Locus 2385

Sequence ID X_DroMel_CAF1
Location 6,359,621 – 6,359,732
Length 111
Max. P 0.870755
window3881 window3882

overview

Window 1

Location 6,359,621 – 6,359,732
Length 111
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 74.02
Mean single sequence MFE -27.87
Consensus MFE -21.68
Energy contribution -22.47
Covariance contribution 0.79
Combinations/Pair 1.17
Mean z-score -1.27
Structure conservation index 0.78
SVM decision value 0.87
SVM RNA-class probability 0.870755
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6359621 111 + 22224390
CUUCGCCGUUUUGUAAA--AAAAAAAAAAAGCGAGU-------GGCCUAAUCAUUGAAAGCAACGACUUCCAAAUGAGCCAUUCCAGCAUUAUGAAUGGCCGGGGCCAUCAAGUGUAACU
..((((..((((.....--.....))))..))))((-------(((((..(((((..(((......)))...)))))(((((((.........)))))))..)))))))........... ( -28.90)
>DroSec_CAF1 43553 120 + 1
CUUCACAGUUUUGUAAAGUAAAAUAAAAAAGGGAGUGGGUGGUGGCCUAAUCAUUGAAAGCAACGACUUCCAAAUGAGCUAUUCCAGCAUUAUGAACGGCCGGGGCCAUCAAGUGUAACU
((((....((((((........))))))...))))....(((((((((..(((((..(((......)))...)))))((..(((.........)))..))..)))))))))......... ( -26.20)
>DroEre_CAF1 41349 97 + 1
-----------------------UAUAUUUGGUAUUGGGCGGUGGCCUAAUCAUUCAAGGCAACGACUUCUAAAUGAGCUAUUCCAGCAUUAUGAAUGGCCGAGGCCAUCGAGUGUAACU
-----------------------(((((((((((((((((....))))))).......(((..((...((.....))(((((((.........)))))))))..)))))))))))))... ( -28.50)
>consensus
CUUC_C_GUUUUGUAAA__AAAAUAAAAAAGGGAGUGGG_GGUGGCCUAAUCAUUGAAAGCAACGACUUCCAAAUGAGCUAUUCCAGCAUUAUGAAUGGCCGGGGCCAUCAAGUGUAACU
.......................................(((((((((..(((((..(((......)))...)))))(((((((.........)))))))..)))))))))......... (-21.68 = -22.47 +   0.79)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,359,621 – 6,359,732
Length 111
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 74.02
Mean single sequence MFE -26.53
Consensus MFE -18.56
Energy contribution -18.79
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -1.20
Structure conservation index 0.70
SVM decision value 0.06
SVM RNA-class probability 0.563304
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6359621 111 - 22224390
AGUUACACUUGAUGGCCCCGGCCAUUCAUAAUGCUGGAAUGGCUCAUUUGGAAGUCGUUGCUUUCAAUGAUUAGGCC-------ACUCGCUUUUUUUUUUU--UUUACAAAACGGCGAAG
............(((((...(((((((.........)))))))(((((.((((((....)))))))))))...))))-------).(((((.((((.(...--...).)))).))))).. ( -31.30)
>DroSec_CAF1 43553 120 - 1
AGUUACACUUGAUGGCCCCGGCCGUUCAUAAUGCUGGAAUAGCUCAUUUGGAAGUCGUUGCUUUCAAUGAUUAGGCCACCACCCACUCCCUUUUUUAUUUUACUUUACAAAACUGUGAAG
.........((.((((((((((..........)))))......(((((.((((((....)))))))))))...))))).)).....................(((((((....))))))) ( -28.30)
>DroEre_CAF1 41349 97 - 1
AGUUACACUCGAUGGCCUCGGCCAUUCAUAAUGCUGGAAUAGCUCAUUUAGAAGUCGUUGCCUUGAAUGAUUAGGCCACCGCCCAAUACCAAAUAUA-----------------------
.....((.((((.(((..((((..(((.(((.((((...))))....))))))))))..))))))).))(((.(((....))).)))..........----------------------- ( -20.00)
>consensus
AGUUACACUUGAUGGCCCCGGCCAUUCAUAAUGCUGGAAUAGCUCAUUUGGAAGUCGUUGCUUUCAAUGAUUAGGCCACC_CCCACUCCCUUUUUUAUUUU__UUUACAAAAC_G_GAAG
(((.......((((((....))))))......)))((..(((.(((((.((((((....))))))))))))))..))........................................... (-18.56 = -18.79 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:15 2006