Locus 5917

Sequence ID	3L_DroMel_CAF1
Location	15,894,216 – 15,894,331
Length	115
Max. P	0.999969

overview

Window 6

Location	15,894,216 – 15,894,331
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.87
Mean single sequence MFE	-32.54
Consensus MFE	-28.50
Energy contribution	-28.34
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.88
SVM decision value	2.03
SVM RNA-class probability	0.986093
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15894216 115 + 23771897
-----GGUAUCGUAUAAUCGAGUGCAUCGAAGCCAAAACCGCAAACAGCGUUCUUAAAUAUCGGGGCAUGCCCCAUUUAAGUGUUUGCAAACGAUAUGGCAAAGGUCUCAGCUUAAACAA
-----.(((((((....((((.....))))..........(((((((.....(((((((...((((....))))))))))))))))))..)))))))(((....)))............. ( -30.90)
>DroSec_CAF1 2732 115 + 1
-----GGUAUCGUAUAAUCGAGUGCAUCGAAGCCAAAACCGCAAACAGCGUUCUUAAAUAUCGGGGCAUGCCCCAUUUAAGUGUUUGCAAACGAUAUGGCAAAGGUCUCGGCUUAAACAA
-----.(((((((....((((.....))))..........(((((((.....(((((((...((((....))))))))))))))))))..))))))).....((((....))))...... ( -31.70)
>DroSim_CAF1 4941 115 + 1
-----GGUAUCGUAUAAUCGAGUGCAUCGAAGCCAAAACCGCAAACAGCGUUCUUAAAUAUCGGGGCAUGCCCCAUUUAAGUGUUUGCAAACGAUAUGGCAAAGGUCUCAGCUUAAACAA
-----.(((((((....((((.....))))..........(((((((.....(((((((...((((....))))))))))))))))))..)))))))(((....)))............. ( -30.90)
>DroEre_CAF1 2687 120 + 1
GGUAGGGUAUCGUAUUAUCGAGUGCAGCCAAGCCAAAACCGCAAACAACGUUCUUAAAUAUCGGGGCAUGCCCCAUUUAAGUGUUUGCAAACGAUAUGGCAAAGGUCUCGGCUUAACCAA
(((..(((...(((((....))))).)))(((((......(((((((.....(((((((...((((....)))))))))))))))))).........(((....)))..))))).))).. ( -35.60)
>DroYak_CAF1 2774 115 + 1
-----GGUAUCGUAUUAUCGAGAGCAGCGAAGCCAAAACCGCAAACAGCGUUCUUAAAUAUCGGGGCAUGCCCCAUUUAAGUGUUUGCAAAUGAUAUGGCAAAGGUCUCGGCUUAACCAA
-----(((.(((......)))((((..(((..((......(((((((.....(((((((...((((....))))))))))))))))))...((......))..))..))))))).))).. ( -33.60)
>consensus
_____GGUAUCGUAUAAUCGAGUGCAUCGAAGCCAAAACCGCAAACAGCGUUCUUAAAUAUCGGGGCAUGCCCCAUUUAAGUGUUUGCAAACGAUAUGGCAAAGGUCUCGGCUUAAACAA
......(((((((........(.((......)))......(((((((.....(((((((...((((....))))))))))))))))))..))))))).....((((....))))...... (-28.50 = -28.34 +  -0.16)

alignment

secondary structure

dotplot

Window 7

Location	15,894,216 – 15,894,331
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.87
Mean single sequence MFE	-36.06
Consensus MFE	-35.30
Energy contribution	-34.42
Covariance contribution	-0.88
Combinations/Pair	1.08
Mean z-score	-2.58
Structure conservation index	0.98
SVM decision value	5.02
SVM RNA-class probability	0.999969
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15894216 115 - 23771897
UUGUUUAAGCUGAGACCUUUGCCAUAUCGUUUGCAAACACUUAAAUGGGGCAUGCCCCGAUAUUUAAGAACGCUGUUUGCGGUUUUGGCUUCGAUGCACUCGAUUAUACGAUACC-----
((((.(((((..(((((...((......))..((((((((((((((((((....))))...))))))).....))))))))))))..)).((((.....))))))).))))....----- ( -33.30)
>DroSec_CAF1 2732 115 - 1
UUGUUUAAGCCGAGACCUUUGCCAUAUCGUUUGCAAACACUUAAAUGGGGCAUGCCCCGAUAUUUAAGAACGCUGUUUGCGGUUUUGGCUUCGAUGCACUCGAUUAUACGAUACC-----
((((.((((((((((((...((......))..((((((((((((((((((....))))...))))))).....)))))))))))))))).((((.....))))))).))))....----- ( -35.80)
>DroSim_CAF1 4941 115 - 1
UUGUUUAAGCUGAGACCUUUGCCAUAUCGUUUGCAAACACUUAAAUGGGGCAUGCCCCGAUAUUUAAGAACGCUGUUUGCGGUUUUGGCUUCGAUGCACUCGAUUAUACGAUACC-----
((((.(((((..(((((...((......))..((((((((((((((((((....))))...))))))).....))))))))))))..)).((((.....))))))).))))....----- ( -33.30)
>DroEre_CAF1 2687 120 - 1
UUGGUUAAGCCGAGACCUUUGCCAUAUCGUUUGCAAACACUUAAAUGGGGCAUGCCCCGAUAUUUAAGAACGUUGUUUGCGGUUUUGGCUUGGCUGCACUCGAUAAUACGAUACCCUACC
..(((((((((((((((...((......))..((((((((((((((((((....))))...))))))).....))))))))))))))))))))))....(((......)))......... ( -40.70)
>DroYak_CAF1 2774 115 - 1
UUGGUUAAGCCGAGACCUUUGCCAUAUCAUUUGCAAACACUUAAAUGGGGCAUGCCCCGAUAUUUAAGAACGCUGUUUGCGGUUUUGGCUUCGCUGCUCUCGAUAAUACGAUACC-----
..(((.(((((((((((..((......))...((((((((((((((((((....))))...))))))).....)))))))))))))))))).)))....(((......)))....----- ( -37.20)
>consensus
UUGUUUAAGCCGAGACCUUUGCCAUAUCGUUUGCAAACACUUAAAUGGGGCAUGCCCCGAUAUUUAAGAACGCUGUUUGCGGUUUUGGCUUCGAUGCACUCGAUUAUACGAUACC_____
..((..(((((((((((..((......))...((((((((((((((((((....))))...))))))).....))))))))))))))))))..))....(((......)))......... (-35.30 = -34.42 +  -0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:49 2006