Locus 6105

Sequence ID 3L_DroMel_CAF1
Location 16,202,350 – 16,202,469
Length 119
Max. P 0.995721
window9806 window9807

overview

Window 6

Location 16,202,350 – 16,202,469
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.83
Mean single sequence MFE -26.90
Consensus MFE -17.35
Energy contribution -17.13
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.65
SVM decision value 0.25
SVM RNA-class probability 0.651566
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16202350 119 + 23771897
UAAUCUUUUUGUAGCAUGAGCUGGGAGUUUUAUGUCACAAGGGAAUU-UUUUUUAGUUUUACCUAAAACUUCCCACUGACCCCUGAUAUUCUAGACCAGGAAAAGCAUCUGGAUCAGCAU
.............((.(((.(..(..(((((..((((...(((((..-..((((((......)))))).)))))..)))).((((...........)))).)))))..)..).))))).. ( -27.70)
>DroSec_CAF1 21314 118 + 1
UAAUGUUUUUGUAGCAUGAGCAGGGAGUUUUAUGUCAAAUGGGAAAC--UAUUUAGUUUUACCUAAAACUUCCCCCUGACCCCUGAUAUUCUAGAACAGGAAAAGCGUCUAGAUCAGACU
..(((((.....)))))...((((((((((((.(((((((((....)--))))).)....)).)))))))...)))))....((((...((((((...(......).))))))))))... ( -28.70)
>DroSim_CAF1 23234 98 + 1
----------------------GGGAGUUUUAUGUCACAUGGGAAAUUUUAUUUAGUUUUACCAAAAACUUCCCCCUGACCUCUGAUAUUCUAGACCAGGAAAAGCGUCUAGAUCAGACU
----------------------(((((((((........(((((((((......)))))).))))))))))))........(((((...((((((((.......).)))))))))))).. ( -24.30)
>consensus
UAAU_UUUUUGUAGCAUGAGC_GGGAGUUUUAUGUCACAUGGGAAAU_UUAUUUAGUUUUACCUAAAACUUCCCCCUGACCCCUGAUAUUCUAGACCAGGAAAAGCGUCUAGAUCAGACU
.................................((((...((((..........((((((....))))))))))..))))..((((...((((((............))))))))))... (-17.35 = -17.13 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,202,350 – 16,202,469
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.83
Mean single sequence MFE -30.20
Consensus MFE -20.43
Energy contribution -21.43
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -2.76
Structure conservation index 0.68
SVM decision value 2.61
SVM RNA-class probability 0.995721
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16202350 119 - 23771897
AUGCUGAUCCAGAUGCUUUUCCUGGUCUAGAAUAUCAGGGGUCAGUGGGAAGUUUUAGGUAAAACUAAAAAA-AAUUCCCUUGUGACAUAAAACUCCCAGCUCAUGCUACAAAAAGAUUA
..((((((((.((......))(((((.......)))))))))))))(((((.((((((......))))))..-..)))))..................(((....)))............ ( -28.80)
>DroSec_CAF1 21314 118 - 1
AGUCUGAUCUAGACGCUUUUCCUGUUCUAGAAUAUCAGGGGUCAGGGGGAAGUUUUAGGUAAAACUAAAUA--GUUUCCCAUUUGACAUAAAACUCCCUGCUCAUGCUACAAAAACAUUA
(((.(((((((((.((.......))))))))....(((((((((((((((((.(((((......)))))..--.)))))).))))))........))))).))).)))............ ( -31.50)
>DroSim_CAF1 23234 98 - 1
AGUCUGAUCUAGACGCUUUUCCUGGUCUAGAAUAUCAGAGGUCAGGGGGAAGUUUUUGGUAAAACUAAAUAAAAUUUCCCAUGUGACAUAAAACUCCC----------------------
..((((((((((((.(.......))))))))...))))).((((.((((((((((((((.....)))...)))))))))).).))))...........---------------------- ( -30.30)
>consensus
AGUCUGAUCUAGACGCUUUUCCUGGUCUAGAAUAUCAGGGGUCAGGGGGAAGUUUUAGGUAAAACUAAAUAA_AUUUCCCAUGUGACAUAAAACUCCC_GCUCAUGCUACAAAAA_AUUA
...(((((((((((..........)))))))...))))..((((..((((((((((((......)))))....)))))))...))))................................. (-20.43 = -21.43 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:09 2006