Locus 2499

Sequence ID	3L_DroMel_CAF1
Location	7,029,336 – 7,029,472
Length	136
Max. P	0.632280

overview

Window 8

Location	7,029,336 – 7,029,438
Length	102
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	86.67
Mean single sequence MFE	-19.45
Consensus MFE	-14.78
Energy contribution	-14.22
Covariance contribution	-0.56
Combinations/Pair	1.26
Mean z-score	-1.51
Structure conservation index	0.76
SVM decision value	-0.02
SVM RNA-class probability	0.524216
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7029336 102 - 23771897
GUCUAUCUUGGGAACGAUAGGAAUCCCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAAAUAAAAGCUUUUGGGGUAUAUAACAUUAUCCUGGAAAAUAU-----GUA
...((((((((((.(....)...))))).......))))).(((((((.....)))))))......(((..(((((........)))))..))).....-----... ( -20.61)
>DroSec_CAF1 42091 100 - 1
GUCUAUCUUGGGAAAGAUAGAAAUCCCAUUUAAAAGGAUAAAUUUCAUGAGUUGUGAGAUAAAAGCUUUUGGAAUAUAUAAAAUUAUAC--GGAAUUAU-----GUA
.((((((((....))))))))..(((..((((((((.....(((((((.....))))))).....)))))))).((((......)))).--))).....-----... ( -20.10)
>DroSim_CAF1 74057 100 - 1
GUCUAUCUUGGGAAAGAUAGAAAUCCCAUUAGAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCUUUUGGAAUAUAUAAAAUUAUCC--GGAAUUAU-----GUA
.((((((((....)))))))).....(((......((((((.(((.(((((((.(((((.......))))).)))))))))).))))))--......))-----).. ( -22.20)
>DroEre_CAF1 50545 100 - 1
GUCUGUCUUGGGAAAGAUAGAAAUCCCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCUUUUAGAAUGUAUACAAUUAACC--CGAAAUAU-----GUA
.((((((((....)))))))).....((((..(((((....(((((((.....))))))).....)))))..)))).............--........-----... ( -17.90)
>DroYak_CAF1 49853 105 - 1
GUCUAUGUUGGAAAAGAUGGAAAUCUCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCUUUUAAAAUGUAUAAAUAUAUUC--GGAAAUAUAUUCGGUA
.(((((.((....)).))))).(((((((.......((......)).......)))))))......((((..((((((....)))))).--.))))........... ( -16.44)
>consensus
GUCUAUCUUGGGAAAGAUAGAAAUCCCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCUUUUGGAAUAUAUAAAAUUAUCC__GGAAAUAU_____GUA
.((((((((....))))))))......(((..(((((....(((((((.....))))))).....)))))..)))................................ (-14.78 = -14.22 +  -0.56)

alignment

secondary structure

dotplot

Window 9

Location	7,029,371 – 7,029,472
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	91.29
Mean single sequence MFE	-21.56
Consensus MFE	-17.88
Energy contribution	-19.04
Covariance contribution	1.16
Combinations/Pair	1.13
Mean z-score	-1.37
Structure conservation index	0.83
SVM decision value	0.20
SVM RNA-class probability	0.632280
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7029371 101 - 23771897
GCAUAUUCAUUCAUGCUAUUUGUUCGACGUAAUUGUCUAUCUUGGGAACGAUAGGAAUCCCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAAAUAAAAGCU
.....(((((.((((..((((((((((((....)))).....(((((.(....)...))))).......))))))))..))))....)))))......... ( -23.10)
>DroSec_CAF1 42124 101 - 1
GCAUAUUCAUUCAUGCAAUUUGUUCGCCGUAAUUGUCUAUCUUGGGAAAGAUAGAAAUCCCAUUUAAAAGGAUAAAUUUCAUGAGUUGUGAGAUAAAAGCU
.((((...(((((((.(((((((((....(((.((((((((((....)))))))).....)).)))...))))))))).)))))))))))........... ( -24.70)
>DroSim_CAF1 74090 101 - 1
GCAUAUUCAUUCAUGCAAUUUGUUCGACGUAAUUGUCUAUCUUGGGAAAGAUAGAAAUCCCAUUAGAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCU
.....(((((.((((.(((((((((((((....))))..((((((((..........)))))..)))..))))))))).))))....)))))......... ( -24.20)
>DroEre_CAF1 50578 101 - 1
GUACAUUCAUUCCAGUUAUUUGUUCGCCGUAAUUGUCUGUCUUGGGAAAGAUAGAAAUCCCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCU
.....(((((..(((..((((((((....((((..((((((((....))))))))......))))....))))))))..)...))..)))))......... ( -19.30)
>DroYak_CAF1 49891 101 - 1
GCAUAUUCAUUCAAAUAAUUUGUUCGCCUUAAUUGUCUAUGUUGGAAAAGAUGGAAAUCUCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCU
.....(((((.((...(((((((((...(((((..(((((.((....)).)))))......)))))...))))))))).....))..)))))......... ( -16.50)
>consensus
GCAUAUUCAUUCAUGCAAUUUGUUCGCCGUAAUUGUCUAUCUUGGGAAAGAUAGAAAUCCCAUUAAAAAGGAUAAAUUUCAUGUGUUGUGAGAUAAAAGCU
.....(((((.((((.(((((((((....((((..((((((((....))))))))......))))....))))))))).))))....)))))......... (-17.88 = -19.04 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:12 2006