Locus 530

Sequence ID 2R_DroMel_CAF1
Location 2,818,479 – 2,818,573
Length 94
Max. P 0.972567
window994 window995

overview

Window 4

Location 2,818,479 – 2,818,573
Length 94
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 78.14
Mean single sequence MFE -21.48
Consensus MFE -14.13
Energy contribution -15.13
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -2.25
Structure conservation index 0.66
SVM decision value 1.70
SVM RNA-class probability 0.972567
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2818479 94 + 20766785
AUGUAACCCCCUGAAGUCUCCUGACCCUGGCACCAUUUACCAUCAUUUCCUGUUCGC-CCACACACUUAAUAACCAAGUCAGGGGUCAGGCGACA
...............(((.((((((((((((........................))-).....((((.......))))..))))))))).))). ( -24.26)
>DroSec_CAF1 7591 94 + 1
AUGUAACCCCUUGGAGUCUCCUGACCCUGGCACCAUUUACCCUCAUUUCCUGUUCCC-CCACACACUUAAUAACCAAUUCAGAGGUCAGGUGACA
......((....)).(((.(((((((((((...........................-....................)))).))))))).))). ( -19.53)
>DroSim_CAF1 7246 92 + 1
A--UAACCCCUUCGAGUCUCCUGACCCUGGCACCAUUUACCCUCAUUUCCUGUUCCC-CCACACACUUAAUAACGAAGUCAGGGGUCAGGUGACA
.--............(((.((((((((((((...................(((....-..)))..(........)..)))).)))))))).))). ( -23.70)
>DroEre_CAF1 7335 94 + 1
AUGUA-GCCCCUAAAGUCCCCUGACCCUGGCACCAGCUACCCUCGAUGCCUGUUCCCUCCAGACACUUUAUAGCCAAACCGGGGGUCAGGAGUCA
.....-.........(.(.(((((((((.(.....((((.......((.(((.......))).)).....)))).....).))))))))).).). ( -24.30)
>DroYak_CAF1 7763 79 + 1
AUGUAAGCCCUUGAAGUCUCUUGAC----------------CUCAUUCCCUGUUCCCUCCACACACUUGAUAACCAAAUGAGAAGUCAGGAGUCA
...............(.((((((((----------------((((((....(((..(...........)..)))..))))))..)))))))).). ( -15.60)
>consensus
AUGUAACCCCUUGAAGUCUCCUGACCCUGGCACCAUUUACCCUCAUUUCCUGUUCCC_CCACACACUUAAUAACCAAAUCAGGGGUCAGGAGACA
...............(((.(((((((((((................................................)))).))))))).))). (-14.13 = -15.13 +   1.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,818,479 – 2,818,573
Length 94
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 78.14
Mean single sequence MFE -29.72
Consensus MFE -15.42
Energy contribution -16.70
Covariance contribution 1.28
Combinations/Pair 1.05
Mean z-score -1.84
Structure conservation index 0.52
SVM decision value 0.10
SVM RNA-class probability 0.582817
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2818479 94 - 20766785
UGUCGCCUGACCCCUGACUUGGUUAUUAAGUGUGUGG-GCGAACAGGAAAUGAUGGUAAAUGGUGCCAGGGUCAGGAGACUUCAGGGGGUUACAU
.(((.(((((((((((..(((.((((.......))))-.))).))).......(((((.....))))))))))))).)))............... ( -29.50)
>DroSec_CAF1 7591 94 - 1
UGUCACCUGACCUCUGAAUUGGUUAUUAAGUGUGUGG-GGGAACAGGAAAUGAGGGUAAAUGGUGCCAGGGUCAGGAGACUCCAAGGGGUUACAU
.....(((((((.(((.(((..(((((...(.(((..-....))).).......)))))..)))..)))))))))).(((((....))))).... ( -25.40)
>DroSim_CAF1 7246 92 - 1
UGUCACCUGACCCCUGACUUCGUUAUUAAGUGUGUGG-GGGAACAGGAAAUGAGGGUAAAUGGUGCCAGGGUCAGGAGACUCGAAGGGGUUA--U
.....(((((((((((..(((.((((.......))))-.))).)))........((((.....)))).)))))))).(((((....))))).--. ( -30.40)
>DroEre_CAF1 7335 94 - 1
UGACUCCUGACCCCCGGUUUGGCUAUAAAGUGUCUGGAGGGAACAGGCAUCGAGGGUAGCUGGUGCCAGGGUCAGGGGACUUUAGGGGC-UACAU
...((((((((((..((((..(((((...(((((((.......))))))).....)))))..).))).))))))))))...........-..... ( -41.00)
>DroYak_CAF1 7763 79 - 1
UGACUCCUGACUUCUCAUUUGGUUAUCAAGUGUGUGGAGGGAACAGGGAAUGAG----------------GUCAAGAGACUUCAAGGGCUUACAU
....(((((.(((((((((((.....))))))...)))))...)))))..((((----------------(((....)))))))........... ( -22.30)
>consensus
UGUCACCUGACCCCUGACUUGGUUAUUAAGUGUGUGG_GGGAACAGGAAAUGAGGGUAAAUGGUGCCAGGGUCAGGAGACUUCAAGGGGUUACAU
.(((.((((((((.................(.(((.......))).).......((((.....)))).)))))))).)))............... (-15.42 = -16.70 +   1.28) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:01 2006