Locus 1660

Sequence ID X_DroMel_CAF1
Location 4,681,393 – 4,681,540
Length 147
Max. P 0.685009
window2731 window2732

overview

Window 1

Location 4,681,393 – 4,681,506
Length 113
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -23.71
Consensus MFE -16.79
Energy contribution -17.90
Covariance contribution 1.12
Combinations/Pair 1.10
Mean z-score -1.48
Structure conservation index 0.71
SVM decision value -0.05
SVM RNA-class probability 0.509302
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4681393 113 - 22224390
CGAAAAUGGUUCAUCCAGUUGGCAAUUAUCUGUUUUCU------CCCCUAUGCCAAUGGAAACCAUGUCCAAGAGCAGUCAUUUUCCGAGGAAAACUCACCGCUUUUCGCACGCACACU
.....((((((..((((.((((((..............------......))))))))))))))))(((.((((((.((..(((((....)))))...)).)))))).).))....... ( -26.45)
>DroSec_CAF1 35077 119 - 1
CAAAGAUGGUUCAUCCAGUUGGCAAUUAUCUGUUAUUUCCAUUCCCCCUAUGCCAAUGGAAACCUUCUCCAAGAGCAGUCAUUUUCCGAGGAAAACCCACCGCUUUCCCCGCGCACACU
...(((.((((..((((.((((((..........................)))))))))))))).)))...(((((.((..(((((....)))))...)).)))))............. ( -23.37)
>DroEre_CAF1 35415 107 - 1
CAAAAAUG-UUCAACCAGUUAGCAAUUAACUCUUAUUC------CCUCUAUGCCGAUGGAAACCAUGUCCGAGGGAAGUCAUUUUCCGAGGAAAACUCACCUC-UUCC----UAACACU
........-........(((((.............(((------((((...((..((((...))))))..)))))))..........((((........))))-...)----))))... ( -21.30)
>consensus
CAAAAAUGGUUCAUCCAGUUGGCAAUUAUCUGUUAUUU______CCCCUAUGCCAAUGGAAACCAUGUCCAAGAGCAGUCAUUUUCCGAGGAAAACUCACCGCUUUCC_C_CGCACACU
.....((((((..((((.((((((..........................))))))))))))))))....((((((.((..(((((....)))))...)).))))))............ (-16.79 = -17.90 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,681,432 – 4,681,540
Length 108
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 81.85
Mean single sequence MFE -30.65
Consensus MFE -19.40
Energy contribution -20.74
Covariance contribution 1.34
Combinations/Pair 1.11
Mean z-score -2.06
Structure conservation index 0.63
SVM decision value 0.31
SVM RNA-class probability 0.685009
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4681432 108 + 22224390
GACUGCUCUUGGACAUGGUUUCCAUUGGCAUAGGGG------AGAAAACAGAUAAUUGCCAACUGGAUGAACCAUUUUCGUACACCUUGGGUAAAGAAUAAGCCAAGGGCAUAU
...(((((((((.(((((((((((((((((......------..............)))))).))))..))))))(((..(((.(....))))..)))...))))))))))... ( -32.75)
>DroSec_CAF1 35116 114 + 1
GACUGCUCUUGGAGAAGGUUUCCAUUGGCAUAGGGGGAAUGGAAAUAACAGAUAAUUGCCAACUGGAUGAACCAUCUUUGUACACCUUGGGUAACCAAUAAACCAAGGGCAUAU
...((((((((((((.((((((((((((((.....(..((....))..).......)))))).))))..)))).))).........((((....))))....)))))))))... ( -36.60)
>DroEre_CAF1 35449 107 + 1
GACUUCCCUCGGACAUGGUUUCCAUCGGCAUAGAGG------GAAUAAGAGUUAAUUGCUAACUGGUUGAA-CAUUUUUGUACACCUUGGGUAAUCAAUAAAUCAAAGAUAUAU
...(((((((.(..((((...))))...)...))))------))).....(((.((((((....(((.(.(-((....))).))))...)))))).)))............... ( -22.60)
>consensus
GACUGCUCUUGGACAUGGUUUCCAUUGGCAUAGGGG______AAAUAACAGAUAAUUGCCAACUGGAUGAACCAUUUUUGUACACCUUGGGUAAACAAUAAACCAAGGGCAUAU
...(((((((((....((((((((((((((..........................)))))).)))..))))).......(((.(....)))).........)))))))))... (-19.40 = -20.74 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:04 2006