Locus 2675

Sequence ID	3L_DroMel_CAF1
Location	7,442,199 – 7,442,297
Length	98
Max. P	0.998793

overview

Window 7

Location	7,442,199 – 7,442,297
Length	98
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	79.80
Mean single sequence MFE	-27.77
Consensus MFE	-25.13
Energy contribution	-24.85
Covariance contribution	-0.28
Combinations/Pair	1.26
Mean z-score	-3.35
Structure conservation index	0.90
SVM decision value	3.23
SVM RNA-class probability	0.998793
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7442199 98 + 23771897
AAAAAAGUGACUUGCAGUUCUAUUCGGAUUUGGGAAGCAAUCCUAAAGAAC-----AUCUCUGAACUUUAGGGCUAUUUUCCAACAUUGCAUGGAACUUAAGC
..........((((.((((((((.(((..((((((((.(..(((((((..(-----(....))..)))))))..).))))))))..))).)))))))))))). ( -27.50)
>DroSec_CAF1 96309 98 + 1
GAAAAAUUGACUUAAAGUUCUAUUCGGAUUUGGGAAGCAAUCCUAAAGAAC-----AUCUCUGAACUUUAGGGCUAUUUUCCAACAUUGCAUGGAACUUAAGC
..........(((((.(((((((.(((..((((((((.(..(((((((..(-----(....))..)))))))..).))))))))..))).)))))))))))). ( -27.40)
>DroSim_CAF1 93392 98 + 1
GAAAAAUUGACUUAAAGUUCUAUUCGGAUUUGGGAAGCAAUCCUAAAGAAC-----AUCUCAGAACUUUGGGGCUAUUUUCCAAGAUUGCAUGGAACUUAAGC
..........(((((.(((((((.(((.(((((((((.(..(((((((..(-----......)..)))))))..).))))))))).))).)))))))))))). ( -28.40)
>DroEre_CAF1 96474 88 + 1
GAAUACCUGACUUAAAGUUCCGUUCGGAGUUGGGAAGUAAUCCUGAA---------------GACCUUGAGGGCUACUUUCCAACAUCGCAUGGAACUUAAGC
..........(((((.(((((((.((..(((((((((((..(((.((---------------....)).)))..)))))))))))..)).)))))))))))). ( -38.70)
>DroYak_CAF1 90024 103 + 1
AAAUCCCUAACUUGAAGAUCCAUUCGGACUUAGAAAGCAAUCCUAAAGAGCCAAAGUUCAAAGAUCUUGAGGACUACUUUCCAACAUCGCAUAGAACUCAAGC
..........(((((.(.((.((.(((.....(((((...((((.((((...............)))).))))...))))).....))).)).)).)))))). ( -16.86)
>consensus
GAAAAACUGACUUAAAGUUCUAUUCGGAUUUGGGAAGCAAUCCUAAAGAAC_____AUCUCAGAACUUUAGGGCUAUUUUCCAACAUUGCAUGGAACUUAAGC
..........((((.((((((((.(((..((((((((.(..(((((((.................)))))))..).))))))))..))).)))))))))))). (-25.13 = -24.85 +  -0.28)

alignment

secondary structure

dotplot

Window 8

Location	7,442,199 – 7,442,297
Length	98
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	79.80
Mean single sequence MFE	-26.18
Consensus MFE	-14.46
Energy contribution	-14.48
Covariance contribution	0.02
Combinations/Pair	1.19
Mean z-score	-2.52
Structure conservation index	0.55
SVM decision value	1.55
SVM RNA-class probability	0.963274
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7442199 98 - 23771897
GCUUAAGUUCCAUGCAAUGUUGGAAAAUAGCCCUAAAGUUCAGAGAU-----GUUCUUUAGGAUUGCUUCCCAAAUCCGAAUAGAACUGCAAGUCACUUUUUU
((((.(((((.((......((((.((.((..(((((((..((....)-----)..)))))))..)).)).))))......)).)))))..))))......... ( -22.40)
>DroSec_CAF1 96309 98 - 1
GCUUAAGUUCCAUGCAAUGUUGGAAAAUAGCCCUAAAGUUCAGAGAU-----GUUCUUUAGGAUUGCUUCCCAAAUCCGAAUAGAACUUUAAGUCAAUUUUUC
(((....(((((........)))))...)))..((((((((((((..-----...)))).(((((........))))).....))))))))............ ( -23.00)
>DroSim_CAF1 93392 98 - 1
GCUUAAGUUCCAUGCAAUCUUGGAAAAUAGCCCCAAAGUUCUGAGAU-----GUUCUUUAGGAUUGCUUCCCAAAUCCGAAUAGAACUUUAAGUCAAUUUUUC
(((....(((((........)))))...)))...(((((((((((..-----...))...(((((........)))))...)))))))))............. ( -21.20)
>DroEre_CAF1 96474 88 - 1
GCUUAAGUUCCAUGCGAUGUUGGAAAGUAGCCCUCAAGGUC---------------UUCAGGAUUACUUCCCAACUCCGAACGGAACUUUAAGUCAGGUAUUC
(((((((((((...((..(((((.(((((..(((.((....---------------)).)))..))))).)))))..))...))))).))))))......... ( -29.30)
>DroYak_CAF1 90024 103 - 1
GCUUGAGUUCUAUGCGAUGUUGGAAAGUAGUCCUCAAGAUCUUUGAACUUUGGCUCUUUAGGAUUGCUUUCUAAGUCCGAAUGGAUCUUCAAGUUAGGGAUUU
(((((((.(((((..(((.(((((((((((((((.((((.((.........)).)))).))))))))))))))))))...)))))..)))))))......... ( -35.00)
>consensus
GCUUAAGUUCCAUGCAAUGUUGGAAAAUAGCCCUAAAGUUCAGAGAU_____GUUCUUUAGGAUUGCUUCCCAAAUCCGAAUAGAACUUUAAGUCAAUUUUUC
(((....(((((........)))))...)))....((((((...((........))....(((((........))))).....)))))).............. (-14.46 = -14.48 +   0.02)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:02 2006