Locus 7370

Sequence ID	2L_DroMel_CAF1
Location	20,524,901 – 20,525,099
Length	198
Max. P	0.889511

overview

Window 7

Location	20,524,901 – 20,525,009
Length	108
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	87.75
Mean single sequence MFE	-24.75
Consensus MFE	-20.18
Energy contribution	-20.42
Covariance contribution	0.24
Combinations/Pair	1.13
Mean z-score	-1.85
Structure conservation index	0.82
SVM decision value	0.96
SVM RNA-class probability	0.889511
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20524901 108 + 22407834
U-UCCAACCACAUUCGUUUGAAUUUUUUUCCGAGUGUACGGAAGCCUAGCAAAAAUCCCCGUCUCCACACUUCC-CCUCCUAGCAUGUUGACUUGACUUGGCUUCCGUGC
.-.......(((((((...(((.....))))))))))(((((((((.(((((........(((..((..((...-......))..))..)))))).)).))))))))).. ( -27.50)
>DroSec_CAF1 46310 109 + 1
UUUCCAACCACAUUCGUAUGAAUUUUAUUCCCAGUGUACGGAAGCCUAGCAAAAAUCCCGGUCUCCACCCUUCC-CCUCCUAGCAUGUUGACUUGACUUGGCUUCCGUGC
...................................(((((((((((.((((........((((..((..((...-......))..))..)))))).)).))))))))))) ( -24.10)
>DroSim_CAF1 47254 109 + 1
UUUCCAACCACUUUCGUAUGAAUUUUAUUCCCAGUGCACGGAAGCCUAGCAAAAAUCCCAGUCUCCACCCUUCC-CCACCUAGCAUGUUGACUUGACUUGGCUUCCGUGC
...................................(((((((((((.((((........((((..((..((...-......))..))..)))))).)).))))))))))) ( -26.10)
>DroEre_CAF1 39298 107 + 1
UUUUCAGCCACAUUUGCAUGAAUUUAGUUGC-AGUGUA-GGAAGCCUAGCUGAAAUCCCCGCUGCCACCCCUUC-CCUCCCAGCAUGUUGACUUGACUUGGCUUCCGUGC
......((((((((.(((..........)))-))))).-(((((((..((((......................-.....))))..(((.....)))..)))))))).)) ( -22.83)
>DroYak_CAF1 41499 110 + 1
UUUCCAACCACAUUUAUAUGAAUAAAAUUCCGAGUGUACGGAAGCCUAGCAAAAAUGCCCGUUUCCACCCUUUCCCCUCCUAGCAUGUUGACUUGACUUGGCUUCCGUGC
...................................(((((((((((..(((....)))..(((..((..((..........))..))..))).......))))))))))) ( -23.20)
>consensus
UUUCCAACCACAUUCGUAUGAAUUUUAUUCCCAGUGUACGGAAGCCUAGCAAAAAUCCCCGUCUCCACCCUUCC_CCUCCUAGCAUGUUGACUUGACUUGGCUUCCGUGC
...................................(((((((((((.(((((........(((..((..((..........))..))..)))))).)).))))))))))) (-20.18 = -20.42 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	20,525,009 – 20,525,099
Length	90
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	79.90
Mean single sequence MFE	-24.53
Consensus MFE	-15.88
Energy contribution	-17.00
Covariance contribution	1.12
Combinations/Pair	1.09
Mean z-score	-1.70
Structure conservation index	0.65
SVM decision value	0.13
SVM RNA-class probability	0.597718
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20525009 90 - 22407834
ACCCAUCAGGAGCCAUCCAGCC--AUCCAGC---------------------------CAGCUAUCCAGAUAUCCCAGUCAGCGGAUGGCGCCGUACACCAGGUGCAAUUAAGAAUUUU
.....((.((.(((((((.((.--.....))---------------------------..(((.....(((......))))))))))))).))((((.....))))......))..... ( -23.90)
>DroSec_CAF1 46419 90 - 1
ACCCAUCAGGAGCCAUCCAGCC--AUCCAGC---------------------------CAGCUAUCCAGAUAUUCCAGUCAGCGGAUGGCUUCGUACACCAGGUGCAAUUAAGAAUUUU
.....((.((((((((((.((.--.....))---------------------------..(((.....(((......))))))))))))))))((((.....))))......))..... ( -25.40)
>DroSim_CAF1 47363 90 - 1
ACCCAUCAGGAGCCAUCCAGCC--AUCCAGC---------------------------CAGCUAUCCAGAUAUUCCAGUCAGCGGAUGGCGCCGUACACCAGGUGCAAUUAAGAAUUUU
.....((.((.(((((((.((.--.....))---------------------------..(((.....(((......))))))))))))).))((((.....))))......))..... ( -23.90)
>DroPer_CAF1 88623 119 - 1
ACCCAUCAAGAGUCCGCCAUCCCACCCCAUCCCGCCAUCCCACCAUCCGGGAUCCAACCAGCUAUCCAGAUAUUCCAGUCAGCGGAAAGCGCCGUACACCAGGUGCAAUUAAGAAUUUU
.....((.....(((((...........((((((.............))))))...............(((......))).)))))..(((((........)))))......))..... ( -24.92)
>consensus
ACCCAUCAGGAGCCAUCCAGCC__AUCCAGC___________________________CAGCUAUCCAGAUAUUCCAGUCAGCGGAUGGCGCCGUACACCAGGUGCAAUUAAGAAUUUU
.....((.((.(((((((.((........)).............................(((.....(((......))))))))))))).))((((.....))))......))..... (-15.88 = -17.00 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:02 2006