Locus 8208

Sequence ID	3R_DroMel_CAF1
Location	22,035,901 – 22,036,025
Length	124
Max. P	0.997497

overview

Window 8

Location	22,035,901 – 22,035,998
Length	97
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	96.29
Mean single sequence MFE	-21.48
Consensus MFE	-19.10
Energy contribution	-21.00
Covariance contribution	1.90
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.89
SVM decision value	2.23
SVM RNA-class probability	0.990686
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22035901 97 + 27905053
UCAUUGAGAAGGAAAGCGAGGGGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAA
........................((((((((....(((((....))))).....((((.....)))).......)))))))).............. ( -22.30)
>DroSec_CAF1 34137 97 + 1
UCAUUGAGAAGGAGAGCGAGGGGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAA
........................((((((((....(((((....))))).....((((.....)))).......)))))))).............. ( -22.30)
>DroSim_CAF1 26429 97 + 1
UCAUUGAGAAGGAGAGCGAGGGGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAA
........................((((((((....(((((....))))).....((((.....)))).......)))))))).............. ( -22.30)
>DroEre_CAF1 28206 95 + 1
UCAUUGAGGAGGAAAACGAGGGGAUCCUGC--GAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAAAAUAACGUAA
((((((.((((.....(((((....))).)--)...(((((....))))).....)))))))).(....)))......................... ( -18.20)
>DroYak_CAF1 35836 97 + 1
UCAUUGAGAAGGAAAACGAGGGGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGGAUAACGCAA
........................((((((((....(((((....))))).....((((.....)))).......)))))))).............. ( -22.30)
>consensus
UCAUUGAGAAGGAAAGCGAGGGGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAA
........................((((((((....(((((....))))).....((((.....)))).......)))))))).............. (-19.10 = -21.00 +   1.90)

alignment

secondary structure

dotplot

Window 9

Location	22,035,922 – 22,036,025
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	97.09
Mean single sequence MFE	-27.36
Consensus MFE	-23.20
Energy contribution	-25.30
Covariance contribution	2.10
Combinations/Pair	1.00
Mean z-score	-3.18
Structure conservation index	0.85
SVM decision value	2.87
SVM RNA-class probability	0.997497
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22035922 103 + 27905053
GGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAAAAGGUCAAUAGGCCAAUGGAUACUCUA
(((((((((((....(((((....))))).....((((.....)))).......))))))))................((((....)))).........))). ( -27.70)
>DroSec_CAF1 34158 103 + 1
GGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAAAAGGUCAAUAGGCCAAUGGAUACUCUA
(((((((((((....(((((....))))).....((((.....)))).......))))))))................((((....)))).........))). ( -27.70)
>DroSim_CAF1 26450 103 + 1
GGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAAAAGGUCAAUAGGCCAAUGGAUACUCUA
(((((((((((....(((((....))))).....((((.....)))).......))))))))................((((....)))).........))). ( -27.70)
>DroEre_CAF1 28227 101 + 1
GGAUCCUGC--GAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAAAAUAACGUAAAAGGGCAAUAGGCCAAUGGAUACCCUA
(((((((((--(...(((((....)))))....(((((((...(....).....))...))))).......))))....(((.....)))...)))).))... ( -24.00)
>DroYak_CAF1 35857 103 + 1
GGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGGAUAACGCAAAAGGUCAAUAGGCCAAUGGAUACCCUA
...((((((((....(((((....))))).....((((.....)))).......)))))))).((((.((.(.((...((((....))))..))).)).)))) ( -29.70)
>consensus
GGAUCCUGCCAGAAGGGUAAGCAAUUGCCAACAAUUCCCAAUAGGAAACGAAAAUGGUAGGAAUAGAAUAACGUAAAAGGUCAAUAGGCCAAUGGAUACUCUA
...((((((((....(((((....))))).....((((.....)))).......))))))))................((((....))))............. (-23.20 = -25.30 +   2.10)

alignment

secondary structure

dotplot

Window 0

Location	22,035,922 – 22,036,025
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	97.09
Mean single sequence MFE	-21.44
Consensus MFE	-19.64
Energy contribution	-19.48
Covariance contribution	-0.16
Combinations/Pair	1.11
Mean z-score	-1.41
Structure conservation index	0.92
SVM decision value	0.78
SVM RNA-class probability	0.849929
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22035922 103 - 27905053
UAGAGUAUCCAUUGGCCUAUUGACCUUUUACGUUAUUCUAUUCCUACCAUUUUCGUUUCCUAUUGGGAAUUGUUGGCAAUUGCUUACCCUUCUGGCAGGAUCC
(((((((......((.(....).))........))))))).((((.(((.....((((((....)))))).((.(((....))).)).....))).))))... ( -21.04)
>DroSec_CAF1 34158 103 - 1
UAGAGUAUCCAUUGGCCUAUUGACCUUUUACGUUAUUCUAUUCCUACCAUUUUCGUUUCCUAUUGGGAAUUGUUGGCAAUUGCUUACCCUUCUGGCAGGAUCC
(((((((......((.(....).))........))))))).((((.(((.....((((((....)))))).((.(((....))).)).....))).))))... ( -21.04)
>DroSim_CAF1 26450 103 - 1
UAGAGUAUCCAUUGGCCUAUUGACCUUUUACGUUAUUCUAUUCCUACCAUUUUCGUUUCCUAUUGGGAAUUGUUGGCAAUUGCUUACCCUUCUGGCAGGAUCC
(((((((......((.(....).))........))))))).((((.(((.....((((((....)))))).((.(((....))).)).....))).))))... ( -21.04)
>DroEre_CAF1 28227 101 - 1
UAGGGUAUCCAUUGGCCUAUUGCCCUUUUACGUUAUUUUAUUCCUACCAUUUUCGUUUCCUAUUGGGAAUUGUUGGCAAUUGCUUACCCUUC--GCAGGAUCC
.((((((......(((..((((((.......((............)).......((((((....))))))....)))))).)))))))))..--......... ( -19.10)
>DroYak_CAF1 35857 103 - 1
UAGGGUAUCCAUUGGCCUAUUGACCUUUUGCGUUAUCCUAUUCCUACCAUUUUCGUUUCCUAUUGGGAAUUGUUGGCAAUUGCUUACCCUUCUGGCAGGAUCC
(((((((.(((..((.(....).))...)).).))))))).((((.(((.....((((((....)))))).((.(((....))).)).....))).))))... ( -25.00)
>consensus
UAGAGUAUCCAUUGGCCUAUUGACCUUUUACGUUAUUCUAUUCCUACCAUUUUCGUUUCCUAUUGGGAAUUGUUGGCAAUUGCUUACCCUUCUGGCAGGAUCC
(((((((......((.(....).))........))))))).((((.(((.....((((((....)))))).((.(((....))).)).....))).))))... (-19.64 = -19.48 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:20 2006