Locus 2763

Sequence ID 2L_DroMel_CAF1
Location 7,790,660 – 7,790,753
Length 93
Max. P 0.999728
window4392 window4393

overview

Window 2

Location 7,790,660 – 7,790,753
Length 93
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 66.76
Mean single sequence MFE -28.90
Consensus MFE -15.67
Energy contribution -16.00
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.54
SVM decision value 0.68
SVM RNA-class probability 0.821087
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7790660 93 + 22407834
UCAUGCUCAUUUGGCGGUUUUUUGGAAUUGAUCCGGGUUUCCCCAGUCCC------CUCCGCCGGAUGUUCUCUUCAC---------------GAACUAUGAAUUUUCCAUGUU----
(((((...(((((((((......(((.....)))(((....)))......------..)))))))))((((.......---------------)))))))))............---- ( -24.00)
>DroSim_CAF1 3549 115 + 1
UCAUGCUCAUUUGGCGGUUUUU-CGAAUUGAUCCGGGUUUUCCCAGUCCCCGUCCACUCCGCCGGAUGUUCUGUUCACCAACUAUAUUUUGGAGGGCUAUGACUUUUCCUGCUUUG--
(((((((((((((((((.....-((....(((..(((....))).)))..))......)))))))))..........((((.......)))).)))).))))..............-- ( -29.10)
>DroYak_CAF1 3628 111 + 1
UGAUGCACACUUGGCGGUUAUU-CGGUCUGAUCCGGGUUUUACCAGGCCCC-----CACCGCCGGAUGUUCUAAGCAUCAACUACUUUUUGGUGAGCUUGGGUUUUUCAUUA-AUAUC
(((((.(((..(((((((....-.((......))(((((......))))).-----.)))))))..)))(((((((.(((.(((.....))))))))))))).....)))))-..... ( -33.60)
>consensus
UCAUGCUCAUUUGGCGGUUUUU_CGAAUUGAUCCGGGUUUUCCCAGUCCCC_____CUCCGCCGGAUGUUCUAUUCACCAACUA__UUUUGG_GAGCUAUGAAUUUUCCUUAUUU___
.......((((((((((.......(........)(((..........)))........)))))))))).................................................. (-15.67 = -16.00 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 7,790,660 – 7,790,753
Length 93
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 66.76
Mean single sequence MFE -29.28
Consensus MFE -18.14
Energy contribution -18.37
Covariance contribution 0.23
Combinations/Pair 1.12
Mean z-score -2.09
Structure conservation index 0.62
SVM decision value 3.96
SVM RNA-class probability 0.999728
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7790660 93 - 22407834
----AACAUGGAAAAUUCAUAGUUC---------------GUGAAGAGAACAUCCGGCGGAG------GGGACUGGGGAAACCCGGAUCAAUUCCAAAAAACCGCCAAAUGAGCAUGA
----..((((.....(((((.((((---------------.......))))....(((((((------....))(((....)))(((.....)))......)))))..))))))))). ( -33.00)
>DroSim_CAF1 3549 115 - 1
--CAAAGCAGGAAAAGUCAUAGCCCUCCAAAAUAUAGUUGGUGAACAGAACAUCCGGCGGAGUGGACGGGGACUGGGAAAACCCGGAUCAAUUCG-AAAAACCGCCAAAUGAGCAUGA
--....((.(((....((........((((.......))))......))...)))(((((..((((..((..(((((....))))).))..))))-.....)))))......)).... ( -26.94)
>DroYak_CAF1 3628 111 - 1
GAUAU-UAAUGAAAAACCCAAGCUCACCAAAAAGUAGUUGAUGCUUAGAACAUCCGGCGGUG-----GGGGCCUGGUAAAACCCGGAUCAGACCG-AAUAACCGCCAAGUGUGCAUCA
.....-..............((((.((......))))))(((((.....((((..(((((((-----(.(..((((......))))..)...)).-....))))))..))))))))). ( -27.90)
>consensus
___AAACAAGGAAAAAUCAUAGCUC_CCAAAA__UAGUUGGUGAACAGAACAUCCGGCGGAG_____GGGGACUGGGAAAACCCGGAUCAAUUCG_AAAAACCGCCAAAUGAGCAUGA
.....................((................((((.......)))).(((((.........(..(((((....)))))..)............)))))......)).... (-18.14 = -18.37 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:38 2006