Locus 7841

Sequence ID	X_DroMel_CAF1
Location	19,540,682 – 19,540,783
Length	101
Max. P	0.989804

overview

Window 6

Location	19,540,682 – 19,540,783
Length	101
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	68.55
Mean single sequence MFE	-28.90
Consensus MFE	-12.10
Energy contribution	-13.48
Covariance contribution	1.38
Combinations/Pair	1.15
Mean z-score	-2.36
Structure conservation index	0.42
SVM decision value	2.18
SVM RNA-class probability	0.989804
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19540682 101 + 22224390
UUCUUUGGCACUGUAU-CCUCUGCCGCCAUCCGGUGAGAGGAGUGGCGGUAGGGAAGGGUUAUAUAUAUAUAUAUGUAUGUAGGUAGAAGUCUUAAGUAGAU
..(((.((.(((.(((-(((((((((((((((.......))).)))))))))))......(((((((((....)))))))))))))..))))).)))..... ( -34.70)
>DroSec_CAF1 6263 85 + 1
UUCUUUGGCACUGUAU-CCUCUGCCGCCAUCCGGUC--AGGAGUGGCGGUAGGGAAGGGUUACA--------------UGUAGGUAGAAGUCUUAAGUAGAU
((((...(((.(((((-(((((((((((((((....--.))).)))))))))...)))).))))--------------)))....))))((((.....)))) ( -32.30)
>DroEre_CAF1 6184 80 + 1
UUCUUUGGCACUGUAU-CCUCU-CCGCCAUCCGGUC--AGGAGUGGUGGUAGGGAGGGUUUAAAG------------------GUAGAAGUCUUAAGUAGAU
.(((((((.(((...(-(((..-(((((((((....--.))).))))))..)))).)))))))))------------------).....((((.....)))) ( -26.20)
>DroYak_CAF1 6199 93 + 1
UUCUUUGGCACUGUAUUCCUCU-CCGCCAUCCGGUC--GGGAGUGGUGGUAGGGAGGGUUUAUAGAAUA------GUAGUUCUAUAGAAGUCUUAAGUAGAU
..(((.(((......(((((..-(((((((((....--.))).))))))..)))))..((((((((((.------...)))))))))).)))..)))..... ( -30.70)
>DroAna_CAF1 6860 80 + 1
GUCUUUGGCACUUUGU-UCUUCCCC--------------GGACUG------GGGGAGGUAUACACGUAUAAGUAUGUAUUCAGGUGGAGGU-UUAAGUAGAU
..(((..((.(((..(-((((((((--------------.....)------))))))(((((.((......)).)))))...))..)))))-..)))..... ( -20.60)
>consensus
UUCUUUGGCACUGUAU_CCUCU_CCGCCAUCCGGUC__AGGAGUGGCGGUAGGGAAGGUUUACAG__________GUAUGUAGGUAGAAGUCUUAAGUAGAU
..................((((.(((((((((.......))).)))))).))))................................................ (-12.10 = -13.48 +   1.38)

alignment

secondary structure

dotplot

Window 7

Location	19,540,682 – 19,540,783
Length	101
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	68.55
Mean single sequence MFE	-18.28
Consensus MFE	-3.73
Energy contribution	-5.54
Covariance contribution	1.81
Combinations/Pair	1.08
Mean z-score	-1.98
Structure conservation index	0.20
SVM decision value	0.33
SVM RNA-class probability	0.692081
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19540682 101 - 22224390
AUCUACUUAAGACUUCUACCUACAUACAUAUAUAUAUAUAUAACCCUUCCCUACCGCCACUCCUCUCACCGGAUGGCGGCAGAGG-AUACAGUGCCAAAGAA
..............(((...(((.....(((((....))))).....(((((.((((((.(((.......))))))))).)).))-)....)))....))). ( -21.20)
>DroSec_CAF1 6263 85 - 1
AUCUACUUAAGACUUCUACCUACA--------------UGUAACCCUUCCCUACCGCCACUCCU--GACCGGAUGGCGGCAGAGG-AUACAGUGCCAAAGAA
..............(((...(((.--------------((((.....(((((.((((((.(((.--....))))))))).)).))-))))))))....))). ( -22.50)
>DroEre_CAF1 6184 80 - 1
AUCUACUUAAGACUUCUAC------------------CUUUAAACCCUCCCUACCACCACUCCU--GACCGGAUGGCGG-AGAGG-AUACAGUGCCAAAGAA
...................------------------((((..((..(((((.((.(((.(((.--....)))))).))-)).))-)....))...)))).. ( -15.00)
>DroYak_CAF1 6199 93 - 1
AUCUACUUAAGACUUCUAUAGAACUAC------UAUUCUAUAAACCCUCCCUACCACCACUCCC--GACCGGAUGGCGG-AGAGGAAUACAGUGCCAAAGAA
.(((............(((((((....------..))))))).....(((((.((.(((.(((.--....)))))).))-)).)))............))). ( -18.90)
>DroAna_CAF1 6860 80 - 1
AUCUACUUAA-ACCUCCACCUGAAUACAUACUUAUACGUGUAUACCUCCCC------CAGUCC--------------GGGGAAGA-ACAAAGUGCCAAAGAC
...(((((..-............((((((........)))))).(.(((((------......--------------))))).).-...)))))........ ( -13.80)
>consensus
AUCUACUUAAGACUUCUACCUAAAUAC__________CUAUAAACCUUCCCUACCACCACUCCU__GACCGGAUGGCGG_AGAGG_AUACAGUGCCAAAGAA
.............................................((((....((.(((.(((.......)))))).))..))))................. ( -3.73 =  -5.54 +   1.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:45 2006