Locus 2375

Sequence ID 2L_DroMel_CAF1
Location 6,454,182 – 6,454,285
Length 103
Max. P 0.990120
window3829 window3830

overview

Window 9

Location 6,454,182 – 6,454,285
Length 103
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 83.89
Mean single sequence MFE -32.12
Consensus MFE -24.32
Energy contribution -25.60
Covariance contribution 1.28
Combinations/Pair 1.17
Mean z-score -2.84
Structure conservation index 0.76
SVM decision value 2.20
SVM RNA-class probability 0.990120
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6454182 103 + 22407834
CAUAAUUCUAUCUA-----------GUGGUUGCGAGUCCUUGUUACUAGUGCAAAGGUCAUAAAUCGCUGUGUGGAUAUUCAUGAUGAUAUUCAUGUGGAUAUUCACACGUUGA
.............(-----------((((((....(.((((((.......)).)))).)...)))))))((((((((((((((.(((.....)))))))))))))))))..... ( -30.40)
>DroSec_CAF1 22495 103 + 1
CAUAAUUCUAUCUA-----------GUGGUUGCGAGUCCUUGAUGCUAGUGCAAAGGUCAUAAAUCGCUGUGUGGAUAUUCAUGAUGAUAUUCAUGUGGAUAUUCACACGUUGA
.............(-----------((((((....(.((((..(((....))))))).)...)))))))((((((((((((((.(((.....)))))))))))))))))..... ( -32.80)
>DroSim_CAF1 22580 103 + 1
CAUAAUUCUAUCUA-----------GUGGUUGCGAGUCCUUGAUGCGAGUGCAAAGGUCAUAAAUCGCUGUGUGGAUAUUCAUGAUGAUAUUCAUGUGGAUAUUCACACGUUGA
.............(-----------((((((....(.((((..(((....))))))).)...)))))))((((((((((((((.(((.....)))))))))))))))))..... ( -31.90)
>DroEre_CAF1 23444 103 + 1
CACAAAUCUAUCCU-----------GUGGGUGCGAGUCCUUGAUGCUAUUGCAAAGGUCGUAAUCCGGUGUAUGGAUAUUCAUGUGGAUAUUCGUGUGGAUAUUCACACGUUGA
..((((((((((((-----------(.(..(((((..((((..(((....))))))))))))..)))).).)))))).....(((((((((((....)))))))))))..))). ( -30.60)
>DroYak_CAF1 23139 114 + 1
CACAAUUAUAUCCAUAAUUUUAAUGCUUUAUGCGAGUCCUUGUUGCUAUUGCCAAGGUCGUAAAUCGGAGUGUGGAUAAUCAUGUGGAUAUUCGUGUGAAUAUUCACAUGCUGA
........((((((((.(((..((......(((((..(((((..((....)))))))))))).))..)))))))))))..(((((((((((((....))))))))))))).... ( -34.90)
>consensus
CAUAAUUCUAUCUA___________GUGGUUGCGAGUCCUUGAUGCUAGUGCAAAGGUCAUAAAUCGCUGUGUGGAUAUUCAUGAUGAUAUUCAUGUGGAUAUUCACACGUUGA
.........................((((((....(.((((...((....)).)))).)...)))))).((((((((((((((.(((.....)))))))))))))))))..... (-24.32 = -25.60 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 6,454,182 – 6,454,285
Length 103
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 83.89
Mean single sequence MFE -22.56
Consensus MFE -13.58
Energy contribution -14.34
Covariance contribution 0.76
Combinations/Pair 1.12
Mean z-score -2.09
Structure conservation index 0.60
SVM decision value 0.19
SVM RNA-class probability 0.624014
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6454182 103 - 22407834
UCAACGUGUGAAUAUCCACAUGAAUAUCAUCAUGAAUAUCCACACAGCGAUUUAUGACCUUUGCACUAGUAACAAGGACUCGCAACCAC-----------UAGAUAGAAUUAUG
.....(((((.((((...(((((......))))).)))).))))).((((.....(.(((((((....)))..)))).)))))......-----------.............. ( -18.90)
>DroSec_CAF1 22495 103 - 1
UCAACGUGUGAAUAUCCACAUGAAUAUCAUCAUGAAUAUCCACACAGCGAUUUAUGACCUUUGCACUAGCAUCAAGGACUCGCAACCAC-----------UAGAUAGAAUUAUG
.....(((((.((((...(((((......))))).)))).))))).((((((..(((....(((....))))))..)).))))......-----------.............. ( -21.20)
>DroSim_CAF1 22580 103 - 1
UCAACGUGUGAAUAUCCACAUGAAUAUCAUCAUGAAUAUCCACACAGCGAUUUAUGACCUUUGCACUCGCAUCAAGGACUCGCAACCAC-----------UAGAUAGAAUUAUG
.....(((((.((((...(((((......))))).)))).))))).((((((..(((....(((....))))))..)).))))......-----------.............. ( -21.20)
>DroEre_CAF1 23444 103 - 1
UCAACGUGUGAAUAUCCACACGAAUAUCCACAUGAAUAUCCAUACACCGGAUUACGACCUUUGCAAUAGCAUCAAGGACUCGCACCCAC-----------AGGAUAGAUUUGUG
....((((((......))))))......((((....(((((......((.....)).(((((((....)))..))))............-----------.)))))....)))) ( -25.00)
>DroYak_CAF1 23139 114 - 1
UCAGCAUGUGAAUAUUCACACGAAUAUCCACAUGAUUAUCCACACUCCGAUUUACGACCUUGGCAAUAGCAACAAGGACUCGCAUAAAGCAUUAAAAUUAUGGAUAUAAUUGUG
....((((((.((((((....)))))).))))))..((((((...............(((((((....))..)))))....((.....))..........))))))........ ( -26.50)
>consensus
UCAACGUGUGAAUAUCCACAUGAAUAUCAUCAUGAAUAUCCACACAGCGAUUUAUGACCUUUGCACUAGCAUCAAGGACUCGCAACCAC___________UAGAUAGAAUUAUG
....((((((......))))))..((((..(((((((............))))))).(((((((....)))..)))).........................))))........ (-13.58 = -14.34 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:35 2006