Locus 2582

Sequence ID 2L_DroMel_CAF1
Location 7,164,236 – 7,164,337
Length 101
Max. P 0.882781
window4115 window4116

overview

Window 5

Location 7,164,236 – 7,164,337
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.48
Mean single sequence MFE -30.86
Consensus MFE -15.92
Energy contribution -17.56
Covariance contribution 1.64
Combinations/Pair 1.05
Mean z-score -2.08
Structure conservation index 0.52
SVM decision value 0.50
SVM RNA-class probability 0.759304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7164236 101 + 22407834
AAUCAAAUUCAUUUGCCAACUGUUUUCACU--GCAAGCCAAAUGUGUC--UUUGGCUGACU-UUGGCA-ACCAGCGCUCA--------GAAGCC-----AUGGCAAAUGGAGCAGUCAGG
.......(((((((((((..((.((((...--((.(((((((......--)))))))....-...((.-....))))...--------)))).)-----))))))))))))......... ( -29.00)
>DroSec_CAF1 105616 98 + 1
AAUCAAAUUCAUUUGCCAACUGUUUUCACU--GCAAGCCAAAUGCGGC--UUUGGCUGACU----GCA-ACCAGCGCUCA--------GAAGCC-----AUGGCAAAUGGAGCAGUCAGG
.......(((((((((((..((.((((...--(((((((......)))--))..((((...----...-..))))))...--------)))).)-----))))))))))))......... ( -30.80)
>DroSim_CAF1 108721 98 + 1
AAUCAAAUUCAUUUGCCAACUGUUUUCACU--GCAAGCCAAAUGUGGC--UUUGGCUGACU----GCA-ACCAGCGCUCA--------GAAGCC-----AUGGCAAAUGGAGCAGUCAGG
.......(((((((((((..((.((((...--((((((((....))))--))..((((...----...-..))))))...--------)))).)-----))))))))))))......... ( -31.50)
>DroYak_CAF1 113674 107 + 1
AAUCAAAUUCAUUUGCAAACUGUUUUCACU--UCAAGCCAAAUCUGUC--U---GCUGUCUGCUGGUU-GCCAGCGCUCAGAAGCUCAGAAGCC-----UUGGCAAAUGGAGCAGUCAGG
.......(((((((((....((....))..--.((((.(...((((.(--(---.(((..((((((..-.))))))..))).))..)))).).)-----))))))))))))......... ( -28.10)
>DroAna_CAF1 110780 103 + 1
AAUCAAAUUCAUUUGCCAACAGUUUUCACUCGGCAAGCGAA-UCUGCCGGAUUGCCAGAUU----GCUUGGCAG----UA--------GAAGCUACCAAAUGGCAAAUGGAGCAACCAGG
.......(((((((((((..(((((..(((.(.(((((.((-((((.(.....).))))))----))))).)))----).--------.)))))......)))))))))))......... ( -34.90)
>consensus
AAUCAAAUUCAUUUGCCAACUGUUUUCACU__GCAAGCCAAAUGUGGC__UUUGGCUGACU____GCA_ACCAGCGCUCA________GAAGCC_____AUGGCAAAUGGAGCAGUCAGG
.......(((((((((((.................(((((((........)))))))........((......)).........................)))))))))))......... (-15.92 = -17.56 +   1.64)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,164,236 – 7,164,337
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.48
Mean single sequence MFE -33.04
Consensus MFE -16.13
Energy contribution -16.77
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -2.30
Structure conservation index 0.49
SVM decision value 0.92
SVM RNA-class probability 0.882781
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7164236 101 - 22407834
CCUGACUGCUCCAUUUGCCAU-----GGCUUC--------UGAGCGCUGGU-UGCCAA-AGUCAGCCAAA--GACACAUUUGGCUUGC--AGUGAAAACAGUUGGCAAAUGAAUUUGAUU
...........((((((((((-----(((..(--------(.......)).-.)))).-.((.(((((((--......))))))).))--.((....))...)))))))))......... ( -30.80)
>DroSec_CAF1 105616 98 - 1
CCUGACUGCUCCAUUUGCCAU-----GGCUUC--------UGAGCGCUGGU-UGC----AGUCAGCCAAA--GCCGCAUUUGGCUUGC--AGUGAAAACAGUUGGCAAAUGAAUUUGAUU
...........(((((((((.-----.(((..--------..)))((((.(-..(----.((.(((((((--......))))))).))--.)..)...)))))))))))))......... ( -32.50)
>DroSim_CAF1 108721 98 - 1
CCUGACUGCUCCAUUUGCCAU-----GGCUUC--------UGAGCGCUGGU-UGC----AGUCAGCCAAA--GCCACAUUUGGCUUGC--AGUGAAAACAGUUGGCAAAUGAAUUUGAUU
...........(((((((((.-----.(((..--------..)))((((.(-..(----.((.(((((((--......))))))).))--.)..)...)))))))))))))......... ( -32.50)
>DroYak_CAF1 113674 107 - 1
CCUGACUGCUCCAUUUGCCAA-----GGCUUCUGAGCUUCUGAGCGCUGGC-AACCAGCAGACAGC---A--GACAGAUUUGGCUUGA--AGUGAAAACAGUUUGCAAAUGAAUUUGAUU
...........((((((((((-----(.(.((((..((.(((...(((((.-..)))))...))).---)--).))))...).)))).--.((....)).....)))))))......... ( -29.50)
>DroAna_CAF1 110780 103 - 1
CCUGGUUGCUCCAUUUGCCAUUUGGUAGCUUC--------UA----CUGCCAAGC----AAUCUGGCAAUCCGGCAGA-UUCGCUUGCCGAGUGAAAACUGUUGGCAAAUGAAUUUGAUU
((.(((((((....((((...(((((((....--------..----)))))))))----))...))))))).))((((-((((.(((((((((....)))..)))))).))))))))... ( -39.90)
>consensus
CCUGACUGCUCCAUUUGCCAU_____GGCUUC________UGAGCGCUGGU_UGC____AGUCAGCCAAA__GACACAUUUGGCUUGC__AGUGAAAACAGUUGGCAAAUGAAUUUGAUU
...........(((((((((......((((...............((((.............))))...............))))......((....))...)))))))))......... (-16.13 = -16.77 +   0.64)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:11 2006