Locus 2906

Sequence ID 3L_DroMel_CAF1
Location 8,291,845 – 8,291,980
Length 135
Max. P 0.919094
window4536 window4537

overview

Window 6

Location 8,291,845 – 8,291,940
Length 95
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.71
Mean single sequence MFE -27.78
Consensus MFE -19.20
Energy contribution -19.24
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.59
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.526185
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8291845 95 - 23771897
UGGCC---------------ACGUAAUUAGUCGCCUCGUAUGGCGGCAAA----------CAAUUGCAAACAGUUGGCAAACAAUGUUUGAAUGUUCUCCAAAACAGCAGCGGUGCGCAA
..(((---------------((((((((.((((((......))))))...----------.)))))).....((((.(((((...)))))..((((......)))).)))).))).)).. ( -26.40)
>DroSec_CAF1 17785 94 - 1
UGGCC---------------ACGUAAUUAGUCGCCUCGUUUGGCGGCAAA----------CAAUUGCAAGCAGUUGGCAAACAAUGUUUGAAUGUUCUCCAA-ACUGUGGCAGCGCGCAA
..(((---------------((((.....((((((......))))))...----------((((((....)))))))).......(((((.........)))-)).)))))......... ( -30.00)
>DroSim_CAF1 13307 94 - 1
UGGCC---------------ACGUAAUUAGUCGCCUCGUUUGGCGGCAAA----------CAAUUGCAAACAGUUGGCAAACAAUGUUUGAAUGUUCUCCAA-ACUGUGGCACCGCGCAA
..(((---------------((.......((((((......)))))).((----------((....((((((.(((.....)))))))))..))))......-...)))))......... ( -29.20)
>DroEre_CAF1 13671 106 - 1
UAGCUAGCUACCCGAUCGUCACGUAAUUAGACGCCUCGUAUGGCGGCAAA----------CAAUUGCAAACAGUUGGCAAACAAUGUUUGAAUGUUCUCUAA-ACUG---CCGCGCGCAA
..((..((((..(((.((((.........))))..)))..))))((((((----------((....((((((.(((.....)))))))))..))))......-..))---))))...... ( -26.90)
>DroYak_CAF1 13203 101 - 1
UAGCU---------------ACGUAAUUAGUCGCCUCGUAUGGCGGCAAACAAUCGCAAACAAUUGCAAACAGUUGGCAAACAAUGUUUGAAUGUUCUCCAA-ACUG---CGGCCCGCAA
..((.---------------.((((....((((((......)))))).((((.((((((....))))(((((.(((.....)))))))))).))))......-..))---))....)).. ( -26.40)
>consensus
UGGCC_______________ACGUAAUUAGUCGCCUCGUAUGGCGGCAAA__________CAAUUGCAAACAGUUGGCAAACAAUGUUUGAAUGUUCUCCAA_ACUG__GCAGCGCGCAA
..((.........................((((((......))))))...................((((((.(((.....)))))))))..........................)).. (-19.20 = -19.24 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,291,885 – 8,291,980
Length 95
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.30
Mean single sequence MFE -23.74
Consensus MFE -20.76
Energy contribution -20.82
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.87
SVM decision value 1.13
SVM RNA-class probability 0.919094
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8291885 95 - 23771897
GGAUAUACAUACAUAUAUCAAACGGCACGAUUAUACAAUAUGGCC---------------ACGUAAUUAGUCGCCUCGUAUGGCGGCAAA----------CAAUUGCAAACAGUUGGCAA
.((((((......))))))....(((...(((....)))...)))---------------..((.....((((((......))))))...----------((((((....)))))))).. ( -25.00)
>DroSec_CAF1 17824 95 - 1
GGAUAUACAUACAUAUAUCAAACGGCACGAUUAUACAAUAUGGCC---------------ACGUAAUUAGUCGCCUCGUUUGGCGGCAAA----------CAAUUGCAAGCAGUUGGCAA
.((((((......))))))....(((...(((....)))...)))---------------..((.....((((((......))))))...----------((((((....)))))))).. ( -26.30)
>DroSim_CAF1 13346 95 - 1
GGAUAUACAUACAUAUAUCAAACGGCACGAUUAUACAAUAUGGCC---------------ACGUAAUUAGUCGCCUCGUUUGGCGGCAAA----------CAAUUGCAAACAGUUGGCAA
.((((((......))))))....(((...(((....)))...)))---------------..((.....((((((......))))))...----------((((((....)))))))).. ( -25.00)
>DroEre_CAF1 13707 102 - 1
GGAUAU--------AUAUCAAACGGCACGAUUAUACAAUAUAGCUAGCUACCCGAUCGUCACGUAAUUAGACGCCUCGUAUGGCGGCAAA----------CAAUUGCAAACAGUUGGCAA
.(((..--------..))).....((................(((.((((..(((.((((.........))))..)))..)))))))...----------((((((....)))))))).. ( -21.50)
>DroYak_CAF1 13239 97 - 1
GGAUAU--------AUAUCAAACGGCACGAUUAUACAAUAUAGCU---------------ACGUAAUUAGUCGCCUCGUAUGGCGGCAAACAAUCGCAAACAAUUGCAAACAGUUGGCAA
.(((..--------..))).....((.(((((.(((.........---------------..)))....((((((......))))))....)))))....((((((....)))))))).. ( -20.90)
>consensus
GGAUAUACAUACAUAUAUCAAACGGCACGAUUAUACAAUAUGGCC_______________ACGUAAUUAGUCGCCUCGUAUGGCGGCAAA__________CAAUUGCAAACAGUUGGCAA
.((((((......))))))....(((...(((....)))...))).................((.....((((((......)))))).............((((((....)))))))).. (-20.76 = -20.82 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:41 2006