Locus 2802

Sequence ID 3L_DroMel_CAF1
Location 7,964,142 – 7,964,298
Length 156
Max. P 0.991547
window4376 window4377 window4378 window4379

overview

Window 6

Location 7,964,142 – 7,964,258
Length 116
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 81.27
Mean single sequence MFE -31.47
Consensus MFE -22.30
Energy contribution -22.97
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.69
Structure conservation index 0.71
SVM decision value 1.87
SVM RNA-class probability 0.980656
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7964142 116 + 23771897
UGCAACUGCAACAGCAACAGCAACAGCAACUUUGGCAACUGCAACUCCGCAGCAACGGCAGUA-AACUUACUGCCAUUGUCUGGAUUCCCUCGGCUGCAUCCUCCACAGCGUUUGCC
.((((.(((....((....))..((((......(((((((((......))))....(((((((-....))))))).))))).((....))...))))...........))).)))). ( -34.40)
>DroSec_CAF1 7324 105 + 1
UGCAACUGCAGCA------------GCAACUUUUGCAACUGCAACUCCGCAGCAACGGCAGAAAAACUUACUGCCAUUGUCUGGAUUCCCUCGGCUGCAUCCUCCACAGCGUUUGCC
.((((.(((((..------------(((.....)))..))))).....(((((...(((((.........))))).......((....))...)))))..............)))). ( -30.10)
>DroEre_CAF1 7403 100 + 1
----------------ACUGCAAGAGCAACUUUUGCAACUGCAACUCCGCAGCAACGGCAGUA-AACUUACUGCCAUUGUCCGGAUUCCCUCGACUGCAUCCUCCUCAGCGUUUGCC
----------------..((((((((...))))))))...((((...(((.((((.(((((((-....))))))).))))..((((.(........).))))......))).)))). ( -29.90)
>consensus
UGCAACUGCA_CA___AC_GCAA_AGCAACUUUUGCAACUGCAACUCCGCAGCAACGGCAGUA_AACUUACUGCCAUUGUCUGGAUUCCCUCGGCUGCAUCCUCCACAGCGUUUGCC
.........................((((...((((....))))...(((.((((.(((((((.....))))))).))))..((((.(........).))))......))).)))). (-22.30 = -22.97 +   0.67)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,964,142 – 7,964,258
Length 116
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 81.27
Mean single sequence MFE -41.27
Consensus MFE -30.79
Energy contribution -30.90
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.60
Structure conservation index 0.75
SVM decision value 1.85
SVM RNA-class probability 0.979878
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7964142 116 - 23771897
GGCAAACGCUGUGGAGGAUGCAGCCGAGGGAAUCCAGACAAUGGCAGUAAGUU-UACUGCCGUUGCUGCGGAGUUGCAGUUGCCAAAGUUGCUGUUGCUGUUGCUGUUGCAGUUGCA
((((...((((..(....((((((...((....))....((((((((((....-))))))))))))))))...)..))))))))...((.(((((.((....))....))))).)). ( -46.80)
>DroSec_CAF1 7324 105 - 1
GGCAAACGCUGUGGAGGAUGCAGCCGAGGGAAUCCAGACAAUGGCAGUAAGUUUUUCUGCCGUUGCUGCGGAGUUGCAGUUGCAAAAGUUGC------------UGCUGCAGUUGCA
.((((((.(((..(.((((....((...)).))))...(((((((((.........))))))))))..))).))((((((.(((.....)))------------.)))))).)))). ( -39.80)
>DroEre_CAF1 7403 100 - 1
GGCAAACGCUGAGGAGGAUGCAGUCGAGGGAAUCCGGACAAUGGCAGUAAGUU-UACUGCCGUUGCUGCGGAGUUGCAGUUGCAAAAGUUGCUCUUGCAGU----------------
.......(((((((((.((((((.(..(.((.((((.((((((((((((....-))))))))))).).)))).)).).)))))).....).))))).))))---------------- ( -37.20)
>consensus
GGCAAACGCUGUGGAGGAUGCAGCCGAGGGAAUCCAGACAAUGGCAGUAAGUU_UACUGCCGUUGCUGCGGAGUUGCAGUUGCAAAAGUUGCU_UUGC_GU___UG_UGCAGUUGCA
.(((...((((..(....((((((...((....))....((((((((((.....))))))))))))))))...)..))))))).................................. (-30.79 = -30.90 +   0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,964,179 – 7,964,298
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.66
Mean single sequence MFE -39.80
Consensus MFE -38.69
Energy contribution -39.13
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -3.37
Structure conservation index 0.97
SVM decision value 2.27
SVM RNA-class probability 0.991547
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7964179 119 + 23771897
ACUGCAACUCCGCAGCAACGGCAGUA-AACUUACUGCCAUUGUCUGGAUUCCCUCGGCUGCAUCCUCCACAGCGUUUGCCGCUGUUUAUGCUAAAUGAGGGUUAACGCAAAACUUAAAGA
..(((...((((..((((.(((((((-....))))))).)))).))))..((((((...((((.....((((((.....))))))..))))....)))))).....)))........... ( -41.10)
>DroSec_CAF1 7349 120 + 1
ACUGCAACUCCGCAGCAACGGCAGAAAAACUUACUGCCAUUGUCUGGAUUCCCUCGGCUGCAUCCUCCACAGCGUUUGCCGCUGUUUAUGCUAAAUGAGGGUUAACGCAAAACUUAAAGA
..(((...((((..((((.(((((.........))))).)))).))))..((((((...((((.....((((((.....))))))..))))....)))))).....)))........... ( -37.60)
>DroEre_CAF1 7424 119 + 1
ACUGCAACUCCGCAGCAACGGCAGUA-AACUUACUGCCAUUGUCCGGAUUCCCUCGACUGCAUCCUCCUCAGCGUUUGCCGCUGUUUAUGCUAAAUGAGGGUUAACGCAAAACUUGAAGA
..(((...((((..((((.(((((((-....))))))).)))).))))..((((((...((((......(((((.....)))))...))))....)))))).....)))........... ( -40.70)
>consensus
ACUGCAACUCCGCAGCAACGGCAGUA_AACUUACUGCCAUUGUCUGGAUUCCCUCGGCUGCAUCCUCCACAGCGUUUGCCGCUGUUUAUGCUAAAUGAGGGUUAACGCAAAACUUAAAGA
..(((...((((..((((.(((((((.....))))))).)))).))))..((((((...((((.....((((((.....))))))..))))....)))))).....)))........... (-38.69 = -39.13 +   0.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,964,179 – 7,964,298
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.66
Mean single sequence MFE -45.40
Consensus MFE -43.45
Energy contribution -43.90
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -3.27
Structure conservation index 0.96
SVM decision value 2.10
SVM RNA-class probability 0.987995
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7964179 119 - 23771897
UCUUUAAGUUUUGCGUUAACCCUCAUUUAGCAUAAACAGCGGCAAACGCUGUGGAGGAUGCAGCCGAGGGAAUCCAGACAAUGGCAGUAAGUU-UACUGCCGUUGCUGCGGAGUUGCAGU
..........(((((....(((((.....((((..((((((.....)))))).....))))....)))))..(((((.(((((((((((....-)))))))))))))).))...))))). ( -46.30)
>DroSec_CAF1 7349 120 - 1
UCUUUAAGUUUUGCGUUAACCCUCAUUUAGCAUAAACAGCGGCAAACGCUGUGGAGGAUGCAGCCGAGGGAAUCCAGACAAUGGCAGUAAGUUUUUCUGCCGUUGCUGCGGAGUUGCAGU
..........(((((....(((((.....((((..((((((.....)))))).....))))....)))))..(((((.(((((((((.........)))))))))))).))...))))). ( -43.20)
>DroEre_CAF1 7424 119 - 1
UCUUCAAGUUUUGCGUUAACCCUCAUUUAGCAUAAACAGCGGCAAACGCUGAGGAGGAUGCAGUCGAGGGAAUCCGGACAAUGGCAGUAAGUU-UACUGCCGUUGCUGCGGAGUUGCAGU
..........(((((....(((((..((.((((...(((((.....)))))......))))))..)))))..((((.((((((((((((....-))))))))))).).))))..))))). ( -46.70)
>consensus
UCUUUAAGUUUUGCGUUAACCCUCAUUUAGCAUAAACAGCGGCAAACGCUGUGGAGGAUGCAGCCGAGGGAAUCCAGACAAUGGCAGUAAGUU_UACUGCCGUUGCUGCGGAGUUGCAGU
..........(((((....(((((.....((((..((((((.....)))))).....))))....)))))..(((((.(((((((((((.....)))))))))))))).))...))))). (-43.45 = -43.90 +   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 10:42:06 2006