Locus 7412

Sequence ID 2L_DroMel_CAF1
Location 20,595,051 – 20,595,211
Length 160
Max. P 0.907860
window11910 window11911 window11912

overview

Window 0

Location 20,595,051 – 20,595,171
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.92
Mean single sequence MFE -37.86
Consensus MFE -29.68
Energy contribution -31.28
Covariance contribution 1.60
Combinations/Pair 1.11
Mean z-score -1.86
Structure conservation index 0.78
SVM decision value 0.80
SVM RNA-class probability 0.855030
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20595051 120 + 22407834
AACUUGAUUGCCAUUUCAAUUGACCGCAGUUUUAGAAUGCCUUUUGCCAUAGUCAUGGGCAUCCAAAUGGGCUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUGAGACUGCGGCUGC
...(..((((......))))..)(((((((((((.((((((..((.((((((((.(((....)))....))))))))))..))))((((.......))))..)).))))))))))).... ( -42.80)
>DroSec_CAF1 114546 120 + 1
AACUUGAUUGCCAUUUCAAUUGACCGCAGUUUUAGAAUGCCUUUUGCCAUGGUCAUGGGCAUCCAAAUGCGCUGUGGAAUUGGCAGCUACAGCUUUUAGCUUUUGUGAGACUGUGGCUGC
...(..((((......))))..)(((((((.((.(.((((((...((....))...)))))).).))...))))))).....(((((((((((((...((....))))).)))))))))) ( -40.30)
>DroSim_CAF1 110321 120 + 1
AACUUGAUUGCCAUUUCAAUUGACCGCAGUUUUAGAAUGCCUUUUGCCAUGGUCAUGGGCAUCCAAAUGCGUUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUGAGACUGUGGCUGC
...(..((((......))))..)(((((((((((.((.(((...(((((...(((..(((((....)))).)..)))...)))))((....))....)))..)).))))))))))).... ( -39.80)
>DroEre_CAF1 99777 108 + 1
AACUUGAUUGCCAUUUCAAUUGACCGCAGUUUUAGAAUGCCUCUUGCCAUAGUCAUGGGCACCCAAAUGG------------GCAGCUUCGGCUUUUGGCUUUUGUUGGGCUGCGGCUGC
...(..((((......))))..)(((((((((..(((.(((...((((...((..(((....))).)).)------------)))((....))....))).)))...))))))))).... ( -35.00)
>DroYak_CAF1 103881 120 + 1
AACUUGAUUGCCAUUUCAAUUGACCGCAGUUUUAGAAUGCCUUUUGCAAUAGUCAUGGGAAUCCAAAUGGGGUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUUGGGCUGCGGAUGC
...(..((((......))))..)(((((((((..(((.(((...(((.....((((....((((.....)))))))).....)))((....))....))).)))...))))))))).... ( -31.40)
>consensus
AACUUGAUUGCCAUUUCAAUUGACCGCAGUUUUAGAAUGCCUUUUGCCAUAGUCAUGGGCAUCCAAAUGGGCUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUGAGACUGCGGCUGC
...(..((((......))))..)(((((((((((.(((((((...((....))...))))).(((((...(((((((.........))))))).)))))...)).))))))))))).... (-29.68 = -31.28 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,595,091 – 20,595,211
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.00
Mean single sequence MFE -39.38
Consensus MFE -24.02
Energy contribution -25.82
Covariance contribution 1.80
Combinations/Pair 1.07
Mean z-score -2.49
Structure conservation index 0.61
SVM decision value 0.50
SVM RNA-class probability 0.761908
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20595091 120 + 22407834
CUUUUGCCAUAGUCAUGGGCAUCCAAAUGGGCUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUGAGACUGCGGCUGCCUUUUGUCCACUUCCGCAUCAUUACGGACUCUGUCGCUUU
.....((((.((((.(((....))).(((((..(((((...((((((..(((..(((.((....)).))))))..)))))).....)))))..)).))).......)))).))..))... ( -39.00)
>DroSec_CAF1 114586 120 + 1
CUUUUGCCAUGGUCAUGGGCAUCCAAAUGCGCUGUGGAAUUGGCAGCUACAGCUUUUAGCUUUUGUGAGACUGUGGCUGCCUUUUGUCCACUUCCGCAUCAUUACGGACUCUGUCGCUUU
.....((((.((((.(((....))).(((((..(((((...((((((((((((((...((....))))).))))))))))).....)))))...))))).......)))).))..))... ( -44.20)
>DroSim_CAF1 110361 120 + 1
CUUUUGCCAUGGUCAUGGGCAUCCAAAUGCGUUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUGAGACUGUGGCUGCCUUUUGUCCACUUCCGCAUCAUUACGGACUCUGUCGCUUU
.....((((.((((.(((....))).(((((..(((((...(((((((((((..(((.((....)).)))))))))))))).....)))))...))))).......)))).))..))... ( -44.40)
>DroEre_CAF1 99817 94 + 1
CUCUUGCCAUAGUCAUGGGCACCCAAAUGG------------GCAGCUUCGGCUUUUGGCUUUUGUUGGGCUGCGGCUGCCUUUUGUCCACUUCCGCAUCAUUACG--------------
....(((...(((...(((((.......((------------((((((.((((..(..((....))..))))).))))))))..))))))))...)))........-------------- ( -31.00)
>DroYak_CAF1 103921 120 + 1
CUUUUGCAAUAGUCAUGGGAAUCCAAAUGGGGUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUUGGGCUGCGGAUGCCUUUUGUCCACUUCCGCAUCAUUACGGACUCCGUCGCUUU
..........(((.(((((..(((......(((((((((...((((((.((((...........))))))))))((((.......))))..))))))))).....))).))))).))).. ( -38.30)
>consensus
CUUUUGCCAUAGUCAUGGGCAUCCAAAUGGGCUGUGGAAUUGGCAGCUACAGCUUUUGGCUUUUGUGAGACUGCGGCUGCCUUUUGUCCACUUCCGCAUCAUUACGGACUCUGUCGCUUU
....(((........(((....)))...((...(((((...(((((((.((((((...((....))))).))).))))))).....)))))..)))))...................... (-24.02 = -25.82 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,595,091 – 20,595,211
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.00
Mean single sequence MFE -34.67
Consensus MFE -24.75
Energy contribution -25.71
Covariance contribution 0.96
Combinations/Pair 1.11
Mean z-score -2.33
Structure conservation index 0.71
SVM decision value 1.06
SVM RNA-class probability 0.907860
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20595091 120 - 22407834
AAAGCGACAGAGUCCGUAAUGAUGCGGAAGUGGACAAAAGGCAGCCGCAGUCUCACAAAAGCCAAAAGCUGUAGCUGCCAAUUCCACAGCCCAUUUGGAUGCCCAUGACUAUGGCAAAAG
...((.......((((((....)))))).(((((.....((((((..((((................))))..))))))...))))).))((....)).((((.........)))).... ( -37.19)
>DroSec_CAF1 114586 120 - 1
AAAGCGACAGAGUCCGUAAUGAUGCGGAAGUGGACAAAAGGCAGCCACAGUCUCACAAAAGCUAAAAGCUGUAGCUGCCAAUUCCACAGCGCAUUUGGAUGCCCAUGACCAUGGCAAAAG
...(((.(....((((((....)))))).(((((.....((((((.(((((................))))).))))))...))))).)))).......((((.((....)))))).... ( -38.99)
>DroSim_CAF1 110361 120 - 1
AAAGCGACAGAGUCCGUAAUGAUGCGGAAGUGGACAAAAGGCAGCCACAGUCUCACAAAAGCCAAAAGCUGUAGCUGCCAAUUCCACAACGCAUUUGGAUGCCCAUGACCAUGGCAAAAG
...(((......((((((....)))))).(((((.....((((((.(((((................))))).))))))...)))))..))).......((((.((....)))))).... ( -39.09)
>DroEre_CAF1 99817 94 - 1
--------------CGUAAUGAUGCGGAAGUGGACAAAAGGCAGCCGCAGCCCAACAAAAGCCAAAAGCCGAAGCUGC------------CCAUUUGGGUGCCCAUGACUAUGGCAAGAG
--------------.....((.((.((..((((.(........)))))..)))).))...((((..(((....)))((------------((....))))...........))))..... ( -22.60)
>DroYak_CAF1 103921 120 - 1
AAAGCGACGGAGUCCGUAAUGAUGCGGAAGUGGACAAAAGGCAUCCGCAGCCCAACAAAAGCCAAAAGCUGUAGCUGCCAAUUCCACACCCCAUUUGGAUUCCCAUGACUAUUGCAAAAG
...((((.((((((((....((((.((..(((((.....((((.(..((((................))))..).))))...)))))..))))))))))))))........))))..... ( -35.49)
>consensus
AAAGCGACAGAGUCCGUAAUGAUGCGGAAGUGGACAAAAGGCAGCCGCAGUCUCACAAAAGCCAAAAGCUGUAGCUGCCAAUUCCACAGCCCAUUUGGAUGCCCAUGACUAUGGCAAAAG
...((.......((((((....)))))).((((.((...((((((.(((((................))))).))))))................(((....))))).)))).))..... (-24.75 = -25.71 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:10 2006