Locus 1898

Sequence ID	2R_DroMel_CAF1
Location	7,152,936 – 7,153,031
Length	95
Max. P	0.999947

overview

Window 8

Location	7,152,936 – 7,153,031
Length	95
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	91.30
Mean single sequence MFE	-18.50
Consensus MFE	-15.86
Energy contribution	-17.12
Covariance contribution	1.25
Combinations/Pair	1.07
Mean z-score	-1.50
Structure conservation index	0.86
SVM decision value	0.07
SVM RNA-class probability	0.566321
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7152936 95 + 20766785
UUUUUUGCUUUGAUUGAAGCGAUAAAGUAGCAAAUUGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCACGAAUAUCAAUCAAAACAAUGCUUUG
......((((((((.(((((......)).(((..((....))..)))...))).))))))))(((((...((.......))....)))))..... ( -15.80)
>DroSec_CAF1 16215 95 + 1
UUGUUUGCUUUGAUUGAAGCGAUAAAGUGGCAAAUUGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCACGAAUAUCAAUCAAAACAAUGCUUUG
..(((((.(((((((((..((....((((((...((((..(((.......)))..)))).))))))...))....))))))))).))).)).... ( -21.30)
>DroSim_CAF1 16637 95 + 1
UUGUUUGCUUUGAUUGAAGCGAUAAAGUGGCAAAUUGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCACGAAUAUCAAUCAAAACAAUGCUUUG
..(((((.(((((((((..((....((((((...((((..(((.......)))..)))).))))))...))....))))))))).))).)).... ( -21.30)
>DroEre_CAF1 18184 95 + 1
CUGUUUGCUUUGAUUCAAGCGAUAAAGUGGCGAAUUGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCAUGAAUAUCAAUCAAAACCAAAAUUUG
..((((...((((((((.(((.....(((((...((((..(((.......)))..)))).)))))))).)))..)))))...))))......... ( -18.20)
>DroYak_CAF1 16647 95 + 1
UUGUUUGCUUUGAUUGAAGCGAUAAUGUGGCGAAUUGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCACGAAUACCAAUCAAAACAAUGAUUUG
....(((.((((((((...((.....(((((...((((..(((.......)))..)))).)))))....)).....)))))))).)))....... ( -19.00)
>DroAna_CAF1 13750 95 + 1
UUUUGCCCUCUGAUUGAAACGAUAAAGUGGCAAAAGGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCACGAAUAUCAAUCAAAAUACAUUUUUG
..........(((((((..((....((((((....((((...........))))......))))))...))....)))))))............. ( -15.40)
>consensus
UUGUUUGCUUUGAUUGAAGCGAUAAAGUGGCAAAUUGAAAGAAAUGCAAAUUCCAUCAAAGCCAUUGCACGAAUAUCAAUCAAAACAAUGCUUUG
....(((.(((((((((..((....((((((...((((..(((.......)))..)))).))))))...))....))))))))).)))....... (-15.86 = -17.12 +   1.25)

alignment

secondary structure

dotplot

Window 9

Location	7,152,936 – 7,153,031
Length	95
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	91.30
Mean single sequence MFE	-24.20
Consensus MFE	-23.40
Energy contribution	-23.60
Covariance contribution	0.20
Combinations/Pair	1.19
Mean z-score	-3.06
Structure conservation index	0.97
SVM decision value	4.76
SVM RNA-class probability	0.999947
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7152936 95 - 20766785
CAAAGCAUUGUUUUGAUUGAUAUUCGUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCAAUUUGCUACUUUAUCGCUUCAAUCAAAGCAAAAAA
.......(((((((((((((....((.....((((.((((.((((.......)))).))))...))))......))..))))))))))))).... ( -24.60)
>DroSec_CAF1 16215 95 - 1
CAAAGCAUUGUUUUGAUUGAUAUUCGUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCAAUUUGCCACUUUAUCGCUUCAAUCAAAGCAAACAA
.......(((((((((((((....((.....((((.((((.((((.......)))).))))...))))......))..))))))))))))).... ( -26.90)
>DroSim_CAF1 16637 95 - 1
CAAAGCAUUGUUUUGAUUGAUAUUCGUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCAAUUUGCCACUUUAUCGCUUCAAUCAAAGCAAACAA
.......(((((((((((((....((.....((((.((((.((((.......)))).))))...))))......))..))))))))))))).... ( -26.90)
>DroEre_CAF1 18184 95 - 1
CAAAUUUUGGUUUUGAUUGAUAUUCAUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCAAUUCGCCACUUUAUCGCUUGAAUCAAAGCAAACAG
.........(((((((((.(...........((((.((((.((((.......)))).))))...))))..........).)))))))))...... ( -19.40)
>DroYak_CAF1 16647 95 - 1
CAAAUCAUUGUUUUGAUUGGUAUUCGUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCAAUUCGCCACAUUAUCGCUUCAAUCAAAGCAAACAA
.......(((((((((((((....((.....((((.((((.((((.......)))).))))...))))......))..))))))))))))).... ( -25.30)
>DroAna_CAF1 13750 95 - 1
CAAAAAUGUAUUUUGAUUGAUAUUCGUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCCUUUUGCCACUUUAUCGUUUCAAUCAGAGGGCAAAA
......(((.((((((((((....((.....((((...((.((((...........)))).)).))))......))..)))))))))).)))... ( -22.10)
>consensus
CAAAGCAUUGUUUUGAUUGAUAUUCGUGCAAUGGCUUUGAUGGAAUUUGCAUUUCUUUCAAUUUGCCACUUUAUCGCUUCAAUCAAAGCAAACAA
.......(((((((((((((....((.....((((.((((.((((.......)))).))))...))))......))..))))))))))))).... (-23.40 = -23.60 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:56 2006