Locus 8070

Sequence ID	3R_DroMel_CAF1
Location	21,673,792 – 21,673,966
Length	174
Max. P	0.975923

overview

Window 1

Location	21,673,792 – 21,673,903
Length	111
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	86.67
Mean single sequence MFE	-31.21
Consensus MFE	-22.89
Energy contribution	-23.01
Covariance contribution	0.12
Combinations/Pair	1.17
Mean z-score	-1.55
Structure conservation index	0.73
SVM decision value	-0.04
SVM RNA-class probability	0.513992
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21673792 111 + 27905053
--UCUAUUUUUUGUUCUCGGUUGCCUUUUGCGGUCAUUAAAACUAAUGGCAGCUCGGCGAUCCGCUGGCUUUAAAAAUUUCACAUCUGGCCUCGGGCCGAAUGGACCGUCCAA
--...((((((.(((..((((((((....((.(((((((....))))))).))..))))).)))..)))...)))))).((.(((.(((((...))))).)))))........ ( -31.70)
>DroSec_CAF1 153860 111 + 1
--UCUAUUUUUUGUUCUCGGUUGCCUUUUGCGGUCAUUAAAACUAAUGGCAGCUCGGCGAUCCGCUGGCUUUAAAAAUUCCACAUCUGGCCUCGGGUCGAAUGGACCGUCCAA
--...............((((((((....((.(((((((....))))))).))..)))((((((..((((.................)))).)))))).....)))))..... ( -33.33)
>DroSim_CAF1 159159 111 + 1
--UCUAUUUUUUGUUCUCGGUUGCCUUUUGCGGUCAUUAAAACUAAUGGCAGCUCGGCGAUCUGCUGGCUUUAAAAAUUCCACAUCUGGCCUCGGGUCGAAUGGACCGUCCAA
--...............((((((((....((.(((((((....))))))).))..)))((((((..((((.................)))).)))))).....)))))..... ( -31.13)
>DroEre_CAF1 150849 103 + 1
--UCUAUUUUUUAUUCUCGGUUGCCUUUUGCGGUCAUUAAAACUAAUGGCAGCUCGGCGAUUCGCUAACUUUAAAAAUUCCACAUCUGGCCUCCGGUCGAAUGGA--------
--.......(((((((((((..(((....((.(((((((....))))))).))..((((...)))).....................)))..))))..)))))))-------- ( -25.10)
>DroAna_CAF1 135684 108 + 1
GUUUUAUUUUUUGGU----GUU-UCCUUUGCGGUCAUUAAAACUAAUGGCAGCUCGGCGGUUCGGUGGCUUUAAAAAUUCCACACUCGCCCUCGGGCCGAAUGAAGCGCCCAG
............(((----(((-((.((((..(((((((....))))))).((((((.(((...((((...........))))....))).)))))))))).))))))))... ( -34.80)
>consensus
__UCUAUUUUUUGUUCUCGGUUGCCUUUUGCGGUCAUUAAAACUAAUGGCAGCUCGGCGAUCCGCUGGCUUUAAAAAUUCCACAUCUGGCCUCGGGUCGAAUGGACCGUCCAA
..(((((((.............(((....((.(((((((....))))))).))..)))((((((..((((.................)))).)))))))))))))........ (-22.89 = -23.01 +   0.12)

alignment

secondary structure

dotplot

Window 2

Location	21,673,868 – 21,673,966
Length	98
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	78.19
Mean single sequence MFE	-21.44
Consensus MFE	-13.14
Energy contribution	-15.98
Covariance contribution	2.84
Combinations/Pair	1.05
Mean z-score	-2.35
Structure conservation index	0.61
SVM decision value	1.76
SVM RNA-class probability	0.975923
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21673868 98 + 27905053
UUCACAUCUGGCCUCGGGCCGAAUGGACCGUCCAACCG----ACCGGAUACGGAUAUAUCAUUUGACCAACAAGCCAAAAAACAAACUCACACAAACAAGCA
........((((....((.(((((((...((((..((.----...))....))))...))))))).)).....))))......................... ( -19.00)
>DroSec_CAF1 153936 100 + 1
UCCACAUCUGGCCUCGGGUCGAAUGGACCGUCCAACCGACCGACCGGAUACGGAUAUAUCAUUUGACCAACAAGCCAAAAAACAAACUCACAC--ACAAGCC
........((((....((((((((((...((((..(((......)))....))))...)))))))))).....))))................--....... ( -26.10)
>DroSim_CAF1 159235 100 + 1
UCCACAUCUGGCCUCGGGUCGAAUGGACCGUCCAACCGACCGACCGGAUACGGAUAUAUCAUUUGACCAACAAGCCAAAAAACAAACUCACAC--ACAAGCC
........((((....((((((((((...((((..(((......)))....))))...)))))))))).....))))................--....... ( -26.10)
>DroEre_CAF1 150925 86 + 1
UCCACAUCUGGCCUCCGGUCGAAUGGA--------CCGACCGAC------CGGAUAUAUCAUUUGACCAACAAGCCAAAAAACAAACUCACAC--ACAAGCC
........((((....((((((((((.--------(((......------))).....)))))))))).....))))................--....... ( -19.60)
>DroAna_CAF1 135757 81 + 1
UCCACACUCGCCCUCGGGCCGAAUGAAGCGCCCAGC------GCCGGAUAU--AUGUAUCAUUUGACCAACAAGCCAAAC-----------AA--ACAUGCC
(((.((.(((((....)).))).))..((((...))------)).)))..(--((((....((((.(......).)))).-----------..--))))).. ( -16.40)
>consensus
UCCACAUCUGGCCUCGGGUCGAAUGGACCGUCCAACCGACCGACCGGAUACGGAUAUAUCAUUUGACCAACAAGCCAAAAAACAAACUCACAC__ACAAGCC
.........(((....((((((((((...((((..(((......)))....))))...)))))))))).....))).......................... (-13.14 = -15.98 +   2.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:52 2006