Locus 10160

Sequence ID	3R_DroMel_CAF1
Location	27,290,862 – 27,290,956
Length	94
Max. P	0.997184

overview

Window 4

Location	27,290,862 – 27,290,956
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	98.31
Mean single sequence MFE	-31.70
Consensus MFE	-31.16
Energy contribution	-31.00
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.33
Structure conservation index	0.98
SVM decision value	0.78
SVM RNA-class probability	0.848484
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27290862 94 + 27905053
AAGUCCGAUCCGCGAUCUGUGAUCCUCGGCAGCU-GUAGAUGUUGCUGCCGUGGAAAAUCGAUGAAAGAUUGGGAAUUUAUGUGCUGGCACGCCG
...(((((((..(.(((.((..(((.(((((((.-.........))))))).)))..)).))))...))))))).......(((....))).... ( -31.70)
>DroSec_CAF1 63563 94 + 1
AAGUCCGAUCCGCGAUCUGUGAUCCUCGGCAGCU-GUAGAUGUUGCUGCCGUGGAAAAUCGAUGAAAGAUUGGGAAUUUAUGUGCUGGCACGCCG
...(((((((..(.(((.((..(((.(((((((.-.........))))))).)))..)).))))...))))))).......(((....))).... ( -31.70)
>DroSim_CAF1 65201 94 + 1
AAGUCCGAUCCGCGAUCUGUGAUCCUCGGCAGCU-GUAGAUGUUGCUGCCGUGGAAAAUCGAUGAAAGAUUGGGAAUUUAUGUGCUGGCACGCCG
...(((((((..(.(((.((..(((.(((((((.-.........))))))).)))..)).))))...))))))).......(((....))).... ( -31.70)
>DroEre_CAF1 66481 95 + 1
AAGUCCGAUCCGCGAUCUGUGAUCCUCGGCAGCUGGUAGAUUUUGCUGCCGUGGAAAAUCGAUGAAAGAUUGGGAAUUUAUGUGCUGGCACGCCG
...(((((((..(.(((.((..(((.(((((((...........))))))).)))..)).))))...))))))).......(((....))).... ( -31.60)
>DroYak_CAF1 70239 94 + 1
AAGUCCGAUUCGCGAUCUGUGAUCCUCGGCAGCC-GUAGAUGUUGCUGCCGUGGAAAAUCGAUGAAAGAUUGGGAAUUUAUGUGCUGGCACGCCG
......(((((.((((((.((((((.(((((((.-.........))))))).)))...))).....)))))).)))))...(((....))).... ( -31.80)
>consensus
AAGUCCGAUCCGCGAUCUGUGAUCCUCGGCAGCU_GUAGAUGUUGCUGCCGUGGAAAAUCGAUGAAAGAUUGGGAAUUUAUGUGCUGGCACGCCG
...(((((((..(.(((.((..(((.(((((((...........))))))).)))..)).))))...))))))).......(((....))).... (-31.16 = -31.00 +  -0.16)

alignment

secondary structure

dotplot

Window 5

Location	27,290,862 – 27,290,956
Length	94
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	98.31
Mean single sequence MFE	-27.56
Consensus MFE	-26.78
Energy contribution	-26.98
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.02
Structure conservation index	0.97
SVM decision value	2.81
SVM RNA-class probability	0.997184
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27290862 94 - 27905053
CGGCGUGCCAGCACAUAAAUUCCCAAUCUUUCAUCGAUUUUCCACGGCAGCAACAUCUAC-AGCUGCCGAGGAUCACAGAUCGCGGAUCGGACUU
....(((....)))........((.((((.(.(((.....(((.(((((((.........-.))))))).))).....))).).)))).)).... ( -28.00)
>DroSec_CAF1 63563 94 - 1
CGGCGUGCCAGCACAUAAAUUCCCAAUCUUUCAUCGAUUUUCCACGGCAGCAACAUCUAC-AGCUGCCGAGGAUCACAGAUCGCGGAUCGGACUU
....(((....)))........((.((((.(.(((.....(((.(((((((.........-.))))))).))).....))).).)))).)).... ( -28.00)
>DroSim_CAF1 65201 94 - 1
CGGCGUGCCAGCACAUAAAUUCCCAAUCUUUCAUCGAUUUUCCACGGCAGCAACAUCUAC-AGCUGCCGAGGAUCACAGAUCGCGGAUCGGACUU
....(((....)))........((.((((.(.(((.....(((.(((((((.........-.))))))).))).....))).).)))).)).... ( -28.00)
>DroEre_CAF1 66481 95 - 1
CGGCGUGCCAGCACAUAAAUUCCCAAUCUUUCAUCGAUUUUCCACGGCAGCAAAAUCUACCAGCUGCCGAGGAUCACAGAUCGCGGAUCGGACUU
....(((....)))........((.((((.(.(((.....(((.(((((((...........))))))).))).....))).).)))).)).... ( -27.90)
>DroYak_CAF1 70239 94 - 1
CGGCGUGCCAGCACAUAAAUUCCCAAUCUUUCAUCGAUUUUCCACGGCAGCAACAUCUAC-GGCUGCCGAGGAUCACAGAUCGCGAAUCGGACUU
....(((....)))......(((......(((..(((((((((.(((((((.........-.))))))).)))....)))))).)))..)))... ( -25.90)
>consensus
CGGCGUGCCAGCACAUAAAUUCCCAAUCUUUCAUCGAUUUUCCACGGCAGCAACAUCUAC_AGCUGCCGAGGAUCACAGAUCGCGGAUCGGACUU
....(((....)))........((.((((.(.(((.....(((.(((((((...........))))))).))).....))).).)))).)).... (-26.78 = -26.98 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:08 2006