Locus 5103

Sequence ID 3R_DroMel_CAF1
Location 13,445,684 – 13,445,777
Length 93
Max. P 0.992870
window8321 window8322

overview

Window 1

Location 13,445,684 – 13,445,777
Length 93
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 84.00
Mean single sequence MFE -32.30
Consensus MFE -26.60
Energy contribution -26.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.82
SVM decision value 1.54
SVM RNA-class probability 0.962639
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13445684 93 + 27905053
CUCAAUGGUCUAGGGGUAUGAUUCUCGCUUUGGGUGCGAGAGGUCCCGGGUUCAAAUCCCGGUUGAGCCCGU-----UCUAACUUUUUG-GAACUU--CGU----
.............(((.....(((((((.......)))))))..)))((((((((.......))))))))((-----(((((....)))-))))..--...---- ( -32.20)
>DroGri_CAF1 2127 94 + 1
CUCAAUGGUCUAGGGGUAUGAUUCUCGCUUUGGGUGCGAGAGGUCCCGGGUUCAAAUCCCGGUUGAGCCCAU-----UCGAAUUUUUUGUUUAUUUAUA------
.((..........(((.....(((((((.......)))))))..)))((((((((.......))))))))..-----..))..................------ ( -26.80)
>DroWil_CAF1 4722 101 + 1
CUCAAUGGUCUAGGGGUAUGAUUCUCGCUUUGGGUGCGAGAGGUCCCGGGUUCAAAUCCCGGUUGAGCCCGGCAAUUUCU---UUUUUU-UUACUUUUAGAGUAG
.....((.((((((((((.(((((((((.......)))))).)))((((((((((.......))))))))))........---......-.)))))))))).)). ( -36.80)
>DroMoj_CAF1 1885 94 + 1
CUCAAUGGUCUAGGGGUAUGAUUCUCGCUUUGGGUGCGAGAGGUCCCGGGUUCAAAUCCCGGUUGAGCCCAG-----ACCC-UUUUUUUUAUAUUUUUAG-----
.........((((((((((((.((((((.......))))))((((..((((((((.......)))))))).)-----))).-......))))))))))))----- ( -33.40)
>consensus
CUCAAUGGUCUAGGGGUAUGAUUCUCGCUUUGGGUGCGAGAGGUCCCGGGUUCAAAUCCCGGUUGAGCCCAG_____UCUA_UUUUUUG_UUACUUUUAG_____
.............(((.....(((((((.......)))))))..)))((((((((.......))))))))................................... (-26.60 = -26.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 13,445,684 – 13,445,777
Length 93
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 84.00
Mean single sequence MFE -26.55
Consensus MFE -22.55
Energy contribution -22.55
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.71
Structure conservation index 0.85
SVM decision value 2.36
SVM RNA-class probability 0.992870
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13445684 93 - 27905053
----ACG--AAGUUC-CAAAAAGUUAGA-----ACGGGCUCAACCGGGAUUUGAACCCGGGACCUCUCGCACCCAAAGCGAGAAUCAUACCCCUAGACCAUUGAG
----.((--(.((((-..........))-----))(((.....(((((.......)))))((..((((((.......)))))).))....))).......))).. ( -24.90)
>DroGri_CAF1 2127 94 - 1
------UAUAAAUAAACAAAAAAUUCGA-----AUGGGCUCAACCGGGAUUUGAACCCGGGACCUCUCGCACCCAAAGCGAGAAUCAUACCCCUAGACCAUUGAG
------..................((.(-----((((......(((((.......)))))((..((((((.......)))))).))...........))))))). ( -24.30)
>DroWil_CAF1 4722 101 - 1
CUACUCUAAAAGUAA-AAAAAA---AGAAAUUGCCGGGCUCAACCGGGAUUUGAACCCGGGACCUCUCGCACCCAAAGCGAGAAUCAUACCCCUAGACCAUUGAG
....((((...(((.-......---........(((((.((((.......)))).)))))((..((((((.......)))))).)).)))...))))........ ( -24.30)
>DroMoj_CAF1 1885 94 - 1
-----CUAAAAAUAUAAAAAAAA-GGGU-----CUGGGCUCAACCGGGAUUUGAACCCGGGACCUCUCGCACCCAAAGCGAGAAUCAUACCCCUAGACCAUUGAG
-----..................-.(((-----(((((.....(((((.......)))))((..((((((.......)))))).)).....))))))))...... ( -32.70)
>consensus
_____CUAAAAAUAA_AAAAAAA_UAGA_____ACGGGCUCAACCGGGAUUUGAACCCGGGACCUCUCGCACCCAAAGCGAGAAUCAUACCCCUAGACCAUUGAG
...................................(((.....(((((.......)))))((..((((((.......)))))).))....)))............ (-22.55 = -22.55 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:18 2006