Locus 833

Sequence ID 3L_DroMel_CAF1
Location 2,532,386 – 2,532,491
Length 105
Max. P 0.940319
window1281 window1282

overview

Window 1

Location 2,532,386 – 2,532,491
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 85.64
Mean single sequence MFE -19.21
Consensus MFE -16.29
Energy contribution -16.10
Covariance contribution -0.19
Combinations/Pair 1.07
Mean z-score -2.11
Structure conservation index 0.85
SVM decision value 1.31
SVM RNA-class probability 0.940319
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2532386 105 + 23771897
UGUCCCUCUGUCCUGCCUCCAUCCUCCCUCCUUACCAAUAUAAUCCCGCCUCCUUUGGCAGUUCCCAGGGUUCUUGGUUGCCCCUGCCGGUACUACUGUACUUUU
...((((..(..(((((.......................................)))))..)..)))).....(((.......)))(((((....)))))... ( -19.43)
>DroSec_CAF1 155256 98 + 1
-------CUGUCCCGCCUCCAACCUCCCUCCUUACCAAUAUAAUCCCGCCUCCUUUGGCAGUUCCCAGGGUUCUUGGUUGCCCCUGCCGGUACUACUGUACUUUU
-------.......((..((((...((((..................(((......))).(....)))))...))))..)).......(((((....)))))... ( -19.30)
>DroSim_CAF1 152819 95 + 1
----------UUCCGCCUCCAUCCUCCCUCCUUGCCAAUAUAAUCCCGCCUCCUUUGGCAGUUCCCAGGGUUCUUGGUUGCCCCUGCCGGUACUACUGUACUUUU
----------....((..(((....((((..(((((((................))))))).....))))....)))..)).......(((((....)))))... ( -22.29)
>DroYak_CAF1 155471 83 + 1
----------------------CCUCACUCCUUACCUAUAUAAUCCCGCCUCCUUUGGCAGUUCCCAGGGUUCUUGGUUGCCCUUGCCGGUACUACUGUACUUUU
----------------------..................................((((((..(((((...)))))..))...))))(((((....)))))... ( -15.80)
>consensus
__________UCCCGCCUCCAUCCUCCCUCCUUACCAAUAUAAUCCCGCCUCCUUUGGCAGUUCCCAGGGUUCUUGGUUGCCCCUGCCGGUACUACUGUACUUUU
........................................................(((((......((((........)))))))))(((((....)))))... (-16.29 = -16.10 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,532,386 – 2,532,491
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 85.64
Mean single sequence MFE -23.40
Consensus MFE -17.92
Energy contribution -18.43
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.77
SVM decision value -0.03
SVM RNA-class probability 0.520226
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2532386 105 - 23771897
AAAAGUACAGUAGUACCGGCAGGGGCAACCAAGAACCCUGGGAACUGCCAAAGGAGGCGGGAUUAUAUUGGUAAGGAGGGAGGAUGGAGGCAGGACAGAGGGACA
....((.(..(.((.((.((..((....)).....((((.....(((((......)))))..((((....))))..)))).........)).)))).)..).)). ( -24.20)
>DroSec_CAF1 155256 98 - 1
AAAAGUACAGUAGUACCGGCAGGGGCAACCAAGAACCCUGGGAACUGCCAAAGGAGGCGGGAUUAUAUUGGUAAGGAGGGAGGUUGGAGGCGGGACAG-------
....((...((....(((((..((....)).....((((.....(((((......)))))..((((....))))..))))..)))))..))...))..------- ( -26.20)
>DroSim_CAF1 152819 95 - 1
AAAAGUACAGUAGUACCGGCAGGGGCAACCAAGAACCCUGGGAACUGCCAAAGGAGGCGGGAUUAUAUUGGCAAGGAGGGAGGAUGGAGGCGGAA----------
...............(((.(..((....)).....(((((....)((((((..((.......))...))))))...))))........).)))..---------- ( -22.90)
>DroYak_CAF1 155471 83 - 1
AAAAGUACAGUAGUACCGGCAAGGGCAACCAAGAACCCUGGGAACUGCCAAAGGAGGCGGGAUUAUAUAGGUAAGGAGUGAGG----------------------
.......((.(..((((.....((....)).....(((.(....).(((......))))))........))))...).))...---------------------- ( -20.30)
>consensus
AAAAGUACAGUAGUACCGGCAGGGGCAACCAAGAACCCUGGGAACUGCCAAAGGAGGCGGGAUUAUAUUGGUAAGGAGGGAGGAUGGAGGCGGGA__________
.............((((..(((((...........)))))....(((((......))))).........))))................................ (-17.92 = -18.43 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:19 2006