Locus 2934

Sequence ID X_DroMel_CAF1
Location 7,850,602 – 7,850,738
Length 136
Max. P 0.989929
window4806 window4807 window4808

overview

Window 6

Location 7,850,602 – 7,850,699
Length 97
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 82.13
Mean single sequence MFE -28.23
Consensus MFE -19.96
Energy contribution -21.13
Covariance contribution 1.17
Combinations/Pair 1.14
Mean z-score -2.55
Structure conservation index 0.71
SVM decision value 1.41
SVM RNA-class probability 0.951238
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7850602 97 + 22224390
AAUAC------GUAUUAAAGUC----UAUAUAUAGCCUAUGCCCAUAUGGACCCAAUAAACG-GGGGACAUGUAUUGGGAUUUGGUGUCAGAGUGAAAACUUGACUGA
.....------.......((((----........(((....((((((((..(((........-)))..))))...))))....)))....((((....)))))))).. ( -26.70)
>DroEre_CAF1 35372 107 + 1
AAUACUCGUAUGUAUUAAAGUGUAUAUGUAUAUAGCCUAUGCCCAUAUGGACCCAAUAAACG-GGAGACGUGUAUUGGGAUCUGGUGUCAGAGUGAAAACUUGACUGA
.(((..(((((((((....)))))))))..))).(((.....((....)).(((((((.(((-.....))).)))))))....)))((((.(((....)))))))... ( -28.00)
>DroYak_CAF1 30898 99 + 1
---------AUGUAUAUAAGUGUAUUUAUAUAUGACCCAUGCCCAUGUGGACCCAAUAAAAGAGGGGACAUGUAUUGGGAUUUGGUGUCAGAGUGAAAACUUGACUGA
---------..(((((((((....)))))))))((((((..((((.(((..(((.........)))..)))....))))...))).))).((((....))))...... ( -30.00)
>consensus
AAUAC____AUGUAUUAAAGUGUAU_UAUAUAUAGCCUAUGCCCAUAUGGACCCAAUAAACG_GGGGACAUGUAUUGGGAUUUGGUGUCAGAGUGAAAACUUGACUGA
..................................(((....((((((((..(((.........)))..))))...))))....)))((((.(((....)))))))... (-19.96 = -21.13 +   1.17)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,850,602 – 7,850,699
Length 97
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 82.13
Mean single sequence MFE -20.07
Consensus MFE -17.61
Energy contribution -17.83
Covariance contribution 0.22
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.88
SVM decision value 1.33
SVM RNA-class probability 0.942542
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7850602 97 - 22224390
UCAGUCAAGUUUUCACUCUGACACCAAAUCCCAAUACAUGUCCCC-CGUUUAUUGGGUCCAUAUGGGCAUAGGCUAUAUAUA----GACUUUAAUAC------GUAUU
...(((((((....))).))))........((((((.(((.....-))).))))))(((.((((((((....))).))))).----)))........------..... ( -18.50)
>DroEre_CAF1 35372 107 - 1
UCAGUCAAGUUUUCACUCUGACACCAGAUCCCAAUACACGUCUCC-CGUUUAUUGGGUCCAUAUGGGCAUAGGCUAUAUACAUAUACACUUUAAUACAUACGAGUAUU
...(((((((....))).))))....((.(((((((.(((.....-))).))))))))).((((((.(...).)))))).............(((((......))))) ( -21.40)
>DroYak_CAF1 30898 99 - 1
UCAGUCAAGUUUUCACUCUGACACCAAAUCCCAAUACAUGUCCCCUCUUUUAUUGGGUCCACAUGGGCAUGGGUCAUAUAUAAAUACACUUAUAUACAU---------
...(((((((....))).)))).......((((...(((((.(((.........)))...)))))....))))...(((((((......)))))))...--------- ( -20.30)
>consensus
UCAGUCAAGUUUUCACUCUGACACCAAAUCCCAAUACAUGUCCCC_CGUUUAUUGGGUCCAUAUGGGCAUAGGCUAUAUAUA_AUACACUUUAAUACAU____GUAUU
...(((((((....))).)))).((.....((((((.(((......))).))))))((((....))))...))................................... (-17.61 = -17.83 +   0.22)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,850,630 – 7,850,738
Length 108
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 78.65
Mean single sequence MFE -30.02
Consensus MFE -18.38
Energy contribution -20.25
Covariance contribution 1.88
Combinations/Pair 1.23
Mean z-score -2.65
Structure conservation index 0.61
SVM decision value 2.19
SVM RNA-class probability 0.989929
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7850630 108 + 22224390
-----AUG---CCCAUAUGGACCCAAUAAACG-G--GGGACAUGUAUUGGGAUUUGGUGUCAGAGUGAAAACUUGACUGAAUAAAUAAUAAGCUCGAACCAAAGCGGGCCAAAAACUUU-
-----..(---(((.......(((((((....-(--....)...))))))).((((((((((.(((....)))))))(((.............))).))))))..))))..........- ( -30.82)
>DroEre_CAF1 35410 108 + 1
-----AUG---CCCAUAUGGACCCAAUAAACG-G--GAGACGUGUAUUGGGAUCUGGUGUCAGAGUGAAAACUUGACUGAAUAAAUAAUAAGCUCGAACCAAAGCGGGCCAAAAACUUU-
-----..(---(((....((((((((((.(((-.--....))).))))))).)))...((((.(((....)))))))..............(((........)))))))..........- ( -31.40)
>DroYak_CAF1 30927 109 + 1
-----AUG---CCCAUGUGGACCCAAUAAAAGAG--GGGACAUGUAUUGGGAUUUGGUGUCAGAGUGAAAACUUGACUGAAUAAAUAAUAAGCUGGAACCAAAGCGGGCCAAAAACUUU-
-----..(---(((..(((..(((.........)--))..)))((.((((..((..((((((.(((....)))))))..............))..)).)))).))))))..........- ( -30.33)
>DroAna_CAF1 21038 110 + 1
AAAUGAAGCCACAUAUAGGGAUCCGAUGGAUG-UAUUGGACGUGUAUUGGAUUUCGGUGUCAGGCUGAAAACUUGACUGAAUAAAUAAUAAAC---------GACGAGCCGAAAAGUUUU
......((((((((...(..((((((((.(((-(.....)))).))))))))..).))))..)))).(((((((...................---------...........))))))) ( -27.51)
>consensus
_____AUG___CCCAUAUGGACCCAAUAAACG_G__GGGACAUGUAUUGGGAUUUGGUGUCAGAGUGAAAACUUGACUGAAUAAAUAAUAAGCUCGAACCAAAGCGGGCCAAAAACUUU_
.....................(((((((.(((........))).))))))).((((((((((.(((....)))))))..............(((........)))..))))))....... (-18.38 = -20.25 +   1.88)

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 10:47:01 2006