Locus 6801

Sequence ID	3L_DroMel_CAF1
Location	18,279,395 – 18,279,490
Length	95
Max. P	0.889231

overview

Window 5

Location	18,279,395 – 18,279,490
Length	95
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	78.74
Mean single sequence MFE	-19.82
Consensus MFE	-14.60
Energy contribution	-14.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.65
Structure conservation index	0.74
SVM decision value	0.96
SVM RNA-class probability	0.889231
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18279395 95 + 23771897
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCAAAAAGUUUGC-A-ACUCCCAACUCC-------CAGCUUCUCCUCGAU---CCUCC---AUCC
..........(((.(((((((((((((.......))))))))..))).....)).)))-.-............-------...............---.....---.... ( -16.50)
>DroPse_CAF1 73310 103 + 1
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCGAAAAAGUUGCCAAACUCCCGACUGGCCCC---CCCCCCCACCCCGACUGCCCCCC---GUC-
..........(((..(((.((((((((.......))))))))..((((....((((....))))......))))...---..........)))..))).....---...- ( -22.50)
>DroEre_CAF1 60690 96 + 1
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCAAAAAGUUUGCCA-ACUCCCAGCUCC-------CAGCUCCUCCUCGAU---CCCCC---AUCC
.......((.(((.(((((((((((((.......))))))))..))).....)).)))))-......(((...-------..)))..........---.....---.... ( -18.10)
>DroYak_CAF1 69561 103 + 1
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCAAAAAGUUUGCCA-ACUCCCAACUCCCCGCUCACAGCUCCUCCUCGAU---CUCCC---AUCC
.....((((.((....(((((((((((.......))))))))..)))....((((....)-)))...........)).)))).............---.....---.... ( -21.70)
>DroAna_CAF1 63185 82 + 1
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCAAAAAGUUUCCCA-ACUC------------------------CACGAU---CCUCCUGCGUCC
........(((((...(((((((((((.......))))))))..)))....((((....)-))).------------------------......---.....))))).. ( -19.70)
>DroPer_CAF1 74919 92 + 1
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCGAAAAAGUUGCCAAACUCCCGACUGCCC--------------CCCGACUGCCCCCC---GUC-
..........((...((((((((((((.......))))))))..))))....(((((.........)))))))..--------------...(((........---)))- ( -20.40)
>consensus
CUUAAUGUGCGCAUACGGUGUGACAUGUCCUUUUCAUGUCACUCGCCAAAAAGUUUGCCA_ACUCCCAACUCC_______CAGCUCCUCCUCGAU___CCCCC___AUCC
....(((....)))..(((((((((((.......))))))))..)))............................................................... (-14.60 = -14.60 +  -0.00)

alignment

secondary structure

dotplot

Window 6

Location	18,279,395 – 18,279,490
Length	95
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	78.74
Mean single sequence MFE	-30.33
Consensus MFE	-15.61
Energy contribution	-16.00
Covariance contribution	0.39
Combinations/Pair	1.17
Mean z-score	-1.97
Structure conservation index	0.51
SVM decision value	0.18
SVM RNA-class probability	0.619998
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18279395 95 - 23771897
GGAU---GGAGG---AUCGAGGAGAAGCUG-------GGAGUUGGGAGU-U-GCAAACUUUUUGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
.(((---(..(.---((...((....((..-------((((((......-.-...))).)))..))..((((((((.......)))))))).))..)).)...))))... ( -23.70)
>DroPse_CAF1 73310 103 - 1
-GAC---GGGGGGCAGUCGGGGUGGGGGGG---GGGGCCAGUCGGGAGUUUGGCAACUUUUUCGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
-...---...(.(((..(((.((.(..(((---(..(((((.(....).)))))..))))..).))..((((((((.......)))))))).)))..))).)........ ( -41.20)
>DroEre_CAF1 60690 96 - 1
GGAU---GGGGG---AUCGAGGAGGAGCUG-------GGAGCUGGGAGU-UGGCAAACUUUUUGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
(.((---(.((.---.((.((......)).-------)).((..(((((-(....))).)))..))..((((((((.......)))))))).)).))).).......... ( -26.20)
>DroYak_CAF1 69561 103 - 1
GGAU---GGGAG---AUCGAGGAGGAGCUGUGAGCGGGGAGUUGGGAGU-UGGCAAACUUUUUGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
.(((---(....---.((......))((.(((.((((...((..(((((-(....))).)))..))..((((((((.......)))))))).)))).))))).))))... ( -28.90)
>DroAna_CAF1 63185 82 - 1
GGACGCAGGAGG---AUCGUG------------------------GAGU-UGGGAAACUUUUUGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
(..((((...((---.((((.------------------------(((.-.((....)).))).))))((((((((.......)))))))).))...))))..)...... ( -30.90)
>DroPer_CAF1 74919 92 - 1
-GAC---GGGGGGCAGUCGGG--------------GGGCAGUCGGGAGUUUGGCAACUUUUUCGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
-...---...(.(((..(((.--------------.....((((..((...(....).))..))))..((((((((.......)))))))).)))..))).)........ ( -31.10)
>consensus
GGAC___GGGGG___AUCGAGGAGGAGCUG_______GGAGUUGGGAGU_UGGCAAACUUUUUGGCGAGUGACAUGAAAAGGACAUGUCACACCGUAUGCGCACAUUAAG
.......((...............................((((((((..........))))))))..((((((((.......)))))))).))................ (-15.61 = -16.00 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:15 2006