Locus 7582

Sequence ID	3L_DroMel_CAF1
Location	20,372,197 – 20,372,353
Length	156
Max. P	0.715179

overview

Window 8

Location	20,372,197 – 20,372,313
Length	116
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.22
Mean single sequence MFE	-30.47
Consensus MFE	-20.42
Energy contribution	-19.62
Covariance contribution	-0.80
Combinations/Pair	1.44
Mean z-score	-1.72
Structure conservation index	0.67
SVM decision value	0.15
SVM RNA-class probability	0.608086
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20372197 116 - 23771897
AUUUUGAUUGACUUCGACGAGAACGGAUAUCUGCUGCAGAUCUUCACAAAGAACUGCCAGGAUAGACCGACCCUCUUCCUGGAAGUUAUCCAACGCUACAAUCACAAUGUAAGAUU----
(((.((((((.....((.(((..(((.(((((...((((.((((....)))).))))..)))))..)))...))).)).((((.....))))......)))))).)))........---- ( -29.00)
>DroVir_CAF1 1694 116 - 1
AUUUUGGUGGAUUUCGAUGAAAAUGGUUACCUAUUGCAGAUCUUUACGAAGAACUGCCAGGACAGACCUACGCUCUUCCUUGAGGUCAUUCAGCGUUACAAUCAUAACGUAAGCUG----
.........((((((((.(((...((((.(((...((((.((((....)))).)))).)))...)))).......))).))))))))...((((.((((.........))))))))---- ( -27.10)
>DroPse_CAF1 396 115 - 1
AUUUUAAUUGACUUUGAUGAGAACGGCUACCUUCUGCAGAUCUUCACGAAGAACUGCCAGGAUAGGCCCACUCUCUUCCUCGAAGUGAUUCAACGCCACAAUCACAAUGUAAGAU-----
(((((((((((((((((.((((..((((...((((((((.((((....)))).))).)))))..))))...))))....)))))))((((.........)))).)))).))))))----- ( -30.00)
>DroGri_CAF1 1654 116 - 1
AUUCUCGUUGAUUUCGAUGAAAACGGAUAUCUGCUGCAGAUAUUUACGAAGAACUGCCAGGACAGGCCAACGCUCUUCCUGGAGGUCAUCCAGCGUUUCAAUCACAACGUUAGUUU----
....((((((....))))))(((((((((((((...))))))........((.((.((((((..(((....)))..)))))))).)).)))((((((........)))))).))))---- ( -32.60)
>DroWil_CAF1 2005 120 - 1
AUUUUGAUUGACUUCGAUGAGAAUGGCUAUCUAUUGCAGAUUUUUACCAAGAACUGUCAGGAUAGACCCACACUUUUCCUGGAAGUCAUUCAACGUUACAAUCAUAAUGUAAGUUUAGCU
....(((.(((((((.(.((((((((((((((...((((.((((....)))).))))..))))))..)))...))))).).))))))).)))((((((......)))))).......... ( -30.00)
>DroMoj_CAF1 1765 116 - 1
AUUCUGGUUGAUUUCGAUGAGAAUGGUUACCUGUUGCAGAUCUUUACGAAGAACUGCCAGGACAGGCCAACGCUCUUCCUGGAGGUCAUUCAGCGUUUCAAUCACAAUGUAAGAUU----
(((.(((((((...((....(((((...((((...((((.((((....)))).))))(((((..(((....)))..))))).)))))))))..))..))))))).)))........---- ( -34.10)
>consensus
AUUUUGAUUGACUUCGAUGAGAACGGAUACCUGCUGCAGAUCUUUACGAAGAACUGCCAGGACAGACCAACGCUCUUCCUGGAAGUCAUUCAACGUUACAAUCACAAUGUAAGAUU____
...((((.(((((((....................((((.((((....)))).))))(((((.(((.......))))))))))))))).))))........................... (-20.42 = -19.62 +  -0.80)

alignment

secondary structure

dotplot

Window 9

Location	20,372,233 – 20,372,353
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.50
Mean single sequence MFE	-31.83
Consensus MFE	-21.50
Energy contribution	-20.73
Covariance contribution	-0.77
Combinations/Pair	1.37
Mean z-score	-2.11
Structure conservation index	0.68
SVM decision value	0.39
SVM RNA-class probability	0.715179
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20372233 120 - 23771897
CAAGAUCAAGGAGGACAUGGAGGUCUUGAAGAAGUUGAACAUUUUGAUUGACUUCGACGAGAACGGAUAUCUGCUGCAGAUCUUCACAAAGAACUGCCAGGAUAGACCGACCCUCUUCCU
...........((((...((((((((((..(((((..(.(.....).)..)))))..))))).(((.(((((...((((.((((....)))).))))..)))))..)))..))))))))) ( -40.20)
>DroVir_CAF1 1730 120 - 1
CAAAAUCAAGGAGGACAUGGAAAUAUUGAAGAAACUGAACAUUUUGGUGGAUUUCGAUGAAAAUGGUUACCUAUUGCAGAUCUUUACGAAGAACUGCCAGGACAGACCUACGCUCUUCCU
........((((((((.......((((((((..((..(.....)..))...)))))))).....((((.(((...((((.((((....)))).)))).)))...))))...).))))))) ( -29.00)
>DroPse_CAF1 431 120 - 1
CACAAUCAAGGAGGACAUGGAAAUACUACAGAAAUUGAAUAUUUUAAUUGACUUUGAUGAGAACGGCUACCUUCUGCAGAUCUUCACGAAGAACUGCCAGGAUAGGCCCACUCUCUUCCU
........(((((((.............((((((((((.....))))))...))))..(((...((((...((((((((.((((....)))).))).)))))..))))..)))))))))) ( -28.70)
>DroGri_CAF1 1690 120 - 1
UAAAAUUAAGGAGGAUAUGGAAAUAUUAAAGAAAUUGAAUAUUCUCGUUGAUUUCGAUGAAAACGGAUAUCUGCUGCAGAUAUUUACGAAGAACUGCCAGGACAGGCCAACGCUCUUCCU
........(((((((...(..((((((.((....)).))))))..)((((.(((((.(....).(((((((((...))))))))).)))))....(((......)))))))..))))))) ( -28.90)
>DroWil_CAF1 2045 120 - 1
AAAGAUCAAGGAAGACAUGAAAAUCCUUCAGAAGUUAAACAUUUUGAUUGACUUCGAUGAGAAUGGCUAUCUAUUGCAGAUUUUUACCAAGAACUGUCAGGAUAGACCCACACUUUUCCU
........(((((((..........(((..((((((((.(.....).))))))))...)))...((((((((...((((.((((....)))).))))..)))))).)).....))))))) ( -26.60)
>DroMoj_CAF1 1801 120 - 1
UAAAAUUAAGGAGGAUAUGGAGAUACUGAAGAAACUGAACAUUCUGGUUGAUUUCGAUGAGAAUGGUUACCUGUUGCAGAUCUUUACGAAGAACUGCCAGGACAGGCCAACGCUCUUCCU
........(((((((..(((.....(((...........((((((.((((....)))).))))))....((((..((((.((((....)))).)))))))).))).)))....))))))) ( -37.60)
>consensus
CAAAAUCAAGGAGGACAUGGAAAUACUGAAGAAAUUGAACAUUUUGAUUGACUUCGAUGAGAACGGAUACCUGCUGCAGAUCUUUACGAAGAACUGCCAGGACAGACCAACGCUCUUCCU
........((((((((((.(((((.....((((........)))).....))))).))).....((...((((((((((.((((....)))).))).)))..)))))).....))))))) (-21.50 = -20.73 +  -0.77)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:48 2006