Locus 1427

Sequence ID 2R_DroMel_CAF1
Location 5,496,807 – 5,496,900
Length 93
Max. P 0.939647
window2438 window2439

overview

Window 8

Location 5,496,807 – 5,496,900
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 94.60
Mean single sequence MFE -28.27
Consensus MFE -26.38
Energy contribution -27.00
Covariance contribution 0.63
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.93
SVM decision value 1.28
SVM RNA-class probability 0.939647
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5496807 93 + 20766785
UUGCGUGCGCUCCUGCUGUCCUUGGUGUGUCCUUUCAGCAUGCGUGUCCUUUUUAGCAUGCUAAAAAUCAAGCGAUCAAGAAUCUGCGCGAUC
...(((((((....))....((((((((....(((.(((((((............))))))).))).....)).)))))).....)))))... ( -26.20)
>DroSim_CAF1 15570 93 + 1
UUGCGCGCGCUCCUGCUGUCCUUGGUGUGUCCUUUUAGCAUGCGUGUCCUUUUUAGCAUGCUAAAAAUCAAGCGAUCGACAAUCUGCGCGAUC
...(((((((....))((((..(.((.((...(((((((((((............)))))))))))..)).)).)..))))....)))))... ( -32.60)
>DroEre_CAF1 15491 91 + 1
UUGCGUGCGCUCCUGCUGUCCUUGGU--GUCCUUUUAGCAUGCGUGUCCUUUUUAGCAUGCUAAAAAUCAUGCGAUCGAAUAUCUGCGCGAUC
...(((((((....))..((..(.((--((..(((((((((((............)))))))))))...)))).)..))......)))))... ( -25.80)
>DroYak_CAF1 16484 91 + 1
UUGCGAGCGCUCCUGCUGUCCUUGGU--GUCCUUUUAGCAUGCGUGUCCUUUUUAGCAUGCUAAAAAUCAAGCGAUCGAAAAUCUGCGCGAUC
......((((.....(.(((((((((--....(((((((((((............))))))))))))))))).))).).......)))).... ( -28.50)
>consensus
UUGCGUGCGCUCCUGCUGUCCUUGGU__GUCCUUUUAGCAUGCGUGUCCUUUUUAGCAUGCUAAAAAUCAAGCGAUCGAAAAUCUGCGCGAUC
...(((((((....)).(((((((((......(((((((((((............))))))))))))))))).))).........)))))... (-26.38 = -27.00 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,496,807 – 5,496,900
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 94.60
Mean single sequence MFE -26.90
Consensus MFE -25.81
Energy contribution -25.62
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.90
Structure conservation index 0.96
SVM decision value 1.26
SVM RNA-class probability 0.936956
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5496807 93 - 20766785
GAUCGCGCAGAUUCUUGAUCGCUUGAUUUUUAGCAUGCUAAAAAGGACACGCAUGCUGAAAGGACACACCAAGGACAGCAGGAGCGCACGCAA
....((((....(((((.((.((((..(((((((((((............)))))))))))(....)..))))))...)))))))))...... ( -28.00)
>DroSim_CAF1 15570 93 - 1
GAUCGCGCAGAUUGUCGAUCGCUUGAUUUUUAGCAUGCUAAAAAGGACACGCAUGCUAAAAGGACACACCAAGGACAGCAGGAGCGCGCGCAA
...(((((....((((...........(((((((((((............)))))))))))((.....))...))))((....)))))))... ( -29.10)
>DroEre_CAF1 15491 91 - 1
GAUCGCGCAGAUAUUCGAUCGCAUGAUUUUUAGCAUGCUAAAAAGGACACGCAUGCUAAAAGGAC--ACCAAGGACAGCAGGAGCGCACGCAA
....((((.(((.....)))((.....(((((((((((............)))))))))))(..(--.....)..).))....))))...... ( -25.40)
>DroYak_CAF1 16484 91 - 1
GAUCGCGCAGAUUUUCGAUCGCUUGAUUUUUAGCAUGCUAAAAAGGACACGCAUGCUAAAAGGAC--ACCAAGGACAGCAGGAGCGCUCGCAA
....((((.((((...))))(((....(((((((((((............)))))))))))(..(--.....)..))))....))))...... ( -25.10)
>consensus
GAUCGCGCAGAUUUUCGAUCGCUUGAUUUUUAGCAUGCUAAAAAGGACACGCAUGCUAAAAGGAC__ACCAAGGACAGCAGGAGCGCACGCAA
....((((.(((.....)))((.((..(((((((((((............)))))))))))((.....)).....))))....))))...... (-25.81 = -25.62 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:33 2006