Locus 7442

Sequence ID X_DroMel_CAF1
Location 18,582,633 – 18,582,849
Length 216
Max. P 0.813149
window12205 window12206

overview

Window 5

Location 18,582,633 – 18,582,741
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.70
Mean single sequence MFE -26.58
Consensus MFE -18.26
Energy contribution -18.89
Covariance contribution 0.63
Combinations/Pair 1.13
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value 0.15
SVM RNA-class probability 0.606519
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18582633 108 - 22224390
AAAAAAAAAAAAGGAUAAACCGGCAGCACUUGCGAGCUUCCUUCUGAGCUUUGUUGUCGUUGAAGUGCCAUGUCCCUU-CGUA-UAUCCAUGCCCCAGC----------CCACCACCACC
............(((((.((((((((((.....((((((......))))))))))))))..((((.(......).)))-))).-)))))..........----------........... ( -23.10)
>DroSec_CAF1 47459 107 - 1
AA--AAAAAAAUGGAUAAACCGGCAGCACUUGCGAGCUUCCUUCUGAGCUUUGUUGUCGUUUAAGUGCCAUGUCCCUU-CAUGGCAUACAUGGCCCAAC----------CCACCACCACC
..--.......(((.(((((.(((((((.....((((((......)))))))))))))))))).((((((((......-))))))))...(((......----------))))))..... ( -31.00)
>DroSim_CAF1 45232 109 - 1
AAAAAAAAAAAUGGAUAAACCGGCAGCACUUGCGAGCUUCCUUCUGAGCUUUGUUGUCGUUGAAGUGCCAUGUCCCUU-CAUGGCAUACAUGGCCCAAC----------CCACCACCACC
...........(((......((((((((.....((((((......)))))))))))))).....((((((((......-))))))))...(((......----------))))))..... ( -29.80)
>DroYak_CAF1 39443 110 - 1
----AACGAAAAGGAUAAACUGGCAGCACUUGCGAGAGUCCUUCUGAGCUCGGUUGUCGCUCAAGUGGCAUGCCCCAUUCC------UCAUUCCCCAACCCAACAACACCCACCACCACC
----...(((.((((......(((((((((((((((((..(....)..))).....))))..)))).)).))))....)))------)..)))........................... ( -22.40)
>consensus
AA__AAAAAAAAGGAUAAACCGGCAGCACUUGCGAGCUUCCUUCUGAGCUUUGUUGUCGUUGAAGUGCCAUGUCCCUU_CAUG_CAUACAUGCCCCAAC__________CCACCACCACC
............((......((((((((.....((((((......)))))))))))))).....(.((((((................)))))).)................))...... (-18.26 = -18.89 +   0.63)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 18,582,741 – 18,582,849
Length 108
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 86.41
Mean single sequence MFE -23.80
Consensus MFE -17.14
Energy contribution -17.07
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.99
Structure conservation index 0.72
SVM decision value 0.65
SVM RNA-class probability 0.813149
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18582741 108 - 22224390
CAAAGAUUGCUAGAAAUCGGAUGAUAAAUUUCUGCCGAAAAUUUGCAAAACACUAAGGAAUUUUGGGAAUUUAUCGGCGAGAUGCAGGGCAAGCUAUACAAAAAAAAA
...((.(((((....((((((........)))((((((((((((.(((((..(....)..))))).)))))).)))))).)))....))))).))............. ( -24.70)
>DroSec_CAF1 47566 103 - 1
CAAAGAUUGCUAGAAAUCGGAUGAUAAAUUUCUGCCGAAAAUUGGCAAAGCACUAAGGAAUUUUUGGAAUUUAUCGGCGAGAUGCAGGGCAAGCUAUCAA-----AAA
...((.(((((....(((...(((((((((((((((((...)))))).....(....).......)))))))))))....)))....))))).)).....-----... ( -23.70)
>DroSim_CAF1 45341 103 - 1
CAAAGAUUGCUAGAAAUCGGAUGAUAAAUUUCUGCCGAAAAUUUGCAAAGCACUAAGGAAUUUUUGGAAUUUAUCAGCGAGAUGCAGGGCAAGCUAUCAA-----AAA
...((.(((((....(((...(((((((((....((((((((((.............)))))))))))))))))))....)))....))))).)).....-----... ( -22.92)
>DroYak_CAF1 39553 96 - 1
CAAAGAUUCCCAGAAAUCGGAUGAUAAAUUUCUGUCGACAAUUUGCAAAGCACUUUGGAGUUUCGGGAAUUUAUCGAAGAGAGGCAGGGCAAGCUA------------
...((.(((((.(...((...(((((((((((((.(..(((..(((...)))..)))..)...)))))))))))))....))..).))).)).)).------------ ( -23.90)
>consensus
CAAAGAUUGCUAGAAAUCGGAUGAUAAAUUUCUGCCGAAAAUUUGCAAAGCACUAAGGAAUUUUGGGAAUUUAUCGGCGAGAUGCAGGGCAAGCUAUCAA_____AAA
...((.(((((....(((...((((((((((((((.........))).....(....).......)))))))))))....)))....))))).))............. (-17.14 = -17.07 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:02 2006