Locus 3616

Sequence ID X_DroMel_CAF1
Location 9,672,951 – 9,673,045
Length 94
Max. P 0.978105
window5918 window5919

overview

Window 8

Location 9,672,951 – 9,673,045
Length 94
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 69.23
Mean single sequence MFE -14.58
Consensus MFE -12.17
Energy contribution -12.51
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.03
Structure conservation index 0.83
SVM decision value 1.81
SVM RNA-class probability 0.978105
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9672951 94 + 22224390
UUGAAAGCUUUCACUUGCUUGCGCUUUUAAAAACGGAACCACC--GUUCCAUGUUCCUUCAGAUCUCUCUGUGCUACA------------------------CGCCCCGCACCCCGUCGA
((((((((........))))(((...........(((((....--))))).(((..(..((((....)))).)..)))------------------------.....)))......)))) ( -17.20)
>DroEre_CAF1 15444 114 + 1
UUGAAAGCUUUCACUUGCUUGCGCUUUUAAAAACGGAACCACC--GUUCCAUGUUCCUUCAGAUCUCUCUGUCUCACUCUCUCACUCUCUCGCUCUGACCAACACUCCCCAGCC----CG
((((((((..............))))))))....(((((....--))))).((((...(((((.(..........................).)))))..))))..........----.. ( -15.01)
>DroYak_CAF1 19698 90 + 1
UUGAAAGCUUUCACUUGCUUGCGCUUUUAAAAACGGAACCACCAUGUUCCAUGUUCCUUCAGAUCUCUCUCUCUCUCUCCCUCACA--------------------------AC----CA
((((((((..............))))))))....(((((......)))))....................................--------------------------..----.. ( -11.54)
>consensus
UUGAAAGCUUUCACUUGCUUGCGCUUUUAAAAACGGAACCACC__GUUCCAUGUUCCUUCAGAUCUCUCUGUCUCACUC_CUCAC_________________C_C_CC_CA_CC____CA
((((((((..............))))))))....(((((......))))).........((((....))))................................................. (-12.17 = -12.51 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 9,672,951 – 9,673,045
Length 94
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 69.23
Mean single sequence MFE -23.90
Consensus MFE -18.73
Energy contribution -19.07
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.10
Structure conservation index 0.78
SVM decision value 1.42
SVM RNA-class probability 0.951912
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9672951 94 - 22224390
UCGACGGGGUGCGGGGCG------------------------UGUAGCACAGAGAGAUCUGAAGGAACAUGGAAC--GGUGGUUCCGUUUUUAAAAGCGCAAGCAAGUGAAAGCUUUCAA
.....(..((((...(((------------------------(......((((....))))...(((.(((((((--....))))))).)))....))))..))).((....)))..).. ( -24.70)
>DroEre_CAF1 15444 114 - 1
CG----GGCUGGGGAGUGUUGGUCAGAGCGAGAGAGUGAGAGAGUGAGACAGAGAGAUCUGAAGGAACAUGGAAC--GGUGGUUCCGUUUUUAAAAGCGCAAGCAAGUGAAAGCUUUCAA
..----(((..(......)..)))...............((((((....((((....))))...(((.(((((((--....))))))).)))....((....))........)))))).. ( -27.70)
>DroYak_CAF1 19698 90 - 1
UG----GU--------------------------UGUGAGGGAGAGAGAGAGAGAGAUCUGAAGGAACAUGGAACAUGGUGGUUCCGUUUUUAAAAGCGCAAGCAAGUGAAAGCUUUCAA
..----..--------------------------...............(((((...((.....(((.(((((((......))))))).)))....((....))....))...))))).. ( -19.30)
>consensus
UG____GG_UG_GG_G_G_________________GUGAG_GAGUGAGACAGAGAGAUCUGAAGGAACAUGGAAC__GGUGGUUCCGUUUUUAAAAGCGCAAGCAAGUGAAAGCUUUCAA
.................................................((((....))))..((((...(((((......)))))(((((((...((....))...))))))))))).. (-18.73 = -19.07 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:50 2006