Locus 3579

Sequence ID	3L_DroMel_CAF1
Location	10,533,471 – 10,533,601
Length	130
Max. P	0.834498

overview

Window 9

Location	10,533,471 – 10,533,568
Length	97
Sequences	4
Columns	104
Reading direction	reverse
Mean pairwise identity	86.30
Mean single sequence MFE	-29.20
Consensus MFE	-20.90
Energy contribution	-21.46
Covariance contribution	0.56
Combinations/Pair	1.05
Mean z-score	-1.59
Structure conservation index	0.72
SVM decision value	0.17
SVM RNA-class probability	0.617049
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10533471 97 - 23771897
UGGCUCUGGCCACU-------GGUCACUUGGCCACUGGACUACAUAGCAUUGGAUACUACCAACCAAACCCACCACCUGCUGGUUGGUCAUUUAGCCUAAGCGC
..(((..(((((.(-------((((....))))).))(((((..(((((((((......))))..............)))))..))))).....)))..))).. ( -28.73)
>DroSec_CAF1 413074 102 - 1
UGGCUCUGGCCACUG--CAGUGGUCACUUGGCCACUGGACUACAUAGCACUGGAUACUCGCAACCAAACCCACCACCUGCUGAUUGGUCAUUUAGCCUAAGCGC
..(((..(((.....--((((((((....))))))))(((((..(((((.(((...................)))..)))))..))))).....)))..))).. ( -33.31)
>DroSim_CAF1 421460 97 - 1
UGGCUCUGGCCACU-------GGUCACUUGGCCACUGGACUCCAUAGCACUGGAUACUAACAACCAAACCCACCACCUGCUGGUUGGUCAUUUAGCCUAAGCGC
..(((..(((((.(-------((((....))))).))(((((((......))))......((((((..............))))))))).....)))..))).. ( -29.04)
>DroYak_CAF1 422219 96 - 1
UGGUACUGGCCACUGGCCACUGGUCACUCGGCCACUGGACAACAUAGCACUAGAUACUCC-----A---CCACCACCUGCUGGUUGGUCAUUUAGCCUAAGCGC
((((..(((((..(((((...)))))...))))).((((.....((....)).....)))-----)---..))))...(((((((((....))))))..))).. ( -25.70)
>consensus
UGGCUCUGGCCACU_______GGUCACUUGGCCACUGGACUACAUAGCACUGGAUACUACCAACCAAACCCACCACCUGCUGGUUGGUCAUUUAGCCUAAGCGC
..(((..(((...........((((....))))....((((...(((((.(((...................)))..)))))...)))).....)))..))).. (-20.90 = -21.46 +   0.56)

alignment

secondary structure

dotplot

Window 0

Location	10,533,510 – 10,533,601
Length	91
Sequences	4
Columns	101
Reading direction	reverse
Mean pairwise identity	82.71
Mean single sequence MFE	-29.05
Consensus MFE	-21.51
Energy contribution	-22.82
Covariance contribution	1.31
Combinations/Pair	1.04
Mean z-score	-1.90
Structure conservation index	0.74
SVM decision value	0.73
SVM RNA-class probability	0.834498
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10533510 91 - 23771897
AUUGUUGUUGCU---ACUGUCGCUACAGUGCCAUCGUGGCUCUGGCCACU-------GGUCACUUGGCCACUGGACUACAUAGCAUUGGAUACUACCAACC
........((((---(.(((.(...(((.(((.....))).))).(((.(-------((((....))))).))).).))))))))((((......)))).. ( -28.10)
>DroSec_CAF1 413113 97 - 1
AUUGUUGUUGCUACUACUGUCGCUAC--UGCCAUCGUGGCUCUGGCCACUG--CAGUGGUCACUUGGCCACUGGACUACAUAGCACUGGAUACUCGCAACC
...((((((((((.....(((((((.--.(((.....)))..)))).....--((((((((....)))))))))))....)))))..........))))). ( -33.40)
>DroSim_CAF1 421499 92 - 1
AUUGUUGUUGCUACUACUGUCGCUAC--UGCCAUCGUGGCUCUGGCCACU-------GGUCACUUGGCCACUGGACUCCAUAGCACUGGAUACUAACAACC
...(((((((........(((((((.--.(((.....)))..))))((.(-------((((....))))).)))))((((......))))...))))))). ( -28.60)
>DroYak_CAF1 422255 93 - 1
AUUGUUGUUGCC---CCUGUCGCUACAUCGCCAUCGUGGUACUGGCCACUGGCCACUGGUCACUCGGCCACUGGACAACAUAGCACUAGAUACUCC-----
..(((((((...---..............((((..(((((....)))))))))((.(((((....))))).)))))))))................----- ( -26.10)
>consensus
AUUGUUGUUGCU___ACUGUCGCUAC__UGCCAUCGUGGCUCUGGCCACU_______GGUCACUUGGCCACUGGACUACAUAGCACUGGAUACUACCAACC
..((((..(((((.....(((((......))....((((((.((((((........))))))...))))))..)))....)))))...))))......... (-21.51 = -22.82 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:25 2006