Locus 7278

Sequence ID	2L_DroMel_CAF1
Location	20,404,317 – 20,404,418
Length	101
Max. P	0.961885

overview

Window 4

Location	20,404,317 – 20,404,418
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	89.59
Mean single sequence MFE	-29.69
Consensus MFE	-24.08
Energy contribution	-23.80
Covariance contribution	-0.28
Combinations/Pair	1.26
Mean z-score	-2.10
Structure conservation index	0.81
SVM decision value	1.53
SVM RNA-class probability	0.961885
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20404317 101 + 22407834
UUUUAUUUAUUCUGAACGAUCCGGCAGCCUGGCGGGAAAUAUUGAUAGUCGAUAGGCGAUGGGUCAUCGCACAAAAAGGGCUGCCAGAUUAUUCUGUUAAA
.............(((..(((.((((((((.....(...(((((.....))))).((((((...)))))).).....)))))))).)))..)))....... ( -33.20)
>DroSec_CAF1 55467 100 + 1
UUUUAUUUAUUCUAGACGAUCCGGCAGCCUGGCGGGAAAUAUUGAUAGUCGAUAGACGAUGGACUAUCGAA-AAAAAGGGCUGCCAGGUUAUUCUGCUUAA
............((((.((((.((((((((...........(((((((((.((.....)).))))))))).-.....)))))))).))))..))))..... ( -30.83)
>DroSim_CAF1 56241 100 + 1
UUUUAUUUAAUCUAGACGAUCCGGCAGCCUGGCGGGAAAUAUUGAUAGUCGAUAGACGAUGGACUAUCGAA-AAAAAGGGCUGCCAGGUUAUUCUGUUUAA
............(((((((.((((((((((...........(((((((((.((.....)).))))))))).-.....)))))))).))....)).))))). ( -31.23)
>DroEre_CAF1 54176 101 + 1
UAUUAUUUAUUCCAGACGAUCCGGCAGCCUGGCGGGAAAUAUUGAUAGUCGAUAGGCGAUGUUCCCUCGCAUAAAAAGAGUUGCCAGGUUAUUCUGUUUAA
............((((.((((.((((((((.(((((.(((((((.((.....))..))))))).)).)))......)).)))))).))))..))))..... ( -28.10)
>DroYak_CAF1 55171 101 + 1
UGUUAUUUAUUCUAGACGAUCCGGCAGCCUGGCGGGAAAUAUUGAUAGUCGAUAGGUGAUGUUCCAUUGCAUAAAGAGGGUUGCCAGGUUAUUCUGUUUAA
............(((((((.((((((((((.((.((((.(((((.....))))).......))))...)).......)))))))).))....)).))))). ( -25.10)
>consensus
UUUUAUUUAUUCUAGACGAUCCGGCAGCCUGGCGGGAAAUAUUGAUAGUCGAUAGGCGAUGGACCAUCGCA_AAAAAGGGCUGCCAGGUUAUUCUGUUUAA
............((((.((((.((((((((.........(((((.....))))).((((((...)))))).......)))))))).))))..))))..... (-24.08 = -23.80 +  -0.28)

alignment

secondary structure

dotplot

Window 5

Location	20,404,317 – 20,404,418
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	89.59
Mean single sequence MFE	-22.74
Consensus MFE	-16.86
Energy contribution	-17.50
Covariance contribution	0.64
Combinations/Pair	1.17
Mean z-score	-1.86
Structure conservation index	0.74
SVM decision value	0.37
SVM RNA-class probability	0.708827
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20404317 101 - 22407834
UUUAACAGAAUAAUCUGGCAGCCCUUUUUGUGCGAUGACCCAUCGCCUAUCGACUAUCAAUAUUUCCCGCCAGGCUGCCGGAUCGUUCAGAAUAAAUAAAA
.......(((..(((((((((((........((((((...)))))).....(.....)..............)))))))))))..)))............. ( -31.30)
>DroSec_CAF1 55467 100 - 1
UUAAGCAGAAUAACCUGGCAGCCCUUUUU-UUCGAUAGUCCAUCGUCUAUCGACUAUCAAUAUUUCCCGCCAGGCUGCCGGAUCGUCUAGAAUAAAUAAAA
......(((.....(((((((((......-.(((((((.(....).))))))).((....))..........)))))))))....)))............. ( -24.10)
>DroSim_CAF1 56241 100 - 1
UUAAACAGAAUAACCUGGCAGCCCUUUUU-UUCGAUAGUCCAUCGUCUAUCGACUAUCAAUAUUUCCCGCCAGGCUGCCGGAUCGUCUAGAUUAAAUAAAA
((((.((((.....(((((((((......-.(((((((.(....).))))))).((....))..........)))))))))....))).).))))...... ( -24.20)
>DroEre_CAF1 54176 101 - 1
UUAAACAGAAUAACCUGGCAACUCUUUUUAUGCGAGGGAACAUCGCCUAUCGACUAUCAAUAUUUCCCGCCAGGCUGCCGGAUCGUCUGGAAUAAAUAAUA
.....((((.....((((((.(((((.......)))))......((((..((...............))..))))))))))....))))............ ( -22.16)
>DroYak_CAF1 55171 101 - 1
UUAAACAGAAUAACCUGGCAACCCUCUUUAUGCAAUGGAACAUCACCUAUCGACUAUCAAUAUUUCCCGCCAGGCUGCCGGAUCGUCUAGAAUAAAUAACA
......(((.....((((((..((............)).......(((..((...............))..))).))))))....)))............. ( -11.96)
>consensus
UUAAACAGAAUAACCUGGCAGCCCUUUUU_UGCGAUGGACCAUCGCCUAUCGACUAUCAAUAUUUCCCGCCAGGCUGCCGGAUCGUCUAGAAUAAAUAAAA
......(((.....(((((((((..........(((((........)))))(.....)..............)))))))))....)))............. (-16.86 = -17.50 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:08 2006