Locus 4367

Sequence ID X_DroMel_CAF1
Location 11,470,699 – 11,470,808
Length 109
Max. P 0.999227
window7171 window7172

overview

Window 1

Location 11,470,699 – 11,470,808
Length 109
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 74.68
Mean single sequence MFE -41.10
Consensus MFE -24.14
Energy contribution -25.03
Covariance contribution 0.89
Combinations/Pair 1.08
Mean z-score -2.90
Structure conservation index 0.59
SVM decision value 3.45
SVM RNA-class probability 0.999227
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11470699 109 + 22224390
GAUAUGUAUGUAUGUAUGUACAGGGGAAUUGGUGAGUCAGGGGGGGGGGGGGG--GGUUUUGGCUCCACAAAAAGUCUGCCUUAACCCCUGACAGCACCUCCCCCCUCGUC
....(((((((....)))))))(((((...((((.((((((((..((((.(((--..(((((......)))))..))).))))..))))))))..)))))))))....... ( -49.80)
>DroSec_CAF1 15876 85 + 1
GAUAUGUA--------UGUGCAUGGGGAUUGGUGGGUCAGGGGGUUUGGUGGG--G-----GGCUCCAUAAAAGGUCGGCCUUAACCCCUGACAGCCCC------C-----
..(((((.--------...)))))(((...(((..((((((((.....(((((--.-----...)))))..((((....))))..)))))))).)))))------)----- ( -33.90)
>DroSim_CAF1 10762 88 + 1
GAUAUGUA--------UGUGCAUGGGGAUUGGUGGGUCAGGGGGUUUAGUGGGGGG-----GGCUCCACAAAAGGUCGGCCUUAACCCCUGACAGCCCC------CU----
..(((((.--------...)))))(((...(((..((((((((.....((((((..-----..))))))..((((....))))..)))))))).)))))------).---- ( -39.60)
>consensus
GAUAUGUA________UGUGCAUGGGGAUUGGUGGGUCAGGGGGUUUGGUGGG__G_____GGCUCCACAAAAGGUCGGCCUUAACCCCUGACAGCCCC______CU____
..((((((..........))))))......(((..((((((((.....(((((...........)))))..((((....))))..)))))))).))).............. (-24.14 = -25.03 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 11,470,699 – 11,470,808
Length 109
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 74.68
Mean single sequence MFE -30.17
Consensus MFE -19.46
Energy contribution -20.02
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -2.36
Structure conservation index 0.65
SVM decision value 2.97
SVM RNA-class probability 0.997938
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11470699 109 - 22224390
GACGAGGGGGGAGGUGCUGUCAGGGGUUAAGGCAGACUUUUUGUGGAGCCAAAACC--CCCCCCCCCCCCCCUGACUCACCAAUUCCCCUGUACAUACAUACAUACAUAUC
.....(((((((((((..((((((((....((......(((((......)))))..--....))....)))))))).))))..)))))))..................... ( -34.80)
>DroSec_CAF1 15876 85 - 1
-----G------GGGGCUGUCAGGGGUUAAGGCCGACCUUUUAUGGAGCC-----C--CCCACCAAACCCCCUGACCCACCAAUCCCCAUGCACA--------UACAUAUC
-----(------(((..(((((((((..((((....))))...(((....-----.--.)))......)))))))).....)..)))).......--------........ ( -26.30)
>DroSim_CAF1 10762 88 - 1
----AG------GGGGCUGUCAGGGGUUAAGGCCGACCUUUUGUGGAGCC-----CCCCCCACUAAACCCCCUGACCCACCAAUCCCCAUGCACA--------UACAUAUC
----.(------(((..(((((((((..((((....))))..((((....-----....)))).....)))))))).....)..)))).......--------........ ( -29.40)
>consensus
____AG______GGGGCUGUCAGGGGUUAAGGCCGACCUUUUGUGGAGCC_____C__CCCACCAAACCCCCUGACCCACCAAUCCCCAUGCACA________UACAUAUC
............((((..((((((((..((((....))))..((((.............)))).....))))))))........))))....................... (-19.46 = -20.02 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:13 2006