,151,378 – 9,151,471
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	93.55
Mean single sequence MFE	-20.86
Consensus MFE	-16.66
Energy contribution	-17.14
Covariance contribution	0.48
Combinations/Pair	1.06
Mean z-score	-1.69
Structure conservation index	0.80
SVM decision value	0.53
SVM RNA-class probability	0.770862
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9151378 93 - 27905053
UUUUGACUGAAUUAUAAAUAGCUGACAGUUGCCAUAAUUAUGAUGCUUGAUGCAUAAAUAUGGGGCUUAAGGCCUAACUGUCAAAGAAUGCAU
......................((((((((((((((......((((.....))))...)))))(((.....)))))))))))).......... ( -23.10)
>DroSec_CAF1 42476 93 - 1
UUUUGACUGAAUUAUAAAUAGCUGACAGUUGCCAUAAUUAUGAUGCAUGAUGCAUAAAGAAGGGGCUUAAGGCCUAACUGUCAAAGAAUGCAU
......................((((((((............((((.....)))).......((((.....)))))))))))).......... ( -19.20)
>DroSim_CAF1 37297 93 - 1
UUUUGACUGAAUUAUAAAUAGCUGACAGUUGCCAUAAUUAUGAUGCAUGAUGCAUAAAGAAGGGGCUUAAGGCCUAACUGUCAAAGAAUGCAU
......................((((((((............((((.....)))).......((((.....)))))))))))).......... ( -19.20)
>DroEre_CAF1 47862 93 - 1
AUUUGACUGAAUUAUAAAUAGCUGACAGAUGCCAUAAUUUUGAUGCAUGAUGCAUAAAGAAGGGGCUUAGGGCCUAACUGUCAGAGAAUGCAU
.....................(((((((.........((((.((((.....)))).))))..((((.....))))..)))))))......... ( -21.40)
>DroYak_CAF1 41663 93 - 1
AUUUGACUGAAUUAUAAAUAGCUGACAGUUGCCAUAAUAAUGAUGCAUGAUAAAUAAAGAAGGGGCUUAAAGCCUAGCUGUCAGAGAAUUCAU
.......((((((........((((((((((((((....)))..))................((((.....)))))))))))))..)))))). ( -21.40)
>consensus
UUUUGACUGAAUUAUAAAUAGCUGACAGUUGCCAUAAUUAUGAUGCAUGAUGCAUAAAGAAGGGGCUUAAGGCCUAACUGUCAAAGAAUGCAU
......................((((((((............((((.....)))).......((((.....)))))))))))).......... (-16.66 = -17.14 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:42 2006