Locus 2684

Sequence ID 3L_DroMel_CAF1
Location 7,484,901 – 7,485,007
Length 106
Max. P 0.957262
window4198 window4199

overview

Window 8

Location 7,484,901 – 7,485,007
Length 106
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 89.71
Mean single sequence MFE -28.32
Consensus MFE -22.80
Energy contribution -23.12
Covariance contribution 0.32
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 0.81
SVM decision value 1.48
SVM RNA-class probability 0.957262
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7484901 106 + 23771897
UGCUAG-------UUUAGCUUUUUACAAGAUGGCAUUUGGCUGCUCUUUCACUCCGAGAGUUGGCAACACUGCCACACUGUCAAAUUCCAGUAAUUAUUCUCGUCCACUGCUG
......-------..((((.....((.((((((.(((((((.((((((.......))))))(((((....)))))....))))))).)))........))).)).....)))) ( -23.90)
>DroSec_CAF1 137825 106 + 1
UGCUAU-------UUUAGCUUUUUGCAAGAUGGCAUUUGGCUGCUCUUUCACUCCGAGAGUUGGCAACACUGCCAUACUGUCAAAUUCCAGUAAUUAUUCUCGUCAACUGCUG
((((((-------(((.((.....))))))))))).(((((.((((((.......))))))(((((....)))))(((((........))))).........)))))...... ( -28.60)
>DroSim_CAF1 129901 106 + 1
UGCUAG-------UUUAGCUUUUUGCAAGAUGGCAUUUGGCUGCUCUUUCACUCCGAGAGUUGGCAACACUGCCAUACUGUCAAAUUCCAGUAAUUAUUCUCGUCAACUGCUG
.((.((-------(((((((...(((......)))...)))))...........((((((((((((....)))))(((((........)))))...)))))))..)))))).. ( -28.90)
>DroEre_CAF1 135113 113 + 1
AGCUAGACUAGCGUCUAGCUAUUUGCAACAUGGCACUUGGCUAGUCUUUCACGGCGAGAGUUGGCAACACUGCCACACUGUCAAAUUCCAGUAAUUAUUCUCUUCUACUGCUG
((((((((....))))))))(((((((...(((((....(((((.(((((.....)))))))))).....)))))...)).)))))..(((((............)))))... ( -33.40)
>DroYak_CAF1 130962 106 + 1
AGCUAA-------UCUAGCUAUUUGCAACAUGGCAUUUGGCUACUCUUUCGCUGCGAGAGUUGGCAACACUGCCACACUGUCAAAUUCCAGUAAUUAUUCUCCUCUACUGCUG
(((.((-------..((((((..(((......)))..))))))....)).)))..((.((((((((....))))).))).))......(((((............)))))... ( -26.80)
>consensus
UGCUAG_______UUUAGCUUUUUGCAAGAUGGCAUUUGGCUGCUCUUUCACUCCGAGAGUUGGCAACACUGCCACACUGUCAAAUUCCAGUAAUUAUUCUCGUCAACUGCUG
.(((((........)))))...((((....(((.(((((((.((((((.......))))))(((((....)))))....))))))).)))))))................... (-22.80 = -23.12 +   0.32)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,484,901 – 7,485,007
Length 106
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 89.71
Mean single sequence MFE -30.08
Consensus MFE -22.02
Energy contribution -21.58
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -1.94
Structure conservation index 0.73
SVM decision value 0.37
SVM RNA-class probability 0.709418
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7484901 106 - 23771897
CAGCAGUGGACGAGAAUAAUUACUGGAAUUUGACAGUGUGGCAGUGUUGCCAACUCUCGGAGUGAAAGAGCAGCCAAAUGCCAUCUUGUAAAAAGCUAAA-------CUAGCA
.(((..(..((((((.....(((((........)))))(((((..((((((.((((...))))....).)))))....)))))))))))..)..)))...-------...... ( -29.20)
>DroSec_CAF1 137825 106 - 1
CAGCAGUUGACGAGAAUAAUUACUGGAAUUUGACAGUAUGGCAGUGUUGCCAACUCUCGGAGUGAAAGAGCAGCCAAAUGCCAUCUUGCAAAAAGCUAAA-------AUAGCA
.(((..(((.(((((.....(((((........)))))(((((..((((((.((((...))))....).)))))....)))))))))))))...)))...-------...... ( -29.60)
>DroSim_CAF1 129901 106 - 1
CAGCAGUUGACGAGAAUAAUUACUGGAAUUUGACAGUAUGGCAGUGUUGCCAACUCUCGGAGUGAAAGAGCAGCCAAAUGCCAUCUUGCAAAAAGCUAAA-------CUAGCA
.(((..(((.(((((.....(((((........)))))(((((..((((((.((((...))))....).)))))....)))))))))))))...)))...-------...... ( -29.60)
>DroEre_CAF1 135113 113 - 1
CAGCAGUAGAAGAGAAUAAUUACUGGAAUUUGACAGUGUGGCAGUGUUGCCAACUCUCGCCGUGAAAGACUAGCCAAGUGCCAUGUUGCAAAUAGCUAGACGCUAGUCUAGCU
...((((((..........))))))..(((((.(((..(((((.(...((...((.((.....)).))....))..).)))))..))))))))((((((((....)))))))) ( -33.30)
>DroYak_CAF1 130962 106 - 1
CAGCAGUAGAGGAGAAUAAUUACUGGAAUUUGACAGUGUGGCAGUGUUGCCAACUCUCGCAGCGAAAGAGUAGCCAAAUGCCAUGUUGCAAAUAGCUAGA-------UUAGCU
...((((((..........))))))..(((((.(((..(((((...(((.(.(((((..(...)..))))).).))).)))))..))))))))(((((..-------.))))) ( -28.70)
>consensus
CAGCAGUAGACGAGAAUAAUUACUGGAAUUUGACAGUGUGGCAGUGUUGCCAACUCUCGGAGUGAAAGAGCAGCCAAAUGCCAUCUUGCAAAAAGCUAAA_______CUAGCA
..((((..............(((((........)))))(((((..(((((...((.((.....)).)).)))))....)))))..)))).....((((..........)))). (-22.02 = -21.58 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:13 2006