Locus 6114

Sequence ID	X_DroMel_CAF1
Location	15,659,164 – 15,659,303
Length	139
Max. P	0.943029

overview

Window 6

Location	15,659,164 – 15,659,269
Length	105
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	80.93
Mean single sequence MFE	-28.73
Consensus MFE	-18.39
Energy contribution	-19.28
Covariance contribution	0.89
Combinations/Pair	1.29
Mean z-score	-1.62
Structure conservation index	0.64
SVM decision value	0.16
SVM RNA-class probability	0.613763
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15659164 105 - 22224390
GGAUCCUCCGCCGCUGUCGC------ACUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGUCUUGGAUUCACCGACCAAUGCCGCUUCUUUUUCGCCA
((.....))((.((.(((((------..(((....)))..))....(((.((..((((((((.....))))))))..)).)))...)))....)).))............. ( -27.80)
>DroSec_CAF1 1916 105 - 1
GGAUCCUCCGCCGCGGUCAC------UCUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGCCUUGGAUUCACCGACCAAUGCCGCUUCUUUUUCGCCA
((.....))...((((((..------...))))....(((((....(((.((..((((((((.....))))))))..)).)))...(........))))))......)).. ( -34.40)
>DroSim_CAF1 912 105 - 1
GGAUCCUCCGCCGCGGUCAC------ACUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGUCUUGGAUUCACCGACCAAUGCCGCUUCUUUUUCGCCA
((.....))...((((((..------...))))....(((((....(((.((..((((((((.....))))))))..)).)))...(........))))))......)).. ( -31.70)
>DroEre_CAF1 1841 105 - 1
GGAUCCUCCGCCUUGGUCGC------ACUGACCUCUCGAAGCAUCCGAAACUCUGGUGGAUCUUCAAGAUCCGUCUUGGAUUCACCGACCAAUGCCGCUUCCUUUUCGCCA
(((....(.((.((((((((------..(((....)))..))............((((((((..(((((....))))))))))))))))))).)).)..)))......... ( -31.30)
>DroYak_CAF1 1037 105 - 1
GGAUCCUCCGCCUCGGUCGC------AUUGACCUCUCGAAGCAUCCGAAACUCUGGUGGAUCUUCAAGAUCCGUCUUGGAUUCAACGACCAAUGCCGCUUCCUUUUCGCCA
((((((......((((..((------.((((....)))).))..))))......(..(((((.....)))))..)..))))))............................ ( -27.30)
>DroPer_CAF1 1620 100 - 1
-----CACCUCCAUGUCUGCACCUAAAUUUACCUGUUGAGCCAUGGACAACUCUUGUGAUUCUUUAAGAUCUAGCUUGGACUCA------GAUAUGGGAUCCUUUCCGCAA
-----....((((((((((..((..(((......)))((((..((((....(((((........)))))))))))))))...))------))))))))............. ( -19.90)
>consensus
GGAUCCUCCGCCGCGGUCGC______ACUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGUCUUGGAUUCACCGACCAAUGCCGCUUCCUUUUCGCCA
((............(((((.........)))))....(((((............((((((((.....))))))))((((.........))))....))))).......)). (-18.39 = -19.28 +   0.89)

alignment

secondary structure

dotplot

Window 7

Location	15,659,198 – 15,659,303
Length	105
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	77.24
Mean single sequence MFE	-35.12
Consensus MFE	-21.24
Energy contribution	-22.63
Covariance contribution	1.39
Combinations/Pair	1.20
Mean z-score	-2.12
Structure conservation index	0.60
SVM decision value	1.33
SVM RNA-class probability	0.943029
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15659198 105 - 22224390
GUUACUGAUUC------CAUCGGCGUUGGGUCCUCGUCGUGGAUCCUCCGCCGCUGUCGC------ACUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGUCUU
((((.((....------((.(((((..((((((.......))))))..))))).))...)------).))))...(((.......)))......((((((((.....)))))))).. ( -38.20)
>DroSec_CAF1 1950 105 - 1
GUUACUGAUUC------CAUUGGCGUUGGGUCCUCGACGUGGAUCCUCCGCCGCGGUCAC------UCUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGCCUU
(((.(.(((.(------....((((..((((((.......))))))..))))..((((..------...)))).......).))).).)))...((((((((.....)))))))).. ( -41.50)
>DroSim_CAF1 946 105 - 1
GUUACUGAUUC------CAUCGGCGUUGGGUCCUCGACGUGGAUCCUCCGCCGCGGUCAC------ACUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGUCUU
(((.(.(((.(------...(((((..((((((.......))))))..))))).((((..------...)))).......).))).).)))...((((((((.....)))))))).. ( -40.00)
>DroEre_CAF1 1875 102 - 1
GUUACUGAUUC------CAUCGGCAGUGGGUCCUCGA---GGAUCCUCCGCCUUGGUCGC------ACUGACCUCUCGAAGCAUCCGAAACUCUGGUGGAUCUUCAAGAUCCGUCUU
((((.((...(------((..(((.(.((((((....---)))))).).))).)))...)------).)))).(((.((((.(((((.........))))))))).)))........ ( -32.70)
>DroYak_CAF1 1071 102 - 1
GUUACUGAUUC------CACCGGCAGUGGGUCCUCGA---GGAUCCUCCGCCUCGGUCGC------AUUGACCUCUCGAAGCAUCCGAAACUCUGGUGGAUCUUCAAGAUCCGUCUU
.....(((.((------(((((((.(.((((((....---)))))).).)))((((..((------.((((....)))).))..))))......))))))...)))........... ( -39.20)
>DroPer_CAF1 1648 105 - 1
GUUGCUGACAAUUUUGGCACCAGCAGCGA--CCAC----------CACCUCCAUGUCUGCACCUAAAUUUACCUGUUGAGCCAUGGACAACUCUUGUGAUUCUUUAAGAUCUAGCUU
(((((((.............)))))))..--....----------....((((((.((.((.(...........).)))).))))))....(((((........)))))........ ( -19.12)
>consensus
GUUACUGAUUC______CAUCGGCAGUGGGUCCUCGA___GGAUCCUCCGCCGCGGUCGC______ACUGACCUCUCGAAGCAUCCGAAACUCUGGCGGAUCUUCAAGAUCCGUCUU
(((..................(((...((((((.......))))))...)))..(((((.........)))))...............)))...((((((((.....)))))))).. (-21.24 = -22.63 +   1.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:33 2006