Locus 5631

Sequence ID 3L_DroMel_CAF1
Location 15,464,270 – 15,464,441
Length 171
Max. P 0.887737
window8894 window8895 window8896

overview

Window 4

Location 15,464,270 – 15,464,380
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 68.29
Mean single sequence MFE -21.56
Consensus MFE -13.98
Energy contribution -14.53
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.27
Structure conservation index 0.65
SVM decision value 0.78
SVM RNA-class probability 0.849463
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15464270 110 - 23771897
UGUUGCAGUUUGGUUUCUCGGACAUAGUUAUCCGGAUUGCGACUAAUCAUUUUCACCUUCAUCCUGAUU-G-----CAUUUAUUAAGCUUUUCUGCGGCGUAA----AAUAAAAUUAAUC
.(((((((...(((((.(((((........)))))..(((((....(((...............)))))-)-----))......)))))...)))))))....----............. ( -19.96)
>DroWil_CAF1 219214 106 - 1
UGUUGCAGUUUCGUCUCACGGACAUAAUUGUCCGGAUUGCGACUUAACAUUUUCACCUUCAUUUUGCCUAGCGUUCAAUUAAAUCAAAAU---------ACA-----AAUAUAAUUUACA
.(((((((((........((((((....)))))))))))))))...............................................---------...-----............. ( -17.60)
>DroAna_CAF1 332496 110 - 1
UGCUCCAGUUUUGUCUCCCGGACAUAGUUGUCCGGAUUACGGCUUAUCAUUUUCACCUUCAUCCUGGCA-G-----AAUUAAAUCAGUAUCUUUGCGGCGCAAUUAUCAUAAAAUU----
(((.(((((((((((..(((((((....))))))).....((.............))........))))-)-----))))......(((....))))).)))..............---- ( -27.12)
>consensus
UGUUGCAGUUUCGUCUCACGGACAUAGUUGUCCGGAUUGCGACUUAUCAUUUUCACCUUCAUCCUGACU_G_____AAUUAAAUCAGAAU_U_UGCGGCGCAA____AAUAAAAUU_A__
.(((((((((........((((((....)))))))))))))))............................................................................. (-13.98 = -14.53 +   0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,464,306 – 15,464,409
Length 103
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 68.22
Mean single sequence MFE -23.36
Consensus MFE -14.86
Energy contribution -15.53
Covariance contribution 0.67
Combinations/Pair 1.10
Mean z-score -1.35
Structure conservation index 0.64
SVM decision value 0.95
SVM RNA-class probability 0.887737
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15464306 103 - 23771897
UUUC-UUCG----------UAUAUGAACUUACUUUUGUGCUGUUGCAGUUUGGUUUCUCGGACAUAGUUAUCCGGAUUGCGACUAAUCAUUUUCACCUUCAUCCUGAUU-G-----CAUU
....-...(----------((........)))....((((.((((((((((((...((.......))....)))))))))))).(((((...............)))))-)-----))). ( -19.06)
>DroWil_CAF1 219240 119 - 1
UGUG-UCUGGAUGGAGCUAUCUAUAUAGUUACCUUUGUGUUGUUGCAGUUUCGUCUCACGGACAUAAUUGUCCGGAUUGCGACUUAACAUUUUCACCUUCAUUUUGCCUAGCGUUCAAUU
...(-(..((..((((((((....)))))).))..(((...(((((((((........((((((....)))))))))))))))...))).................))..))........ ( -28.70)
>DroAna_CAF1 332532 100 - 1
GUGUUAUUG--------------UCUACUCACUUUUGUGAUGCUCCAGUUUUGUCUCCCGGACAUAGUUGUCCGGAUUACGGCUUAUCAUUUUCACCUUCAUCCUGGCA-G-----AAUU
.........--------------.....((((....))))......(((((((((..(((((((....))))))).....((.............))........))))-)-----)))) ( -22.32)
>consensus
UUUC_UUUG__________U_UAUAUACUUACUUUUGUGAUGUUGCAGUUUCGUCUCACGGACAUAGUUGUCCGGAUUGCGACUUAUCAUUUUCACCUUCAUCCUGACU_G_____AAUU
....................................((((((((((((((........((((((....)))))))))))))))..))))).............................. (-14.86 = -15.53 +   0.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,464,340 – 15,464,441
Length 101
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 60.41
Mean single sequence MFE -20.77
Consensus MFE -10.46
Energy contribution -10.13
Covariance contribution -0.33
Combinations/Pair 1.20
Mean z-score -1.52
Structure conservation index 0.50
SVM decision value 0.69
SVM RNA-class probability 0.822588
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15464340 101 + 23771897
GCAAUCCGGAUAACUAUGUCCGAGAAACCAAACUGCAACAGCACAAAAGUAAGUUCAUAUA----------CGAA-GAAAGACCAAAGUAUUAUAAGAA------UGCCAC--UUUCAGU
....((((((((....)))))).))........(((....))).....(((........))----------)...-(((((......(((((.....))------)))..)--))))... ( -13.70)
>DroWil_CAF1 219280 113 + 1
GCAAUCCGGACAAUUAUGUCCGUGAGACGAAACUGCAACAACACAAAGGUAACUAUAUAGAUAGCUCCAUCCAGA-CACAAACAAAAG----ACAUGAAUUUCCAUUCAAU--UUGCAGU
....((((((((....)))))).))......(((((((.........((...((((....))))..)).......-............----...(((((....)))))..--))))))) ( -22.50)
>DroAna_CAF1 332566 100 + 1
GUAAUCCGGACAACUAUGUCCGGGAGACAAAACUGGAGCAUCACAAAAGUGAGUAGA--------------CAAUAACACGACAAUACGAUUCUGAGGC------UCUUAUUUUUUCAGU
....((((((((....)))))))).((.((((..(((((.((((....)))).....--------------........((......))........))------)))..)))).))... ( -26.10)
>consensus
GCAAUCCGGACAACUAUGUCCGAGAGACAAAACUGCAACAACACAAAAGUAAGUACAUA_A__________CAAA_AAAAGACAAAAG_AUUAUAAGAA______UCCAAU__UUUCAGU
....((((((((....)))))).))......(((((((...........................................................................))))))) (-10.46 = -10.13 +  -0.33)

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 11:55:03 2006