Locus 6492

Sequence ID	3L_DroMel_CAF1
Location	17,257,607 – 17,257,797
Length	190
Max. P	0.991596

overview

Window 2

Location	17,257,607 – 17,257,726
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.50
Mean single sequence MFE	-36.04
Consensus MFE	-33.86
Energy contribution	-34.06
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.62
Structure conservation index	0.94
SVM decision value	1.34
SVM RNA-class probability	0.943984
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17257607 119 + 23771897
GCGAUGCCCUAAGCCCACAUCAAACAAAAAGCG-GAAAAAUCGGAGCCGGGGACGGAAACUGUCGCCAGGGGGCGCCACAUCAAAUGGUCAAUUAAAUUUCUGGGCAUUUCAUCAAUGUC
(.(((((((...((((...............(.-((....)).)..((((.((((....).))).)).))))))((((.......)))).............))))))).)......... ( -33.90)
>DroSec_CAF1 141318 120 + 1
GCGAUGCCCUAAGCCCACAUCAAACAAAAAGCGGGAAAAAUCGGAGCUGGGGACGGAAACUGUCGCCAGGGGGCGCCACAUCAAAUGGUCAAUUAAAUUUCUGGGCAUUUCAUCAAUGUC
(.(((((((...((((...............(((......)))...((((.((((....).))).)))).))))((((.......)))).............))))))).)......... ( -37.30)
>DroSim_CAF1 136143 120 + 1
GCGAUGCCCUAAGCCCACAUCAAACAAAAAGCGGGAAAAAUCGGAGCUGGGGACGGAAACUGUCGCCAGGGGGCGCCACAUCAAAUGGUCAAUUAAAUUUCUGGGCAUUUCAUCAAUGUC
(.(((((((...((((...............(((......)))...((((.((((....).))).)))).))))((((.......)))).............))))))).)......... ( -37.30)
>DroEre_CAF1 144404 118 + 1
GCGAUGCCCUAAGCCCACAUCAAACAAAAAGCG-GAA-AAUCGGAGCUGGGGACGGGAACUGUCGCCAGGGGGCGCCACAUCAAAUGGUCAAUUAAAUUUCUGGGCAUUUCAUCAAUGUC
(.(((((((...((((...............((-...-...))...((((.(((((...))))).)))).))))((((.......)))).............))))))).)......... ( -35.50)
>DroYak_CAF1 148502 119 + 1
GCGAUGCCCUAAGCCCACAUCAAACAAAAAGCG-GAAAAAUCGGAGCUGGGGACGGAAACUGUCGCCAGGGGGCGCCACAUCAAAUGGUCAAUUAAAUUUCUGGGCAUUUCAUCAAUGUC
(.(((((((...((((...............(.-((....)).)..((((.((((....).))).)))).))))((((.......)))).............))))))).)......... ( -36.20)
>consensus
GCGAUGCCCUAAGCCCACAUCAAACAAAAAGCG_GAAAAAUCGGAGCUGGGGACGGAAACUGUCGCCAGGGGGCGCCACAUCAAAUGGUCAAUUAAAUUUCUGGGCAUUUCAUCAAUGUC
(.(((((((...((((..................((....))....((((.((((....).))).)))).))))((((.......)))).............))))))).)......... (-33.86 = -34.06 +   0.20)

alignment

secondary structure

dotplot

Window 3

Location	17,257,686 – 17,257,797
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.92
Mean single sequence MFE	-21.58
Consensus MFE	-20.82
Energy contribution	-20.82
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.61
Structure conservation index	0.96
SVM decision value	2.28
SVM RNA-class probability	0.991596
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17257686 111 - 23771897
---------ACGUACCGCAACAAUAUAACAAAUUGUUCGUUUAAAUAAAAAAUGCGUUUCCCAGAAAUUCUGACAAUGGCGACAUUGAUGAAAUGCCCAGAAAUUUAAUUGACCAUUUGA
---------...................(((((.(((...((((((.......(((((((.(((.....))).(((((....)))))..)))))))......))))))..))).))))). ( -21.92)
>DroSec_CAF1 141398 111 - 1
---------ACGUACCGCAACAAUAUAACAAAUUGUUCGUAUAAAUAAAAAAUGCGUUUCCCAGAAAUUCUGACAAUGGCGACAUUGAUGAAAUGCCCAGAAAUUUAAUUGACCAUUUGA
---------...................(((((.(((.((.(((((.......(((((((.(((.....))).(((((....)))))..)))))))......))))))).))).))))). ( -20.82)
>DroSim_CAF1 136223 111 - 1
---------ACGUACCGCAACAAUAUAACAAAUUGUUCGUAUAAAUAAAAAAUGCGUUUCCCAGAAAUUCUGACAAUGGCGACAUUGAUGAAAUGCCCAGAAAUUUAAUUGACCAUUUGA
---------...................(((((.(((.((.(((((.......(((((((.(((.....))).(((((....)))))..)))))))......))))))).))).))))). ( -20.82)
>DroEre_CAF1 144482 120 - 1
CCGCAACAUAGCUGCCGCAACAAUAUAACAAAUUGUUCGUAUAAAUAAGAAAUGCGUUUCCCAGAAAUUCUGACAAUGGCGACAUUGAUGAAAUGCCCAGAAAUUUAAUUGACCAUUUGA
..(((.......))).............(((((.(((.((.(((((.......(((((((.(((.....))).(((((....)))))..)))))))......))))))).))).))))). ( -22.02)
>DroYak_CAF1 148581 120 - 1
CUACAAAAUAGCUGCCGCAACAAUAUAACAAAUUGUUCGUAUAAAUAAAAAAUGCGUUUCCCAGAAAUUCUGACAAUGGCGACAUUGAUGAAAUGCCCAGAAAUUUAAUUGACCAUUUGA
.....((((..(((.((.((((((.......))))))))..............(((((((.(((.....))).(((((....)))))..))))))).)))..)))).............. ( -22.30)
>consensus
_________ACGUACCGCAACAAUAUAACAAAUUGUUCGUAUAAAUAAAAAAUGCGUUUCCCAGAAAUUCUGACAAUGGCGACAUUGAUGAAAUGCCCAGAAAUUUAAUUGACCAUUUGA
............................(((((.(((.((.(((((.......(((((((.(((.....))).(((((....)))))..)))))))......))))))).))).))))). (-20.82 = -20.82 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:04 2006