Locus 6645

Sequence ID	2L_DroMel_CAF1
Location	18,657,119 – 18,657,209
Length	90
Max. P	0.956860

overview

Window 6

Location	18,657,119 – 18,657,209
Length	90
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	75.70
Mean single sequence MFE	-27.92
Consensus MFE	-24.49
Energy contribution	-23.47
Covariance contribution	-1.02
Combinations/Pair	1.36
Mean z-score	-1.55
Structure conservation index	0.88
SVM decision value	1.47
SVM RNA-class probability	0.956860
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18657119 90 + 22407834
AUUUGUUAUA-----------GGCCUAAGUUA--UGCCAAUGUGCGAUCCGAGUGCGGAACUCGGCCAACACAUUUAUCUGUGAUACGAUUUAGGCGUCUUUA-----
..........-----------.(((((((((.--....((((((....((((((.....))))))....))))))((((...)))).))))))))).......----- ( -25.40)
>DroVir_CAF1 57020 104 + 1
AUUUGUUAUAGCCC---GUUAGGCCUAAGUUAUAUGCCAAUGUGCGUGCUGCACAGC-UGUGUGGAUCGCGCAUUUAUCUGUGAUACCAUUUAGGCGUCUAUAUUCCU
......(((((...---...(.((((((((((((....((((((((..(..(((...-.)))..)..))))))))....)))))).....)))))).))))))..... ( -28.40)
>DroPse_CAF1 64333 106 + 1
CUUUGUUAUAGCCGCGUUUCGGGCCUAAGUUA--UGCCAAUGUGUGCUCUGAGGAGGAUUCUCGGAUGGCACAUUCAUCUGUGAUACGAUUUAGGCGUCUACAAACCU
.(((((....(((.(((.((((((........--.)))(((((((..((((((((...))))))))..)))))))......))).))).....)))....)))))... ( -30.90)
>DroSim_CAF1 10256 90 + 1
AUUUGUUAUA-----------GGCCUAAGUUA--UGCCAAUGUGCGAUCCGAGCGCGGAACUCGGCCAACACAUUUAUCUGUGAUACGAUUUAGGCGUCUUUA-----
..........-----------.(((((((((.--.(((..(((((.......)))))(....))))...((((......))))....))))))))).......----- ( -23.50)
>DroYak_CAF1 9789 90 + 1
AUUUGUUAUA-----------GGCCUAAGUUA--UGCCAAUGUGUGAUCCGAGUACGAAACUCGGCCAACACAUUUAUCUGUGAUACGAUUUAGGCGUCUUUA-----
..........-----------.(((((((((.--....(((((((...((((((.....))))))...)))))))((((...)))).))))))))).......----- ( -27.40)
>DroPer_CAF1 52533 106 + 1
CUUUGUUAUAGCCGCGUUUCGGGCCUAAGUUA--UGCCAAUGUGUGCUCUGAGGAGGAUUCUCGGAUGGCACAUUCAUCUGUGAUCCGAUUUAGGCGUCUACAAACAU
.(((((....(((.....((((..(..((..(--((..(((((((..((((((((...))))))))..))))))))))))..)..))))....)))....)))))... ( -31.90)
>consensus
AUUUGUUAUA___________GGCCUAAGUUA__UGCCAAUGUGCGAUCCGAGCACGAAACUCGGACAACACAUUUAUCUGUGAUACGAUUUAGGCGUCUAUA_____
......................(((((((((...(((.(((((((...((((((.....))))))...))))))).....)))....)))))))))............ (-24.49 = -23.47 +  -1.02)

alignment

secondary structure

dotplot

Window 7

Location	18,657,119 – 18,657,209
Length	90
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	75.70
Mean single sequence MFE	-25.07
Consensus MFE	-15.33
Energy contribution	-15.58
Covariance contribution	0.25
Combinations/Pair	1.29
Mean z-score	-1.81
Structure conservation index	0.61
SVM decision value	1.11
SVM RNA-class probability	0.916634
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18657119 90 - 22407834
-----UAAAGACGCCUAAAUCGUAUCACAGAUAAAUGUGUUGGCCGAGUUCCGCACUCGGAUCGCACAUUGGCA--UAACUUAGGCC-----------UAUAACAAAU
-----.......(((((((((........))).(((((((...((((((.....))))))...)))))))....--....)))))).-----------.......... ( -25.20)
>DroVir_CAF1 57020 104 - 1
AGGAAUAUAGACGCCUAAAUGGUAUCACAGAUAAAUGCGCGAUCCACACA-GCUGUGCAGCACGCACAUUGGCAUAUAACUUAGGCCUAAC---GGGCUAUAACAAAU
.........((..((.....))..))........((((((..........-))(((((.....)))))...))))......(((.((....---)).)))........ ( -22.90)
>DroPse_CAF1 64333 106 - 1
AGGUUUGUAGACGCCUAAAUCGUAUCACAGAUGAAUGUGCCAUCCGAGAAUCCUCCUCAGAGCACACAUUGGCA--UAACUUAGGCCCGAAACGCGGCUAUAACAAAG
....((((((..(((((((((........)))...(((((((((.(((.......))).))........)))))--))..))))))(((.....)))))))))..... ( -24.50)
>DroSim_CAF1 10256 90 - 1
-----UAAAGACGCCUAAAUCGUAUCACAGAUAAAUGUGUUGGCCGAGUUCCGCGCUCGGAUCGCACAUUGGCA--UAACUUAGGCC-----------UAUAACAAAU
-----.......(((((((((........))).(((((((...((((((.....))))))...)))))))....--....)))))).-----------.......... ( -25.50)
>DroYak_CAF1 9789 90 - 1
-----UAAAGACGCCUAAAUCGUAUCACAGAUAAAUGUGUUGGCCGAGUUUCGUACUCGGAUCACACAUUGGCA--UAACUUAGGCC-----------UAUAACAAAU
-----.......(((((((((........))).(((((((.((((((((.....)))))).)))))))))....--....)))))).-----------.......... ( -25.70)
>DroPer_CAF1 52533 106 - 1
AUGUUUGUAGACGCCUAAAUCGGAUCACAGAUGAAUGUGCCAUCCGAGAAUCCUCCUCAGAGCACACAUUGGCA--UAACUUAGGCCCGAAACGCGGCUAUAACAAAG
.((((.((((..((((((.((((((((((......))))..))))))..............((........)).--....))))))(((.....)))))))))))... ( -26.60)
>consensus
_____UAAAGACGCCUAAAUCGUAUCACAGAUAAAUGUGCUAGCCGAGUAUCCUACUCAGAUCACACAUUGGCA__UAACUUAGGCC___________UAUAACAAAU
............(((((((((........))).(((((((...(.((((.....)))).)...)))))))..........))))))...................... (-15.33 = -15.58 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:17 2006