Locus 5863

Sequence ID 2R_DroMel_CAF1
Location 18,538,464 – 18,538,604
Length 140
Max. P 0.781188
window9414 window9415

overview

Window 4

Location 18,538,464 – 18,538,567
Length 103
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 85.40
Mean single sequence MFE -29.12
Consensus MFE -23.70
Energy contribution -24.42
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -1.66
Structure conservation index 0.81
SVM decision value 0.05
SVM RNA-class probability 0.557011
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18538464 103 - 20766785
UCAUUUCAUUGGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUUUACUU------UGGCCAAGAGCC------ACAGGA--
......((((....(((((((......))))))).))))(((((((((.((((.....))))..))))))))).........((.------((((.....)))------).))..-- ( -29.50)
>DroPse_CAF1 21029 105 - 1
UCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUUUACUU------UGGCCAAGAGCC------ACACAUCC
..............((.....))..(((.((((((((.((((((((((.((((.....))))..))))))))))....)))))..------.(((.....)))------))).))). ( -28.40)
>DroWil_CAF1 25543 82 - 1
UCAUUUCGUU-GAGGCAUAAGGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGGGCCACUUGAUUGGUUUCU--U--------------------------------
......((((-...(((((((......))))))).))))(((((((((.((((.....))))..))))))))).........--.-------------------------------- ( -23.00)
>DroYak_CAF1 19392 103 - 1
UCAUUUCAUUGGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUUUACUU------UGGCCAAGAGCC------ACAGGA--
......((((....(((((((......))))))).))))(((((((((.((((.....))))..))))))))).........((.------((((.....)))------).))..-- ( -29.50)
>DroAna_CAF1 16570 115 - 1
UCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUUCGCUUUGGUUUUGGCCAAGAGCCACUGCCACAGGA--
........((((.((((.(((((.(((((.........((((((((((.((((.....))))..)))))))))).))))).)))))((((((.....))))))..)))).)))).-- ( -35.90)
>DroPer_CAF1 20053 105 - 1
UCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUUUACUU------UGGCCAAGAGCC------ACACAUCC
..............((.....))..(((.((((((((.((((((((((.((((.....))))..))))))))))....)))))..------.(((.....)))------))).))). ( -28.40)
>consensus
UCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUUUACUU______UGGCCAAGAGCC______ACAGGA__
......((((....(((((((......))))))).))))(((((((((.((((.....))))..)))))))))((((((.............))))))................... (-23.70 = -24.42 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,538,487 – 18,538,604
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.09
Mean single sequence MFE -28.52
Consensus MFE -23.36
Energy contribution -23.08
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.72
Structure conservation index 0.82
SVM decision value 0.56
SVM RNA-class probability 0.781188
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18538487 117 - 20766785
GCUCAGUUUUCGUCCAUCGUCG---CACACUGUUGUUGUUUCAUUUCAUUGGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUU
.............((((((.((---((((.(((..(((((((((((((((....(((((((......))))))).))))..)))))).)))))..))).)))))).....))).)))... ( -30.80)
>DroPse_CAF1 21054 109 - 1
CCUCGGUU----UCCCUCGUUG---U----GGUUGUUGUUUCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUU
.(((((..----..))..(..(---(----((........))))..)....)))(((((((......)))))))....((((((((((.((((.....))))..))))))))))...... ( -27.90)
>DroWil_CAF1 25546 112 - 1
---AUGUU----UCUGUUGUUGCUUCUUAUUGUUGUUGUUUCAUUUCGUU-GAGGCAUAAGGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGGGCCACUUGAUUGGUUU
---.....----.......((((......(((((..(((((((......)-))))))...))))).......))))..((((((((((.((((.....))))..))))))))))...... ( -30.12)
>DroMoj_CAF1 24047 94 - 1
UUUG-------------------------UUGUUGUUGUUUCAUUUCGUU-GGGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUU
..(.-------------------------(((((..(((..((......)-)..)))...))))).)...........((((((((((.((((.....))))..))))))))))...... ( -28.00)
>DroAna_CAF1 16605 91 - 1
-----------------------------GUGUUGUUGUUUCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUU
-----------------------------.((((..(((((((.......)))))))...))))..............((((((((((.((((.....))))..))))))))))...... ( -26.40)
>DroPer_CAF1 20078 109 - 1
CCUCGGUU----UCCCUCGUUG---U----GGUUGUUGUUUCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUU
.(((((..----..))..(..(---(----((........))))..)....)))(((((((......)))))))....((((((((((.((((.....))))..))))))))))...... ( -27.90)
>consensus
_CUC_GUU____UCC_UCGUUG________UGUUGUUGUUUCAUUUCAUUUGAGGCAUAAAGCAAGAUUUGUGUAAAUGUCAGGUGGUAAUAGUGACACUGUGCGCCACUUGAUUGGUUU
...............................(((..((((((.........))))))...)))...............((((((((((.((((.....))))..))))))))))...... (-23.36 = -23.08 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:43 2006