Locus 4793

Sequence ID 2R_DroMel_CAF1
Location 15,758,756 – 15,758,876
Length 120
Max. P 0.739348
window7698 window7699

overview

Window 8

Location 15,758,756 – 15,758,876
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.17
Mean single sequence MFE -50.60
Consensus MFE -27.87
Energy contribution -28.85
Covariance contribution 0.98
Combinations/Pair 1.30
Mean z-score -2.76
Structure conservation index 0.55
SVM decision value 0.45
SVM RNA-class probability 0.739348
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15758756 120 + 20766785
GAGCCGAGGAGACGCACUGCGGAGCCGUAUCGGAUACAACGCCCUUGCCCAUGGGAGUGGGGAGGAAGGGCAGGUUGGUGUUCUCGAUGAAGUGGCGCAGUGUGUUCUCGGCAUGGGCGU
..((((((..(((((((((((..((..(((((((..((((((((((.(((((....)))))....))))))..))))....)).)))))..))..)))))))))))))))))........ ( -58.60)
>DroVir_CAF1 9386 120 + 1
GUGCCGAGGAAACGCACUGAGCAGCCGUAUCAGAGACGACACCUUUGCCCAUGGGCGUGGGCAGGAACGGCAGAUUUGUGUUUUCAAUAAAAUGCCGCAGUGUAUUCUCUGCAUGAGCAU
((((...(....)))))......(((((..((((((..((((.(((((((((....)))))))))..(((((..(((((.......))))).)))))..))))..)))))).))).)).. ( -43.70)
>DroGri_CAF1 6327 120 + 1
GUGCCGAGGAGACACACUGCGCCGCCGAGUCGGGGACCACGCCCUUGCCCAUGGGUGUGGGCAGAAACGGUAGAUUUGUGUUAUCAAUGAAAUGGCGCAAUAUAUUCUCGGCAUGAGCAU
((((((((((.......((((((((((..((...(.((((((((........)))))))).).))..)))).(((.......)))........)))))).....))))))))))...... ( -51.90)
>DroWil_CAF1 12413 120 + 1
UGGCUGAUGAAACGCAUUGGGCAGCCGUAUCGGAUACCACACCCUUGCCCAUGGGUGUGGGCAGGAAGGGCAAAUUGGUGUUCUCGAUCAAAUGUCUCAAUGUAUUCUCGGCAUGAGCAU
..(((((.(((..((((((((((...(.(((((((((((..(((((((((((....)))))))...)))).....))))).)).)))))...)))).)))))).))))))))........ ( -45.00)
>DroMoj_CAF1 9417 120 + 1
GAGCCGAGGCGACGCACUGAGCAGCCGUGUCAGAGACCACCCCCUUACCCAUGGGCGUGGGCAGGAACGGUAGAUUUGUGUUCUCAAUGAAAUGUCGCAAAGUGUUCUCGGCAUGAGCAU
..(((((((....(((((..((.(((((.((.....((((.(((........))).))))....))))))).(((.....(((.....)))..)))))..))))))))))))........ ( -43.00)
>DroAna_CAF1 7788 120 + 1
GGGCCGAGGAGACACACUGCGGCGCUGUGUCGGAGACCACACCCUUGCCCAUCGGUGUUGGAAGGAAGGGCAGGUUUGUGUUCUCGAUGAAGUGGCGCAGCGUGUUCUCGGCAUGAGCAU
..((((((..(((((.(((((.((((.(((((.(((.((((..(((((((.((...........)).)))))))..)))).)))))))).)))).))))).)))))))))))........ ( -61.40)
>consensus
GAGCCGAGGAGACGCACUGCGCAGCCGUAUCGGAGACCACACCCUUGCCCAUGGGUGUGGGCAGGAACGGCAGAUUUGUGUUCUCAAUGAAAUGGCGCAAUGUAUUCUCGGCAUGAGCAU
..((((((((...((((((((..(((((.......))....(((.((((....)))).))).......)))...(((((.......)))))....)))))))).))))))))........ (-27.87 = -28.85 +   0.98)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 15,758,756 – 15,758,876
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.17
Mean single sequence MFE -43.62
Consensus MFE -21.33
Energy contribution -21.67
Covariance contribution 0.34
Combinations/Pair 1.36
Mean z-score -2.77
Structure conservation index 0.49
SVM decision value 0.11
SVM RNA-class probability 0.586992
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15758756 120 - 20766785
ACGCCCAUGCCGAGAACACACUGCGCCACUUCAUCGAGAACACCAACCUGCCCUUCCUCCCCACUCCCAUGGGCAAGGGCGUUGUAUCCGAUACGGCUCCGCAGUGCGUCUCCUCGGCUC
........((((((.((.(((((((...((..((((.((....((((..((((((....((((......)))).))))))))))..))))))..))...))))))).))...)))))).. ( -44.50)
>DroVir_CAF1 9386 120 - 1
AUGCUCAUGCAGAGAAUACACUGCGGCAUUUUAUUGAAAACACAAAUCUGCCGUUCCUGCCCACGCCCAUGGGCAAAGGUGUCGUCUCUGAUACGGCUGCUCAGUGCGUUUCCUCGGCAC
..(((....((((((..(((((((((((..((..((....))..))..))))))...((((((......))))))..)))))..))))))....)))((((.((........)).)))). ( -38.50)
>DroGri_CAF1 6327 120 - 1
AUGCUCAUGCCGAGAAUAUAUUGCGCCAUUUCAUUGAUAACACAAAUCUACCGUUUCUGCCCACACCCAUGGGCAAGGGCGUGGUCCCCGACUCGGCGGCGCAGUGUGUCUCCUCGGCAC
.......(((((((.((((((((((((......(((......))).....(((..((((((((......)))))).(((.(....))))))..))).))))))))))))...))))))). ( -49.00)
>DroWil_CAF1 12413 120 - 1
AUGCUCAUGCCGAGAAUACAUUGAGACAUUUGAUCGAGAACACCAAUUUGCCCUUCCUGCCCACACCCAUGGGCAAGGGUGUGGUAUCCGAUACGGCUGCCCAAUGCGUUUCAUCAGCCA
..(((.(((....(((..(((((.(.((.(((((((.((..((((....(((((...((((((......))))))))))).)))).)))))).))).))).)))))..)))))).))).. ( -36.80)
>DroMoj_CAF1 9417 120 - 1
AUGCUCAUGCCGAGAACACUUUGCGACAUUUCAUUGAGAACACAAAUCUACCGUUCCUGCCCACGCCCAUGGGUAAGGGGGUGGUCUCUGACACGGCUGCUCAGUGCGUCGCCUCGGCUC
........((((((........(((((....(((((((........((.((((..((((((((......)))))..)))..))))....))........))))))).))))))))))).. ( -41.89)
>DroAna_CAF1 7788 120 - 1
AUGCUCAUGCCGAGAACACGCUGCGCCACUUCAUCGAGAACACAAACCUGCCCUUCCUUCCAACACCGAUGGGCAAGGGUGUGGUCUCCGACACAGCGCCGCAGUGUGUCUCCUCGGCCC
........((((((.((((((((((.(.((...((((((.((((..(.(((((.((...........)).))))).)..)))).))).)))...)).).))))))))))...)))))).. ( -51.00)
>consensus
AUGCUCAUGCCGAGAACACACUGCGCCAUUUCAUCGAGAACACAAAUCUGCCCUUCCUGCCCACACCCAUGGGCAAGGGUGUGGUCUCCGACACGGCUGCGCAGUGCGUCUCCUCGGCAC
........((((((.((.((((.................................((((((((......))))).)))(((..((..........))..))))))).))...)))))).. (-21.33 = -21.67 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:20 2006