Locus 6305

Sequence ID 2L_DroMel_CAF1
Location 17,569,308 – 17,569,400
Length 92
Max. P 0.995943
window10070 window10071

overview

Window 0

Location 17,569,308 – 17,569,400
Length 92
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 76.69
Mean single sequence MFE -29.38
Consensus MFE -18.69
Energy contribution -19.47
Covariance contribution 0.78
Combinations/Pair 1.19
Mean z-score -2.20
Structure conservation index 0.64
SVM decision value 1.67
SVM RNA-class probability 0.971289
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17569308 92 + 22407834
UUCUU---GU------UUUUCGUCGCUUUUGUUGUUUUCG-CGCCACACCAACGCGAAAACGUUACGCGCAAUGGCCACAACAAUGGCGGCCAU-----CGCGUUGC
.....---..------.................(((((((-((.........)))))))))((.(((((..((((((.((....))..))))))-----))))).)) ( -29.50)
>DroSec_CAF1 85654 92 + 1
UUCUU---GU------UUUUCGCCGCUUUUGUUGUUUUCG-CGCCACACCAACGCGAAAACGUUACGCGCAAUGGCCACAACAAUGGCGGCCAU-----CGCGUUGC
.....---..------.................(((((((-((.........)))))))))((.(((((..((((((.((....))..))))))-----))))).)) ( -29.50)
>DroSim_CAF1 84756 97 + 1
UUCUU---GU------UUUUCGUCGCUUUUGUUGUUUUCG-CGCCACACCAACGCGAAAACGUUACGCGCAAUGGCCACAACAAUGGCGGCCAUCGCAUCGCGUUGC
.....---..------.................(((((((-((.........)))))))))((.((((((.((((((.((....))..)))))).))...)))).)) ( -29.50)
>DroEre_CAF1 84365 74 + 1
UCCUC---GA------UUUUCGUCGCUUUUGUUGUUUUCG-CGCCACGCCAACGC------------------GGCCACAACAAUGGCGGCCAU-----CGCGUUGC
..(.(---((------(....((((((.(((((((..(((-((.........)))------------------))..))))))).)))))).))-----)).).... ( -25.30)
>DroYak_CAF1 86101 74 + 1
UGCCC---GU------UUAUCGUCGCUUUUGUUGUUUUCG-CGCCACGCCAACGC------------------GGCCACAACAAUGGCGGCCAU-----CGCGUUGC
.((.(---((------.....((((((.(((((((..(((-((.........)))------------------))..))))))).))))))...-----.)))..)) ( -25.00)
>DroAna_CAF1 91328 98 + 1
CUCUCAGUGUUUUUAGUUUUUGCUGCCAUUGUUGUUUUUGCCGCCACGCCAACGCGAAACCGUUACGCGCAGUGGCCGCAACAAUGGCGGCCAU-----CGCC----
.....................((((((((((((((....(((((..(((.((((......))))..)))..))))).))))))))))))))...-----....---- ( -37.50)
>consensus
UUCUC___GU______UUUUCGUCGCUUUUGUUGUUUUCG_CGCCACACCAACGCGAAAACGUUACGCGCAAUGGCCACAACAAUGGCGGCCAU_____CGCGUUGC
.....................((((((.(((((((.......((((......((((.........))))...)))).))))))).))))))................ (-18.69 = -19.47 +   0.78)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,569,308 – 17,569,400
Length 92
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 76.69
Mean single sequence MFE -34.95
Consensus MFE -18.92
Energy contribution -19.97
Covariance contribution 1.06
Combinations/Pair 1.14
Mean z-score -3.26
Structure conservation index 0.54
SVM decision value 2.63
SVM RNA-class probability 0.995943
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17569308 92 - 22407834
GCAACGCG-----AUGGCCGCCAUUGUUGUGGCCAUUGCGCGUAACGUUUUCGCGUUGGUGUGGCG-CGAAAACAACAAAAGCGACGAAAA------AC---AAGAA
((..((((-----((((((((.......))))))))))))......(((((((((((.....))))-))))))).......))........------..---..... ( -39.40)
>DroSec_CAF1 85654 92 - 1
GCAACGCG-----AUGGCCGCCAUUGUUGUGGCCAUUGCGCGUAACGUUUUCGCGUUGGUGUGGCG-CGAAAACAACAAAAGCGGCGAAAA------AC---AAGAA
((..((((-----((((((((.......))))))))))))......(((((((((((.....))))-))))))).......))........------..---..... ( -39.40)
>DroSim_CAF1 84756 97 - 1
GCAACGCGAUGCGAUGGCCGCCAUUGUUGUGGCCAUUGCGCGUAACGUUUUCGCGUUGGUGUGGCG-CGAAAACAACAAAAGCGACGAAAA------AC---AAGAA
((...(((.((((((((((((.......)))))))))))))))...(((((((((((.....))))-))))))).......))........------..---..... ( -41.60)
>DroEre_CAF1 84365 74 - 1
GCAACGCG-----AUGGCCGCCAUUGUUGUGGCC------------------GCGUUGGCGUGGCG-CGAAAACAACAAAAGCGACGAAAA------UC---GAGGA
....(.((-----((.(.(((..(((((((.(((------------------(((....)))))).-.....)))))))..))).)....)------))---).).. ( -24.10)
>DroYak_CAF1 86101 74 - 1
GCAACGCG-----AUGGCCGCCAUUGUUGUGGCC------------------GCGUUGGCGUGGCG-CGAAAACAACAAAAGCGACGAUAA------AC---GGGCA
((..((..-----((.(.(((..(((((((.(((------------------(((....)))))).-.....)))))))..))).).))..------.)---).)). ( -25.20)
>DroAna_CAF1 91328 98 - 1
----GGCG-----AUGGCCGCCAUUGUUGCGGCCACUGCGCGUAACGGUUUCGCGUUGGCGUGGCGGCAAAAACAACAAUGGCAGCAAAAACUAAAAACACUGAGAG
----(((.-----...)))((((((((((..(((.(..(((.(((((......))))))))..).))).....))))))))))........................ ( -40.00)
>consensus
GCAACGCG_____AUGGCCGCCAUUGUUGUGGCCAUUGCGCGUAACGUUUUCGCGUUGGCGUGGCG_CGAAAACAACAAAAGCGACGAAAA______AC___AAGAA
.((((((.......(((((((.......)))))))..(((.....)))....)))))).(((.((................)).))).................... (-18.92 = -19.97 +   1.06)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:45 2006