Locus 4136

Sequence ID 3R_DroMel_CAF1
Location 11,281,938 – 11,282,035
Length 97
Max. P 0.529572
window6625 window6626

overview

Window 5

Location 11,281,938 – 11,282,035
Length 97
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.94
Mean single sequence MFE -24.78
Consensus MFE -12.92
Energy contribution -13.50
Covariance contribution 0.59
Combinations/Pair 1.14
Mean z-score -2.14
Structure conservation index 0.52
SVM decision value -0.01
SVM RNA-class probability 0.529572
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11281938 97 + 27905053
CGAAAAUAGUCAGACGUUUAUGUGAUUUUUCUU-CGCCACACACGCAGACC---UGAAUGCU------UAGAGUUACUCACAGGUAAAUGGUCAUGGUCUGACUCAU
.......((((((((......((((.......)-)))..........((((---....((((------(.(((...)))..)))))...))))...))))))))... ( -23.80)
>DroPse_CAF1 22471 96 + 1
UAAAAAUAGUCAGACAUUUAUAUGAUUUUCCCUGUGCCACACA--CAGACC---AAAAUUCC------CAAUUCUAUUCACAGGUGAAUGGUCAAUGGCUGACUCAC
.......((((((..........((((((..(((((.....))--)))...---)))))).(------((...(((((((....)))))))....)))))))))... ( -22.20)
>DroSim_CAF1 16556 97 + 1
CAAAAAUAGUCAGACGUUUAUGUGAUUUUCCUU-CGCCACACACGCAGACC---UGAAUGCU------UAAAGUUACUCACAGGUAAAUGGUCAUGGUCUGACUCAU
.......((((((((......((((.......)-)))..........((((---....((((------(............)))))...))))...))))))))... ( -21.60)
>DroEre_CAF1 15765 97 + 1
CGAAAAUAGUCAGACGUUUGUGUGGUUUUCCUU-CGCCACACACGCAGACC---UGAAUGCU------UAAGGUUACUCACAGGUAAAUGGUCAUGGUCUGACUCAU
.......((((((((((.((((((((.......-.)))))))).)).((((---....((((------(.((....))...)))))...))))...))))))))... ( -34.30)
>DroAna_CAF1 16556 105 + 1
UAAAAAUAGUCAGACAUUUAUGUGAUUUUCCCUGUGCCACACA--CAGACCAACAGAAUGCCAGAACGCAGAGUUACUCAGAGGUAAAUGGCCAAGGUCUGACUCAU
.......((((((((.(((..(((((((...(((((.....))--)))..........(((......))))))))))..)))(((.....)))...))))))))... ( -26.50)
>DroPer_CAF1 22574 96 + 1
UAAAAAUAGUCAGACAUUUAUAUGAUUUUCCCUGUGCCACACA--CAGACC---AAAAUUCC------CAGUUCUAUUCGCAGGUGAAUGGUCAAUGGCUGAUUCAC
.......((((((..........((((((..(((((.....))--)))...---)))))).(------((...(((((((....)))))))....)))))))))... ( -20.30)
>consensus
CAAAAAUAGUCAGACAUUUAUGUGAUUUUCCCU_CGCCACACA__CAGACC___AGAAUGCC______CAAAGUUACUCACAGGUAAAUGGUCAAGGUCUGACUCAU
.......((((((((.....((((.............))))......((((......................(((((....)))))..))))...))))))))... (-12.92 = -13.50 +   0.59)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 11,281,938 – 11,282,035
Length 97
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.94
Mean single sequence MFE -24.77
Consensus MFE -18.61
Energy contribution -17.70
Covariance contribution -0.91
Combinations/Pair 1.31
Mean z-score -1.13
Structure conservation index 0.75
SVM decision value -0.02
SVM RNA-class probability 0.520960
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11281938 97 - 27905053
AUGAGUCAGACCAUGACCAUUUACCUGUGAGUAACUCUA------AGCAUUCA---GGUCUGCGUGUGUGGCG-AAGAAAAAUCACAUAAACGUCUGACUAUUUUCG
...((((((((...........(((((...((.......------.))...))---)))..(..(((((((..-........)))))))..)))))))))....... ( -23.20)
>DroPse_CAF1 22471 96 - 1
GUGAGUCAGCCAUUGACCAUUCACCUGUGAAUAGAAUUG------GGAAUUUU---GGUCUG--UGUGUGGCACAGGGAAAAUCAUAUAAAUGUCUGACUAUUUUUA
...((((((.((((((((((((.((.((.......)).)------))))...)---))))((--((.....))))..............)))).))))))....... ( -23.40)
>DroSim_CAF1 16556 97 - 1
AUGAGUCAGACCAUGACCAUUUACCUGUGAGUAACUUUA------AGCAUUCA---GGUCUGCGUGUGUGGCG-AAGGAAAAUCACAUAAACGUCUGACUAUUUUUG
...((((((((...........(((((...((.......------.))...))---)))..(..((((((((.-...)....)))))))..)))))))))....... ( -24.00)
>DroEre_CAF1 15765 97 - 1
AUGAGUCAGACCAUGACCAUUUACCUGUGAGUAACCUUA------AGCAUUCA---GGUCUGCGUGUGUGGCG-AAGGAAAACCACACAAACGUCUGACUAUUUUCG
...((((((((...((((.........((((....))))------........---)))).(..((((((((.-...)....)))))))..)))))))))....... ( -28.33)
>DroAna_CAF1 16556 105 - 1
AUGAGUCAGACCUUGGCCAUUUACCUCUGAGUAACUCUGCGUUCUGGCAUUCUGUUGGUCUG--UGUGUGGCACAGGGAAAAUCACAUAAAUGUCUGACUAUUUUUA
...(((((((((((((((((.(((....((.((((..(((......)))....)))).)).)--)).))))).))))).......((....)))))))))....... ( -31.30)
>DroPer_CAF1 22574 96 - 1
GUGAAUCAGCCAUUGACCAUUCACCUGCGAAUAGAACUG------GGAAUUUU---GGUCUG--UGUGUGGCACAGGGAAAAUCAUAUAAAUGUCUGACUAUUUUUA
.....((((.((((((((((((.((..(.....)....)------))))...)---))))((--((.....))))..............)))).))))......... ( -18.40)
>consensus
AUGAGUCAGACCAUGACCAUUUACCUGUGAGUAACUCUA______AGCAUUCA___GGUCUG__UGUGUGGCA_AAGGAAAAUCACAUAAACGUCUGACUAUUUUUA
...((((((((...(((((((((....)))))....((.......)).........))))....(((((((...........)))))))...))))))))....... (-18.61 = -17.70 +  -0.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:06 2006