Locus 6574

Sequence ID 3R_DroMel_CAF1
Location 17,311,889 – 17,312,028
Length 139
Max. P 0.832789
window10695 window10696

overview

Window 5

Location 17,311,889 – 17,311,997
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 85.06
Mean single sequence MFE -43.42
Consensus MFE -28.13
Energy contribution -27.83
Covariance contribution -0.30
Combinations/Pair 1.32
Mean z-score -3.15
Structure conservation index 0.65
SVM decision value 0.13
SVM RNA-class probability 0.596228
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17311889 108 - 27905053
UUCGGCGGUGGGCAAGGCAAAACCUUUGCUGCUGCCUUGGCUGCCAAUUUUGCGGCCAGACUUUUUCCUUGGGGCUUCAAAGGUGACAUGGAGUCAGAUCCAAAGAUA
...(((((..(.(((((......))))))..)))))((((((((.......))))))))......((.(((((((((((..(....).)))))))....)))).)).. ( -40.20)
>DroSec_CAF1 44485 108 - 1
UUUAGCGGUGGGCAAGGCAAAACCUUUGCUGCUGCCUUGGCUGCCAAUUUGGCGGCCAGACUUUUUCCUUGGGGCUUCAAAGGUGACAUGGAGUCAGACCCAAAGAUA
....((((..(.(((((......))))))..)))).(((((((((.....)))))))))......((.(((((((((((..(....).))))))....))))).)).. ( -42.30)
>DroSim_CAF1 46202 108 - 1
UUUGGCGGUGCGCAAGGCAAAACCUUUGCUGCUGCCUUGGCUGCCAAUUUGGCGGCCAGACUUUUUCCUUGGGGCUUCAAAGGUGACAUGGAGUCAGACCCAAAGAUA
...(((((((.((((((......)))))))))))))(((((((((.....)))))))))......((.(((((((((((..(....).))))))....))))).)).. ( -45.70)
>DroEre_CAF1 46393 108 - 1
UUCGGGGGUGGGCCAGGCAAAGCCUUUGCUGCAGUCUUGGCUGCCAAUUUGGCGGCCAGACUUCUUCCUUGUGGCUUCAAAGGUGACAUGGAUUCAGACCCAAAGAUA
...(((..(((((((......(((((((..(((((((.(((((((.....)))))))))))).....(....)))..)))))))....))).))))..)))....... ( -44.80)
>DroYak_CAF1 49272 108 - 1
CUCGGCGGUGGGCCAGGCAAAGCCUUUGCUGCAGUCUUGGCUGCCAAUUUGGCGGCCAGACUUCUUCCUUGUGGCUUCAAGGGCGACAUGGAUUCAGAGCCAAAGAUA
...(((..(((((((......(((((((..(((((((.(((((((.....)))))))))))).....(....)))..)))))))....))).))))..)))....... ( -45.30)
>DroAna_CAF1 44689 105 - 1
CUU---GAUGGACUACAUGGAUGUUUUGAUGAAGCUUUGGCUGCUAAUUUGGCGGCCAGAGUUUUGCCUUGAGGCUUCCAAGGUGACAAGGAGUCGCAGUCAAAAAUA
...---....((((.(.((((.((((..(((((((((((((((((.....))))))))))))))))..)..)))).)))).)(((((.....)))))))))....... ( -42.20)
>consensus
UUCGGCGGUGGGCAAGGCAAAACCUUUGCUGCAGCCUUGGCUGCCAAUUUGGCGGCCAGACUUUUUCCUUGGGGCUUCAAAGGUGACAUGGAGUCAGACCCAAAGAUA
......((.((((..((((((...))))))...))))((((((((.....))))))))..((..((((.((..(((.....)))..)).))))..))..))....... (-28.13 = -27.83 +  -0.30)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,311,929 – 17,312,028
Length 99
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 82.27
Mean single sequence MFE -38.68
Consensus MFE -25.65
Energy contribution -26.60
Covariance contribution 0.95
Combinations/Pair 1.33
Mean z-score -2.61
Structure conservation index 0.66
SVM decision value 0.72
SVM RNA-class probability 0.832789
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17311929 99 - 27905053
CCGGUUCUCCGGCGAAUUAAGAC-CUA--CUGAAUUCGGCGGUGGGCAAGGCAAAACCUUUGCUGCUGCCUUGGCUGCCAAUUUUGCGGCCAGACUUUUUCC
((((....)))).(((((.((..-...--)).)))))(((((..(.(((((......))))))..)))))((((((((.......))))))))......... ( -36.80)
>DroSec_CAF1 44525 99 - 1
CCGGUUCUCCGGCGAAUUAAGAC-CUG--CUGAAUUUAGCGGUGGGCAAGGCAAAACCUUUGCUGCUGCCUUGGCUGCCAAUUUGGCGGCCAGACUUUUUCC
((((....)))).(((..(((((-(.(--(((....)))))))(((((.(((((.....)))))..)))))((((((((.....))))))))..))).))). ( -40.00)
>DroSim_CAF1 46242 99 - 1
CCGGUUCUCCGGCGAAUUAAGAC-CUG--CUGAAUUUGGCGGUGCGCAAGGCAAAACCUUUGCUGCUGCCUUGGCUGCCAAUUUGGCGGCCAGACUUUUUCC
((((....)))).(((..(((..-...--........(((((((.((((((......)))))))))))))(((((((((.....))))))))).))).))). ( -39.50)
>DroEre_CAF1 46433 99 - 1
UCGGUUCUCCGGCGAAUUAAGAC-CUA--UUGAAUUCGGGGGUGGGCCAGGCAAAGCCUUUGCUGCAGUCUUGGCUGCCAAUUUGGCGGCCAGACUUCUUCC
..(((((.((..((((((((...-...--))).)))))..)).))))).(((((.....)))))(.(((((.(((((((.....)))))))))))).).... ( -38.50)
>DroYak_CAF1 49312 99 - 1
CCGGUUCUCCGGCGAAUUAAGAC-CUA--CUGCACUCGGCGGUGGGCCAGGCAAAGCCUUUGCUGCAGUCUUGGCUGCCAAUUUGGCGGCCAGACUUCUUCC
.(((....)))(((((....(.(-(((--((((.....)))))))).).(((...)))))))).(.(((((.(((((((.....)))))))))))).).... ( -42.50)
>DroAna_CAF1 44729 99 - 1
CCGAUUUUCGGGAGAUUGUGGGCACUUCUUUGAGCUU---GAUGGACUACAUGGAUGUUUUGAUGAAGCUUUGGCUGCUAAUUUGGCGGCCAGAGUUUUGCC
(((.....))).........(((...((...((((((---.(((.....))).)).)))).)).(((((((((((((((.....)))))))))))))))))) ( -34.80)
>consensus
CCGGUUCUCCGGCGAAUUAAGAC_CUA__CUGAAUUCGGCGGUGGGCAAGGCAAAACCUUUGCUGCAGCCUUGGCUGCCAAUUUGGCGGCCAGACUUUUUCC
...((((.(((.((((((.((........)).)))))).))).))))..((((((...))))))......(((((((((.....)))))))))......... (-25.65 = -26.60 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:47 2006