Locus 8973

Sequence ID	3R_DroMel_CAF1
Location	24,070,587 – 24,070,696
Length	109
Max. P	0.983713

overview

Window 1

Location	24,070,587 – 24,070,696
Length	109
Sequences	3
Columns	109
Reading direction	forward
Mean pairwise identity	95.11
Mean single sequence MFE	-34.30
Consensus MFE	-32.62
Energy contribution	-33.07
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-4.33
Structure conservation index	0.95
SVM decision value	1.95
SVM RNA-class probability	0.983713
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24070587 109 + 27905053
GCUUCUGCUCCAGCUUUUGCUUCUGCUUCUGCUGGCGCUGUCAUAAUGCUGCAAUUGUUCAUUAUCCACUAAUGAACAAAAAGUGUGUGAAAAUCGCACAGACAAAAAC
......((.(((((....((....))....))))).))((((.....(((....((((((((((.....))))))))))..)))(((((.....))))).))))..... ( -35.50)
>DroSec_CAF1 265334 103 + 1
GCUUGUGCUCCAGCUUUUGCUU------CUGCUGGCGCUGUCAUAAUACUGCAAUUGUUCAUUAUCCACUAAUGAACAAAAAGUGUGUGAAAAUCGCACAGACAAAAAC
......((.(((((........------..))))).))((((............((((((((((.....))))))))))....((((((.....))))))))))..... ( -31.90)
>DroSim_CAF1 265278 109 + 1
GCUUCUGCUCCAGCUUUUGCUUCUGCUUCUGCUGGCGCUGUCAUAAUGCUGCAAUUGUUCAUUAUCCACUAAUGAACAAAAAGUGUGUGAAAAUCGCACAGACAAAAAC
......((.(((((....((....))....))))).))((((.....(((....((((((((((.....))))))))))..)))(((((.....))))).))))..... ( -35.50)
>consensus
GCUUCUGCUCCAGCUUUUGCUUCUGCUUCUGCUGGCGCUGUCAUAAUGCUGCAAUUGUUCAUUAUCCACUAAUGAACAAAAAGUGUGUGAAAAUCGCACAGACAAAAAC
......((.(((((....((....))....))))).))((((.....(((....((((((((((.....))))))))))..)))(((((.....))))).))))..... (-32.62 = -33.07 +   0.45)

alignment

secondary structure

dotplot

Window 2

Location	24,070,587 – 24,070,696
Length	109
Sequences	3
Columns	109
Reading direction	reverse
Mean pairwise identity	95.11
Mean single sequence MFE	-30.70
Consensus MFE	-27.94
Energy contribution	-27.72
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-2.08
Structure conservation index	0.91
SVM decision value	0.61
SVM RNA-class probability	0.799341
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24070587 109 - 27905053
GUUUUUGUCUGUGCGAUUUUCACACACUUUUUGUUCAUUAGUGGAUAAUGAACAAUUGCAGCAUUAUGACAGCGCCAGCAGAAGCAGAAGCAAAAGCUGGAGCAGAAGC
(((((((((.(((((.....).........((((((((((.....)))))))))).....))))...))).((.(((((....((....))....))))).)))))))) ( -31.80)
>DroSec_CAF1 265334 103 - 1
GUUUUUGUCUGUGCGAUUUUCACACACUUUUUGUUCAUUAGUGGAUAAUGAACAAUUGCAGUAUUAUGACAGCGCCAGCAG------AAGCAAAAGCUGGAGCACAAGC
.....((((.(((.(.....).)))(((..((((((((((.....))))))))))....))).....))))((.(((((..------........))))).))...... ( -28.50)
>DroSim_CAF1 265278 109 - 1
GUUUUUGUCUGUGCGAUUUUCACACACUUUUUGUUCAUUAGUGGAUAAUGAACAAUUGCAGCAUUAUGACAGCGCCAGCAGAAGCAGAAGCAAAAGCUGGAGCAGAAGC
(((((((((.(((((.....).........((((((((((.....)))))))))).....))))...))).((.(((((....((....))....))))).)))))))) ( -31.80)
>consensus
GUUUUUGUCUGUGCGAUUUUCACACACUUUUUGUUCAUUAGUGGAUAAUGAACAAUUGCAGCAUUAUGACAGCGCCAGCAGAAGCAGAAGCAAAAGCUGGAGCAGAAGC
.....((((.(((((.....).........((((((((((.....)))))))))).....))))...))))((.(((((................))))).))...... (-27.94 = -27.72 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:55 2006