Locus 8880

Sequence ID	3R_DroMel_CAF1
Location	23,828,262 – 23,828,362
Length	100
Max. P	0.627136

overview

Window 1

Location	23,828,262 – 23,828,362
Length	100
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	80.52
Mean single sequence MFE	-28.37
Consensus MFE	-14.44
Energy contribution	-15.55
Covariance contribution	1.11
Combinations/Pair	1.10
Mean z-score	-2.27
Structure conservation index	0.51
SVM decision value	0.19
SVM RNA-class probability	0.627136
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23828262 100 + 27905053
UUUGCACGCACUCACACCG--ACUGAACGAG----UGUGUGUGUGUGUUUGCCUGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGACACGAAAUGCUUGCC
...((((((((.(((((((--......)).)----)))).))))))))((((.(((....)))))))...(((((((...)))))))((((((.....)).)))). ( -30.10)
>DroPse_CAF1 37589 94 + 1
UUUGCACGCACUCAGAGUG----------UG--UGCAUGUGUGUAUGCUUGCCUGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGGCACGAACGGCACGAA
..(((((((((.....)))----------))--))))..(((((...(.(((((((....)))......((((((((...)))))))).)))).)....))))).. ( -28.90)
>DroSec_CAF1 34026 104 + 1
UUUGCACGCACUCACACCGAUACUGAACAAG--UGUGUGUGUGUGUGUUUGCCUGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGACACGAAAUGCUUGCC
.((((((((((.(((((..(((((.....))--)))..))))).))))((((.(((....)))))))...........))))))...((((((.....)).)))). ( -28.70)
>DroSim_CAF1 33408 106 + 1
UUUGCACGCACUCACACCGAGACUGAACGCGCAUGUGUGUGUGUGUGUUUGCCUGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGACACGAAAUGCUUGCC
...((((((((.(((((((.(......).))...))))).))))))))((((.(((....)))))))...(((((((...)))))))((((((.....)).)))). ( -27.50)
>DroYak_CAF1 34508 88 + 1
UUUGCACGCACUCACACCGAAACUGUG------------UGUGUGUG------UGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGACACGAAAUGCUUAAA
(((((((((((.(((((.......)))------------)).)))))------))))))...((((.((((((((((...))))))).......))).)))).... ( -26.11)
>DroPer_CAF1 37755 94 + 1
UUUGCACGCACUCAGAGUG----------UG--UGCAUGUGUGUAUGCUUGCCUGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGGCACGAACGGCACGAA
..(((((((((.....)))----------))--))))..(((((...(.(((((((....)))......((((((((...)))))))).)))).)....))))).. ( -28.90)
>consensus
UUUGCACGCACUCACACCG__ACUGAA__AG__UGUGUGUGUGUGUGUUUGCCUGUAAAUACAGCAAUUUUAAUUACAGUGUAAUUAGCGACACGAAAUGCUUGAA
...((((((((.((.......................)).))))))))((((.(((....)))))))...........((((........))))............ (-14.44 = -15.55 +   1.11)

alignment

secondary structure

dotplot

Window 2

Location	23,828,262 – 23,828,362
Length	100
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	80.52
Mean single sequence MFE	-25.50
Consensus MFE	-13.64
Energy contribution	-14.03
Covariance contribution	0.39
Combinations/Pair	1.09
Mean z-score	-1.94
Structure conservation index	0.54
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23828262 100 - 27905053
GGCAAGCAUUUCGUGUCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACAGGCAAACACACACACACA----CUCGUUCAGU--CGGUGUGAGUGCGUGCAAA
.(((.(((((..((((...(((((((...)))))))...(((((((....))).)))))))).....((((----(.((......--)))))))))))).)))... ( -27.90)
>DroPse_CAF1 37589 94 - 1
UUCGUGCCGUUCGUGCCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACAGGCAAGCAUACACACAUGCA--CA----------CACUCUGAGUGCGUGCAAA
...(((..((...((((..(((.((((..(((((....))))))))).)))..)))).....)).))).((((--(.----------(((.....))).))))).. ( -25.70)
>DroSec_CAF1 34026 104 - 1
GGCAAGCAUUUCGUGUCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACAGGCAAACACACACACACACA--CUUGUUCAGUAUCGGUGUGAGUGCGUGCAAA
.(((.(((((..((((...(((((((...)))))))...(((((((....))).)))))))).......((((--((.((.....)).))))))))))).)))... ( -26.90)
>DroSim_CAF1 33408 106 - 1
GGCAAGCAUUUCGUGUCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACAGGCAAACACACACACACACAUGCGCGUUCAGUCUCGGUGUGAGUGCGUGCAAA
.(((.(((((..((((...(((((((...)))))))...(((((((....))).)))))))).....(((((....((.....))....)))))))))).)))... ( -27.10)
>DroYak_CAF1 34508 88 - 1
UUUAAGCAUUUCGUGUCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACA------CACACACA------------CACAGUUUCGGUGUGAGUGCGUGCAAA
.....((((...((((........)))).(((((....))))).(((((((((------(....((.------------....))....))))))))))))))... ( -19.70)
>DroPer_CAF1 37755 94 - 1
UUCGUGCCGUUCGUGCCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACAGGCAAGCAUACACACAUGCA--CA----------CACUCUGAGUGCGUGCAAA
...(((..((...((((..(((.((((..(((((....))))))))).)))..)))).....)).))).((((--(.----------(((.....))).))))).. ( -25.70)
>consensus
GGCAAGCAUUUCGUGUCGCUAAUUACACUGUAAUUAAAAUUGCUGUAUUUACAGGCAAACACACACACACACA__CA__UUCAGU__CGGUGUGAGUGCGUGCAAA
.............((((((...((((((((((((....))))((((....)))).................................))))))))..))).))).. (-13.64 = -14.03 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:54 2006