Locus 1801

Sequence ID	3R_DroMel_CAF1
Location	5,150,968 – 5,151,125
Length	157
Max. P	0.670040

overview

Window 8

Location	5,150,968 – 5,151,058
Length	90
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	76.27
Mean single sequence MFE	-33.25
Consensus MFE	-16.55
Energy contribution	-16.47
Covariance contribution	-0.08
Combinations/Pair	1.26
Mean z-score	-1.87
Structure conservation index	0.50
SVM decision value	0.29
SVM RNA-class probability	0.670040
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5150968 90 - 27905053
---AUGCUGACGAUCUAUAU------AGUGGGAUGGCGGUACGUGUG------CC---GUUAGCUAGCGCCCUGAUUAUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
---((((..(((((......------..((((.((((((((....))------))---))))((((.(((((.......)))))))))..)))))))))..))))... ( -35.50)
>DroSec_CAF1 24935 90 - 1
---AUGCUGACGAUCUAUAU------AGUGGGUAGGCGGUACGUGUG------CC---GUUAGCUAGCGCCCUGAUUAUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
---((((..(((((......------..(((((.(((((((....))------))---))).((((.(((((.......))))))))).))))))))))..))))... ( -36.10)
>DroSim_CAF1 24412 95 - 1
---AUGCUGACGAUCUAUAU-AGUAUAGUGGGUAGGCGGUACGUGUG------CC---GUUAGCUAGCGCCCUGAUUAUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
---((((.(.....).....-.(((((((((((.(((((((....))------))---))).((((.(((((.......))))))))).)))).)))))))))))... ( -38.40)
>DroEre_CAF1 23416 102 - 1
---AUGCCGACGAUCUAUACCAGUGUAGUGGGAAGGCUGUACGAGUACGUGCGCC---UUUAGCUGGCGCCCUGAUUAUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
---(((((.((((((((((....)))))(((((((((.(((((....))))))))---))).((((((((((.......))))))..))))))))))))).))))... ( -41.30)
>DroYak_CAF1 22521 79 - 1
CUCAUGCUGACGAUCUA------UGUAGUGGGUGGGCGGUACGUGUG-----------------------CCUGAUUAUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
....(((((.(.(((((------(...)))))).).))))).(((((-----------------------(.((((..(((((......))))))))).))))))... ( -26.50)
>DroAna_CAF1 44953 88 - 1
C--CCGUCGACGAUCUCU------------GACAAGCGGCACGUGUC------CCCGCCUUAGUACUUGCCUUGAUUGUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
(--(((((.((((((.((------------....)).((((.(((..------..........))).))))..)))))).)))).))..((.((....)).))..... ( -21.70)
>consensus
___AUGCUGACGAUCUAUAU______AGUGGGUAGGCGGUACGUGUG______CC___GUUAGCUAGCGCCCUGAUUAUGGGCGUGGCAGCCCAAUUGUGCGCAUAAA
.....(((.((................)).)))..((.(((((...................((....))........(((((......)))))..)))))))..... (-16.55 = -16.47 +  -0.08)

alignment

secondary structure

dotplot

Window 9

Location	5,151,034 – 5,151,125
Length	91
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	79.39
Mean single sequence MFE	-23.76
Consensus MFE	-15.06
Energy contribution	-15.04
Covariance contribution	-0.02
Combinations/Pair	1.13
Mean z-score	-1.48
Structure conservation index	0.63
SVM decision value	0.19
SVM RNA-class probability	0.624046
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5151034 91 + 27905053
UCCCACU------AUAUAGAUCGUCAGCAU---------------CGAGCAAACCGCUCGACGGCCACAAAACUAAUUGAAAUUGCCAGAGCAGUCGCAUGGCAUUAGUUUA-
.......------.........((..((.(---------------(((((.....))))))..)).)).(((((((.......(((((..((....)).)))))))))))).- ( -22.41)
>DroSec_CAF1 25001 91 + 1
ACCCACU------AUAUAGAUCGUCAGCAU---------------CGAGCAAACCGCUCGACGGCCACAAAACUAAUUGAAAUUGCCAGAGCAGUCGCAUGGCAUUAGUUUA-
.......------.........((..((.(---------------(((((.....))))))..)).)).(((((((.......(((((..((....)).)))))))))))).- ( -22.41)
>DroSim_CAF1 24478 96 + 1
ACCCACUAUACU-AUAUAGAUCGUCAGCAU---------------CGAGCAAACCGCUCGACGGCCACAAAACUAAUUGAAAUUGCCAGAGCAGUCGCAUGGCAUUAGUUUA-
.....(((((..-.)))))...((..((.(---------------(((((.....))))))..)).)).(((((((.......(((((..((....)).)))))))))))).- ( -23.61)
>DroEre_CAF1 23488 97 + 1
UCCCACUACACUGGUAUAGAUCGUCGGCAU---------------CGAGCAAACCGCUCGACGGCCACAAAACUAAUUGAAAUUGCCAGAGCAGUCGGAUGGCAUUAGUUUA-
(((.(((.(.((((((.........(((.(---------------(((((.....))))))..))).(((......)))....)))))).).))).))).............- ( -28.60)
>DroYak_CAF1 22573 106 + 1
ACCCACUACA------UAGAUCGUCAGCAUGAGCAACCGAGCAACCGAGCAAACCGCUCGACGGCCACAAAACUAAUUGAAAUUGCCAGAGCAGUCGGAUGGCAUUAGUUUA-
..........------..(..((((.((.((......)).))....((((.....))))))))..)...(((((((.......(((((...(.....).)))))))))))).- ( -24.11)
>DroPer_CAF1 28069 87 + 1
CCCCAUG------CCAGAGAUCGU-----U---------------CGAGGGAAACCAAAUGCGACCGCAAAACUAAUUGAAAUUGCAAGCGCAGGCAGUUGCCAUUAGUUUGU
.....((------(....(.((((-----.---------------...((....))....)))).))))((((((((.(.((((((........)))))).).)))))))).. ( -21.40)
>consensus
ACCCACU______AUAUAGAUCGUCAGCAU_______________CGAGCAAACCGCUCGACGGCCACAAAACUAAUUGAAAUUGCCAGAGCAGUCGCAUGGCAUUAGUUUA_
..................(..((((.....................((((.....))))))))..)...((((((((......(((....)))(((....))))))))))).. (-15.06 = -15.04 +  -0.02)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:54 2006