Locus 4326

Sequence ID 3R_DroMel_CAF1
Location 11,443,917 – 11,444,034
Length 117
Max. P 0.994349
window7070 window7071

overview

Window 0

Location 11,443,917 – 11,444,034
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.33
Mean single sequence MFE -31.42
Consensus MFE -21.88
Energy contribution -22.60
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -2.12
Structure conservation index 0.70
SVM decision value 0.20
SVM RNA-class probability 0.631043
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11443917 117 + 27905053
UUUUUCCAUU--UU-UUUGGUGGGCUUUUCCAGAAGUAGAACCCAGGGGGUUGCUUCGGAAAAUAUUUAAUAAAAUGCCGGUAGAAUUUAAUUAGAUUUUAAUUGCAUUUGCUACCGGAG
..........--..-((((((((..((((((.(((((((..((...))..))))))))))))).........((((((...((((((((....))))))))...)))))).)))))))). ( -33.90)
>DroSec_CAF1 183873 118 + 1
UUUUUCCAUU--UUUUUUGGGGGGGUUUUCCAGAAGUGGAACCCAGGGGGUUGCUUCGGAAAAUAUUUAAUAAAAUGCCGGUAGAAUUUAAUUAGAUUUUAAUUGCAUUUGCUACCGGAG
.((..(((..--.....)))..))(((((((.(((((..(((((...))))))))))))))))).............(((((((.((.(((((((...))))))).))...))))))).. ( -34.80)
>DroSim_CAF1 178457 117 + 1
UUUUUCCAUU--UU-UUUGGGGGGGUUUUCCAGAAGUGGAACCCAGGGGGUUGCUUCGGAAAAUAUUUAAUAAAAUGCCGGUAGAAUUUAAUUAGAUUUUAAUUGCAUUUGCUACCGGAG
.((..(((..--..-..)))..))(((((((.(((((..(((((...))))))))))))))))).............(((((((.((.(((((((...))))))).))...))))))).. ( -35.30)
>DroEre_CAF1 173281 115 + 1
UUGUUUUUUU--A--UUUUGGGGGGUUCUGCAGAGGAGGAAGCCAGG-GGUUGCUUCGCGAAAUAUUUAAUAAAAUGCCGGUAGAAUUUAAUUAGAUUUUAAUUGCAUUUGCUACCGGAG
(((((....(--(--(((((.(((((.((.(...((......)).).-))..))))).)))))))...)))))....(((((((.((.(((((((...))))))).))...))))))).. ( -27.20)
>DroYak_CAF1 176831 118 + 1
UUAUUUUUUUCAC--UUUUGGGGGGUUUUUGAGGAGAGCAAGCCAGGGGGUUGCUACGAAAAAUAUUUAAUAAAAUGCCGGUAGAAUUUAAUUAGAUUUUAAUUGCAUUUGCUACCGGAG
.....((((((.(--((((.(((....))).)))))(((((.((...)).)))))..))))))..............(((((((.((.(((((((...))))))).))...))))))).. ( -25.90)
>consensus
UUUUUCCAUU__UU_UUUGGGGGGGUUUUCCAGAAGUGGAACCCAGGGGGUUGCUUCGGAAAAUAUUUAAUAAAAUGCCGGUAGAAUUUAAUUAGAUUUUAAUUGCAUUUGCUACCGGAG
........................(((((((.(((((..((((.....)))))))))))))))).............(((((((.((.(((((((...))))))).))...))))))).. (-21.88 = -22.60 +   0.72)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,443,917 – 11,444,034
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.33
Mean single sequence MFE -23.08
Consensus MFE -17.74
Energy contribution -18.22
Covariance contribution 0.48
Combinations/Pair 1.10
Mean z-score -3.28
Structure conservation index 0.77
SVM decision value 2.47
SVM RNA-class probability 0.994349
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11443917 117 - 27905053
CUCCGGUAGCAAAUGCAAUUAAAAUCUAAUUAAAUUCUACCGGCAUUUUAUUAAAUAUUUUCCGAAGCAACCCCCUGGGUUCUACUUCUGGAAAAGCCCACCAAA-AA--AAUGGAAAAA
.((((((((..(((..(((((.....)))))..))))))))(((((((....)))).((((((((((.(((((...)))))...)))).))))))))).......-..--...))).... ( -27.50)
>DroSec_CAF1 183873 118 - 1
CUCCGGUAGCAAAUGCAAUUAAAAUCUAAUUAAAUUCUACCGGCAUUUUAUUAAAUAUUUUCCGAAGCAACCCCCUGGGUUCCACUUCUGGAAAACCCCCCCAAAAAA--AAUGGAAAAA
..(((((((..(((..(((((.....)))))..))))))))))..............((((((((((.(((((...)))))...)))).)))))).....(((.....--..)))..... ( -25.70)
>DroSim_CAF1 178457 117 - 1
CUCCGGUAGCAAAUGCAAUUAAAAUCUAAUUAAAUUCUACCGGCAUUUUAUUAAAUAUUUUCCGAAGCAACCCCCUGGGUUCCACUUCUGGAAAACCCCCCCAAA-AA--AAUGGAAAAA
..(((((((..(((..(((((.....)))))..))))))))))..............((((((((((.(((((...)))))...)))).)))))).....(((..-..--..)))..... ( -26.20)
>DroEre_CAF1 173281 115 - 1
CUCCGGUAGCAAAUGCAAUUAAAAUCUAAUUAAAUUCUACCGGCAUUUUAUUAAAUAUUUCGCGAAGCAACC-CCUGGCUUCCUCCUCUGCAGAACCCCCCAAAA--U--AAAAAAACAA
..(((((((..(((..(((((.....)))))..))))))))))..(((((((...........(((((....-....)))))....((....)).........))--)--))))...... ( -18.30)
>DroYak_CAF1 176831 118 - 1
CUCCGGUAGCAAAUGCAAUUAAAAUCUAAUUAAAUUCUACCGGCAUUUUAUUAAAUAUUUUUCGUAGCAACCCCCUGGCUUGCUCUCCUCAAAAACCCCCCAAAA--GUGAAAAAAAUAA
..(((((((..(((..(((((.....)))))..))))))))))..............(((((((.(((((((....)).)))))).........((.........--))))))))..... ( -17.70)
>consensus
CUCCGGUAGCAAAUGCAAUUAAAAUCUAAUUAAAUUCUACCGGCAUUUUAUUAAAUAUUUUCCGAAGCAACCCCCUGGGUUCCACUUCUGGAAAACCCCCCCAAA_AA__AAUGGAAAAA
..(((((((..(((..(((((.....)))))..))))))))))..............((((((((((.((((.....))))...)))).))))))......................... (-17.74 = -18.22 +   0.48)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:17 2006