Locus 979

Sequence ID 2L_DroMel_CAF1
Location 2,807,884 – 2,808,038
Length 154
Max. P 0.996483
window1571 window1572 window1573 window1574

overview

Window 1

Location 2,807,884 – 2,807,999
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.94
Mean single sequence MFE -34.91
Consensus MFE -25.22
Energy contribution -24.62
Covariance contribution -0.60
Combinations/Pair 1.23
Mean z-score -1.61
Structure conservation index 0.72
SVM decision value 0.04
SVM RNA-class probability 0.554366
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2807884 115 + 22407834
GAGUGCCAAAAAUGCCAACAGAUAGUGACGCCGCCAACUGG-GGGCGUGGCAUUGUCAGGGUGGCG----GGAGGUUAAAAAUAAAAUUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCU
....((((....(((((.(.((((((((((((.((....))-.)))))..))))))).)..)))))----...............(((((((.............)))))))...)))). ( -36.42)
>DroSec_CAF1 30775 119 + 1
GAGUGCCAAAAAUGCCAUCAGAUAGUGACGCCGCCCACUGG-GGGCGUGGCAUCGUCAGGUUGGGGAGGGGGAGGUUAAAAAUAAAAGUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCU
.............((((((.(((.((.(((((.(((...))-)))))).)))))...........................................(((((......))))))))))). ( -30.50)
>DroSim_CAF1 32621 119 + 1
GAGUGCCAAAAAUGCCAUCAGAUAGUGACGCCGCCCACUGG-GGGCGUGGCAUCGUCAGGUUGGGGAGGUGGAGGUUAAAAAUAAAAGUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCU
....((((......(((((.....((.(((((.(((...))-)))))).)).((.((.....)).))))))).........................(((((......)))))..)))). ( -32.90)
>DroEre_CAF1 31478 108 + 1
GGGUGCCAAAAAAGCAGCCAGAUAGUGACGCCGCCCAUUGG-GGGCGUGGCAUCGUUGGGU-----------GGGCUAAAAAUAAAACUGCAAUUCAGAAUUUUAUGCAAUUCGGUGGCU
....(((.....(((.(((.(((.((.(((((.(((...))-)))))).)))))....)))-----------..))).........((((.((((((........)).))))))))))). ( -34.80)
>DroYak_CAF1 30658 109 + 1
GAGCGCCAAAAAUGCCGCCACAUAGUGACGCCGCCAAUGGGGGGGCGUGGCAUGGUGGGGU-----------GGGUUAAAAAUAAAACUGCAAUUAAGAAUUUUAUGCAAUUUGGCGGCU
.(((((((((....(((((.(((.((.(((((.((.....)).))))).))...))).)))-----------))..............((((.............)))).)))))).))) ( -39.92)
>consensus
GAGUGCCAAAAAUGCCACCAGAUAGUGACGCCGCCCACUGG_GGGCGUGGCAUCGUCAGGUUGG_G____GGAGGUUAAAAAUAAAACUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCU
.............((((((.(((.((.(((((.((.....).)))))).)))))..................................((((.............))))....)))))). (-25.22 = -24.62 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,807,884 – 2,807,999
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.94
Mean single sequence MFE -29.96
Consensus MFE -25.56
Energy contribution -25.84
Covariance contribution 0.28
Combinations/Pair 1.23
Mean z-score -2.73
Structure conservation index 0.85
SVM decision value 2.70
SVM RNA-class probability 0.996483
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2807884 115 - 22407834
AGCCACCGAAUUGCAUAAAAUUCUUAAUUGCAAUUUUAUUUUUAACCUCC----CGCCACCCUGACAAUGCCACGCCC-CCAGUUGGCGGCGUCACUAUCUGUUGGCAUUUUUGGCACUC
.((((..((((((((.............))))))))..............----.((((.(..((.(.((..(((((.-((....)).))))))).).)).).)))).....)))).... ( -28.82)
>DroSec_CAF1 30775 119 - 1
AGCCACCGAAUUGCAUAAAAUUCUUAAUUGCACUUUUAUUUUUAACCUCCCCCUCCCCAACCUGACGAUGCCACGCCC-CCAGUGGGCGGCGUCACUAUCUGAUGGCAUUUUUGGCACUC
.((((..(((((......)))))...........................................((((((((((((-((...))).))))(((.....))))))))))..)))).... ( -28.00)
>DroSim_CAF1 32621 119 - 1
AGCCACCGAAUUGCAUAAAAUUCUUAAUUGCACUUUUAUUUUUAACCUCCACCUCCCCAACCUGACGAUGCCACGCCC-CCAGUGGGCGGCGUCACUAUCUGAUGGCAUUUUUGGCACUC
.((((..(((((......)))))...........................................((((((((((((-((...))).))))(((.....))))))))))..)))).... ( -28.00)
>DroEre_CAF1 31478 108 - 1
AGCCACCGAAUUGCAUAAAAUUCUGAAUUGCAGUUUUAUUUUUAGCCC-----------ACCCAACGAUGCCACGCCC-CCAAUGGGCGGCGUCACUAUCUGGCUGCUUUUUUGGCACCC
.((((..((((((((.............))))))))......(((((.-----------.......((((((..((((-.....)))))))))).......)))))......)))).... ( -33.18)
>DroYak_CAF1 30658 109 - 1
AGCCGCCAAAUUGCAUAAAAUUCUUAAUUGCAGUUUUAUUUUUAACCC-----------ACCCCACCAUGCCACGCCCCCCCAUUGGCGGCGUCACUAUGUGGCGGCAUUUUUGGCGCUC
(((.(((((((((((.............))))))..............-----------........(((((..(((((......)).)))(((((...))))))))))..)))))))). ( -31.82)
>consensus
AGCCACCGAAUUGCAUAAAAUUCUUAAUUGCACUUUUAUUUUUAACCUCC____C_CCAACCUGACGAUGCCACGCCC_CCAGUGGGCGGCGUCACUAUCUGAUGGCAUUUUUGGCACUC
.((((..((((((((.............))))))))..............................((((((.((((........))))..((((.....))))))))))..)))).... (-25.56 = -25.84 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,807,924 – 2,808,038
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.45
Mean single sequence MFE -36.69
Consensus MFE -28.42
Energy contribution -28.10
Covariance contribution -0.32
Combinations/Pair 1.07
Mean z-score -2.08
Structure conservation index 0.77
SVM decision value 1.06
SVM RNA-class probability 0.908465
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2807924 114 + 22407834
G-GGGCGUGGCAUUGUCAGGGUGGCG----GGAGGUUAAAAAUAAAAUUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCUUGGCG-UUUUCAAGAAGCUGAUGCAAUGCUGCACCCCACU
(-(((.(..(((((((.......(((----.((((((...(((.........)))...)))))).)))...(((((..(((((..-...)))))..))))).)))))))..).))))... ( -37.20)
>DroSec_CAF1 30815 118 + 1
G-GGGCGUGGCAUCGUCAGGUUGGGGAGGGGGAGGUUAAAAAUAAAAGUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCUUGGCG-UUUUCAAGAAGCUGAUGCAAUGCUGCACCCCACU
(-(((.(..((((((((((.((......(..((.(((((..((.....((((.............)))).....))...))))).-))..)...)).))))))..))))..).))))... ( -36.42)
>DroSim_CAF1 32661 118 + 1
G-GGGCGUGGCAUCGUCAGGUUGGGGAGGUGGAGGUUAAAAAUAAAAGUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCUUGGCG-UUUUCAAGAAGCUGAUGCAAUGCUGCACCCCACU
(-(((.(..((((((((((.(((..((.((.(((.(((..........((((.............))))......)))))).)).-))..)))....))))))..))))..).))))... ( -37.31)
>DroEre_CAF1 31518 107 + 1
G-GGGCGUGGCAUCGUUGGGU-----------GGGCUAAAAAUAAAACUGCAAUUCAGAAUUUUAUGCAAUUCGGUGGCUUGGCG-UUUUCAAGAAGCUGAUGCAAUGCUGCACCCCACU
(-(((.(..((((..((((((-----------..((.............)).)))))).......((((..(((((..(((((..-...)))))..)))))))))))))..).))))... ( -36.62)
>DroYak_CAF1 30698 109 + 1
GGGGGCGUGGCAUGGUGGGGU-----------GGGUUAAAAAUAAAACUGCAAUUAAGAAUUUUAUGCAAUUUGGCGGCUUGGCGAUUUUCAAGUAGCUGAUGCAAUGCUGCACCCCACU
.((((.(..((((..((.(((-----------...(((....))).))).)).............((((..(..((.((((((......)))))).))..)))))))))..).))))... ( -35.90)
>consensus
G_GGGCGUGGCAUCGUCAGGUUGG_G____GGAGGUUAAAAAUAAAACUGCAAUUAAGAAUUUUAUGCAAUUCGGUGGCUUGGCG_UUUUCAAGAAGCUGAUGCAAUGCUGCACCCCACU
(.(((.(..((((............................((((((...(......)..))))))(((..(((((..(((((......)))))..)))))))).))))..).))))... (-28.42 = -28.10 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 2,807,924 – 2,808,038
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.45
Mean single sequence MFE -26.47
Consensus MFE -21.26
Energy contribution -21.50
Covariance contribution 0.24
Combinations/Pair 1.13
Mean z-score -2.01
Structure conservation index 0.80
SVM decision value 1.21
SVM RNA-class probability 0.930937
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2807924 114 - 22407834
AGUGGGGUGCAGCAUUGCAUCAGCUUCUUGAAAA-CGCCAAGCCACCGAAUUGCAUAAAAUUCUUAAUUGCAAUUUUAUUUUUAACCUCC----CGCCACCCUGACAAUGCCACGCCC-C
...((((((..((((((..((((...((((....-...)))).....((((((((.............))))))))..............----.......))))))))))..)))))-) ( -29.02)
>DroSec_CAF1 30815 118 - 1
AGUGGGGUGCAGCAUUGCAUCAGCUUCUUGAAAA-CGCCAAGCCACCGAAUUGCAUAAAAUUCUUAAUUGCACUUUUAUUUUUAACCUCCCCCUCCCCAACCUGACGAUGCCACGCCC-C
...((((((..((((((..((((...((((....-...)))).....(((((......)))))......................................))))))))))..)))))-) ( -25.50)
>DroSim_CAF1 32661 118 - 1
AGUGGGGUGCAGCAUUGCAUCAGCUUCUUGAAAA-CGCCAAGCCACCGAAUUGCAUAAAAUUCUUAAUUGCACUUUUAUUUUUAACCUCCACCUCCCCAACCUGACGAUGCCACGCCC-C
...((((((..((((((..((((...((((....-...)))).....(((((......)))))......................................))))))))))..)))))-) ( -25.50)
>DroEre_CAF1 31518 107 - 1
AGUGGGGUGCAGCAUUGCAUCAGCUUCUUGAAAA-CGCCAAGCCACCGAAUUGCAUAAAAUUCUGAAUUGCAGUUUUAUUUUUAGCCC-----------ACCCAACGAUGCCACGCCC-C
...((((((..((((((.....(((.....((((-(..(((..((..(((((......)))))))..)))..)))))......)))..-----------......))))))..)))))-) ( -26.92)
>DroYak_CAF1 30698 109 - 1
AGUGGGGUGCAGCAUUGCAUCAGCUACUUGAAAAUCGCCAAGCCGCCAAAUUGCAUAAAAUUCUUAAUUGCAGUUUUAUUUUUAACCC-----------ACCCCACCAUGCCACGCCCCC
.((((((((.............((..((((........))))..)).((((((((.............))))))))...........)-----------))))))).............. ( -25.42)
>consensus
AGUGGGGUGCAGCAUUGCAUCAGCUUCUUGAAAA_CGCCAAGCCACCGAAUUGCAUAAAAUUCUUAAUUGCACUUUUAUUUUUAACCUCC____C_CCAACCUGACGAUGCCACGCCC_C
....(((((..((((((.........((((........)))).....((((((((.............)))))))).............................))))))..))))).. (-21.26 = -21.50 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:13 2006