Locus 1869

Sequence ID	2R_DroMel_CAF1
Location	7,027,964 – 7,028,056
Length	92
Max. P	0.539989

overview

Window 0

Location	7,027,964 – 7,028,056
Length	92
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	76.33
Mean single sequence MFE	-21.62
Consensus MFE	-16.08
Energy contribution	-15.75
Covariance contribution	-0.33
Combinations/Pair	1.19
Mean z-score	-0.80
Structure conservation index	0.74
SVM decision value	0.01
SVM RNA-class probability	0.539989
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7027964 92 + 20766785
UUCAACUCCCCUGACAGUCG-GAUAGCUGUCAAAACA-GAAAUUGAUCGCGUCUGGGAUUGGGACUUC---GGGAAACCGAGCACAGAGCCACACAA
.....(((((((((((((..-....))))))).....-......((((.(....).)))))))..(((---((....)))))....)))........ ( -26.00)
>DroVir_CAF1 71906 83 + 1
UUCAAGUCCCCUGACAGUGG----AACUGUCAAAACA-GAAAUUGAUUGCGUCUGGGAAUGGGACUCAAAGGGGGACU--------G-UGCAUGCCA
....(((((((((((((...----..)))))......-........(((.((((.......)))).))).))))))))--------.-......... ( -26.60)
>DroSec_CAF1 56309 90 + 1
UUCAACUCCCCUGACAGUCG-GAUAGCUGUCAAAACA-GAAAUUGAUCGCGUCUGGGAUUGGGACUUC---G-GACUUCG-GCACAGAGCCACACAA
..(((.((((..(((.((((-(....((((....)))-)...)))))...))).)))))))((.((..---(-..(....-)..)..))))...... ( -22.10)
>DroEre_CAF1 58484 70 + 1
UUCAACUCCCCUGACAGCCG-GAUAGCUGUCAAAACA-GAAAUUGAUCGCGUCUGGGAUUGGGA-------------------------CCGCACAA
......((((.(((((((..-....))))))).....-......((((.(....).))))))))-------------------------........ ( -18.00)
>DroYak_CAF1 57658 79 + 1
UUCAACUCCCCUGACAGUCG-CAUAGCUGUCAAAACA-GAAAUUGAUCGCGUCUGGGAUUGGGACUCC---GGGA-------------ACCACACAA
......((((....(((((.-((..((.(((((....-....))))).))...)).)))))((...))---))))-------------......... ( -19.20)
>DroAna_CAF1 56010 82 + 1
UUCAACUCCCCUGACAGCCGGGAUAGCUGUCAAAACAUGAAAUUGAUCGCGUCUGGGAUUGGGACCU-----GCA-ACC---------CCUCUACUA
......((((.(((((((.......)))))))..((.(((......))).))..))))..(((....-----...-.))---------)........ ( -17.80)
>consensus
UUCAACUCCCCUGACAGUCG_GAUAGCUGUCAAAACA_GAAAUUGAUCGCGUCUGGGAUUGGGACUUC___GGGA_____________GCCACACAA
......((((.(((((((.......)))))))............((((.(....).))))))))................................. (-16.08 = -15.75 +  -0.33)

alignment

secondary structure

dotplot

Window 1

Location	7,027,964 – 7,028,056
Length	92
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	76.33
Mean single sequence MFE	-24.65
Consensus MFE	-15.70
Energy contribution	-16.03
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.18
Structure conservation index	0.64
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7027964 92 - 20766785
UUGUGUGGCUCUGUGCUCGGUUUCCC---GAAGUCCCAAUCCCAGACGCGAUCAAUUUC-UGUUUUGACAGCUAUC-CGACUGUCAGGGGAGUUGAA
..((.(((....(..(((((....))---).))..).....))).))....((((((((-(...(((((((.....-...)))))))))))))))). ( -26.20)
>DroVir_CAF1 71906 83 - 1
UGGCAUGCA-C--------AGUCCCCCUUUGAGUCCCAUUCCCAGACGCAAUCAAUUUC-UGUUUUGACAGUU----CCACUGUCAGGGGACUUGAA
.......((-.--------(((((((..(((.(((.........))).)))........-.....((((((..----...))))))))))))))).. ( -23.80)
>DroSec_CAF1 56309 90 - 1
UUGUGUGGCUCUGUGC-CGAAGUC-C---GAAGUCCCAAUCCCAGACGCGAUCAAUUUC-UGUUUUGACAGCUAUC-CGACUGUCAGGGGAGUUGAA
(((((((((.....))-)......-.---((........))....))))))((((((((-(...(((((((.....-...)))))))))))))))). ( -23.60)
>DroEre_CAF1 58484 70 - 1
UUGUGCGG-------------------------UCCCAAUCCCAGACGCGAUCAAUUUC-UGUUUUGACAGCUAUC-CGGCUGUCAGGGGAGUUGAA
((((((((-------------------------........)).).)))))((((((((-(...(((((((((...-.)))))))))))))))))). ( -24.00)
>DroYak_CAF1 57658 79 - 1
UUGUGUGGU-------------UCCC---GGAGUCCCAAUCCCAGACGCGAUCAAUUUC-UGUUUUGACAGCUAUG-CGACUGUCAGGGGAGUUGAA
((((((((.-------------..))---(((.......)))...))))))((((((((-(...(((((((.....-...)))))))))))))))). ( -21.90)
>DroAna_CAF1 56010 82 - 1
UAGUAGAGG---------GGU-UGC-----AGGUCCCAAUCCCAGACGCGAUCAAUUUCAUGUUUUGACAGCUAUCCCGGCUGUCAGGGGAGUUGAA
..((...((---------(((-((.-----......)))))))..))....((((((((....((((((((((.....)))))))))))))))))). ( -28.40)
>consensus
UUGUGUGGC_____________UCCC___GAAGUCCCAAUCCCAGACGCGAUCAAUUUC_UGUUUUGACAGCUAUC_CGACUGUCAGGGGAGUUGAA
....................................(((((((.((((.((......)).))))(((((((.........))))))))))).))).. (-15.70 = -16.03 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:11 2006