Locus 739

Sequence ID 3L_DroMel_CAF1
Location 2,227,724 – 2,227,830
Length 106
Max. P 0.999807
window1130 window1131

overview

Window 0

Location 2,227,724 – 2,227,830
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.16
Mean single sequence MFE -37.56
Consensus MFE -26.39
Energy contribution -25.71
Covariance contribution -0.68
Combinations/Pair 1.26
Mean z-score -3.56
Structure conservation index 0.70
SVM decision value 4.13
SVM RNA-class probability 0.999807
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2227724 106 + 23771897
-------------UGCAUACUUUUGGGCUGCACGUAUCUGCGGAGUGAACUGUGCAGUGUGGCCGUAUUUUUUGAACUGUUCUCACCAAGCCCAAAAGUAUGCAACAGUUUUGGGUGA-A
-------------((((((((((((((((.((((...(((((.((....)).)))))))))...........(((.......)))...))))))))))))))))..............-. ( -39.50)
>DroSec_CAF1 8701 98 + 1
-------------UGCAUACUUUUGGGCUGCAAGUAGCCGCGGCCUUAAGUGAGCAGUGUGACCGUAUUUUUCGAAUUUUUCUCGCCAAGCCCAAAAGUAUGCAACAGUUU---------
-------------((((((((((((((((.......(((((........))).)).(((.((....((((...))))...)).)))..)))))))))))))))).......--------- ( -34.00)
>DroSim_CAF1 8809 98 + 1
-------------UGCAUACUUUUGGGCUGCAAGUAGCCGCGGCCUAAAGUGCGCAGUGUGACCGUAUUAUUCGAAUUUUUCUCACCAAGCCCAAAAGUAUGCAACAGUUU---------
-------------(((((((((((((((((((..((((....).)))...)))...(((.((....(((.....)))...)).)))..)))))))))))))))).......--------- ( -35.00)
>DroEre_CAF1 21634 118 + 1
CGGCAAAUAAUGUUGUAUACUUUUGGGCUGCAAAUGGUAACGAGCUAAAAUGUCCAGUGUGACCAUAUUUUCCGA-CUUAUGUCGCCAAGCCCAAAAGUAUGCAACAGGGUUGGCGGC-A
((.(((....(((((((((((((((((((((..(((((.(((..(......)..).))...))))).......((-(....)))))..)))))))))))))))))))...))).))..-. ( -48.50)
>DroYak_CAF1 8916 116 + 1
----AAAUCGUGUUGCAUACUUUUAGGCACCAAAUUGCAACGGCCUAGAAUACAUAGUGUGACCAUGUUUUUCGAACUGUUCUCGCCAAGCCCAAGAGUAUGCAACAAUUUUGGGGCAAA
----......((((((((((((((.(((..(.....)....(((..(((....(((((.(((.........))).)))))))).)))..))).))))))))))))))............. ( -30.80)
>consensus
_____________UGCAUACUUUUGGGCUGCAAGUAGCAGCGGCCUAAAAUGCGCAGUGUGACCGUAUUUUUCGAACUUUUCUCGCCAAGCCCAAAAGUAUGCAACAGUUUUGG_____A
.............((((((((((((((((.......((....))............(.((((....................))))).))))))))))))))))................ (-26.39 = -25.71 +  -0.68)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,227,724 – 2,227,830
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.16
Mean single sequence MFE -35.82
Consensus MFE -26.50
Energy contribution -26.74
Covariance contribution 0.24
Combinations/Pair 1.21
Mean z-score -3.65
Structure conservation index 0.74
SVM decision value 3.95
SVM RNA-class probability 0.999722
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2227724 106 - 23771897
U-UCACCCAAAACUGUUGCAUACUUUUGGGCUUGGUGAGAACAGUUCAAAAAAUACGGCCACACUGCACAGUUCACUCCGCAGAUACGUGCAGCCCAAAAGUAUGCA-------------
.-..............((((((((((((((((.((.(.((((.((.........)).((......))...)))).).))(((......)))))))))))))))))))------------- ( -35.20)
>DroSec_CAF1 8701 98 - 1
---------AAACUGUUGCAUACUUUUGGGCUUGGCGAGAAAAAUUCGAAAAAUACGGUCACACUGCUCACUUAAGGCCGCGGCUACUUGCAGCCCAAAAGUAUGCA-------------
---------.......((((((((((((((((..(((((................(((.....))).........(((....))).)))))))))))))))))))))------------- ( -36.80)
>DroSim_CAF1 8809 98 - 1
---------AAACUGUUGCAUACUUUUGGGCUUGGUGAGAAAAAUUCGAAUAAUACGGUCACACUGCGCACUUUAGGCCGCGGCUACUUGCAGCCCAAAAGUAUGCA-------------
---------.......((((((((((((((((..(..((......(((.......))).....(((((..(....)..)))))...))..)))))))))))))))))------------- ( -36.10)
>DroEre_CAF1 21634 118 - 1
U-GCCGCCAACCCUGUUGCAUACUUUUGGGCUUGGCGACAUAAG-UCGGAAAAUAUGGUCACACUGGACAUUUUAGCUCGUUACCAUUUGCAGCCCAAAAGUAUACAACAUUAUUUGCCG
.-..((.(((...(((((.(((((((((((((..(((((....)-)).......(((((.((.(((((...)))))...)).)))))..))))))))))))))).)))))....))).)) ( -35.70)
>DroYak_CAF1 8916 116 - 1
UUUGCCCCAAAAUUGUUGCAUACUCUUGGGCUUGGCGAGAACAGUUCGAAAAACAUGGUCACACUAUGUAUUCUAGGCCGUUGCAAUUUGGUGCCUAAAAGUAUGCAACACGAUUU----
.............(((((((((((.((((((((((((((.....))))....((((((.....))))))...))))((((........)))))))))).)))))))))))......---- ( -35.30)
>consensus
U_____CCAAAACUGUUGCAUACUUUUGGGCUUGGCGAGAAAAGUUCGAAAAAUACGGUCACACUGCACACUUUAGGCCGCGGCUACUUGCAGCCCAAAAGUAUGCA_____________
................(((((((((((((((....((((.....)))).......(((((...............)))))............)))))))))))))))............. (-26.50 = -26.74 +   0.24)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:51 2006