Locus 4265

Sequence ID X_DroMel_CAF1
Location 11,211,136 – 11,211,254
Length 118
Max. P 0.997947
window7007 window7008

overview

Window 7

Location 11,211,136 – 11,211,254
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 74.91
Mean single sequence MFE -34.87
Consensus MFE -24.94
Energy contribution -25.54
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.72
SVM decision value 2.97
SVM RNA-class probability 0.997947
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11211136 118 + 22224390
AAGCGAACUCUUUGGGAUCUAAAGCUCACCGAUUACAAGUGAACCACUCACCUGAUGUAGAUACCCAGGUAGGAGAUGAAGGACUUCAUCUCCUUCUCCGUCUGAAACUGCAUCUCGU
..((((.....((((((.(....).)).))))......((((.....))))..(((((((.......((.((((((((((....))))))))))...))........))))))))))) ( -34.06)
>DroSec_CAF1 8173 107 + 1
AAGCA-----------GUCUGAAGCUCACCGAGUACGAGUGGACAACUCACCUGAUGUAGAUGCCCAGGUAGGAGAUGAAGGACUUCAUCUCCUUCUCGGUCUGGAACUGCAUCUCGU
..(((-----------((....((...((((((...((((.....))))(((((..((....)).)))))((((((((((....)))))))))).))))))))...)))))....... ( -39.30)
>DroSim_CAF1 8748 107 + 1
AAGCA-----------GUCUGAAGCUCACCGAGUACAAGUGGACAACUCACCUGAUGUAGAUGCCCAGGUAGGAGAUGAAGGACUUCAUCUCCUUCUCCGUCUGGAACUGCAUCUCGU
..(((-----------((.....((((...)))).((..((((......(((((..((....)).)))))((((((((((....))))))))))..))))..))..)))))....... ( -34.70)
>DroEre_CAF1 8804 89 + 1
AAACCGACGCUUUUGG-----------------------------ACUCACCUGAUGUAGAUGCCCAGGUAGGAGAUGAAGGACUUCAUCUCCUUCUCCGUCCGAAACUGCAUCUCGU
.....((.((((((((-----------------------------((..(((((..((....)).)))))((((((((((....)))))))))).....))))))))..)).)).... ( -31.80)
>DroYak_CAF1 6992 101 + 1
AAAGCCACUGCUUUGGAUCUG-----------------GAUGAGAACUCACCUGAUGUAGAUGCCCAGGUAGGAGAUGAAGGACUUCAUCUCCUUCUCCGUCUGGAACUGCAUCUCGU
(((((....)))))((.((..-----------------((((((((...(((((..((....)).))))).(((((((((....))))))))))))).))))..)).))......... ( -34.50)
>consensus
AAGCA_AC___UU_GGAUCUGAAGCUCACCGA_UAC_AGUGGACAACUCACCUGAUGUAGAUGCCCAGGUAGGAGAUGAAGGACUUCAUCUCCUUCUCCGUCUGGAACUGCAUCUCGU
.................................................((..(((((((...((..((.((((((((((....))))))))))...))....))..)))))))..)) (-24.94 = -25.54 +   0.60)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,211,136 – 11,211,254
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 74.91
Mean single sequence MFE -36.96
Consensus MFE -24.18
Energy contribution -23.98
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -2.58
Structure conservation index 0.65
SVM decision value 2.96
SVM RNA-class probability 0.997923
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11211136 118 - 22224390
ACGAGAUGCAGUUUCAGACGGAGAAGGAGAUGAAGUCCUUCAUCUCCUACCUGGGUAUCUACAUCAGGUGAGUGGUUCACUUGUAAUCGGUGAGCUUUAGAUCCCAAAGAGUUCGCUU
.((((((((.........(((.(.((((((((((....)))))))))).)))).))))).....((((((((...))))))))...)))(((((((((.........))))))))).. ( -39.30)
>DroSec_CAF1 8173 107 - 1
ACGAGAUGCAGUUCCAGACCGAGAAGGAGAUGAAGUCCUUCAUCUCCUACCUGGGCAUCUACAUCAGGUGAGUUGUCCACUCGUACUCGGUGAGCUUCAGAC-----------UGCUU
.......((((((..((((((((.((((((((((....))))))))))...((((((.((.(((...))))).))))))......))))))...))...)))-----------))).. ( -39.90)
>DroSim_CAF1 8748 107 - 1
ACGAGAUGCAGUUCCAGACGGAGAAGGAGAUGAAGUCCUUCAUCUCCUACCUGGGCAUCUACAUCAGGUGAGUUGUCCACUUGUACUCGGUGAGCUUCAGAC-----------UGCUU
.((((.(((((((((....)))).((((((((((....))))))))))...((((((.((.(((...))))).)))))).)))))))))..((((.......-----------.)))) ( -37.60)
>DroEre_CAF1 8804 89 - 1
ACGAGAUGCAGUUUCGGACGGAGAAGGAGAUGAAGUCCUUCAUCUCCUACCUGGGCAUCUACAUCAGGUGAGU-----------------------------CCAAAAGCGUCGGUUU
....(((((..(((.((((.....((((((((((....))))))))))((((((.........))))))..))-----------------------------))))).)))))..... ( -34.40)
>DroYak_CAF1 6992 101 - 1
ACGAGAUGCAGUUCCAGACGGAGAAGGAGAUGAAGUCCUUCAUCUCCUACCUGGGCAUCUACAUCAGGUGAGUUCUCAUC-----------------CAGAUCCAAAGCAGUGGCUUU
...((((((..((((....)))).((((((((((....))))))))))......))))))..(((.(((((....)))))-----------------..)))..(((((....))))) ( -33.60)
>consensus
ACGAGAUGCAGUUCCAGACGGAGAAGGAGAUGAAGUCCUUCAUCUCCUACCUGGGCAUCUACAUCAGGUGAGUUGUCCACU_GUA_UCGGUGAGCUUCAGACCC_AA___GU_GGCUU
...((((((..((((....)))).((((((((((....))))))))))......)))))).......................................................... (-24.18 = -23.98 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:39 2006