Locus 7310

Sequence ID 2L_DroMel_CAF1
Location 20,462,974 – 20,463,144
Length 170
Max. P 0.959304
window11706 window11707 window11708

overview

Window 6

Location 20,462,974 – 20,463,074
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.33
Mean single sequence MFE -31.88
Consensus MFE -23.99
Energy contribution -25.03
Covariance contribution 1.04
Combinations/Pair 1.10
Mean z-score -2.38
Structure conservation index 0.75
SVM decision value 1.50
SVM RNA-class probability 0.959304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20462974 100 + 22407834
CAAUCAAUUGCCAUGACAAAUGCUCCUAGUGUUGUUGUCG--------------CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUG------
..........(((((((((((((..((((.(((((....(--------------(....))..)))))))))...))))))))))..)))(((((((((.....))))))))).------ ( -32.60)
>DroSec_CAF1 15918 100 + 1
CAAUCAAUUGCCAUGACAAAUGCUCCCAGUGUUGUUGUCG--------------CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUU------
..........(((((((((((((..((((.(((((....(--------------(....))..)))))))))...))))))))))..)))(((((((((.....))))))))).------ ( -34.30)
>DroSim_CAF1 17836 100 + 1
CAAUCAAUUGCCAUGACAAAUGCUCCCAGUGUUGUUGUCG--------------CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGCAUUUU------
..........(((((((((((((..((((.(((((....(--------------(....))..)))))))))...))))))))))..)))(((((((((.....))))))))).------ ( -36.30)
>DroEre_CAF1 18406 119 + 1
CUAUCAAUUGCCAUGACAAAUGCUCCUAGUGUUGUUGUCGCCUGUUGUGUGUCUCCUCUGC-UGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCCCUAUUUUGCUCUAGCUUUGCUAG
.............((((((((((....(((...(((((.((..(..(.....)..)...))-.)))))...))).))))))))))((..(((........)))..))(((((...))))) ( -28.10)
>DroYak_CAF1 15546 116 + 1
CAAUCAAUUGCCAUGACAAAUGCUCCUAGUGUUGUUGUCGCCUGUUG----UCGCUUCUGCUUGCAGUUUGGCUUGCAUUUGUCAUGUGGAAAUGCUCUAUUUUGGUCUAGUUGCUCUAC
....(((((((((((((((((((.....(((.......)))......----..(((.(((....)))...)))..)))))))))))(((((.....)))))...)))..)))))...... ( -28.10)
>consensus
CAAUCAAUUGCCAUGACAAAUGCUCCUAGUGUUGUUGUCG______________CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUU______
..........(((((((((((((..((((.(((((............................)))))))))...))))))))))..)))(((((((((.....)))))))))....... (-23.99 = -25.03 +   1.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,463,014 – 20,463,112
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 84.23
Mean single sequence MFE -23.47
Consensus MFE -18.44
Energy contribution -18.33
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.79
SVM decision value 0.25
SVM RNA-class probability 0.652951
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20463014 98 + 22407834
CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUGGACAUUGCUUUAAACUCGAUGGUUCUACUGGAUGGUAA
....(((..((......))..))).(..((.((((((((((((((.....))))))).....(((((.........))))).))))))).))..)... ( -23.10)
>DroSec_CAF1 15958 83 + 1
CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUUGACUUUGUUU---------------UACAGGAUAGAAA
.(((((((((..(((((((........))))))).((((((((((.....))))))))))..........---------------..)))).))))). ( -24.00)
>DroSim_CAF1 17876 83 + 1
CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGCAUUUUGACUUUGUUU---------------UACUGGAUAGAAA
....(((..((......))..)))((((((((((.((((((((((.....)))))))))).)))).....---------------.....)))))).. ( -23.30)
>consensus
CUUCUGCUUGCAGCUUGGCUUGCAUUUGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUUGACUUUGUUU_______________UACUGGAUAGAAA
.........((((((((((........))))))).((((((((((.....)))))))))).....))).............................. (-18.44 = -18.33 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,463,040 – 20,463,144
Length 104
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 76.95
Mean single sequence MFE -20.83
Consensus MFE -15.16
Energy contribution -14.83
Covariance contribution -0.33
Combinations/Pair 1.16
Mean z-score -1.54
Structure conservation index 0.73
SVM decision value 0.68
SVM RNA-class probability 0.821015
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20463040 104 + 22407834
UGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUGGACAUUGCUUUAAACUCGAUGGUUCUACUGGAUGGUAACAUGCAAAUAUGCAAAUAUAAGAUGUAGGUAG--------
.(((.((((((((((((((.....))))))).....(((((.........))))).))))))).))).......((((....))))..................-------- ( -19.50)
>DroSec_CAF1 15984 97 + 1
UGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUUGACUUUGUUU---------------UACAGGAUAGAAACAUGUAAAUAAGCAAAUAUAAGAUACAAAUAGAGUAUAUU
............((((((((((.....((((((((..(((((((---------------(((((........).))))))...)))))..)))))))).))))))))))... ( -21.40)
>DroSim_CAF1 17902 97 + 1
UGUCAAGUGGAAAUGCUCUAUUAUGGGGCAUUUUGACUUUGUUU---------------UACUGGAUAGAAACAUGUAAAUAAGCAAAUAUAAGAUAAAGAUAGAGCAUAUU
((((..((.((((((((((.....)))))))))).))(((((((---------------(((((........)).)))))...))))).....))))............... ( -21.60)
>consensus
UGUCAAGUGGAAAUGCUCUAUUAUGGGGUAUUUUGACUUUGUUU_______________UACUGGAUAGAAACAUGUAAAUAAGCAAAUAUAAGAUAAAGAUAGAG_AUAUU
((((..((.((((((((((.....)))))))))).)).....................................(((......))).......))))............... (-15.16 = -14.83 +  -0.33)

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 12:33:04 2006