Locus 6722

Sequence ID 3L_DroMel_CAF1
Location 17,968,189 – 17,968,326
Length 137
Max. P 0.999993
window10934 window10935

overview

Window 4

Location 17,968,189 – 17,968,291
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 65.36
Mean single sequence MFE -25.60
Consensus MFE -15.80
Energy contribution -16.47
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.62
SVM decision value 5.77
SVM RNA-class probability 0.999993
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17968189 102 - 23771897
AUUGGGACUUACCUGGUAAUCGAAGGCAUUUCCAGACGGGAAACUGUCUGAGAAAGCGAAAGAAUAGUGAAAUAUUACGUGAACUGUGCGAUUAGAUUUUGU
.(..((.....))..)((((((.((((.(((((((((((....))))))).)))))).........((((....)))).....))...))))))........ ( -29.70)
>DroSim_CAF1 99215 102 - 1
AAUGGGACUUACCUGGUAAUAGAAGGGAUUUCCAGACUGGAAACUGUCUGAGAAAGCGAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
...........(((.........)))..(((((((((.(....).))))).))))............................................... ( -14.70)
>DroEre_CAF1 93275 101 - 1
AAGGGGACUUACCUGGUAAUCGAAGGGG-UUCCAGACGGGAAACUGUCUGGGAAAGCAAAACAAUAGGGAAAUAUUACGUGAACCGUGCGAUAAGGUUUCGU
(((....))).((((....((....)).-((((((((((....))))))))))...........))))(((((.((((((.......))).))).))))).. ( -32.40)
>consensus
AAUGGGACUUACCUGGUAAUCGAAGGGAUUUCCAGACGGGAAACUGUCUGAGAAAGCGAAA_AAUAG_GAAAUAUUACGUGAAC_GUGCGAU_AG_UUU_GU
...........(((.........)))..(((((((((((....))))))).))))............................................... (-15.80 = -16.47 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,968,220 – 17,968,326
Length 106
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 82.81
Mean single sequence MFE -33.60
Consensus MFE -23.18
Energy contribution -24.07
Covariance contribution 0.89
Combinations/Pair 1.04
Mean z-score -3.25
Structure conservation index 0.69
SVM decision value 1.96
SVM RNA-class probability 0.984063
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17968220 106 - 23771897
GAACUUCAGGGGGUAGUACUGUACUUACAGGUG-UUAUUGGGACUUACCUGGUAAUCGAAGGCAUUUCCAGACGGGAAACUGUCUGAGAAAGCGAAAGAAUAGUGAA
...((((.(..((((......))))..)....(-((((..((.....))..))))).))))((.(((((((((((....))))))).)))))).............. ( -34.10)
>DroSim_CAF1 99246 106 - 1
GAACUUCUGGGGGUAGUACUGUACUUACAGGUG-UUAAUGGGACUUACCUGGUAAUAGAAGGGAUUUCCAGACUGGAAACUGUCUGAGAAAGCGAAANNNNNNNNNN
...((((((.(((((......))))).((((((-...........))))))....))))))...(((((((((.(....).))))).))))................ ( -27.30)
>DroEre_CAF1 93306 105 - 1
GAACUUG-GGGGGUGGUACUGCACUUCCAGGGGAUUAAGGGGACUUACCUGGUAAUCGAAGGGG-UUCCAGACGGGAAACUGUCUGGGAAAGCAAAACAAUAGGGAA
...((..-(((((((......)))))))..))...((((....))))((((....((....)).-((((((((((....))))))))))...........))))... ( -39.40)
>consensus
GAACUUC_GGGGGUAGUACUGUACUUACAGGUG_UUAAUGGGACUUACCUGGUAAUCGAAGGGAUUUCCAGACGGGAAACUGUCUGAGAAAGCGAAA_AAUAG_GAA
...((((...(((((......))))).((((((............))))))......))))...(((((((((((....))))))).))))................ (-23.18 = -24.07 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:27 2006