Locus 7749

Sequence ID X_DroMel_CAF1
Location 19,279,385 – 19,279,505
Length 120
Max. P 0.588429
window12721 window12722

overview

Window 1

Location 19,279,385 – 19,279,486
Length 101
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 83.46
Mean single sequence MFE -23.97
Consensus MFE -19.86
Energy contribution -19.70
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.48
Structure conservation index 0.83
SVM decision value 0.01
SVM RNA-class probability 0.536917
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19279385 101 + 22224390
------------------CACCAUCCAUGCUUUCACCUACGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCAGGCCUCCGGGCAUUGGGCGAACGAAAUCUUUAUGGAUUUUGCCAUAU
------------------.....................((((((((((....)).............(((.((...)).)))))))))))..((((((((....))))))))...... ( -23.50)
>DroSec_CAF1 58649 114 + 1
-----CCACCCAGUUCCCCACUUUCCACGCCCCCACCACCGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCGGGCCUGCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUCGCCAUGU
-----.......................((((.((.....((((...........................)))).)).))))....(((((((((........)))..)))))).... ( -23.73)
>DroSim_CAF1 62943 114 + 1
-----CCACCCAGUUCCCCACUUUCCACGCCCCCACCGCCGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCGGGCCUGCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUCGCCAUGU
-----......................(((((...((((.((((...........................))))..)))).....)))))...........(((((......))))). ( -26.33)
>DroEre_CAF1 55265 105 + 1
--------------UCCCCACUUUCCACGCUUUCACCUCCGCCCAAUCAUUUUUGCACCUAUAUUCCAUGAAGGCCUCCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUUGCCAUGU
--------------........................................(((.......((((((((((((....))).((((.....))))..)))))))))...)))..... ( -20.40)
>DroYak_CAF1 59439 118 + 1
AUCUCCCAAAC-UUCCCCCACUUUCCACGCUUUCACCUCCGCCCAAUCAUUUUUGCACCUAUAUUCGAGUUAGGCCUCCGGGCAUUGGGCGAACGAAAUCUUUAUGGAUUUCGCCAUGU
...........-................((.........((((((((...........(((.........)))(((....)))))))))))...(((((((....)))))))))..... ( -25.90)
>consensus
_____CCA__C__UUCCCCACUUUCCACGCUUUCACCUCCGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCAGGCCUCCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUCGCCAUGU
.......................................((((((((((....))..................(((....)))))))))))...........(((((......))))). (-19.86 = -19.70 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,279,406 – 19,279,505
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.13
Mean single sequence MFE -27.93
Consensus MFE -23.42
Energy contribution -23.18
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.51
Structure conservation index 0.84
SVM decision value 0.11
SVM RNA-class probability 0.588429
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19279406 99 + 22224390
CGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCAGGCCUCCGGGCAUUGGGCGAACGAAAUCUUUAUGGAUUUUGCCAUAUAGUUGGAUUGACAUCCACU---------------------
((((((((((....)).............(((.((...)).)))))))))))..((((((((....)))))))).........(((((....)))))..--------------------- ( -26.60)
>DroSec_CAF1 58683 99 + 1
CGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCGGGCCUGCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUCGCCAUGUAGUUGGAUUGACAUCCUCU---------------------
((((((((..................((....))(((....)))))))))))..((((..((.(((((......))))).)))))).............--------------------- ( -26.50)
>DroSim_CAF1 62977 99 + 1
CGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCGGGCCUGCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUCGCCAUGUAGUUGGAUUGACAUCCUCU---------------------
((((((((..................((....))(((....)))))))))))..((((..((.(((((......))))).)))))).............--------------------- ( -26.50)
>DroEre_CAF1 55290 113 + 1
CGCCCAAUCAUUUUUGCACCUAUAUUCCAUGAAGGCCUCCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUUGCCAUGUAGUUGGAUUGACAUCCUCUGCUCCUCCUCCCUC-------
....(((((....(((((.......((((((((((((....))).((((.....))))..)))))))))........)))))...))))).......................------- ( -27.66)
>DroYak_CAF1 59477 120 + 1
CGCCCAAUCAUUUUUGCACCUAUAUUCGAGUUAGGCCUCCGGGCAUUGGGCGAACGAAAUCUUUAUGGAUUUCGCCAUGUAGUUGGAUUGACAUCCUCUGCUCCUCCUCCCUCCCUCCCC
((((((((...........(((.........)))(((....)))))))))))..((((((((....))))))))....((((..((((....)))).))))................... ( -32.40)
>consensus
CGCCCAAUCAUUUUUGCACCUAUAUUCCAGCCAGGCCUCCGGGCAUUGGGCGAACCAAAUCUUUAUGGAUUUCGCCAUGUAGUUGGAUUGACAUCCUCU_____________________
((((((((((....))..................(((....)))))))))))..............((((.((.(((......)))...)).))))........................ (-23.42 = -23.18 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:43 2006