Locus 4353

Sequence ID X_DroMel_CAF1
Location 11,452,675 – 11,452,782
Length 107
Max. P 0.902032
window7151 window7152

overview

Window 1

Location 11,452,675 – 11,452,782
Length 107
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 95.53
Mean single sequence MFE -37.70
Consensus MFE -34.18
Energy contribution -35.18
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.91
SVM decision value 1.02
SVM RNA-class probability 0.902032
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11452675 107 + 22224390
GCGUGGUGGCCAAUGCGGCUGUGCUGCAAUAACCCUCAAGUUGCAUACGGACUUGGAGUCCAUGCAACUGGUCAUCA-CUCGUCAGCUGGCUCGCCCUAUGUUAAUUG
(((((((((((..((((((...))))))..........((((((((..((((.....))))))))))))))))))))-)..(((....)))..))............. ( -40.90)
>DroSec_CAF1 6606 107 + 1
GCGUGGUGGCCAAUGCGGCUGUGCUGCAAUAACCCUCAAGUUGCAUACGGACUUGGAGUCCAUGCAACUGGUCAUCA-CUCGUCAGCCGGCUCGCCCUAUGUUAAUUG
(((((((((((..((((((...))))))..........((((((((..((((.....))))))))))))))))))))-)..(((....)))..))............. ( -40.60)
>DroSim_CAF1 6020 107 + 1
GCGUGGUGGCCAAUGCGGCUGUGCUGCAAUAACCCUCAAGUUGCAUACGGACUUGGAGUCCAUGCAACUGGUCAUCA-CUCGUCAGCCGGCUCGCCCUAUGUUAAUUG
(((((((((((..((((((...))))))..........((((((((..((((.....))))))))))))))))))))-)..(((....)))..))............. ( -40.60)
>DroEre_CAF1 9965 106 + 1
GCGUGGUGGCCAAUGCGGCUGUGCUGCAAUAACCCUAAACUUGCAUACGGACUUGGAGUCCAUGACACAGGUCAUCAUCUCGUCAGCCGGCUCGCCC--UGUUAAUUG
(((.(((((((..((((((...))))))..............((....((((.....)))).((((..((((....)))).)))))).))).)))).--)))...... ( -31.80)
>DroYak_CAF1 10137 106 + 1
GCGUGGUGGCCAAUGCGGCUGUGCUGCAAUAACCCUCAAGUUGCAUACGGACUUGGAGUCCAUGCCACUGGUCAUCAUCUCGUCAGCCGGCUCGCUC--UGUUAAUUG
(((((((((((..((((((...))))))..........(((.((((..((((.....)))))))).)))))))))))....(((....))).)))..--......... ( -34.60)
>consensus
GCGUGGUGGCCAAUGCGGCUGUGCUGCAAUAACCCUCAAGUUGCAUACGGACUUGGAGUCCAUGCAACUGGUCAUCA_CUCGUCAGCCGGCUCGCCCUAUGUUAAUUG
(((((((((((..((((((...))))))..........((((((((..((((.....))))))))))))))))))))....(((....))).)))............. (-34.18 = -35.18 +   1.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,452,675 – 11,452,782
Length 107
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 95.53
Mean single sequence MFE -37.58
Consensus MFE -32.06
Energy contribution -33.46
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.85
SVM decision value 0.90
SVM RNA-class probability 0.876943
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11452675 107 - 22224390
CAAUUAACAUAGGGCGAGCCAGCUGACGAG-UGAUGACCAGUUGCAUGGACUCCAAGUCCGUAUGCAACUUGAGGGUUAUUGCAGCACAGCCGCAUUGGCCACCACGC
...........((.(((((..((((....(-..((((((((((((((((((.....))))..))))))))....))))))..)....)))).)).))).))....... ( -38.10)
>DroSec_CAF1 6606 107 - 1
CAAUUAACAUAGGGCGAGCCGGCUGACGAG-UGAUGACCAGUUGCAUGGACUCCAAGUCCGUAUGCAACUUGAGGGUUAUUGCAGCACAGCCGCAUUGGCCACCACGC
...........((.(((..((((((....(-..((((((((((((((((((.....))))..))))))))....))))))..)....))))))..))).))....... ( -42.70)
>DroSim_CAF1 6020 107 - 1
CAAUUAACAUAGGGCGAGCCGGCUGACGAG-UGAUGACCAGUUGCAUGGACUCCAAGUCCGUAUGCAACUUGAGGGUUAUUGCAGCACAGCCGCAUUGGCCACCACGC
...........((.(((..((((((....(-..((((((((((((((((((.....))))..))))))))....))))))..)....))))))..))).))....... ( -42.70)
>DroEre_CAF1 9965 106 - 1
CAAUUAACA--GGGCGAGCCGGCUGACGAGAUGAUGACCUGUGUCAUGGACUCCAAGUCCGUAUGCAAGUUUAGGGUUAUUGCAGCACAGCCGCAUUGGCCACCACGC
.........--((.(((..((((((....(.(((((((((.(((.((((((.....))))))..)))......))))))))))....))))))..))).))....... ( -33.90)
>DroYak_CAF1 10137 106 - 1
CAAUUAACA--GAGCGAGCCGGCUGACGAGAUGAUGACCAGUGGCAUGGACUCCAAGUCCGUAUGCAACUUGAGGGUUAUUGCAGCACAGCCGCAUUGGCCACCACGC
.......((--(.(((.((.(((((.(.....((((((((((.((((((((.....))))..)))).)))....)))))))))))).).))))).))).......... ( -30.50)
>consensus
CAAUUAACAUAGGGCGAGCCGGCUGACGAG_UGAUGACCAGUUGCAUGGACUCCAAGUCCGUAUGCAACUUGAGGGUUAUUGCAGCACAGCCGCAUUGGCCACCACGC
...........((.(((..((((((..(...((((((((((((((((((((.....))))..))))))))....))))))))...).))))))..))).))....... (-32.06 = -33.46 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:54 2006