Locus 6641

Sequence ID	2L_DroMel_CAF1
Location	18,642,543 – 18,642,637
Length	94
Max. P	0.999890

overview

Window 9

Location	18,642,543 – 18,642,637
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	97.87
Mean single sequence MFE	-25.46
Consensus MFE	-26.02
Energy contribution	-25.46
Covariance contribution	-0.56
Combinations/Pair	1.14
Mean z-score	-2.51
Structure conservation index	1.02
SVM decision value	4.40
SVM RNA-class probability	0.999890
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18642543 94 + 22407834
UUUGCAGUUGAUGCACGCGCCUAAUGGUAAUUAAUUAGGCAUUUAAUUUAAUUAUGAGUGCAAAUUGCGCACAGGUCACAGCAUCCGCUAAUUU
.....(((.(((((....(((((((........)))))))..............((.((((.....)))).)).......))))).)))..... ( -26.00)
>DroSec_CAF1 115292 94 + 1
UUUGCAGUUGAUGCACGCGCCUAAUGGUAAUUAAUUAGGCAUUUAAUUUAAUUAUGAGUGCAAAUUGCGCACAGGUCACAGCAUCCGCUAAUUU
.....(((.(((((....(((((((........)))))))..............((.((((.....)))).)).......))))).)))..... ( -26.00)
>DroSim_CAF1 116919 94 + 1
UUUGCAGUUGAUGCACGCGCCUAAUGGUAAUUAAUUAGGCAUUUAAUUUAAUUAUGAGUGCAAAUUGCGCACAGGUCACAGCAUCCGCUAAUUU
.....(((.(((((....(((((((........)))))))..............((.((((.....)))).)).......))))).)))..... ( -26.00)
>DroEre_CAF1 114248 94 + 1
UUUGCAGUUGGUGCACGAGCCUAAUGGUAAUUAAUUAGGCAUUUAAUUUAAUUAUGAGUGCAAAUUGCACACAGGUCACAGCAUCCGCUAAUUU
.....(((.(((((....(((((((........)))))))..............((.((((.....)))).)).......))))).)))..... ( -25.70)
>DroYak_CAF1 115680 94 + 1
UUUGCAGUUGAUGCACGAGUCUAAUGGUAAUUAAUUAGGCAUUUAAUUUAAUUAUGAGUGCAAAUUGCACACAGGUCACAGCAUCCGCUAAUUU
.....(((.(((((....(((((((........)))))))..............((.((((.....)))).)).......))))).)))..... ( -23.60)
>consensus
UUUGCAGUUGAUGCACGCGCCUAAUGGUAAUUAAUUAGGCAUUUAAUUUAAUUAUGAGUGCAAAUUGCGCACAGGUCACAGCAUCCGCUAAUUU
.....(((.(((((....(((((((........)))))))..............((.((((.....)))).)).......))))).)))..... (-26.02 = -25.46 +  -0.56)

alignment

secondary structure

dotplot

Window 0

Location	18,642,543 – 18,642,637
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	97.87
Mean single sequence MFE	-23.38
Consensus MFE	-21.76
Energy contribution	-21.92
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-2.60
Structure conservation index	0.93
SVM decision value	3.63
SVM RNA-class probability	0.999473
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18642543 94 - 22407834
AAAUUAGCGGAUGCUGUGACCUGUGCGCAAUUUGCACUCAUAAUUAAAUUAAAUGCCUAAUUAAUUACCAUUAGGCGCGUGCAUCAACUGCAAA
....(((..((((((((((...(((((.....))))))))))............(((((((........)))))))....)))))..))).... ( -25.20)
>DroSec_CAF1 115292 94 - 1
AAAUUAGCGGAUGCUGUGACCUGUGCGCAAUUUGCACUCAUAAUUAAAUUAAAUGCCUAAUUAAUUACCAUUAGGCGCGUGCAUCAACUGCAAA
....(((..((((((((((...(((((.....))))))))))............(((((((........)))))))....)))))..))).... ( -25.20)
>DroSim_CAF1 116919 94 - 1
AAAUUAGCGGAUGCUGUGACCUGUGCGCAAUUUGCACUCAUAAUUAAAUUAAAUGCCUAAUUAAUUACCAUUAGGCGCGUGCAUCAACUGCAAA
....(((..((((((((((...(((((.....))))))))))............(((((((........)))))))....)))))..))).... ( -25.20)
>DroEre_CAF1 114248 94 - 1
AAAUUAGCGGAUGCUGUGACCUGUGUGCAAUUUGCACUCAUAAUUAAAUUAAAUGCCUAAUUAAUUACCAUUAGGCUCGUGCACCAACUGCAAA
......((((.((.(((.((.((.((((.....)))).))..............(((((((........)))))))..))))).)).))))... ( -23.50)
>DroYak_CAF1 115680 94 - 1
AAAUUAGCGGAUGCUGUGACCUGUGUGCAAUUUGCACUCAUAAUUAAAUUAAAUGCCUAAUUAAUUACCAUUAGACUCGUGCAUCAACUGCAAA
....(((..(((((((.(...((.((((.....)))).))(((((((.(((......))))))))))........).)).)))))..))).... ( -17.80)
>consensus
AAAUUAGCGGAUGCUGUGACCUGUGCGCAAUUUGCACUCAUAAUUAAAUUAAAUGCCUAAUUAAUUACCAUUAGGCGCGUGCAUCAACUGCAAA
....(((..((((((((((...(((((.....))))))))))............(((((((........)))))))....)))))..))).... (-21.76 = -21.92 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:11 2006