Locus 2989

Sequence ID	3R_DroMel_CAF1
Location	8,004,860 – 8,004,989
Length	129
Max. P	0.688398

overview

Window 8

Location	8,004,860 – 8,004,971
Length	111
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	81.50
Mean single sequence MFE	-36.52
Consensus MFE	-25.36
Energy contribution	-26.33
Covariance contribution	0.97
Combinations/Pair	1.07
Mean z-score	-1.65
Structure conservation index	0.69
SVM decision value	0.32
SVM RNA-class probability	0.688398
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8004860 111 - 27905053
UUAUGACAGACUCAAAGUAGCAUUGUGCGUGCGGUGAUGUGAGACCGCGGCUGACUGCAUUACUCAUACGCACCGUUGCACAAUUAACUUGGUUAGCCC--G-UAAUGCCGUC--U
.......((((...((((...((((((((.((((((.((((((...((((....))))....))))))..))))))))))))))..))))(((......--.-....))))))--) ( -35.80)
>DroPse_CAF1 88700 109 - 1
AGAGG----ACUG---CAGCCAUUGUGCGUGCGGUGGUUUCUGACCACAGCUCACUGCAUUACUCAUACGCACCGUUGCACAAUUAACUCACUUAGGCCCCGAAAACGCCACCGAU
.(((.----..((---((((....(((((((.(((((((...)))))).((.....))......).))))))).)))))).......))).....(((.........)))...... ( -30.10)
>DroSim_CAF1 71343 111 - 1
UUAUGGCAGACUCAGAGUGGCAUUGUGCGUGCGGUGAUGUGAGACCGCGGCUGACUGCAUUACUCAUACGCACCGUUGCACAAUUAACUUGGUUAGCUC--G-UAAUGCCAUC--U
..((((((......((((...((((((((.((((((.((((((...((((....))))....))))))..))))))))))))))((((...))))))))--.-...)))))).--. ( -40.50)
>DroEre_CAF1 73874 111 - 1
UUAUGGCAGACUCUGAGUGGCAUUGUGCGUGCGGUGAUGUGUGACCGCGGCUGACUGCAUUACUCAUACGCACCGUUGCACAAUUAACUUGGUUAGCCC--A-UAAUGCCGAC--U
(((((((.((((..((((...((((((((.((((((.(((((((..((((....)))).....)))))))))))))))))))))..)))))))).).))--)-))).......--. ( -41.70)
>DroYak_CAF1 75179 111 - 1
UUAUGGCAGACUCGGAGUGGCAUUGUGCGUGCGGUGAUGUGUGACCGCGGCUGACUGCAUUACUCAUACGCACCGUUGCACAAUUAACGUAGUUUGCCC--G-UAAUGCCGUC--U
((((((((((((((...((..((((((((.((((((.(((((((..((((....)))).....))))))))))))))))))))))).)).)))))).))--)-))).......--. ( -42.90)
>DroPer_CAF1 86942 109 - 1
AGAGG----ACUG---CAGCCAUUGUGCGUGCGGUGGUUUCUGACCACAGCUGACUGCAUUACUCAUACGCACCGUUGCACAAUUAACUCACUUAGGACCCGAAAACGCCACCGUU
.(((.----..((---((((....(((((((.(((((((...)))))).((.....))......).))))))).)))))).......))).....((...((....))...))... ( -28.10)
>consensus
UUAUGGCAGACUC_GAGUGGCAUUGUGCGUGCGGUGAUGUGUGACCGCGGCUGACUGCAUUACUCAUACGCACCGUUGCACAAUUAACUUAGUUAGCCC__G_UAAUGCCAUC__U
..................(((((((((((.((((((.(((((((.....((.....)).....)))))))))))))))))))))(((.....)))))).................. (-25.36 = -26.33 +   0.97)

alignment

secondary structure

dotplot

Window 9

Location	8,004,895 – 8,004,989
Length	94
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	68.91
Mean single sequence MFE	-26.88
Consensus MFE	-16.02
Energy contribution	-16.13
Covariance contribution	0.11
Combinations/Pair	1.08
Mean z-score	-1.15
Structure conservation index	0.60
SVM decision value	0.01
SVM RNA-class probability	0.537255
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8004895 94 + 27905053
ACGGUGCGUAUGAGUAAUGCAGUCAGCCGCGGUCUCACAUCACCGCACGCACAAUGCUACUUUGAGUCUGUCAUAACGCC---------------CGCCUGCUCCUCCA
.(((.(((((((......((((.(....(((((........)))))..((.....))........).))))))).)))))---------------))............ ( -23.50)
>DroPse_CAF1 88740 82 + 1
ACGGUGCGUAUGAGUAAUGCAGUGAGCUGUGGUCAGAAACCACCGCACGCACAAUGGCUG---CAGU----CCUCU-------------------CGCUCGGCACUCC-
.(((.(((...(((...((((((.(((((((((........)))))).))....).))))---))..----.))).-------------------)))))).......- ( -27.60)
>DroSec_CAF1 71189 94 + 1
ACGGUGCGUAUGAGUAAUGCAGUCAGCCGCGGUCUCACAUCACCGCACGCACAAUGCCACUCUGAGUCUGCCAUAACGUU---------------CGCUUGCUCCUCCU
..((.(((..(((((.((((((((((..(((((........)))))..((.....))....))))..))).))).))..)---------------))..))).)).... ( -24.20)
>DroYak_CAF1 75214 109 + 1
ACGGUGCGUAUGAGUAAUGCAGUCAGCCGCGGUCACACAUCACCGCACGCACAAUGCCACUCCGAGUCUGCCAUAACUCCAACAUUCCGCCCCUAUGCCUCCUCUUACU
..((.(((((.((((...(((....((.(((((........)))))..))....))).)))).((((........))))..............)))))..))....... ( -23.80)
>DroAna_CAF1 79124 78 + 1
ACGGGGCGUAUGAGCAAUGCAGUCAGCUGCGGUCACACGUCACCGCACGCAGUGUGCCACGCCUUUU--------A-----------------------CGCUCCUCCA
..((((((((.((((...((((....))))((.(((((((........)).)))))))..).))).)--------)-----------------------)))))).... ( -31.40)
>DroPer_CAF1 86982 82 + 1
ACGGUGCGUAUGAGUAAUGCAGUCAGCUGUGGUCAGAAACCACCGCACGCACAAUGGCUG---CAGU----CCUCU-------------------CGCUCGGCACUCC-
.(((.(((...(((...((((((((((((((((........)))))).))....))))))---))..----.))).-------------------)))))).......- ( -30.80)
>consensus
ACGGUGCGUAUGAGUAAUGCAGUCAGCCGCGGUCACACAUCACCGCACGCACAAUGCCACUC_GAGU____CAUAA___________________CGCUCGCUCCUCC_
...((((((.........((.....)).(((((........)))))))))))......................................................... (-16.02 = -16.13 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:32 2006