Locus 9052

Sequence ID 3R_DroMel_CAF1
Location 24,205,722 – 24,205,817
Length 95
Max. P 0.786230
window14496 window14497

overview

Window 6

Location 24,205,722 – 24,205,817
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.22
Mean single sequence MFE -20.77
Consensus MFE -11.76
Energy contribution -11.76
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 0.57
SVM decision value 0.25
SVM RNA-class probability 0.653730
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24205722 95 + 27905053
A-AAAGGAAUAAGCGAAAAUUGAAUGUUUUUGUUGU--GUGGCCAGGCAAACUGGGCAA--------ACUUUAUGGCCACAAACACAAAUUACAACUACA------ACAUUU--------
.-.........(((((((((.....))))))))).(--(((((((.((.......))..--------......))))))))...................------......-------- ( -19.60)
>DroPse_CAF1 29667 88 + 1
-------AGCAGGU-GAAAUUGAAUGUUUUUGUUGUGUGCGGCCAGGUA--CUGGGAAA--------ACUUUAUGGCCACAAACACAAAUUACAACUACA------ACAUUC--------
-------.......-......(((((((...((((((((.(((((....--..((....--------.))...))))).)).........))))))...)------))))))-------- ( -20.20)
>DroGri_CAF1 2124 103 + 1
A-A----ACUGAAUAAAAAUUGAAUGUGUUUGUUGU--GCGGCCAGAUA--UAGGGCAA--------ACUUUAUGGCCACAAACACAAAUUACAACUACUAGCCCAACAACCAACAAACA
.-.----.................(((((((((...--..(((((....--.(((....--------.)))..))))))))))))))................................. ( -19.10)
>DroEre_CAF1 33077 95 + 1
A-AAAGGAAUAAGCGAAAAUUGAAUGUUUUUGUUGU--GUGGCCAGGCAAACUGGGCAA--------ACUUUAUGGCCACAAACACAAAUUACAACUACA------ACAUUU--------
.-.........(((((((((.....))))))))).(--(((((((.((.......))..--------......))))))))...................------......-------- ( -19.60)
>DroYak_CAF1 30060 105 + 1
A-AAAGGAAUAAGCGAAAAUUGAAUGUUUUUGUUGUGUGUGGCCAGGCAAACUGGGCAAACUGGUAAACUUUAUGGCCACAAACACAAAUUACAACUACA------ACAUUU--------
.-...................(((((((...((((((((((((((.....((..(.....)..))........)))))))).........))))))...)------))))))-------- ( -25.92)
>DroAna_CAF1 26655 90 + 1
AAA----AAUGAGUGAAAAUUGAAUGUUUUUGUUGU--GCGGCCAGGCA--GUGGGCAA--------ACUUUAUGGCCACAAACACAAAUUACAACUACA------ACAUUC--------
...----..............(((((((...(((((--((......)).--((((.((.--------......)).))))...........)))))...)------))))))-------- ( -20.20)
>consensus
A_A____AAUAAGCGAAAAUUGAAUGUUUUUGUUGU__GCGGCCAGGCA__CUGGGCAA________ACUUUAUGGCCACAAACACAAAUUACAACUACA______ACAUUC________
........................(((.(((((.((....(((((............................)))))....)))))))..))).......................... (-11.76 = -11.76 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 24,205,722 – 24,205,817
Length 95
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.22
Mean single sequence MFE -21.65
Consensus MFE -13.71
Energy contribution -13.46
Covariance contribution -0.25
Combinations/Pair 1.05
Mean z-score -1.74
Structure conservation index 0.63
SVM decision value 0.57
SVM RNA-class probability 0.786230
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24205722 95 - 27905053
--------AAAUGU------UGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGU--------UUGCCCAGUUUGCCUGGCCAC--ACAACAAAAACAUUCAAUUUUCGCUUAUUCCUUU-U
--------....((------...(((((.......((((((((((((....((--------..((...))..)).)))))))--).))))........)))))...))..........-. ( -18.66)
>DroPse_CAF1 29667 88 - 1
--------GAAUGU------UGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGU--------UUUCCCAG--UACCUGGCCGCACACAACAAAAACAUUCAAUUUC-ACCUGCU-------
--------((((((------(....((((....(((((..(((((((......--------........--....)))))))))))))))).)))))))......-.......------- ( -23.87)
>DroGri_CAF1 2124 103 - 1
UGUUUGUUGGUUGUUGGGCUAGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGU--------UUGCCCUA--UAUCUGGCCGC--ACAACAAACACAUUCAAUUUUUAUUCAGU----U-U
(((((((((..(((..(((((((((..((((((((((........))))))..--------)))).)))--...))))))))--))))))))))...................----.-. ( -23.10)
>DroEre_CAF1 33077 95 - 1
--------AAAUGU------UGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGU--------UUGCCCAGUUUGCCUGGCCAC--ACAACAAAAACAUUCAAUUUUCGCUUAUUCCUUU-U
--------....((------...(((((.......((((((((((((....((--------..((...))..)).)))))))--).))))........)))))...))..........-. ( -18.66)
>DroYak_CAF1 30060 105 - 1
--------AAAUGU------UGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGUUUACCAGUUUGCCCAGUUUGCCUGGCCACACACAACAAAAACAUUCAAUUUUCGCUUAUUCCUUU-U
--------.(((((------(....((((....(((((..(((((((....((..((...........))..)).)))))))))))))))).))))))....................-. ( -20.90)
>DroAna_CAF1 26655 90 - 1
--------GAAUGU------UGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGU--------UUGCCCAC--UGCCUGGCCGC--ACAACAAAAACAUUCAAUUUUCACUCAUU----UUU
--------((((((------(...((((((((....))).(((((((...(((--------......))--)...)))))))--)))))...)))))))..............----... ( -24.70)
>consensus
________AAAUGU______UGUAGUUGUAAUUUGUGUUUGUGGCCAUAAAGU________UUGCCCAG__UGCCUGGCCAC__ACAACAAAAACAUUCAAUUUUCACUUAUU____U_U
.......................(((((...(((((((..(((((((............................)))))))..)).)))))......)))))................. (-13.71 = -13.46 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:36 2006