Locus 9980

Sequence ID 3R_DroMel_CAF1
Location 26,714,574 – 26,714,665
Length 91
Max. P 0.971211
window15909 window15910

overview

Window 9

Location 26,714,574 – 26,714,665
Length 91
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 73.55
Mean single sequence MFE -21.47
Consensus MFE -16.58
Energy contribution -16.97
Covariance contribution 0.39
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value 1.67
SVM RNA-class probability 0.971211
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26714574 91 + 27905053
------UUCGCACUUC---UCUCCAUCU---CUUCUCCACUCACCAAAGGCGCAGCACAGUGCCAAAACGGCCAAGAGGCCUGCUCUCUCCAUUUUCCCGGUU
------..........---.........---...........(((...(((((......))))).....((((....))))..................))). ( -18.80)
>DroPse_CAF1 22914 87 + 1
ACGCAAUUUGCACCUA---U-------G---ACACACAACUUACCGCAGGCACAA---ACAGCCAAAAUGGCCAAAAGGCCAGCUCUGCGCAUUUUGUUGAUU
..((.....)).....---.-------.---.....((((....(((((((....---...)))....(((((....)))))....))))......))))... ( -22.10)
>DroSec_CAF1 18181 83 + 1
------UUCGCACUUC---U-----------CUUCUGCACUCACCGAAGGCGCAGCACAGUGCCAAAACGGCCAAGAGGCCUGCUCUCUCCAUUUUCCCGGUU
------...(((....---.-----------....)))....((((..(((((......))))).....((((....)))).................)))). ( -21.90)
>DroSim_CAF1 18379 83 + 1
------UUCGCACUUU---U-----------CUUCUGCACUCACCGAAGGCGCAGCACAGUGCCAAAACGGCCAAGAGGCCUGCUCUCUCCAUUUUCCCGGUU
------...(((....---.-----------....)))....((((..(((((......))))).....((((....)))).................)))). ( -21.90)
>DroEre_CAF1 17802 76 + 1
------UUC---------------------GCUAUCGCACUCACCGAAGGCGCAGCACAGUGCCAAAACGGCCAAAAGGCCUGCUCUCUCCAUGUUCCCGGUU
------...---------------------((....))....((((..(((((......))))).....((((....)))).................)))). ( -21.80)
>DroYak_CAF1 18029 97 + 1
------UUCGUAUUUCGUCUUUCGCUCUUUGCUUUCGCACUCACCGAAGGCACAGCACAGUGCCAAAACGGCCAAAAGGCCUGCUCUCUCCAUGUUCCGGGUU
------.................((((..((((((((.......)))))))).((((..((......))((((....)))))))).............)))). ( -22.30)
>consensus
______UUCGCACUUC___U___________CUUCUGCACUCACCGAAGGCGCAGCACAGUGCCAAAACGGCCAAAAGGCCUGCUCUCUCCAUUUUCCCGGUU
..........................................(((...(((((......))))).....((((....))))..................))). (-16.58 = -16.97 +   0.39)

alignment

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secondary structure

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dotplot

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Window 0

Location 26,714,574 – 26,714,665
Length 91
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 73.55
Mean single sequence MFE -27.98
Consensus MFE -17.07
Energy contribution -17.85
Covariance contribution 0.78
Combinations/Pair 1.11
Mean z-score -1.35
Structure conservation index 0.61
SVM decision value 0.32
SVM RNA-class probability 0.686299
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26714574 91 - 27905053
AACCGGGAAAAUGGAGAGAGCAGGCCUCUUGGCCGUUUUGGCACUGUGCUGCGCCUUUGGUGAGUGGAGAAG---AGAUGGAGA---GAAGUGCGAA------
..(((......)))..(((((.((((....))))))))).(((((...((.((.((((............))---)).)).)).---..)))))...------ ( -25.50)
>DroPse_CAF1 22914 87 - 1
AAUCAACAAAAUGCGCAGAGCUGGCCUUUUGGCCAUUUUGGCUGU---UUGUGCCUGCGGUAAGUUGUGUGU---C-------A---UAGGUGCAAAUUGCGU
......((((((((.....)).((((....))))))))))((.((---(((..((((.(..(.......)..---)-------.---))))..))))).)).. ( -29.00)
>DroSec_CAF1 18181 83 - 1
AACCGGGAAAAUGGAGAGAGCAGGCCUCUUGGCCGUUUUGGCACUGUGCUGCGCCUUCGGUGAGUGCAGAAG-----------A---GAAGUGCGAA------
..(((......)))..(((((.((((....))))))))).(((((...(((((((......).))))))...-----------.---..)))))...------ ( -29.10)
>DroSim_CAF1 18379 83 - 1
AACCGGGAAAAUGGAGAGAGCAGGCCUCUUGGCCGUUUUGGCACUGUGCUGCGCCUUCGGUGAGUGCAGAAG-----------A---AAAGUGCGAA------
..(((......)))..(((((.((((....))))))))).(((((...(((((((......).))))))...-----------.---..)))))...------ ( -29.10)
>DroEre_CAF1 17802 76 - 1
AACCGGGAACAUGGAGAGAGCAGGCCUUUUGGCCGUUUUGGCACUGUGCUGCGCCUUCGGUGAGUGCGAUAGC---------------------GAA------
.((((((.........(((((.((((....)))))))))(((.(......).)))))))))...(((....))---------------------)..------ ( -23.60)
>DroYak_CAF1 18029 97 - 1
AACCCGGAACAUGGAGAGAGCAGGCCUUUUGGCCGUUUUGGCACUGUGCUGUGCCUUCGGUGAGUGCGAAAGCAAAGAGCGAAAGACGAAAUACGAA------
....((...(((.((((((((.((((....)))))))))(((((......)))))))).)))..(((....)))....((....).)......))..------ ( -31.60)
>consensus
AACCGGGAAAAUGGAGAGAGCAGGCCUCUUGGCCGUUUUGGCACUGUGCUGCGCCUUCGGUGAGUGCAGAAG___________A___GAAGUGCGAA______
.((((((.........(((((.((((....)))))))))(((.(......).))))))))).......................................... (-17.07 = -17.85 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:18 2006