Locus 2554

Sequence ID	3L_DroMel_CAF1
Location	7,151,026 – 7,151,128
Length	102
Max. P	0.951426

overview

Window 3

Location	7,151,026 – 7,151,128
Length	102
Sequences	4
Columns	108
Reading direction	forward
Mean pairwise identity	86.35
Mean single sequence MFE	-28.15
Consensus MFE	-22.77
Energy contribution	-23.90
Covariance contribution	1.13
Combinations/Pair	1.07
Mean z-score	-2.29
Structure conservation index	0.81
SVM decision value	1.41
SVM RNA-class probability	0.951426
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7151026 102 + 23771897
UGCCACUUGCAUCUUGGCCCCUGCCACACU------UUCAAGUUGCAGAAGCGAAAAGUUUCGUGGCAAAAGUUUAUGAAAAAUUAUGAAUUUCAAUUUAGCCUAAUC
((((((.((((.((((((....))))....------....)).))))(((((.....))))))))))).((((((((((....))))))))))............... ( -26.80)
>DroSec_CAF1 13708 102 + 1
UGCCACCUGCAGCUUGGCCCCGGCCACAUU------UUCAAGUGGCAGAAGCGAAAAGUUUCGUGGCAAAAGUUUAUGAAAAAUUAUGAAUUUCAAUUUAGCCGAAUC
((((((.((.....((((....))))....------..)).))))))(((((.....))))).((((((((((((((((....)))))))))....))).)))).... ( -29.00)
>DroEre_CAF1 18417 102 + 1
UGCCACUUGCAGCUUGGCCCCUUCCACUGC------GCCAAGUGGCAGAGGCGAAAAGUUUCGUGGCAAAAGCUUAUGAGAAAUUAUGAAUUUCAAUUUAGCCGAAUC
((((((.(((.(((((((.(........).------))))))).)))(((((.....)))))))))))...(((.....(((((.....))))).....)))...... ( -32.70)
>DroYak_CAF1 16053 108 + 1
UGCCACUUGCAGCUUGGCCCUCUCCACUCUUUCUCUCUCAAGUGGCAAAAGCGAAAAGUUUCGUGGCUUAAGCUUAUGAAAUAUUAUGAAUUUCAAUUUAGCCAAAUC
(((((((((.((..(((......)))..))........)))))))))...(((((....)))))((((.((.....((((((.......)))))).)).))))..... ( -24.10)
>consensus
UGCCACUUGCAGCUUGGCCCCUGCCACACU______UUCAAGUGGCAGAAGCGAAAAGUUUCGUGGCAAAAGCUUAUGAAAAAUUAUGAAUUUCAAUUUAGCCGAAUC
.(((((.(((.((((((....................)))))).)))(((((.....))))))))))..((((((((((....))))))))))............... (-22.77 = -23.90 +   1.13)

alignment

secondary structure

dotplot

Window 4

Location	7,151,026 – 7,151,128
Length	102
Sequences	4
Columns	108
Reading direction	reverse
Mean pairwise identity	86.35
Mean single sequence MFE	-29.95
Consensus MFE	-24.24
Energy contribution	-25.93
Covariance contribution	1.69
Combinations/Pair	1.13
Mean z-score	-2.18
Structure conservation index	0.81
SVM decision value	1.26
SVM RNA-class probability	0.937244
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7151026 102 - 23771897
GAUUAGGCUAAAUUGAAAUUCAUAAUUUUUCAUAAACUUUUGCCACGAAACUUUUCGCUUCUGCAACUUGAA------AGUGUGGCAGGGGCCAAGAUGCAAGUGGCA
.............(((((.........)))))........((((((.....((((.((((((((.(((....------)))...)))))))).)))).....)))))) ( -26.60)
>DroSec_CAF1 13708 102 - 1
GAUUCGGCUAAAUUGAAAUUCAUAAUUUUUCAUAAACUUUUGCCACGAAACUUUUCGCUUCUGCCACUUGAA------AAUGUGGCCGGGGCCAAGCUGCAGGUGGCA
.....(((.(((.(((((.........))))).....))).))).((((....)))).....((((((((..------....((((....)))).....)))))))). ( -29.00)
>DroEre_CAF1 18417 102 - 1
GAUUCGGCUAAAUUGAAAUUCAUAAUUUCUCAUAAGCUUUUGCCACGAAACUUUUCGCCUCUGCCACUUGGC------GCAGUGGAAGGGGCCAAGCUGCAAGUGGCA
.....((((.....(((((.....))))).....))))..(((((((((....)))((((((.(((((....------..))))).))))))..........)))))) ( -31.90)
>DroYak_CAF1 16053 108 - 1
GAUUUGGCUAAAUUGAAAUUCAUAAUAUUUCAUAAGCUUAAGCCACGAAACUUUUCGCUUUUGCCACUUGAGAGAGAAAGAGUGGAGAGGGCCAAGCUGCAAGUGGCA
.....((((....((((((.......))))))..))))...(((((....((((((((((((....(((....))).)))))))))))).((......))..))))). ( -32.30)
>consensus
GAUUCGGCUAAAUUGAAAUUCAUAAUUUUUCAUAAACUUUUGCCACGAAACUUUUCGCUUCUGCCACUUGAA______AGAGUGGAAGGGGCCAAGCUGCAAGUGGCA
.....((((....(((((.........)))))..))))...((((((((....)))(((((((((((((..........)))))))))))))..........))))). (-24.24 = -25.93 +   1.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:32 2006