Locus 3909

Sequence ID 2L_DroMel_CAF1
Location 11,420,427 – 11,420,643
Length 216
Max. P 0.559973
window6162 window6163

overview

Window 2

Location 11,420,427 – 11,420,539
Length 112
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 95.15
Mean single sequence MFE -27.16
Consensus MFE -24.08
Energy contribution -24.16
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -1.16
Structure conservation index 0.89
SVM decision value -0.03
SVM RNA-class probability 0.519867
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11420427 112 - 22407834
CAUCUGCGGGCUUUUUCGGAAAAAUUCAUGGGCACUGAACCCUCGUGAAACUUUUAGUCAGCAACUCUUGCACAUUUGCUGGAGUUUUUGAAAAAAAACUUUGUCACCACUA
....((..(((.............((((((((.........))))))))..((((..((((.((((((.(((....))).)))))).))))..)))).....)))..))... ( -23.80)
>DroSec_CAF1 137996 111 - 1
CAUCUGCGGGCUUUUUCGGAAAAAU-CCUGGGCACUGAACCCUCGUGAAACUUUUAGUCGGCAACUCUUGCACAUUUGCAGGAGUUUUUGAAAAAAAACUUUGUCACCACUA
......(((((((....(((....)-)).)))).))).......((((...((((..((((.((((((((((....)))))))))).))))..))))......))))..... ( -27.30)
>DroSim_CAF1 144786 111 - 1
CAUCUGCGGGCUUUUUCGGAAAAAU-CCUGGGCACUGAACCCUCGUGAAACUUUUAGUCGGCAACUCUUGCACAUUUGCAGGAGUUUUUGAAAAAAAACUUUGUCAUCACUA
....(((.((((.(((((((....)-)).(((.......)))....)))).....)))).)))..(((((((....)))))))((((((....))))))............. ( -27.10)
>DroEre_CAF1 145667 110 - 1
CAUCUGCGGGCUUUUUCGGAAAAAU-CCCGGCCACUGAACCCUCGUGAAACUUUUAGCCGGCAACUCUUGCACAUUUGCAGGAGUUUUUGGAA-AAAACUUUGUCACCACUA
.....(.(((.(((.((((......-.)))).....)))))).)((((...((((..((((.((((((((((....)))))))))).))))..-)))).....))))..... ( -29.20)
>DroYak_CAF1 142702 111 - 1
CAUCUGCGGGCUUUUUCGGAAAAAU-UCUGGGCACUGAACCCUCGUGAAACUUUUGGCCGGAAACUCUUGCACAUUUGCAGGAGUUUUUGAAAAAAAACUUUGUCACCACUA
.....(.(((.((.((((((.....-))))))....)).))).)((((...((((...((((((((((((((....))))))))))))))...))))......))))..... ( -28.40)
>consensus
CAUCUGCGGGCUUUUUCGGAAAAAU_CCUGGGCACUGAACCCUCGUGAAACUUUUAGUCGGCAACUCUUGCACAUUUGCAGGAGUUUUUGAAAAAAAACUUUGUCACCACUA
.....(.(((.((.(((((........)))))....)).))).)((((...((((..((((.((((((((((....)))))))))).))))...)))).....))))..... (-24.08 = -24.16 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 11,420,539 – 11,420,643
Length 104
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 82.35
Mean single sequence MFE -24.43
Consensus MFE -15.30
Energy contribution -15.06
Covariance contribution -0.24
Combinations/Pair 1.12
Mean z-score -1.78
Structure conservation index 0.63
SVM decision value 0.05
SVM RNA-class probability 0.559973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11420539 104 - 22407834
ACAUGUAAGCAGUUUCAUAAAUUAUUUGUCACAAUUAAUUGAAUUGUGUCUCUGUGGGU--GUGGGUCAUCCCUGCCCCGCCCUACCUUUCUUUCACCUCCCACUG
.........((((..............(.(((((((.....))))))).)...(((((.--(((((.((....)).))))))))))................)))) ( -23.90)
>DroSec_CAF1 138107 104 - 1
ACAUGUAAGCAGUUUCAUAAAUUAUUUGUCACAAUUAAUUGAAUUGUGUCUCUGUGGGU--GUGGGUCAUCCCUGCCCCGCCCCACUGUUCUUUCACCUCCCACUG
.........((((..............(.(((((((.....))))))).)...(((((.--(((((.((....)).))))))))))................)))) ( -26.60)
>DroSim_CAF1 144897 106 - 1
ACAUGUAAGCAGUUUCAUAAAUUAUUUGUCACAAUUAAUUGAAUUGUGUCUCUGUGGGUGUGUGGGUCAUCCCUGCCCCGCCCCACUUUUCUUUCACCUCCCACUG
.........((((..............(.(((((((.....))))))).)...(((((.(((.((((.......))))))))))))................)))) ( -26.30)
>DroEre_CAF1 145777 103 - 1
ACAUGUAAGCAGUUUCAUAAAUUAUUUGUCACAAUUAAUUGAAUCGUGUCUCUGUGGGU--GUGGGUCAUCCCCGCCCCGCCCCCU-UUUCUUUCAACGCCCAAUG
.(((....((.((..((.........))..))......(((((..........(((((.--(((((.....)))))))))).....-.....))))).))...))) ( -21.25)
>DroAna_CAF1 123781 89 - 1
CCAUGCGAGAAAUUUCAUAAAUUAUUUGUCACAAUUAAUUGAAUUGUGUCUGCGGGUGU--GUGGAUGACCCCGGCACAUCCUUGCACUUC---------------
...(((((...................(.(((((((.....))))))).)...((((((--((((......)).)))))))))))))....--------------- ( -24.10)
>consensus
ACAUGUAAGCAGUUUCAUAAAUUAUUUGUCACAAUUAAUUGAAUUGUGUCUCUGUGGGU__GUGGGUCAUCCCUGCCCCGCCCCACUUUUCUUUCACCUCCCACUG
........((.................(.(((((((.....))))))).).....((((....(((....))).)))).))......................... (-15.30 = -15.06 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:30 2006