Locus 1252

Sequence ID 2R_DroMel_CAF1
Location 4,896,615 – 4,896,706
Length 91
Max. P 0.643143
window2168 window2169

overview

Window 8

Location 4,896,615 – 4,896,706
Length 91
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 68.65
Mean single sequence MFE -25.75
Consensus MFE -7.35
Energy contribution -7.47
Covariance contribution 0.11
Combinations/Pair 1.44
Mean z-score -2.02
Structure conservation index 0.29
SVM decision value 0.23
SVM RNA-class probability 0.643143
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4896615 91 + 20766785
AUGGAAUUACGGAAAAUAGUUGCCGAAGACAAGAGGCAGCCAGCUG-----GUUGGCAAGGCC-AACCCGCAAACCGCAUUCAAGCCACAGAAUGGC-----------
...((((..(((......((((((..........))))))..((.(-----((((((...)))-)))).))...))).))))..((((.....))))----------- ( -32.00)
>DroPse_CAF1 28898 90 + 1
AUUGAAAAACAAAAAAUAGUUGGCAAAGACAAGGGCCGA--AGCUGAAGCCGUAGCCGUAGCCGAAGCCGAGG-----ACGAGAGCUACUUGUCGGU-----------
.(((...(((........)))..))).(((((((((...--.((((..((....))..))))....)))..((-----.(....))).))))))...----------- ( -22.10)
>DroSec_CAF1 29868 91 + 1
AUGGAAUUACGGAAAAUAGUUGCCGAAGACAAGAGGCAGCCAGCUG-----GUUGGCAAGGCC-AACCCGCAAACCGCAUUCAAGCCACAGAAUGGC-----------
...((((..(((......((((((..........))))))..((.(-----((((((...)))-)))).))...))).))))..((((.....))))----------- ( -32.00)
>DroEre_CAF1 43994 91 + 1
AUGGAAUUACGGAAAAUAGUUGCCGAAGACAAGAGGCAGCCAGCUG-----GUUAGCAAGGCC-AACCCGCAAACCGCAUUCAAGCCGCAGAAUGGC-----------
...((((..(((......((((((..........))))))..((.(-----(((.((...)).-)))).))...))).))))..((((.....))))----------- ( -24.80)
>DroYak_CAF1 48720 80 + 1
AUGGAAUUACGGAAAAUAGUGGCCAAAGACAAGAGGCAGCCAGUUG-----GUUGGCAAGGCC-AAACCGCA-----------AGCCACAGAAUGGC-----------
.........(((.......(((((.....(....).(((((....)-----))))....))))-)..)))..-----------.((((.....))))----------- ( -18.90)
>DroAna_CAF1 29436 96 + 1
AUAGAAUUACAGAAAAUAGUUACCAAAGACAAGAGACUGCCAA-----------GGCCAGGCU-GCCGCAAAAACCAAAUGGCAGCCGCAGAAUUGUGAACGCGGUCG
..................(((......)))....(((((((((-----------..(..((((-((((...........))))))))...)..))).....)))))). ( -24.70)
>consensus
AUGGAAUUACGGAAAAUAGUUGCCAAAGACAAGAGGCAGCCAGCUG_____GUUGGCAAGGCC_AACCCGCAAACCGCAUUCAAGCCACAGAAUGGC___________
..................((((((..........))))))...................(((......................)))..................... ( -7.35 =  -7.47 +   0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,896,615 – 4,896,706
Length 91
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 68.65
Mean single sequence MFE -26.83
Consensus MFE -7.11
Energy contribution -7.04
Covariance contribution -0.08
Combinations/Pair 1.67
Mean z-score -2.04
Structure conservation index 0.27
SVM decision value 0.11
SVM RNA-class probability 0.588701
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4896615 91 - 20766785
-----------GCCAUUCUGUGGCUUGAAUGCGGUUUGCGGGUU-GGCCUUGCCAAC-----CAGCUGGCUGCCUCUUGUCUUCGGCAACUAUUUUCCGUAAUUCCAU
-----------(((((...)))))..((((((((...((.((((-(((...))))))-----).))(((.((((..........)))).)))....)))).))))... ( -31.50)
>DroPse_CAF1 28898 90 - 1
-----------ACCGACAAGUAGCUCUCGU-----CCUCGGCUUCGGCUACGGCUACGGCUUCAGCU--UCGGCCCUUGUCUUUGCCAACUAUUUUUUGUUUUUCAAU
-----------...(((((((((((...((-----.....))...))))))(((...(((....((.--...))....)))...))).........)))))....... ( -23.60)
>DroSec_CAF1 29868 91 - 1
-----------GCCAUUCUGUGGCUUGAAUGCGGUUUGCGGGUU-GGCCUUGCCAAC-----CAGCUGGCUGCCUCUUGUCUUCGGCAACUAUUUUCCGUAAUUCCAU
-----------(((((...)))))..((((((((...((.((((-(((...))))))-----).))(((.((((..........)))).)))....)))).))))... ( -31.50)
>DroEre_CAF1 43994 91 - 1
-----------GCCAUUCUGCGGCUUGAAUGCGGUUUGCGGGUU-GGCCUUGCUAAC-----CAGCUGGCUGCCUCUUGUCUUCGGCAACUAUUUUCCGUAAUUCCAU
-----------.......(((((...(((((((((..((.((((-(((...))))))-----).))..)))))...(((.(....))))..)))).)))))....... ( -28.10)
>DroYak_CAF1 48720 80 - 1
-----------GCCAUUCUGUGGCU-----------UGCGGUUU-GGCCUUGCCAAC-----CAACUGGCUGCCUCUUGUCUUUGGCCACUAUUUUCCGUAAUUCCAU
-----------(((((...)))))(-----------(((((..(-((((..((((..-----....))))..............))))).......))))))...... ( -21.99)
>DroAna_CAF1 29436 96 - 1
CGACCGCGUUCACAAUUCUGCGGCUGCCAUUUGGUUUUUGCGGC-AGCCUGGCC-----------UUGGCAGUCUCUUGUCUUUGGUAACUAUUUUCUGUAAUUCUAU
..((((((..........)))((((((((...((((...((...-.))..))))-----------.))))))))..........)))..................... ( -24.30)
>consensus
___________GCCAUUCUGUGGCUUGAAUGCGGUUUGCGGGUU_GGCCUUGCCAAC_____CAGCUGGCUGCCUCUUGUCUUCGGCAACUAUUUUCCGUAAUUCCAU
....................................(((((....((((..................))))(((..........))).........)))))....... ( -7.11 =  -7.04 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:04 2006