Locus 2174

Sequence ID	3L_DroMel_CAF1
Location	5,926,647 – 5,926,762
Length	115
Max. P	0.966296

overview

Window 2

Location	5,926,647 – 5,926,748
Length	101
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	75.95
Mean single sequence MFE	-41.60
Consensus MFE	-23.49
Energy contribution	-23.97
Covariance contribution	0.47
Combinations/Pair	1.11
Mean z-score	-2.13
Structure conservation index	0.56
SVM decision value	1.39
SVM RNA-class probability	0.949352
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5926647 101 - 23771897
GUCGCCCAGCAGC---AGCAAUUGCUGCUGACGUCGACGCGGCGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAGCAGCAG-CA--------GCAACUG-GCG----ACUUGUG
((((((.((..((---.((...((((((((..((((......))))........((((((........))))))..)))))))))-).--------))..)))-)))----))..... ( -44.20)
>DroVir_CAF1 30006 87 - 1
GUCGCCC-------------GCUGCUGCUGGCGUCGACGCGGCGACAAAAAACACGCUGCCAACUGAUGCGGCGCACAGAAAUGAGUU--------GCACGUG-GAUGU---------
(.((((.-------------((....)).)))).)..(((((((((........((((((........))))))..((....)).)))--------)).))))-.....--------- ( -34.10)
>DroPse_CAF1 25336 109 - 1
GUCGCCCAGCAGCAACAGCAAUUGCUGCUGACGUCGACGCGGAGACAAAAAACACGCUGCCAAGUGAUGCGGCGCCCAGCAGCAGGCU--------GCACGUG-GAUGUUGCACAGUG
((.((.(((((((((......)))))))))(((((.(((.(....)........((((((........))))))....((((....))--------)).))).-))))).)))).... ( -41.90)
>DroEre_CAF1 19037 110 - 1
GUCGCCCAGCAGC---AGCAGUUGCUGCUGACGUCGACGCGGCGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAGCAGCAG-CAGCACAGCAGCAACUGGGCG----ACUUGUG
(((((((((..((---.((.((((((((((.(((((......))))........((((((........))))))....)))))))-))))...)).))..)))))))----))..... ( -55.30)
>DroMoj_CAF1 22671 87 - 1
GUCGCCC-------------GCUGCUGCUGGCGUCGACGCGGCGACAAAAAACACGCUGCCAACUGAUGCGGCGCACAGCAACGAGUU--------GCACGUG-GAUGU---------
((((((.-------------((....))..(((....)))))))))......((((.(((.(((((.(((........))).).))))--------)))))))-.....--------- ( -32.20)
>DroPer_CAF1 26838 109 - 1
GUCGCCCAGCAGCAACAGCAAUUGCUGCUGACGUCGACGCGGAGACAAAAAACACGCUGCCAAGUGAUGCGGCGCCCAGCAGCAGGCU--------GCACGUG-GAUGUUGCACAGUG
((.((.(((((((((......)))))))))(((((.(((.(....)........((((((........))))))....((((....))--------)).))).-))))).)))).... ( -41.90)
>consensus
GUCGCCCAGCAGC___AGCAAUUGCUGCUGACGUCGACGCGGCGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAGCAGCAGGCU________GCACGUG_GAUGU______GUG
......................((((((((..((((......))))........((((((........))))))..)))))))).................................. (-23.49 = -23.97 +   0.47)

alignment

secondary structure

dotplot

Window 3

Location	5,926,672 – 5,926,762
Length	90
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.00
Mean single sequence MFE	-36.92
Consensus MFE	-22.38
Energy contribution	-24.88
Covariance contribution	2.50
Combinations/Pair	1.00
Mean z-score	-2.43
Structure conservation index	0.61
SVM decision value	1.59
SVM RNA-class probability	0.966296
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5926672 90 - 23771897
GA---------------CAUGUUGCC----------AGU--GUCGCCCAGCAGC---AGCAAUUGCUGCUGACGUCGACGCGGCGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAG
..---------------..(((((((----------.((--((((.(...((((---(((....)))))))..).))))))))))))).......((((((........))))))..... ( -42.40)
>DroVir_CAF1 30027 79 - 1
GA---------------GAUGUUGCC----------A-U--GUCGCCC-------------GCUGCUGCUGGCGUCGACGCGGCGACAAAAAACACGCUGCCAACUGAUGCGGCGCACAG
..---------------..(((((((----------.-(--((((..(-------------(((......)))).))))).))))))).......((((((........))))))..... ( -31.40)
>DroEre_CAF1 19071 90 - 1
CA---------------CAUGUUGCC----------AGU--GUCGCCCAGCAGC---AGCAGUUGCUGCUGACGUCGACGCGGCGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAG
..---------------..(((((((----------.((--((((.(...((((---(((....)))))))..).))))))))))))).......((((((........))))))..... ( -42.40)
>DroMoj_CAF1 22692 89 - 1
GA-----GCAACUCGAUGAUGUUGCC----------A-U--GUCGCCC-------------GCUGCUGCUGGCGUCGACGCGGCGACAAAAAACACGCUGCCAACUGAUGCGGCGCACAG
(.-----(((((........))))))----------.-(--((((((.-------------((....))..(((....)))))))))).......((((((........))))))..... ( -33.00)
>DroAna_CAF1 48587 92 - 1
GA---------------UAUGUUGCU----------AGUGUGUCGCCCAGCAGC---AGCAAUUGCUGCUGACGUCGACGCGGAGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAG
..---------------..(((.((.----------.((((((((.(...((((---(((....)))))))..).))))..(....).....))))(((((........)))))))))). ( -35.60)
>DroPer_CAF1 26868 113 - 1
CACACUGCCA--UA---UAUGUUGCUGCAGCACCAAAAU--GUCGCCCAGCAGCAACAGCAAUUGCUGCUGACGUCGACGCGGAGACAAAAAACACGCUGCCAAGUGAUGCGGCGCCCAG
......(((.--..---..(((..(((((((........--(((((.(((((((((......)))))))))..).))))..(....).........)))))..))..))).)))...... ( -36.70)
>consensus
GA_______________CAUGUUGCC__________AGU__GUCGCCCAGCAGC___AGCAAUUGCUGCUGACGUCGACGCGGCGACAAAAAACACGCUGCCAAGUGAUGCGGCGCACAG
...................(((.((................(((((((((((((..........))))))).((....)).)))))).........(((((........)))))))))). (-22.38 = -24.88 +   2.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:05 2006