Locus 2975

Sequence ID	3L_DroMel_CAF1
Location	8,523,878 – 8,523,974
Length	96
Max. P	0.998530

overview

Window 8

Location	8,523,878 – 8,523,974
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	93.01
Mean single sequence MFE	-27.16
Consensus MFE	-20.90
Energy contribution	-20.74
Covariance contribution	-0.16
Combinations/Pair	1.12
Mean z-score	-2.16
Structure conservation index	0.77
SVM decision value	0.91
SVM RNA-class probability	0.879760
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8523878 96 + 23771897
GGCAAGUAUUCAUUCGCAUUUGUUGUCUGGCCAUCGGCGGCAUAACGUUUAUUGUCACCAUGUUUGUAUGCAAACAAACGCAUGCGAAGAUUUAUG
.....(((....(((((((.((((...((((.((..(((......)))..)).))))...((((((....)))))))))).)))))))....))). ( -25.10)
>DroSec_CAF1 15333 96 + 1
GGCAAGUAUUCAUUCGCAUUUGUUGUCUGCCCAUCGGCGGCACAACGUUUAUUGUCACCAUUUUUGUAUGCAAACAAACGCAUGCGAAGAUUUAUG
(((((((........))....((((((((((....))))).))))).....)))))...((((((((((((........))))))))))))..... ( -29.50)
>DroSim_CAF1 16171 96 + 1
GGCAAGUAUUCAUUCGCAUUUGUUGUCUGCCCAUCGGCGGCACAACGUUUAUUGUCACCAUUUUUGUAUGCAAACAAACGCAUGCGAAGAUUUAUG
(((((((........))....((((((((((....))))).))))).....)))))...((((((((((((........))))))))))))..... ( -29.50)
>DroEre_CAF1 15236 93 + 1
GGAAAGUAUUCAUUCGCAUUUGCUGUCUGC-CAUUGGCGGC--AACUUUUAUUGUCACCAUGUUUGUAUGCAGACAAACGCAUGCAAAGAUGUAUG
.((((((........((....))((.((((-(...))))))--)))))))........(((.(((((((((........))))))))).))).... ( -26.00)
>DroYak_CAF1 15224 95 + 1
GGCAAGUAUUCAUUCGCAUUUGCCGUCUGC-CAACGGCGGCACAACUUUUAUUGUCACCAUGUUUGUAUGCAAACAAACGCAUGCGAAGAUUUAUG
(((((((........))...(((((((...-....))))))).........)))))...((.(((((((((........))))))))).))..... ( -25.70)
>consensus
GGCAAGUAUUCAUUCGCAUUUGUUGUCUGCCCAUCGGCGGCACAACGUUUAUUGUCACCAUGUUUGUAUGCAAACAAACGCAUGCGAAGAUUUAUG
(((((((........))...(((((((........))))))).........)))))...((.(((((((((........))))))))).))..... (-20.90 = -20.74 +  -0.16)

alignment

secondary structure

dotplot

Window 9

Location	8,523,878 – 8,523,974
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	93.01
Mean single sequence MFE	-27.66
Consensus MFE	-23.36
Energy contribution	-23.28
Covariance contribution	-0.08
Combinations/Pair	1.17
Mean z-score	-2.69
Structure conservation index	0.84
SVM decision value	3.13
SVM RNA-class probability	0.998530
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8523878 96 - 23771897
CAUAAAUCUUCGCAUGCGUUUGUUUGCAUACAAACAUGGUGACAAUAAACGUUAUGCCGCCGAUGGCCAGACAACAAAUGCGAAUGAAUACUUGCC
...........(((.(..((..(((((((.......((....))......(((..((((....))))..))).....)))))))..))..).))). ( -23.40)
>DroSec_CAF1 15333 96 - 1
CAUAAAUCUUCGCAUGCGUUUGUUUGCAUACAAAAAUGGUGACAAUAAACGUUGUGCCGCCGAUGGGCAGACAACAAAUGCGAAUGAAUACUUGCC
...........(((.(..((..(((((((.......((....))......(((((.(.(((....))).))))))..)))))))..))..).))). ( -28.30)
>DroSim_CAF1 16171 96 - 1
CAUAAAUCUUCGCAUGCGUUUGUUUGCAUACAAAAAUGGUGACAAUAAACGUUGUGCCGCCGAUGGGCAGACAACAAAUGCGAAUGAAUACUUGCC
...........(((.(..((..(((((((.......((....))......(((((.(.(((....))).))))))..)))))))..))..).))). ( -28.30)
>DroEre_CAF1 15236 93 - 1
CAUACAUCUUUGCAUGCGUUUGUCUGCAUACAAACAUGGUGACAAUAAAAGUU--GCCGCCAAUG-GCAGACAGCAAAUGCGAAUGAAUACUUUCC
......(((((((((..(((.((((((.......(((((((.((((....)))--).)))).)))-)))))))))..))))))).))......... ( -26.81)
>DroYak_CAF1 15224 95 - 1
CAUAAAUCUUCGCAUGCGUUUGUUUGCAUACAAACAUGGUGACAAUAAAAGUUGUGCCGCCGUUG-GCAGACGGCAAAUGCGAAUGAAUACUUGCC
...........(((.(..((..(((((((........(((.(((((....))))))))((((((.-...))))))..)))))))..))..).))). ( -31.50)
>consensus
CAUAAAUCUUCGCAUGCGUUUGUUUGCAUACAAACAUGGUGACAAUAAACGUUGUGCCGCCGAUGGGCAGACAACAAAUGCGAAUGAAUACUUGCC
......(((((((((..(((.((((((...((....((((((((((....)))))..))))).)).)))))))))..))))))).))......... (-23.36 = -23.28 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:31 2006