Locus 7151

Sequence ID	3R_DroMel_CAF1
Location	18,843,905 – 18,844,060
Length	155
Max. P	0.638059

overview

Window 9

Location	18,843,905 – 18,843,995
Length	90
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	82.15
Mean single sequence MFE	-14.30
Consensus MFE	-9.77
Energy contribution	-10.13
Covariance contribution	0.36
Combinations/Pair	1.17
Mean z-score	-1.72
Structure conservation index	0.68
SVM decision value	0.22
SVM RNA-class probability	0.638059
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18843905 90 - 27905053
UGCAAAUCGAAAGAUCGCCACACAGCGAUAU--CCUAAAAUUCCAUGCAUUUACAAUUUUCUAAUCAAUGGAAUUAUAAUUUUAAUUUCC--------------AA---
((((..((....))((((......))))...--............))))...................((((((((......))).))))--------------).--- ( -14.80)
>DroPse_CAF1 89498 90 - 1
UGCAAAUCCAAAGAUCACCACAGAGCGAUAU--ACCAAAAUUCCAUGCAUUUACAAUUUUCUAAUCAAUGGAAUUUUAAUUUUAAUUUCC--------------AA---
.............(((.(......).)))..--...((((((((((....(((........)))...)))))))))).............--------------..--- (  -8.70)
>DroGri_CAF1 76353 104 - 1
UGCAAAUCGGCAGAUUGCCACAUCAUGAUAC--GUUGAAAUUCCAUGCAUUUACAAUUUUCUAAUCGAUGAAAUUUUAAUUUAUGUCGACACUGUGGAUUUUCGAA---
........(((.....)))............--.((((((.((((((......)..........((((((((((....)))).))))))....))))).)))))).--- ( -17.20)
>DroWil_CAF1 74485 95 - 1
UGCAAAUCAAAAGAUCGCCACAGAGCGAUAUACCCCAAAAUUCCAUGCAUUUAAAAUUUUCUAAUCAAUGGAAUUUUAAUUUUAAUUUAU--------------AGUGU
...((((.((((.(((((......))))).......((((((((((....(((........)))...))))))))))..)))).))))..--------------..... ( -14.80)
>DroYak_CAF1 73821 90 - 1
UGCAAAUCGAAAGAUCGCCACACAGCGAUAU--CCGGAAAUUCCAUGCAUUUACAAUUUUCUAAUCAAUGGAAUUAUAAUUUUAAUUUCC--------------AA---
((((..((....))((((......))))...--..((.....)).))))...................((((((((......))).))))--------------).--- ( -16.20)
>DroPer_CAF1 88613 90 - 1
UGCAAAUCCAAAGAUCGCCACAGAGCGAUAU--ACCAAAAUUCCAUGCAUUUACAAUUUUCUAAUCAAUGGAAUUUUAAUUUUAAUUUCC--------------AA---
.............(((((......)))))..--...((((((((((....(((........)))...)))))))))).............--------------..--- ( -14.10)
>consensus
UGCAAAUCGAAAGAUCGCCACAGAGCGAUAU__CCCAAAAUUCCAUGCAUUUACAAUUUUCUAAUCAAUGGAAUUUUAAUUUUAAUUUCC______________AA___
.............(((((......))))).......((((((((((....(((........)))...))))))))))................................ ( -9.77 = -10.13 +   0.36)

alignment

secondary structure

dotplot

Window 0

Location	18,843,957 – 18,844,060
Length	103
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	89.13
Mean single sequence MFE	-32.48
Consensus MFE	-26.01
Energy contribution	-26.10
Covariance contribution	0.09
Combinations/Pair	1.09
Mean z-score	-2.09
Structure conservation index	0.80
SVM decision value	0.05
SVM RNA-class probability	0.557696
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18843957 103 - 27905053
CUGCUGCUGUUGUGGCUGAGAUUUUGCAGAUUUUCGGUGCGUUGCGACGGUUUGGUUCGCAAUUAUGCAAAUCGAAAGAUCGCCACACAGCGAUAUCCUAAAA
....((((((.(((((...((((((...(((((.((....((((((((......).)))))))..)).)))))..)))))))))))))))))........... ( -32.70)
>DroSec_CAF1 68834 103 - 1
CUGCAGCUGUUGUGGCUGAGAUUUUGCAGAUUUUCGGUGCGUUGCGACGCUUUGGUUCGCAAUUAUGUAAAUCGAAAGAUCGCCACACAGCGAUAUCCUAAAA
.....(((((.(((((...((((((...(((((.((....(((((((.((....)))))))))..)).)))))..))))))))))))))))............ ( -33.70)
>DroSim_CAF1 72304 103 - 1
CUGCAGCUGUUGUGGCUGAGAUUUUGCAGAUUUUCGGUGCGUUGCGACGCUUUGGUUCGCAAUUAUGCAAAUCGAAAGAUCGCCACACAGCGAUAUCCUAAAA
.....(((((.(((((...((((((...(((((.((....(((((((.((....)))))))))..)).)))))..))))))))))))))))............ ( -33.70)
>DroYak_CAF1 73873 103 - 1
CUGCAGCUGUUGUGGCUGAGAUUUUGCAGAUUUUCGGUGCGUUGCGACGGUUUGGUUCGCAAUUAUGCAAAUCGAAAGAUCGCCACACAGCGAUAUCCGGAAA
.....(((((.(((((...((((((...(((((.((....((((((((......).)))))))..)).)))))..))))))))))))))))............ ( -32.80)
>DroAna_CAF1 73160 94 - 1
CUGCAGCUGUUGUGGCU---------CAGAUUUUCGGUGCGUUGGGACGGUUUGGUUCACAAUUAUGCAAAUCGAAAGAUCGCCACACAGCGAUAUCCUAAAA
.....(((((.(((((.---------..((((((((((((((((((((......)))).))...)))))..))).))))))))))))))))............ ( -29.70)
>DroPer_CAF1 88665 94 - 1
CUGCUGCUGCUGUGGCU---------CCGAUUUUCAGUGCGUUUCGGCGGUUUGUUCCGCAAUUAUGCAAAUCCAAAGAUCGCCACAGAGCGAUAUACCAAAA
....((((.(((((((.---------..((((((...(((((....((((......))))....)))))......)))))))))))))))))........... ( -32.30)
>consensus
CUGCAGCUGUUGUGGCUGAGAUUUUGCAGAUUUUCGGUGCGUUGCGACGGUUUGGUUCGCAAUUAUGCAAAUCGAAAGAUCGCCACACAGCGAUAUCCUAAAA
.....((((.((((((.....................((((((((((.........)))))...))))).(((....))).))))))))))............ (-26.01 = -26.10 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:41 2006