Locus 305

Sequence ID	2L_DroMel_CAF1
Location	876,694 – 876,791
Length	97
Max. P	0.761910

overview

Window 6

Location	876,694 – 876,791
Length	97
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	80.25
Mean single sequence MFE	-29.23
Consensus MFE	-17.58
Energy contribution	-18.30
Covariance contribution	0.72
Combinations/Pair	1.05
Mean z-score	-1.99
Structure conservation index	0.60
SVM decision value	0.50
SVM RNA-class probability	0.761910
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 876694 97 + 22407834
CAAGAACUGCAAGUAUGUGCAUCCGCAGAAGAAGCGCUUGUAGGACCUACCCGAAUCUUCUGCGGAAGAUUCAGCUGCAUAGAUCUCAGACGCGC----AA-
...............(((((.(((((((((((..((...((((...)))).))..)))))))))))((((..(......)..)))).....))))----).- ( -31.60)
>DroVir_CAF1 4843 100 + 1
CAAGUCGUGCAAGUACGUGCAUCCGCAAAAGAAGAGAAUGUAGGACUCAUCCGAAUCUUCCGAGGAAGAUUCGAAAGUAUAGAUCUCACAGAGCC--UCACA
...((.(((((......)))))..))............((((((.(((...(((((((((....)))))))))........(....)...)))))--).))) ( -24.40)
>DroPse_CAF1 4837 102 + 1
CAAGUCUUGCAAGUACGUGCACCCGCAAAAUAAGCGCAUGUAGAAUUUGCCCGAAUCUUCCCAGGAAGAUUCAGUUGUAUAGAUCUCAGACGCAGACGCACA
...((((.((((((.(.((((..(((.......)))..))))).))))))..((((((((....))))))))...............))))((....))... ( -28.50)
>DroMoj_CAF1 4927 100 + 1
CAAGUCCUGCAAGUACGUGCAUCCGCAGAAGAAGCGUAUGUAGGAUUCGGCCGAAUCUUCCGAGGAAGAUUCGCAUAUAUAGAUCUCACAGAGCG--CCACA
..(((((((((..(((((...((....))....)))))))))))))).((((((((((((....)))))))))...........(((...))).)--))... ( -31.80)
>DroAna_CAF1 4970 102 + 1
CAAGAACUGCAAGUACGUGCAUCCGCAGAAGAAGCGCAUGUAGAAUUCGGCCGAAUCUUCUGCGGAAGAUUCAACUGUAUAGAUCUCAGACGAUCGCUCAAA
........((..((((((.(.(((((((((((..((..((.......))..))..))))))))))).).....)).)))).((((......))))))..... ( -29.00)
>DroPer_CAF1 4835 102 + 1
CAAGUCUUGCAAGUACGUGCAUCCGCAAAAUAAGCGCAUGUAGAAUUUGCCCGAAUCUUCCCAGGAAGAUUCAGUUGUAUAGAUCUCAGACGCAGACGCACA
...((((.((((((.(.(((((.(((.......))).)))))).))))))..((((((((....))))))))...............))))((....))... ( -30.10)
>consensus
CAAGUCCUGCAAGUACGUGCAUCCGCAAAAGAAGCGCAUGUAGAAUUCGCCCGAAUCUUCCGAGGAAGAUUCAGAUGUAUAGAUCUCAGACGCAC__GCACA
............((((.(((((.(((.......))).)))))..........((((((((....))))))))....))))...................... (-17.58 = -18.30 +   0.72)

alignment

secondary structure

dotplot

Window 7

Location	876,694 – 876,791
Length	97
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	80.25
Mean single sequence MFE	-32.15
Consensus MFE	-18.79
Energy contribution	-18.60
Covariance contribution	-0.19
Combinations/Pair	1.14
Mean z-score	-2.02
Structure conservation index	0.58
SVM decision value	0.44
SVM RNA-class probability	0.736705
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 876694 97 - 22407834
-UU----GCGCGUCUGAGAUCUAUGCAGCUGAAUCUUCCGCAGAAGAUUCGGGUAGGUCCUACAAGCGCUUCUUCUGCGGAUGCACAUACUUGCAGUUCUUG
-..----((((((..(....).)))).)).((((..(((((((((((..((.((((...))))...))..)))))))))))((((......))))))))... ( -31.70)
>DroVir_CAF1 4843 100 - 1
UGUGA--GGCUCUGUGAGAUCUAUACUUUCGAAUCUUCCUCGGAAGAUUCGGAUGAGUCCUACAUUCUCUUCUUUUGCGGAUGCACGUACUUGCACGACUUG
((..(--(((((((..(((........(((((((((((....))))))))))).(((.........)))...)))..)))).)).....))..))....... ( -28.90)
>DroPse_CAF1 4837 102 - 1
UGUGCGUCUGCGUCUGAGAUCUAUACAACUGAAUCUUCCUGGGAAGAUUCGGGCAAAUUCUACAUGCGCUUAUUUUGCGGGUGCACGUACUUGCAAGACUUG
.....((((((((.(((((.........((((((((((....))))))))))......))).)).))))......((((((((....))))))))))))... ( -35.86)
>DroMoj_CAF1 4927 100 - 1
UGUGG--CGCUCUGUGAGAUCUAUAUAUGCGAAUCUUCCUCGGAAGAUUCGGCCGAAUCCUACAUACGCUUCUUCUGCGGAUGCACGUACUUGCAGGACUUG
..(((--(.(((...)))...........(((((((((....)))))))))))))..((((.....(((.......)))...(((......))))))).... ( -28.90)
>DroAna_CAF1 4970 102 - 1
UUUGAGCGAUCGUCUGAGAUCUAUACAGUUGAAUCUUCCGCAGAAGAUUCGGCCGAAUUCUACAUGCGCUUCUUCUGCGGAUGCACGUACUUGCAGUUCUUG
...((((((((......))))...............(((((((((((..((...............))..)))))))))))((((......))))))))... ( -30.66)
>DroPer_CAF1 4835 102 - 1
UGUGCGUCUGCGUCUGAGAUCUAUACAACUGAAUCUUCCUGGGAAGAUUCGGGCAAAUUCUACAUGCGCUUAUUUUGCGGAUGCACGUACUUGCAAGACUUG
.(((((((((((..((((..........((((((((((....))))))))))(((.........))).))))...)))))))))))................ ( -36.90)
>consensus
UGUGA__CGGCGUCUGAGAUCUAUACAACUGAAUCUUCCUCGGAAGAUUCGGGCAAAUCCUACAUGCGCUUCUUCUGCGGAUGCACGUACUUGCAGGACUUG
...............((((((.......((((((((((....))))))))))..............(((.......))))))(((......)))....))). (-18.79 = -18.60 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:34 2006