Locus 7187

Sequence ID X_DroMel_CAF1
Location 18,004,320 – 18,004,412
Length 92
Max. P 0.992209
window11741 window11742

overview

Window 1

Location 18,004,320 – 18,004,412
Length 92
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 87.13
Mean single sequence MFE -13.87
Consensus MFE -11.22
Energy contribution -11.22
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.81
SVM decision value 1.63
SVM RNA-class probability 0.968675
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18004320 92 + 22224390
CUCCACUCUUCACUUUCUCUUCUCUCCACGCUUUUCUCAAUU-------CUCAAUUC---------UUGAUUCUCGAUUCUCCGCGCGUCGCUUGCGACACUGAAGAU
......((((((................(((.....((....-------.(((....---------.))).....))......))).((((....))))..)))))). ( -12.70)
>DroSec_CAF1 16036 99 + 1
CUCCGCUCUUCACUCUCUCUUCUCUCCACGCUUUUCUCAAUUCUCAAUUCUCAAUUC---------UUGAUUCUCGAUUCUCCGCGCGUCGCUUGCGACACUGAAGAU
......((((((................(((.....((.....((((..........---------)))).....))......))).((((....))))..)))))). ( -12.70)
>DroSim_CAF1 4943 92 + 1
CUCCACUCUUCACUCUCUCUUCUCUCCACGCUUUUCUCAAUU-------CUCAAUUC---------UUGAUUCUCGAUUCUCCGCGCGUCGCUUGCGACACUGAAGAU
......((((((................(((.....((....-------.(((....---------.))).....))......))).((((....))))..)))))). ( -12.70)
>DroEre_CAF1 16849 106 + 1
CUCCACUCUUCACUUUCUCUUCUCUCCACGCUUUUCUCAAUUCCCGAUUCUCGAUUUUUGAUUCUC--AAUUCUCGAUUCUCCGCGCGUCGCUUGCGACACUGAAGAU
......((((((................(((.....((.......))...((((...(((.....)--))...))))......))).((((....))))..)))))). ( -17.40)
>consensus
CUCCACUCUUCACUCUCUCUUCUCUCCACGCUUUUCUCAAUU_______CUCAAUUC_________UUGAUUCUCGAUUCUCCGCGCGUCGCUUGCGACACUGAAGAU
......((((((................(((....................................................))).((((....))))..)))))). (-11.22 = -11.22 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,004,320 – 18,004,412
Length 92
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 87.13
Mean single sequence MFE -25.32
Consensus MFE -19.96
Energy contribution -19.96
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.97
Structure conservation index 0.79
SVM decision value 2.31
SVM RNA-class probability 0.992209
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18004320 92 - 22224390
AUCUUCAGUGUCGCAAGCGACGCGCGGAGAAUCGAGAAUCAA---------GAAUUGAG-------AAUUGAGAAAAGCGUGGAGAGAAGAGAAAGUGAAGAGUGGAG
.((((((.(.((.....(..(((((......((((...(((.---------....))).-------..)))).....)))))..)......)).).))))))...... ( -23.60)
>DroSec_CAF1 16036 99 - 1
AUCUUCAGUGUCGCAAGCGACGCGCGGAGAAUCGAGAAUCAA---------GAAUUGAGAAUUGAGAAUUGAGAAAAGCGUGGAGAGAAGAGAGAGUGAAGAGCGGAG
.((((((.(.((.....(..(((((......((((...((((---------..........))))...)))).....)))))..)......)).).))))))...... ( -26.50)
>DroSim_CAF1 4943 92 - 1
AUCUUCAGUGUCGCAAGCGACGCGCGGAGAAUCGAGAAUCAA---------GAAUUGAG-------AAUUGAGAAAAGCGUGGAGAGAAGAGAGAGUGAAGAGUGGAG
.((((((.(.((.....(..(((((......((((...(((.---------....))).-------..)))).....)))))..)......)).).))))))...... ( -25.70)
>DroEre_CAF1 16849 106 - 1
AUCUUCAGUGUCGCAAGCGACGCGCGGAGAAUCGAGAAUU--GAGAAUCAAAAAUCGAGAAUCGGGAAUUGAGAAAAGCGUGGAGAGAAGAGAAAGUGAAGAGUGGAG
.((((((.(.((.....(..(((((......((((...((--((...((.......))...))))...)))).....)))))..)......)).).))))))...... ( -25.50)
>consensus
AUCUUCAGUGUCGCAAGCGACGCGCGGAGAAUCGAGAAUCAA_________GAAUUGAG_______AAUUGAGAAAAGCGUGGAGAGAAGAGAAAGUGAAGAGUGGAG
.((((((.(.((.....(..(((((......((((.................................)))).....)))))..)......)).).))))))...... (-19.96 = -19.96 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:18 2006