Locus 9921

Sequence ID 3R_DroMel_CAF1
Location 26,541,406 – 26,541,512
Length 106
Max. P 0.988194
window15817 window15818

overview

Window 7

Location 26,541,406 – 26,541,512
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 77.52
Mean single sequence MFE -27.76
Consensus MFE -18.18
Energy contribution -18.02
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -2.39
Structure conservation index 0.65
SVM decision value 2.11
SVM RNA-class probability 0.988194
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26541406 106 + 27905053
UGGGCGCCAUUGUGCAGAUCAUGAUCCUAAUGGGGUUGAUCUGUUUAAAACACCGGAAACAAAAAGGGUUACAUCUUGCUCAAAAGGUAAUCAUUAGCAAACAAAU
((.((....(((.((((((((...(((....)))..)))))))).)))...((((....).....((((........))))....)))........))...))... ( -25.70)
>DroSec_CAF1 125720 90 + 1
UGGGCGCCAUUGUGCAGAUCAUGAUCCUAAUGGGGUUGAUCUGUCCAAAACACCGGAAA--AAACGGGUUCUACU------------UAAUCAUUUCUAC-CCAU-
((((.....(((..(((((((...(((....)))..)))))))..)))(((.(((....--...)))))).....------------............)-))).- ( -26.80)
>DroSim_CAF1 127344 91 + 1
UGGGCGCCAUUGUGCAGAUCAUGAUCCUAAUGGGGUUGAUCUGUCCAAAACACCGGAAA--AAACGGGUUCUAUC------------UAAUCAUUAUGAA-CCAAU
(((......(((..(((((((...(((....)))..)))))))..)))(((.(((....--...)))))).....------------.............-))).. ( -24.60)
>DroEre_CAF1 133935 98 + 1
UGGGCGCCAUUGGGCAGAUCAUGAUCCUAAUGGGGUUGAUCUGUCCAAAGCACCGGAAA--AAAUGGUUUCUAGCUUGCUUACAAAGUAAUCUUAACCAC------
..((.((..((((((((((((...(((....)))..)))))))))))).)).)).....--...(((((...((.(((((.....))))).)).))))).------ ( -36.00)
>DroYak_CAF1 132742 97 + 1
UCGGCGCCAUUGCGCAGAUCAUGAUCCUAAUGGGGUUGAUCUGUCCAAAACACCGGGAA--AAAUGCUUUCUAUCUUGCUAGCAAAGUAAUCUUAAUCA-------
((((.(...(((.((((((((...(((....)))..)))))))).)))..).))))...--...(((((((((......))).))))))..........------- ( -25.70)
>consensus
UGGGCGCCAUUGUGCAGAUCAUGAUCCUAAUGGGGUUGAUCUGUCCAAAACACCGGAAA__AAACGGGUUCUAUCUUGCU___AA_GUAAUCAUUACCAA_C_A__
..((.(...(((.((((((((...(((....)))..)))))))).)))..).)).................................................... (-18.18 = -18.02 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 26,541,406 – 26,541,512
Length 106
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 77.52
Mean single sequence MFE -25.13
Consensus MFE -18.38
Energy contribution -18.42
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.54
Structure conservation index 0.73
SVM decision value 0.60
SVM RNA-class probability 0.796027
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26541406 106 - 27905053
AUUUGUUUGCUAAUGAUUACCUUUUGAGCAAGAUGUAACCCUUUUUGUUUCCGGUGUUUUAAACAGAUCAACCCCAUUAGGAUCAUGAUCUGCACAAUGGCGCCCA
...((..(((((.((..((((....((((((((.........))))))))..)))).......(((((((...((....))....)))))))..)).)))))..)) ( -22.50)
>DroSec_CAF1 125720 90 - 1
-AUGG-GUAGAAAUGAUUA------------AGUAGAACCCGUUU--UUUCCGGUGUUUUGGACAGAUCAACCCCAUUAGGAUCAUGAUCUGCACAAUGGCGCCCA
-..((-(.(((((((....------------.........)))))--)))))(((((((((..(((((((...((....))....)))))))..))).)))))).. ( -25.12)
>DroSim_CAF1 127344 91 - 1
AUUGG-UUCAUAAUGAUUA------------GAUAGAACCCGUUU--UUUCCGGUGUUUUGGACAGAUCAACCCCAUUAGGAUCAUGAUCUGCACAAUGGCGCCCA
...((-(((..........------------....))))).....--.....(((((((((..(((((((...((....))....)))))))..))).)))))).. ( -24.14)
>DroEre_CAF1 133935 98 - 1
------GUGGUUAAGAUUACUUUGUAAGCAAGCUAGAAACCAUUU--UUUCCGGUGCUUUGGACAGAUCAACCCCAUUAGGAUCAUGAUCUGCCCAAUGGCGCCCA
------((((((....(((.((((....)))).))).))))))..--.....((((((((((.(((((((...((....))....))))))).)))).)))))).. ( -29.70)
>DroYak_CAF1 132742 97 - 1
-------UGAUUAAGAUUACUUUGCUAGCAAGAUAGAAAGCAUUU--UUCCCGGUGUUUUGGACAGAUCAACCCCAUUAGGAUCAUGAUCUGCGCAAUGGCGCCGA
-------...............((((..(......)..))))...--....(((((((((((.(((((((...((....))....)))))))).))).))))))). ( -24.20)
>consensus
__U_G_GUGAUAAUGAUUAC_UU___AGCAAGAUAGAACCCAUUU__UUUCCGGUGUUUUGGACAGAUCAACCCCAUUAGGAUCAUGAUCUGCACAAUGGCGCCCA
....................................................(((((((((..(((((((...((....))....)))))))..))).)))))).. (-18.38 = -18.42 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:56 2006