Locus 138

Sequence ID 2R_DroMel_CAF1
Location 1,399,900 – 1,400,052
Length 152
Max. P 0.933438
window296 window297

overview

Window 6

Location 1,399,900 – 1,400,012
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.56
Mean single sequence MFE -23.58
Consensus MFE -19.92
Energy contribution -20.52
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.84
SVM decision value 1.18
SVM RNA-class probability 0.926736
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1399900 112 - 20766785
CAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUU--------GUUUUGUCCCACUCCAGCUCCGGAUCUAACCAUUUGAUUUAUCGCUGUAGUCUAAGUCGACAGUGAAAUUU
.((((((((.(((((((....))))))).............--------(((..((((............))))..)))))))))))...(((((((.(.......).)))))))..... ( -23.70)
>DroSec_CAF1 25696 120 - 1
CAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUUUUUUUAUUUUUUUGCUUCACUCCAGCUCCGGAUCUAACCAUUUGAUUUAUCGCUGUAGUCUAAGUCGACAGUGAAAUUU
......(((.(((((((....))))))).)))........................((((((.((((...(((((.........)))))...))))..(((......))))))))).... ( -22.20)
>DroSim_CAF1 30624 118 - 1
CAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUU--UUUUUAUUUUUUUGCUUCACUCCAGCUCCGGAUCUAACCAUUUGAUUUAUCGCUGUAGUCUAAGUCGACAGUGAAAUUU
......(((.(((((((....))))))).))).......--...............((((((.((((...(((((.........)))))...))))..(((......))))))))).... ( -22.20)
>DroEre_CAF1 24645 118 - 1
CAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUU--UUUUUUGUUGUGGUUCACUCCAGCUCCGGAUCUAACCAUUUGAUUUAUCGCUGUAGUCUUAGUCCACAGUGAAAUUU
......(((.(((((((....))))))).))).........--..(((..((((((...(((.((((...(((((.........)))))...)))).)))......))))))..)))... ( -27.60)
>DroYak_CAF1 26500 102 - 1
CAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGCUUUUUU--U----------GCUUCAC------UCCGGAUCUAACCAUUUGAUUUAUCGCUGUAGUCUUAGUCGACAGUGAAAUUU
.((((((((....(((((.....(((......)))....))--)----------))..)))------...((......))..)))))...(((((((.(.......).)))))))..... ( -22.20)
>consensus
CAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUU__UUU_UUGUUUUGCUUCACUCCAGCUCCGGAUCUAACCAUUUGAUUUAUCGCUGUAGUCUAAGUCGACAGUGAAAUUU
.((((((((.(((((((....))))))).................................(((......)))......))))))))...(((((((.(.......).)))))))..... (-19.92 = -20.52 +   0.60)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,399,940 – 1,400,052
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.73
Mean single sequence MFE -28.97
Consensus MFE -21.26
Energy contribution -21.74
Covariance contribution 0.48
Combinations/Pair 1.04
Mean z-score -2.56
Structure conservation index 0.73
SVM decision value 1.23
SVM RNA-class probability 0.933438
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1399940 112 - 20766785
UCGAAGCUUCGGCUUCUGCUGCUGUGGCAUUUACCGAAAACAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUU--------GUUUUGUCCCACUCCAGCUCCGGAUCUAACC
..(((((....))))).((((..((((.((..(.((((((.((...(((.(((((((....))))))).))).)).)))))--------).)..)).))))..))))............. ( -32.40)
>DroSec_CAF1 25736 120 - 1
UCGAAGCUUCGGCUUCUGCUGCUGUGGCAUUUACCGAAAACAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUUUUUUUAUUUUUUUGCUUCACUCCAGCUCCGGAUCUAACC
..(((((....))))).((((..((((((......((.....))..(((.(((((((....))))))).))).....................)))..)))..))))............. ( -27.40)
>DroSim_CAF1 30664 118 - 1
UCGAAGCUUCGGCUUCUGCUGCUGUGGCAUUUACCGAAAACAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUU--UUUUUAUUUUUUUGCUUCACUCCAGCUCCGGAUCUAACC
..(((((....))))).((((..((((((......(((((......(((.(((((((....))))))).))).......--))))).......)))..)))..))))............. ( -28.04)
>DroEre_CAF1 24685 118 - 1
UCGAAGCUUCGGCUUCUGCUGCUCUGGCAUUUACCGAAAACAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUU--UUUUUUGUUGUGGUUCACUCCAGCUCCGGAUCUAACC
..(((((....)))))((((.....))))....((((((((.....(((.(((((((....))))))).))).)))))...--......((((..(....)..))))..)))........ ( -28.70)
>DroYak_CAF1 26540 102 - 1
UCGAAGCUUCGGCUUGUGCUGCUGUGGCAUUUACCGAAAACAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGCUUUUUU--U----------GCUUCAC------UCCGGAUCUAACC
..((((((((((...(((((.....)))))...)))))......(((((.(((((((....)))))))....)))))....--.----------)))))..------............. ( -28.30)
>consensus
UCGAAGCUUCGGCUUCUGCUGCUGUGGCAUUUACCGAAAACAUCAAGUGUUAUGCAAAUAUUUGCGUAUCAUCGUUUUUUU__UUU_UUGUUUUGCUUCACUCCAGCUCCGGAUCUAACC
..((((((((((....((((.....))))....)))))........(((.(((((((....))))))).)))......................)))))..................... (-21.26 = -21.74 +   0.48)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:29:05 2006