Locus 6242

Sequence ID X_DroMel_CAF1
Location 15,906,396 – 15,906,533
Length 137
Max. P 0.934653
window10169 window10170 window10171

overview

Window 9

Location 15,906,396 – 15,906,507
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.86
Mean single sequence MFE -35.16
Consensus MFE -24.20
Energy contribution -23.44
Covariance contribution -0.76
Combinations/Pair 1.23
Mean z-score -2.47
Structure conservation index 0.69
SVM decision value 1.24
SVM RNA-class probability 0.934653
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15906396 111 + 22224390
AUUAAC--------GUGUAGGAGUGUGAAUGCUAGUGCUGGAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG-UAGGUACUCUUAAUGCUAAGUAUGACGGCUUGGAAAA
.....(--------((.((((((((....(((((((((((....((((((((.....)))))))).......))))).))))-))..)))))))))))((((((......)))))).... ( -35.20)
>DroSec_CAF1 1871 111 + 1
AUUAAC--------GUGUAGGAGUGUGAAUGCCAGUGCUGGAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG-UAGGUACUCCUAAUGAUAACUAUGUCGUCUGGGAAAA
......--------...((((((((....(((((((((((....((((((((.....)))))))).......))))).))))-))..))))))))((((((....))))))......... ( -37.00)
>DroSim_CAF1 1761 111 + 1
AUUAAC--------GUGUAGGAGUGUGAAUGCCAGUGCUGGAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG-UAGGUACUCCUAAUGAUAACUAUGUCGGCUGGGAAAA
......--------...((((((((....(((((((((((....((((((((.....)))))))).......))))).))))-))..)))))))).(((((....))))).......... ( -36.30)
>DroEre_CAF1 1842 112 + 1
AUUUAC--------GUGUAGGAGUGUGAACACCAGUGCUGGAUAGGGUAUGCGAUUUGUAUAACUACAAGGACGGUACCUAGAUAGGUAUAUUUAAUGAUAAGUAUGUCCGCCAGGAUAA
......--------......(.(((....)))).((.((((...((..((((..((((((....))))))....((((((....))))))............))))..)).)))).)).. ( -28.80)
>DroYak_CAF1 1505 119 + 1
AUGUACCUAUCAAUGUGUAGGAGUGCGAAUACCAGUGCUGGAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUAG-CAGGUACUUUUCAAGAUAUGUUGGUCAGCCAAUAAGA
.......((((....((((((.(..(((((....(((((......)))))...)))))..).)))))).(((.((((((...-..)))))).)))..))))((((((....))))))... ( -38.50)
>consensus
AUUAAC________GUGUAGGAGUGUGAAUGCCAGUGCUGGAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG_UAGGUACUCUUAAUGAUAAGUAUGUCGGCUAGGAAAA
.................(((((((......(((.((.((.....((((((((.....))))))))...)).)))))((((....)))))))))))......................... (-24.20 = -23.44 +  -0.76)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,906,428 – 15,906,533
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.19
Mean single sequence MFE -30.42
Consensus MFE -19.26
Energy contribution -18.18
Covariance contribution -1.08
Combinations/Pair 1.36
Mean z-score -1.84
Structure conservation index 0.63
SVM decision value 0.92
SVM RNA-class probability 0.881644
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15906428 105 + 22224390
GAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG-UAGGUACUCUUAAUGCUAAGUAUGACGGCUUGGAAAAUGAGUAAGCAACAAC----UACUCUGCGUA----------
.......((((((....(.((((((((.(((......))).)-))))))).)......((((((......)))))).....(((((.........----)))))))))))---------- ( -30.30)
>DroSec_CAF1 1903 115 + 1
GAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG-UAGGUACUCCUAAUGAUAACUAUGUCGUCUGGGAAAAAUCGUAAGCAAUAUU----UACUCUGCACAUAUUUAGGGA
......((..(((((((..((((((((.(((......))).)-)))))))(((((((((((....)))))).))))).)))))))..))......----..(((((........))))). ( -34.80)
>DroSim_CAF1 1793 115 + 1
GAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG-UAGGUACUCCUAAUGAUAACUAUGUCGGCUGGGAAAAAUAGUAAGCAAUAUC----UACUCUGCACAUAUUUAGGGA
...((((((...(((((((((((((((.(((......))).)-)))))))(((((.(((((....)))))..)))))..........)))).)))----))))))............... ( -31.80)
>DroEre_CAF1 1874 115 + 1
GAUAGGGUAUGCGAUUUGUAUAACUACAAGGACGGUACCUAGAUAGGUAUAUUUAAUGAUAAGUAUGUCCGCCAGGAUAAAUGGUAAGAAAUUAUUUUUUAUUGAGCUUAUAUUU-----
....((..((((..((((((....))))))....((((((....))))))............))))..))((...((((((..((((....))))..))))))..))........----- ( -25.30)
>DroYak_CAF1 1545 110 + 1
GAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUAG-CAGGUACUUUUCAAGAUAUGUUGGUCAGCCAAUAAGAAUGGCAAGCAAUAAC----UACUAAGCUCAAAGCU-----
....((((((((.....))))))))....(((.((((((...-..)))))).)))......(((((.(..((((.......)))).).)))))..----.....(((.....)))----- ( -29.90)
>consensus
GAAAGGGUACGCGAUUUGUGUACCUACAAGGACGGUACCUGG_UAGGUACUCUUAAUGAUAAGUAUGUCGGCUAGGAAAAAUAGUAAGCAAUAAC____UACUCUGCACAUAUUU_____
....((((((((.....))))))))...((((..((((((....))))))))))................((((.......))))................................... (-19.26 = -18.18 +  -1.08)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,906,428 – 15,906,533
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.19
Mean single sequence MFE -24.90
Consensus MFE -13.62
Energy contribution -13.10
Covariance contribution -0.52
Combinations/Pair 1.28
Mean z-score -1.85
Structure conservation index 0.55
SVM decision value 0.49
SVM RNA-class probability 0.757470
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15906428 105 - 22224390
----------UACGCAGAGUA----GUUGUUGCUUACUCAUUUUCCAAGCCGUCAUACUUAGCAUUAAGAGUACCUA-CCAGGUACCGUCCUUGUAGGUACACAAAUCGCGUACCCUUUC
----------(((((.(((((----((....)).)))))...............................(((((((-(.(((......))).)))))))).......)))))....... ( -29.50)
>DroSec_CAF1 1903 115 - 1
UCCCUAAAUAUGUGCAGAGUA----AAUAUUGCUUACGAUUUUUCCCAGACGACAUAGUUAUCAUUAGGAGUACCUA-CCAGGUACCGUCCUUGUAGGUACACAAAUCGCGUACCCUUUC
...........((((.(((((----.....))))).((((((.(((..((..((...))..))....)))(((((((-(.(((......))).))))))))..)))))).))))...... ( -29.20)
>DroSim_CAF1 1793 115 - 1
UCCCUAAAUAUGUGCAGAGUA----GAUAUUGCUUACUAUUUUUCCCAGCCGACAUAGUUAUCAUUAGGAGUACCUA-CCAGGUACCGUCCUUGUAGGUACACAAAUCGCGUACCCUUUC
..(((((.(((((((((((((----(.((.....))))))))).....))..))))).......))))).(((((((-(.(((......))).))))))))................... ( -25.10)
>DroEre_CAF1 1874 115 - 1
-----AAAUAUAAGCUCAAUAAAAAAUAAUUUCUUACCAUUUAUCCUGGCGGACAUACUUAUCAUUAAAUAUACCUAUCUAGGUACCGUCCUUGUAGUUAUACAAAUCGCAUACCCUAUC
-----........((................................(((((......(((....)))...(((((....)))))))))).(((((....)))))...)).......... ( -14.30)
>DroYak_CAF1 1545 110 - 1
-----AGCUUUGAGCUUAGUA----GUUAUUGCUUGCCAUUCUUAUUGGCUGACCAACAUAUCUUGAAAAGUACCUG-CUAGGUACCGUCCUUGUAGGUACACAAAUCGCGUACCCUUUC
-----.((...((((......----......))))((((.......))))....................(((((((-(.(((......))).)))))))).......)).......... ( -26.40)
>consensus
_____AAAUAUGAGCAGAGUA____GUUAUUGCUUACCAUUUUUCCCAGCCGACAUACUUAUCAUUAAGAGUACCUA_CCAGGUACCGUCCUUGUAGGUACACAAAUCGCGUACCCUUUC
..........(((((....................................((........)).......(((((((.(.(((......))).)))))))).......)))))....... (-13.62 = -13.10 +  -0.52)

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 12:08:11 2006