Locus 6573

Sequence ID 3L_DroMel_CAF1
Location 17,412,962 – 17,413,061
Length 99
Max. P 0.578774
window10699 window10700

overview

Window 9

Location 17,412,962 – 17,413,061
Length 99
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 84.39
Mean single sequence MFE -21.80
Consensus MFE -15.61
Energy contribution -16.00
Covariance contribution 0.39
Combinations/Pair 1.08
Mean z-score -2.14
Structure conservation index 0.72
SVM decision value 0.09
SVM RNA-class probability 0.578774
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17412962 99 + 23771897
UGUAGCUGGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUU---C---------UUUUU-CCUGCUCUCUGCCCGCCAC
...(((.((((((....((((((....))))))(((((((.((((.....))))))))))).............---.---------.))))-)).)))............. ( -20.30)
>DroPse_CAF1 20556 111 + 1
UGUAGCAAGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUGCUUUUCUGCUUUAUUUUUCCCCAUUCUGUGCCCAC-UC
...((((((((((....((((((....))))))(((((((.((((.....))))))))))).....)))))))))).................................-.. ( -22.50)
>DroSec_CAF1 20309 102 + 1
UGUAGCUGGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUUUCUU---------UUUUU-CCUGCUCUCUAACCGCCAC
...(((.((((((....((((((....))))))(((((((.((((.....))))))))))).................---------.))))-)).)))............. ( -20.30)
>DroEre_CAF1 21132 99 + 1
UGUAGCUGGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUU---C---------UUUUU-CCUGCUCUCCGCCUGCUUU
.((((.((((((.....((((((....))))))..............((((...((..(((((.....))))).---)---------)....-.)))))))))).))))... ( -25.50)
>DroYak_CAF1 20048 95 + 1
UGUAGCUGGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUU---C---------UUUUU-CCUGCCCUCCGCCUG----
..(((.(((((......((((((....))))))..............((((...((..(((((.....))))).---)---------)....-.)))).))))).)))---- ( -19.70)
>DroPer_CAF1 20448 111 + 1
UGUAGCAAGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUGCUUUUCUGCUUUAUUUUUCCCCAUUCUGUGCCCAC-UC
...((((((((((....((((((....))))))(((((((.((((.....))))))))))).....)))))))))).................................-.. ( -22.50)
>consensus
UGUAGCUGGAGAACCAAUUUCCAACCAUGGAAACUUAAUUUAUGUCUGCAGCAUAGUUGAGAAUAUUUUUCUUU___C_________UUUUU_CCUGCUCUCUGCCCGC_UC
....((.(((((.....((((((....))))))(((((((.((((.....))))))))))).....................................)))))))....... (-15.61 = -16.00 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,412,962 – 17,413,061
Length 99
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 84.39
Mean single sequence MFE -23.93
Consensus MFE -17.76
Energy contribution -17.65
Covariance contribution -0.11
Combinations/Pair 1.22
Mean z-score -1.93
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.575167
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17412962 99 - 23771897
GUGGCGGGCAGAGAGCAGG-AAAAA---------G---AAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCCAGCUACA
(((((.((.((((.((((.-(....---------.---..((((.....))))......).))))............((((((((....))))))))..)))))).))))). ( -26.42)
>DroPse_CAF1 20556 111 - 1
GA-GUGGGCACAGAAUGGGGAAAAAUAAAGCAGAAAAGCAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCUUGCUACA
..-((((.((......((((((.......((((...((..((((.....))))...))...))))............((((((((....))))))))..)))))))))))). ( -23.10)
>DroSec_CAF1 20309 102 - 1
GUGGCGGUUAGAGAGCAGG-AAAAA---------AAGAAAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCCAGCUACA
(((((.....((((((((.-(....---------.((((.(......).))))......).))))............((((((((....))))))))...))))..))))). ( -23.60)
>DroEre_CAF1 21132 99 - 1
AAAGCAGGCGGAGAGCAGG-AAAAA---------G---AAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCCAGCUACA
......((((((((((((.-(....---------.---..((((.....))))......).))))............((((((((....))))))))...))))).)))... ( -24.22)
>DroYak_CAF1 20048 95 - 1
----CAGGCGGAGGGCAGG-AAAAA---------G---AAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCCAGCUACA
----..((((((((((((.-(....---------.---..((((.....))))......).))))............((((((((....))))))))...))))).)))... ( -23.12)
>DroPer_CAF1 20448 111 - 1
GA-GUGGGCACAGAAUGGGGAAAAAUAAAGCAGAAAAGCAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCUUGCUACA
..-((((.((......((((((.......((((...((..((((.....))))...))...))))............((((((((....))))))))..)))))))))))). ( -23.10)
>consensus
GA_GCGGGCAGAGAGCAGG_AAAAA_________A___AAAGAAAAAUAUUCUCAACUAUGCUGCAGACAUAAAUUAAGUUUCCAUGGUUGGAAAUUGGUUCUCCAGCUACA
......((((((((((.........................................(((((....).)))).....((((((((....)))))))).))))))).)))... (-17.76 = -17.65 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:41 2006