Locus 2429

Sequence ID	3R_DroMel_CAF1
Location	6,768,882 – 6,768,991
Length	109
Max. P	0.947407

overview

Window 1

Location	6,768,882 – 6,768,991
Length	109
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	86.69
Mean single sequence MFE	-30.24
Consensus MFE	-24.80
Energy contribution	-25.12
Covariance contribution	0.32
Combinations/Pair	1.14
Mean z-score	-1.74
Structure conservation index	0.82
SVM decision value	0.65
SVM RNA-class probability	0.811626
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6768882 109 + 27905053
AUGUACCAUAAAACAAACCAACGAGCCCAUGUGGAUUGGGUUGGUUUGCUUCCAAAAAA-----------AAAGGAGAAUACACUGGGAUGAAGUGCGUGCCCAGGACACUUAUUUUGCG
.((((........(((((((....(((((.......)))))))))))).((((......-----------...))))..))))((((((((.....))).)))))............... ( -27.30)
>DroSec_CAF1 33106 118 + 1
AUGUACCAUAAAACAAACCAACGAGCCCAUGUGGAUUGGGUUGGUUUGCUUCAAAAAAA--AAAAAAAGAAAAGGAGAAUACACUGGGAUGGGGUGCGUGCCCAGGACACUUAUUCUCUG
.............(((((((....(((((.......))))))))))))...........--............((((((((..((((((((.....))).)))))......)))))))). ( -31.10)
>DroSim_CAF1 37601 120 + 1
AUGUACCAUAAAACAAACCAACGAGCCCAUGUGGAUUGGGUUGGUUUGCUUCAAAAAAAAAAAAAAAAGAAAAGGAGAAUACACUGGGAUGGGGUGCGUGCCCAGGACACUUAUUCUCUG
.............(((((((....(((((.......)))))))))))).........................((((((((..((((((((.....))).)))))......)))))))). ( -31.10)
>DroEre_CAF1 17921 107 + 1
AUGUACCAUAAAACAAACCAACGAGCCCAUGUGGAUUGGGUUCGUUUGCUUAAAAAAAA--A-----------GGAGAAUACACUGGGAUGGAGUGCGUGCCCAGGACACUUAUUCUUCG
...................((((((((((.......)))))))))).............--.-----------((((((((..((((((((.....))).)))))......)))))))). ( -31.40)
>DroYak_CAF1 29970 118 + 1
AUGUACCAUAAAACAAACCAACGAGCCCAUGUGAAAUGUGUUGGUUUGCUUCAAAAAAA--AAAAGAAUGGAAGGCGAACACUCUGGCAGGGAGUGCGUGCCCAGGACACUUAUUCGUCG
.....((((....((((((((((....(((.....)))))))))))))(((........--..))).))))..((((((((((((.....)))))).((((....).)))...)))))). ( -30.30)
>consensus
AUGUACCAUAAAACAAACCAACGAGCCCAUGUGGAUUGGGUUGGUUUGCUUCAAAAAAA__AAAA_AA__AAAGGAGAAUACACUGGGAUGGAGUGCGUGCCCAGGACACUUAUUCUCCG
.............(((((((....(((((.......)))))))))))).........................((((((((..((((((((.....))).)))))......)))))))). (-24.80 = -25.12 +   0.32)

alignment

secondary structure

dotplot

Window 2

Location	6,768,882 – 6,768,991
Length	109
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.69
Mean single sequence MFE	-29.75
Consensus MFE	-23.90
Energy contribution	-24.26
Covariance contribution	0.36
Combinations/Pair	1.10
Mean z-score	-2.15
Structure conservation index	0.80
SVM decision value	1.37
SVM RNA-class probability	0.947407
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6768882 109 - 27905053
CGCAAAAUAAGUGUCCUGGGCACGCACUUCAUCCCAGUGUAUUCUCCUUU-----------UUUUUUGGAAGCAAACCAACCCAAUCCACAUGGGCUCGUUGGUUUGUUUUAUGGUACAU
..(((((...((((.....))))(((((.......)))))..........-----------..)))))(((((((((((((....(((....)))...)))))))))))))......... ( -28.50)
>DroSec_CAF1 33106 118 - 1
CAGAGAAUAAGUGUCCUGGGCACGCACCCCAUCCCAGUGUAUUCUCCUUUUCUUUUUUU--UUUUUUUGAAGCAAACCAACCCAAUCCACAUGGGCUCGUUGGUUUGUUUUAUGGUACAU
..((((((..((((.....))))((((.........)))))))))).............--......((((((((((((((....(((....)))...))))))))))))))........ ( -31.20)
>DroSim_CAF1 37601 120 - 1
CAGAGAAUAAGUGUCCUGGGCACGCACCCCAUCCCAGUGUAUUCUCCUUUUCUUUUUUUUUUUUUUUUGAAGCAAACCAACCCAAUCCACAUGGGCUCGUUGGUUUGUUUUAUGGUACAU
..((((((..((((.....))))((((.........)))))))))).....................((((((((((((((....(((....)))...))))))))))))))........ ( -31.20)
>DroEre_CAF1 17921 107 - 1
CGAAGAAUAAGUGUCCUGGGCACGCACUCCAUCCCAGUGUAUUCUCC-----------U--UUUUUUUUAAGCAAACGAACCCAAUCCACAUGGGCUCGUUGGUUUGUUUUAUGGUACAU
...(((((..((((.....))))(((((.......))))))))))((-----------.--.......(((((.(((((.((((.......)))).))))).)))))......))..... ( -25.24)
>DroYak_CAF1 29970 118 - 1
CGACGAAUAAGUGUCCUGGGCACGCACUCCCUGCCAGAGUGUUCGCCUUCCAUUCUUUU--UUUUUUUGAAGCAAACCAACACAUUUCACAUGGGCUCGUUGGUUUGUUUUAUGGUACAU
..........((((((.((((..((((((.......))))))..))))...........--......((((((((((((((.(((.....))).....)))))))))))))).)).)))) ( -32.60)
>consensus
CGAAGAAUAAGUGUCCUGGGCACGCACUCCAUCCCAGUGUAUUCUCCUUU__UU_UUUU__UUUUUUUGAAGCAAACCAACCCAAUCCACAUGGGCUCGUUGGUUUGUUUUAUGGUACAU
...(((((..((((.....))))((((.........)))))))))......................((((((((((((((....(((....)))...))))))))))))))........ (-23.90 = -24.26 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:48 2006