Locus 2917

Sequence ID 2R_DroMel_CAF1
Location 10,131,253 – 10,131,410
Length 157
Max. P 0.955570
window4807 window4808 window4809 window4810

overview

Window 7

Location 10,131,253 – 10,131,373
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -42.50
Consensus MFE -37.73
Energy contribution -40.07
Covariance contribution 2.33
Combinations/Pair 1.00
Mean z-score -3.51
Structure conservation index 0.89
SVM decision value 1.46
SVM RNA-class probability 0.955570
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10131253 120 + 20766785
UUGUCACUGGCUGCGAAACAAAAAGCAGAAAAAGUUACAAAUGUAAGGGUGUAGCAGAGGUAAGGGUUCACGAGGGCGCUCAGAAAUGGACGCCCCAAUGGACGUUGGUGCACACUUACC
((((.(((..((((..........))))....))).))))..(((((.(((((.(((........(((((...(((((..((....))..)))))...))))).))).))))).))))). ( -41.20)
>DroSim_CAF1 10483 120 + 1
UUGUCACUGGCUGCGAAACAAAAAGCAGAAAAAGUUACAAAUGUAAGGGUGUAGCAGAGGUAAGGGUUCACAGGGGCGCUCAGAAAUGGACGCCCCAAUGGACGUUAGUGCACACUUACC
((((.(((..((((..........))))....))).))))..(((((.(((((((....)).((.(((((..((((((..((....))..))))))..))))).))..))))).))))). ( -43.50)
>DroYak_CAF1 215 120 + 1
UUGUCACUGGCUGCGAAACAAAAAGCAGAAAGAGUUACAAAUGUAAGGGUGUAGCAGAGUUAAGGGUUCACAGGGGCGCUCCGAAAUGGACGCCCCAAUGGACGUUGGUGCACACUUACC
((((.(((..((((..........))))....))).))))..(((((.(((((.(((........(((((..((((((.(((.....)))))))))..))))).))).))))).))))). ( -42.80)
>consensus
UUGUCACUGGCUGCGAAACAAAAAGCAGAAAAAGUUACAAAUGUAAGGGUGUAGCAGAGGUAAGGGUUCACAGGGGCGCUCAGAAAUGGACGCCCCAAUGGACGUUGGUGCACACUUACC
((((.(((..((((..........))))....))).))))..(((((.(((((.(((........(((((..((((((..((....))..))))))..))))).))).))))).))))). (-37.73 = -40.07 +   2.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,131,253 – 10,131,373
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -32.31
Consensus MFE -30.93
Energy contribution -30.71
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.62
Structure conservation index 0.96
SVM decision value 0.21
SVM RNA-class probability 0.636945
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10131253 120 - 20766785
GGUAAGUGUGCACCAACGUCCAUUGGGGCGUCCAUUUCUGAGCGCCCUCGUGAACCCUUACCUCUGCUACACCCUUACAUUUGUAACUUUUUCUGCUUUUUGUUUCGCAGCCAGUGACAA
((((((.((......))((.(((.((((((..((....))..)))))).))).)).))))))..................((((.(((....((((..........))))..))).)))) ( -30.80)
>DroSim_CAF1 10483 120 - 1
GGUAAGUGUGCACUAACGUCCAUUGGGGCGUCCAUUUCUGAGCGCCCCUGUGAACCCUUACCUCUGCUACACCCUUACAUUUGUAACUUUUUCUGCUUUUUGUUUCGCAGCCAGUGACAA
((((((.((..((....)).(((.((((((..((....))..)))))).))).)).))))))..................((((.(((....((((..........))))..))).)))) ( -33.10)
>DroYak_CAF1 215 120 - 1
GGUAAGUGUGCACCAACGUCCAUUGGGGCGUCCAUUUCGGAGCGCCCCUGUGAACCCUUAACUCUGCUACACCCUUACAUUUGUAACUCUUUCUGCUUUUUGUUUCGCAGCCAGUGACAA
.(((((((((((.....((.(((.(((((((((.....))).)))))).))).)).........))).))))..))))..((((.(((....((((..........))))..))).)))) ( -33.04)
>consensus
GGUAAGUGUGCACCAACGUCCAUUGGGGCGUCCAUUUCUGAGCGCCCCUGUGAACCCUUACCUCUGCUACACCCUUACAUUUGUAACUUUUUCUGCUUUUUGUUUCGCAGCCAGUGACAA
.(((((((((((.....((.(((.((((((..(......)..)))))).))).)).........))).))))..))))..((((.(((....((((..........))))..))).)))) (-30.93 = -30.71 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,131,293 – 10,131,410
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 94.30
Mean single sequence MFE -43.77
Consensus MFE -35.33
Energy contribution -38.33
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -2.54
Structure conservation index 0.81
SVM decision value 0.35
SVM RNA-class probability 0.699396
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10131293 117 + 20766785
AUGUAAGGGUGUAGCAGAGGUAAGGGUUCACGAGGGCGCUCAGAAAUGGACGCCCCAAUGGACGUUGGUGCACACUUACCCGCUGAUUGCUCAUUAGCAUGCUUAACCUGUUGGGAA
......((((..(((((.((((((.((.(((..(((((..((....))..)))))((((....))))))).)).)))))))((((((.....)))))).))))..))))........ ( -43.80)
>DroSim_CAF1 10523 117 + 1
AUGUAAGGGUGUAGCAGAGGUAAGGGUUCACAGGGGCGCUCAGAAAUGGACGCCCCAAUGGACGUUAGUGCACACUUACCCGCUGUUUGCUCAUUAGCAUGCUUAACCUGUUGGAAA
......((((..(((((.((((((.(((((..((((((..((....))..))))))..)))))((....))...)))))))((((.........)))).))))..))))........ ( -44.10)
>DroYak_CAF1 255 117 + 1
AUGUAAGGGUGUAGCAGAGUUAAGGGUUCACAGGGGCGCUCCGAAAUGGACGCCCCAAUGGACGUUGGUGCACACUUACCCGCUGAUCGCUCAUUAGAAUGCUUAACCUGUUCGGAA
.........((.(((((.((((((.((((...((((((.(((.....)))))))))((((..(((..(((..........)))..).))..)))).)))).)))))))))))))... ( -43.40)
>consensus
AUGUAAGGGUGUAGCAGAGGUAAGGGUUCACAGGGGCGCUCAGAAAUGGACGCCCCAAUGGACGUUGGUGCACACUUACCCGCUGAUUGCUCAUUAGCAUGCUUAACCUGUUGGGAA
......((((..(((((.((((((.(((((..((((((..((....))..))))))..)))))((....))...)))))))((((((.....)))))).))))..))))........ (-35.33 = -38.33 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,131,293 – 10,131,410
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 94.30
Mean single sequence MFE -35.67
Consensus MFE -31.75
Energy contribution -31.87
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.89
SVM decision value 0.13
SVM RNA-class probability 0.600262
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10131293 117 - 20766785
UUCCCAACAGGUUAAGCAUGCUAAUGAGCAAUCAGCGGGUAAGUGUGCACCAACGUCCAUUGGGGCGUCCAUUUCUGAGCGCCCUCGUGAACCCUUACCUCUGCUACACCCUUACAU
.........(((..((((((((....))))......(((((((.((......))((.(((.((((((..((....))..)))))).))).)).))))))).))))..)))....... ( -34.80)
>DroSim_CAF1 10523 117 - 1
UUUCCAACAGGUUAAGCAUGCUAAUGAGCAAACAGCGGGUAAGUGUGCACUAACGUCCAUUGGGGCGUCCAUUUCUGAGCGCCCCUGUGAACCCUUACCUCUGCUACACCCUUACAU
.........(((..((((((((....))))......(((((((.((..((....)).(((.((((((..((....))..)))))).))).)).))))))).))))..)))....... ( -37.10)
>DroYak_CAF1 255 117 - 1
UUCCGAACAGGUUAAGCAUUCUAAUGAGCGAUCAGCGGGUAAGUGUGCACCAACGUCCAUUGGGGCGUCCAUUUCGGAGCGCCCCUGUGAACCCUUAACUCUGCUACACCCUUACAU
.......((((((((((((.((.((..((.....))..)).)).))))......((.(((.(((((((((.....))).)))))).))).))..))))).))).............. ( -35.10)
>consensus
UUCCCAACAGGUUAAGCAUGCUAAUGAGCAAUCAGCGGGUAAGUGUGCACCAACGUCCAUUGGGGCGUCCAUUUCUGAGCGCCCCUGUGAACCCUUACCUCUGCUACACCCUUACAU
.........(((..((((.........((.....))(((((((.((......))((.(((.((((((..(......)..)))))).))).)).))))))).))))..)))....... (-31.75 = -31.87 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:40 2006