Locus 4391

Sequence ID	X_DroMel_CAF1
Location	11,554,111 – 11,554,279
Length	168
Max. P	0.987699

overview

Window 0

Location	11,554,111 – 11,554,229
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.11
Mean single sequence MFE	-36.53
Consensus MFE	-35.33
Energy contribution	-35.67
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.97
SVM decision value	0.68
SVM RNA-class probability	0.820547
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11554111 118 - 22224390
AAAAUGUCGCAAAACAGAUGGGCAUCCGCAUCGAGUAUCGAUGCGAUAUAUCGCACGCAUAUCGCCGCGAGAAAAGGAAGCUAUCUGGGUCUAGCCGACGUUUUGAUGCUCUAU--AGUG
((((((((......(((((((.(.(((((((((.....))))))......((((..((.....)).)))).....))).))))))))((.....))))))))))..........--.... ( -39.20)
>DroSec_CAF1 20344 120 - 1
AAAAUGUCGCAAAACAGAUGGGCAUCCGCAUCGAGUAUCGAUGCGAUACAUCGCACGCAUAUCGCCGCGAGAAAAGGAAGCUAUCUGCGUCUAGCCGACGUUUUAAUGCUCUAUGAACUG
((((((((((....(((((((.(.(((((((((.....))))))......((((..((.....)).)))).....))).))))))))......).)))))))))................ ( -36.90)
>DroSim_CAF1 20977 120 - 1
AAAAUGUCGCAAAACAGAUGGGCAUCCGCAUCGAGUAUCGAUGCGAUAUAUCGCACGCAUAUCGCCGCAAGAAAAGGAAGCUAUCUGCGUCUAGCCGACGUUUUAAUGCUCUAUGAACUG
((((((((((....(((((((.(.(((((((((.....))))))........((..((.....)).)).......))).))))))))......).)))))))))................ ( -33.50)
>consensus
AAAAUGUCGCAAAACAGAUGGGCAUCCGCAUCGAGUAUCGAUGCGAUAUAUCGCACGCAUAUCGCCGCGAGAAAAGGAAGCUAUCUGCGUCUAGCCGACGUUUUAAUGCUCUAUGAACUG
((((((((((....(((((((.(.(((((((((.....))))))......((((..((.....)).)))).....))).))))))))......).)))))))))................ (-35.33 = -35.67 +   0.33)

alignment

secondary structure

dotplot

Window 1

Location	11,554,149 – 11,554,265
Length	116
Sequences	3
Columns	116
Reading direction	forward
Mean pairwise identity	98.28
Mean single sequence MFE	-32.43
Consensus MFE	-32.23
Energy contribution	-32.23
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.66
Structure conservation index	0.99
SVM decision value	1.91
SVM RNA-class probability	0.982165
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11554149 116 + 22224390
CUUCCUUUUCUCGCGGCGAUAUGCGUGCGAUAUAUCGCAUCGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCGAAUU
............((((.(((..((((.(((....))((((((.....))))))).))))..))).(((((((((((...............))))))))))))))).......... ( -32.26)
>DroSec_CAF1 20384 116 + 1
CUUCCUUUUCUCGCGGCGAUAUGCGUGCGAUGUAUCGCAUCGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCAAAUU
..........(((((((.....)).))))).(((((((((((.....)))))).)))))......(((((((((((...............))))))))))).............. ( -32.86)
>DroSim_CAF1 21017 116 + 1
CUUCCUUUUCUUGCGGCGAUAUGCGUGCGAUAUAUCGCAUCGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCAAAUU
............((((.(((..((((.(((....))((((((.....))))))).))))..))).(((((((((((...............))))))))))))))).......... ( -32.16)
>consensus
CUUCCUUUUCUCGCGGCGAUAUGCGUGCGAUAUAUCGCAUCGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCAAAUU
............((((.(((..((((.(((....))((((((.....))))))).))))..))).(((((((((((...............))))))))))))))).......... (-32.23 = -32.23 +   0.00)

alignment

secondary structure

dotplot

Window 2

Location	11,554,189 – 11,554,279
Length	90
Sequences	3
Columns	90
Reading direction	forward
Mean pairwise identity	98.52
Mean single sequence MFE	-22.93
Consensus MFE	-22.76
Energy contribution	-22.76
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.90
Structure conservation index	0.99
SVM decision value	2.09
SVM RNA-class probability	0.987699
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11554189 90 + 22224390
CGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCGAAUUAUAAAUUCGAGUAU
..((((((((.((((..........(((((((((((...............)))))))))))))))...))((((.....)))))))))) ( -23.26)
>DroSec_CAF1 20424 90 + 1
CGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCAAAUUACAAAUUCGAGUAU
..((((((((...((((....))))(((((((((((...............)))))))))))....................)))))))) ( -22.76)
>DroSim_CAF1 21057 90 + 1
CGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCAAAUUACAAAUUCGAGUAU
..((((((((...((((....))))(((((((((((...............)))))))))))....................)))))))) ( -22.76)
>consensus
CGAUACUCGAUGCGGAUGCCCAUCUGUUUUGCGACAUUUUCCCGCUUUCCCUGUUGCAAAACCCGUUUUUCAAAUUACAAAUUCGAGUAU
..((((((((...((((....))))(((((((((((...............)))))))))))....................)))))))) (-22.76 = -22.76 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:50 2006