Locus 102

Sequence ID	2L_DroMel_CAF1
Location	327,604 – 327,701
Length	97
Max. P	0.766220

overview

Window 9

Location	327,604 – 327,701
Length	97
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	76.12
Mean single sequence MFE	-33.38
Consensus MFE	-11.52
Energy contribution	-11.25
Covariance contribution	-0.27
Combinations/Pair	1.27
Mean z-score	-2.41
Structure conservation index	0.35
SVM decision value	0.39
SVM RNA-class probability	0.717077
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 327604 97 + 22407834
CUAUUGCACAGCCUUGCUAAAAGUGAGUCCAGAUCCUUGGAGAUUU-------UGACAUCGCCUU---GUCGAUUUCUUCUCUGCAGGAUCUGC---UGCAAGCUUCGCA
....(((..(((((..(.....)..))..((((((((.(((((..(-------(((((......)---)))))..))))).....)))))))).---.....)))..))) ( -31.70)
>DroPse_CAF1 33366 105 + 1
C-GGUGCACAGUUUCGUCUUCAGCUUCUCCAGAGACUUGUAGAUUCGCGAAGAUGAC-CCGCCAUUCCGGCGGUUGC---ACCGCAGAAGCUGCUUCUGCAGCUGUUGCA
.-((((((.....((((((((.((.(((.(((....))).)))...)))))))))).-(((((.....))))).)))---)))((((.((((((....)))))).)))). ( -49.30)
>DroSec_CAF1 9394 97 + 1
CUGUUGCACAGCCUUGCUAAAAGUGCGUCCAGAUCGUUGGAGAGUU-------UGACAUCGCCUU---GUCGAUUUCUUCUCCGCAGGAUCUGC---UGCAAGCUUCGCA
....(((..((((((.....)))((((..((((((.((((((((.(-------(((((......)---)))))....))))))).).)))))).---)))).)))..))) ( -31.00)
>DroSim_CAF1 9415 97 + 1
CUGUUGCACAGCCUUGCUAAAAGUGCGUCCAGAUCGUUGGAGAGUU-------UGACAUCGCCUU---GUCGAUUUCUUCUCCGCAGGAUCUGC---UGCAAGCUUCGCA
....(((..((((((.....)))((((..((((((.((((((((.(-------(((((......)---)))))....))))))).).)))))).---)))).)))..))) ( -31.00)
>DroEre_CAF1 9722 97 + 1
CUAAUGCAAAGCCGUGUUAAUAGUGAAUUCAGAUCGUUGGAGAUUU-------UGACAUCGCCUU---GGCGAUUUCUUCUCUGCAGGAUCUGC---UGUAAGCUUCGAA
.((((((......))))))..(((..((.((((((.(((((((...-------.((.(((((...---.))))).)).)))))).).)))))).---.))..)))..... ( -26.30)
>DroYak_CAF1 9555 97 + 1
CUAUUGCAAAGCCGUGUUAAAAGCGAGUCCAGAUCAUUGGAGAUUU-------UGACAUCGCCUU---UGCGAUUUCGCUUCUGCAGGAUCUGC---UGUAGGCUUCGAA
..(((((((((.((((((((((.....(((((....)))))..)))-------))))).)).)))---))))))((((..(((((((......)---))))))...)))) ( -31.00)
>consensus
CUAUUGCACAGCCUUGCUAAAAGUGAGUCCAGAUCGUUGGAGAUUU_______UGACAUCGCCUU___GGCGAUUUCUUCUCCGCAGGAUCUGC___UGCAAGCUUCGCA
....((((..(((((((..........(((((....))))).............((.((((.........)))).))......)))))....))...))))......... (-11.52 = -11.25 +  -0.27)

alignment

secondary structure

dotplot

Window 0

Location	327,604 – 327,701
Length	97
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	76.12
Mean single sequence MFE	-31.52
Consensus MFE	-12.54
Energy contribution	-14.02
Covariance contribution	1.47
Combinations/Pair	1.13
Mean z-score	-2.28
Structure conservation index	0.40
SVM decision value	0.52
SVM RNA-class probability	0.766220
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 327604 97 - 22407834
UGCGAAGCUUGCA---GCAGAUCCUGCAGAGAAGAAAUCGAC---AAGGCGAUGUCA-------AAAUCUCCAAGGAUCUGGACUCACUUUUAGCAAGGCUGUGCAAUAG
((((.(((((((.---.((((((((...((((.((.((((..---....)))).)).-------...))))..))))))))(.....).....)))).))).)))).... ( -30.20)
>DroPse_CAF1 33366 105 - 1
UGCAACAGCUGCAGAAGCAGCUUCUGCGGU---GCAACCGCCGGAAUGGCGG-GUCAUCUUCGCGAAUCUACAAGUCUCUGGAGAAGCUGAAGACGAAACUGUGCACC-G
.(((..((((((....))))))..)))(((---(((.(((((.....)))))-.((.(((((((...((((........))))...)).))))).)).....))))))-. ( -45.50)
>DroSec_CAF1 9394 97 - 1
UGCGAAGCUUGCA---GCAGAUCCUGCGGAGAAGAAAUCGAC---AAGGCGAUGUCA-------AACUCUCCAACGAUCUGGACGCACUUUUAGCAAGGCUGUGCAACAG
((((.(((((...---.((((((.(..(((((.((.((((..---....)))).)).-------...))))).).))))))...((.......)).))))).)))).... ( -28.40)
>DroSim_CAF1 9415 97 - 1
UGCGAAGCUUGCA---GCAGAUCCUGCGGAGAAGAAAUCGAC---AAGGCGAUGUCA-------AACUCUCCAACGAUCUGGACGCACUUUUAGCAAGGCUGUGCAACAG
((((.(((((...---.((((((.(..(((((.((.((((..---....)))).)).-------...))))).).))))))...((.......)).))))).)))).... ( -28.40)
>DroEre_CAF1 9722 97 - 1
UUCGAAGCUUACA---GCAGAUCCUGCAGAGAAGAAAUCGCC---AAGGCGAUGUCA-------AAAUCUCCAACGAUCUGAAUUCACUAUUAACACGGCUUUGCAUUAG
..(((((((....---.((((((.((.(((...((.(((((.---...))))).)).-------...))).))..))))))(((.....))).....)))))))...... ( -23.70)
>DroYak_CAF1 9555 97 - 1
UUCGAAGCCUACA---GCAGAUCCUGCAGAAGCGAAAUCGCA---AAGGCGAUGUCA-------AAAUCUCCAAUGAUCUGGACUCGCUUUUAACACGGCUUUGCAAUAG
..(((((((....---((((...))))((((((((.(((((.---...)))))(((.-------..(((......)))...))))))))))).....)))))))...... ( -32.90)
>consensus
UGCGAAGCUUGCA___GCAGAUCCUGCAGAGAAGAAAUCGAC___AAGGCGAUGUCA_______AAAUCUCCAACGAUCUGGACUCACUUUUAACAAGGCUGUGCAACAG
((((.(((((......((((...))))......((.((((.........)))).)).............((((......)))).............))))).)))).... (-12.54 = -14.02 +   1.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:46 2006