Locus 6800

Sequence ID	X_DroMel_CAF1
Location	16,924,258 – 16,924,364
Length	106
Max. P	0.754260

overview

Window 6

Location	16,924,258 – 16,924,364
Length	106
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.04
Mean single sequence MFE	-27.92
Consensus MFE	-14.91
Energy contribution	-17.67
Covariance contribution	2.76
Combinations/Pair	1.07
Mean z-score	-1.86
Structure conservation index	0.53
SVM decision value	0.11
SVM RNA-class probability	0.586264
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16924258 106 + 22224390
AAGGUGUUUAUAUUUAGUAAAAGUAUUGCGUUCG----------UAUAUAUGUACAUAUCUGCGAUUCGCACAUGUUCUGUCUAAAUUGUAUUCGUCAUUGGGUC----GGCUGACCCAA
..(..(..(((((((((......(((((((.(((----------((.((((....)))).)))))..)))).)))......))))).))))..)..).(((((((----....))))))) ( -28.10)
>DroSec_CAF1 11122 101 + 1
-AGUUGUUUAUAUUUAGUCAGAGUAUUGCGUUCA----------UAUAU--------AUCUGCGAUCCGCACAUGUUCUGUCUAAAUUGUAUUCGUCAUUGGGUCGGUUGGCUGACCCAA
-.(.((..(((((((((.((((((((((((.((.----------.....--------......))..)))).)))))))).))))).))))..)).).(((((((((....))))))))) ( -30.90)
>DroSim_CAF1 12415 102 + 1
AAGUUGUUUAUAUUUAGUCAGAGUAUUGCGUUCA----------UAUAU--------AUCUGGGAUCCGCACAUGUUCUGUCUAAAUUGUAUUCGUCAUUGGAUCGGUCGGCUGACCCAA
..(.((..(((((((((.((((((((((((((((----------.....--------...))))...)))).)))))))).))))).))))..)).).((((.((((....)))).)))) ( -24.70)
>DroEre_CAF1 11506 108 + 1
AAGGUGUUUAUCUUUCGACAGAGUAUUGCGAACAUUAGUGCGUAUGUAU--------AUCUGCGAUCCGCACAUGUUCUGUCUAAAUUGUAUUCGUCAUUGGGUC----GGCUGACCCAA
(((((....)))))..(((.((((((.((((((((..(((((..((((.--------...))))...))))))))))).)).......))))))))).(((((((----....))))))) ( -29.10)
>DroYak_CAF1 10966 107 + 1
AAGAUGAUAAGCUUUUAAAAGAGUGCUGCCUAUAU-AUUGUAUGUAUAU--------GUAUGCGAUUCGCACAUGUUCUGUCUAAAUUGUAUUCGUCAUUGGGUC----GGCUGACCCAA
..(((((...((.((((..((((((((((.(((((-((.......))))--------))).)))....))))....)))...))))..))..))))).(((((((----....))))))) ( -26.80)
>consensus
AAGGUGUUUAUAUUUAGUCAGAGUAUUGCGUUCA__________UAUAU________AUCUGCGAUCCGCACAUGUUCUGUCUAAAUUGUAUUCGUCAUUGGGUC____GGCUGACCCAA
..((((..(((((((((.((((..((((((.....................................)))).))..)))).))))).))))..)))).(((((((........))))))) (-14.91 = -17.67 +   2.76)

alignment

secondary structure

dotplot

Window 7

Location	16,924,258 – 16,924,364
Length	106
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.04
Mean single sequence MFE	-22.20
Consensus MFE	-14.91
Energy contribution	-15.43
Covariance contribution	0.52
Combinations/Pair	1.15
Mean z-score	-1.73
Structure conservation index	0.67
SVM decision value	0.48
SVM RNA-class probability	0.754260
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16924258 106 - 22224390
UUGGGUCAGCC----GACCCAAUGACGAAUACAAUUUAGACAGAACAUGUGCGAAUCGCAGAUAUGUACAUAUAUA----------CGAACGCAAUACUUUUACUAAAUAUAAACACCUU
(((((((....----)))))))...........((((((..((((....((((..(((...((((....))))...----------))).))))....)))).))))))........... ( -21.20)
>DroSec_CAF1 11122 101 - 1
UUGGGUCAGCCAACCGACCCAAUGACGAAUACAAUUUAGACAGAACAUGUGCGGAUCGCAGAU--------AUAUA----------UGAACGCAAUACUCUGACUAAAUAUAAACAACU-
(((((((........)))))))...........((((((.((((.....((((.....((...--------.....----------))..))))....)))).))))))..........- ( -23.60)
>DroSim_CAF1 12415 102 - 1
UUGGGUCAGCCGACCGAUCCAAUGACGAAUACAAUUUAGACAGAACAUGUGCGGAUCCCAGAU--------AUAUA----------UGAACGCAAUACUCUGACUAAAUAUAAACAACUU
(((((((........)))))))...........((((((.((((.....((((..........--------.....----------....))))....)))).))))))........... ( -20.11)
>DroEre_CAF1 11506 108 - 1
UUGGGUCAGCC----GACCCAAUGACGAAUACAAUUUAGACAGAACAUGUGCGGAUCGCAGAU--------AUACAUACGCACUAAUGUUCGCAAUACUCUGUCGAAAGAUAAACACCUU
(((((((....----)))))))....................(((((((((((..........--------.......)))))..)))))).........((((....))))........ ( -27.73)
>DroYak_CAF1 10966 107 - 1
UUGGGUCAGCC----GACCCAAUGACGAAUACAAUUUAGACAGAACAUGUGCGAAUCGCAUAC--------AUAUACAUACAAU-AUAUAGGCAGCACUCUUUUAAAAGCUUAUCAUCUU
(((((((....----))))))).((.((...................((((((...)))))).--------.............-...(((((...............))))))).)).. ( -18.36)
>consensus
UUGGGUCAGCC____GACCCAAUGACGAAUACAAUUUAGACAGAACAUGUGCGGAUCGCAGAU________AUAUA__________UGAACGCAAUACUCUGACUAAAUAUAAACAACUU
(((((((........)))))))............(((((.((((.....((((.....................................))))....)))).)))))............ (-14.91 = -15.43 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:16 2006