Locus 2074

Sequence ID	2R_DroMel_CAF1
Location	7,778,185 – 7,778,316
Length	131
Max. P	0.714246

overview

Window 4

Location	7,778,185 – 7,778,282
Length	97
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	79.21
Mean single sequence MFE	-20.38
Consensus MFE	-9.30
Energy contribution	-9.62
Covariance contribution	0.32
Combinations/Pair	1.14
Mean z-score	-2.27
Structure conservation index	0.46
SVM decision value	0.13
SVM RNA-class probability	0.598314
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7778185 97 - 20766785
UAUUAACAUGACACACACACAUAUCAUCGGGCAUUCAUCAUAGGCCAUAUGAUCAUAUGAUGAAGUCAGCCCAGGAACACAGUGACUCAUG-GAAAUU
......(((((..(((............((((.((((((((((..(....)..).)))))))))....)))).(.....).)))..)))))-...... ( -26.00)
>DroSec_CAF1 30049 84 - 1
-----------CAC--ACUCACAUCAUCGGGCAUUCAUCAUAGGCCAUAUGAUCAUAUGAUGAAGUCAGCUAAGGAACACAGUGACUCAUG-GAAAUU
-----------..(--(((....((....(((.((((((((((..(....)..).)))))))))....)))...))....)))).......-...... ( -17.60)
>DroSim_CAF1 31418 95 - 1
UAUUAACAUGCCAC--ACUCACAUCAUCGGGCAUUCAUCAUAGGCCAUAUGAUCAUAUGAUGAAGUCAGCCCAGGAACACAGUGACUCAUG-GAAAUU
......((((...(--(((....((...((((.((((((((((..(....)..).)))))))))....))))..))....))))...))))-...... ( -25.60)
>DroEre_CAF1 34071 93 - 1
UAUUAACAUGCC----ACUCACAUCAUCGGGCAUUCAUCAUAGGCCAUAUGAUCAUAUGAUGAAGUCAGCCCAGGAAUACAAUGACUCAUG-GAAAUU
......((((..----..(((.......((((.((((((((((..(....)..).)))))))))....)))).(.....)..)))..))))-...... ( -20.90)
>DroYak_CAF1 32090 93 - 1
UAUUAAUAUGCC----GCUCACAUCAUCAGGCAUUCAUCAUAAGCCAUAUGAUCAUAUGAUGAAGUCAGCUCAGGAACACAGUGACUCAUU-GAAAUU
............----(((.((.((((((.......((((((.....))))))....)))))).)).))).........(((((...))))-)..... ( -16.90)
>DroPer_CAF1 35324 77 - 1
CUUUCAAAUGCCAC---CUCACAUCGU-----UUUCAUU------CGAAUGAUC----GAUGAAGUCAGCCAAAGAA---ACUGACUCAUAAGAAAAU
.((((.........---....(((((.-----..((((.------...)))).)----)))).((((((........---.)))))).....)))).. ( -15.30)
>consensus
UAUUAACAUGCCAC__ACUCACAUCAUCGGGCAUUCAUCAUAGGCCAUAUGAUCAUAUGAUGAAGUCAGCCCAGGAACACAGUGACUCAUG_GAAAUU
.......................((....(((.(((((((((.............)))))))))....)))...))...................... ( -9.30 =  -9.62 +   0.32)

alignment

secondary structure

dotplot

Window 5

Location	7,778,210 – 7,778,316
Length	106
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	87.48
Mean single sequence MFE	-29.32
Consensus MFE	-22.37
Energy contribution	-23.80
Covariance contribution	1.43
Combinations/Pair	1.06
Mean z-score	-1.74
Structure conservation index	0.76
SVM decision value	0.38
SVM RNA-class probability	0.714246
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7778210 106 + 20766785
GGGCUGACUUCAUCAUAUGAUCAUAUGGCCUAUGAUGAAUGCCCGAUGAUAUGUGUGUGUGUCAUGUUAAUAAUGGCAAAUGACUGGCUUAUGGCUCAGUUAGCAC
((((....(((((((((.(..(....)..)))))))))).))))..........((((.((((((.......))))))..((((((((.....)).)))))))))) ( -34.30)
>DroSec_CAF1 30074 90 + 1
UAGCUGACUUCAUCAUAUGAUCAUAUGGCCUAUGAUGAAUGCCCGAUGAUGUGAGU--GUG--------------GCAAAUGACUGGCUUAUGGCUCAGUUAGCAC
..(((((((((((((((.(..(....)..)))))))))..(((..((((.((.(((--((.--------------....)).))).)))))))))..))))))).. ( -26.30)
>DroSim_CAF1 31443 104 + 1
GGGCUGACUUCAUCAUAUGAUCAUAUGGCCUAUGAUGAAUGCCCGAUGAUGUGAGU--GUGGCAUGUUAAUAAUGGCAAAUGACUGACUUAUGGCUCAGUUAGCAC
..(((((((((((((((.(..(....)..)))))))))..(((..((((.((.(((--.((.(((.......))).))....))).)))))))))..))))))).. ( -30.70)
>DroEre_CAF1 34096 102 + 1
GGGCUGACUUCAUCAUAUGAUCAUAUGGCCUAUGAUGAAUGCCCGAUGAUGUGAGU----GGCAUGUUAAUAAUGGCAAAUGACUGGCUUAUGGCUCAGGUAGCAC
((((....(((((((((.(..(....)..)))))))))).))))(...((.(((((----(((..((((...........))))..)))....))))).))..).. ( -27.80)
>DroYak_CAF1 32115 102 + 1
GAGCUGACUUCAUCAUAUGAUCAUAUGGCUUAUGAUGAAUGCCUGAUGAUGUGAGC----GGCAUAUUAAUAUUGGCAAAUGACUGGAUUAUGGCUCAGUUAGCAU
..(((((((((((((((.(.((....))).)))))))))((((...(((((((...----..))))))).....))))..((((((.....))).))))))))).. ( -27.50)
>consensus
GGGCUGACUUCAUCAUAUGAUCAUAUGGCCUAUGAUGAAUGCCCGAUGAUGUGAGU__GUGGCAUGUUAAUAAUGGCAAAUGACUGGCUUAUGGCUCAGUUAGCAC
..(((((((((((((((.(..(....)..)))))))))..(((..((((.((.(((...((.(((.......))).))....))).)))))))))..))))))).. (-22.37 = -23.80 +   1.43)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:33 2006