Locus 736

Sequence ID 3R_DroMel_CAF1
Location 2,623,997 – 2,624,096
Length 99
Max. P 0.755818
window1165 window1166

overview

Window 5

Location 2,623,997 – 2,624,096
Length 99
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 83.42
Mean single sequence MFE -24.43
Consensus MFE -21.70
Energy contribution -21.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.31
Structure conservation index 0.89
SVM decision value 0.02
SVM RNA-class probability 0.544917
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2623997 99 + 27905053
UG------C--CACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUU-CCUUUGCUCGU-UGU---UAUUG--UUGCC
.(------(--.((((...((((((((((..(((((((((....))))))........)))..)...).))))))))......-.....((....-.))---..)))--).)). ( -24.70)
>DroPse_CAF1 19939 107 + 1
UGGCUCUGCCACACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUU-CUAC---UCUUUUUU---UGUUGCCUUGCC
.(((...((.(((.(((..((((((((((..(((((((((....))))))........)))..)...).))))))))......-....---....))).---))).))...))) ( -26.99)
>DroWil_CAF1 44613 100 + 1
UG------C--CACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUU-CACC---CCGUGUCCCCCCCUCU--AUGCC
..------.--((((((..((((((((((..(((((((((....))))))........)))..)...).))))))))..))).-....---..)))...........--..... ( -21.81)
>DroYak_CAF1 6116 96 + 1
UG------C--CACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUU-CCCCAUCU----UGU---UGUUG--UUGCC
.(------(--.((((...((((((((((..(((((((((....))))))........)))..)...).))))))))......-...((...----...---)))))--).)). ( -24.60)
>DroAna_CAF1 33150 100 + 1
UG------C--CACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUUUCUUCAUCGUGC-CUU---UGUUG--UUGCC
.(------(--.((((...((((((((((..(((((((((....))))))........)))..)...).)))))))).............((...-...---)))))--).)). ( -23.70)
>DroPer_CAF1 19956 105 + 1
UGGCUCUGCCACACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUU-CUAC---UCUUUUUU-----UUGCCUUGCC
((((...))))........((((((((((..(((((((((....))))))........)))..)...).))))))))......-....---........-----.......... ( -24.80)
>consensus
UG______C__CACAAAUUGCAAGUCACUUGACAAGCUGCUGAUGCAGCUCCCGCUGUUGUUGAAAUGUUGACUUGCCUUUUU_CUAC___UCGU_UUU___UGUUG__UUGCC
...................((((((((((..(((((((((....))))))........)))..)...).))))))))..................................... (-21.70 = -21.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,623,997 – 2,624,096
Length 99
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 83.42
Mean single sequence MFE -27.79
Consensus MFE -21.70
Energy contribution -21.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.78
SVM decision value 0.49
SVM RNA-class probability 0.755818
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2623997 99 - 27905053
GGCAA--CAAUA---ACA-ACGAGCAAAGG-AAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUG--G------CA
(....--)....---...-....((...(.-(((...((((((((......(..(....)..)(((((((....)))))))......))))))))..))).).--)------). ( -25.40)
>DroPse_CAF1 19939 107 - 1
GGCAAGGCAACA---AAAAAAGA---GUAG-AAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUGUGGCAGAGCCA
(((...((.(((---((......---....-......((((((((......(..(....)..)(((((((....)))))))......))))))))..)))))...))...))). ( -30.07)
>DroWil_CAF1 44613 100 - 1
GGCAU--AGAGGGGGGGACACGG---GGUG-AAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUG--G------CA
(.(((--(((...(....)....---....-......((((((((......(..(....)..)(((((((....)))))))......))))))))..))))))--.------). ( -29.40)
>DroYak_CAF1 6116 96 - 1
GGCAA--CAACA---ACA----AGAUGGGG-AAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUG--G------CA
.((.(--((((.---.(.----....)..)-......((((((((......(..(....)..)(((((((....)))))))......))))))))...)))).--)------). ( -25.90)
>DroAna_CAF1 33150 100 - 1
GGCAA--CAACA---AAG-GCACGAUGAAGAAAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUG--G------CA
(....--)....---..(-.(((((............((((((((......(..(....)..)(((((((....)))))))......))))))))...)))))--.------). ( -27.16)
>DroPer_CAF1 19956 105 - 1
GGCAAGGCAA-----AAAAAAGA---GUAG-AAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUGUGGCAGAGCCA
.....(((..-----........---....-......((((((((......(..(....)..)(((((((....)))))))......))))))))..((((.....))))))). ( -28.80)
>consensus
GGCAA__CAACA___AAA_ACGA___GAAG_AAAAAGGCAAGUCAACAUUUCAACAACAGCGGGAGCUGCAUCAGCAGCUUGUCAAGUGACUUGCAAUUUGUG__G______CA
.....................................((((((((......(..(....)..)(((((((....)))))))......))))))))................... (-21.70 = -21.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:40 2006