Locus 378

Sequence ID 2L_DroMel_CAF1
Location 1,182,497 – 1,182,697
Length 200
Max. P 0.989384
window597 window598

overview

Window 7

Location 1,182,497 – 1,182,617
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.42
Mean single sequence MFE -45.52
Consensus MFE -42.16
Energy contribution -43.08
Covariance contribution 0.92
Combinations/Pair 1.06
Mean z-score -1.69
Structure conservation index 0.93
SVM decision value 2.16
SVM RNA-class probability 0.989384
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1182497 120 + 22407834
AAUCUCGUCCAUGUAGCCAUGCUCAUAGGCGUGACGAACGGUCUUGAAGAUCUCCUGGUUCGCCUCAUCGCCAGCGAUGUCCAAGGACAACUGGUGGAAGGCGGGGCCGUGCAUAUCCGU
..((.((((.(((.(((...)))))).)))).)).(.(((((((....((((....))))(((((..(((((((...((((....)))).))))))).)))))))))))).)........ ( -43.20)
>DroSec_CAF1 15890 120 + 1
AAUCUCGUCCAUGUAGCCAUGCUCAUAGGCGUGGCGCACGGUCUUGAAGAUCUCCUGGUUCGCCUCAUCGCCUGCGAUGUCCAAGGACAACUGGUGGAAGGCGGGGCCGUGCAUAUCCGU
...............((((((((....))))))))(((((((((((....((..(..(((..((((((((....)))))....)))..)))..)..))...)))))))))))........ ( -50.40)
>DroSim_CAF1 15842 120 + 1
AAUCUCGUCCAUGUAGCCAUGCUCAUAGGCGUGGCGCACGAUCUUGAAGAUCUCCUGGUUCGCCUCAUCGCCUGCGAUGUCCAAGGACAACUGGUGGAAAGCGGGGCCGUGCAUAUCCGU
...............((((((((....))))))))(((((..((((....((..(..(((..((((((((....)))))....)))..)))..)..))...))))..)))))........ ( -44.70)
>DroEre_CAF1 16951 120 + 1
AAUCUCGUCCAUGUAGCCAUGCUCAUAGGCAUGGCGCACGGUCUUGAAAAUCUCCUGGUUCGCCUCAUCGCCUCCGAUGUCCAAGGACAACUGGUGGAAGGCAGGGCCGUGCAUAUCCGU
...............((((((((....))))))))(((((((((((....((..(..(((..((((((((....)))))....)))..)))..)..))...)))))))))))........ ( -49.90)
>DroYak_CAF1 16610 120 + 1
AAUCGCGUCCAUGUAGCCAUGCUCAUAGGCAUGCCGCACGGUCUUGAAAAUCUCCUGGUUCGCCACAUCGCCUCCAAUGUCCAAGGACAACUGGUGGAAGGCAGGCCCGUGCAUAUCGGU
.((((((((((((.(((...)))))).)).)))).((((((.(((..........(((....)))....(((((((.((((....)))).....))).))))))).)))))).....))) ( -39.40)
>consensus
AAUCUCGUCCAUGUAGCCAUGCUCAUAGGCGUGGCGCACGGUCUUGAAGAUCUCCUGGUUCGCCUCAUCGCCUGCGAUGUCCAAGGACAACUGGUGGAAGGCGGGGCCGUGCAUAUCCGU
...............((((((((....))))))))(((((((((((....((..(..(((..((((((((....)))))....)))..)))..)..))...)))))))))))........ (-42.16 = -43.08 +   0.92)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 1,182,577 – 1,182,697
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.42
Mean single sequence MFE -48.74
Consensus MFE -41.80
Energy contribution -42.40
Covariance contribution 0.60
Combinations/Pair 1.08
Mean z-score -1.87
Structure conservation index 0.86
SVM decision value 1.75
SVM RNA-class probability 0.975275
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1182577 120 + 22407834
CCAAGGACAACUGGUGGAAGGCGGGGCCGUGCAUAUCCGUCUCGAAGAGGCGGGACAACUCGGCGCAAUCCUUCUCGGUGCCGAGCAGCCAGGGAAGGAAGUGCAUGCAUACCAUUGGUC
.........((..((((..(((...)))((((((.((((((((...))))))))........((((..(((((((((((((...))).)).)))))))).)))))))))).))))..)). ( -50.00)
>DroSec_CAF1 15970 120 + 1
CCAAGGACAACUGGUGGAAGGCGGGGCCGUGCAUAUCCGUCUCGAAGAGGCGGGACAACUCGGCGCAAUCCUUCUCGGUGCCAAGCAGCCAGGGAAGGAAGUGCAUGCCUACCAUUGGUC
.........((..((((.(((((..((((.(....((((((((...))))))))....).))))(((.(((((((((((((...))).)).))))))))..))).))))).))))..)). ( -54.80)
>DroSim_CAF1 15922 120 + 1
CCAAGGACAACUGGUGGAAAGCGGGGCCGUGCAUAUCCGUCUCGAAGAGGCGGGACAGCUCGGCGCAAUCCUUCUCGGUGCCAAGCAGCCAGGGAAGGAAGUGCAUGCAUACCAUUGGUC
.........((..((((...(((..((((.((...((((((((...))))))))...)).))))(((.(((((((((((((...))).)).))))))))..))).)))...))))..)). ( -52.20)
>DroEre_CAF1 17031 120 + 1
CCAAGGACAACUGGUGGAAGGCAGGGCCGUGCAUAUCCGUUUCGAAGAGGCGGGACAACUCGGCGCAAUCCUUCUCAGCACCGAGCAGCCAGGGCAGGAAGUGCAUGCACACCAUUGGUC
.....(((...(((((...(((...)))((((((.(((((..((......))..))..(((((.((...........)).)))))..((....)).))).))))))...)))))...))) ( -43.00)
>DroYak_CAF1 16690 120 + 1
CCAAGGACAACUGGUGGAAGGCAGGCCCGUGCAUAUCGGUUUCGAAGAGGCGGGACAACUCGGCGCAAUCCUUCUCAGAGCUGAGCAGCCAGGGAAGGAAGUGCAUGCAUACCAUUGGUC
.........((..((((...(((.((.(((((......((..((......))..))......))))..((((((((.(.(((....)))).)))))))).).)).)))...))))..)). ( -43.70)
>consensus
CCAAGGACAACUGGUGGAAGGCGGGGCCGUGCAUAUCCGUCUCGAAGAGGCGGGACAACUCGGCGCAAUCCUUCUCGGUGCCGAGCAGCCAGGGAAGGAAGUGCAUGCAUACCAUUGGUC
.........((..((((...(((..((((.(....((((((((...))))))))....).))))(((.(((((((((((........))).))))))))..))).)))...))))..)). (-41.80 = -42.40 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:24 2006