Locus 3985

Sequence ID	2L_DroMel_CAF1
Location	11,607,331 – 11,607,464
Length	133
Max. P	0.981511

overview

Window 4

Location	11,607,331 – 11,607,426
Length	95
Sequences	3
Columns	95
Reading direction	reverse
Mean pairwise identity	89.12
Mean single sequence MFE	-12.96
Consensus MFE	-12.51
Energy contribution	-12.29
Covariance contribution	-0.22
Combinations/Pair	1.06
Mean z-score	-1.08
Structure conservation index	0.97
SVM decision value	0.07
SVM RNA-class probability	0.569953
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11607331 95 - 22407834
ACUAUUACAUGCGCACGCCCACUGUGCGAUGUCAUAAAAAUUGUCUCAUUAAUCAUCACACGACAUGCCCCAACGCUCCACGCUCCACGCUCCAC
..(((.((((.((((((.....)))))))))).))).....((((................)))).((......)).....((.....))..... ( -13.39)
>DroSec_CAF1 61907 95 - 1
ACUAUUACAUGCGCACGCCCACUGUGCGAUGUCAUAAAAAUUGUCUCAUUAAUCAUCACACGACAUGCCCCAAUGCUCCACGCCCUCCGCCCACC
..(((.((((.((((((.....)))))))))).))).....((((................)))).((......((.....)).....))..... ( -12.89)
>DroEre_CAF1 92790 88 - 1
ACUAUUACAUGCGCGCUCCCACUGUGCGAUGUCAUAAAAAUUGUCUCAUUAAUCAUCACACGACAUGCCCCAACGCUCCACGCCCCC-------U
..(((.((((.(((((.......))))))))).))).....((((................)))).........((.....))....-------. ( -12.59)
>consensus
ACUAUUACAUGCGCACGCCCACUGUGCGAUGUCAUAAAAAUUGUCUCAUUAAUCAUCACACGACAUGCCCCAACGCUCCACGCCCCCCGC_C__C
..(((.((((.(((((.......))))))))).))).....((((................)))).........((.....))............ (-12.51 = -12.29 +  -0.22)

alignment

secondary structure

dotplot

Window 5

Location	11,607,362 – 11,607,464
Length	102
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	91.66
Mean single sequence MFE	-25.75
Consensus MFE	-24.20
Energy contribution	-24.97
Covariance contribution	0.77
Combinations/Pair	1.07
Mean z-score	-1.66
Structure conservation index	0.94
SVM decision value	1.89
SVM RNA-class probability	0.981511
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11607362 102 + 22407834
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAUCGCACAGUGGGCGUGCGCAUGUAAUAGUCUGCCCACAUAAAUAUCCGAAAUGUCGAAACAUUAAGU-
.((((((((((....((((((....))))))..)))))))).(((((((.((..........)).)))))))..........))(((((....)))))....- ( -28.90)
>DroSec_CAF1 61938 102 + 1
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAUCGCACAGUGGGCGUGCGCAUGUAAUAGUCUGCCCACAUAAAUAUCCGAAAUGUCGAAACAUUAAGU-
.((((((((((....((((((....))))))..)))))))).(((((((.((..........)).)))))))..........))(((((....)))))....- ( -28.90)
>DroSim_CAF1 64702 102 + 1
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAGCGCACAGUGGGCGUGCGUAUGUAAUAGUCUGCCCACAUAAAUAUCCGAAAUGUCGAAACAUUAAGU-
.(((((((.((....((((((....))))))..)).))))).(((((((.((..........)).)))))))..........))(((((....)))))....- ( -24.30)
>DroEre_CAF1 92814 102 + 1
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAUCGCACAGUGGGAGCGCGCAUGUAAUAGUCUGCCCACAUAAAUAUCCAAAAUGUCGAAACAUUAAGU-
...((((((((....((((((....))))))..)))))))).(((((((.((..........)))).)))))............(((((....)))))....- ( -23.90)
>DroYak_CAF1 64030 102 + 1
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAUCGCACAGUGGGAGAGCGCAUGUAAUAGUCUGCCCACAUAAAUAUCCGAAAUGUCGAAACACUAAGU-
...((((((((....((((((....))))))..)))))))).((((((((.(..........)))).))))).........(((....)))...........- ( -24.00)
>DroAna_CAF1 75973 95 + 1
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAUCGCACAGUGGGCGA----AUGUC----UACGCCAACACAAAUAUCAGAAAUGUCGAGGCAUUAAGAA
.((((((((((....((((((....))))))..)))))))).(((((((.----.....----..))))..)))........))(((((....)))))..... ( -24.50)
>consensus
GUCGUGUGAUGAUUAAUGAGACAAUUUUUAUGACAUCGCACAGUGGGCGUGCGCAUGUAAUAGUCUGCCCACAUAAAUAUCCGAAAUGUCGAAACAUUAAGU_
...((((((((....((((((....))))))..)))))))).(((((((.((..........)).)))))))............(((((....)))))..... (-24.20 = -24.97 +   0.77)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:29 2006