Locus 4798

Sequence ID 2L_DroMel_CAF1
Location 13,693,097 – 13,693,227
Length 130
Max. P 0.808126
window7589 window7590 window7591

overview

Window 9

Location 13,693,097 – 13,693,216
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.05
Mean single sequence MFE -18.55
Consensus MFE -16.31
Energy contribution -16.34
Covariance contribution 0.03
Combinations/Pair 1.06
Mean z-score -1.41
Structure conservation index 0.88
SVM decision value 0.35
SVM RNA-class probability 0.701682
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13693097 119 - 22407834
-CCAAUCCCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACGCAAGACUGAUUGCCUGCAAUAAAAGUGGACCAUAAAAAGCGAUAACAUCAUAUUUAUA
-....(((.(................((((.....))))(((.(((((((((.............).)))))))).))).......).)))............................. ( -18.42)
>DroVir_CAF1 70132 120 - 1
ACCAAUCCCCGAGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACAGAAGACUGAUUGCUGGCAAUAAAAAUGGACCAUAAAAAGCGAUAACAUCAUAUUUAUA
.(((......................((((.....))))((.((((((((((.............).))))))))).))........))).............................. ( -18.62)
>DroGri_CAF1 74460 120 - 1
ACCAAUCCCCUAGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUGAGCAAACAAAACAGAAGACUGAUUGCUGGCAAUAAAAAUGGACCAUAAAAAGCGAUAACAUCAUAUUUAUA
.(((......................((((.....))))((.((((((.(((.............).)).)))))).))........))).............................. ( -14.52)
>DroMoj_CAF1 81338 120 - 1
GCCGAUCUCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCUGGCAAUCAGCAAACAAAACAGGAGACUGAUUGCUGGCAAUAAAAAUGGACCAUAAAAAGCGAUAACAUCAUAUUUAUA
.(((.....)))..............(((((........((..((((((((....(......)....))))))))..)).....)))))............................... ( -23.72)
>DroAna_CAF1 53943 119 - 1
-CCAAUCCCCGGGAAUUAAACAAACACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACGCAAGACUGAUUGCCGGCAAUAAAAGUGGACCAUAAAAAGCGAUAACAUCAUAUUUAUA
-....(((.(................((((.....))))((..(((((((((.............).))))))))..)).......).)))............................. ( -17.22)
>DroPer_CAF1 60386 118 - 1
-CCAAUCCCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCUAGCAAUCAGCAAACAAAACGCAAGACUGAUUGCCGGCAAUAAAAAUGGACCAUAA-AAGCGAUAACAUCAUAUUUAUA
-(((.(((...)))............((((.....))))((..(((((((((.............).))))))))..))........))).......-...................... ( -18.82)
>consensus
_CCAAUCCCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACACAAGACUGAUUGCCGGCAAUAAAAAUGGACCAUAAAAAGCGAUAACAUCAUAUUUAUA
.(((......................((((.....))))((..(((((((((.............).))))))))..))........))).............................. (-16.31 = -16.34 +   0.03)

alignment

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secondary structure

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Window 0

Location 13,693,137 – 13,693,227
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.32
Mean single sequence MFE -29.82
Consensus MFE -15.52
Energy contribution -15.69
Covariance contribution 0.17
Combinations/Pair 1.05
Mean z-score -2.14
Structure conservation index 0.52
SVM decision value 0.64
SVM RNA-class probability 0.808126
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13693137 90 + 22407834
UGCAGGCAAUCAGUCUUGCGUUUUGUUUGCUGAUUGCUUGCCAUUAUUCAAAUGUAUUUGUUUAAUUCCCGGGGAUUGG------------------------------CAGCCACAAAU
.(((((((((((((...((.....))..)))))))))))))...........(((..(((((.(((((....)))))))------------------------------)))..)))... ( -28.00)
>DroVir_CAF1 70172 120 + 1
UGCCAGCAAUCAGUCUUCUGUUUUGUUUGCUGAUUGCUUGCCAUUAUUCAAAUGUAUUUGUUUAAUUCUCGGGGAUUGGUUCCGCUGCCAAUGCCGCUGCUCCGCUGGGCAGGCACAAAU
((((((((((((((...(......)...))))))))))((((((((..((((....))))..)))).....((.((((((......)))))).))((......))..))))))))..... ( -39.30)
>DroGri_CAF1 74500 113 + 1
UGCCAGCAAUCAGUCUUCUGUUUUGUUUGCUCAUUGCUUGCCAUUAUUCAAAUGUAUUUGUUUAAUUCUAGGGGAUUGGU--CACUG-----ACCGCUGGUCCGCUGGGCGUUCACAAAU
..(((((.((((((((((((....((..((.....))..)).((((..((((....))))..))))..))))))))))))--....(-----(((...)))).)))))............ ( -29.50)
>DroMoj_CAF1 81378 102 + 1
UGCCAGCAAUCAGUCUCCUGUUUUGUUUGCUGAUUGCCAGCCAUUAUUCAAAUGUAUUUGUUUAAUUCCCGGAGAUCGGC------------------GCUGGGCUGGGCGAGCACAAAU
.(((.(((((((((...(......)...)))))))))(((((((((..((((....))))..))))..(((.....))).------------------....)))))))).......... ( -30.40)
>DroAna_CAF1 53983 90 + 1
UGCCGGCAAUCAGUCUUGCGUUUUGUUUGCUGAUUGCUUGCCAUUAUUCAAAUGUGUUUGUUUAAUUCCCGGGGAUUGG------------------------------CGGCCACAAAU
.((.((((((((((...((.....))..)))))))))).))...........((((..((((.(((((....)))))))------------------------------))..))))... ( -27.00)
>DroPer_CAF1 60425 90 + 1
UGCCGGCAAUCAGUCUUGCGUUUUGUUUGCUGAUUGCUAGCCAUUAUUCAAAUGUAUUUGUUUAAUUCCCGGGGAUUGG------------------------------CAGCCACAAAU
.((..(((((((((...((.....))..)))))))))..))...........(((..(((((.(((((....)))))))------------------------------)))..)))... ( -24.70)
>consensus
UGCCAGCAAUCAGUCUUCCGUUUUGUUUGCUGAUUGCUUGCCAUUAUUCAAAUGUAUUUGUUUAAUUCCCGGGGAUUGG______________________________CAGCCACAAAU
.((.((((((((((..............)))))))))).)).((((..((((....))))..))))...................................................... (-15.52 = -15.69 +   0.17)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,693,137 – 13,693,227
Length 90
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.32
Mean single sequence MFE -24.86
Consensus MFE -13.65
Energy contribution -13.99
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.55
SVM decision value 0.41
SVM RNA-class probability 0.726692
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13693137 90 - 22407834
AUUUGUGGCUG------------------------------CCAAUCCCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACGCAAGACUGAUUGCCUGCA
((((((.....------------------------------((........))......)))))).((((.....))))(((.(((((((((.............).)))))))).))). ( -20.52)
>DroVir_CAF1 70172 120 - 1
AUUUGUGCCUGCCCAGCGGAGCAGCGGCAUUGGCAGCGGAACCAAUCCCCGAGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACAGAAGACUGAUUGCUGGCA
(((((((((((((..((......))))))..)))..(((.........)))........)))))).((((.....))))((.((((((((((.............).))))))))).)). ( -32.32)
>DroGri_CAF1 74500 113 - 1
AUUUGUGAACGCCCAGCGGACCAGCGGU-----CAGUG--ACCAAUCCCCUAGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUGAGCAAACAAAACAGAAGACUGAUUGCUGGCA
.........(((...)))(.((((((((-----(((((--.(((.((.....))......((((....)))).....))))..((.....))..............))))))))))))). ( -24.70)
>DroMoj_CAF1 81378 102 - 1
AUUUGUGCUCGCCCAGCCCAGC------------------GCCGAUCUCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCUGGCAAUCAGCAAACAAAACAGGAGACUGAUUGCUGGCA
......(((.....)))(((((------------------((.(((..((((..((((..((((....))))..))))..))))..))).))........(((....)))...))))).. ( -28.00)
>DroAna_CAF1 53983 90 - 1
AUUUGUGGCCG------------------------------CCAAUCCCCGGGAAUUAAACAAACACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACGCAAGACUGAUUGCCGGCA
.......((((------------------------------(((.(((...)))......((((....)))).....))))..(((((((((.............).)))))))).))). ( -22.62)
>DroPer_CAF1 60425 90 - 1
AUUUGUGGCUG------------------------------CCAAUCCCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCUAGCAAUCAGCAAACAAAACGCAAGACUGAUUGCCGGCA
((((((.....------------------------------((........))......)))))).((((.....))))((..(((((((((.............).))))))))..)). ( -21.02)
>consensus
AUUUGUGGCCG______________________________CCAAUCCCCGGGAAUUAAACAAAUACAUUUGAAUAAUGGCAAGCAAUCAGCAAACAAAACACAAGACUGAUUGCCGGCA
((((((.....................................................)))))).((((.....))))((..(((((((((.............).))))))))..)). (-13.65 = -13.99 +   0.33)

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 11:27:34 2006