Locus 1859

Sequence ID	3L_DroMel_CAF1
Location	5,223,191 – 5,223,287
Length	96
Max. P	0.976742

overview

Window 7

Location	5,223,191 – 5,223,287
Length	96
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.73
Mean single sequence MFE	-35.84
Consensus MFE	-23.01
Energy contribution	-23.43
Covariance contribution	0.42
Combinations/Pair	1.25
Mean z-score	-1.54
Structure conservation index	0.64
SVM decision value	0.53
SVM RNA-class probability	0.771966
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5223191 96 + 23771897
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCAGGCGCUGCUACUGCCUCU------------GUCGCAGUCGACGUCG------------ACGUCAACUGCAACUGAG
.......((((((................))))))((((.....))))..((....))(((.------------((.(((((.((((...------------.)))).))))).)).))) ( -30.79)
>DroSec_CAF1 87710 96 + 1
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCAGUCGCUGCUACUGCCUCC------------GUCGCAGUCGACGUCG------------GCAUCAACUGCAACUGAG
.......((((((................)))))).....((((((.((......((((..(------------((((....)))))..)------------)))......)).)))))) ( -33.19)
>DroSim_CAF1 84811 96 + 1
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCAGUCGCUGCUACUGCUUCU------------GUCGCAGUCGACGUCG------------GCGUCAACUGCAACUGAG
.......((((((................)))))).....((((((....((....))....------------...(((((.((((...------------.)))).))))).)))))) ( -31.29)
>DroEre_CAF1 89176 120 + 1
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCAGUCGCUGCUACUGUCUCUGCCUCUGCCUCAGCCGCAGUCGGCGUCGACGUCGACGCCAGCGUCAACUGCAACUGAG
.......((((((................)))))).....((((((.((((((.......((((..(((...)))..))))..(((((((....)))))))))))......)).)))))) ( -40.89)
>DroYak_CAF1 89848 108 + 1
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCAGUCGCUGCCACAGCCUCU------------GCUGCAGUCGGCGUCGACGUCGACGCCAGCGUCAACUGCAACUGAG
.((..((((.((((((((((.........((((((.((....(((..((((...))))..))------------)..)).))))))((((....))))).)))))..))))))))..)). ( -39.70)
>DroAna_CAF1 86751 111 + 1
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCUGCAUAUGUUGGCGUCACCG--UCAGCGUCAGCGUCA---GGCGUCGGCAGAG---CAGCCCCCAACUGCAGCUGA-
.((..((((.((((.(((((......(((((((((.(((....(((..(((((((((....))--)))))))..)))...---)))))))))))))---))))....))))))))..))- ( -39.20)
>consensus
UUCUAUUGCCGGUUCGUUGCAAAUAUUUUGCCGGCCGCUCCUCAGUCGCUGCUACUGCCUCU____________GCCGCAGUCGACGUCG____________GCGUCAACUGCAACUGAG
.......((((((................)))))).....((((((....((....))...................(((((.(((((..............))))).))))).)))))) (-23.01 = -23.43 +   0.42)

alignment

secondary structure

dotplot

Window 8

Location	5,223,191 – 5,223,287
Length	96
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.73
Mean single sequence MFE	-41.46
Consensus MFE	-23.86
Energy contribution	-25.03
Covariance contribution	1.17
Combinations/Pair	1.24
Mean z-score	-2.61
Structure conservation index	0.58
SVM decision value	1.78
SVM RNA-class probability	0.976742
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5223191 96 - 23771897
CUCAGUUGCAGUUGACGU------------CGACGUCGACUGCGAC------------AGAGGCAGUAGCAGCGCCUGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
(((.(((((((((((((.------------...)))))))))))))------------..((((.((....))))))))).....(((((..................)))))....... ( -38.97)
>DroSec_CAF1 87710 96 - 1
CUCAGUUGCAGUUGAUGC------------CGACGUCGACUGCGAC------------GGAGGCAGUAGCAGCGACUGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
(((((((((.((((.(((------------(..(((((....))))------------)..)))).)))).))))))))).....(((((..................)))))....... ( -43.27)
>DroSim_CAF1 84811 96 - 1
CUCAGUUGCAGUUGACGC------------CGACGUCGACUGCGAC------------AGAAGCAGUAGCAGCGACUGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
(((((((((((((((((.------------...))))))))((.((------------.......)).)).))))))))).....(((((..................)))))....... ( -35.47)
>DroEre_CAF1 89176 120 - 1
CUCAGUUGCAGUUGACGCUGGCGUCGACGUCGACGCCGACUGCGGCUGAGGCAGAGGCAGAGACAGUAGCAGCGACUGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
(((((((((.(((((((....)))))))(((...(((..((((.......)))).)))...))).......))))))))).....(((((..................)))))....... ( -48.77)
>DroYak_CAF1 89848 108 - 1
CUCAGUUGCAGUUGACGCUGGCGUCGACGUCGACGCCGACUGCAGC------------AGAGGCUGUGGCAGCGACUGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
(((((((((..........(((((((....)))))))(.(..((((------------....))))..)).))))))))).....(((((..................)))))....... ( -47.37)
>DroAna_CAF1 86751 111 - 1
-UCAGCUGCAGUUGGGGGCUG---CUCUGCCGACGCC---UGACGCUGACGCUGA--CGGUGACGCCAACAUAUGCAGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
-....(((..(((((.(((((---((((((....))(---((.(((....))((.--((....)).))......)))).))))))))).((((.....))))......)))))..))).. ( -34.90)
>consensus
CUCAGUUGCAGUUGACGC____________CGACGCCGACUGCGAC____________AGAGGCAGUAGCAGCGACUGAGGAGCGGCCGGCAAAAUAUUUGCAACGAACCGGCAAUAGAA
(((.(((((((((((((................))))))))))))).................((((.......))))..)))..(((((..................)))))....... (-23.86 = -25.03 +   1.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:28 2006