Locus 7755

Sequence ID 3L_DroMel_CAF1
Location 20,697,213 – 20,697,364
Length 151
Max. P 0.939985
window12628 window12629 window12630 window12631

overview

Window 8

Location 20,697,213 – 20,697,325
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.32
Mean single sequence MFE -35.73
Consensus MFE -32.27
Energy contribution -32.27
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.90
SVM decision value 0.47
SVM RNA-class probability 0.748622
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20697213 112 + 23771897
AUUGGCACCUGUGUGUUGCCAGUU-------GCCAGUUGCCGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU-UUUCCGCUGACCUCGUUUACGGGUCAGAGCAGC
..(((((.(.....).)))))(((-------((.((((((....))))))(((((.((((((................)))))).)-))))..((((((.((....)))))))).))))) ( -35.09)
>DroEre_CAF1 19223 119 + 1
AUUGGCACCUGUGUGUUGCCAGUUGCCAGUUGCCAGUUGCCGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU-UUUCCACUGACCUCGUUUACGGGUCAGAGCAGC
..(((((.(((.(.....)))).)))))(((((.((((((....))))))(((((.((((((................)))))).)-))))..((((((.((....)))))))).))))) ( -39.29)
>DroYak_CAF1 56 113 + 1
AUUGGCACCUGUGUGUUGCCAGUU-------GGCAGUUGCCGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUUUUUUCCGCUGACCUCGUUUACGGGUCAGAGCAGC
..(((((.(.....).)))))(((-------..(((((((....)))))))..)))....((((...(((.....)))...............((((((.((....)))))))).)))). ( -32.80)
>consensus
AUUGGCACCUGUGUGUUGCCAGUU_______GCCAGUUGCCGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU_UUUCCGCUGACCUCGUUUACGGGUCAGAGCAGC
(((((((.(.....).)))))))..........(((((((....))))))).........((((...(((.....)))...............((((((.((....)))))))).)))). (-32.27 = -32.27 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,697,213 – 20,697,325
Length 112
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.32
Mean single sequence MFE -33.33
Consensus MFE -28.90
Energy contribution -28.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.64
Structure conservation index 0.87
SVM decision value 0.95
SVM RNA-class probability 0.887301
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20697213 112 - 23771897
GCUGCUCUGACCCGUAAACGAGGUCAGCGGAAA-AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCGGCAACUGGC-------AACUGGCAACACACAGGUGCCAAU
.(((((..((((((....)).)))))))))...-........(((((.....(((((....))))))))))(((((....)))))((((-------(.(((........))).))))).. ( -32.60)
>DroEre_CAF1 19223 119 - 1
GCUGCUCUGACCCGUAAACGAGGUCAGUGGAAA-AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCGGCAACUGGCAACUGGCAACUGGCAACACACAGGUGCCAAU
(((((.((((((((....)).))))))......-........(((.....)))...)))..........(((((((....)))))))))...(((((.(((........))).))))).. ( -35.90)
>DroYak_CAF1 56 113 - 1
GCUGCUCUGACCCGUAAACGAGGUCAGCGGAAAAAAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCGGCAACUGCC-------AACUGGCAACACACAGGUGCCAAU
.(((((..((((((....)).)))))))))...........((((((.....(((((....)))))))))))..((((((((....)))-------...((....))....))))).... ( -31.50)
>consensus
GCUGCUCUGACCCGUAAACGAGGUCAGCGGAAA_AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCGGCAACUGGC_______AACUGGCAACACACAGGUGCCAAU
((..(.((((((((....)).)))))).).............(((.....)))...))...........(((((((....)))))))............(((((.(.....).))))).. (-28.90 = -28.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,697,246 – 20,697,364
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.66
Mean single sequence MFE -29.94
Consensus MFE -24.72
Energy contribution -24.64
Covariance contribution -0.08
Combinations/Pair 1.06
Mean z-score -1.76
Structure conservation index 0.83
SVM decision value 0.99
SVM RNA-class probability 0.896900
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20697246 118 + 23771897
CGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU-UUUCCGCUGACCUCGUUUACGGGUCAGAGCAGCUAUGAAAAGUUUGCCC-UGCAAACUAAAUUGCCGUUUGCA
...(((((.((..(((..(((((((..(((((((((((...((((.-......((((((.((....))))))))))))....)))))))))))...-)))))))...)))..)).))))) ( -32.51)
>DroPse_CAF1 2 108 + 1
-----------AAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU-UUUGCGUUGACCUCGUUUACGGGUCAGAGCGGGUAUGAAAAGUUUGCCCGUACAAACUAAAUUGCCGCCUGCA
-----------.....((((..((((.(((.....)))..))))..-...))))(((((.((....)))))))..((((((......((((((......))))))........)))))). ( -26.14)
>DroEre_CAF1 19263 118 + 1
CGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU-UUUCCACUGACCUCGUUUACGGGUCAGAGCAGCUAUGAAAAGUUUGCCC-UGCAAACUAAAUUGCCGUUUGCA
...(((((.((..(((..(((((((..(((((((((((...((((.-......((((((.((....))))))))))))....)))))))))))...-)))))))...)))..)).))))) ( -32.51)
>DroYak_CAF1 89 119 + 1
CGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUUUUUUCCGCUGACCUCGUUUACGGGUCAGAGCAGCUAUGAAAAGUUUGCCC-UGCAAACUAAAUUGCCGUUUGCA
...(((((.((..(((..(((((((..(((((((((((...((((........((((((.((....))))))))))))....)))))))))))...-)))))))...)))..)).))))) ( -32.40)
>DroPer_CAF1 2 108 + 1
-----------AAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU-UUUGCGUUGACCUCGUUUACGGGUCAGAGCGGGUAUGAAAAGUUUGCCCGUACAAACUAAAUUGCCGCCUGCA
-----------.....((((..((((.(((.....)))..))))..-...))))(((((.((....)))))))..((((((......((((((......))))))........)))))). ( -26.14)
>consensus
CGGUGCAACUGAAAAUACGUUUGCAUAUGAAUUUUUCAAAAUGUUU_UUUCCGCUGACCUCGUUUACGGGUCAGAGCAGCUAUGAAAAGUUUGCCC_UGCAAACUAAAUUGCCGUUUGCA
..................(((((((..(((((((((((...((((........((((((.((....))))))))))))....)))))))))))....))))))).....(((.....))) (-24.72 = -24.64 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,697,246 – 20,697,364
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.66
Mean single sequence MFE -28.58
Consensus MFE -23.78
Energy contribution -24.10
Covariance contribution 0.32
Combinations/Pair 1.08
Mean z-score -1.86
Structure conservation index 0.83
SVM decision value 1.28
SVM RNA-class probability 0.939985
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20697246 118 - 23771897
UGCAAACGGCAAUUUAGUUUGCA-GGGCAAACUUUUCAUAGCUGCUCUGACCCGUAAACGAGGUCAGCGGAAA-AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCG
(((((((.........)))))))-((((((...........(((((..((((((....)).)))))))))...-.......((((((.....(((((....))))))))))))))).)). ( -30.70)
>DroPse_CAF1 2 108 - 1
UGCAGGCGGCAAUUUAGUUUGUACGGGCAAACUUUUCAUACCCGCUCUGACCCGUAAACGAGGUCAACGCAAA-AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUU-----------
(((((((((......(((((((....)))))))........))))).(((((((....)).)))))...((((-(....)))))...........))))..........----------- ( -25.84)
>DroEre_CAF1 19263 118 - 1
UGCAAACGGCAAUUUAGUUUGCA-GGGCAAACUUUUCAUAGCUGCUCUGACCCGUAAACGAGGUCAGUGGAAA-AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCG
(((((((.........)))))))-((((((..((((((........((((((((....)).))))))))))))-.......((((((.....(((((....))))))))))))))).)). ( -29.80)
>DroYak_CAF1 89 119 - 1
UGCAAACGGCAAUUUAGUUUGCA-GGGCAAACUUUUCAUAGCUGCUCUGACCCGUAAACGAGGUCAGCGGAAAAAAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCG
(((((((.........)))))))-((((((...........(((((..((((((....)).)))))))))...........((((((.....(((((....))))))))))))))).)). ( -30.70)
>DroPer_CAF1 2 108 - 1
UGCAGGCGGCAAUUUAGUUUGUACGGGCAAACUUUUCAUACCCGCUCUGACCCGUAAACGAGGUCAACGCAAA-AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUU-----------
(((((((((......(((((((....)))))))........))))).(((((((....)).)))))...((((-(....)))))...........))))..........----------- ( -25.84)
>consensus
UGCAAACGGCAAUUUAGUUUGCA_GGGCAAACUUUUCAUAGCUGCUCUGACCCGUAAACGAGGUCAGCGGAAA_AAACAUUUUGAAAAAUUCAUAUGCAAACGUAUUUUCAGUUGCACCG
((((..((((.((..(((((((....)))))))....)).))))(.((((((((....)).)))))).)..........................))))..................... (-23.78 = -24.10 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:11 2006