Locus 1148

Sequence ID 3R_DroMel_CAF1
Location 3,433,936 – 3,434,053
Length 117
Max. P 0.738003
window1886 window1887

overview

Window 6

Location 3,433,936 – 3,434,029
Length 93
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 82.62
Mean single sequence MFE -17.83
Consensus MFE -9.98
Energy contribution -10.40
Covariance contribution 0.42
Combinations/Pair 1.32
Mean z-score -2.50
Structure conservation index 0.56
SVM decision value 0.10
SVM RNA-class probability 0.584695
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3433936 93 + 27905053
-AACUGCAAUUUUUCAUGCAAAUUUAUGCAAAAAUGUGAGAAAUUCGCUUCAAGAAAAUAUGAGCGAAAAAUGCAAUCUGCAAAAGAGUUA--ACC
-(((((((.(((((((((((......))))......)))))))((((((.((........))))))))...)))).(((.....)))))).--... ( -17.90)
>DroVir_CAF1 45152 75 + 1
AGCGUGCCAUUUUUCAUGCAGAUUUAUGUAAAAAUUUUUAAAAUUUGCGUAAAGAAAA------------GUGCAAUAGAGA--AAAAU-------
....(((.(((((((((((((((((...((((....))))))))))))))...)))))------------))))).......--.....------- ( -14.40)
>DroSim_CAF1 46564 93 + 1
-AACUGCAAUUUUUCAUGCAAAUUUAUGCAAAAAUGUGAGAAAUUCGCUUCAAGAAAAUAUGAGCGAAAAAUGCAAUCUGCAAAAGAGUUA--ACC
-(((((((.(((((((((((......))))......)))))))((((((.((........))))))))...)))).(((.....)))))).--... ( -17.90)
>DroEre_CAF1 42897 93 + 1
-AACUGCAAUUUUUCAUGCAAAUUUAUGCAAAAAUGUGAGAAAUUCGCUUCAAGAAAAUAUGAGCGAAAAAUGCAAUCUGCAAAAGAGUUA--ACC
-(((((((.(((((((((((......))))......)))))))((((((.((........))))))))...)))).(((.....)))))).--... ( -17.90)
>DroYak_CAF1 55038 93 + 1
-AACUGCAAUUUUUCAUGCAAAUUUAUGCAAAAAUGUGAGAAAUUCGCUUCAAGAAAAUAUGAGCGAAAAAUGCAAUCUGCAAAAGAGUUA--ACC
-(((((((.(((((((((((......))))......)))))))((((((.((........))))))))...)))).(((.....)))))).--... ( -17.90)
>DroAna_CAF1 31862 95 + 1
-AACUGUAAUUUUUCAUGCAAAUUUAUGCAGAAAUGCAAGAAAUUUGCUAAAGGAAAAUAUGAGCGAAAAAUGCAAUCUGCAAAAGAGUUAAAACC
-((((.(.(((((((..((((((((.((((....))))..))))))))....)))))))............(((.....)))..).))))...... ( -21.00)
>consensus
_AACUGCAAUUUUUCAUGCAAAUUUAUGCAAAAAUGUGAGAAAUUCGCUUCAAGAAAAUAUGAGCGAAAAAUGCAAUCUGCAAAAGAGUUA__ACC
....(((.(((((((.((((......)))).....(((((...))))).................))))))))))..................... ( -9.98 = -10.40 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 3,433,957 – 3,434,053
Length 96
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 90.87
Mean single sequence MFE -13.63
Consensus MFE -11.45
Energy contribution -11.65
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.92
Structure conservation index 0.84
SVM decision value 0.44
SVM RNA-class probability 0.738003
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3433957 96 - 27905053
AUCU-------UCGUUUUUUCGUUCUUCU-UUGGU--UAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCUUGAAGCGAAUUUCUCACAUUUUUGCAUAAA
....-------..(((...(((.......-.))).--.))).....((((((.((.....((((((((........)).)))))).......))..)))))).... ( -13.60)
>DroSec_CAF1 32132 96 - 1
AUCU-------UCGUUUUUUCGCUCUUCU-UUGGU--UAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCUUGAAGCGAAUUUCUCACAUUUUUGCAUAAA
....-------..................-.....--.........((((((.((.....((((((((........)).)))))).......))..)))))).... ( -12.90)
>DroSim_CAF1 46585 96 - 1
AUCU-------UCGUUUUUUCGCUCUUCU-UUGGU--UAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCUUGAAGCGAAUUUCUCACAUUUUUGCAUAAA
....-------..................-.....--.........((((((.((.....((((((((........)).)))))).......))..)))))).... ( -12.90)
>DroEre_CAF1 42918 104 - 1
AUCUGCGUUCUUCUUUUUUUCGUUCUUCUUUUGGU--UAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCUUGAAGCGAAUUUCUCACAUUUUUGCAUAAA
(((((((.....)........(((..((....)).--.)))......))))))((((...((((((((........)).)))))).............)))).... ( -15.59)
>DroYak_CAF1 55059 96 - 1
GUCU-------UCGUUUUUUCAUUCUUCU-UUGGU--UAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCUUGAAGCGAAUUUCUCACAUUUUUGCAUAAA
....-------..(((...(((.......-.))).--.))).....((((((.((.....((((((((........)).)))))).......))..)))))).... ( -14.30)
>DroAna_CAF1 31883 98 - 1
UGCA-------UUGUUUUUUAUUUCUUCU-UUGGUUUUAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCCUUUAGCAAAUUUCUUGCAUUUCUGCAUAAA
....-------..................-................((((((.((((...((.(((.............))).)).....))))..)))))).... ( -12.52)
>consensus
AUCU_______UCGUUUUUUCGUUCUUCU_UUGGU__UAACUCUUUUGCAGAUUGCAUUUUUCGCUCAUAUUUUCUUGAAGCGAAUUUCUCACAUUUUUGCAUAAA
..............................................((((((.((.....((((((((........)).)))))).......))..)))))).... (-11.45 = -11.65 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:15 2006