Locus 7851

Sequence ID 3R_DroMel_CAF1
Location 21,013,911 – 21,014,041
Length 130
Max. P 0.973581
window12651 window12652

overview

Window 1

Location 21,013,911 – 21,014,022
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.08
Mean single sequence MFE -19.08
Consensus MFE -10.44
Energy contribution -10.52
Covariance contribution 0.08
Combinations/Pair 1.18
Mean z-score -2.42
Structure conservation index 0.55
SVM decision value 1.71
SVM RNA-class probability 0.973581
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21013911 111 + 27905053
CAUAUCCUAUAACAAUACCAACCAGAUUAAAUAUUUGGCAAAACGAUGCACCUUAUCCCUUUUGGUCCU-UGCCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUCUGCUUAA--------
......................((((((......(((((((...((((.....))))((....))...)-))))))..((((((........))))))...)))))).....-------- ( -19.20)
>DroSec_CAF1 18723 111 + 1
CAUAUCCUAUAACAAUACCAUCCAGAUUAAAUAUUUGCCAAAACGAUGCACCUUAUCCCUUUUGGUCCU-UGCCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUCUGCUUAA--------
......................((((((........(((((((.((((.....))))..)))))))...-........((((((........))))))...)))))).....-------- ( -15.90)
>DroSim_CAF1 18803 111 + 1
CAUAUCCUAUAACAAUACCAUCCAGAUUAAAUAUUUGGCAAAACGAUGCACCUUAUCCCUUUUGGUCCU-UGCCAACUGCUUAUUCCAAAUCAUAAGCUCCAGUCUGCUUAA--------
......................((((((......(((((((...((((.....))))((....))...)-))))))..((((((........))))))...)))))).....-------- ( -19.20)
>DroEre_CAF1 18950 99 + 1
CAUAUCCCG-AAUAAUACCAGCCAGAUUAAAUAUG-----------UGCACCUCAUCCCUUUUGGCACU-UACCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUUGGCCCAA--------
.........-..........((((((......(((-----------.......)))....))))))...-..((((((((((((........))))))...)))))).....-------- ( -18.30)
>DroYak_CAF1 21584 111 + 1
CAAAUCCUA-GAU--------UCAGAUUAAACAUUUGGCAUAACGAUGUAGCUCACACCUCUUGGUUCUCUACCAACUGCUUGUUGCAAGCCAUAAGCUCAAGUUGGCCAAAAGAAGCAA
.........-...--------............((((((.((((..((.((((........(((((.....)))))..(((((...)))))....)))))).))))))))))........ ( -22.80)
>consensus
CAUAUCCUAUAACAAUACCAUCCAGAUUAAAUAUUUGGCAAAACGAUGCACCUUAUCCCUUUUGGUCCU_UGCCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUCUGCUUAA________
......................((((((.................................(((((.....)))))..((((((........))))))...))))))............. (-10.44 = -10.52 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,013,951 – 21,014,041
Length 90
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 77.63
Mean single sequence MFE -20.51
Consensus MFE -10.68
Energy contribution -10.68
Covariance contribution -0.00
Combinations/Pair 1.20
Mean z-score -1.90
Structure conservation index 0.52
SVM decision value 0.33
SVM RNA-class probability 0.692160
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21013951 90 + 27905053
AAACGAUGCACCUUAUCCCUUUUGGUCCU-UGCCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUCUGCUUAA---------------------ACAAGCAACCGAAGGAGAU
..............(((.((((((((.((-((......((((((........)))))).))))..(((((..---------------------..))))))))))))).))) ( -18.90)
>DroSec_CAF1 18763 90 + 1
AAACGAUGCACCUUAUCCCUUUUGGUCCU-UGCCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUCUGCUUAA---------------------ACAAGCAACCGAAGGAGAU
..............(((.((((((((.((-((......((((((........)))))).))))..(((((..---------------------..))))))))))))).))) ( -18.90)
>DroSim_CAF1 18843 90 + 1
AAACGAUGCACCUUAUCCCUUUUGGUCCU-UGCCAACUGCUUAUUCCAAAUCAUAAGCUCCAGUCUGCUUAA---------------------ACAAGCAACCGAAGGAGAU
..............(((.((((((((...-........((((((........)))))).......(((((..---------------------..))))))))))))).))) ( -18.10)
>DroEre_CAF1 18984 84 + 1
------UGCACCUCAUCCCUUUUGGCACU-UACCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUUGGCCCAA---------------------ACAACCAACUGGAGGAGAU
------.....(((.(((...((((....-..((((((((((((........))))))...)))))).....---------------------....))))..))).))).. ( -19.56)
>DroYak_CAF1 21615 112 + 1
UAACGAUGUAGCUCACACCUCUUGGUUCUCUACCAACUGCUUGUUGCAAGCCAUAAGCUCAAGUUGGCCAAAAGAAGCAACGAGUUGGCCAAAAGAAGCAACUGAAGGAGAU
...........(((.......(((((.....)))))((....(((((.(((.....)))....((((((((..(......)...)))))))).....)))))...))))).. ( -27.10)
>consensus
AAACGAUGCACCUUAUCCCUUUUGGUCCU_UGCCAACUGCUUAUUCCAAAUCAUAAGCUCAAGUCUGCUUAA_____________________ACAAGCAACCGAAGGAGAU
.................(((((((((.....))))...((((((........)))))).............................................))))).... (-10.68 = -10.68 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:21 2006