Locus 6608

Sequence ID 2L_DroMel_CAF1
Location 18,581,855 – 18,581,995
Length 140
Max. P 0.939861
window10547 window10548

overview

Window 7

Location 18,581,855 – 18,581,960
Length 105
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 76.95
Mean single sequence MFE -26.84
Consensus MFE -15.67
Energy contribution -16.12
Covariance contribution 0.45
Combinations/Pair 1.32
Mean z-score -2.13
Structure conservation index 0.58
SVM decision value 1.30
SVM RNA-class probability 0.939861
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18581855 105 - 22407834
GGCCAGGUGGCAACUGUUUCGAACACAAGUCUAACAUGGCAAGUUAACUUGCCUGGAAAAGCGGUUUUAAAAGUUGCUAAAAAGUUGUAUUUACA---AUU-AUGUAUA
.......((((((((.(((.((((.....((((....((((((....))))))))))......)))).)))))))))))...((((((....)))---)))-....... ( -26.40)
>DroSec_CAF1 58284 105 - 1
G-CCAGGUGGCAACUGUUUCGAACGCAAGUCUAACAUGGCAAUUUAACUUGCCUGGAAAAGCGGUUUAAAAAGUUGCUAAAAAGUUGUAUUUACA---AGUGACAUAAA
.-.....((((((((.(((..(((((...((((....(((((......)))))))))...)).)))..)))))))))))....((..(.......---.)..))..... ( -24.70)
>DroSim_CAF1 59169 105 - 1
G-CCAGGUGGCAACUGUUUCGAACACAAGUCUAACAAGGCAAGUUAACUUGCCUGGAAAAGCGGUUUAAAAAGUUGCUAGCAAGUUGUAUUUACA---AGUGACAUACA
.-...(.((((((((.(((..(((....((......(((((((....)))))))......)).)))..))))))))))).)....((((((((..---..))).))))) ( -29.50)
>DroEre_CAF1 57891 98 - 1
G-CCAGGUGGCAACUGUUUUAAACAGAAGUCAAACAUGGCAAGUUAACUUGACUGGAAAAGCGGCUUAAAAUGUUGUCAAAGAGUUGUAUUUGCAGAAA----------
(-(((..((((..((((.....))))..))))....))))............(((.(((.(((((((..............))))))).))).)))...---------- ( -25.84)
>DroYak_CAF1 58658 108 - 1
G-CCAGGUGGCAACUGUUUUGAACACAAGUCCAACAUGGCAAGUUAACUUGUCUGGAAAAGCGGUUUAAAAAGUUGUCAAAAAGUUGUAUUUACAGAAAGAGCCACACA
.-...((((((((((.((((((((.....((((....((((((....))))))))))......)))))))))))))))......((((....)))).....)))..... ( -29.60)
>DroAna_CAF1 51998 97 - 1
G-UCAGGUGACGAGUGUUUAGGGCACAUGUCGAACAGGGAAAGUUUGGUUAACUGGAAAAGCUGUG-GAAAAGUUGUCGGAAACUAGAACUGACUG----------CCA
(-((((.(((((.((((.....)))).)))))...........(((((((..((((...((((...-....)))).)))).))))))).)))))..----------... ( -25.00)
>consensus
G_CCAGGUGGCAACUGUUUCGAACACAAGUCUAACAUGGCAAGUUAACUUGCCUGGAAAAGCGGUUUAAAAAGUUGCCAAAAAGUUGUAUUUACA___AGU_ACAUACA
.......((((((((.(((.((((....((....((.((((((....)))))))).....)).)))).))))))))))).............................. (-15.67 = -16.12 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,581,880 – 18,581,995
Length 115
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 81.51
Mean single sequence MFE -34.30
Consensus MFE -18.43
Energy contribution -19.97
Covariance contribution 1.53
Combinations/Pair 1.26
Mean z-score -2.28
Structure conservation index 0.54
SVM decision value 0.11
SVM RNA-class probability 0.588549
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18581880 115 - 22407834
UGGCUGUUUUCUCGGUACUUUGGCAG-AAGAAAAGUGGCCAGGUGGCAACUGUUUCGAACACAAGUCUAACAUGGCAAGUUAACUUGCCUGGAAAAGCGGUUUUAAAAGUUGCUAA
(((((((((((((.((......)).)-.)))))).))))))..((((((((.(((.((((.....((((....((((((....))))))))))......)))).))))))))))). ( -35.40)
>DroSec_CAF1 58310 114 - 1
UGGCUGUUUUCCCGGUACUUUGGCAG-AAGAAAAGUG-CCAGGUGGCAACUGUUUCGAACGCAAGUCUAACAUGGCAAUUUAACUUGCCUGGAAAAGCGGUUUAAAAAGUUGCUAA
..........((.((((((((.....-....))))))-)).))((((((((.(((..(((((...((((....(((((......)))))))))...)).)))..))))))))))). ( -34.70)
>DroSim_CAF1 59195 114 - 1
UGGCUGUUUUCCCGGUACUUUGGCAG-AAGAAAAGUG-CCAGGUGGCAACUGUUUCGAACACAAGUCUAACAAGGCAAGUUAACUUGCCUGGAAAAGCGGUUUAAAAAGUUGCUAG
..........((.((((((((.....-....))))))-)).))((((((((.(((..(((....((......(((((((....)))))))......)).)))..))))))))))). ( -36.90)
>DroEre_CAF1 57910 113 - 1
UGGCUGUUUUCUCGGUACUUUAGCCA--AGAAAAGUG-CCAGGUGGCAACUGUUUUAAACAGAAGUCAAACAUGGCAAGUUAACUUGACUGGAAAAGCGGCUUAAAAUGUUGUCAA
.(((((((((..((((........((--((.((..((-(((..((((..((((.....))))..))))....)))))..))..))))))))..))))))))).............. ( -33.20)
>DroYak_CAF1 58687 114 - 1
UGGCUGUUUUCUCGGUACUUUAGCAA-AAGAAAAGUG-CCAGGUGGCAACUGUUUUGAACACAAGUCCAACAUGGCAAGUUAACUUGUCUGGAAAAGCGGUUUAAAAAGUUGUCAA
((((..((((((..((......))..-.))))))..)-)))..((((((((.((((((((.....((((....((((((....))))))))))......)))))))))))))))). ( -37.10)
>DroAna_CAF1 52017 104 - 1
UAGCUCCUUUCC----------GCCGAGGGAGGAGUG-UCAGGUGACGAGUGUUUAGGGCACAUGUCGAACAGGGAAAGUUUGGUUAACUGGAAAAGCUGUG-GAAAAGUUGUCGG
..((((((..(.----------.....)..))))))(-.(((.(((((.((((.....)))).))))...((.((....((..(....)..))....)).))-....).))).).. ( -28.50)
>consensus
UGGCUGUUUUCCCGGUACUUUGGCAG_AAGAAAAGUG_CCAGGUGGCAACUGUUUCGAACACAAGUCUAACAUGGCAAGUUAACUUGCCUGGAAAAGCGGUUUAAAAAGUUGCCAA
..........((.((((((((..........)))))).)).))((((((((.(((.((((....((....((.((((((....)))))))).....)).)))).))))))))))). (-18.43 = -19.97 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:29 2006