Locus 3497

Sequence ID X_DroMel_CAF1
Location 9,391,858 – 9,391,961
Length 103
Max. P 0.837391
window5720 window5721

overview

Window 0

Location 9,391,858 – 9,391,961
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.55
Mean single sequence MFE -30.40
Consensus MFE -26.95
Energy contribution -28.08
Covariance contribution 1.12
Combinations/Pair 1.06
Mean z-score -1.71
Structure conservation index 0.89
SVM decision value 0.74
SVM RNA-class probability 0.837391
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9391858 103 + 22224390
-----------------ACAGACACACAGAAGGAAAGCCACACAGACAGGCACACGUGUAGAAUGGCAUGCCAUACAUACAUGGCCAUUAGUGUUGUGUUGUUGUCGUUAUCAUGCACAA
-----------------...((((.(((...((....))((((((((.(((...((((((..((((....))))...)))))))))....)).))))))))))))).............. ( -24.90)
>DroSec_CAF1 5853 103 + 1
-----------------ACAUGUGUGCAGAAGGAAAGCCACACAGACAGGCACACGUGUAGAAUGGCAUGCCAUACAUACAUGGCCAUUAGUGUUGUGUUGUUGUCGUUAUCAUGCACAA
-----------------.....((((((.((.((.(((.((((((((.(((...((((((..((((....))))...)))))))))....)).)))))).))).)).))....)))))). ( -32.70)
>DroSim_CAF1 10190 103 + 1
-----------------ACAUGUGUGCAGAAGGAAAGCCACACAGACAGGCACACGUGUAGAAUGGCAUGCCAUACAUACAUGGCCAUUAGUGUUGUGUUAUUGUCGUUAUCAUGCACAA
-----------------.....((((((.((.((.....((((((((.(((...((((((..((((....))))...)))))))))....)).)))))).....)).))....)))))). ( -29.60)
>DroYak_CAF1 10279 120 + 1
CAUGUACAUAUAUGUAUGUAUGUGUGCAGAAGGAAAGCCACACGGACAGGCACACGUGUAGAAUGCCAUACCAUACAUACACGGCCAUUAGUGUUGUGUUGUUGUCGUUAUCAUGCACAA
.(((((((((....)))))))))(((((.((.((.(((.(((((.((((((...((((((..(((......)))...))))))))).....)))))))).))).)).))....))))).. ( -34.40)
>consensus
_________________ACAUGUGUGCAGAAGGAAAGCCACACAGACAGGCACACGUGUAGAAUGGCAUGCCAUACAUACAUGGCCAUUAGUGUUGUGUUGUUGUCGUUAUCAUGCACAA
......................((((((.((.((.(((.(((((.((((((...((((((..((((....))))...))))))))).....)))))))).))).)).))....)))))). (-26.95 = -28.08 +   1.12)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 1

Location 9,391,858 – 9,391,961
Length 103
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.55
Mean single sequence MFE -29.26
Consensus MFE -23.24
Energy contribution -22.80
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -1.75
Structure conservation index 0.79
SVM decision value 0.53
SVM RNA-class probability 0.771919
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9391858 103 - 22224390
UUGUGCAUGAUAACGACAACAACACAACACUAAUGGCCAUGUAUGUAUGGCAUGCCAUUCUACACGUGUGCCUGUCUGUGUGGCUUUCCUUCUGUGUGUCUGU-----------------
((((........))))..((((((((........(((((..((..((.(((((((..........)))))))))..))..))))).........))))).)))----------------- ( -26.43)
>DroSec_CAF1 5853 103 - 1
UUGUGCAUGAUAACGACAACAACACAACACUAAUGGCCAUGUAUGUAUGGCAUGCCAUUCUACACGUGUGCCUGUCUGUGUGGCUUUCCUUCUGCACACAUGU-----------------
....(((((.....((((...((((......((((((.((((.......))))))))))......))))...))))((((..(........)..)))))))))----------------- ( -28.80)
>DroSim_CAF1 10190 103 - 1
UUGUGCAUGAUAACGACAAUAACACAACACUAAUGGCCAUGUAUGUAUGGCAUGCCAUUCUACACGUGUGCCUGUCUGUGUGGCUUUCCUUCUGCACACAUGU-----------------
....(((((.....((((...((((......((((((.((((.......))))))))))......))))...))))((((..(........)..)))))))))----------------- ( -28.80)
>DroYak_CAF1 10279 120 - 1
UUGUGCAUGAUAACGACAACAACACAACACUAAUGGCCGUGUAUGUAUGGUAUGGCAUUCUACACGUGUGCCUGUCCGUGUGGCUUUCCUUCUGCACACAUACAUACAUAUAUGUACAUG
.((((((((..................((....))...(((((((((((....(((((.(.....).))))).....(((..(........)..))).))))))))))).)))))))).. ( -33.00)
>consensus
UUGUGCAUGAUAACGACAACAACACAACACUAAUGGCCAUGUAUGUAUGGCAUGCCAUUCUACACGUGUGCCUGUCUGUGUGGCUUUCCUUCUGCACACAUGU_________________
.((((((.((....((.....((((((((.....((((((((..(.((((....)))).)...))))).)))))).))))).....))..))))))))...................... (-23.24 = -22.80 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:49 2006