Locus 754

Sequence ID 3R_DroMel_CAF1
Location 2,643,813 – 2,643,973
Length 160
Max. P 0.908269
window1202 window1203 window1204

overview

Window 2

Location 2,643,813 – 2,643,933
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 89.17
Mean single sequence MFE -27.13
Consensus MFE -24.20
Energy contribution -24.87
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.57
Structure conservation index 0.89
SVM decision value 0.08
SVM RNA-class probability 0.575932
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2643813 120 - 27905053
GCCAUUUCAGGUAGCCAUUGCCUAAAAAAGAAAAUCCGAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAUGGGACAAUGGCUUUUCCUCGUUAGAGUCGCAGAACAGCUU
((.((((((((.((((((((((((..........(((....)))....((.(((((.........)))))...))....)))).))))))))...))).)...)))).)).......... ( -30.60)
>DroSim_CAF1 32398 120 - 1
GCCAAUUCAGGUAGCCAUUGCCUAAAAAAGAAAAUCCGAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAUGGGACAAUGGCUUUUCCUCGUUAGAGUCGCAGAACCGCUU
((..(((((((.((((((((((((..........(((....)))....((.(((((.........)))))...))....)))).))))))))...))).....)))).)).......... ( -30.70)
>DroEre_CAF1 34873 108 - 1
CCCGUUUCAGGUAGCCAUCGCCUAAAAAAGAAAAUCCAAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAUGGGACAAUGGGUUUUCCUCGUUACAGUC------------
(((((((..(...(((((................(((....)))..((((...))))........)))))...)..)))))))..((((((.....))))))......------------ ( -20.10)
>consensus
GCCAUUUCAGGUAGCCAUUGCCUAAAAAAGAAAAUCCGAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAUGGGACAAUGGCUUUUCCUCGUUAGAGUCGCAGAAC_GCUU
........(((.((((((((((((..........(((....)))....((.(((((.........)))))...))....)))).))))))))...)))...................... (-24.20 = -24.87 +   0.67)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,643,853 – 2,643,973
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -32.07
Consensus MFE -27.95
Energy contribution -28.40
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.71
Structure conservation index 0.87
SVM decision value 1.06
SVM RNA-class probability 0.908269
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2643853 120 + 27905053
AUUCUUGUUUGCCAUUUUUAAUUUAUGACCCAUAUUUCCCUUCGGAUUUUCUUUUUUAGGCAAUGGCUACCUGAAAUGGCCCGAACCUCCGGCCCAACAACAGGUAAAUGGUAAAUGGUU
....(..(((((((((.............((((.....(((..(((......)))..)))..)))).((((((...(((.(((......))).)))....)))))))))))))))..).. ( -29.30)
>DroSim_CAF1 32438 120 + 1
AUUCUUGUUUGCCAUUUUUAAUUUAUGACCCAUAUUUCCCUUCGGAUUUUCUUUUUUAGGCAAUGGCUACCUGAAUUGGCCCGGACCUCCGGCCCAACAACAGGUAACUGGUAAAUGGUU
....(..(((((((...............((((.....(((..(((......)))..)))..)))).((((((..((((.((((....)))).))))...))))))..)))))))..).. ( -32.60)
>DroEre_CAF1 34901 120 + 1
AUUCUUGUUUGCCAUUUUUAAUUUAUGACCCAUAUUUCCCUUUGGAUUUUCUUUUUUAGGCGAUGGCUACCUGAAACGGGCCGUAACCCCGGCCUAACAACAGGUAAAUGGUAAAUGGUU
....(..(((((((((.............((((.....(((..(((......)))..)))..)))).((((((....((((((......)))))).....)))))))))))))))..).. ( -34.30)
>consensus
AUUCUUGUUUGCCAUUUUUAAUUUAUGACCCAUAUUUCCCUUCGGAUUUUCUUUUUUAGGCAAUGGCUACCUGAAAUGGCCCGAACCUCCGGCCCAACAACAGGUAAAUGGUAAAUGGUU
....(..(((((((((.............((((.....(((..(((......)))..)))..)))).((((((...(((.(((......))).)))....)))))))))))))))..).. (-27.95 = -28.40 +   0.45)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,643,853 – 2,643,973
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -33.18
Consensus MFE -27.49
Energy contribution -27.94
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.81
Structure conservation index 0.83
SVM decision value 0.76
SVM RNA-class probability 0.843397
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2643853 120 - 27905053
AACCAUUUACCAUUUACCUGUUGUUGGGCCGGAGGUUCGGGCCAUUUCAGGUAGCCAUUGCCUAAAAAAGAAAAUCCGAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAU
..............((((((....(((.((((....)))).)))...))))))((((((...............(((....)))..((((...)))).......)))))).......... ( -31.70)
>DroSim_CAF1 32438 120 - 1
AACCAUUUACCAGUUACCUGUUGUUGGGCCGGAGGUCCGGGCCAAUUCAGGUAGCCAUUGCCUAAAAAAGAAAAUCCGAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAU
..((((......((((((((..(((((.((((....)))).))))).))))))))...................(((....)))...))))(((((.........))))).......... ( -39.70)
>DroEre_CAF1 34901 120 - 1
AACCAUUUACCAUUUACCUGUUGUUAGGCCGGGGUUACGGCCCGUUUCAGGUAGCCAUCGCCUAAAAAAGAAAAUCCAAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAU
..((((((.....(((((((......(((((......))))).....)))))))((((..(((.................)))....))))............))))))........... ( -28.13)
>consensus
AACCAUUUACCAUUUACCUGUUGUUGGGCCGGAGGUACGGGCCAUUUCAGGUAGCCAUUGCCUAAAAAAGAAAAUCCGAAGGGAAAUAUGGGUCAUAAAUUAAAAAUGGCAAACAAGAAU
..............((((((....(((.(((......))).)))...))))))(((((((((((..........(((....)))....)))))...........)))))).......... (-27.49 = -27.94 +   0.45)

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 09:51:17 2006