Locus 7091

Sequence ID	X_DroMel_CAF1
Location	17,781,463 – 17,781,553
Length	90
Max. P	0.999980

overview

Window 8

Location	17,781,463 – 17,781,553
Length	90
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	91.16
Mean single sequence MFE	-20.88
Consensus MFE	-19.64
Energy contribution	-20.04
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-3.09
Structure conservation index	0.94
SVM decision value	5.23
SVM RNA-class probability	0.999980
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17781463 90 + 22224390
UCA-----AUUCAAUACAUAUAUAUCAAUAUAUCGAUGUAUAUGUAUAUGCGUAUAGCUAAAUAUGAUAAGGCUACACUACGGCAAGACAAAUAA
...-----.....(((((((((((((........))))))))))))).(((((((((((...........)))))...))).))).......... ( -20.60)
>DroSec_CAF1 40186 95 + 1
UCAAUGGAAUUCCAUACAUAUAUAUCAAUAUAUCGAUGUAUAUGUAUAUGCGUAUAGCUAAAUAUGAUAAGGCUACACUACGGCAAGACAAAUGA
.....((....))(((((((((((((........))))))))))))).(((((((((((...........)))))...))).))).......... ( -22.10)
>DroSim_CAF1 38594 95 + 1
UCAAUGGAAUUCCAUACAUAUAUAUCAAUAUAUCGAUGUAUAUGUAUAUGCGUAUAGCUAAAUAUGAUAAGGCUACACUACGGCAAGACAAAUGA
.....((....))(((((((((((((........))))))))))))).(((((((((((...........)))))...))).))).......... ( -22.10)
>DroEre_CAF1 38417 86 + 1
UUAAUGAAAUUUCAUACAUAUAUAUCAAUAUAUCGAUGUAUAUGUAUAUGCGUACAGCU---------AAGGCUACACUACGGCAAGACAAAUGA
.............(((((((((((((........))))))))))))).((((((.(((.---------...)))....))).))).......... ( -19.00)
>DroYak_CAF1 39058 95 + 1
UCAAUGGAAUUCCAUACAUAUAUAUCAAUAUAUCGAUGUAUAUGUAUAUGCGUACAGCUGAAUAUGAUAAGGCUACACUACGGCAAGACAAAUGA
.....((....))(((((((((((((........))))))))))))).((((((.((((...........))))....))).))).......... ( -20.60)
>consensus
UCAAUGGAAUUCCAUACAUAUAUAUCAAUAUAUCGAUGUAUAUGUAUAUGCGUAUAGCUAAAUAUGAUAAGGCUACACUACGGCAAGACAAAUGA
.............(((((((((((((........))))))))))))).(((((((((((...........)))))...))).))).......... (-19.64 = -20.04 +   0.40)

alignment

secondary structure

dotplot

Window 9

Location	17,781,463 – 17,781,553
Length	90
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	91.16
Mean single sequence MFE	-19.54
Consensus MFE	-18.54
Energy contribution	-18.50
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-2.08
Structure conservation index	0.95
SVM decision value	3.39
SVM RNA-class probability	0.999134
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17781463 90 - 22224390
UUAUUUGUCUUGCCGUAGUGUAGCCUUAUCAUAUUUAGCUAUACGCAUAUACAUAUACAUCGAUAUAUUGAUAUAUAUGUAUUGAAU-----UGA
.................(((((((.............))))))).((.(((((((((.(((((....))))).)))))))))))...-----... ( -18.72)
>DroSec_CAF1 40186 95 - 1
UCAUUUGUCUUGCCGUAGUGUAGCCUUAUCAUAUUUAGCUAUACGCAUAUACAUAUACAUCGAUAUAUUGAUAUAUAUGUAUGGAAUUCCAUUGA
(((..((.....((((.(((((((.............)))))))))..(((((((((.(((((....))))).))))))))))).....)).))) ( -21.22)
>DroSim_CAF1 38594 95 - 1
UCAUUUGUCUUGCCGUAGUGUAGCCUUAUCAUAUUUAGCUAUACGCAUAUACAUAUACAUCGAUAUAUUGAUAUAUAUGUAUGGAAUUCCAUUGA
(((..((.....((((.(((((((.............)))))))))..(((((((((.(((((....))))).))))))))))).....)).))) ( -21.22)
>DroEre_CAF1 38417 86 - 1
UCAUUUGUCUUGCCGUAGUGUAGCCUU---------AGCUGUACGCAUAUACAUAUACAUCGAUAUAUUGAUAUAUAUGUAUGAAAUUUCAUUAA
..........(((....(((((((...---------.))))))))))((((((((((.(((((....))))).))))))))))............ ( -18.30)
>DroYak_CAF1 39058 95 - 1
UCAUUUGUCUUGCCGUAGUGUAGCCUUAUCAUAUUCAGCUGUACGCAUAUACAUAUACAUCGAUAUAUUGAUAUAUAUGUAUGGAAUUCCAUUGA
(((..((.....((((.(((((((.............)))))))))..(((((((((.(((((....))))).))))))))))).....)).))) ( -18.22)
>consensus
UCAUUUGUCUUGCCGUAGUGUAGCCUUAUCAUAUUUAGCUAUACGCAUAUACAUAUACAUCGAUAUAUUGAUAUAUAUGUAUGGAAUUCCAUUGA
..........(((....(((((((.............))))))))))((((((((((.(((((....))))).))))))))))............ (-18.54 = -18.50 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:54 2006