Locus 8163

Sequence ID	3L_DroMel_CAF1
Location	21,510,333 – 21,510,472
Length	139
Max. P	0.980370

overview

Window 4

Location	21,510,333 – 21,510,432
Length	99
Sequences	3
Columns	99
Reading direction	forward
Mean pairwise identity	97.31
Mean single sequence MFE	-20.64
Consensus MFE	-20.14
Energy contribution	-19.70
Covariance contribution	-0.44
Combinations/Pair	1.08
Mean z-score	-1.53
Structure conservation index	0.98
SVM decision value	0.17
SVM RNA-class probability	0.618434
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21510333 99 + 23771897
AAUCGAAUGAGCUUCACAUUUCAAAAAUCAACACCUGGCAGAGAAAGAUUUUCGAACUGCAAGAAAUGCAUUUGUAAAAUGAAUUUCAAGGGGCUCGAA
.......((((((((......................((((.(((.....)))...))))..(((((.((((.....)))).)))))..)))))))).. ( -21.90)
>DroSec_CAF1 15760 99 + 1
AAUCGAAUGAGCUUCACAUUUCAAAAAUCAACACCUGGCGGAGAAAAAUUUUCGAACUGCAAGAAAUGCAUUUGUAAAAUGAAUUUCAUGGGGUUCGAA
....((((...((((.((.................))..))))....))))(((((((.((.(((((.((((.....)))).))))).)).))))))). ( -19.53)
>DroSim_CAF1 15399 99 + 1
AAUCGAAUGAGCUUCACAUUUCAAAAAUCAACACCUGGCGGAGAAAGAUUUUCGAACUGCAAGAAAUGCAUUUGUAAAAUGAAUUUCAUGGGGUUCGAA
(((((((((.......)))))............((....)).....))))((((((((.((.(((((.((((.....)))).))))).)).)))))))) ( -20.50)
>consensus
AAUCGAAUGAGCUUCACAUUUCAAAAAUCAACACCUGGCGGAGAAAGAUUUUCGAACUGCAAGAAAUGCAUUUGUAAAAUGAAUUUCAUGGGGUUCGAA
.......((((((((......................((((.(((.....)))...))))..(((((.((((.....)))).)))))..)))))))).. (-20.14 = -19.70 +  -0.44)

alignment

secondary structure

dotplot

Window 5

Location	21,510,333 – 21,510,432
Length	99
Sequences	3
Columns	99
Reading direction	reverse
Mean pairwise identity	97.31
Mean single sequence MFE	-23.77
Consensus MFE	-23.59
Energy contribution	-22.93
Covariance contribution	-0.66
Combinations/Pair	1.10
Mean z-score	-2.55
Structure conservation index	0.99
SVM decision value	1.86
SVM RNA-class probability	0.980370
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21510333 99 - 23771897
UUCGAGCCCCUUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUCUUUCUCUGCCAGGUGUUGAUUUUUGAAAUGUGAAGCUCAUUCGAUU
...((((.....(((((.((((.....)))).)))))(..((.((((((((((...(.((....)).)..)))))))))).))..).))))........ ( -24.10)
>DroSec_CAF1 15760 99 - 1
UUCGAACCCCAUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUUUUUCUCCGCCAGGUGUUGAUUUUUGAAAUGUGAAGCUCAUUCGAUU
.(((((......(((((.((((.....)))).)))))(..((.((((((((((...(.((....)).)..)))))))))).))..)......))))).. ( -22.70)
>DroSim_CAF1 15399 99 - 1
UUCGAACCCCAUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUCUUUCUCCGCCAGGUGUUGAUUUUUGAAAUGUGAAGCUCAUUCGAUU
.(((((......(((((.((((.....)))).)))))(..((.((((((((((...(.((....)).)..)))))))))).))..)......))))).. ( -24.50)
>consensus
UUCGAACCCCAUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUCUUUCUCCGCCAGGUGUUGAUUUUUGAAAUGUGAAGCUCAUUCGAUU
.(((((......(((((.((((.....)))).)))))(..((.((((((((((...(.((....)).)..)))))))))).))..)......))))).. (-23.59 = -22.93 +  -0.66)

alignment

secondary structure

dotplot

Window 6

Location	21,510,356 – 21,510,472
Length	116
Sequences	3
Columns	116
Reading direction	reverse
Mean pairwise identity	96.55
Mean single sequence MFE	-27.13
Consensus MFE	-26.79
Energy contribution	-26.47
Covariance contribution	-0.33
Combinations/Pair	1.09
Mean z-score	-1.62
Structure conservation index	0.99
SVM decision value	0.43
SVM RNA-class probability	0.734075
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21510356 116 - 23771897
AGUUUCACAUUAAGAAGAGCAGCAGACGCGGAAUAAUUUGUUCGAGCCCCUUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUCUUUCUCUGCCAGGUGUUGAUUUU
..............((((.(((((...(((((........(((((((..(..(((((.((((.....)))).)))))..)..)))))))........)))))....))))).)))) ( -25.09)
>DroSec_CAF1 15783 116 - 1
AGUUUCACAUUAAGAAAAGCAGCAGACGCGGAAUAAUUUGUUCGAACCCCAUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUUUUUCUCCGCCAGGUGUUGAUUUU
..((((.......))))..(((((...(((((..((....(((((((..((.(((((.((((.....)))).))))).))..)))))))....))..)))))....)))))..... ( -28.40)
>DroSim_CAF1 15422 116 - 1
AGUUUCACAUUAAGAAGAGCAGCAGACGCGGAAUAAUUCGUUCGAACCCCAUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUCUUUCUCCGCCAGGUGUUGAUUUU
..............((((.(((((...(((((........(((((((..((.(((((.((((.....)))).))))).))..)))))))........)))))....))))).)))) ( -27.89)
>consensus
AGUUUCACAUUAAGAAGAGCAGCAGACGCGGAAUAAUUUGUUCGAACCCCAUGAAAUUCAUUUUACAAAUGCAUUUCUUGCAGUUCGAAAAUCUUUCUCCGCCAGGUGUUGAUUUU
..............((((.(((((...(((((..((....(((((((..((.(((((.((((.....)))).))))).))..)))))))....))..)))))....))))).)))) (-26.79 = -26.47 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:00 2006