Locus 3310

Sequence ID	2L_DroMel_CAF1
Location	9,557,483 – 9,557,620
Length	137
Max. P	0.908073

overview

Window 6

Location	9,557,483 – 9,557,596
Length	113
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	76.31
Mean single sequence MFE	-33.55
Consensus MFE	-21.41
Energy contribution	-21.22
Covariance contribution	-0.19
Combinations/Pair	1.21
Mean z-score	-1.73
Structure conservation index	0.64
SVM decision value	0.41
SVM RNA-class probability	0.726406
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9557483 113 - 22407834
CAUGGCGUAUACGCGAUUUACCACGACUCUUGAUUCAAAUUGAGGAAUGCUGAAACAUUGCGUAUACGCUACUUAAGUUAGCCAGUCUGUUGAUUCCCUUAAA-GUGCGUGUAG-
(((((((((((((((((....((((..(((..((....))..)))..)).))....)))))))))))))(((((((((((((......)))))....))).))-)))))))...- ( -29.20)
>DroSim_CAF1 9231 113 - 1
CAUGGCGUAUACGCGAUUUACCGCGACUCUUGAUUCAAAUUGAGGAAUGCUGCAACAUUGCGUAUACGCUACUUAAGUUAGCCAGUCUGUUGAUUCCCUUAUA-GUGCUUGUAG-
..(((((((((((((((((.(.(((..(((..((....))..)))..))).).)).)))))))))))))))..(((((.((..((((....))))..))....-..)))))...- ( -31.00)
>DroEre_CAF1 8400 109 - 1
CGUGGCGUAUACGCGAUUUGGCCCGACUGUGGAUUCGCAUUGAGGAAUGCUGCAACAUGGCGUAUGCGCUAGUUGGCUUAGUCAGUCUGCUGAG-----CAGUCAUGCCUUU-UC
..((((((((((((.((...(((((....)))....(((((....))))).))...)).))))))))))))....(((((((......))))))-----)............-.. ( -37.00)
>DroYak_CAF1 7443 104 - 1
CAUGGCGUAUACGCAA-----------UGUUAAUUCGCAUUGAGGAAUGCUGCAACAUGGCGUAUACGCUACUUAACUUGGCCCGUCUGUUGAUUUUCAUAGACAUGCCUUUGGC
..((((((((((((.(-----------((((.....(((((....)))))...))))).))))))))))))........(((..((((((.(.....)))))))..)))...... ( -37.00)
>consensus
CAUGGCGUAUACGCGAUUUACC_CGACUCUUGAUUCAAAUUGAGGAAUGCUGCAACAUGGCGUAUACGCUACUUAACUUAGCCAGUCUGUUGAUUCCCUUAGA_AUGCCUGUAG_
..((((((((((((.............(((((((....))))))).(((......))).)))))))))))).....((((((......))))))..................... (-21.41 = -21.22 +  -0.19)

alignment

secondary structure

dotplot

Window 7

Location	9,557,521 – 9,557,620
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	86.57
Mean single sequence MFE	-31.10
Consensus MFE	-22.42
Energy contribution	-22.98
Covariance contribution	0.56
Combinations/Pair	1.15
Mean z-score	-2.39
Structure conservation index	0.72
SVM decision value	1.06
SVM RNA-class probability	0.908073
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9557521 99 - 22407834
ACUCUCGAAUGAGGAAUGCUGCUACAUGGCGUAUACGCGAUUUACCACGACUCUUGAUUCAAAUUGAGGAAUGCUGAAACAUUGCGUAUACGCUACUUA
.(((......))).............(((((((((((((((....((((..(((..((....))..)))..)).))....))))))))))))))).... ( -28.40)
>DroSec_CAF1 7925 99 - 1
ACUCUCGAAUGAGGAAUGCUGCUACAUGGCGUAUACGCGAUUUACCGCGACUCUUGAUUCAAAUUGAGGAAUGCUGCAACAUUGCGUAUACGCUACUUA
.(((......))).............(((((((((((((((((.(.(((..(((..((....))..)))..))).).)).))))))))))))))).... ( -30.80)
>DroSim_CAF1 9269 99 - 1
ACUCUCGAAUGAGGAAUGCUGCUACAUGGCGUAUACGCGAUUUACCGCGACUCUUGAUUCAAAUUGAGGAAUGCUGCAACAUUGCGUAUACGCUACUUA
.(((......))).............(((((((((((((((((.(.(((..(((..((....))..)))..))).).)).))))))))))))))).... ( -30.80)
>DroEre_CAF1 8434 99 - 1
CCCCUCGAUUGAGGAAUGCUGCAACGUGGCGUAUACGCGAUUUGGCCCGACUGUGGAUUCGCAUUGAGGAAUGCUGCAACAUGGCGUAUGCGCUAGUUG
..((((....)))).......((((.((((((((((((.((...(((((....)))....(((((....))))).))...)).)))))))))))))))) ( -36.20)
>DroYak_CAF1 7483 88 - 1
ACUCUCGAAUGGGGAAUGCUGCAACAUGGCGUAUACGCAA-----------UGUUAAUUCGCAUUGAGGAAUGCUGCAACAUGGCGUAUACGCUACUUA
..((((.....))))...........((((((((((((.(-----------((((.....(((((....)))))...))))).)))))))))))).... ( -29.30)
>consensus
ACUCUCGAAUGAGGAAUGCUGCUACAUGGCGUAUACGCGAUUUACCGCGACUCUUGAUUCAAAUUGAGGAAUGCUGCAACAUUGCGUAUACGCUACUUA
..((((....))))............(((((((((((((((..........(((((((....)))))))...........))))))))))))))).... (-22.42 = -22.98 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:29 2006