Locus 2486

Sequence ID X_DroMel_CAF1
Location 6,601,699 – 6,601,797
Length 98
Max. P 0.948792
window4068 window4069

overview

Window 8

Location 6,601,699 – 6,601,797
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 67.71
Mean single sequence MFE -39.92
Consensus MFE -17.59
Energy contribution -17.83
Covariance contribution 0.24
Combinations/Pair 1.30
Mean z-score -2.07
Structure conservation index 0.44
SVM decision value 1.39
SVM RNA-class probability 0.948792
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6601699 98 + 22224390
AAUCAUCGCGGCGAAUUGCAGACACGUAGCCUUGGCAGAGUGAGCAUUU---------------------UGCUCUGCUAUUCGUGUCUAUCGUA-UUCGCCGGCAAUUGCGCAUUGUGA
.....(((((((((((.(((((((((......((((((((..((...))---------------------..))))))))..)))))))...)))-)))))).((....)).....)))) ( -39.30)
>DroSec_CAF1 16778 103 + 1
AAUCAUAGCGGCGAAUUGCAGACACGUAGCUGAGGCAGGGUGAGUAAGUAUUCC--------GGAG--CAUAUUCUGCU------GUGCUCCGUA-UUCGCCGGCAAUUGCGCAUUGAUG
.((((..(((.(.((((((.........((....))..((((((((.......(--------((((--((((......)------))))))))))-)))))).))))))))))..)))). ( -37.41)
>DroSim_CAF1 14151 108 + 1
AAUCAUAGCGGCGAAUUGCAGACACGUAGCUGAGGCAGGGUGAGGGUGAUUCCC--------GGAG--CAUAUUCUGCUCU-UGUGUGCUCCGUA-UUCGCCGGCAAUUGCGCAUUGUUG
.....((((.(((((((((...(((.(.((....)).).)))..(((((....(--------((((--(((((........-.))))))))))..-.))))).)))))).)))...)))) ( -40.10)
>DroEre_CAF1 17003 116 + 1
AUUCAUCGCGGCGAUUUGCAGA--CGGAGCCGUGUCAGUGUGCAUGUAUGUACGCGUAUUUGGUGGCACUUGCUAUUGUGUGC--GUGCUCCUAAUUUCGCCGGCAAAUGCGCAUUGUCG
.......(((((..((((....--)))))))))(.((((((((((...(((..(((...((((..((((.(((......))).--))))..))))...)))..))).)))))))))).). ( -41.50)
>DroYak_CAF1 16471 113 + 1
AUUCGUCGCGGCGAAUUGCAGU--UGUAGCCGUGUUAGUGUGAGCACGUGUGCCUGUAU---GUGGGACUUGUUCUUGUGUGC--GUGCACCGCAUUUCGCCGGCUAUUGCGCAUUGUCG
.......((((((((.(((...--......((((((......)))))).((((.(((((---(..(((.....)))..)))))--).)))).))).)))))).((....))))....... ( -41.30)
>consensus
AAUCAUCGCGGCGAAUUGCAGACACGUAGCCGUGGCAGGGUGAGCAUGUGU_CC________GGAG__CAUGUUCUGCUGU_C__GUGCUCCGUA_UUCGCCGGCAAUUGCGCAUUGUCG
.......((((((((.(((.((...........((((((((..............................))))))))..........)).))).)))))).((....))))....... (-17.59 = -17.83 +   0.24)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,601,699 – 6,601,797
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 67.71
Mean single sequence MFE -31.82
Consensus MFE -11.64
Energy contribution -13.80
Covariance contribution 2.16
Combinations/Pair 1.05
Mean z-score -1.99
Structure conservation index 0.37
SVM decision value 0.77
SVM RNA-class probability 0.847019
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6601699 98 - 22224390
UCACAAUGCGCAAUUGCCGGCGAA-UACGAUAGACACGAAUAGCAGAGCA---------------------AAAUGCUCACUCUGCCAAGGCUACGUGUCUGCAAUUCGCCGCGAUGAUU
...((.(((((....)).((((((-(..(.((((((((..((((.((((.---------------------....))))...((....))))))))))))))).)))))))))).))... ( -36.40)
>DroSec_CAF1 16778 103 - 1
CAUCAAUGCGCAAUUGCCGGCGAA-UACGGAGCAC------AGCAGAAUAUG--CUCC--------GGAAUACUUACUCACCCUGCCUCAGCUACGUGUCUGCAAUUCGCCGCUAUGAUU
.((((..((((....)).((((((-(.(((((((.------(......).))--))))--------)...........(((...((....))...)))......)))))))))..)))). ( -30.20)
>DroSim_CAF1 14151 108 - 1
CAACAAUGCGCAAUUGCCGGCGAA-UACGGAGCACACA-AGAGCAGAAUAUG--CUCC--------GGGAAUCACCCUCACCCUGCCUCAGCUACGUGUCUGCAAUUCGCCGCUAUGAUU
...((..((((....)).((((((-(.((((.(((...-.(((((.....))--))).--------(((.....)))..................)))))))..)))))))))..))... ( -31.70)
>DroEre_CAF1 17003 116 - 1
CGACAAUGCGCAUUUGCCGGCGAAAUUAGGAGCAC--GCACACAAUAGCAAGUGCCACCAAAUACGCGUACAUACAUGCACACUGACACGGCUCCG--UCUGCAAAUCGCCGCGAUGAAU
...((.(((((....)).(((((.....(((((..--((((..........))))..........((((......))))...........)))))(--....)...)))))))).))... ( -30.10)
>DroYak_CAF1 16471 113 - 1
CGACAAUGCGCAAUAGCCGGCGAAAUGCGGUGCAC--GCACACAAGAACAAGUCCCAC---AUACAGGCACACGUGCUCACACUAACACGGCUACA--ACUGCAAUUCGCCGCGACGAAU
......(((((....)).((((((.((((((....--((............((.((..---.....)).)).((((..........))))))....--)))))).)))))))))...... ( -30.70)
>consensus
CAACAAUGCGCAAUUGCCGGCGAA_UACGGAGCAC__G_ACAGCAGAACAAG__CCAC________GG_ACACAUACUCACACUGCCACGGCUACGUGUCUGCAAUUCGCCGCGAUGAUU
...((.(((((....)).((((((...((((...........((((....................................))))............))))...))))))))).))... (-11.64 = -13.80 +   2.16)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:02 2006