Locus 3914

Sequence ID	X_DroMel_CAF1
Location	10,473,607 – 10,473,716
Length	109
Max. P	0.999642

overview

Window 0

Location	10,473,607 – 10,473,716
Length	109
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	93.14
Mean single sequence MFE	-21.66
Consensus MFE	-17.82
Energy contribution	-18.22
Covariance contribution	0.40
Combinations/Pair	1.12
Mean z-score	-2.76
Structure conservation index	0.82
SVM decision value	2.76
SVM RNA-class probability	0.996869
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10473607 109 + 22224390
AAAUUUU-UAUUAUUUUGACUUUCCUCUUCACCCUUGUCAUCGUGCAAGCGUUCUUUUGCCCUUCGAAAUGUCAAAAUAUUGCAGACAAAAGUCUGUGCUCUGCACAACA
.......-...(((((((((((((..........((((......))))(((......))).....)))).)))))))))..((((((....))))))............. ( -20.70)
>DroSec_CAF1 4494 109 + 1
AAAUUUU-UAUUAUUUUGACUUUCCCCUUCACCCUUGUCAUCCAGCAAGCGUUCUUUUGCCCUUCGUAAUGUCAAAAUAUUGCAGACAAAAGUCUGUGCUCCGCACAACA
.......-...(((((((((..........((.(((((......))))).))....((((.....)))).)))))))))..((((((....))))))............. ( -20.30)
>DroSim_CAF1 4626 109 + 1
AAAUUUU-UAUUAUUUUGACUUUCCCCUUCACCCUUGUCAUCUGGCAAGCGUUCUUUUGCCCUUCGUAAUGUCAAAAUAUUGCAGACAAAAGUCUGUGCUCCGCACAACA
.......-...(((((((((..........((.((((((....)))))).))....((((.....)))).)))))))))..((((((....))))))............. ( -23.20)
>DroEre_CAF1 5596 109 + 1
AAAUUUU-UAUUAUUUUGACUUUUCCCUUCACCCUCGUCUCCUCACAAGCGUUCAUUUGCCCUUCGAAAUGUCAAAAUAUUGCAGACAAAAGUCUGCGCUCCGCACAACA
.......-...(((((((((.((((...........((......))..(((......))).....)))).)))))))))..((((((....))))))............. ( -21.90)
>DroYak_CAF1 6123 110 + 1
AAAUUUUGUAUUAUUUUGACUUUUCCCUUCACCCCUGUCACCUCCCAAGCGUUCUUUUGCCCUUCGAAAUGUCAAAAUAUUGCAGACAAAAGUCUGCGCUCCGCACAACA
.....((((..(((((((((.((((..........((........)).(((......))).....)))).)))))))))..((((((....)))))).......)))).. ( -22.20)
>consensus
AAAUUUU_UAUUAUUUUGACUUUCCCCUUCACCCUUGUCAUCUCGCAAGCGUUCUUUUGCCCUUCGAAAUGUCAAAAUAUUGCAGACAAAAGUCUGUGCUCCGCACAACA
...........(((((((((((((..........((((......))))(((......))).....)))).)))))))))..((((((....))))))............. (-17.82 = -18.22 +   0.40)

alignment

secondary structure

dotplot

Window 1

Location	10,473,607 – 10,473,716
Length	109
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	93.14
Mean single sequence MFE	-27.76
Consensus MFE	-26.12
Energy contribution	-25.16
Covariance contribution	-0.96
Combinations/Pair	1.18
Mean z-score	-2.20
Structure conservation index	0.94
SVM decision value	3.82
SVM RNA-class probability	0.999642
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10473607 109 - 22224390
UGUUGUGCAGAGCACAGACUUUUGUCUGCAAUAUUUUGACAUUUCGAAGGGCAAAAGAACGCUUGCACGAUGACAAGGGUGAAGAGGAAAGUCAAAAUAAUA-AAAAUUU
...(((((...)))))(((((((.(((((....((((((....)))))).))......((.(((((.....).)))).))..))).))))))).........-....... ( -26.90)
>DroSec_CAF1 4494 109 - 1
UGUUGUGCGGAGCACAGACUUUUGUCUGCAAUAUUUUGACAUUACGAAGGGCAAAAGAACGCUUGCUGGAUGACAAGGGUGAAGGGGAAAGUCAAAAUAAUA-AAAAUUU
...(((((...)))))(((((((.(((.((...(((((.((((.....((((........))))....)))).))))).)).))).))))))).........-....... ( -27.00)
>DroSim_CAF1 4626 109 - 1
UGUUGUGCGGAGCACAGACUUUUGUCUGCAAUAUUUUGACAUUACGAAGGGCAAAAGAACGCUUGCCAGAUGACAAGGGUGAAGGGGAAAGUCAAAAUAAUA-AAAAUUU
...(((((...)))))(((((((.(((.((...(((((.((((......(((((........))))).)))).))))).)).))).))))))).........-....... ( -27.50)
>DroEre_CAF1 5596 109 - 1
UGUUGUGCGGAGCGCAGACUUUUGUCUGCAAUAUUUUGACAUUUCGAAGGGCAAAUGAACGCUUGUGAGGAGACGAGGGUGAAGGGAAAAGUCAAAAUAAUA-AAAAUUU
.(((......)))((((((....))))))..(((((((((.(((((.....)......((.(((((......))))).)).....)))).)))))))))...-....... ( -27.70)
>DroYak_CAF1 6123 110 - 1
UGUUGUGCGGAGCGCAGACUUUUGUCUGCAAUAUUUUGACAUUUCGAAGGGCAAAAGAACGCUUGGGAGGUGACAGGGGUGAAGGGAAAAGUCAAAAUAAUACAAAAUUU
..(((((......((((((....))))))..(((((((((.((((...((((........))))....(....)...........)))).))))))))).)))))..... ( -29.70)
>consensus
UGUUGUGCGGAGCACAGACUUUUGUCUGCAAUAUUUUGACAUUUCGAAGGGCAAAAGAACGCUUGCGAGAUGACAAGGGUGAAGGGGAAAGUCAAAAUAAUA_AAAAUUU
...(((((...)))))(((((((.(((((....(((((......))))).))......((.((((........)))).))..))).)))))))................. (-26.12 = -25.16 +  -0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:34 2006