Locus 8605

Sequence ID	X_DroMel_CAF1
Location	21,382,761 – 21,382,867
Length	106
Max. P	0.995759

overview

Window 7

Location	21,382,761 – 21,382,867
Length	106
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	62.05
Mean single sequence MFE	-19.65
Consensus MFE	-8.80
Energy contribution	-8.96
Covariance contribution	0.16
Combinations/Pair	1.50
Mean z-score	-1.86
Structure conservation index	0.45
SVM decision value	0.81
SVM RNA-class probability	0.856148
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21382761 106 + 22224390
GUGUAAAAAACUCCGCACAGGUCUUGAAGGCAUUGCCAAAU--UUGU--AAAAUUACUGAGCUCUACUUUCCAGAUUAUUAUCAUUUCCAUUUUUCUUCCAUUCU-------AUUAU
((((..........)))).(((((.(((((....(((((((--(...--..))))..)).))....))))).)))))............................-------..... ( -11.30)
>DroSec_CAF1 28459 98 + 1
GUGUAAAUAACUCCGCACAGGUCUUGAAUGCAUUGCCAAAU--UUGU--AAAAUUACUGAGCUCUACUUUCUAGACCUUGAGGGAA-------UACUUC-ACUAC-------AAAAA
((((..........))))((((((.(((......(((((((--(...--..))))..)).))......))).))))))(((((...-------..))))-)....-------..... ( -17.50)
>DroEre_CAF1 19281 93 + 1
CUUUGAAAAACUCCGCAAAGGUCUAGAAUGUAUUGCUAAAU--UCGC--AAA-UCACUGAGCUAUACUUUCCUGACCUUAAGGGAA-------U--UUC-ACAAC-------A--AU
...(((((...(((...((((((..(((.((((.(((....--....--...-......))).)))).)))..))))))..)))..-------)--)))-)....-------.--.. ( -21.03)
>DroYak_CAF1 19475 96 + 1
AUGUGAGAAACUCCGCUAAGGUCUUAAAUGUAUUGCCAAAU--UUGU--AAAGCCACUAAGCUAUACAUUUCUGACCUUAAGGGAA-------UAAUUC-ACAAA-------G--AC
.((((((....(((..(((((((..(((((((((((.....--..))--))(((......))).)))))))..)))))))..))).-------...)))-)))..-------.--.. ( -27.50)
>DroAna_CAF1 28188 104 + 1
C---CAACACUUUCGCAAAGGUCUCGAAAACAUUCCACAAUAUUUCUAUUAGGGCACUGAGG--AACUUUCACGACCUUUACAAAG-------UGUUUC-GUCACGAAUUCUAUUCU
.---.((((((((.(.(((((((..((((...((((.((....(((.....)))...)).))--)).))))..))))))).)))))-------))))..-................. ( -20.90)
>consensus
CUGUAAAAAACUCCGCAAAGGUCUUGAAUGCAUUGCCAAAU__UUGU__AAAAUCACUGAGCUAUACUUUCCAGACCUUAAGGGAA_______UACUUC_ACAAC_______A__AU
...........(((...((((((..(((((....((........................))....)))))..))))))..)))................................. ( -8.80 =  -8.96 +   0.16)

alignment

secondary structure

dotplot

Window 8

Location	21,382,761 – 21,382,867
Length	106
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	62.05
Mean single sequence MFE	-27.23
Consensus MFE	-12.38
Energy contribution	-12.74
Covariance contribution	0.36
Combinations/Pair	1.39
Mean z-score	-2.80
Structure conservation index	0.45
SVM decision value	2.61
SVM RNA-class probability	0.995759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21382761 106 - 22224390
AUAAU-------AGAAUGGAAGAAAAAUGGAAAUGAUAAUAAUCUGGAAAGUAGAGCUCAGUAAUUUU--ACAA--AUUUGGCAAUGCCUUCAAGACCUGUGCGGAGUUUUUUACAC
.....-------.........(((((((..............(((.(((.(((..((.(((.......--....--..)))))..))).))).)))((.....)).))))))).... ( -11.92)
>DroSec_CAF1 28459 98 - 1
UUUUU-------GUAGU-GAAGUA-------UUCCCUCAAGGUCUAGAAAGUAGAGCUCAGUAAUUUU--ACAA--AUUUGGCAAUGCAUUCAAGACCUGUGCGGAGUUAUUUACAC
.....-------...((-(((..(-------(((((...((((((.(((.(((..((.(((.......--....--..)))))..))).))).))))))..).)))))..))))).. ( -26.62)
>DroEre_CAF1 19281 93 - 1
AU--U-------GUUGU-GAA--A-------UUCCCUUAAGGUCAGGAAAGUAUAGCUCAGUGA-UUU--GCGA--AUUUAGCAAUACAUUCUAGACCUUUGCGGAGUUUUUCAAAG
..--.-------.(((.-(((--(-------((((...((((((.((((.((((.(((.(((..-...--....--))).))).)))).)))).))))))...)))))))).))).. ( -29.60)
>DroYak_CAF1 19475 96 - 1
GU--C-------UUUGU-GAAUUA-------UUCCCUUAAGGUCAGAAAUGUAUAGCUUAGUGGCUUU--ACAA--AUUUGGCAAUACAUUUAAGACCUUAGCGGAGUUUCUCACAU
..--.-------..(((-((...(-------((((.((((((((..((((((((.(((...((.....--.)).--....))).))))))))..)))))))).)))))...))))). ( -35.00)
>DroAna_CAF1 28188 104 - 1
AGAAUAGAAUUCGUGAC-GAAACA-------CUUUGUAAAGGUCGUGAAAGUU--CCUCAGUGCCCUAAUAGAAAUAUUGUGGAAUGUUUUCGAGACCUUUGCGAAAGUGUUG---G
.((((...)))).....-..((((-------(((((((((((((.((((((((--((.(((((............))))).)))))..))))).))))))))).)))))))).---. ( -33.00)
>consensus
AU__U_______GUAGU_GAAGUA_______UUCCCUAAAGGUCAGGAAAGUAGAGCUCAGUGACUUU__ACAA__AUUUGGCAAUGCAUUCAAGACCUUUGCGGAGUUUUUCACAC
................................(((.((((((((..(((.(((..(((.(((..............))).)))..))).)))..)))))))).)))........... (-12.38 = -12.74 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:19 2006