Locus 907

Sequence ID	2R_DroMel_CAF1
Location	4,050,938 – 4,051,044
Length	106
Max. P	0.999914

overview

Window 3

Location	4,050,938 – 4,051,044
Length	106
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	74.71
Mean single sequence MFE	-28.16
Consensus MFE	-15.40
Energy contribution	-16.96
Covariance contribution	1.56
Combinations/Pair	1.04
Mean z-score	-3.08
Structure conservation index	0.55
SVM decision value	3.84
SVM RNA-class probability	0.999653
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4050938 106 + 20766785
UGCGGCCUUCGAUAUACUUGACGUAUUUUCUGAUACAUG---------GAUCAUGAAAAUCAGUUAAAGU-----GGCCGCAAUGAAAAUUAAUGCAUGGCUCAUGGUCAAUGCACUUAA
(((((((........(((((((..((((((((((.....---------.)))).))))))..))).))))-----)))))))...........((((((((.....))).)))))..... ( -30.00)
>DroSec_CAF1 33431 95 + 1
UGCGGCCUUCGUUAUACUUGACGUAUUUUCUGAUUCAUG---------GAUCAUGAAUA-----AAAAAU-----GGCCGCAA------UUAAUGCAUGGCUCAUGGUCAAUGCACUUAA
(((((((..(((((....))))).(((((...(((((((---------...))))))).-----.)))))-----))))))).------....((((((((.....))).)))))..... ( -31.00)
>DroSim_CAF1 38363 106 + 1
UGCGGCCUUCGUUAUACUUGACGUAUUUUCUGAUUCAUG---------GAUCAUGAAAAUCAGUUAAAAU-----GGCCGCAAUGAAAAUUAAUGCAUGGCUCAUGGUCAAUGCACUUAA
(((((((..(((((....))))).(((((((((((....---------))))).))))))..........-----)))))))...........((((((((.....))).)))))..... ( -32.70)
>DroEre_CAF1 32893 115 + 1
UGCGGCCUUCAC-----UUGACUUAUUUUCCGAUUCAUAUGAUUUUCUGAUCAUGAAAUUCAGUAAAAAAGAAAAAGCCGCAAUUUAAAUUAAUGCAUUGCUCACGGUCAAUGCAUUUCA
((((((.((..(-----((.(((...((((........((((((....))))))))))...)))....)))..)).)))))).........((((((((((.....).)))))))))... ( -26.60)
>DroYak_CAF1 36836 90 + 1
UGCGACCUUCACUAUACUUGACUCAUUUUCUGAUU-------------------------CAGUAAAAUU-----GGCCGCAGGUAAAAUUAAUGCAUUGCUCAUGGUCAAUGCAUUUAA
((((.((.......((((.((.(((.....))).)-------------------------))))).....-----)).)))).........((((((((((.....).)))))))))... ( -20.50)
>consensus
UGCGGCCUUCGCUAUACUUGACGUAUUUUCUGAUUCAUG_________GAUCAUGAAAAUCAGUAAAAAU_____GGCCGCAAUGAAAAUUAAUGCAUGGCUCAUGGUCAAUGCACUUAA
(((((((.(((.......)))............((((((............))))))..................)))))))...........((((((((.....))).)))))..... (-15.40 = -16.96 +   1.56)

alignment

secondary structure

dotplot

Window 4

Location	4,050,938 – 4,051,044
Length	106
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	74.71
Mean single sequence MFE	-29.88
Consensus MFE	-17.18
Energy contribution	-19.06
Covariance contribution	1.88
Combinations/Pair	1.21
Mean z-score	-3.71
Structure conservation index	0.57
SVM decision value	4.52
SVM RNA-class probability	0.999914
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4050938 106 - 20766785
UUAAGUGCAUUGACCAUGAGCCAUGCAUUAAUUUUCAUUGCGGCC-----ACUUUAACUGAUUUUCAUGAUC---------CAUGUAUCAGAAAAUACGUCAAGUAUAUCGAAGGCCGCA
...(((((((.(........).))))))).........(((((((-----.......(((((...((((...---------)))).)))))...((((.....))))......))))))) ( -29.30)
>DroSec_CAF1 33431 95 - 1
UUAAGUGCAUUGACCAUGAGCCAUGCAUUAA------UUGCGGCC-----AUUUUU-----UAUUCAUGAUC---------CAUGAAUCAGAAAAUACGUCAAGUAUAACGAAGGCCGCA
...(((((((.(........).)))))))..------.(((((((-----((((((-----((((((((...---------))))))).))))))).(((........)))..))))))) ( -29.20)
>DroSim_CAF1 38363 106 - 1
UUAAGUGCAUUGACCAUGAGCCAUGCAUUAAUUUUCAUUGCGGCC-----AUUUUAACUGAUUUUCAUGAUC---------CAUGAAUCAGAAAAUACGUCAAGUAUAACGAAGGCCGCA
...(((((((.(........).))))))).........(((((((-----.......(((((..(((((...---------))))))))))...((((.....))))......))))))) ( -29.90)
>DroEre_CAF1 32893 115 - 1
UGAAAUGCAUUGACCGUGAGCAAUGCAUUAAUUUAAAUUGCGGCUUUUUCUUUUUUACUGAAUUUCAUGAUCAGAAAAUCAUAUGAAUCGGAAAAUAAGUCAA-----GUGAAGGCCGCA
...(((((((((..(....)))))))))).........((((((((((.(((.(((.((((.((..(((((......)))))..)).)))).))).)))....-----..)))))))))) ( -33.50)
>DroYak_CAF1 36836 90 - 1
UUAAAUGCAUUGACCAUGAGCAAUGCAUUAAUUUUACCUGCGGCC-----AAUUUUACUG-------------------------AAUCAGAAAAUGAGUCAAGUAUAGUGAAGGUCGCA
...(((((((((........)))))))))..........((((((-----.(((.(((((-------------------------(.(((.....))).)).)))).)))...)))))). ( -27.50)
>consensus
UUAAGUGCAUUGACCAUGAGCCAUGCAUUAAUUUUAAUUGCGGCC_____AUUUUUACUGAUUUUCAUGAUC_________CAUGAAUCAGAAAAUACGUCAAGUAUAACGAAGGCCGCA
...(((((((.(........).))))))).........(((((((............((((..((((((............))))))))))...((((.....))))......))))))) (-17.18 = -19.06 +   1.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:54 2006