Locus 4825

Sequence ID 2L_DroMel_CAF1
Location 13,747,732 – 13,747,851
Length 119
Max. P 0.968935
window7638 window7639

overview

Window 8

Location 13,747,732 – 13,747,851
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.05
Mean single sequence MFE -27.09
Consensus MFE -21.07
Energy contribution -21.79
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -2.47
Structure conservation index 0.78
SVM decision value 1.03
SVM RNA-class probability 0.903951
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13747732 119 + 22407834
CUUAUGUGUUGACUUUAACUGGAGAUUCUUAAAGUAGUACAUCAAAAGGUUGAUUUGCAUGUUGAGAACAACCCUUUAAUGGAUACUACUUAAGGAAGCUUCCAUCAACAAUUU-UUCUU
......((((((.......(((((.(((((.(((((((((((.(((.(((((.(((........))).))))).))).)))..)))))))).)))))..)))))))))))....-..... ( -30.61)
>DroSec_CAF1 11409 119 + 1
UUUA-AUGUUGACUUUGACUGUAGAUUCCUAAAGUAGUACAUCAAACGGUUGAUUUGCAUGUUGAGAACAACCCUUUAAUGGAUACUACUUAAGGAAGCUUCCAUGAACAAUUUUUUCUU
....-.((((.((.......))((.(((((.(((((((((((.(((.(((((.(((........))).))))).))).)))..)))))))).))))).))......)))).......... ( -23.90)
>DroAna_CAF1 23266 104 + 1
AUUU-UAGCCGACUUUAAAUGGAGCUACCUAAAGUAGUACAUCAAACGGUCACUUUGAAU-AUAUUAACGACCCUUUAAUGGAUACUACUUAAGGAAACUGCCAUA--------------
....-.............((((((...(((.(((((((((((.(((.((((...((((..-...)))).)))).))).)))..)))))))).)))...)).)))).-------------- ( -22.80)
>DroSim_CAF1 13126 119 + 1
UUUA-AUGUUGACUUUGACUGUAGAUUCCUAAAGUAGUACAUCAAACGGUUGAUUUGCAUGUUGAGAACAACCCUUUAAUGGAUACUACUUAAGGAAGCUUCCAUGAACAAUUUUUUCUU
....-.((((.((.......))((.(((((.(((((((((((.(((.(((((.(((........))).))))).))).)))..)))))))).))))).))......)))).......... ( -23.90)
>DroEre_CAF1 13197 117 + 1
AUUA-UUGUUGACUUUGACUGGAGAUUCUUAAAGUAGUACAUUAAACGGUCGAUUCA-AUUGUGACCACAACCCUUUAAUGGAUACUACUUAAGGAAGCUUCCAUCAACAACUU-UUCUU
....-..((((...((((.(((((.(((((.(((((((((((((((.(((.(..(((-....)))...).))).)))))))..)))))))).)))))..)))))))))))))..-..... ( -31.50)
>DroYak_CAF1 14003 117 + 1
AUUA-AUGUUGACUUUGACUGGAGAUUCCUAAAGUAGUAAAUCAAAAGGUUGAUCUU-AUUGUGACCACAACCCUUUAAUGGAUACUACUUAAGGAAGCUUCCAUCAAACACUU-UUCCU
....-........(((((.(((((.(((((.((((((((.((.(((.(((((.((..-.....))...))))).))).))...)))))))).)))))..)))))))))).....-..... ( -29.80)
>consensus
AUUA_AUGUUGACUUUGACUGGAGAUUCCUAAAGUAGUACAUCAAACGGUUGAUUUGCAUGUUGAGAACAACCCUUUAAUGGAUACUACUUAAGGAAGCUUCCAUCAACAAUUU_UUCUU
...................(((((.(((((.(((((((((((.(((.(((((................))))).))).)))..)))))))).)))))..)))))................ (-21.07 = -21.79 +   0.72)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,747,732 – 13,747,851
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.05
Mean single sequence MFE -33.18
Consensus MFE -26.69
Energy contribution -27.06
Covariance contribution 0.36
Combinations/Pair 1.13
Mean z-score -4.22
Structure conservation index 0.80
SVM decision value 1.63
SVM RNA-class probability 0.968935
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13747732 119 - 22407834
AAGAA-AAAUUGUUGAUGGAAGCUUCCUUAAGUAGUAUCCAUUAAAGGGUUGUUCUCAACAUGCAAAUCAACCUUUUGAUGUACUACUUUAAGAAUCUCCAGUUAAAGUCAACACAUAAG
.....-....((((((((((.(.(((...((((((((..(((((((((((((................)))))))))))))))))))))...))).))))).......))))))...... ( -32.40)
>DroSec_CAF1 11409 119 - 1
AAGAAAAAAUUGUUCAUGGAAGCUUCCUUAAGUAGUAUCCAUUAAAGGGUUGUUCUCAACAUGCAAAUCAACCGUUUGAUGUACUACUUUAGGAAUCUACAGUCAAAGUCAACAU-UAAA
..((....(((((....(((...(((((.((((((((..(((((((.(((((................))))).))))))))))))))).))))))))))))).....)).....-.... ( -30.09)
>DroAna_CAF1 23266 104 - 1
--------------UAUGGCAGUUUCCUUAAGUAGUAUCCAUUAAAGGGUCGUUAAUAU-AUUCAAAGUGACCGUUUGAUGUACUACUUUAGGUAGCUCCAUUUAAAGUCGGCUA-AAAU
--------------.((((.((((.(((.((((((((..(((((((.(((((.......-........))))).))))))))))))))).))).)))))))).............-.... ( -32.46)
>DroSim_CAF1 13126 119 - 1
AAGAAAAAAUUGUUCAUGGAAGCUUCCUUAAGUAGUAUCCAUUAAAGGGUUGUUCUCAACAUGCAAAUCAACCGUUUGAUGUACUACUUUAGGAAUCUACAGUCAAAGUCAACAU-UAAA
..((....(((((....(((...(((((.((((((((..(((((((.(((((................))))).))))))))))))))).))))))))))))).....)).....-.... ( -30.09)
>DroEre_CAF1 13197 117 - 1
AAGAA-AAGUUGUUGAUGGAAGCUUCCUUAAGUAGUAUCCAUUAAAGGGUUGUGGUCACAAU-UGAAUCGACCGUUUAAUGUACUACUUUAAGAAUCUCCAGUCAAAGUCAACAA-UAAU
.....-..((((((((((((.(.(((...((((((((..(((((((.(((((...(((....-)))..))))).)))))))))))))))...))).))))).......)))))))-)... ( -36.31)
>DroYak_CAF1 14003 117 - 1
AGGAA-AAGUGUUUGAUGGAAGCUUCCUUAAGUAGUAUCCAUUAAAGGGUUGUGGUCACAAU-AAGAUCAACCUUUUGAUUUACUACUUUAGGAAUCUCCAGUCAAAGUCAACAU-UAAU
.....-.(((((((((((((.(.(((((.((((((((...((((((((((..(((((.....-..))))))))))))))).)))))))).))))).))))).))).....)))))-)... ( -37.70)
>consensus
AAGAA_AAAUUGUUGAUGGAAGCUUCCUUAAGUAGUAUCCAUUAAAGGGUUGUUCUCAACAUGCAAAUCAACCGUUUGAUGUACUACUUUAGGAAUCUCCAGUCAAAGUCAACAU_UAAU
................(((.((.(((((.((((((((..(((((((.(((((................))))).))))))))))))))).))))).)))))................... (-26.69 = -27.06 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:24 2006