Locus 7107

Sequence ID X_DroMel_CAF1
Location 17,836,385 – 17,836,510
Length 125
Max. P 0.952973
window11602 window11603 window11604

overview

Window 2

Location 17,836,385 – 17,836,487
Length 102
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.10
Mean single sequence MFE -38.20
Consensus MFE -19.77
Energy contribution -21.50
Covariance contribution 1.73
Combinations/Pair 1.17
Mean z-score -2.04
Structure conservation index 0.52
SVM decision value 0.87
SVM RNA-class probability 0.870797
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17836385 102 + 22224390
AGCGGCUAUGGCUGCGGGCGCUGCAGUGGGCG-------GUGG-------GUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA
..(((((.((.((((..((((.(((((..(((-------.((.-------(((((((((.......))).)))))).))))).))))).))..)).)))).)).....)))))-... ( -40.50)
>DroSec_CAF1 94034 106 + 1
AGCGGCUACGGCUGCGGGCGGUGCAGUGGGCG---GGUGGUGG-------GUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA
.((.(((((.((((((.....)))))).((((---(.(((((.-------(((((((((.......))).)))))).))).)).)))))....)))))..))...........-... ( -41.40)
>DroSim_CAF1 66637 106 + 1
AGCGGCUACGGCUGCGGGCGGUGCAGUGGGCG---GGUGGUGA-------GUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA
.((.(((((.((((((.....)))))).((((---(.(((((.-------(((((((((.......))).)))))).))).)).)))))....)))))..))...........-... ( -39.30)
>DroEre_CAF1 96017 106 + 1
AGCGGCGAUGGCUGGA----GUGCAAUGGGUGGCGGGUGGUGG-------GUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCGGGGAA
..(.((.....((.(.----.(((.((..(((((((.(((((.-------(((((((((.......))).)))))).))).)).)))))))..)).)))..).))....)).).... ( -38.40)
>DroYak_CAF1 94644 100 + 1
AGCGCCGAUGGCUGCG----GUGCACUGGGUGGUGGGUGAU------------GUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA
.((((((.......))----)))).(..(.(.(((.(((((------------(((.((.......)))))))))).)))....(((((((.....)).)))))....).)..-).. ( -36.50)
>DroPer_CAF1 111214 103 + 1
GUAGGGGAAGACCUGGAGAGGGACUUUGGGGG---GAUGGCGGGGAUGAGCUGGUGGUGCA-----UUCACAUUAUUCAUGCAACUGCCGCAAGUGGCAGGCAACAUCAGC------
...........((..(((.....)))..))..---(((((((.((((((....((((....-----.)))).)))))).)))..((((((....))))))....))))...------ ( -33.10)
>consensus
AGCGGCGAUGGCUGCGGGCGGUGCAGUGGGCG___GGUGGUGG_______GUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG_GAA
.(((((....))))).......((..........................(((((((((.......))).))))))........(((((((.....)).))))).....))...... (-19.77 = -21.50 +   1.73)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,836,417 – 17,836,510
Length 93
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 87.51
Mean single sequence MFE -31.80
Consensus MFE -24.24
Energy contribution -25.64
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -2.40
Structure conservation index 0.76
SVM decision value 1.43
SVM RNA-class probability 0.952973
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17836417 93 + 22224390
-GUGGGUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA---------AAGC------AAAGCCAAAGCACCAGCCG
-..((.((((((((((............)))))..((..(((((((.....)).))))).....(((.-...---------.)))------...)).....))))).)). ( -31.60)
>DroSec_CAF1 94069 94 + 1
GGUGGGUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA---------AAGC------AAAGCCAAAGCACCAGCCG
(((.((((.((((........((((.....)))).....(((((((.....)).))))).....(((.-...---------.)))------...))))...)))).))). ( -33.30)
>DroSim_CAF1 66672 94 + 1
GGUGAGUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAA---------AAGC------AAAGCCAAAGCACCAGCCG
(((..(((.((((........((((.....)))).....(((((((.....)).))))).....(((.-...---------.)))------...))))...)))..))). ( -30.20)
>DroEre_CAF1 96051 110 + 1
GGUGGGUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCGGGGAAAAGCGGGAAAAGCAAAGCCAAAGCCAAAGCACCAGCCG
(((.((((.((((........((((.....))))(((..(((((((.....)).))))).....((........)).......)))........))))...)))).))). ( -35.80)
>DroYak_CAF1 94678 104 + 1
GAU-----GUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG-GAAAAGCUAGAAAAGCAAAGCCAAAGCCAAAGCACCAGCCG
(((-----(((.((.......))))))))..........(((((((.....)).))))).....((((-(....(((.....))).........((....)).))))).. ( -28.10)
>consensus
GGUGGGUGGUGGCAUAUAUUUUGCACAUUAUGCAUGCAGCUGCCGCAAGUAGCAGGCAGGAAAAGCUG_GAA_________AAGC______AAAGCCAAAGCACCAGCCG
(((.((((.((((........((((.....)))).....(((((((.....)).)))))...................................))))...)))).))). (-24.24 = -25.64 +   1.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,836,417 – 17,836,510
Length 93
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 87.51
Mean single sequence MFE -27.59
Consensus MFE -22.66
Energy contribution -23.38
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.77
Structure conservation index 0.82
SVM decision value 0.79
SVM RNA-class probability 0.850693
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17836417 93 - 22224390
CGGCUGGUGCUUUGGCUUU------GCUU---------UUC-CAGCUUUUCCUGCCUGCUACUUGCGGCAGCUGCAUGCAUAAUGUGCAAAAUAUAUGCCACCACCCAC-
.((.(((((.....((...------(((.---------...-.))).....(((((.((.....)))))))..))..(((((.(((.....))))))))))))).))..- ( -27.10)
>DroSec_CAF1 94069 94 - 1
CGGCUGGUGCUUUGGCUUU------GCUU---------UUC-CAGCUUUUCCUGCCUGCUACUUGCGGCAGCUGCAUGCAUAAUGUGCAAAAUAUAUGCCACCACCCACC
.((.(((((.....((...------(((.---------...-.))).....(((((.((.....)))))))..))..(((((.(((.....))))))))))))).))... ( -27.10)
>DroSim_CAF1 66672 94 - 1
CGGCUGGUGCUUUGGCUUU------GCUU---------UUC-CAGCUUUUCCUGCCUGCUACUUGCGGCAGCUGCAUGCAUAAUGUGCAAAAUAUAUGCCACCACUCACC
.((..((((...((((...------(((.---------...-.))).....(((((.((.....))))))).(((((.......)))))........)))).))))..)) ( -25.40)
>DroEre_CAF1 96051 110 - 1
CGGCUGGUGCUUUGGCUUUGGCUUUGCUUUUCCCGCUUUUCCCCGCUUUUCCUGCCUGCUACUUGCGGCAGCUGCAUGCAUAAUGUGCAAAAUAUAUGCCACCACCCACC
.((.((((((....))...(((..(((.......((........)).....(((((.((.....)))))))..)))(((((...)))))........))))))).))... ( -30.00)
>DroYak_CAF1 94678 104 - 1
CGGCUGGUGCUUUGGCUUUGGCUUUGCUUUUCUAGCUUUUC-CAGCUUUUCCUGCCUGCUACUUGCGGCAGCUGCAUGCAUAAUGUGCAAAAUAUAUGCCAC-----AUC
((((((.(((..((((...(((...........((((....-.))))......))).))))...))).))))))...(((((.(((.....))))))))...-----... ( -28.33)
>consensus
CGGCUGGUGCUUUGGCUUU______GCUU_________UUC_CAGCUUUUCCUGCCUGCUACUUGCGGCAGCUGCAUGCAUAAUGUGCAAAAUAUAUGCCACCACCCACC
.((..((((...((((............................((.....(((((.((.....)))))))..)).(((((...)))))........)))).))))..)) (-22.66 = -23.38 +   0.72)

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 12:30:17 2006