Locus 8703

Sequence ID	3L_DroMel_CAF1
Location	22,594,286 – 22,594,376
Length	90
Max. P	0.594468

overview

Window 1

Location	22,594,286 – 22,594,376
Length	90
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	78.64
Mean single sequence MFE	-20.25
Consensus MFE	-12.84
Energy contribution	-12.89
Covariance contribution	0.06
Combinations/Pair	1.21
Mean z-score	-1.36
Structure conservation index	0.63
SVM decision value	0.07
SVM RNA-class probability	0.569536
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22594286 90 + 23771897
---------------AUCGUGUCUGCUUGAUAUAUUGUUAUCAUUCCAGCUAUGGAAAUUAUUUCAUUACAUUGUUUU--AGUGGCGCAUCAUUGUGUUAGACAUCU
---------------...(((((((..(((((......)))))(((((....))))).......(((((........)--))))(((((....)))))))))))).. ( -19.00)
>DroPse_CAF1 61464 105 + 1
GUUGGAGCUGGU-UGGCAGUGUCUGCCUGAUAUAUUGUUAUCAUUUUAACAAUGGAAAUUAUUUCAUUACAUUGUUUUC-CGCGCCCCUUUAUUAUGUUAGACAUUU
...((.(((((.-.((((((((.((..((((.((((((((......))))))))...))))...))..))))))))..)-)).)).))................... ( -22.70)
>DroGri_CAF1 53782 104 + 1
GUUGGUGUUGG--UGGCAGUGUCUGCUUGAUAUAUUGUUAUCAUUUUAACAAUGGAAAUUAUUUCAUUACAUUGUUUUU-AGCGCCCUUUUAUUAUGUUAGACACGG
...((((((((--..(((((((.((..((((.((((((((......))))))))...))))...))..)))))))..))-))))))..................... ( -24.50)
>DroSim_CAF1 51093 89 + 1
---------------GUCGUGUCUGCUUGAUAUAUUGUUAUCAU-CCAGCCAUGGAAAUUAUUUCAUUACAUUGUUUU--AGUGCCCCUUUAUUAUGUCAGACAUCU
---------------((((((.(((..(((((......))))).-.))).)))((..((((...((......))...)--)))..)).............))).... ( -16.30)
>DroWil_CAF1 68218 100 + 1
C------AUGGCGU-GGCGUUUCUACUUGAUAUAUUGUUAUCAUUUUAACAAUGGAAAUUAUUUCAUUACAUUGUUUUUAGGUGGCAUUUUAUUAUGUUAGACAAUG
.------.......-...((((..((.(((((...(((((((.....(((((((...............)))))))....)))))))...))))).)).)))).... ( -17.96)
>DroPer_CAF1 68629 105 + 1
GCUGAAGCUGGU-UGGCAGUGUCUGCCUGAUAUAUUGUUAUCAUUUUAACAAUGGAAAUUAUUUCAUUACAUUGUUUUC-CGCGCCCCUUUAUUAUGUUAGACAUUU
((..(......)-..))(((((((((.(((((.(((((((......)))))))(((((.................))))-).........))))).).)))))))). ( -21.03)
>consensus
G_______UGG__U_GCAGUGUCUGCUUGAUAUAUUGUUAUCAUUUUAACAAUGGAAAUUAUUUCAUUACAUUGUUUU__AGCGCCCCUUUAUUAUGUUAGACAUUU
..................(((((((..(((((......)))))....(((((((...............)))))))......................))))))).. (-12.84 = -12.89 +   0.06)

alignment

secondary structure

dotplot

Window 2

Location	22,594,286 – 22,594,376
Length	90
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	78.64
Mean single sequence MFE	-16.82
Consensus MFE	-9.07
Energy contribution	-9.90
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.54
SVM decision value	0.12
SVM RNA-class probability	0.594468
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22594286 90 - 23771897
AGAUGUCUAACACAAUGAUGCGCCACU--AAAACAAUGUAAUGAAAUAAUUUCCAUAGCUGGAAUGAUAACAAUAUAUCAAGCAGACACGAU---------------
...(((((..(.....)..((......--.....................(((((....)))))(((((......))))).)))))))....--------------- ( -11.30)
>DroPse_CAF1 61464 105 - 1
AAAUGUCUAACAUAAUAAAGGGGCGCG-GAAAACAAUGUAAUGAAAUAAUUUCCAUUGUUAAAAUGAUAACAAUAUAUCAGGCAGACACUGCCA-ACCAGCUCCAAC
...................(((((..(-(..(((((((.(((......)))..)))))))....(((((......)))))(((((...))))).-.)).)))))... ( -26.30)
>DroGri_CAF1 53782 104 - 1
CCGUGUCUAACAUAAUAAAAGGGCGCU-AAAAACAAUGUAAUGAAAUAAUUUCCAUUGUUAAAAUGAUAACAAUAUAUCAAGCAGACACUGCCA--CCAACACCAAC
..((((((..(.........)...(((-...(((((((.(((......)))..)))))))....(((((......)))))))))))))).....--........... ( -16.40)
>DroSim_CAF1 51093 89 - 1
AGAUGUCUGACAUAAUAAAGGGGCACU--AAAACAAUGUAAUGAAAUAAUUUCCAUGGCUGG-AUGAUAACAAUAUAUCAAGCAGACACGAC---------------
...((((((((((......((....))--......))))............((((....)))-)(((((......)))))..))))))....--------------- ( -13.50)
>DroWil_CAF1 68218 100 - 1
CAUUGUCUAACAUAAUAAAAUGCCACCUAAAAACAAUGUAAUGAAAUAAUUUCCAUUGUUAAAAUGAUAACAAUAUAUCAAGUAGAAACGCC-ACGCCAU------G
.....((((......................(((((((.(((......)))..)))))))....(((((......)))))..))))......-.......------. (  -9.90)
>DroPer_CAF1 68629 105 - 1
AAAUGUCUAACAUAAUAAAGGGGCGCG-GAAAACAAUGUAAUGAAAUAAUUUCCAUUGUUAAAAUGAUAACAAUAUAUCAGGCAGACACUGCCA-ACCAGCUUCAGC
...................(((((..(-(..(((((((.(((......)))..)))))))....(((((......)))))(((((...))))).-.)).)))))... ( -23.50)
>consensus
AAAUGUCUAACAUAAUAAAGGGGCACU__AAAACAAUGUAAUGAAAUAAUUUCCAUUGUUAAAAUGAUAACAAUAUAUCAAGCAGACACGGC_A__CCA_______C
...(((((.......................(((((((.(((......)))..)))))))....(((((......)))))...)))))................... ( -9.07 =  -9.90 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:41 2006