Locus 8187

Sequence ID 3R_DroMel_CAF1
Location 22,003,833 – 22,003,982
Length 149
Max. P 0.999986
window13176 window13177

overview

Window 6

Location 22,003,833 – 22,003,945
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 68.45
Mean single sequence MFE -28.40
Consensus MFE -14.06
Energy contribution -14.73
Covariance contribution 0.68
Combinations/Pair 1.20
Mean z-score -1.98
Structure conservation index 0.49
SVM decision value 0.71
SVM RNA-class probability 0.830821
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22003833 112 + 27905053
UG------GUACGCAUGAGAAUGAAAAUGGUCUGGCUUAAAUUGUAUGAAAGGAAACACAACGUCGUCAGAUAUUGGCUUUUGUCCUUUUAUUUGCAAA--GGCCACAUUCUGGCUACCA
.(------(((.((...((((((......(((((((.....((((......(....)))))....)))))))..((((((((((..........)))))--))))))))))).)))))). ( -34.20)
>DroSim_CAF1 40167 100 + 1
UGAAGAGGGUACACAUGAGCAUGAAAAUGUCCUGGCUUAAAUUGUAUGAAAGGAAACACAAUGUCUUCAGAUAUUGGCUUUUGUCCUUUUAUUUGCGAA--G------------------
..(((.(((.........((((....)))))))..)))...(((((((((((((....(((((((....))))))).......)))))))))..)))).--.------------------ ( -22.90)
>DroEre_CAF1 45882 115 + 1
GCAGGAAGUUA-GGGUGACAAUGAAAAUUGCCUGGGUAAAAUUAC-UAAAAGGAAAUAAAAUGUCGUCAGAUAUUUGCUUUUAUCAUUUUAUUUGCGACAUUGCCACAUUGUGGCA---A
(((((....((-((((((((((....))))(((.((((....)))-)...))).....(((((((....))))))).......)))))))))))))....(((((((...))))))---) ( -28.10)
>consensus
UGA_GA_GGUACGCAUGAGAAUGAAAAUGGCCUGGCUUAAAUUGUAUGAAAGGAAACACAAUGUCGUCAGAUAUUGGCUUUUGUCCUUUUAUUUGCGAA__GGCCACAUU_UGGC____A
.........................................(((((((((((((....(((((((....))))))).......)))))))))..))))...(((((.....))))).... (-14.06 = -14.73 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 22,003,867 – 22,003,982
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 62.50
Mean single sequence MFE -24.43
Consensus MFE -14.06
Energy contribution -14.73
Covariance contribution 0.68
Combinations/Pair 1.20
Mean z-score -2.62
Structure conservation index 0.58
SVM decision value 5.42
SVM RNA-class probability 0.999986
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22003867 115 + 27905053
AUUGUAUGAAAGGAAACACAACGUCGUCAGAUAUUGGCUUUUGUCCUUUUAUUUGCAAA--GGCCACAUUCUGGCUACCAUAUGCA---AUAAAUGCCAUGGAAAUAUACCUUUGCCAUA
((((((((...(....).....((.((((((...((((((((((..........)))))--)))))...)))))).))..))))))---)).......(((((((......))).)))). ( -31.40)
>DroSim_CAF1 40207 88 + 1
AUUGUAUGAAAGGAAACACAAUGUCUUCAGAUAUUGGCUUUUGUCCUUUUAUUUGCGAA--G------------------------------AAUGCCAUGCAAAUAUACGUUUGUCAUA
.(((((((((((((....(((((((....))))))).......)))))))))..)))).--.------------------------------......((((((((....))))).))). ( -20.70)
>DroEre_CAF1 45921 102 + 1
AUUAC-UAAAAGGAAAUAAAAUGUCGUCAGAUAUUUGCUUUUAUCAUUUUAUUUGCGACAUUGCCACAUUGUGGCA---AUAUGUACGUACAAAUACCA--------------UACCAUA
.....-.....((.........((((.((((((..((.......))...))))))))))((((((((...))))))---))...............)).--------------....... ( -21.20)
>consensus
AUUGUAUGAAAGGAAACACAAUGUCGUCAGAUAUUGGCUUUUGUCCUUUUAUUUGCGAA__GGCCACAUU_UGGC____AUAUG_A___A_AAAUGCCAUG_AAAUAUAC_UUUGCCAUA
.(((((((((((((....(((((((....))))))).......)))))))))..))))...(((((.....)))))............................................ (-14.06 = -14.73 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:49 2006