Locus 2384

Sequence ID 2R_DroMel_CAF1
Location 8,617,726 – 8,617,837
Length 111
Max. P 0.933717
window3944 window3945

overview

Window 4

Location 8,617,726 – 8,617,837
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.92
Mean single sequence MFE -31.56
Consensus MFE -25.92
Energy contribution -25.84
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -1.45
Structure conservation index 0.82
SVM decision value 0.34
SVM RNA-class probability 0.697682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8617726 111 + 20766785
---------CUGUUUCUCCAUUUCCUUUGGAACACCAGGAACAAGAAAUAGCUCCCCCAGUGACCUAAUGAGCCAUUUAGCCAAUUGGGGUUAAUGUCCACACCCGCAGAAGGGAGCGAA
---------.(((((((....(((((..((....)))))))..)))))))((((((...(((.((((((..((......))..)))))).....((....))..)))....))))))... ( -30.30)
>DroSec_CAF1 20020 114 + 1
CUU------CUGUUUCUCCAUUUCCUUUGGAACACCAGGAACAAGAAACAGCUCCCCCAGUGACCUAAUGAGCCAUUUAGCCAAUUGGGGUUAAUGUCCACACCCGCAGAAAGGAGCGAU
...------.(((((((....(((((..((....)))))))..)))))))(((((((((((...((((........))))...)))))).....(((........)))....)))))... ( -30.50)
>DroSim_CAF1 17313 114 + 1
CUU------CUGUUUCUCCAUUUCCUUUGGAACACCAGGAACAAGAAACAGCUCCCCCAGUGACCUAAUGAGCCAUUUAGCCAAUUGGGGUUAAUGUCCACACCCGCAGAAAGGAGCGAU
...------.(((((((....(((((..((....)))))))..)))))))(((((((((((...((((........))))...)))))).....(((........)))....)))))... ( -30.50)
>DroEre_CAF1 17772 114 + 1
UUU------CUGUUUCUCCAUUUCCUUUGGAGCUCCAGGAACACGAAAGUGCUCUCCCACUGACCUAAUGAGCCAUUUGGCCAAUUGGGGUUAAUGUCCACACCCGCAGGAAGGAGCGAA
(((------(((...(((((.......)))))...))))))(((....)))(.((((..(((.((((((..(((....)))..)))))).....((....))....)))...)))).).. ( -35.50)
>DroYak_CAF1 13518 120 + 1
UUUCUGGUUCUGUUUCUCCAUUUCCUUUGGAACUCCAGGAACAAGAAAGAGCUCCCCCACUGACCUAAUGAGCCAUUUAGCCAAUUGGGGUUAAUGUCCACACCCGCAGAAAGGAGCGAA
(((((.(((((.....((((.......))))......))))).)))))..(((((....(((......((..(...((((((......)))))).)..))......)))...)))))... ( -31.00)
>consensus
CUU______CUGUUUCUCCAUUUCCUUUGGAACACCAGGAACAAGAAACAGCUCCCCCAGUGACCUAAUGAGCCAUUUAGCCAAUUGGGGUUAAUGUCCACACCCGCAGAAAGGAGCGAA
..........(((((((....((((...))))....))))))).......(((((((((((...((((........))))...)))))).....(((........)))....)))))... (-25.92 = -25.84 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 8,617,726 – 8,617,837
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.92
Mean single sequence MFE -37.98
Consensus MFE -31.68
Energy contribution -31.60
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -1.77
Structure conservation index 0.83
SVM decision value 1.23
SVM RNA-class probability 0.933717
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8617726 111 - 20766785
UUCGCUCCCUUCUGCGGGUGUGGACAUUAACCCCAAUUGGCUAAAUGGCUCAUUAGGUCACUGGGGGAGCUAUUUCUUGUUCCUGGUGUUCCAAAGGAAAUGGAGAAACAG---------
...((((((((....(((.((........)))))...(((((.((((...)))).)))))..))))))))..((((((.(((((((....))..)))))...))))))...--------- ( -34.50)
>DroSec_CAF1 20020 114 - 1
AUCGCUCCUUUCUGCGGGUGUGGACAUUAACCCCAAUUGGCUAAAUGGCUCAUUAGGUCACUGGGGGAGCUGUUUCUUGUUCCUGGUGUUCCAAAGGAAAUGGAGAAACAG------AAG
.((((.(((......))).)))).......(((((..(((((.((((...)))).))))).)))))...(((((((((.(((((((....))..)))))...)))))))))------... ( -38.30)
>DroSim_CAF1 17313 114 - 1
AUCGCUCCUUUCUGCGGGUGUGGACAUUAACCCCAAUUGGCUAAAUGGCUCAUUAGGUCACUGGGGGAGCUGUUUCUUGUUCCUGGUGUUCCAAAGGAAAUGGAGAAACAG------AAG
.((((.(((......))).)))).......(((((..(((((.((((...)))).))))).)))))...(((((((((.(((((((....))..)))))...)))))))))------... ( -38.30)
>DroEre_CAF1 17772 114 - 1
UUCGCUCCUUCCUGCGGGUGUGGACAUUAACCCCAAUUGGCCAAAUGGCUCAUUAGGUCAGUGGGAGAGCACUUUCGUGUUCCUGGAGCUCCAAAGGAAAUGGAGAAACAG------AAA
((((((((.(((..((((.((........)))))...(((((.((((...)))).))))))..)))((((((....))))))..)))))((((.......)))))))....------... ( -40.60)
>DroYak_CAF1 13518 120 - 1
UUCGCUCCUUUCUGCGGGUGUGGACAUUAACCCCAAUUGGCUAAAUGGCUCAUUAGGUCAGUGGGGGAGCUCUUUCUUGUUCCUGGAGUUCCAAAGGAAAUGGAGAAACAGAACCAGAAA
...(((((..((..(....)..)).......((((.((((((.((((...)))).)))))))))))))))...((((.((((.((...(((((.......)))))...)))))).)))). ( -38.20)
>consensus
UUCGCUCCUUUCUGCGGGUGUGGACAUUAACCCCAAUUGGCUAAAUGGCUCAUUAGGUCACUGGGGGAGCUCUUUCUUGUUCCUGGUGUUCCAAAGGAAAUGGAGAAACAG______AAA
...((((((((....(((.((........)))))...(((((.((((...)))).)))))..))))))))..((((((.(((((((....))..)))))...))))))............ (-31.68 = -31.60 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:44 2006