Locus 2617

Sequence ID X_DroMel_CAF1
Location 7,002,779 – 7,002,886
Length 107
Max. P 0.781904
window4287 window4288

overview

Window 7

Location 7,002,779 – 7,002,886
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.24
Mean single sequence MFE -20.44
Consensus MFE -12.80
Energy contribution -12.80
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.47
Structure conservation index 0.63
SVM decision value 0.10
SVM RNA-class probability 0.584469
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7002779 107 + 22224390
ACACAUUUUUUUCCC--UUUGCUCUUUCACUUUUUUCUAAAAAU-------AAAAGAAAAGCGCGACAGUAGAGGCGCA----AAAAUAAAAAAAAAGGAAACAAUAAAAGAAUGCAGGA
...(((((((((.((--((((((...((.(.(((((((......-------...))))))).).)).))))))))....----..............(....)...)))))))))..... ( -19.60)
>DroSec_CAF1 4224 97 + 1
ACACAUUUUUUUCCC--UUUGCUCUUUCACUUU-UUCUAAAAAU-------AAAAGAAAAGCGCGACAGUAGAGGCGCU----AA---------AAAGGAAACAAUAAAAGAAUGCAGGA
...(((((((((.((--((((((...((.((((-((((......-------...))))))).).)).))))))))....----..---------...(....)...)))))))))..... ( -19.00)
>DroSim_CAF1 7254 97 + 1
ACACAUUUUUUUCCC--UUUGCUCUUUCACUUU-UUCUAAAAAU-------AAAAGAAAAGCGCGACAGUAGAGGCGCA----AA---------AAAGGAAACAAUAAAAGAAUGCAGGA
...(((((((((.((--((((((...((.((((-((((......-------...))))))).).)).))))))))....----..---------...(....)...)))))))))..... ( -19.00)
>DroEre_CAF1 9932 99 + 1
ACACAUUUUUUUCCCUCUUUGCUCUUUCGCUU--UUCUAAAAAU-------AAAAGAAAAGCGCGACAGUAGAGGCGC------------AAAAAAAGGAAACAAUAAAAGAAUGCAGGA
...(((((((((.(((((..(((.((.(((((--((((......-------...))))))))).)).))))))))...------------.......(....)...)))))))))..... ( -25.60)
>DroYak_CAF1 18754 117 + 1
ACACAUUUUGUUCCC--UUUGCUCUUUCACUUU-UUCUAAAAAUGAAAAUAAAAAGAAAAGCGCGACAGUAGAGGCGCCCAAAAAAAAAAAAAAAAAGGAAACAAUAAAAGAAUGCAGGA
.....(((((..(((--((((((...((.((((-((((....((....))....))))))).).)).)))))))).)..))))).............(....)................. ( -19.00)
>consensus
ACACAUUUUUUUCCC__UUUGCUCUUUCACUUU_UUCUAAAAAU_______AAAAGAAAAGCGCGACAGUAGAGGCGCA____AA_____AAAAAAAGGAAACAAUAAAAGAAUGCAGGA
.................(((((...(((................................((((..........))))...................(....).......))).))))). (-12.80 = -12.80 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,002,779 – 7,002,886
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.24
Mean single sequence MFE -24.80
Consensus MFE -15.99
Energy contribution -16.19
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.76
Structure conservation index 0.64
SVM decision value 0.56
SVM RNA-class probability 0.781904
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7002779 107 - 22224390
UCCUGCAUUCUUUUAUUGUUUCCUUUUUUUUUAUUUU----UGCGCCUCUACUGUCGCGCUUUUCUUUU-------AUUUUUAGAAAAAAGUGAAAGAGCAAA--GGGAAAAAAAUGUGU
....((((...(((....(((((((((..........----.((((..(....)..))))..(((((((-------((((((....))))))))))))).)))--)))))).))).)))) ( -24.40)
>DroSec_CAF1 4224 97 - 1
UCCUGCAUUCUUUUAUUGUUUCCUUU---------UU----AGCGCCUCUACUGUCGCGCUUUUCUUUU-------AUUUUUAGAA-AAAGUGAAAGAGCAAA--GGGAAAAAAAUGUGU
....((((...(((....((((((((---------(.----(((((..(....)..))))).(((((((-------(((((.....-)))))))))))).)))--)))))).))).)))) ( -24.00)
>DroSim_CAF1 7254 97 - 1
UCCUGCAUUCUUUUAUUGUUUCCUUU---------UU----UGCGCCUCUACUGUCGCGCUUUUCUUUU-------AUUUUUAGAA-AAAGUGAAAGAGCAAA--GGGAAAAAAAUGUGU
....((((...(((....((((((((---------(.----.((((..(....)..))))..(((((((-------(((((.....-)))))))))))).)))--)))))).))).)))) ( -23.30)
>DroEre_CAF1 9932 99 - 1
UCCUGCAUUCUUUUAUUGUUUCCUUUUUUU------------GCGCCUCUACUGUCGCGCUUUUCUUUU-------AUUUUUAGAA--AAGCGAAAGAGCAAAGAGGGAAAAAAAUGUGU
....((((...(((....(((((((((((.------------((((..(....)..))((((((((...-------......))))--))))......))))))))))))).))).)))) ( -25.10)
>DroYak_CAF1 18754 117 - 1
UCCUGCAUUCUUUUAUUGUUUCCUUUUUUUUUUUUUUUUUGGGCGCCUCUACUGUCGCGCUUUUCUUUUUAUUUUCAUUUUUAGAA-AAAGUGAAAGAGCAAA--GGGAACAAAAUGUGU
....(((((......(((((((((((..............((((((..(....)..))))))(((((((..(((((.......)))-))...))))))).)))--))))))))))))).. ( -27.20)
>consensus
UCCUGCAUUCUUUUAUUGUUUCCUUUUUUU_____UU____UGCGCCUCUACUGUCGCGCUUUUCUUUU_______AUUUUUAGAA_AAAGUGAAAGAGCAAA__GGGAAAAAAAUGUGU
((((...((((((((((.........................((((..(....)..))))..((((................))))...))))))))))......))))........... (-15.99 = -16.19 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:18 2006