Locus 762

Sequence ID	X_DroMel_CAF1
Location	2,099,801 – 2,099,912
Length	111
Max. P	0.945908

overview

Window 8

Location	2,099,801 – 2,099,912
Length	111
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	83.38
Mean single sequence MFE	-34.34
Consensus MFE	-27.06
Energy contribution	-29.12
Covariance contribution	2.06
Combinations/Pair	1.15
Mean z-score	-2.20
Structure conservation index	0.79
SVM decision value	1.36
SVM RNA-class probability	0.945908
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2099801 111 + 22224390
GAACAGGUGUCCCAUCCGAAGC-UCUAUUCAGGGAGGCACACCGAUUCCGGGUACAGUU-----UCGGCUUAAUCCGGAAUCACUUUGCACCCCUGAUUUGAUCCGUAA--CCCCCACC
.....((((.......((....-((...((((((..(((....((((((((((..(((.-----...)))..))))))))))....)))..))))))...))..))...--....)))) ( -36.34)
>DroSec_CAF1 487 116 + 1
GAACAGGUGUCCCAUCCGAAGU-UCUAUUCAGGGGCGCACACCGAUUCCGGGUACAGUACCGUACCGGCUUAAUCCGGAAUCACUUUGCACCCCUGAUUUGAUCCGUAA--CCCCCACC
.....((((.......((....-((...(((((((.(((....((((((.(((((......)))))((......))))))))....))).)))))))...))..))...--....)))) ( -39.54)
>DroEre_CAF1 957 112 + 1
GAACAGGUGUCCCAUCCAGAGCAUCUCUUCAGGAAUGCACACCGAUUCCGGGUACAUUU-----UCGGUUCGAUCUGGAAUCGCUUUGCAGUCCUGAUUUGAUCCAUAA--CCCCCACC
.....((((........((((...))))((((((.((((...(((((((((((..((..-----...))...)))))))))))...)))).))))))............--....)))) ( -33.40)
>DroYak_CAF1 181 114 + 1
GAACAGGUGUCCCAUCCGCAGCAUCUCUUCAGGAAUGCACAGCGAUUCCGGACACAGUC-----UCGGUUCGAUCUGAAAUCGCUUUGCAGCCCCGAUUUGAUUCACAAUCCCCCCACC
(((.((((((..(....)..)))))).))).((..((((.(((((((((((((...)))-----.)))..........))))))).))))..)).((......)).............. ( -28.10)
>consensus
GAACAGGUGUCCCAUCCGAAGC_UCUAUUCAGGAAUGCACACCGAUUCCGGGUACAGUU_____UCGGCUCAAUCCGGAAUCACUUUGCACCCCUGAUUUGAUCCAUAA__CCCCCACC
.....((((...........(.(((...((((((.((((.(.(((((((((((..((((.......))))..))))))))))).).)))).))))))...))).)..........)))) (-27.06 = -29.12 +   2.06)

alignment

secondary structure

dotplot

Window 9

Location	2,099,801 – 2,099,912
Length	111
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	83.38
Mean single sequence MFE	-40.22
Consensus MFE	-34.10
Energy contribution	-33.79
Covariance contribution	-0.31
Combinations/Pair	1.32
Mean z-score	-1.49
Structure conservation index	0.85
SVM decision value	0.16
SVM RNA-class probability	0.614289
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2099801 111 - 22224390
GGUGGGGG--UUACGGAUCAAAUCAGGGGUGCAAAGUGAUUCCGGAUUAAGCCGA-----AACUGUACCCGGAAUCGGUGUGCCUCCCUGAAUAGA-GCUUCGGAUGGGACACCUGUUC
((((....--...((((((...(((((((.(((.(.(((((((((....((....-----..))....))))))))).).))).)))))))...))-..)))).......))))..... ( -40.14)
>DroSec_CAF1 487 116 - 1
GGUGGGGG--UUACGGAUCAAAUCAGGGGUGCAAAGUGAUUCCGGAUUAAGCCGGUACGGUACUGUACCCGGAAUCGGUGUGCGCCCCUGAAUAGA-ACUUCGGAUGGGACACCUGUUC
((((....--...((((((...(((((((((((.(.(((((((((......))((((((....)))))).))))))).).)))))))))))...))-..)))).......))))..... ( -50.94)
>DroEre_CAF1 957 112 - 1
GGUGGGGG--UUAUGGAUCAAAUCAGGACUGCAAAGCGAUUCCAGAUCGAACCGA-----AAAUGUACCCGGAAUCGGUGUGCAUUCCUGAAGAGAUGCUCUGGAUGGGACACCUGUUC
((((...(--((..(.(((...((((((.((((.(.(((((((...(((...)))-----....(....)))))))).).)))).))))))...))).)....)))....))))..... ( -33.30)
>DroYak_CAF1 181 114 - 1
GGUGGGGGGAUUGUGAAUCAAAUCGGGGCUGCAAAGCGAUUUCAGAUCGAACCGA-----GACUGUGUCCGGAAUCGCUGUGCAUUCCUGAAGAGAUGCUGCGGAUGGGACACCUGUUC
((((......(((((.(((...(((((..((((.(((((((((.....)).(((.-----(((...))))))))))))).))))..)))))...)))..)))))......))))..... ( -36.50)
>consensus
GGUGGGGG__UUACGGAUCAAAUCAGGGCUGCAAAGCGAUUCCAGAUCAAACCGA_____AACUGUACCCGGAAUCGGUGUGCAUCCCUGAAGAGA_GCUUCGGAUGGGACACCUGUUC
((((.........((((((...(((((((((((.(.(((((((((.......................))))))))).).)))))))))))...))...)))).......))))..... (-34.10 = -33.79 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:15 2006