Locus 7316

Sequence ID X_DroMel_CAF1
Location 18,242,651 – 18,242,762
Length 111
Max. P 0.632794
window11978 window11979

overview

Window 8

Location 18,242,651 – 18,242,762
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 85.22
Mean single sequence MFE -38.22
Consensus MFE -27.51
Energy contribution -29.32
Covariance contribution 1.81
Combinations/Pair 1.15
Mean z-score -1.61
Structure conservation index 0.72
SVM decision value 0.20
SVM RNA-class probability 0.632794
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18242651 111 + 22224390
UUUGGCUGCCCUGGCCGUGUUUGGGUAUUUCGCCCGAUUUUAGUGACAGUCGGCGAGAGUCGUUAACGAUUGCCACUUGGGCAAUGUGAUUUGGAUAUCUAAAGGUGUCUG
......(((((((((..((((......(((((((.((((........)))))))))))......))))...))))...))))).........(((((((....))))))). ( -35.10)
>DroSec_CAF1 16793 111 + 1
CUUGGUUGCCCUGGCCCUGUUUGGGUAUUUCGCCCGAUUUCAGUGACAGUCGGCGAGAGUCGUUAACGAUUGCCACUUGGGUGGUGUGAUUUGAAUAUCUAAAGGUGUCUG
............((((((..(((((((((((((((.(((..((((.((((((((....)))(....)))))).))))..))))).))))....)))))))))))).))).. ( -33.00)
>DroEre_CAF1 15981 108 + 1
UAUGGCCGCCCUGGC--UGUU-GAGGAUUUCGCCCGAUUUCAGUGGAAGUUGGCGACUCGCGUUAACGAUUGCCACUUGGGCGGUGUGAUUUGGAUAUCUAAAGGUGUCUG
....(((((((((((--((((-((.(...(((((.((((((....)))))))))))....).))))))...))))...))))))).......(((((((....))))))). ( -43.50)
>DroYak_CAF1 16903 105 + 1
UAUGGCUGCCCUGGC--UGUU-UGGGAUUUCGCCCGAUUUCAGUGG---CUGUCGACUCGCGUUAACGAUUGCCACUUGGGCGGUGUGGUUUGGAUAGCUAAAGGUGUCUG
...(((.(((.((((--((((-..((...(((((((.....(((((---(.((((...........)))).))))))))))))).....))..))))))))..)))))).. ( -41.30)
>consensus
UAUGGCUGCCCUGGC__UGUU_GGGGAUUUCGCCCGAUUUCAGUGACAGUCGGCGACACGCGUUAACGAUUGCCACUUGGGCGGUGUGAUUUGGAUAUCUAAAGGUGUCUG
....(((((((((((..((((......(((((((.((((........)))))))))))......))))...))))...))))))).......(((((((....))))))). (-27.51 = -29.32 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,242,651 – 18,242,762
Length 111
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 85.22
Mean single sequence MFE -27.68
Consensus MFE -17.44
Energy contribution -18.45
Covariance contribution 1.00
Combinations/Pair 1.11
Mean z-score -1.88
Structure conservation index 0.63
SVM decision value 0.15
SVM RNA-class probability 0.606237
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18242651 111 - 22224390
CAGACACCUUUAGAUAUCCAAAUCACAUUGCCCAAGUGGCAAUCGUUAACGACUCUCGCCGACUGUCACUAAAAUCGGGCGAAAUACCCAAACACGGCCAGGGCAGCCAAA
............(((......)))...((((((.(((((((.(((....((.....)).))).)))))))......((.((.............)).)).))))))..... ( -26.62)
>DroSec_CAF1 16793 111 - 1
CAGACACCUUUAGAUAUUCAAAUCACACCACCCAAGUGGCAAUCGUUAACGACUCUCGCCGACUGUCACUGAAAUCGGGCGAAAUACCCAAACAGGGCCAGGGCAACCAAG
............(((......)))......(((.(((((((.(((....((.....)).))).)))))))......(((.......))).....)))...((....))... ( -25.30)
>DroEre_CAF1 15981 108 - 1
CAGACACCUUUAGAUAUCCAAAUCACACCGCCCAAGUGGCAAUCGUUAACGCGAGUCGCCAACUUCCACUGAAAUCGGGCGAAAUCCUC-AACA--GCCAGGGCGGCCAUA
............(((......)))...((((((...((((..((((....)))).(((((...(((....)))....))))).......-....--))))))))))..... ( -30.10)
>DroYak_CAF1 16903 105 - 1
CAGACACCUUUAGCUAUCCAAACCACACCGCCCAAGUGGCAAUCGUUAACGCGAGUCGACAG---CCACUGAAAUCGGGCGAAAUCCCA-AACA--GCCAGGGCAGCCAUA
............(((.............(((((.((((((....((..((....))..)).)---)))))(....))))))........-....--((....))))).... ( -28.70)
>consensus
CAGACACCUUUAGAUAUCCAAAUCACACCGCCCAAGUGGCAAUCGUUAACGACACUCGCCAACUGCCACUGAAAUCGGGCGAAAUACCC_AACA__GCCAGGGCAGCCAAA
...........................((((((...((((....(((........(((((.................)))))........)))...))))))))))..... (-17.44 = -18.45 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:47 2006