Locus 6840

Sequence ID 3R_DroMel_CAF1
Location 18,107,039 – 18,107,131
Length 92
Max. P 0.689447
window11100 window11101

overview

Window 0

Location 18,107,039 – 18,107,131
Length 92
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 82.54
Mean single sequence MFE -25.98
Consensus MFE -17.90
Energy contribution -17.77
Covariance contribution -0.14
Combinations/Pair 1.21
Mean z-score -1.57
Structure conservation index 0.69
SVM decision value 0.04
SVM RNA-class probability 0.552666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18107039 92 + 27905053
UUUUGACUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGCGGCUGUUGCUUUUGAGCACGUUUACCUGUAAUGGCAUGCCACCAGCAACAA---------
.......(((....))).((((.((((.....))))..))))..(((((((..((.(((.(((..........))).)))))..))))))).--------- ( -21.60)
>DroVir_CAF1 151995 83 + 1
CUGCCGUUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGCAACCGUUGCUGCCGAGCACGUUUACCUGCAAUGGCA-----GCAGCA-------------
.....(((((....)))))(((.((((.....))))..)))....((((((((((.(((.(....).)))..)))))-----))))).------------- ( -30.10)
>DroPse_CAF1 141328 92 + 1
UUGCGACUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGCGGCUGUUGCUUUUGAGCACGUUUACCUGUAAUGGCAUGCCACCAGCAGCGG---------
...((.((((....(((.((((.((((.....))))..))))((((((((...((((....))))...)))))))).))).....)))))).--------- ( -24.70)
>DroGri_CAF1 152251 87 + 1
CUGCUGUUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGUAACCGUUGCUCGCGAGCACGUUUACCUGCAAUGGCA-----GCAGCAGUAG---------
((((((((((..(((((..((..((((.....)))))).((((.(((.(((....)))))).)))).)))))..)))-----)))))))...--------- ( -33.00)
>DroEre_CAF1 142633 101 + 1
UUUUGACUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGCGGCUGUUGCUUUUGAGCACGUUUACCUGUAAUGGCAUGCCACCAGCAACAAAAACAACAA
.......(((....))).((((.((((.....))))..))))..(((((((..((.(((.(((..........))).)))))..))))))).......... ( -21.60)
>DroPer_CAF1 166787 92 + 1
GUGCGACUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGCGGCUGUUGCUUUUGAGCACGUUUACCUGUAAUGGCAUGCCACCAGCAGCAG---------
((((...(((((.....))))).........(((((((.((....)).))))))).))))......((((..(((....)))...))))...--------- ( -24.90)
>consensus
UUGCGACUGCAUUUGCAAUGCAAUUUCAACACGAAAGCUGCGGCUGUUGCUUUUGAGCACGUUUACCUGUAAUGGCAUGCCACCAGCAGCAG_________
............((((..((((.((((.....))))..))))((((((((...((((....))))...)))))))).........))))............ (-17.90 = -17.77 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,107,039 – 18,107,131
Length 92
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 82.54
Mean single sequence MFE -29.82
Consensus MFE -18.97
Energy contribution -18.30
Covariance contribution -0.67
Combinations/Pair 1.14
Mean z-score -2.27
Structure conservation index 0.64
SVM decision value 0.33
SVM RNA-class probability 0.689447
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18107039 92 - 27905053
---------UUGUUGCUGGUGGCAUGCCAUUACAGGUAAACGUGCUCAAAAGCAACAGCCGCAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAGUCAAAA
---------((((((((..(((((((((......)))....)))).))..))))))))..((((.((((.....))))))))(((((....)))))..... ( -27.70)
>DroVir_CAF1 151995 83 - 1
-------------UGCUGC-----UGCCAUUGCAGGUAAACGUGCUCGGCAGCAACGGUUGCAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAACGGCAG
-------------((((((-----((((...(((.(....).)))..))))))....((((((......((((.......))))......)))))))))). ( -31.30)
>DroPse_CAF1 141328 92 - 1
---------CCGCUGCUGGUGGCAUGCCAUUACAGGUAAACGUGCUCAAAAGCAACAGCCGCAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAGUCGCAA
---------..(((((((((((....))))))..(((.....((((....))))...)))))))).............(((((((((....))))).)))) ( -29.10)
>DroGri_CAF1 152251 87 - 1
---------CUACUGCUGC-----UGCCAUUGCAGGUAAACGUGCUCGCGAGCAACGGUUACAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAACAGCAG
---------...((((((.-----(((..((((((((((.((((((....))).)))....((((......))))...)))).))))))..))).)))))) ( -31.00)
>DroEre_CAF1 142633 101 - 1
UUGUUGUUUUUGUUGCUGGUGGCAUGCCAUUACAGGUAAACGUGCUCAAAAGCAACAGCCGCAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAGUCAAAA
..(((((..((((((((..(((((((((......)))....)))).))..))))))))..))))).......((((...(((((.....))))).)))).. ( -31.40)
>DroPer_CAF1 166787 92 - 1
---------CUGCUGCUGGUGGCAUGCCAUUACAGGUAAACGUGCUCAAAAGCAACAGCCGCAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAGUCGCAC
---------..(((((((((((....))))))..(((.....((((....))))...))))))))....((((....(((((((.....))))))).)))) ( -28.40)
>consensus
_________CUGCUGCUGGUGGCAUGCCAUUACAGGUAAACGUGCUCAAAAGCAACAGCCGCAGCUUUCGUGUUGAAAUUGCAUUGCAAAUGCAGUCGCAA
..............((((......((((......))))....((((....)))).))))..((((......))))...((((((.....))))))...... (-18.97 = -18.30 +  -0.67)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:13 2006