Locus 6472

Sequence ID 2L_DroMel_CAF1
Location 18,189,968 – 18,190,072
Length 104
Max. P 0.859911
window10332 window10333

overview

Window 2

Location 18,189,968 – 18,190,072
Length 104
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.70
Mean single sequence MFE -32.62
Consensus MFE -23.10
Energy contribution -23.38
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.61
Structure conservation index 0.71
SVM decision value 0.28
SVM RNA-class probability 0.667003
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18189968 104 + 22407834
UUGGAUUUGU----GCUCCCGUUCUCGAGG-----------GACUUGGGUCAACUCGGUUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAACAGACGAGGAAA-UUUGUGGAUUUC
.....(((((----((((((........))-----------))...((((((((......)))))))).))..(((((((((....)))))))))...)))))((((-((....)))))) ( -31.40)
>DroPse_CAF1 34835 97 + 1
UUGGAUUUGCGGGAGCUCCCCU----------------------UUGGGUCAACCUGGCUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAACAGACGUGGAAA-UUUGUGGAGUCC
..(((((((((((....)))..----------------------..((((((((......)))))))).))..(((((((((....)))))))))((.(.((....)-).).)))))))) ( -31.40)
>DroEre_CAF1 33029 104 + 1
UUGGAUUUGU----GCUCCCGUUCUCAAGG-----------GACUUGGGUCAACUCGGUUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAACAGACGAGGAAU-UUUGUGGAUUUC
..(((((..(----..((((........))-----------))((((.((((((......))))))((((...(((((((((....)))))))))))))))))....-...)..))))). ( -31.30)
>DroYak_CAF1 32789 104 + 1
UUGGAUUUGU----GCUCCCGUUCUCGAGG-----------GACUUGGGUCAACUCGGUUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAUCAGACGAGGAAU-UUUGUGGAUUUC
..(((((..(----..((((........))-----------))((((.((((((......))))))((((....((((((((....)))))))).))))))))....-...)..))))). ( -30.80)
>DroAna_CAF1 29532 116 + 1
UUGGAUUUGA----GAGCUGCUUCCCAGGGGCCUGGAUUCGGGCUUGGGUCAACCCGGUUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAACAGACGAGGAAAUUUUGCGGAUUCC
..((((((((----(((((..(..((..(((((((....)))))))(((....)))))..)..))))))....(((((((((....))))))))).................))))))). ( -39.40)
>DroPer_CAF1 34715 97 + 1
UUGGAUUUGCGGGAGCUCCCCU----------------------UUGGGUCAACCUGGCUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAACAGACGUGGAAA-UUUGUGGAGUCC
..(((((((((((....)))..----------------------..((((((((......)))))))).))..(((((((((....)))))))))((.(.((....)-).).)))))))) ( -31.40)
>consensus
UUGGAUUUGU____GCUCCCCUUCUC_AGG___________GACUUGGGUCAACCCGGUUGUUGGCUCUGCAUUUGUGCAAUUUUAAUUGCACAACAGACGAGGAAA_UUUGUGGAUUCC
..(((((..(......(((...........................((((((((......)))))))).....(((((((((....))))))))).......)))......)..))))). (-23.10 = -23.38 +   0.28)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,189,968 – 18,190,072
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.70
Mean single sequence MFE -27.83
Consensus MFE -17.65
Energy contribution -18.32
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.64
Structure conservation index 0.63
SVM decision value 0.82
SVM RNA-class probability 0.859911
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18189968 104 - 22407834
GAAAUCCACAAA-UUUCCUCGUCUGUUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAACCGAGUUGACCCAAGUC-----------CCUCGAGAACGGGAGC----ACAAAUCCAA
(((((......)-))))(((.(((((((((((((....))))))))...)))))..........(((..(((....)))-----------.))))))....(((..----.....))).. ( -25.10)
>DroPse_CAF1 34835 97 - 1
GGACUCCACAAA-UUUCCACGUCUGUUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAGCCAGGUUGACCCAA----------------------AGGGGAGCUCCCGCAAAUCCAA
(((.........-............(((((((((....))))))))).(((.((((((((......)))).(((..----------------------..))).))))..)))..))).. ( -28.40)
>DroEre_CAF1 33029 104 - 1
GAAAUCCACAAA-AUUCCUCGUCUGUUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAACCGAGUUGACCCAAGUC-----------CCUUGAGAACGGGAGC----ACAAAUCCAA
............-........(((((((((((((....))))))))...)))))((((((......)))).......((-----------((........))))))----.......... ( -23.70)
>DroYak_CAF1 32789 104 - 1
GAAAUCCACAAA-AUUCCUCGUCUGAUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAACCGAGUUGACCCAAGUC-----------CCUCGAGAACGGGAGC----ACAAAUCCAA
............-.((((.((((((.((((((((....))))))))....)))).........((((..(((....)))-----------.))))....)))))).----.......... ( -23.90)
>DroAna_CAF1 29532 116 - 1
GGAAUCCGCAAAAUUUCCUCGUCUGUUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAACCGGGUUGACCCAAGCCCGAAUCCAGGCCCCUGGGAAGCAGCUC----UCAAAUCCAA
(((......................(((((((((....))))))))).((.(((((.......((((((......))))))..(((((....))))).....))))----)))..))).. ( -37.50)
>DroPer_CAF1 34715 97 - 1
GGACUCCACAAA-UUUCCACGUCUGUUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAGCCAGGUUGACCCAA----------------------AGGGGAGCUCCCGCAAAUCCAA
(((.........-............(((((((((....))))))))).(((.((((((((......)))).(((..----------------------..))).))))..)))..))).. ( -28.40)
>consensus
GAAAUCCACAAA_UUUCCUCGUCUGUUGUGCAAUUAAAAUUGCACAAAUGCAGAGCCAACAACCGAGUUGACCCAAGUC___________CCU_GAGAACGGGAGC____ACAAAUCCAA
..............((((...(((((((((((((....))))))))...)))))..((((......))))..............................))))................ (-17.65 = -18.32 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:02 2006