Locus 8293

Sequence ID	3L_DroMel_CAF1
Location	21,741,162 – 21,741,322
Length	160
Max. P	0.899008

overview

Window 8

Location	21,741,162 – 21,741,282
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.74
Mean single sequence MFE	-31.22
Consensus MFE	-21.42
Energy contribution	-23.42
Covariance contribution	2.00
Combinations/Pair	1.06
Mean z-score	-2.82
Structure conservation index	0.69
SVM decision value	1.01
SVM RNA-class probability	0.899008
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21741162 120 - 23771897
CCACUAAAGUGAUCCCCGGGCAUUUGACCAGUCGUUGUCUGUCCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUCAGGCUCAGGCUCAGGCUCAGACUCCCGGCUUCUGUCACUU
......(((((((..(((((..(((((((((((...(((((..........................)))))...))))..(((....)))..)).)))))..))))).....))))))) ( -33.27)
>DroSec_CAF1 23072 114 - 1
CCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUCAGGCUC------AGGCUCAGACUCCCGGCUUCUGUCACUU
......(((((((..(((((..((((((((((((..(((((.((....................)).)))))..))))).......------.)).)))))..))))).....))))))) ( -34.75)
>DroSim_CAF1 27949 114 - 1
CCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUCAGGCUC------AGGCUCAGACUCCCGGCUUCUGUCACUU
......(((((((..(((((..((((((((((((..(((((.((....................)).)))))..))))).......------.)).)))))..))))).....))))))) ( -34.75)
>DroEre_CAF1 9197 101 - 1
CCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCGCAUCUCAUCUCAUCUCAG-------CUC------------AGACUCAGGCUCCCGGCUUCUGUCACUU
......(((((((..(((((.........(((((..(((((.((.........................)-------).)------------))))..)))))))))).....))))))) ( -26.51)
>DroYak_CAF1 81108 108 - 1
CCACUCAAGGGAUCCCCGGGCAUUUGACCAGUCUUUGUCCGUGCCUCCAUCUCAGCUCAUCUCAGCUCAGACUCAGACUC------------AGACUCAGGCUCUCGGCUUCUGUCACUU
.........(((..(.((((((...((....))..)))))).)..))).(((.((((......)))).))).........------------.(((..((((.....))))..))).... ( -26.80)
>consensus
CCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUCAGGCUC______AGGCUCAGACUCCCGGCUUCUGUCACUU
......(((((((..(((((..((((((((((((..(((((.((....................)).)))))..)))))..............)).)))))..))))).....))))))) (-21.42 = -23.42 +   2.00)

alignment

secondary structure

dotplot

Window 9

Location	21,741,202 – 21,741,322
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.83
Mean single sequence MFE	-33.42
Consensus MFE	-26.50
Energy contribution	-27.34
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.68
Structure conservation index	0.79
SVM decision value	0.50
SVM RNA-class probability	0.758742
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21741202 120 - 23771897
AUAAGCAUGAUCAGAUGACUGCCUUCGUGCGCCGAGAUGCCCACUAAAGUGAUCCCCGGGCAUUUGACCAGUCGUUGUCUGUCCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUC
....((((((.(((....)))...))))))((.((((((..(((....)))......(((((..((((.....))))..))))).............)))))).)).............. ( -29.50)
>DroSec_CAF1 23106 120 - 1
AUAAGCAUGAUCAGAUGACUGCCUUCGUGCGCCGAGAUGCCCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUC
....((((((.(((....)))...))))))....((((((((...............))))))))....(((((..(((((.((....................)).)))))..))))). ( -34.51)
>DroSim_CAF1 27983 120 - 1
AUAAGCAUGAUCAGAUGACUGCCUUCGUGCGCCGAGAUGCCCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUC
....((((((.(((....)))...))))))....((((((((...............))))))))....(((((..(((((.((....................)).)))))..))))). ( -34.51)
>DroEre_CAF1 9225 113 - 1
AUAAGCAUGAUCAGAUGACUGCCUUCGUGUGCCGAGAUGCCCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCGCAUCUCAUCUCAUCUCAG-------CUC
...(((.(((...(((((..(((.....).)).(((((((.(((....)))......((((((..(((........))).)))))).....)))))))...)))))))))-------)). ( -31.90)
>DroYak_CAF1 81136 117 - 1
AUGAGCAUGAUCAGAUG---GCCUUCGUGCGCCGAGAUGCCCACUCAAGGGAUCCCCGGGCAUUUGACCAGUCUUUGUCCGUGCCUCCAUCUCAGCUCAUCUCAGCUCAGACUCAGACUC
.(((((.(((...((((---((......))((.(((((((((......))).....((((((...((....))..))))))......)))))).)).))))))))))))........... ( -36.70)
>consensus
AUAAGCAUGAUCAGAUGACUGCCUUCGUGCGCCGAGAUGCCCACUCAAGUGAUCCCCGGGCAUUUGACCAGUCUUUGUCUGUGCCUCCAUCUCAACUCAUCUCAGCUCAGACUUAGACUC
....((((((.(((....)))...))))))((.((((((..(((....)))......((((((..(((........))).))))))...........)))))).)).............. (-26.50 = -27.34 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:44 2006