Locus 3376

Sequence ID	2R_DroMel_CAF1
Location	11,432,746 – 11,432,847
Length	101
Max. P	0.964365

overview

Window 4

Location	11,432,746 – 11,432,847
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	91.08
Mean single sequence MFE	-26.20
Consensus MFE	-21.40
Energy contribution	-21.56
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-2.04
Structure conservation index	0.82
SVM decision value	1.57
SVM RNA-class probability	0.964365
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11432746 101 + 20766785
AUUUUAUUUUUUUUGGCUCGGAUUUUUGUUGCCUGACUUUGGCUGACCAAAGGCAUCAGACUCCGGCGAAAAAUCCAGCAUCAGCUUCAGUUUCAGCAUCU
.........(((((.((.((((..((((.(((((....((((....))))))))).)))).)))))).)))))..........(((........))).... ( -25.20)
>DroSec_CAF1 51601 99 + 1
AUUUUAUUU--UUUGGCUCGGAUUUUUGUUGCCUGACUUUGGCUGACCAAAGGCAUCAGAGCCCGGCGAAAAAUCCAGCAUCAGCUUCAGUUUCAGCAUCU
.........--....(((.(((((((((((((((((((((((....))))))...)))).))..))).)))))))))))....(((........))).... ( -26.40)
>DroSim_CAF1 41227 99 + 1
AUUUUAUUU--UUUGGCUCGGAUUUUUGUUGCCUGACUUUGGCUGACCAAAGGCAUCAGAGCCCGGCGAAAAAUCCAGCAUCAGCUUCAGUUUCAGCAUCU
.........--....(((.(((((((((((((((((((((((....))))))...)))).))..))).)))))))))))....(((........))).... ( -26.40)
>DroEre_CAF1 48399 93 + 1
AUUUUAUUU--UUUGGCUUCGAUAUUUGUUGCCUGACUUUGGCUGACCAAAGGCAUCAGACUCCGGCUAAAAAUCCAGCUA------CAGCUUCAGCAUCA
.......((--(((((((..((..((((.(((((....((((....))))))))).)))).)).)))))))))....(((.------.......))).... ( -21.40)
>DroYak_CAF1 47054 99 + 1
AUUUUAUUU--UUUGGCUCGGAUUUUUGUUGCCUGACUUUGGCUGACCAAAGGCAUCAGACUCCGGCUAAAAAUCCAGCUACAGCUACAGCUUCAGCAUCA
.......((--((((((.((((..((((.(((((....((((....))))))))).)))).))))))))))))....(((..(((....)))..))).... ( -31.60)
>consensus
AUUUUAUUU__UUUGGCUCGGAUUUUUGUUGCCUGACUUUGGCUGACCAAAGGCAUCAGACUCCGGCGAAAAAUCCAGCAUCAGCUUCAGUUUCAGCAUCU
...............(((.((((((((((((.((((((((((....))))))...))))....)))).)))))))))))..........((....)).... (-21.40 = -21.56 +   0.16)

alignment

secondary structure

dotplot

Window 5

Location	11,432,746 – 11,432,847
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	91.08
Mean single sequence MFE	-26.12
Consensus MFE	-19.36
Energy contribution	-20.16
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.74
SVM decision value	0.15
SVM RNA-class probability	0.606921
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11432746 101 - 20766785
AGAUGCUGAAACUGAAGCUGAUGCUGGAUUUUUCGCCGGAGUCUGAUGCCUUUGGUCAGCCAAAGUCAGGCAACAAAAAUCCGAGCCAAAAAAAAUAAAAU
....(((........)))....(((((((((((....(..((((((...((((((....))))))))))))..))))))))).)))............... ( -26.50)
>DroSec_CAF1 51601 99 - 1
AGAUGCUGAAACUGAAGCUGAUGCUGGAUUUUUCGCCGGGCUCUGAUGCCUUUGGUCAGCCAAAGUCAGGCAACAAAAAUCCGAGCCAAA--AAAUAAAAU
....(((........)))....(((((((((((.(((.(((......)))(((((....)))))....)))...)))))))).)))....--......... ( -26.80)
>DroSim_CAF1 41227 99 - 1
AGAUGCUGAAACUGAAGCUGAUGCUGGAUUUUUCGCCGGGCUCUGAUGCCUUUGGUCAGCCAAAGUCAGGCAACAAAAAUCCGAGCCAAA--AAAUAAAAU
....(((........)))....(((((((((((.(((.(((......)))(((((....)))))....)))...)))))))).)))....--......... ( -26.80)
>DroEre_CAF1 48399 93 - 1
UGAUGCUGAAGCUG------UAGCUGGAUUUUUAGCCGGAGUCUGAUGCCUUUGGUCAGCCAAAGUCAGGCAACAAAUAUCGAAGCCAAA--AAAUAAAAU
....(((...(.((------(..((((........)))).((((((...((((((....)))))))))))).....))).)..)))....--......... ( -21.20)
>DroYak_CAF1 47054 99 - 1
UGAUGCUGAAGCUGUAGCUGUAGCUGGAUUUUUAGCCGGAGUCUGAUGCCUUUGGUCAGCCAAAGUCAGGCAACAAAAAUCCGAGCCAAA--AAAUAAAAU
....((((.(((....))).))))....(((((.((((((((((((...((((((....))))))))))))........)))).)).)))--))....... ( -29.30)
>consensus
AGAUGCUGAAACUGAAGCUGAUGCUGGAUUUUUCGCCGGAGUCUGAUGCCUUUGGUCAGCCAAAGUCAGGCAACAAAAAUCCGAGCCAAA__AAAUAAAAU
......................(((((((((((....(..((((((...((((((....))))))))))))..))))))))).)))............... (-19.36 = -20.16 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:59 2006