Locus 6951

Sequence ID	2L_DroMel_CAF1
Location	19,319,168 – 19,319,328
Length	160
Max. P	0.989836

overview

Window 5

Location	19,319,168 – 19,319,288
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.00
Mean single sequence MFE	-32.44
Consensus MFE	-27.88
Energy contribution	-28.16
Covariance contribution	0.28
Combinations/Pair	1.06
Mean z-score	-1.46
Structure conservation index	0.86
SVM decision value	0.48
SVM RNA-class probability	0.754304
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19319168 120 + 22407834
GUAAGGCGAUUAUAAAAUUAAUUCGAGCGGGCUAUAAAACACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAA
.....(((((((......)))))...))(((((((.................((....(((((.((((.....)))).)).)))..))....(((((((....))))))).))))))).. ( -29.30)
>DroSec_CAF1 11759 120 + 1
GUGAGGCGAUUAUAAAAUUAAUUCGAGCGGGCUAUAAAACACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAA
.(((((((((((......)))))..((.(((((...............((((.......)))).((((.....)))).))))).))))))))..(((((((((......))))..))))) ( -33.00)
>DroSim_CAF1 13585 120 + 1
GUGAGGCGAUUAUAAAAUUAAUUCGAGCGGGCUAUAAAACACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAA
.(((((((((((......)))))..((.(((((...............((((.......)))).((((.....)))).))))).))))))))..(((((((((......))))..))))) ( -33.00)
>DroEre_CAF1 10896 119 + 1
GUGAGGCGAUUAUGAAUUUAAUGCGAGCAGACUAUAAAACACUUAAUAAGCUGCUUCCUGGCCAAGUGAAAAUCACUGGGUGCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGC-CAA
.(((((((((((......))))((((((((..(((.((....)).)))..))))))....(((.((((.....)))).)))))..)))))))(((((((....)))))))......-... ( -33.40)
>DroYak_CAF1 12029 120 + 1
GUGAGGCGAUUAUGAAAUUAAUUCGAGCGGACUAUAAAACACUUAAUAAGGUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACGGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAA
.(((((((((((......)))))...(.(((((......((((((...(((.....)))...))))))..........))))).).))))))..(((((((((......))))..))))) ( -33.49)
>consensus
GUGAGGCGAUUAUAAAAUUAAUUCGAGCGGGCUAUAAAACACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAA
.((((((.................((((((..(((.((....)).)))..))))))...((((.((((.....)))).))))....))))))(((((((....))))))).......... (-27.88 = -28.16 +   0.28)

alignment

secondary structure

dotplot

Window 6

Location	19,319,168 – 19,319,288
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.00
Mean single sequence MFE	-32.34
Consensus MFE	-27.44
Energy contribution	-27.28
Covariance contribution	-0.16
Combinations/Pair	1.08
Mean z-score	-1.68
Structure conservation index	0.85
SVM decision value	0.92
SVM RNA-class probability	0.880945
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19319168 120 - 22407834
UUGGGCUAUCGAUUAAGCGAUCCCAAUCUGAGGCAGUGGACCCAGUGAUUUUCACUUAGCCAGGAAGCAGCUUAUUAAGUGUUUUAUAGCCCGCUCGAAUUAAUUUUAUAAUCGCCUUAC
(((((..((((......)))))))))..(((((((((((....((((.....))))..((...((((((.((.....))))))))...))))))).((.(((......))))))))))). ( -29.80)
>DroSec_CAF1 11759 120 - 1
UUGGGCUAUCGAUUAAGCGAUCCCAAUCUGAGGCAGUGGACCCAGUGAUUUUCACUUAGCCAGGAAGCAGCUUAUUAAGUGUUUUAUAGCCCGCUCGAAUUAAUUUUAUAAUCGCCUCAC
(((((..((((......)))))))))..(((((((((((....((((.....))))..((...((((((.((.....))))))))...))))))).((.(((......))))))))))). ( -32.00)
>DroSim_CAF1 13585 120 - 1
UUGGGCUAUCGAUUAAGCGAUCCCAAUCUGAGGCAGUGGACCCAGUGAUUUUCACUUAGCCAGGAAGCAGCUUAUUAAGUGUUUUAUAGCCCGCUCGAAUUAAUUUUAUAAUCGCCUCAC
(((((..((((......)))))))))..(((((((((((....((((.....))))..((...((((((.((.....))))))))...))))))).((.(((......))))))))))). ( -32.00)
>DroEre_CAF1 10896 119 - 1
UUG-GCUAUCGAUUAAGCGAUCCCAAUCUGAGGCAGUGCACCCAGUGAUUUUCACUUGGCCAGGAAGCAGCUUAUUAAGUGUUUUAUAGUCUGCUCGCAUUAAAUUCAUAAUCGCCUCAC
(((-(..((((......)))).))))..(((((((((((.((.((((.....)))).))....((.((((.((((..........)))).)))))))))))............)))))). ( -30.10)
>DroYak_CAF1 12029 120 - 1
UUGGGCUAUCGAUUAAGCGAUCCCAAUCUGAGGCCGUGGACCCAGUGAUUUUCACUUAGCCAGGAAGCACCUUAUUAAGUGUUUUAUAGUCCGCUCGAAUUAAUUUCAUAAUCGCCUCAC
(((((..((((......)))))))))..((((((.((((((...((((....(((((((..(((.....)))..)))))))..)))).))))))..(((.....)))......)))))). ( -37.80)
>consensus
UUGGGCUAUCGAUUAAGCGAUCCCAAUCUGAGGCAGUGGACCCAGUGAUUUUCACUUAGCCAGGAAGCAGCUUAUUAAGUGUUUUAUAGCCCGCUCGAAUUAAUUUUAUAAUCGCCUCAC
(((((..((((......)))))))))..((((((.((((....((((.....))))..((...((((((.((.....))))))))...))))))..(.((((......))))))))))). (-27.44 = -27.28 +  -0.16)

alignment

secondary structure

dotplot

Window 7

Location	19,319,208 – 19,319,328
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-32.34
Consensus MFE	-30.40
Energy contribution	-30.64
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.86
Structure conservation index	0.94
SVM decision value	2.18
SVM RNA-class probability	0.989836
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19319208 120 + 22407834
ACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAAGUACAAGCUCGUUAAGAGCACACGAAGCAAACAAAGAUCA
...........((((((..(((((((((.....))))((((.....))))..(((((((....)))))))..))))).........((((.....))))....))))))........... ( -31.80)
>DroSec_CAF1 11799 120 + 1
ACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAAGUACAAGCUCGUUAAGAGCACACGAAGCAAACAAAGAUCA
...........((((((..(((((((((.....))))((((.....))))..(((((((....)))))))..))))).........((((.....))))....))))))........... ( -31.80)
>DroSim_CAF1 13625 120 + 1
ACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAAGUACAAGCUCGUUAAGAGCACACGAAGCAAACAAAGAUCA
...........((((((..(((((((((.....))))((((.....))))..(((((((....)))))))..))))).........((((.....))))....))))))........... ( -31.80)
>DroEre_CAF1 10936 119 + 1
ACUUAAUAAGCUGCUUCCUGGCCAAGUGAAAAUCACUGGGUGCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGC-CAAGUACAAGCUCGUUAAGAGCACACGAGGCAAACAAAGAUCA
.(((....((.(((......(((.((((.....)))).))))))))(((((...((((.((((......))))..)-)))......((((.....))))....))))).....))).... ( -32.70)
>DroYak_CAF1 12069 120 + 1
ACUUAAUAAGGUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACGGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAAGUACAAGCUCGUUAAGAGCACACGAAGCAAACAAAGAUCA
...........((((((..(((((((((.....))))((((.....))))..(((((((....)))))))..))))).........((((.....))))....))))))........... ( -33.60)
>consensus
ACUUAAUAAGCUGCUUCCUGGCUAAGUGAAAAUCACUGGGUCCACUGCCUCAGAUUGGGAUCGCUUAAUCGAUAGCCCAAGUACAAGCUCGUUAAGAGCACACGAAGCAAACAAAGAUCA
...........((((((..(((((((((.....))))((((.....))))..(((((((....)))))))..))))).........((((.....))))....))))))........... (-30.40 = -30.64 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:46 2006