Locus 3955

Sequence ID 3R_DroMel_CAF1
Location 10,700,223 – 10,700,324
Length 101
Max. P 0.902533
window6339 window6340

overview

Window 9

Location 10,700,223 – 10,700,324
Length 101
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 73.59
Mean single sequence MFE -23.12
Consensus MFE -11.86
Energy contribution -13.37
Covariance contribution 1.50
Combinations/Pair 1.28
Mean z-score -1.59
Structure conservation index 0.51
SVM decision value 0.04
SVM RNA-class probability 0.554990
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10700223 101 + 27905053
GAUAGGUGCAGAUGUUUUGUGGCGCUGUGCAUGCAAAUCGUGGAGCAGCACAGUGAAAAA-AAUGUCUAAAAUGGUA--A-UUUACUAAUAUGUAUAAUACGGAU
.....(((((((((((((....((((((((.(((..........)))))))))))...))-)))))))....(((((--.-..)))))....))))......... ( -27.20)
>DroSec_CAF1 41530 103 + 1
GAUAGGUGCAGAUGUUUUGUGGCGCUGUGCAUGCAAAUGGUGGAGCGGCACAGUAAAAAAUAAUGUCUACAAUGGUA--ACAUUACUAAUAUAUAGAAUACUAAU
.........((.(((((((((..(((((((.(((..........))))))))))......((((((.(((....)))--))))))......)))))))))))... ( -22.90)
>DroSim_CAF1 44736 103 + 1
GAUAGGUGCAGAUGUUUUGUGGCGCUGUGAAUGCAAAUGGUGGAGCGGCACAGUAAAAAAUAAUGUCUACAAUGGUA--ACUUUACUAAUAUAUAUAAUACUAAU
..(((.((.((((((((((((.((((.((.((....))..)).)))).)))))........))))))).)).(((((--....)))))............))).. ( -18.90)
>DroEre_CAF1 38809 88 + 1
GAUAGGUGCAGAUGUUUUGUGGUGCUGUGCAUGCAAAUGGUGGAGCAGCACAGUGAAAAAUAAUGUGUGCAGUGGGA-----------UACCAUCUG------AU
..(((.((((.(((((...(..((((((((.(((..........)))))))))))..)...))))).))))((((..-----------..)))))))------.. ( -26.70)
>DroYak_CAF1 34018 99 + 1
GAUAGGUGCAGAUGUUCUGUGGCGCUGUGCAUGCAAAUGGUGGAGCAGCACAGUGAAAAAUAAUGUUUGCCAUAGGAAAACAUUACUACACCAUGUA------AC
....((((.(((((((((((((((((((((.(((..........))))))))))...((((...))))))))))))...))))..)).)))).....------.. ( -31.50)
>DroAna_CAF1 17752 82 + 1
GAUAGGUGCAGAUGGUUUUUCGCACAAAGCAUGCAAAUGG--GAGAAGUACAGUGAAAAAA--UUUGAG--AAGGUA-----------GUCCAUCCA------AG
..........(((((((((((((......(((....)))(--........).))))))))(--(((...--.)))).-----------..)))))..------.. ( -11.50)
>consensus
GAUAGGUGCAGAUGUUUUGUGGCGCUGUGCAUGCAAAUGGUGGAGCAGCACAGUGAAAAAUAAUGUCUACAAUGGUA__A__UUACUAAUACAUAUA______AU
.........(((((((......((((((((.(((..........)))))))))))......)))))))..................................... (-11.86 = -13.37 +   1.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,700,223 – 10,700,324
Length 101
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 73.59
Mean single sequence MFE -18.19
Consensus MFE -6.24
Energy contribution -7.27
Covariance contribution 1.03
Combinations/Pair 1.11
Mean z-score -2.40
Structure conservation index 0.34
SVM decision value 1.03
SVM RNA-class probability 0.902533
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10700223 101 - 27905053
AUCCGUAUUAUACAUAUUAGUAAA-U--UACCAUUUUAGACAUU-UUUUUCACUGUGCUGCUCCACGAUUUGCAUGCACAGCGCCACAAAACAUCUGCACCUAUC
....(((...(((......)))..-.--))).....((((..((-((...(.(((((((((..........))).)))))).)....))))..))))........ ( -15.80)
>DroSec_CAF1 41530 103 - 1
AUUAGUAUUCUAUAUAUUAGUAAUGU--UACCAUUGUAGACAUUAUUUUUUACUGUGCCGCUCCACCAUUUGCAUGCACAGCGCCACAAAACAUCUGCACCUAUC
((((((((.....)))))))).....--......((((((............((((((.((..........))..))))))............))))))...... ( -17.85)
>DroSim_CAF1 44736 103 - 1
AUUAGUAUUAUAUAUAUUAGUAAAGU--UACCAUUGUAGACAUUAUUUUUUACUGUGCCGCUCCACCAUUUGCAUUCACAGCGCCACAAAACAUCUGCACCUAUC
((((((((.....)))))))).....--......((((((............(((((..((..........))...)))))............))))))...... ( -14.35)
>DroEre_CAF1 38809 88 - 1
AU------CAGAUGGUA-----------UCCCACUGCACACAUUAUUUUUCACUGUGCUGCUCCACCAUUUGCAUGCACAGCACCACAAAACAUCUGCACCUAUC
..------(((((((((-----------......)))...............(((((((((..........))).))))))..........))))))........ ( -19.70)
>DroYak_CAF1 34018 99 - 1
GU------UACAUGGUGUAGUAAUGUUUUCCUAUGGCAAACAUUAUUUUUCACUGUGCUGCUCCACCAUUUGCAUGCACAGCGCCACAGAACAUCUGCACCUAUC
..------.....(((((((..(((((((....(((((((......)))...(((((((((..........))).)))))).)))).)))))))))))))).... ( -29.40)
>DroAna_CAF1 17752 82 - 1
CU------UGGAUGGAC-----------UACCUU--CUCAAA--UUUUUUCACUGUACUUCUC--CCAUUUGCAUGCUUUGUGCGAAAAACCAUCUGCACCUAUC
..------.((((((((-----------......--......--..........)).......--...(((((((.....)))))))...))))))......... ( -12.05)
>consensus
AU______UAUAUAGAUUAGUAA__U__UACCAUUGCAGACAUUAUUUUUCACUGUGCUGCUCCACCAUUUGCAUGCACAGCGCCACAAAACAUCUGCACCUAUC
....................................................(((((((((..........))).))))))........................ ( -6.24 =  -7.27 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:24 2006