Locus 4628

Sequence ID 3R_DroMel_CAF1
Location 12,175,716 – 12,175,881
Length 165
Max. P 0.689491
window7606 window7607

overview

Window 6

Location 12,175,716 – 12,175,807
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 81.49
Mean single sequence MFE -15.93
Consensus MFE -12.35
Energy contribution -13.16
Covariance contribution 0.81
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.77
SVM decision value 0.33
SVM RNA-class probability 0.689491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12175716 91 - 27905053
UUGAAUUCUGUAUACCCACACUUCCUAUAUAUGUAUAGUUCCUAACUAAAAUAUUUACCAUAGCGAAGGUCGCAGAUUUGUGCGUCCUUCU
..(((..(((((((.................)))))))))).......................(((((.((((......)))).))))). ( -15.63)
>DroSec_CAF1 484 83 - 1
CAGAAUUCUGUAUACCCACACU--------GUAUAUAGUCACUAACUAAAAUAUUUACCAUAGCGAAGGUCGCAGAUUUGCGCGUCCUUCU
.......((((((((.......--------))))))))..........................(((((.(((........))).))))). ( -18.60)
>DroSim_CAF1 485 83 - 1
CAGAAUUCUGUAUACCCACACU--------GUACAUAGUUCCUAACUAAAAUAUUUACCAUAGCGAAGGUCGCAGAUUUGCGCGUCCUUCU
..(((((.((((((.......)--------))))).))))).......................(((((.(((........))).))))). ( -19.50)
>DroYak_CAF1 481 76 - 1
CAGAACACUGUAUG---------------UUUGUAUAUAUCCUAACUAAAAUAUUUACCAUAACGAAGAUCGCAGAUUUGCGCGUCCUUCU
(((....)))...(---------------((.(((.((((..........)))).)))...)))((((..(((........)))..)))). ( -10.00)
>consensus
CAGAAUUCUGUAUACCCACACU________GUAUAUAGUUCCUAACUAAAAUAUUUACCAUAGCGAAGGUCGCAGAUUUGCGCGUCCUUCU
.......((((((((...............))))))))..........................(((((.(((........))).))))). (-12.35 = -13.16 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,175,784 – 12,175,881
Length 97
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 85.71
Mean single sequence MFE -21.70
Consensus MFE -17.01
Energy contribution -16.80
Covariance contribution -0.21
Combinations/Pair 1.13
Mean z-score -1.77
Structure conservation index 0.78
SVM decision value 0.05
SVM RNA-class probability 0.556393
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12175784 97 + 27905053
AAGUGUGGGUAUACAGAAUUCAAUAUGAAGCACCUAGCAUUUCUUGGCAAAAGGAAAGA------AUUCAGGAAUACAAUUUCGCAUGUAUGCUUUACUAUUA
.((((.(((((((((((((((........((.....)).((((((......))))))))------))))..(((......)))...))))))))))))).... ( -23.60)
>DroSec_CAF1 545 102 + 1
-AGUGUGGGUAUACAGAAUUCUGUAUGAAGCAUUUAGCAUUUCUUAGCAAAAGAAAAGAAUCUGAAUUCAGGAAUUCAAUUUUGUAUGUAUGCUUUAUUAUUA
-(((((...(((((((....)))))))..))))).((((((((((.....))))))(((((.((((((....))))))))))).......))))......... ( -21.40)
>DroSim_CAF1 546 102 + 1
-AGUGUGGGUAUACAGAAUUCUGUAUGAAGCAUUUAGCAUUUCUUAGCCAAAGAAAAGAAUCUGAAUUUAGGAACUAAAUUUUUUAUGUAUGCUUUACUAUUA
-((((.(((((((((((.((((.......((.....)).((((((.....)))))))))))))((((((((...)))))))).....)))))))))))).... ( -20.10)
>consensus
_AGUGUGGGUAUACAGAAUUCUGUAUGAAGCAUUUAGCAUUUCUUAGCAAAAGAAAAGAAUCUGAAUUCAGGAAUUCAAUUUUGUAUGUAUGCUUUACUAUUA
.((((.(((((((((((((((........((.....)).((((((.....)))))).......))))))..(((......)))...))))))))))))).... (-17.01 = -16.80 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:02 2006