Locus 6035

Sequence ID 2L_DroMel_CAF1
Location 17,001,267 – 17,001,370
Length 103
Max. P 0.959850
window9580 window9581

overview

Window 0

Location 17,001,267 – 17,001,370
Length 103
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.71
Mean single sequence MFE -31.37
Consensus MFE -19.62
Energy contribution -19.82
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -2.78
Structure conservation index 0.63
SVM decision value 1.51
SVM RNA-class probability 0.959850
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17001267 103 + 22407834
CAUUUCUCUCCGAUUUUCCCAUCGCAUUUCCCAC-----GGCA--AUCCUUGUGCU------UCUCUGCUUCCCGCAAGCAUUUCGAGUGUGCGGAAGGAAAUGUGAAAUUUUAAG
.....................((((((((((..(-----.(((--.((...(((((------....(((.....))))))))...))...))).)..))))))))))......... ( -27.40)
>DroSec_CAF1 108414 101 + 1
AAUUUCUCUCCGAUUUUCCCAUCGCAUUUCCCUC-----GGCA--AUCCUUGUGCUUGUG--------CUUCCCGCAAGCAUUUCGAGUGUGCGGAAGGAAAUGUGAAAUUUUAAG
.....................((((((((((.((-----.(((--.((...(((((((((--------.....)))))))))...))...))).)).))))))))))......... ( -35.30)
>DroSim_CAF1 110398 109 + 1
UAUUUCUCUCCGAUUUUCCCAUCGCAUUUCCCUC-----GGCA--AUCCUUGUGCUUGUGCUUCUGUGCUUCCCGCAAGCAUUUCGAGUGUGCGGAAGGAAAUGUGAAAUUUUAAG
.....................((((((((((.((-----.(((--.((...((((((((((......)).....))))))))...))...))).)).))))))))))......... ( -34.30)
>DroEre_CAF1 111040 95 + 1
UAUUUCUCUGCGAUUUUCCCAUCGCAUUUCCCUC-----GGCA--AUACUUGUG--------------CUUCCCGCAAGCAUUUCGAGUGUGCGGAAGGAAAUGUGAAAAUUUAAG
.....................((((((((((.((-----.(((--.((((((((--------------(((.....)))))...))))))))).)).))))))))))......... ( -30.70)
>DroYak_CAF1 111211 95 + 1
UAUUUCUCUCCGAUUUUCCCAUCGCAUUUCCCUC-----GGCA--AUUCUUGUG--------------CUUCCCGCACGCUUUUCGAGUGUGCGGAAGGAAAUGUGAAAUUUUAAG
.....................((((((((((...-----((((--.......))--------------))..((((((((((...))))))))))..))))))))))......... ( -31.80)
>DroAna_CAF1 99963 111 + 1
GAUCCUGGCCAGAUUCUCCACUCG-AUUUCCCCCUAUCCCGCACCACCUUUAUCCGUU----CGUUGGGUUCCCGCAAGUGGUGUGAGUGUGCGGCAGGAAAUGUGAAAUUUUAAG
..(((((.(((.((((.......(-((........)))..(((((((....(((((..----...)))))........))))))))))).)).).)))))................ ( -28.70)
>consensus
UAUUUCUCUCCGAUUUUCCCAUCGCAUUUCCCUC_____GGCA__AUCCUUGUGCU____________CUUCCCGCAAGCAUUUCGAGUGUGCGGAAGGAAAUGUGAAAUUUUAAG
.....................((((((((((.........(((.......)))...................(((((.((.......)).)))))..))))))))))......... (-19.62 = -19.82 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,001,267 – 17,001,370
Length 103
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.71
Mean single sequence MFE -29.34
Consensus MFE -15.82
Energy contribution -16.52
Covariance contribution 0.70
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.54
SVM decision value 0.11
SVM RNA-class probability 0.588024
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17001267 103 - 22407834
CUUAAAAUUUCACAUUUCCUUCCGCACACUCGAAAUGCUUGCGGGAAGCAGAGA------AGCACAAGGAU--UGCC-----GUGGGAAAUGCGAUGGGAAAAUCGGAGAGAAAUG
......(((((.((((((((((((((..(.......)..))))))).((.....------.)).((.((..--..))-----.)))))))))((((......))))....))))). ( -26.40)
>DroSec_CAF1 108414 101 - 1
CUUAAAAUUUCACAUUUCCUUCCGCACACUCGAAAUGCUUGCGGGAAG--------CACAAGCACAAGGAU--UGCC-----GAGGGAAAUGCGAUGGGAAAAUCGGAGAGAAAUU
.....((((((.((((((((((.(((.(..(....((((((.(.....--------).))))))...)..)--))).-----))))))))))((((......))))....)))))) ( -31.00)
>DroSim_CAF1 110398 109 - 1
CUUAAAAUUUCACAUUUCCUUCCGCACACUCGAAAUGCUUGCGGGAAGCACAGAAGCACAAGCACAAGGAU--UGCC-----GAGGGAAAUGCGAUGGGAAAAUCGGAGAGAAAUA
......(((((.((((((((((.(((.(..(....((((((.(.............).))))))...)..)--))).-----))))))))))((((......))))....))))). ( -29.62)
>DroEre_CAF1 111040 95 - 1
CUUAAAUUUUCACAUUUCCUUCCGCACACUCGAAAUGCUUGCGGGAAG--------------CACAAGUAU--UGCC-----GAGGGAAAUGCGAUGGGAAAAUCGCAGAGAAAUA
......(((((..(((((((((.(((........(((((((.(.....--------------).)))))))--))).-----)))))))))(((((......))))).)))))... ( -29.60)
>DroYak_CAF1 111211 95 - 1
CUUAAAAUUUCACAUUUCCUUCCGCACACUCGAAAAGCGUGCGGGAAG--------------CACAAGAAU--UGCC-----GAGGGAAAUGCGAUGGGAAAAUCGGAGAGAAAUA
......(((((.(((((((((((((((.((.....)).)))))....(--------------((.......--))).-----))))))))))((((......))))....))))). ( -29.30)
>DroAna_CAF1 99963 111 - 1
CUUAAAAUUUCACAUUUCCUGCCGCACACUCACACCACUUGCGGGAACCCAACG----AACGGAUAAAGGUGGUGCGGGAUAGGGGGAAAU-CGAGUGGAGAAUCUGGCCAGGAUC
.......(((((((((((((.((.....(((.((((((((..((....))..(.----...).....)))))))).)))...)))))))))-...)))))).((((.....)))). ( -30.10)
>consensus
CUUAAAAUUUCACAUUUCCUUCCGCACACUCGAAAUGCUUGCGGGAAG____________AGCACAAGGAU__UGCC_____GAGGGAAAUGCGAUGGGAAAAUCGGAGAGAAAUA
......(((((.((((((((((((((.............))))))).((............))......................)))))))((((......))))....))))). (-15.82 = -16.52 +   0.70)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:20 2006