Locus 7243

Sequence ID 3L_DroMel_CAF1
Location 19,397,451 – 19,397,547
Length 96
Max. P 0.789974
window11771 window11772

overview

Window 1

Location 19,397,451 – 19,397,547
Length 96
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.26
Mean single sequence MFE -27.05
Consensus MFE -14.69
Energy contribution -14.58
Covariance contribution -0.11
Combinations/Pair 1.17
Mean z-score -2.72
Structure conservation index 0.54
SVM decision value 0.34
SVM RNA-class probability 0.695110
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19397451 96 + 23771897
AAAGCAGUUUUUUCCAG---GAAAAGUGGAGCUCCACACGCAGCCGAAGACAGCGAGCAAAUGUGGAGCAGUA-CAAUAGAAAACCUCGCGCACAGAAAA
...((.((((((((((.---......))))((((((((.((.((........))..))...))))))))....-.....))))))...)).......... ( -24.00)
>DroSec_CAF1 36679 96 + 1
AAAGCAGCUUUUUCCAG---GAAAACUGGAGCUCCACACGCAGCCAAAGACAGCGAGCAAAUGUGGAGCAGUA-CAAUAGAAAACCUCUCGCACAGAUAA
...((.......(((((---.....)))))((((((((.((.((........))..))...))))))))....-................))........ ( -27.20)
>DroSim_CAF1 36527 96 + 1
AAAGCAGGUUUUUCCAA---GAAAACUGGAGCUCCACACUCAGCCAAAGACAGCGAGCAAAUGUGGAGCAGUA-CAAUAGAAAACCUCGCGCACAGAAAA
...(((((((((((((.---......))))(((((((((((.((........)))))....))))))))....-......))))))).)).......... ( -29.50)
>DroEre_CAF1 31541 95 + 1
UAAGGACCUCUUUCCAG---GAAGUAAUGAGCUCCACACGCUGCCAAAGACAGCGAGCAAAUGUGGAGCAGUA-CAAUAGAA-ACCUCGCGCACAGAAAA
..(((.(((......))---)..(((....(((((((((((((.......)))))......))))))))..))-).......-.)))............. ( -24.70)
>DroYak_CAF1 62022 96 + 1
UGAGGACCUCUUUCCAG---GAAGAAUUGAGCUCCACACGCUGCCAAAGACAGCAAGCAAAUGUGGAGCAGUA-CAAUAGAAAACCUCGCGCACAGAAAA
.((((...(((((....---))))).....((((((((.(((((........)).)))...))))))))....-..........))))............ ( -28.40)
>DroAna_CAF1 34477 99 + 1
UAAGCAGUCCUUCCCCAACUGAAAAG-UGAGCUCUACGCGCUGCCAGAGACAGCGGGCGAAUGUGGAGCAGCAAUAAAAAAAAGUGUCAGGCUGAGGAAA
.......(((((..((.(((....))-)..(((((((.((((((........)).))))...)))))))....................))..))))).. ( -28.50)
>consensus
AAAGCAGCUCUUUCCAG___GAAAAAUGGAGCUCCACACGCAGCCAAAGACAGCGAGCAAAUGUGGAGCAGUA_CAAUAGAAAACCUCGCGCACAGAAAA
..............................((((((((.((.((........))..))...))))))))............................... (-14.69 = -14.58 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,397,451 – 19,397,547
Length 96
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 82.26
Mean single sequence MFE -29.94
Consensus MFE -19.44
Energy contribution -19.33
Covariance contribution -0.11
Combinations/Pair 1.17
Mean z-score -2.46
Structure conservation index 0.65
SVM decision value 0.58
SVM RNA-class probability 0.789974
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19397451 96 - 23771897
UUUUCUGUGCGCGAGGUUUUCUAUUG-UACUGCUCCACAUUUGCUCGCUGUCUUCGGCUGCGUGUGGAGCUCCACUUUUC---CUGGAAAAAACUGCUUU
(((((((((((..((.....))..))-))).(((((((((..((..((((....)))).)))))))))))..........---..))))))......... ( -28.30)
>DroSec_CAF1 36679 96 - 1
UUAUCUGUGCGAGAGGUUUUCUAUUG-UACUGCUCCACAUUUGCUCGCUGUCUUUGGCUGCGUGUGGAGCUCCAGUUUUC---CUGGAAAAAGCUGCUUU
......((((((.((.....)).)))-))).(((((((((..((..(((......))).)))))))))))(((((.....---)))))............ ( -30.70)
>DroSim_CAF1 36527 96 - 1
UUUUCUGUGCGCGAGGUUUUCUAUUG-UACUGCUCCACAUUUGCUCGCUGUCUUUGGCUGAGUGUGGAGCUCCAGUUUUC---UUGGAAAAACCUGCUUU
..........((.(((((((......-....(((((((....(((((((......))).)))))))))))(((((.....---))))))))))))))... ( -31.30)
>DroEre_CAF1 31541 95 - 1
UUUUCUGUGCGCGAGGU-UUCUAUUG-UACUGCUCCACAUUUGCUCGCUGUCUUUGGCAGCGUGUGGAGCUCAUUACUUC---CUGGAAAGAGGUCCUUA
.(((((.(.((.(((((-......((-....((((((((......((((((.....)))))))))))))).))..)))))---.)).).)))))...... ( -30.00)
>DroYak_CAF1 62022 96 - 1
UUUUCUGUGCGCGAGGUUUUCUAUUG-UACUGCUCCACAUUUGCUUGCUGUCUUUGGCAGCGUGUGGAGCUCAAUUCUUC---CUGGAAAGAGGUCCUCA
............((((.(((((.(((-....(((((((((..(((.(((......))))))))))))))).)))((((..---..))))))))).)))). ( -33.20)
>DroAna_CAF1 34477 99 - 1
UUUCCUCAGCCUGACACUUUUUUUUAUUGCUGCUCCACAUUCGCCCGCUGUCUCUGGCAGCGCGUAGAGCUCA-CUUUUCAGUUGGGGAAGGACUGCUUA
((((((((((.(((.................((((......(((..(((((.....))))))))..))))...-....)))))))))))))......... ( -26.15)
>consensus
UUUUCUGUGCGCGAGGUUUUCUAUUG_UACUGCUCCACAUUUGCUCGCUGUCUUUGGCAGCGUGUGGAGCUCAACUUUUC___CUGGAAAAAGCUGCUUA
(((((((..(....)................(((((((((..((..((((....)))).)))))))))))..............)))))))......... (-19.44 = -19.33 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:55 2006