Locus 7227

Sequence ID	X_DroMel_CAF1
Location	18,067,638 – 18,067,792
Length	154
Max. P	0.825348

overview

Window 9

Location	18,067,638 – 18,067,752
Length	114
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.79
Mean single sequence MFE	-33.97
Consensus MFE	-30.16
Energy contribution	-29.94
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-2.23
Structure conservation index	0.89
SVM decision value	0.70
SVM RNA-class probability	0.825348
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18067638 114 + 22224390
AUUUGAGUGGGGUUUUCCCCAUUC------CCAGCCCCAUCCACAUUUCAAUGCCUCGCAAUCGAGAAACCACAUUGCGGUACUUUCGGCGUUGCGGGCAAUUUGCUUGCCAACUAAUUG
....((((((((....))))))))------.....................((((.(((((((((((.(((.......)))..)))))..)))))))))).................... ( -33.00)
>DroSec_CAF1 5409 114 + 1
AUUUGAGUGGGGUUUUCCCCAUCC------CCAUUCCCAUCCCCAUUUCAAUGCCCCGCAAUCGAGAAACCACAUUGCGGUACUUUCGGCGUUGCGGGCAAUUUGCUUGCCAACUAAUUG
....((((((((..........))------))))))............((((((((((((((.(........)))))))).......)))))))..(((((.....)))))......... ( -33.71)
>DroSim_CAF1 8552 120 + 1
AUUUGAGUGGGGUUUUCCCCAUCCCCAGCCCCAUUCCCAUCCCCAUUUCAAUGCCCCGCAAUCGAGAAACCACAUUGCGGUACUUUCGGCGUUGCGGGCAAUUUGCUUGCCAACUAAUUG
....((((((((((............))))))))))............((((((((((((((.(........)))))))).......)))))))..(((((.....)))))......... ( -35.21)
>consensus
AUUUGAGUGGGGUUUUCCCCAUCC______CCAUUCCCAUCCCCAUUUCAAUGCCCCGCAAUCGAGAAACCACAUUGCGGUACUUUCGGCGUUGCGGGCAAUUUGCUUGCCAACUAAUUG
......((((((....))))))..........................((((((((((((((.(........)))))))).......)))))))..(((((.....)))))......... (-30.16 = -29.94 +  -0.22)

alignment

secondary structure

dotplot

Window 0

Location	18,067,672 – 18,067,792
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.41
Mean single sequence MFE	-40.80
Consensus MFE	-36.33
Energy contribution	-37.33
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.02
Structure conservation index	0.89
SVM decision value	0.40
SVM RNA-class probability	0.723054
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18067672 120 - 22224390
CUCUAGAAUCCCAAUCCCAAACCGAAUGUCGAGACGUGGGCAAUUAGUUGGCAAGCAAAUUGCCCGCAACGCCGAAAGUACCGCAAUGUGGUUUCUCGAUUGCGAGGCAUUGAAAUGUGG
...........((((.((....((...(((((((.((((((((((.(((....))).)))))))))).....(....).(((((...))))).)))))))..)).)).))))........ ( -36.60)
>DroSec_CAF1 5443 118 - 1
CUCCAGA--CACAAUCCCAAUCCCAAUGUCGGGACAUGGGCAAUUAGUUGGCAAGCAAAUUGCCCGCAACGCCGAAAGUACCGCAAUGUGGUUUCUCGAUUGCGGGGCAUUGAAAUGGGG
(((((..--..(((((((..((((......))))...((((((((.(((....))).))))))))((((((..((((.(((......))).)))).)).)))).))).))))...))))) ( -42.80)
>DroSim_CAF1 8592 118 - 1
CUCCAGA--CACAAUCCCAAUCCCAAUGUCGAGACGUGGGCAAUUAGUUGGCAAGCAAAUUGCCCGCAACGCCGAAAGUACCGCAAUGUGGUUUCUCGAUUGCGGGGCAUUGAAAUGGGG
(((((((--.....)).(((((((...(((((((.((((((((((.(((....))).)))))))))).....(....).(((((...))))).)))))))....))).))))...))))) ( -43.00)
>consensus
CUCCAGA__CACAAUCCCAAUCCCAAUGUCGAGACGUGGGCAAUUAGUUGGCAAGCAAAUUGCCCGCAACGCCGAAAGUACCGCAAUGUGGUUUCUCGAUUGCGGGGCAUUGAAAUGGGG
...............((((....(((((((.....((((((((((.(((....))).))))))))))..((((((....(((((...)))))...)))...))).)))))))...)))). (-36.33 = -37.33 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:28 2006