Locus 6134

Sequence ID	3R_DroMel_CAF1
Location	16,069,662 – 16,069,754
Length	92
Max. P	0.803811

overview

Window 0

Location	16,069,662 – 16,069,754
Length	92
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	83.05
Mean single sequence MFE	-26.93
Consensus MFE	-19.80
Energy contribution	-19.25
Covariance contribution	-0.55
Combinations/Pair	1.20
Mean z-score	-2.38
Structure conservation index	0.74
SVM decision value	0.63
SVM RNA-class probability	0.803811
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16069662 92 + 27905053
------C----GAAUUUAAUUCCCAAACCGA-ACUCUUCUGUUGCAGCUCCAUAGAAACCCU-GCGAGCGGAAACGCCCGAGGAGUUCUAUGCACCCAAGCAGC
------.----..................((-(((((((..((((((.............))-))))(((....)))..)))))))))..(((......))).. ( -27.02)
>DroSec_CAF1 30218 93 + 1
------C----GAAUUUAAUUCACAAACCGA-ACUCCUCCAUUGCAGCUCCAUAGAAACCUUGGCGAGCGGAAACGCCCGAGGAGUUCUAUGCACCCAAGCAGC
------.----((((...)))).......((-(((((((.......(((....((....)).)))(.(((....))).))))))))))..(((......))).. ( -26.90)
>DroSim_CAF1 36364 92 + 1
------C----GAAUUUAAUUCACAAACCGA-ACUCCUCCAUUGCAGCUCCAUAGAAACCCU-GCGAGCGGAAACGCCCGAGGAGUUCUAUGCACCCAAGCAGC
------.----((((...)))).......((-(((((((..((((((.............))-))))(((....)))..)))))))))..(((......))).. ( -29.62)
>DroEre_CAF1 5869 98 + 1
AAAUGGC----GACUUUAAUCCACAACCUGA-ACUCCUCCCUUGCAGCUCCAUAGAAACCCU-GCGAGCGGAAACGCCCGAGGAGUUCUAUGCACCGAAGCAGU
.......----..................((-(((((((..((((((.............))-))))(((....)))..)))))))))..(((......))).. ( -28.92)
>DroYak_CAF1 47762 97 + 1
AAAU-UC----GACUUUAAUUCUCAACCUCA-ACUCUUCUGUUGCAGCUCCAUAGAAACCCU-GCGAGCGGAAACGCCCGAGGAGUUCUAUGCACCGAAGCAGU
...(-((----(...............((((-((......)))).))...(((((((..(((-.((.(((....))).)))))..)))))))...))))..... ( -28.00)
>DroAna_CAF1 13026 102 + 1
UAAU-UUGGAAAACUUUAAUGUGCAACCCUAAAAAUUUCUCUUCCAGCUCCAUAGAAACUCU-GCGAGCGGAAACACCCGAGGAGUUCUAUGCUACGAAGCAGG
...(-((((...((......))......))))).....((((((.(((...((((((.((((-.((.(.(....).).)).)))))))))))))..)))).)). ( -21.10)
>consensus
______C____GAAUUUAAUUCACAAACCGA_ACUCCUCCAUUGCAGCUCCAUAGAAACCCU_GCGAGCGGAAACGCCCGAGGAGUUCUAUGCACCCAAGCAGC
...........................................((.(((.(((((((..(((..((.(((....))).)))))..)))))))......))).)) (-19.80 = -19.25 +  -0.55)

alignment

secondary structure

dotplot

Window 1

Location	16,069,662 – 16,069,754
Length	92
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	83.05
Mean single sequence MFE	-32.72
Consensus MFE	-21.64
Energy contribution	-22.00
Covariance contribution	0.36
Combinations/Pair	1.09
Mean z-score	-1.83
Structure conservation index	0.66
SVM decision value	0.01
SVM RNA-class probability	0.539420
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16069662 92 - 27905053
GCUGCUUGGGUGCAUAGAACUCCUCGGGCGUUUCCGCUCGC-AGGGUUUCUAUGGAGCUGCAACAGAAGAGU-UCGGUUUGGGAAUUAAAUUC----G------
.(((.((((((.(((((((..(((((((((....)))))).-)))..)))))))..))).))))))..((((-(..(((....)))..)))))----.------ ( -33.50)
>DroSec_CAF1 30218 93 - 1
GCUGCUUGGGUGCAUAGAACUCCUCGGGCGUUUCCGCUCGCCAAGGUUUCUAUGGAGCUGCAAUGGAGGAGU-UCGGUUUGUGAAUUAAAUUC----G------
..(((......)))..((((((((((((((....)))))((...(((((.....)))))))....)))))))-))((((((.....)))))).----.------ ( -30.30)
>DroSim_CAF1 36364 92 - 1
GCUGCUUGGGUGCAUAGAACUCCUCGGGCGUUUCCGCUCGC-AGGGUUUCUAUGGAGCUGCAAUGGAGGAGU-UCGGUUUGUGAAUUAAAUUC----G------
((.((((.....(((((((..(((((((((....)))))).-)))..))))))))))).)).......((((-(..(((....)))..)))))----.------ ( -32.70)
>DroEre_CAF1 5869 98 - 1
ACUGCUUCGGUGCAUAGAACUCCUCGGGCGUUUCCGCUCGC-AGGGUUUCUAUGGAGCUGCAAGGGAGGAGU-UCAGGUUGUGGAUUAAAGUC----GCCAUUU
...((((..((.((((((((((((((((((....)))))((-((...(((....)))))))....)))))))-))....)))).))..)))).----....... ( -35.40)
>DroYak_CAF1 47762 97 - 1
ACUGCUUCGGUGCAUAGAACUCCUCGGGCGUUUCCGCUCGC-AGGGUUUCUAUGGAGCUGCAACAGAAGAGU-UGAGGUUGAGAAUUAAAGUC----GA-AUUU
.(.((((..((.(((((((..(((((((((....)))))).-)))..))))))).((((.((((......))-)).))))....))..)))).----).-.... ( -32.30)
>DroAna_CAF1 13026 102 - 1
CCUGCUUCGUAGCAUAGAACUCCUCGGGUGUUUCCGCUCGC-AGAGUUUCUAUGGAGCUGGAAGAGAAAUUUUUAGGGUUGCACAUUAAAGUUUUCCAA-AUUA
((.(((((((((....((((((..((((((....)))))).-.))))))))))))))).))((((....))))..(((..((........))..)))..-.... ( -32.10)
>consensus
GCUGCUUCGGUGCAUAGAACUCCUCGGGCGUUUCCGCUCGC_AGGGUUUCUAUGGAGCUGCAACAGAAGAGU_UCGGGUUGUGAAUUAAAGUC____G______
((.((((.....(((((((.((((((((((....))))))..)))).))))))))))).))........................................... (-21.64 = -22.00 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:33 2006