Locus 7265

Sequence ID	X_DroMel_CAF1
Location	18,109,221 – 18,109,336
Length	115
Max. P	0.605577

overview

Window 9

Location	18,109,221 – 18,109,336
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	85.11
Mean single sequence MFE	-30.75
Consensus MFE	-26.12
Energy contribution	-26.00
Covariance contribution	-0.12
Combinations/Pair	1.14
Mean z-score	-1.47
Structure conservation index	0.85
SVM decision value	0.15
SVM RNA-class probability	0.605577
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18109221 115 + 22224390
---GCUGGCACCCCAGUCAUCGUCAUCGAUUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCAUUGGAUUGCGAUAAUAUACA--UACAUA
---(((((....))))).(((((.((((((((((.(((....((((((..(((.(((...))).)))....))))))..)))..)))))))....))).)))))........--...... ( -33.00)
>DroSec_CAF1 17677 115 + 1
---GCUGGCACCCCAGUCGUCGUCAUCGACUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCAUUGGAUUGCGAUAAUAUACA--UGUGUA
---....(((..(((((.((((....))))((((.(((....((((((..(((.(((...))).)))....))))))..)))..))))...)))))..)))...........--...... ( -30.00)
>DroEre_CAF1 15579 109 + 1
---GCCGGCACUCCAGUCAUCGCCAUAGACCGUCAUGCAUUAGUUAUUAGGGUUUUACACUAACGCCACCAAAUGGCAGGCACAGACAAUCGCAAGAUUGCGAUGAUAUUCU--------
---...((....)).(((((((((..(((((.(.((((....).))).).))))).........((((.....)))).)))...(.(((((....)))))))))))).....-------- ( -29.60)
>DroYak_CAF1 17436 120 + 1
GAUGCCGGCACCCCAGUCAUCGCCAUCGACUGUCAUGCAUUAGCUAUUAGGGUCUUACACUAACGCCAUCGAAUGGCAGGCACAGACAAUCGUAAGAUUGCGAUAAUAUAUACAUAUAUA
..((((.(((...(((((.........)))))...)))....((((((..(((.(((...))).)))....)))))).))))..(.(((((....))))))................... ( -30.40)
>consensus
___GCCGGCACCCCAGUCAUCGCCAUCGACUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCAUAAGAUUGCGAUAAUAUACA__UAUAUA
...(((.(((...(((((.........)))))...)))....((((((..(((.(((...))).)))....)))))).)))...(.(((((....))))))................... (-26.12 = -26.00 +  -0.12)

alignment

secondary structure

dotplot

Window 0

Location	18,109,221 – 18,109,336
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	85.11
Mean single sequence MFE	-34.34
Consensus MFE	-31.81
Energy contribution	-31.62
Covariance contribution	-0.19
Combinations/Pair	1.16
Mean z-score	-1.24
Structure conservation index	0.93
SVM decision value	0.00
SVM RNA-class probability	0.534553
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18109221 115 - 22224390
UAUGUA--UGUAUAUUAUCGCAAUCCAAUGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUGGCUAAUGCAUGACAAUCGAUGACGAUGACUGGGGUGCCAGC---
......--......((((((..(((....(((((((.((((..((((((.(((.(((....)))...)))..))))))....))))))))))))))..))))))((((....)))).--- ( -35.20)
>DroSec_CAF1 17677 115 - 1
UACACA--UGUAUAUUAUCGCAAUCCAAUGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUGGCUAAUGCAUGACAGUCGAUGACGACGACUGGGGUGCCAGC---
(((((.--...........((((((....))))))....(((.(((....))))))....)))))...........(((...((((..((((((.......))))))..)))).)))--- ( -33.10)
>DroEre_CAF1 15579 109 - 1
--------AGAAUAUCAUCGCAAUCUUGCGAUUGUCUGUGCCUGCCAUUUGGUGGCGUUAGUGUAAAACCCUAAUAACUAAUGCAUGACGGUCUAUGGCGAUGACUGGAGUGCCGGC---
--------......(((((((.....((.(((((((((((((.(((....))))))((((((..............))))))))).)))))))))..)))))))((((....)))).--- ( -34.14)
>DroYak_CAF1 17436 120 - 1
UAUAUAUGUAUAUAUUAUCGCAAUCUUACGAUUGUCUGUGCCUGCCAUUCGAUGGCGUUAGUGUAAGACCCUAAUAGCUAAUGCAUGACAGUCGAUGGCGAUGACUGGGGUGCCGGCAUC
.......(((((.((.((((........)))).)).)))))..(((((.((((.((((((((.((......))...))))))))......)))))))))((((.((((....)))))))) ( -34.90)
>consensus
UAUAUA__UGUAUAUUAUCGCAAUCCAACGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUAGCUAAUGCAUGACAGUCGAUGACGAUGACUGGGGUGCCAGC___
..............(((((((.(((....(((((((.((((..(((((...)))))((((((.((......))...)))))))))))))))))))).)))))))((((....)))).... (-31.81 = -31.62 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:37 2006