Locus 4841

Sequence ID	3L_DroMel_CAF1
Location	13,576,920 – 13,577,017
Length	97
Max. P	0.810290

overview

Window 6

Location	13,576,920 – 13,577,017
Length	97
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.54
Mean single sequence MFE	-21.10
Consensus MFE	-12.91
Energy contribution	-13.89
Covariance contribution	0.97
Combinations/Pair	1.09
Mean z-score	-2.27
Structure conservation index	0.61
SVM decision value	0.22
SVM RNA-class probability	0.639309
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13576920 97 + 23771897
UC--GUUGGUGUU-UGGGUGGAUAGUUUGAGCACCAAUAGAGCAAAUACAAUUACAACAUUUAUUAAUGUGGUUAGGUAUUUUUUUUUUUUUUUUGGUUU
..--(((((((((-..((.......))..)))))))))((((.((((((....((.(((((....))))).))...)))))).))))............. ( -21.50)
>DroPse_CAF1 66776 80 + 1
UUUUUUUGGUGUUUCGGGUGGAUAUUUUGAGCACCAAUAGAGCAAAUACAGUUACAACAUUUAUUAAUGUGG---GGUAACGG-----------------
((((.(((((((((..(((....)))..))))))))).))))........(((((.(((((....)))))..---.)))))..----------------- ( -20.60)
>DroSim_CAF1 44569 89 + 1
UC--GUUGGUGUU-UGGGUGGAUAGUUUGAGCACCAAUAGAGCAAAUACAAUUACAACAUUUAUUAAUGUGGUUAGGUAUUUUU-UUU-------UGUUU
..--(((((((((-..((.......))..)))))))))((((.((((((....((.(((((....))))).))...)))))).)-)))-------..... ( -21.50)
>DroEre_CAF1 59785 88 + 1
UC--GUUGGUGUU-UGGGUGGAUAGUUUGAGCACCAAUAGAGCAAAUACAAUUACAACAUUUAUUAAUGUGGUUAGGUAUUUUUUUU---------GUUU
..--(((((((((-..((.......))..)))))))))((((.((((((....((.(((((....))))).))...)))))).))))---------.... ( -22.10)
>DroYak_CAF1 61209 91 + 1
UC--GUUGGUGUUUUGGAUGGAUAGUUUGAGCACCAAUAGAGCAAAUACAAUUACAACAUUUAUUAAUGUGGUUAGGUAUUUUUUUUU-------GGUUU
..--((((((((.(..(((.....)))..)))))))))((((.((((((....((.(((((....))))).))...)))))).)))).-------..... ( -20.60)
>DroPer_CAF1 66427 79 + 1
UUU-UUUGGUGUUUCGGGUGGAUAUUUUGAGCACCAAUAGAGCAAAUACAGUUACAACAUUUAUUAAUGUGG---GGUAACGG-----------------
(((-.(((((((((..(((....)))..))))))))).))).........(((((.(((((....)))))..---.)))))..----------------- ( -20.30)
>consensus
UC__GUUGGUGUU_UGGGUGGAUAGUUUGAGCACCAAUAGAGCAAAUACAAUUACAACAUUUAUUAAUGUGGUUAGGUAUUUUU_UU_________GUUU
....(((((((((.(..(.......)..)))))))))).....((((((.......(((((....)))))......)))))).................. (-12.91 = -13.89 +   0.97)

alignment

secondary structure

dotplot

Window 7

Location	13,576,920 – 13,577,017
Length	97
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.54
Mean single sequence MFE	-10.77
Consensus MFE	-7.77
Energy contribution	-8.55
Covariance contribution	0.78
Combinations/Pair	1.05
Mean z-score	-2.30
Structure conservation index	0.72
SVM decision value	0.65
SVM RNA-class probability	0.810290
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13576920 97 - 23771897
AAACCAAAAAAAAAAAAAAAAUACCUAACCACAUUAAUAAAUGUUGUAAUUGUAUUUGCUCUAUUGGUGCUCAAACUAUCCACCCA-AACACCAAC--GA
..................((((((...((.(((((....))))).))....))))))......((((((.................-..)))))).--.. ( -10.61)
>DroPse_CAF1 66776 80 - 1
-----------------CCGUUACC---CCACAUUAAUAAAUGUUGUAACUGUAUUUGCUCUAUUGGUGCUCAAAAUAUCCACCCGAAACACCAAAAAAA
-----------------..(((((.---..(((((....))))).))))).............((((((.((.............))..))))))..... ( -11.12)
>DroSim_CAF1 44569 89 - 1
AAACA-------AAA-AAAAAUACCUAACCACAUUAAUAAAUGUUGUAAUUGUAUUUGCUCUAUUGGUGCUCAAACUAUCCACCCA-AACACCAAC--GA
.....-------...-..((((((...((.(((((....))))).))....))))))......((((((.................-..)))))).--.. ( -10.61)
>DroEre_CAF1 59785 88 - 1
AAAC---------AAAAAAAAUACCUAACCACAUUAAUAAAUGUUGUAAUUGUAUUUGCUCUAUUGGUGCUCAAACUAUCCACCCA-AACACCAAC--GA
....---------.....((((((...((.(((((....))))).))....))))))......((((((.................-..)))))).--.. ( -10.61)
>DroYak_CAF1 61209 91 - 1
AAACC-------AAAAAAAAAUACCUAACCACAUUAAUAAAUGUUGUAAUUGUAUUUGCUCUAUUGGUGCUCAAACUAUCCAUCCAAAACACCAAC--GA
.....-------......((((((...((.(((((....))))).))....))))))......((((((....................)))))).--.. ( -10.55)
>DroPer_CAF1 66427 79 - 1
-----------------CCGUUACC---CCACAUUAAUAAAUGUUGUAACUGUAUUUGCUCUAUUGGUGCUCAAAAUAUCCACCCGAAACACCAAA-AAA
-----------------..(((((.---..(((((....))))).))))).............((((((.((.............))..)))))).-... ( -11.12)
>consensus
AAAC_________AA_AAAAAUACCUAACCACAUUAAUAAAUGUUGUAAUUGUAUUUGCUCUAUUGGUGCUCAAACUAUCCACCCA_AACACCAAC__GA
..................((((((...((.(((((....))))).))....))))))......((((((....................))))))..... ( -7.77 =  -8.55 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:55 2006