Locus 1606

Sequence ID X_DroMel_CAF1
Location 4,602,579 – 4,602,681
Length 102
Max. P 0.986825
window2629 window2630

overview

Window 9

Location 4,602,579 – 4,602,681
Length 102
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 71.13
Mean single sequence MFE -25.73
Consensus MFE -13.29
Energy contribution -15.98
Covariance contribution 2.69
Combinations/Pair 1.11
Mean z-score -2.07
Structure conservation index 0.52
SVM decision value 1.20
SVM RNA-class probability 0.929092
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4602579 102 + 22224390
UACUUGUAUAUAUAUA-UUGUUGCAGGCAACUGUAGCUUAAUCCCGAAACUUCAUGUCCAGGGUGCUCAUG-UUGGGCUUGCAUCUUCCAGAUGCAAAGAUACU
.....((((.......-..(((((((....)))))))..................((((((.((....)).-))))))(((((((.....)))))))..)))). ( -29.80)
>DroSec_CAF1 27543 97 + 1
-----AUAUCCAUCCU-UUGUUGCAGGCAGCUGUAGCUUAAUCCCGUAACUUCAUGUCCAGGGUGCUCAUG-UUGGGCUUGCAUCUUUCGGAUGCAAAGAUACU
-----.(((((((((.-..(.(((((((.((((.(((.....(((...((.....))...))).))))).)-)...))))))).)....)))))....)))).. ( -26.80)
>DroEre_CAF1 30528 88 + 1
UGCCUAAAUAUAUAUUUUUUUUUCAGGCAGCUAUAGCUUUUUCCCGAAACUUCAUG----------------UUGGACUUGCAUCUUUCAGAUGCGAGGAUACA
((((((((............))).)))))((....))....(((...(((.....)----------------)))))((((((((.....))))))))...... ( -19.20)
>DroYak_CAF1 29032 88 + 1
--------CAUAUA--------UCAGGCAGCUGUAGCUUAAGCCCGAAACAUCAUGCCCAGUGUGCCCAAGCUUGGGCUUGCAUCUUCCAGAUGCAAAGAUACU
--------......--------((.((((((....)))...))).))...(((..((((((.((......))))))))(((((((.....))))))).)))... ( -27.10)
>consensus
_____AUAUAUAUAUU_UUGUUGCAGGCAGCUGUAGCUUAAUCCCGAAACUUCAUGUCCAGGGUGCUCAUG_UUGGGCUUGCAUCUUCCAGAUGCAAAGAUACU
...................(((((((....)))))))...........................(((((....)))))(((((((.....)))))))....... (-13.29 = -15.98 +   2.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 4,602,579 – 4,602,681
Length 102
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 71.13
Mean single sequence MFE -25.30
Consensus MFE -16.70
Energy contribution -18.07
Covariance contribution 1.37
Combinations/Pair 1.11
Mean z-score -1.91
Structure conservation index 0.66
SVM decision value 2.06
SVM RNA-class probability 0.986825
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4602579 102 - 22224390
AGUAUCUUUGCAUCUGGAAGAUGCAAGCCCAA-CAUGAGCACCCUGGACAUGAAGUUUCGGGAUUAAGCUACAGUUGCCUGCAACAA-UAUAUAUAUACAAGUA
.((((..(((((((.....)))))))((.(((-(.(((((.(((..(((.....)))..))).....))).))))))...)).....-.......))))..... ( -24.30)
>DroSec_CAF1 27543 97 - 1
AGUAUCUUUGCAUCCGAAAGAUGCAAGCCCAA-CAUGAGCACCCUGGACAUGAAGUUACGGGAUUAAGCUACAGCUGCCUGCAACAA-AGGAUGGAUAU-----
.((((((((((((.(....)))))))..((..-((((..(.....)..))))..(((.((((....(((....))).)))).)))..-.))..))))))----- ( -26.10)
>DroEre_CAF1 30528 88 - 1
UGUAUCCUCGCAUCUGAAAGAUGCAAGUCCAA----------------CAUGAAGUUUCGGGAAAAAGCUAUAGCUGCCUGAAAAAAAAAUAUAUAUUUAGGCA
.....(((.(((((.....)))))........----------------.......(((((((....(((....))).)))))))...............))).. ( -19.50)
>DroYak_CAF1 29032 88 - 1
AGUAUCUUUGCAUCUGGAAGAUGCAAGCCCAAGCUUGGGCACACUGGGCAUGAUGUUUCGGGCUUAAGCUACAGCUGCCUGA--------UAUAUG--------
.......(((((((.....)))))))(((((.((....))....)))))...((((.((((((...(((....)))))))))--------.)))).-------- ( -31.30)
>consensus
AGUAUCUUUGCAUCUGAAAGAUGCAAGCCCAA_CAUGAGCACCCUGGACAUGAAGUUUCGGGAUUAAGCUACAGCUGCCUGAAACAA_AAUAUAUAUAU_____
......((((((((.....))))))))...........................((((((((....(((....))).))))))))................... (-16.70 = -18.07 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:32 2006