Locus 5569

Sequence ID 3R_DroMel_CAF1
Location 14,729,229 – 14,729,328
Length 99
Max. P 0.801599
window9076 window9077

overview

Window 6

Location 14,729,229 – 14,729,328
Length 99
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 80.75
Mean single sequence MFE -27.10
Consensus MFE -17.14
Energy contribution -17.12
Covariance contribution -0.03
Combinations/Pair 1.14
Mean z-score -2.06
Structure conservation index 0.63
SVM decision value 0.62
SVM RNA-class probability 0.801599
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14729229 99 + 27905053
UAUACUCUUAGUUGGGCAGU-----UGCGGCUGGAUUUCAUUCUGUGC-UCGAAAUUACCAUUUU--------UUGUUUUGCUGCUGCUGCCUGAAUUUCAAAUGCCGCAACU
....(((......))).(((-----((((((((((.((((..(.((((-.((((((.........--------..))))))..)).)).)..)))).))))...))))))))) ( -26.20)
>DroSim_CAF1 153626 107 + 1
UGUACUCUUAGUUGGGCAGU-----UGCGGCUGGAUUUCAUUCUGUGC-UCGAAAUUACCAUUUUUGGUAAUUUUGUUUUGCUGCCGCUGCCUGAAUUUCAAAUGCCGCAACU
.........(((((((((((-----.(((((.(((......)))..((-.(((((((((((....)))))))))))....)).))))).)).((.....))..)))).))))) ( -36.00)
>DroEre_CAF1 146549 91 + 1
UGAACUCUUAGUUGGGCAGU-----UGCGGCUGGAUUUCAUUCUGUGC-ACGGAAUUACCAUUUU--------UU-----G---CUGCCGCCUGAAUUUCAAAUGCCGCAACU
....(((......))).(((-----((((((((((.((((..(.((((-(..((((....)))).--------.)-----)---).)).)..)))).))))...))))))))) ( -26.80)
>DroYak_CAF1 156033 91 + 1
UGUACUCUUAGUUGGGCAGU-----UGCGGCUGGAUUUCAUUCUGUGC-UCGGAAUUACCAUUUU--------UU-----G---CUGCCGCCUGAAUUUCAAAUGCCGCAACU
....(((......))).(((-----((((((((((.((((...((.((-.(((((........))--------))-----)---..))))..)))).))))...))))))))) ( -24.80)
>DroAna_CAF1 149711 96 + 1
UAUAUAUUUAGUUGGGCAGC-CGAAUGCGGCGGGAUUUUAUUUUGUGCCUCGGCAAUACCAUUUU--------UU-----G---CUGCUGCGUGAAUUUCAAAUGCCGCAACU
.........(((((((((((-((....))))..........((..(((..((((((.........--------))-----)---)))..)))..)).......)))).))))) ( -29.90)
>DroPer_CAF1 139333 97 + 1
UAUAUAUUUAGUUGGGCAGCCCGAAUGCGGCUGGAUUUUAUUUUGUAC-UCUGGAUUUUCAUUUUU-------UU-----A---CUGCUGCGUGAAUUUCAAAUGCCACAACU
.........((((((((((((.......)))((((.(((((...(((.-...(((........)))-------..-----.---.)))...))))).))))..)))).))))) ( -18.90)
>consensus
UAUACUCUUAGUUGGGCAGU_____UGCGGCUGGAUUUCAUUCUGUGC_UCGGAAUUACCAUUUU________UU_____G___CUGCUGCCUGAAUUUCAAAUGCCGCAACU
.........(((((((((........(((((.(((......))).......((.....))..........................))))).((.....))..)))).))))) (-17.14 = -17.12 +  -0.03)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,729,229 – 14,729,328
Length 99
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 80.75
Mean single sequence MFE -23.31
Consensus MFE -12.48
Energy contribution -12.65
Covariance contribution 0.17
Combinations/Pair 1.06
Mean z-score -2.03
Structure conservation index 0.54
SVM decision value -0.00
SVM RNA-class probability 0.532065
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14729229 99 - 27905053
AGUUGCGGCAUUUGAAAUUCAGGCAGCAGCAGCAAAACAA--------AAAAUGGUAAUUUCGA-GCACAGAAUGAAAUCCAGCCGCA-----ACUGCCCAACUAAGAGUAUA
(((((.((((.(((.......(((.((....)).......--------....(((..((((((.-.(...)..)))))))))))).))-----).)))))))))......... ( -22.20)
>DroSim_CAF1 153626 107 - 1
AGUUGCGGCAUUUGAAAUUCAGGCAGCGGCAGCAAAACAAAAUUACCAAAAAUGGUAAUUUCGA-GCACAGAAUGAAAUCCAGCCGCA-----ACUGCCCAACUAAGAGUACA
(((((((((.......((((..((.((....))....(.(((((((((....))))))))).).-))...))))........))))))-----)))................. ( -30.66)
>DroEre_CAF1 146549 91 - 1
AGUUGCGGCAUUUGAAAUUCAGGCGGCAG---C-----AA--------AAAAUGGUAAUUCCGU-GCACAGAAUGAAAUCCAGCCGCA-----ACUGCCCAACUAAGAGUUCA
(((((.((((.(((.....)))(((((.(---(-----(.--------....(((.....))))-))......((.....))))))).-----..)))))))))......... ( -24.20)
>DroYak_CAF1 156033 91 - 1
AGUUGCGGCAUUUGAAAUUCAGGCGGCAG---C-----AA--------AAAAUGGUAAUUCCGA-GCACAGAAUGAAAUCCAGCCGCA-----ACUGCCCAACUAAGAGUACA
(((((.((((.(((.....)))(((((..---.-----..--------....(((..((((...-.....)))).....)))))))).-----..)))))))))......... ( -22.60)
>DroAna_CAF1 149711 96 - 1
AGUUGCGGCAUUUGAAAUUCACGCAGCAG---C-----AA--------AAAAUGGUAUUGCCGAGGCACAAAAUAAAAUCCCGCCGCAUUCG-GCUGCCCAACUAAAUAUAUA
(((((.((((((((...(((..((....)---)-----..--------.....((.....)))))...))))..........((((....))-)))))))))))......... ( -23.10)
>DroPer_CAF1 139333 97 - 1
AGUUGUGGCAUUUGAAAUUCACGCAGCAG---U-----AA-------AAAAAUGAAAAUCCAGA-GUACAAAAUAAAAUCCAGCCGCAUUCGGGCUGCCCAACUAAAUAUAUA
(((((.(((.((((..((((((......)---)-----..-------.....((......))))-)).)))).........((((.......))))))))))))......... ( -17.10)
>consensus
AGUUGCGGCAUUUGAAAUUCAGGCAGCAG___C_____AA________AAAAUGGUAAUUCCGA_GCACAGAAUGAAAUCCAGCCGCA_____ACUGCCCAACUAAGAGUACA
(((((.((((..((.....)).((.((..........................((.....))(.....).............)).))........)))))))))......... (-12.48 = -12.65 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:18 2006