Locus 8392

Sequence ID X_DroMel_CAF1
Location 20,826,231 – 20,826,338
Length 107
Max. P 0.909973
window13781 window13782

overview

Window 1

Location 20,826,231 – 20,826,338
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.98
Mean single sequence MFE -24.88
Consensus MFE -16.41
Energy contribution -16.73
Covariance contribution 0.31
Combinations/Pair 1.20
Mean z-score -2.39
Structure conservation index 0.66
SVM decision value 1.07
SVM RNA-class probability 0.909973
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20826231 107 + 22224390
A-AAAUAGAUACGUAUGUAC-----AAUAUACAUACAUAUAUACAACAAAAGGUGCAAAAAUGAGCACAAGAAUUGCAGGGGCCACAAG-------GCAGGUGGCAGAGUGGGCGCAAGA
.-..........(((((((.-----....)))))))................((((........)))).....((((...(.((((...-------((.....))...)))).))))).. ( -23.80)
>DroSec_CAF1 3452 106 + 1
A-AAAUAGAUAUGUAUGUAC-----AAUAU--------AUAUACAAGAAAAGGUGCAAAAACGACCACAAGAAUUGCAGGGGCCACAAGGUGUGGGGCAGGUGGCAGAGUGGGCGUAAGA
.-.........((((((((.-----....)--------)))))))...............(((.((((..(.....)....(((((...((.....))..)))))...)))).))).... ( -22.50)
>DroEre_CAF1 20157 114 + 1
AAAAAUAGAUAUGUAUGUAC-----AAUAUAUAC-UAUAUAUAGAACAAAAGGUGCAAAAACGAGCACAAGAAUUGCAGGGGCCACAAGGUGUGGGGCAGGUGGCAGAGUGGGCACAAGA
....((((.(((((((....-----.))))))))-)))..............((((....((..(((.......)))....(((((...((.....))..)))))...))..)))).... ( -25.30)
>DroYak_CAF1 21535 118 + 1
A-AAAUAGAUAUGUACAUAUGUAUGUAUGUACAA-UAUAUAUACAACAAAAGGUGCAAAAACGAGCACAAGAAUUGCAGGGGCCACAAGGUGUGGGGCAGGUGGCAGAGGGGGCAGAAGA
.-..(((.((((((((((((....)))))))).)-))).)))..........((((........)))).....((((....(((((...((.....))..))))).......)))).... ( -27.90)
>consensus
A_AAAUAGAUAUGUAUGUAC_____AAUAUACA__UAUAUAUACAACAAAAGGUGCAAAAACGAGCACAAGAAUUGCAGGGGCCACAAGGUGUGGGGCAGGUGGCAGAGUGGGCACAAGA
............((((((........))))))....................((((........))))......(((....(((((...((.....))..))))).......)))..... (-16.41 = -16.73 +   0.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,826,231 – 20,826,338
Length 107
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.98
Mean single sequence MFE -20.70
Consensus MFE -12.05
Energy contribution -12.80
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.58
SVM decision value 0.72
SVM RNA-class probability 0.832818
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20826231 107 - 22224390
UCUUGCGCCCACUCUGCCACCUGC-------CUUGUGGCCCCUGCAAUUCUUGUGCUCAUUUUUGCACCUUUUGUUGUAUAUAUGUAUGUAUAUU-----GUACAUACGUAUCUAUUU-U
...............(((((....-------...)))))...((((((....((((........)))).....)))))).((((((((((((...-----))))))))))))......-. ( -26.40)
>DroSec_CAF1 3452 106 - 1
UCUUACGCCCACUCUGCCACCUGCCCCACACCUUGUGGCCCCUGCAAUUCUUGUGGUCGUUUUUGCACCUUUUCUUGUAUAU--------AUAUU-----GUACAUACAUAUCUAUUU-U
....(((.((((..(((.....(((.((.....)).)))....)))......)))).)))...............((((((.--------....)-----))))).............-. ( -16.60)
>DroEre_CAF1 20157 114 - 1
UCUUGUGCCCACUCUGCCACCUGCCCCACACCUUGUGGCCCCUGCAAUUCUUGUGCUCGUUUUUGCACCUUUUGUUCUAUAUAUA-GUAUAUAUU-----GUACAUACAUAUCUAUUUUU
...(((((.......(((((..(........)..)))))....((((.....((((........))))...))))..........-.........-----)))))............... ( -16.80)
>DroYak_CAF1 21535 118 - 1
UCUUCUGCCCCCUCUGCCACCUGCCCCACACCUUGUGGCCCCUGCAAUUCUUGUGCUCGUUUUUGCACCUUUUGUUGUAUAUAUA-UUGUACAUACAUACAUAUGUACAUAUCUAUUU-U
...............(((((..(........)..)))))...((((((....((((........)))).....))))))......-.((((((((......)))))))).........-. ( -23.00)
>consensus
UCUUGCGCCCACUCUGCCACCUGCCCCACACCUUGUGGCCCCUGCAAUUCUUGUGCUCGUUUUUGCACCUUUUGUUGUAUAUAUA__UGUAUAUU_____GUACAUACAUAUCUAUUU_U
...............(((((..(........)..)))))...((((((....((((........)))).....))))))......................................... (-12.05 = -12.80 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:49 2006