Locus 971

Sequence ID 3L_DroMel_CAF1
Location 2,891,138 – 2,891,287
Length 149
Max. P 0.984105
window1493 window1494 window1495 window1496

overview

Window 3

Location 2,891,138 – 2,891,255
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 95.38
Mean single sequence MFE -40.16
Consensus MFE -35.00
Energy contribution -35.68
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.84
Structure conservation index 0.87
SVM decision value 1.78
SVM RNA-class probability 0.976938
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2891138 117 + 23771897
GUUUAGAUUGUGUCAUUUUGGUAAUUUUGGCCCGCGCUGCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCACACCUCGCUAAAAUGUGCACAGUGUGCAAGUGCGCACAG
........((((((((((((((.......((.((((.((((....)))).)))).)).......((((.(........).))))))))))))).)))))((((((....)))))).. ( -43.30)
>DroSec_CAF1 135691 117 + 1
GUUUAGAUUGUGUCAUUUUGGUAAUUUUGGCCACCGCUGCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCGCACCUAGCUAAAAUGUGCACAGUGUGCAAGUGUGCACAG
......((((((((((((((((.......(((.((((...((((((.....))))))....)))).)))(....).........))))))))).)))))))(((((....))))).. ( -42.80)
>DroSim_CAF1 126296 117 + 1
GUUUAGAUUGUGUCAUUUUGGUAAUUUUGGCCCGCGCUGCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCGCACCUCGCUAAAAUGUGCACAGUGUGCAAGUGUGCACAG
......((((((((((((((((.......((.((((.((((....)))).)))).))....(.((..((((....)))).)).)))))))))).)))))))(((((....))))).. ( -41.30)
>DroEre_CAF1 142712 116 + 1
GUUUAGAUUGUGUCAUUUUGGUAAUUUUGGCCCGCGCUGCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUAGCACCUCGCUAA-AUGUGCACUCUGUGCAAGUGUGCACCG
((((((...((((..((((.((((((...((.((((.((((....)))).)))).)))))))).)))).(....)..))))....))))-))((((((.((.....)).)))))).. ( -36.70)
>DroYak_CAF1 143815 116 + 1
GUUUAGAUUGUGUCAUUUUGGUAAUUUUGGCCCGCGCUGCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUAGCACCUCGCUAA-GUGUGCACUGUGUGUAAGUGUGCACAG
..((((...((((..((((.((((((...((.((((.((((....)))).)))).)))))))).)))).(....)..))))....))))-(((..((((.......))))..))).. ( -36.70)
>consensus
GUUUAGAUUGUGUCAUUUUGGUAAUUUUGGCCCGCGCUGCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCGCACCUCGCUAAAAUGUGCACAGUGUGCAAGUGUGCACAG
......((((((((((((((((.......(((..(((...((((((.....))))))....)))..)))(....).........))))))))).)))))))((((......)))).. (-35.00 = -35.68 +   0.68) 

alignment

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secondary structure

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Window 4

Location 2,891,138 – 2,891,255
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 95.38
Mean single sequence MFE -32.78
Consensus MFE -27.60
Energy contribution -28.32
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -2.01
Structure conservation index 0.84
SVM decision value 1.67
SVM RNA-class probability 0.971017
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2891138 117 - 23771897
CUGUGCGCACUUGCACACUGUGCACAUUUUAGCGAGGUGUGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGCAGCGCGGGCCAAAAUUACCAAAAUGACACAAUCUAAAC
(((((((((.((((.......((........))((((((.(.....))))))).)))).)))......((((....))))))))))............................... ( -33.50)
>DroSec_CAF1 135691 117 - 1
CUGUGCACACUUGCACACUGUGCACAUUUUAGCUAGGUGCGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGCAGCGGUGGCCAAAAUUACCAAAAUGACACAAUCUAAAC
.((((((.((((((((.(((.((........)))))))))))))....(((.((((...((....)).((((....)))))))).)))..............)).))))........ ( -36.10)
>DroSim_CAF1 126296 117 - 1
CUGUGCACACUUGCACACUGUGCACAUUUUAGCGAGGUGCGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGCAGCGCGGGCCAAAAUUACCAAAAUGACACAAUCUAAAC
.((((((.((((((((.((.(((........)))))))))))))....((((.(((...((....)).((((....))))))).))))..............)).))))........ ( -33.10)
>DroEre_CAF1 142712 116 - 1
CGGUGCACACUUGCACAGAGUGCACAU-UUAGCGAGGUGCUAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGCAGCGCGGGCCAAAAUUACCAAAAUGACACAAUCUAAAC
.(((((((.(((((...((((....))-)).))))))))).(((((..((((.(((...((....)).((((....))))))).))))..))))))))................... ( -31.20)
>DroYak_CAF1 143815 116 - 1
CUGUGCACACUUACACACAGUGCACAC-UUAGCGAGGUGCUAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGCAGCGCGGGCCAAAAUUACCAAAAUGACACAAUCUAAAC
((((((.............(((((...-...((((((((........))))).)))...)))))....((((....))))))))))............................... ( -30.00)
>consensus
CUGUGCACACUUGCACACUGUGCACAUUUUAGCGAGGUGCGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGCAGCGCGGGCCAAAAUUACCAAAAUGACACAAUCUAAAC
..(((((.((((((((....(((........)))..))))))))....((((.(((...((....)).((((....))))))).))))..............)).)))......... (-27.60 = -28.32 +   0.72) 

alignment

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secondary structure

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Window 5

Location 2,891,176 – 2,891,287
Length 111
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 86.73
Mean single sequence MFE -31.18
Consensus MFE -25.76
Energy contribution -25.84
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -2.36
Structure conservation index 0.83
SVM decision value 1.96
SVM RNA-class probability 0.984105
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2891176 111 + 23771897
GCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCACACCUCGCUAAAAUGUGCACAGUGUGCAAGUGCGCACAGAAAGAAAAGGU--UGGAAUAUAACUAAUAAUAGU
(((....)))..((((..((...(((.(((.(........).)))))).....))..))))((((((....))))))..........(((--((.....)))))......... ( -33.20)
>DroSec_CAF1 135729 111 + 1
GCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCGCACCUAGCUAAAAUGUGCACAGUGUGCAAGUGUGCACAGAAAGAAAAGGU--UGGAAUAUAACUAAUAAUAGU
((((...((((((.......))))))...))(....)..))((((..((....((((((((.(.....).))))))))...))...))))--.........((((....)))) ( -30.40)
>DroSim_CAF1 126334 111 + 1
GCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCGCACCUCGCUAAAAUGUGCACAGUGUGCAAGUGUGCACAGAAAGAAAAGGU--UGGAAUAUAACUAAUAAUAGU
(((....)))..((((..((...(((..(((((....)))).)..))).....))..))))(((..(....)..)))..........(((--((.....)))))......... ( -32.80)
>DroEre_CAF1 142750 97 + 1
GCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUAGCACCUCGCUAA-AUGUGCACUCUGUGCAAGUGUGCACCGAAAGAAAUAGGAUAGAUAU---------------
(((....)))...(((..((.(((((((((((....)((((.....)))).-....)).))))..)))).))..)))(....)...............--------------- ( -29.30)
>DroYak_CAF1 143853 112 + 1
GCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUAGCACCUCGCUAA-GUGUGCACUGUGUGUAAGUGUGCACAGAAAGAAAUAGUAGUGAAAUAUAACUAAUAAUAGU
((((...((((((.......))))))...))(....)..))...((((((.-(((..((((.......))))..)))....(....)..))))))......((((....)))) ( -30.20)
>consensus
GCGUAUACGCAAUGUGUGCAAUUGCGGAGGCGGAAACUCGCACCUCGCUAAAAUGUGCACAGUGUGCAAGUGUGCACAGAAAGAAAAGGU__UGGAAUAUAACUAAUAAUAGU
(((....)))..((((((((.(((((((((.(........).))))((........))......))))).))))))))................................... (-25.76 = -25.84 +   0.08) 

alignment

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secondary structure

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dotplot

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Window 6

Location 2,891,176 – 2,891,287
Length 111
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 86.73
Mean single sequence MFE -25.72
Consensus MFE -21.82
Energy contribution -22.06
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -2.10
Structure conservation index 0.85
SVM decision value 1.62
SVM RNA-class probability 0.968305
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2891176 111 - 23771897
ACUAUUAUUAGUUAUAUUCCA--ACCUUUUCUUUCUGUGCGCACUUGCACACUGUGCACAUUUUAGCGAGGUGUGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGC
((((....)))).........--............((((.(((.((((.......((........))((((((.(.....))))))).)))).))).))))..(((....))) ( -27.20)
>DroSec_CAF1 135729 111 - 1
ACUAUUAUUAGUUAUAUUCCA--ACCUUUUCUUUCUGUGCACACUUGCACACUGUGCACAUUUUAGCUAGGUGCGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGC
((((....)))).........--............((((((.((((((((.(((.((........)))))))))))))....((....))...))))))....(((....))) ( -25.90)
>DroSim_CAF1 126334 111 - 1
ACUAUUAUUAGUUAUAUUCCA--ACCUUUUCUUUCUGUGCACACUUGCACACUGUGCACAUUUUAGCGAGGUGCGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGC
((((....)))).........--............((((((....)))))).((((((.(((...((((((((.(.....)))))).))))))))))))....(((....))) ( -26.50)
>DroEre_CAF1 142750 97 - 1
---------------AUAUCUAUCCUAUUUCUUUCGGUGCACACUUGCACAGAGUGCACAU-UUAGCGAGGUGCUAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGC
---------------..................((.(((((....))))).))(((((.((-(..((((((((........))))).))))))))))).....(((....))) ( -25.30)
>DroYak_CAF1 143853 112 - 1
ACUAUUAUUAGUUAUAUUUCACUACUAUUUCUUUCUGUGCACACUUACACACAGUGCACAC-UUAGCGAGGUGCUAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGC
((((....)))).......................(((((((...........))))))).-...((((((((........))))))((((((.......)))))).....)) ( -23.70)
>consensus
ACUAUUAUUAGUUAUAUUCCA__ACCUUUUCUUUCUGUGCACACUUGCACACUGUGCACAUUUUAGCGAGGUGCGAGUUUCCGCCUCCGCAAUUGCACACAUUGCGUAUACGC
....................................(((((....(((((...))))).......((((((((........))))).)))...))))).....(((....))) (-21.82 = -22.06 +   0.24) 

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:43 2006