Locus 6287

Sequence ID 2L_DroMel_CAF1
Location 17,508,852 – 17,508,972
Length 120
Max. P 0.828488
window10043 window10044

overview

Window 3

Location 17,508,852 – 17,508,972
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.00
Mean single sequence MFE -43.97
Consensus MFE -24.26
Energy contribution -25.48
Covariance contribution 1.23
Combinations/Pair 1.42
Mean z-score -2.08
Structure conservation index 0.55
SVM decision value 0.60
SVM RNA-class probability 0.795849
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17508852 120 + 22407834
UGGCGCCCAAGAAAUUGGCUUUGGCCGAGGCCGAGGCCACCUAUAAUGCGGCCAUGAAGACGCUCAACGAAAAACUGGCCAUGUUGGCCAAAGUGGAGGCCAACCUGGCCGCCAUCCAGA
(((((((((......((((((((((....)))))))))).......)).)))........................(((((.(((((((........))))))).)))))))))...... ( -53.02)
>DroVir_CAF1 29442 120 + 1
UGGCGCCCAAGAAAAUUGCUUUGGCUGCAGCCGAGGCCGACUACAAUGCGGCCAUGAAACUGCUCAACGAGAAGUUGGCCCAACUGGCCCGCGUCGAAGCGAAUCUGGCGGCCAUUCAAA
(((((((..(((...((((((((((.((((.((.(((((.(......)))))).))...))))..........((.((((.....)))).)))))))))))).)))))).))))...... ( -47.50)
>DroGri_CAF1 34337 120 + 1
UGGCACCCAAGAAGAUUGCCCUCGCUGCCGCAGAGGCAGACUACAAUGCGGCCAUGAAACUGCUCAACGAGAAGUUGGCCCAACUGGCUCGAGUCGAAGCCAAUCUGGCCGCCAUUCAGA
.((((..(.....)..))))....(((((.....)))))........(((((((.((....((.((((.....)))))).....(((((((...)).))))).)))))))))........ ( -40.30)
>DroWil_CAF1 72053 120 + 1
UGGCACCCAAGAAAAUUGCAUUGGCCGAGGCGGAGGCCACAUAUAAUUCUGCAAUGAAAACGCUAAAUGAAAAGUUGGCUCAAUUGGCACGAGUUGAGGCUAACUUGGCUGCUAUACAAA
(((((.(((((.........((((((..(((....))).....(((((((((..(((....(((((.(....).))))))))....))).)))))).))))))))))).)))))...... ( -34.80)
>DroMoj_CAF1 30731 120 + 1
UGGCGCCCAAGAAGAUCGCCUUAGCUGCCGCCGAGGCCGACUACAAUGCGGCUAUGAAGUUGCUCAACGAAAAGCUAGCUCAAUUGGCCAGGGUCGAGGCCAACUUGGCCGCUAUUCAGA
(((((.(((((..(...((((..(((...((((((((((.(......)))))).(((.((((((........))).)))))).)))))...)))..)))))..))))).)))))...... ( -42.70)
>DroAna_CAF1 26934 120 + 1
UGGCGCCCAAGAAGAUUGCCCUGGCCGAAGCCGAGGCUACCUACAAUGCCGCCAUGAAGACGCUCAACGAAAAGUUGGCCCAGUUGGCCAGGGUGGAGGCCAAUCUGGCAGCCAUCCAGA
((((...........(..((((((((((.((((((((..........)))....(((......)))........)))))....))))))))))..)..(((.....))).))))...... ( -45.50)
>consensus
UGGCGCCCAAGAAAAUUGCCUUGGCCGAAGCCGAGGCCAACUACAAUGCGGCCAUGAAAACGCUCAACGAAAAGUUGGCCCAAUUGGCCAGAGUCGAGGCCAACCUGGCCGCCAUUCAGA
((((.................((((((((....((.....))....)))))))).......................(((..(((((((........)))))))..))).))))...... (-24.26 = -25.48 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,508,852 – 17,508,972
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.00
Mean single sequence MFE -45.63
Consensus MFE -29.14
Energy contribution -29.62
Covariance contribution 0.48
Combinations/Pair 1.42
Mean z-score -1.79
Structure conservation index 0.64
SVM decision value 0.71
SVM RNA-class probability 0.828488
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17508852 120 - 22407834
UCUGGAUGGCGGCCAGGUUGGCCUCCACUUUGGCCAACAUGGCCAGUUUUUCGUUGAGCGUCUUCAUGGCCGCAUUAUAGGUGGCCUCGGCCUCGGCCAAAGCCAAUUUCUUGGGCGCCA
......(((((((((.(((((((........))))))).)))))....(((.((((((.(((.....((((((.......))))))..))))))))).)))(((.........))))))) ( -53.80)
>DroVir_CAF1 29442 120 - 1
UUUGAAUGGCCGCCAGAUUCGCUUCGACGCGGGCCAGUUGGGCCAACUUCUCGUUGAGCAGUUUCAUGGCCGCAUUGUAGUCGGCCUCGGCUGCAGCCAAAGCAAUUUUCUUGGGCGCCA
.......(((((..(((((.(((.(((((..((((.....)))).......)))))))))))))..)))))((..((((((((....))))))))(((.(((.......))).))))).. ( -43.40)
>DroGri_CAF1 34337 120 - 1
UCUGAAUGGCGGCCAGAUUGGCUUCGACUCGAGCCAGUUGGGCCAACUUCUCGUUGAGCAGUUUCAUGGCCGCAUUGUAGUCUGCCUCUGCGGCAGCGAGGGCAAUCUUCUUGGGUGCCA
..........((((.(((((((((......))))))))).)))).....(((((((.((((...((.(((..(...)..)))))...))))..)))))))((((..(.....)..)))). ( -48.10)
>DroWil_CAF1 72053 120 - 1
UUUGUAUAGCAGCCAAGUUAGCCUCAACUCGUGCCAAUUGAGCCAACUUUUCAUUUAGCGUUUUCAUUGCAGAAUUAUAUGUGGCCUCCGCCUCGGCCAAUGCAAUUUUCUUGGGUGCCA
........(((.(((((...............((.((.((((.......)))).)).))......((((((..........(((((........))))).))))))...))))).))).. ( -27.70)
>DroMoj_CAF1 30731 120 - 1
UCUGAAUAGCGGCCAAGUUGGCCUCGACCCUGGCCAAUUGAGCUAGCUUUUCGUUGAGCAACUUCAUAGCCGCAUUGUAGUCGGCCUCGGCGGCAGCUAAGGCGAUCUUCUUGGGCGCCA
......((((.(((.((((((((........))))))))..(((.((((......)))).........(((((......).))))...)))))).)))).((((.(((....))))))). ( -44.70)
>DroAna_CAF1 26934 120 - 1
UCUGGAUGGCUGCCAGAUUGGCCUCCACCCUGGCCAACUGGGCCAACUUUUCGUUGAGCGUCUUCAUGGCGGCAUUGUAGGUAGCCUCGGCUUCGGCCAGGGCAAUCUUCUUGGGCGCCA
..((((.(((..((((.((((((........))))))))))((((((.....)))).)))))))))(((((.(...(.((((.(((..(((....)))..))).)))).)...).))))) ( -56.10)
>consensus
UCUGAAUGGCGGCCAGAUUGGCCUCGACUCGGGCCAAUUGGGCCAACUUUUCGUUGAGCAUCUUCAUGGCCGCAUUGUAGGCGGCCUCGGCCGCAGCCAAGGCAAUCUUCUUGGGCGCCA
.(((....(((((((((((((((........))))))))..((((((.....)))).)).......)))))))....)))..(((((((((....))).(((.......)))))).))). (-29.14 = -29.62 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:18 2006