Locus 2542

Sequence ID 3R_DroMel_CAF1
Location 6,906,576 – 6,906,684
Length 108
Max. P 0.733675
window4150 window4151

overview

Window 0

Location 6,906,576 – 6,906,684
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.76
Mean single sequence MFE -16.93
Consensus MFE -14.32
Energy contribution -14.52
Covariance contribution 0.19
Combinations/Pair 1.05
Mean z-score -1.61
Structure conservation index 0.85
SVM decision value 0.07
SVM RNA-class probability 0.568926
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6906576 108 + 27905053
G--CCAAACCG-----AAC-----CGAUUCACAUUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAGAUCAACAAUUCAACAAUUAAAACUUAAUUGCAUUAACAUGAAAUGUGCAUCAUC
.--........-----...-----.(((.((((((.....((((............))))(((((((........))..((((((.....))))))..)))))....)))))).)))... ( -15.90)
>DroPse_CAF1 76355 113 + 1
A--CCAAACCGGGUAAAAC-----CGAUUCACAUUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAGAUCAACAAUUCAACAAUUAAAACUUAAUUGCAAUAACAUGAAAUGUGCAUCAUC
.--......(((......)-----))..........((((((((...((((....)))).((((.((........))..((((((.....))))))...)))).....)))))))).... ( -18.70)
>DroWil_CAF1 65387 109 + 1
GAGAC-AGUCC-----AAC-----CGAUUCACAUUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAAAUCAACAAUUCAACAAUUAAAACUUAAUUGCAUUACCAUGAAAUGUGCAGCAUC
.....-.....-----...-----.............(((((((...((((.....(((((((......)))........(((((.....)))))))))...))))..)))))))..... ( -12.80)
>DroYak_CAF1 56616 113 + 1
G--CCAAACCG-----AACCGUACCGAUUCACAUUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAGAUCAACAAUUCAACAAUUAAAACUUAAUUGCAUUAACAUGAAAUGUGCAUCAUC
.--........-----....((((...((((..(((((((((((............))))((((((......................)))))).)))))))..))))..))))...... ( -17.05)
>DroMoj_CAF1 59416 102 + 1
G--GCA-----------AG-----CGAUUCGCAGUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAGAUCAACAAUUCAACAAUUAAAACUUAAUUGCAUUAACAUGAAAUGUGCAUCAUC
.--...-----------.(-----((...)))....((((((((...((((....)))).(((((((........))..((((((.....))))))..))))).....)))))))).... ( -17.50)
>DroPer_CAF1 77222 113 + 1
A--CCAAACCGGGUAAAAC-----CGAUUCACAUUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAGAUCAACAAUUCAACAAUUAAAACUUAAUUGCAUUAACAUGAAAUGUGCAUCAUC
.--......(((......)-----))..........((((((((...((((....)))).(((((((........))..((((((.....))))))..))))).....)))))))).... ( -19.60)
>consensus
G__CCAAACCG_____AAC_____CGAUUCACAUUAAUGCGCAUAAAUAUGAAAUCAUGCGUUAAGAUCAACAAUUCAACAAUUAAAACUUAAUUGCAUUAACAUGAAAUGUGCAUCAUC
.........................(((.((((((...((((((............)))))).................((((((.....))))))...........)))))).)))... (-14.32 = -14.52 +   0.19)

alignment

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secondary structure

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dotplot

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Window 1

Location 6,906,576 – 6,906,684
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.76
Mean single sequence MFE -25.77
Consensus MFE -21.62
Energy contribution -22.15
Covariance contribution 0.53
Combinations/Pair 1.03
Mean z-score -1.94
Structure conservation index 0.84
SVM decision value 0.43
SVM RNA-class probability 0.733675
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6906576 108 - 27905053
GAUGAUGCACAUUUCAUGUUAAUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUCUUAACGCAUGAUUUCAUAUUUAUGCGCAUUAAUGUGAAUCG-----GUU-----CGGUUUGG--C
..(((.((....(((((((((((((..(((((..(((((.........))))).))))).((((((........)))))))))))))))))))...-----)))-----))......--. ( -26.00)
>DroPse_CAF1 76355 113 - 1
GAUGAUGCACAUUUCAUGUUAUUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUCUUAACGCAUGAUUUCAUAUUUAUGCGCAUUAAUGUGAAUCG-----GUUUUACCCGGUUUGG--U
..(((((((((.((((.((((..((......))..))))...)))).)))..........((((((........))))))))))))....((((((-----(......)))))))..--. ( -27.20)
>DroWil_CAF1 65387 109 - 1
GAUGCUGCACAUUUCAUGGUAAUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUUUUAACGCAUGAUUUCAUAUUUAUGCGCAUUAAUGUGAAUCG-----GUU-----GGACU-GUCUC
(((..(.(((..(((((..((((((...............((((((........))))))((((((........))))))))))))..)))))...-----).)-----).)..-))).. ( -24.50)
>DroYak_CAF1 56616 113 - 1
GAUGAUGCACAUUUCAUGUUAAUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUCUUAACGCAUGAUUUCAUAUUUAUGCGCAUUAAUGUGAAUCGGUACGGUU-----CGGUUUGG--C
((...((.((..(((((((((((((..(((((..(((((.........))))).))))).((((((........)))))))))))))))))))...)).))..)-----).......--. ( -27.40)
>DroMoj_CAF1 59416 102 - 1
GAUGAUGCACAUUUCAUGUUAAUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUCUUAACGCAUGAUUUCAUAUUUAUGCGCAUUACUGCGAAUCG-----CU-----------UGC--C
..(((((((((.((((.(((((.((......)).)))))...)))).)))..........((((((........))))))))))))..((((....-----.)-----------)))--. ( -21.90)
>DroPer_CAF1 77222 113 - 1
GAUGAUGCACAUUUCAUGUUAAUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUCUUAACGCAUGAUUUCAUAUUUAUGCGCAUUAAUGUGAAUCG-----GUUUUACCCGGUUUGG--U
.............((((((((((((..(((((..(((((.........))))).))))).((((((........))))))))))))))))))((((-----(......)))))....--. ( -27.60)
>consensus
GAUGAUGCACAUUUCAUGUUAAUGCAAUUAAGUUUUAAUUGUUGAAUUGUUGAUCUUAACGCAUGAUUUCAUAUUUAUGCGCAUUAAUGUGAAUCG_____GUU_____CGGUUUGG__C
............(((((((((((((..(((((..(((((.........))))).))))).((((((........)))))))))))))))))))........................... (-21.62 = -22.15 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:52 2006