Locus 7216

Sequence ID X_DroMel_CAF1
Location 18,060,065 – 18,060,255
Length 190
Max. P 0.798271
window11791 window11792 window11793

overview

Window 1

Location 18,060,065 – 18,060,181
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.96
Mean single sequence MFE -25.58
Consensus MFE -22.21
Energy contribution -22.21
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.87
SVM decision value 0.61
SVM RNA-class probability 0.798271
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18060065 116 - 22224390
UCAACCUCCUUGCACUU----UAAAGCUGGGAAAUUUUUAGCCCCAAAAUGUUCCCUCUAUUCGAUUGAAAGCCAACGAAUUUCCCCGCUUUCAAUCGGCGCGUUCAACUCGCUUUCAAU
...........((....----.......(((((..((((......))))..)))))......(((((((((((..............)))))))))))))(((.......)))....... ( -25.64)
>DroSec_CAF1 5241 119 - 1
UCAACCUCCUUGCACUAUGGUAAAAGCUGGGAAAUU-UCAGCCCCACAAUGUUCCCUCUGUUCGAUUGAAAGCCAACGAAUUUCCCCGCUUUCAAUCGGCCCGUUCAACUCGCUUUCAAU
...(((............))).(((((.(((((...-..............)))))...(..(((((((((((..............)))))))))))..)..........))))).... ( -24.67)
>DroSim_CAF1 13470 114 - 1
UCAACCUCCUUGCACU-----AAAAGCUGGGAAAUU-UCAGCCCCACAAUGUUGCCUCUGUUCGAUUGAAAGCCAACGAAUUUCCCCGCUUUCAAUCGGCCCGUUCAACUCGCUUUCAAU
................-----.(((((((((.....-.....))))....((((...(.(..(((((((((((..............)))))))))))..).)..))))..))))).... ( -26.44)
>consensus
UCAACCUCCUUGCACU_____AAAAGCUGGGAAAUU_UCAGCCCCACAAUGUUCCCUCUGUUCGAUUGAAAGCCAACGAAUUUCCCCGCUUUCAAUCGGCCCGUUCAACUCGCUUUCAAU
......................(((((((((...........))))...............((((((((((((..............))))))))))))............))))).... (-22.21 = -22.21 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,060,145 – 18,060,255
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.88
Mean single sequence MFE -32.00
Consensus MFE -24.00
Energy contribution -23.89
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.16
Structure conservation index 0.75
SVM decision value 0.39
SVM RNA-class probability 0.717809
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18060145 110 + 22224390
UAAAAAUUUCCCAGCUUUA----AAGUGCAAGGAGGUUGAUCAACAGGAUGGCUGCAGCAGCUGCUUGUUUGCUGUUCCUUGUUGUUUUUUCUU------GCUGUGAAUGCUGUUAUUAU
...........((((((((----....(((((((((.....((((((((((((.(((((....)).)))..)))).))).)))))..)))))))------))..)))).))))....... ( -32.10)
>DroSec_CAF1 5321 111 + 1
UGA-AAUUUCCCAGCUUUUACCAUAGUGCAAGGAGGUUGAUCAACAGGAAGGCUGCAGCAGCUGCUUGUUUGCUGUUCCUUGUUGUUUUUUUUUUCUG--GCUAUGAAUGCUGU------
...-.......((((......((((((...((((((..((..(((((.((((..((((((((.....).))))))).)))).)))))))..)))))).--))))))...)))).------ ( -32.40)
>DroSim_CAF1 13550 108 + 1
UGA-AAUUUCCCAGCUUUU-----AGUGCAAGGAGGUUGAUCAACAGGAUGGCUGCAGCAGCUGCUUGUUUGCUGUUCCUUGUUGUUUUUUUUCUCUGAAGCUAUGAAUGCUGU------
...-.......((((.(((-----(..((..(((((..((.((((((((((((.(((((....)).)))..)))).))).)))))...))..)))))...))..)))).)))).------ ( -31.50)
>consensus
UGA_AAUUUCCCAGCUUUU_____AGUGCAAGGAGGUUGAUCAACAGGAUGGCUGCAGCAGCUGCUUGUUUGCUGUUCCUUGUUGUUUUUUUUUUCUG__GCUAUGAAUGCUGU______
...........((((.........(((....(((((..((.((((((((.....((((((((.....).)))))))))).))))).))..))))).....)))......))))....... (-24.00 = -23.89 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,060,145 – 18,060,255
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.88
Mean single sequence MFE -22.16
Consensus MFE -18.47
Energy contribution -18.47
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.83
SVM decision value 0.17
SVM RNA-class probability 0.614777
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18060145 110 - 22224390
AUAAUAACAGCAUUCACAGC------AAGAAAAAACAACAAGGAACAGCAAACAAGCAGCUGCUGCAGCCAUCCUGUUGAUCAACCUCCUUGCACUU----UAAAGCUGGGAAAUUUUUA
.......((((.......((------(((......(((((.(((...((......)).((((...))))..)))))))).........)))))....----....))))........... ( -21.62)
>DroSec_CAF1 5321 111 - 1
------ACAGCAUUCAUAGC--CAGAAAAAAAAAACAACAAGGAACAGCAAACAAGCAGCUGCUGCAGCCUUCCUGUUGAUCAACCUCCUUGCACUAUGGUAAAAGCUGGGAAAUU-UCA
------.((((..((((((.--(((..........(((((.((((..((......)).((((...)))).)))))))))..........)))..)))))).....)))).......-... ( -22.35)
>DroSim_CAF1 13550 108 - 1
------ACAGCAUUCAUAGCUUCAGAGAAAAAAAACAACAAGGAACAGCAAACAAGCAGCUGCUGCAGCCAUCCUGUUGAUCAACCUCCUUGCACU-----AAAAGCUGGGAAAUU-UCA
------..(((.......)))...((((.......(((((.(((...((......)).((((...))))..)))))))).......((((.((...-----....)).))))..))-)). ( -22.50)
>consensus
______ACAGCAUUCAUAGC__CAGAAAAAAAAAACAACAAGGAACAGCAAACAAGCAGCUGCUGCAGCCAUCCUGUUGAUCAACCUCCUUGCACU_____AAAAGCUGGGAAAUU_UCA
...................................(((((.(((...((......)).((((...))))..)))))))).......((((.((............)).))))........ (-18.47 = -18.47 +  -0.00)

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 12:33:05 2006