Locus 6838

Sequence ID 3L_DroMel_CAF1
Location 18,346,046 – 18,346,149
Length 103
Max. P 0.657927
window11091 window11092

overview

Window 1

Location 18,346,046 – 18,346,149
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.59
Mean single sequence MFE -26.27
Consensus MFE -14.09
Energy contribution -14.57
Covariance contribution 0.47
Combinations/Pair 1.11
Mean z-score -2.19
Structure conservation index 0.54
SVM decision value 0.26
SVM RNA-class probability 0.657927
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18346046 103 + 23771897
CGGCUGUGGCCACUUUUAUGCCGUCCCGUUAGUGGUCAUUCCUCUUUUUUU---UUUUGCACUGACCCUUUUCGC--------------AACGUACCCCUUCUGGCCAUAUAAAUUAUAU
....((((((((.........(((..((..((.(((((.............---........)))))))...)).--------------.))).........)))))))).......... ( -21.57)
>DroPse_CAF1 156235 116 + 1
UGCUUGUGGCCACUUUUAUGCCGUCCCGUUAGUGGUCAUUCAUUCCU--CUC--GCUGCCGCUGACCCUUUUGCGGGCCCGAGCCCGAGCCCGAACCCUUUCCGGGCAUAUAAAUUAUAU
.(((((.((((.......(((......(((((((((...........--...--...)))))))))......))))))))))))....(((((.........)))))............. ( -34.14)
>DroSec_CAF1 130415 99 + 1
UGGCUGUGGCCACUUUUAUGCCGUCCCGUUAGUGGUCAUUCCUCUUU-------UUUUGCACUGACCCUUUUCCG--------------AACGUACCCCUUCUGGCCAUAUAAAUUAUAU
....((((((((.........(((.(.(..((.(((((.........-------........)))))))...).)--------------.))).........)))))))).......... ( -19.30)
>DroEre_CAF1 125933 98 + 1
UGGCUGUGGCCACUUUUAUGCCGUCCCGUUAGUGGUCAUUCCUCCU--------UUUUGCACUGACCCUUUGCGG--------------AACGUACCCCUUCUGGCCAUAUAAAUUAUAU
....((((((((.........(((.((((.((.(((((...(....--------....)...)))))))..))))--------------.))).........)))))))).......... ( -27.27)
>DroYak_CAF1 136805 100 + 1
UGGCUGUGGCCACUUUUAUGCCGUCCCGUUAGUGGUCAUUCCUUUUU---U---UUUUGCACUGACCCCUUUCGG--------------AACGUACCCCUUCUGGCCAUAUAAAUUAUAU
....((((((((.........(((.(((..((.(((((.........---.---........))))).))..)))--------------.))).........)))))))).......... ( -26.64)
>DroAna_CAF1 126641 106 + 1
UGGCUGUGGCCACUUUUAUAUUGUCCCGUUAGUGGUCAUUCCUUGUUUUUUCGCUUUGGCGUUGACCCUUUUGGG--------------AAGAAACCCUUUCUGGGCACAUAAUUUAUAU
....((((.((............(((((..((.(((((..((..((......))...))...)))))))..))))--------------)((((.....)))))).)))).......... ( -28.70)
>consensus
UGGCUGUGGCCACUUUUAUGCCGUCCCGUUAGUGGUCAUUCCUCUUU___U___UUUUGCACUGACCCUUUUCGG______________AACGUACCCCUUCUGGCCAUAUAAAUUAUAU
.(((((((((((((...(((......))).)))))))))..........................((......))............................))))............. (-14.09 = -14.57 +   0.47)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,346,046 – 18,346,149
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.59
Mean single sequence MFE -28.23
Consensus MFE -13.52
Energy contribution -13.66
Covariance contribution 0.14
Combinations/Pair 1.22
Mean z-score -2.27
Structure conservation index 0.48
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18346046 103 - 23771897
AUAUAAUUUAUAUGGCCAGAAGGGGUACGUU--------------GCGAAAAGGGUCAGUGCAAAA---AAAAAAAGAGGAAUGACCACUAACGGGACGGCAUAAAAGUGGCCACAGCCG
............((((((......((.((((--------------.((...(((((((.(.(....---.........).).))))).))..)).)))))).......))))))...... ( -23.74)
>DroPse_CAF1 156235 116 - 1
AUAUAAUUUAUAUGCCCGGAAAGGGUUCGGGCUCGGGCUCGGGCCCGCAAAAGGGUCAGCGGCAGC--GAG--AGGAAUGAAUGACCACUAACGGGACGGCAUAAAAGUGGCCACAAGCA
..............((((....((((((((((....)))))))))).....(((((((....((.(--...--.)...))..))))).))..))))..(((.........)))....... ( -38.80)
>DroSec_CAF1 130415 99 - 1
AUAUAAUUUAUAUGGCCAGAAGGGGUACGUU--------------CGGAAAAGGGUCAGUGCAAAA-------AAAGAGGAAUGACCACUAACGGGACGGCAUAAAAGUGGCCACAGCCA
............((((((......((.((((--------------(.(...(((((((.(.(....-------.....).).))))).))..).))))))).......))))))...... ( -23.62)
>DroEre_CAF1 125933 98 - 1
AUAUAAUUUAUAUGGCCAGAAGGGGUACGUU--------------CCGCAAAGGGUCAGUGCAAAA--------AGGAGGAAUGACCACUAACGGGACGGCAUAAAAGUGGCCACAGCCA
............((((((......((.((((--------------(((...(((((((.(.(....--------....).).))))).))..))))))))).......))))))...... ( -28.72)
>DroYak_CAF1 136805 100 - 1
AUAUAAUUUAUAUGGCCAGAAGGGGUACGUU--------------CCGAAAGGGGUCAGUGCAAAA---A---AAAAAGGAAUGACCACUAACGGGACGGCAUAAAAGUGGCCACAGCCA
............((((((......((.((((--------------(((..((.(((((.(.(....---.---.....).).))))).))..))))))))).......))))))...... ( -28.82)
>DroAna_CAF1 126641 106 - 1
AUAUAAAUUAUGUGCCCAGAAAGGGUUUCUU--------------CCCAAAAGGGUCAACGCCAAAGCGAAAAAACAAGGAAUGACCACUAACGGGACAAUAUAAAAGUGGCCACAGCCA
.......((((((.(((.....(((......--------------)))...(((((((...((...............))..))))).))...)))...))))))...((((....)))) ( -25.66)
>consensus
AUAUAAUUUAUAUGGCCAGAAGGGGUACGUU______________CCGAAAAGGGUCAGUGCAAAA___A___AAAAAGGAAUGACCACUAACGGGACGGCAUAAAAGUGGCCACAGCCA
............((((((......((.((((......................(((((........................))))).(....).)))))).......))))))...... (-13.52 = -13.66 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:00 2006