Locus 789

Sequence ID	X_DroMel_CAF1
Location	2,190,706 – 2,190,812
Length	106
Max. P	0.891123

overview

Window 9

Location	2,190,706 – 2,190,812
Length	106
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	86.62
Mean single sequence MFE	-29.83
Consensus MFE	-21.66
Energy contribution	-22.48
Covariance contribution	0.81
Combinations/Pair	1.04
Mean z-score	-1.95
Structure conservation index	0.73
SVM decision value	0.62
SVM RNA-class probability	0.801982
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2190706 106 + 22224390
GUUU--GCCAG----GAAGACCGUUCUUCGCACUGCCUUUCUUCCGCUUUUCACGCUUUUAAUUGCACUCUUAGCGAAU--------UCUUCGCUCGCUCGGAAGAACGUUCUUCGUUGU
....--((.(.----(((((.((((((((.(...((..................((........))......(((((..--------...))))).))..))))))))).))))).).)) ( -26.50)
>DroSec_CAF1 3721 106 + 1
GUUU--GCCAG----GAAGACCGUUCUUCGCACUGCCUUUCUUCCGCUUUCCACGCUUUUAAUUGCACUGUUAGCGAAU--------UCUUCGCUCGCUCGGCAGAACGUUCUUCGUUGU
....--((.(.----(((((.((((((.......(((.................((........))...((.(((((..--------...))))).))..))))))))).))))).).)) ( -26.11)
>DroEre_CAF1 3856 104 + 1
UUUU-UGCCUG-------GACCGUUCUUCGCACUGACUUUCUUCCGCUUUGCACGCUUUUAAGUGCACUCUUAGCGAAU--------UCUUCGCUCGCUCGGAAGAACGUUCUUCGUUGU
....-(((..(-------((....)))..)))..(((.((((((((...(((((........))))).....(((((..--------...)))))....)))))))).)))......... ( -27.30)
>DroYak_CAF1 2633 120 + 1
GUUUUUGGAAGGAAGGAAGAGCGUUCUUCGUACCGACUUUCUUCCGCUUUUCACGCUUUUAAUUGCACUCUUAGCGAAUUGGCGAGUUCUUCGCUCGCUCGGAAGAACGUUCUUCGUUGU
............((.((((((((((((((...............((((......((........))......))))....(((((((.....)))))))..)))))))))))))).)).. ( -39.40)
>consensus
GUUU__GCCAG____GAAGACCGUUCUUCGCACUGACUUUCUUCCGCUUUUCACGCUUUUAAUUGCACUCUUAGCGAAU________UCUUCGCUCGCUCGGAAGAACGUUCUUCGUUGU
...............(((((.((((((((((.......................((........))......((((((...........)))))).))...)))))))).)))))..... (-21.66 = -22.48 +   0.81)

alignment

secondary structure

dotplot

Window 0

Location	2,190,706 – 2,190,812
Length	106
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.62
Mean single sequence MFE	-29.76
Consensus MFE	-23.81
Energy contribution	-24.62
Covariance contribution	0.81
Combinations/Pair	1.04
Mean z-score	-2.02
Structure conservation index	0.80
SVM decision value	0.96
SVM RNA-class probability	0.891123
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2190706 106 - 22224390
ACAACGAAGAACGUUCUUCCGAGCGAGCGAAGA--------AUUCGCUAAGAGUGCAAUUAAAAGCGUGAAAAGCGGAAGAAAGGCAGUGCGAAGAACGGUCUUC----CUGGC--AAAC
.....(((((.((((((((...((((((((...--------..))))).....)))........(((((.....(....).....)).))))))))))).)))))----.....--.... ( -30.00)
>DroSec_CAF1 3721 106 - 1
ACAACGAAGAACGUUCUGCCGAGCGAGCGAAGA--------AUUCGCUAACAGUGCAAUUAAAAGCGUGGAAAGCGGAAGAAAGGCAGUGCGAAGAACGGUCUUC----CUGGC--AAAC
.....(((((.((((((..((((((((......--------.))))))..((.(((........((.......)).........))).)))).)))))).)))))----.....--.... ( -28.43)
>DroEre_CAF1 3856 104 - 1
ACAACGAAGAACGUUCUUCCGAGCGAGCGAAGA--------AUUCGCUAAGAGUGCACUUAAAAGCGUGCAAAGCGGAAGAAAGUCAGUGCGAAGAACGGUC-------CAGGCA-AAAA
........((.((((((((...((..((.....--------.((((((.....(((((........))))).)))))).....))..))..)))))))).))-------......-.... ( -27.40)
>DroYak_CAF1 2633 120 - 1
ACAACGAAGAACGUUCUUCCGAGCGAGCGAAGAACUCGCCAAUUCGCUAAGAGUGCAAUUAAAAGCGUGAAAAGCGGAAGAAAGUCGGUACGAAGAACGCUCUUCCUUCCUUCCAAAAAC
.....(((((.((((((((((((((((.......)))))...((((((....((((........))))....))))))......))))....))))))).)))))............... ( -33.20)
>consensus
ACAACGAAGAACGUUCUUCCGAGCGAGCGAAGA________AUUCGCUAAGAGUGCAAUUAAAAGCGUGAAAAGCGGAAGAAAGGCAGUGCGAAGAACGGUCUUC____CUGGC__AAAC
.....(((((.((((((((......((((((...........))))))....((((........((.......))....(.....).)))))))))))).)))))............... (-23.81 = -24.62 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:51 2006