Locus 7521

Sequence ID	3R_DroMel_CAF1
Location	20,127,647 – 20,127,754
Length	107
Max. P	0.904040

overview

Window 6

Location	20,127,647 – 20,127,754
Length	107
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	94.92
Mean single sequence MFE	-24.82
Consensus MFE	-20.40
Energy contribution	-20.48
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.84
Structure conservation index	0.82
SVM decision value	1.03
SVM RNA-class probability	0.904040
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20127647 107 + 27905053
UGAUUAGUCAUACCAACAGAAUGCAGUGUAAAAUCCGAAAUGCAAAAUGC--------ACUGGCAGAGCCAGAGGUAAAACCAAAGCAAAGCGAGCUGAGCCAAUUUGCAUACAU
......((..((((.......((((.((((..........))))...)))--------)(((((...))))).))))..))....(((((..(.((...)))..)))))...... ( -22.50)
>DroSec_CAF1 11643 107 + 1
UGAUUAGUCAUACCAACAGAAUGCAGUGCAAAAUCCGAAAUGCAAAAUGC--------ACUGGCAGAGCCAGAGGUAAAACCAAAGCAAAGCGAGCUGAGCCAAUUUGCAUACAU
......((..((((.......((((.((((..........))))...)))--------)(((((...))))).))))..))....(((((..(.((...)))..)))))...... ( -24.50)
>DroSim_CAF1 11720 107 + 1
UGAUUAGUCAUACCAACAGAAUGCAGUGCAAAAUCCGAAAUGCAAAAUGC--------ACUGGCAGUGCCAGAGGUAAAACCAAAGCAAAGCGAGCUGAGCCAAUUUGCAUACAU
......((..((((.......((((.((((..........))))...)))--------)(((((...))))).))))..))....(((((..(.((...)))..)))))...... ( -24.50)
>DroEre_CAF1 11963 107 + 1
UGAUUAGUCAUACCAACAGAAUGCAGUGCAAAAUCCGAAAUGCAAAAUGC--------ACUGGCAGAGCCAGAGGUAAAACCAAAGCAAAGCGAGCUGAGCCAAUUUGCAUACAU
......((..((((.......((((.((((..........))))...)))--------)(((((...))))).))))..))....(((((..(.((...)))..)))))...... ( -24.50)
>DroYak_CAF1 11983 115 + 1
UGAUUAGUCACACCAACAGAAUGCAGUGCAAAAUCCGAAAUGCAAAAUGCAAAAUGCAACUGGCAGAGCUUGAGGUAAAACCGAAGCAAAGCGAGCUGAGCCAAUUUGCAUACAU
.....................((((.((((..........))))...))))..((((((.((((..((((((.((.....)).........))))))..))))..)))))).... ( -28.10)
>consensus
UGAUUAGUCAUACCAACAGAAUGCAGUGCAAAAUCCGAAAUGCAAAAUGC________ACUGGCAGAGCCAGAGGUAAAACCAAAGCAAAGCGAGCUGAGCCAAUUUGCAUACAU
......((..((((........(((.((((..........))))...))).........(((((...))))).))))..))....(((((..(.((...)))..)))))...... (-20.40 = -20.48 +   0.08)

alignment

secondary structure

dotplot

Window 7

Location	20,127,647 – 20,127,754
Length	107
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	94.92
Mean single sequence MFE	-27.02
Consensus MFE	-22.42
Energy contribution	-23.06
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.51
Structure conservation index	0.83
SVM decision value	0.40
SVM RNA-class probability	0.720461
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20127647 107 - 27905053
AUGUAUGCAAAUUGGCUCAGCUCGCUUUGCUUUGGUUUUACCUCUGGCUCUGCCAGU--------GCAUUUUGCAUUUCGGAUUUUACACUGCAUUCUGUUGGUAUGACUAAUCA
......(((((.((((...)).)).))))).((((((.((((.(((((...))))).--------(((...((((...............))))...))).)))).))))))... ( -23.46)
>DroSec_CAF1 11643 107 - 1
AUGUAUGCAAAUUGGCUCAGCUCGCUUUGCUUUGGUUUUACCUCUGGCUCUGCCAGU--------GCAUUUUGCAUUUCGGAUUUUGCACUGCAUUCUGUUGGUAUGACUAAUCA
......(((((.((((...)).)).))))).((((((.((((..(((...(((.(((--------(((.((((.....))))...)))))))))..)))..)))).))))))... ( -27.30)
>DroSim_CAF1 11720 107 - 1
AUGUAUGCAAAUUGGCUCAGCUCGCUUUGCUUUGGUUUUACCUCUGGCACUGCCAGU--------GCAUUUUGCAUUUCGGAUUUUGCACUGCAUUCUGUUGGUAUGACUAAUCA
......(((((.((((...)).)).))))).((((((.((((..(((...(((.(((--------(((.((((.....))))...)))))))))..)))..)))).))))))... ( -27.30)
>DroEre_CAF1 11963 107 - 1
AUGUAUGCAAAUUGGCUCAGCUCGCUUUGCUUUGGUUUUACCUCUGGCUCUGCCAGU--------GCAUUUUGCAUUUCGGAUUUUGCACUGCAUUCUGUUGGUAUGACUAAUCA
......(((((.((((...)).)).))))).((((((.((((..(((...(((.(((--------(((.((((.....))))...)))))))))..)))..)))).))))))... ( -27.30)
>DroYak_CAF1 11983 115 - 1
AUGUAUGCAAAUUGGCUCAGCUCGCUUUGCUUCGGUUUUACCUCAAGCUCUGCCAGUUGCAUUUUGCAUUUUGCAUUUCGGAUUUUGCACUGCAUUCUGUUGGUGUGACUAAUCA
((((((((((.(((((..((((......((....)).........))))..)))))))))))...)))).(..((((.((((...(((...))).))))..))))..)....... ( -29.76)
>consensus
AUGUAUGCAAAUUGGCUCAGCUCGCUUUGCUUUGGUUUUACCUCUGGCUCUGCCAGU________GCAUUUUGCAUUUCGGAUUUUGCACUGCAUUCUGUUGGUAUGACUAAUCA
......(((((.((((...)).)).))))).((((((.((((.(((((...))))).........(((...((((..........)))).)))........)))).))))))... (-22.42 = -23.06 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:59 2006