Locus 6204

Sequence ID 3R_DroMel_CAF1
Location 16,197,213 – 16,197,333
Length 120
Max. P 0.960813
window10119 window10120

overview

Window 9

Location 16,197,213 – 16,197,333
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 98.61
Mean single sequence MFE -26.70
Consensus MFE -26.10
Energy contribution -26.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.36
Structure conservation index 0.98
SVM decision value 1.52
SVM RNA-class probability 0.960813
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16197213 120 + 27905053
GCACUCAAAUAUUUAUGCGCAUCUUUGGCGACAUAAAAUAUUUAGACACAUCAUCACCAUGCACUCUGUCAACACUUUCGCCAUUUUCCGUUCGCCAUGUCGCGCAUAAAUUUUGACCUU
....(((((.((((((((((..(..((((((.............((((...(((....))).....))))........((........)).)))))).)..))))))))))))))).... ( -27.80)
>DroSec_CAF1 26350 120 + 1
GCACUCAAAUAUUUAUGCGCAUCUUUGGCGACAUAAAAUAUUUAGACACAUCAUCACCAUGCACUCUGUCAACACUUUCGCCAUUUUCCGUUCGCCCUGUCGCGCAUAAAUUUUGACCUU
....(((((.((((((((((..(...(((((.............((((...(((....))).....))))........((........)).)))))..)..))))))))))))))).... ( -26.10)
>DroEre_CAF1 26575 120 + 1
GCACUCAAAUAUUUAUGCGCAUCUUUGGCGACAUAAAAUAUUUAGACACAUCAUCACCAUGCACUCUGUCAACACUUUCGCCACUUUCCGUUCGCCCUGUCGCGCAUAAAUUUUGACCUU
....(((((.((((((((((..(...(((((.............((((...(((....))).....))))........((........)).)))))..)..))))))))))))))).... ( -26.10)
>DroYak_CAF1 28252 120 + 1
GCACUCAAAUAUUUAUGCGCAUCUUUGGCGACGUAAAAUAUUUAGACACAUCAUCACCAUGCACUCUGUCAACACUUUCGCCACUUUCCGUUCGCCCUGUCGCGCAUAAAUUUUGACCUU
....(((((.((((((((((..(...((((((((((.....)))((((...(((....))).....))))..................)).)))))..)..))))))))))))))).... ( -26.80)
>consensus
GCACUCAAAUAUUUAUGCGCAUCUUUGGCGACAUAAAAUAUUUAGACACAUCAUCACCAUGCACUCUGUCAACACUUUCGCCACUUUCCGUUCGCCCUGUCGCGCAUAAAUUUUGACCUU
....(((((.((((((((((..(...(((((.............((((...(((....))).....))))........((........)).)))))..)..))))))))))))))).... (-26.10 = -26.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,197,213 – 16,197,333
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 98.61
Mean single sequence MFE -38.98
Consensus MFE -39.06
Energy contribution -38.62
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -4.04
Structure conservation index 1.00
SVM decision value 1.39
SVM RNA-class probability 0.949692
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16197213 120 - 27905053
AAGGUCAAAAUUUAUGCGCGACAUGGCGAACGGAAAAUGGCGAAAGUGUUGACAGAGUGCAUGGUGAUGAUGUGUCUAAAUAUUUUAUGUCGCCAAAGAUGCGCAUAAAUAUUUGAGUGC
..(.((((((((((((((((...((((((.((.((((((((....))...((((.(...(((....))).).))))....)))))).))))))))....))))))))))).))))).).. ( -38.80)
>DroSec_CAF1 26350 120 - 1
AAGGUCAAAAUUUAUGCGCGACAGGGCGAACGGAAAAUGGCGAAAGUGUUGACAGAGUGCAUGGUGAUGAUGUGUCUAAAUAUUUUAUGUCGCCAAAGAUGCGCAUAAAUAUUUGAGUGC
..(.((((((((((((((((.(..(((((.((.((((((((....))...((((.(...(((....))).).))))....)))))).)))))))...).))))))))))).))))).).. ( -38.50)
>DroEre_CAF1 26575 120 - 1
AAGGUCAAAAUUUAUGCGCGACAGGGCGAACGGAAAGUGGCGAAAGUGUUGACAGAGUGCAUGGUGAUGAUGUGUCUAAAUAUUUUAUGUCGCCAAAGAUGCGCAUAAAUAUUUGAGUGC
..(.((((((((((((((((.(..(((((.((.((((((((....))...((((.(...(((....))).).))))....)))))).)))))))...).))))))))))).))))).).. ( -38.50)
>DroYak_CAF1 28252 120 - 1
AAGGUCAAAAUUUAUGCGCGACAGGGCGAACGGAAAGUGGCGAAAGUGUUGACAGAGUGCAUGGUGAUGAUGUGUCUAAAUAUUUUACGUCGCCAAAGAUGCGCAUAAAUAUUUGAGUGC
..(.((((((((((((((((.(..(((((.((.((((((((....))...((((.(...(((....))).).))))....)))))).)))))))...).))))))))))).))))).).. ( -40.10)
>consensus
AAGGUCAAAAUUUAUGCGCGACAGGGCGAACGGAAAAUGGCGAAAGUGUUGACAGAGUGCAUGGUGAUGAUGUGUCUAAAUAUUUUAUGUCGCCAAAGAUGCGCAUAAAUAUUUGAGUGC
..(.((((((((((((((((.(..(((((.((.((((((((....))...((((.(...(((....))).).))))....)))))).)))))))...).))))))))))).))))).).. (-39.06 = -38.62 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:29 2006