Locus 3980

Sequence ID X_DroMel_CAF1
Location 10,542,011 – 10,542,123
Length 112
Max. P 0.926685
window6546 window6547

overview

Window 6

Location 10,542,011 – 10,542,123
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.67
Mean single sequence MFE -28.46
Consensus MFE -8.70
Energy contribution -9.10
Covariance contribution 0.40
Combinations/Pair 1.21
Mean z-score -2.06
Structure conservation index 0.31
SVM decision value 1.18
SVM RNA-class probability 0.926685
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10542011 112 + 22224390
CAAUGCAUCAAAUUUCAGGGCCUGAACC--AAAAAAAAAAGUACCAAACAUGACAUGGACAUG------AGAAAGGUGCUCGGGAUGAGGCUGAAGACCCAGGGCAUCUGGUGCAAGGAU
...((((((...(((((((.......))--..........((.(((.........))))).))------))).(((((((((((.............))).))))))))))))))..... ( -29.02)
>DroSec_CAF1 68407 102 + 1
CAAUGCAUCAAAUUUCAGGGCCUGAACC--GAA----AAAGUACCAAACAUGACAUGGACAUG------AGAAAGGUGCUCAGGAUGAGGCU------CCAGGACAUCUGGUGCAAGGAU
...(((((((.((.((.((((((.(.((--...----..((((((...((((.......))))------.....))))))..)).).)))))------)...)).)).)))))))..... ( -31.70)
>DroSim_CAF1 72384 102 + 1
CAAUGCAUCAAAUUUCAGGGCCUGAACC--GAA----AAAGUACCAGACAUGACAUGGACAUG------AGAAAGGUGCUCAGGAUGAGGCU------CCAGGACAUCUGGUGCAAGGAU
...(((((((.((.((.((((((.(.((--...----..((((((...((((.......))))------.....))))))..)).).)))))------)...)).)).)))))))..... ( -31.70)
>DroEre_CAF1 69653 105 + 1
CAAUGCAUCAAAUUUCAGGACCCGAACG--GAA----AAAGCACCAAACAUGACAUGGACAUGGACAUGGAAAAGGUGCUCGGAACGAGGCUGAGCACCCAGUGCA---------CGUGU
....((((....((((.(........).--)))----)..((((....((((.(((....)))..)))).....(((((((((.......)))))))))..)))).---------.)))) ( -28.50)
>DroYak_CAF1 71707 98 + 1
CAAUGCAUCAAAUUUCUGGGCACCAACCCAAAA----AAAGUACCAAACAUGACAUGGACAUGGGAAAGGGAAAGGUACUCGGGAUAAGGAUGGACA------------------AGGAU
.....((((....(((((((.(((..(((....----...((.....))....(((....))).....)))...))).)))))))....))))....------------------..... ( -21.40)
>consensus
CAAUGCAUCAAAUUUCAGGGCCUGAACC__GAA____AAAGUACCAAACAUGACAUGGACAUG______AGAAAGGUGCUCGGGAUGAGGCUG___A_CCAGGACAUCUGGUGCAAGGAU
............(((((...((((...............((((((...((((.......))))...........)))))))))).))))).............................. ( -8.70 =  -9.10 +   0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,542,011 – 10,542,123
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.67
Mean single sequence MFE -26.88
Consensus MFE -7.41
Energy contribution -7.09
Covariance contribution -0.32
Combinations/Pair 1.35
Mean z-score -1.68
Structure conservation index 0.28
SVM decision value 0.08
SVM RNA-class probability 0.574722
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10542011 112 - 22224390
AUCCUUGCACCAGAUGCCCUGGGUCUUCAGCCUCAUCCCGAGCACCUUUCU------CAUGUCCAUGUCAUGUUUGGUACUUUUUUUUUU--GGUUCAGGCCCUGAAAUUUGAUGCAUUG
.....((((.(((((.....((((((..((((.......(((.(((.....------((((.......))))...))).)))........--)))).))))))....))))).))))... ( -29.16)
>DroSec_CAF1 68407 102 - 1
AUCCUUGCACCAGAUGUCCUGG------AGCCUCAUCCUGAGCACCUUUCU------CAUGUCCAUGUCAUGUUUGGUACUUU----UUC--GGUUCAGGCCCUGAAAUUUGAUGCAUUG
.....((((.(((((.((..((------.((((...((.(((.(((.....------((((.......))))...))).))).----...--))...)))))).)).))))).))))... ( -27.70)
>DroSim_CAF1 72384 102 - 1
AUCCUUGCACCAGAUGUCCUGG------AGCCUCAUCCUGAGCACCUUUCU------CAUGUCCAUGUCAUGUCUGGUACUUU----UUC--GGUUCAGGCCCUGAAAUUUGAUGCAUUG
.....((((.(((((.((..((------.((((...((.(((.(((.....------((((.......))))...))).))).----...--))...)))))).)).))))).))))... ( -27.70)
>DroEre_CAF1 69653 105 - 1
ACACG---------UGCACUGGGUGCUCAGCCUCGUUCCGAGCACCUUUUCCAUGUCCAUGUCCAUGUCAUGUUUGGUGCUUU----UUC--CGUUCGGGUCCUGAAAUUUGAUGCAUUG
....(---------((((..((((..((((.((((..(.(((((((.....((((..(((....))).))))...))))))).----...--.)..))))..)))).))))..))))).. ( -28.90)
>DroYak_CAF1 71707 98 - 1
AUCCU------------------UGUCCAUCCUUAUCCCGAGUACCUUUCCCUUUCCCAUGUCCAUGUCAUGUUUGGUACUUU----UUUUGGGUUGGUGCCCAGAAAUUUGAUGCAUUG
.....------------------....((((........(((((((...........((((.......))))...)))))))(----((((((((....)))))))))...))))..... ( -20.94)
>consensus
AUCCUUGCACCAGAUGCCCUGG_U___CAGCCUCAUCCCGAGCACCUUUCU______CAUGUCCAUGUCAUGUUUGGUACUUU____UUC__GGUUCAGGCCCUGAAAUUUGAUGCAUUG
.............................((.(((.(((((((.................(((((.........))).)).............)))))))..........))).)).... ( -7.41 =  -7.09 +  -0.32)

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 11:13:29 2006