Locus 8031

Sequence ID 3L_DroMel_CAF1
Location 21,162,538 – 21,162,669
Length 131
Max. P 0.998511
window13119 window13120

overview

Window 9

Location 21,162,538 – 21,162,653
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 71.85
Mean single sequence MFE -29.08
Consensus MFE -12.05
Energy contribution -12.55
Covariance contribution 0.50
Combinations/Pair 1.16
Mean z-score -2.71
Structure conservation index 0.41
SVM decision value 1.22
SVM RNA-class probability 0.932654
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21162538 115 - 23771897
GCAAAA-GAGAGCCGAGACCAA-UUCAAGGCGAUUUAUGAAAAUUAAAACAUCUUUUCCAUGGCUUUCAAUUGCAC---UGCACCCAAAAGGAAAAGCAAAUGCAGCGGCAAAUGCAAGC
((....-((((((((.(.((..-.....))).......(((((..........)))))..))))))))..((((((---(((..((....))....((....)).))))....))))))) ( -24.50)
>DroGri_CAF1 55310 96 - 1
GCUAAGCGAGUUAUGAAUGCAAUUUC-GAGUUGGUUAUGAAAAUGAAAACGAUUUU-CCAUGGCAUUCAAUUGCAGCAUUGCU-GCAAA--------------CAGCGGCAAA-------
(((..((((....(((((((......-((((((.((((....))))...)))))).-.....))))))).))))))).(((((-((...--------------..))))))).------- ( -31.40)
>DroSec_CAF1 33495 115 - 1
GCAAUA-GAGAGCCGAGACCAA-UUCAAGGCGAUUUAUGAAAAUGAAAACAUCUUUUCCACGGCUUUCAAUUGCAA---UGCACCCAAUAGGAAAAGCAAAGGCAACGGCAAAUGCAAGC
(((((.-((((((((.(.((..-.....)))..(((((....))))).............)))))))).)))))..---((((.((....))....((...(....).))...))))... ( -31.80)
>DroEre_CAF1 29668 116 - 1
GCAAAAUGAGAGCCGAGACCAA-UUCCAGGCGAUUUAUGAAAAUGAAAACAUAUUUUCCGCGGCUUUCAAUUGCAC---UGCUCGCAAUCAGAAGAGCAAAGGCAACGGAAAAUUCAACC
((((..(((((((((.(.((..-.....))).......(((((((......)))))))..))))))))).))))..---(((((..........)))))..(....)............. ( -28.60)
>consensus
GCAAAA_GAGAGCCGAGACCAA_UUCAAGGCGAUUUAUGAAAAUGAAAACAUCUUUUCCACGGCUUUCAAUUGCAC___UGCACCCAAAAGGAAAAGCAAAGGCAACGGCAAAUGCAAGC
((((...((((((((((......))).......(((((....)))))..............)))))))..)))).............................................. (-12.05 = -12.55 +   0.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,162,578 – 21,162,669
Length 91
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 72.82
Mean single sequence MFE -21.42
Consensus MFE -12.26
Energy contribution -13.20
Covariance contribution 0.94
Combinations/Pair 1.21
Mean z-score -2.63
Structure conservation index 0.57
SVM decision value 3.13
SVM RNA-class probability 0.998511
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21162578 91 - 23771897
AAUACCAUCAU-CCAAGGCAAAA-GAGAGCCGAGACCAA-UUCAAGGCGAUUUAUGAAAAUUAAAACAUCUUUUCCAUGGCUUUCAAUUGCAC--U
...........-.....((((..-((((((((.(.((..-.....))).......(((((..........)))))..))))))))..))))..--. ( -16.70)
>DroSec_CAF1 33535 91 - 1
AAUGCCAUCAU-CCAAGGCAAUA-GAGAGCCGAGACCAA-UUCAAGGCGAUUUAUGAAAAUGAAAACAUCUUUUCCACGGCUUUCAAUUGCAA--U
...........-.....(((((.-((((((((.(.((..-.....)))..(((((....))))).............)))))))).)))))..--. ( -23.20)
>DroEre_CAF1 29708 92 - 1
AAUGCCAUCAU-CCAAGGCAAAAUGAGAGCCGAGACCAA-UUCCAGGCGAUUUAUGAAAAUGAAAACAUAUUUUCCGCGGCUUUCAAUUGCAC--U
..((((.....-....))))...(((((((((.(.((..-.....))).......(((((((......)))))))..))))))))).......--. ( -22.20)
>DroMoj_CAF1 58844 84 - 1
-----------AUUGCAGCUGAGCAAUGGGCAAAUGCAAUUUUAAAGUCAUUUAUGAAAAUGAAAACCAUUUUGCUAUGGCUUUCAAUUGCAGCA-
-----------..(((.(((.(....).)))...(((((((..((((((((....(((((((.....)))))).).)))))))).))))))))))- ( -23.60)
>consensus
AAUGCCAUCAU_CCAAGGCAAAA_GAGAGCCGAGACCAA_UUCAAGGCGAUUUAUGAAAAUGAAAACAUCUUUUCCACGGCUUUCAAUUGCAC__U
.................((((...((((((((...((........))...(((((....))))).............))))))))..))))..... (-12.26 = -13.20 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:21 2006