Locus 5480

Sequence ID 2L_DroMel_CAF1
Location 15,636,020 – 15,636,114
Length 94
Max. P 0.948421
window8694 window8695

overview

Window 4

Location 15,636,020 – 15,636,114
Length 94
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.93
Mean single sequence MFE -30.10
Consensus MFE -21.27
Energy contribution -20.72
Covariance contribution -0.55
Combinations/Pair 1.15
Mean z-score -2.75
Structure conservation index 0.71
SVM decision value 1.01
SVM RNA-class probability 0.899617
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15636020 94 + 22407834
---------GUGAAUUUGCAAACGUCGCAUAAUUGAUUAAGCACGGAGAACGAGCGACUUAAUCAACGGUGCGAGCAACGUGGCGUAUACGCAAUGCGAGCA---G
---------.......(((.....((((((..((((((((((.((.....)).))...))))))))..))))))....(((.(((....)))...))).)))---. ( -28.40)
>DroVir_CAF1 193199 101 + 1
GGCAAGCUUGUGAAUUUGCAAGCAUUGCAUAAUUGAUUAAACAUUGAAAACGAAUGACUUAAUCAA--GUGCGUGCCACGUGGCGUAUACGCAAUGCGAGCA---A
.((..((((((......)))))).((((((..((((((((.((((.......))))..))))))))--.((((((((....)))....))))))))))))).---. ( -31.90)
>DroGri_CAF1 153906 104 + 1
GACGGACUGGCAAAUUUGCAAACGUCGCAUAAUUGAUUAAACAUUGAAAUCGAAUGACUUAAUCAA--GUGCGUGCCACGUGGCGUAUACGCAAUGCGAACAACAA
((((.....(((....)))...))))((((..((((((((.((((.......))))..))))))))--.((((((((....)))....)))))))))......... ( -27.80)
>DroSim_CAF1 136366 94 + 1
---------GUGAAUUUGCAAACGUCGCAUAAUUGAUUAAGCACGGAGAACGAGCGACUUAAUCAACGGUGCGAGCAACGUGGCGUAUACGCAAUGCGAGCA---G
---------.......(((.....((((((..((((((((((.((.....)).))...))))))))..))))))....(((.(((....)))...))).)))---. ( -28.40)
>DroEre_CAF1 140047 94 + 1
---------GUGAAUUUGCAAACGUCGCAUAAUUGAUUAAGCACGGCGAACGAGCGACUUAAUCAACGGUGCGAGCAACGUGGCGUAUACGCAAUGCGAGCA---G
---------.......(((.....((((((..(((((((((....((......))..)))))))))..))))))....(((.(((....)))...))).)))---. ( -29.20)
>DroMoj_CAF1 189834 90 + 1
-----------GCAUUUGCAAGCGUUGCAUAAUUGAUUAAACAUUCAAAUCGAAUGACUUAAUCAA--GUGUGUGCCACGUGGCGUAUACGCAAUGCGAGCG---C
-----------......((..(((((((....((((((((.(((((.....)))))..))))))))--(((((((((....))))))))))))))))..)).---. ( -34.90)
>consensus
_________GUGAAUUUGCAAACGUCGCAUAAUUGAUUAAACACGGAAAACGAACGACUUAAUCAA__GUGCGAGCAACGUGGCGUAUACGCAAUGCGAGCA___G
..............((((((.(((((((((..((((((((..................))))))))..)))))....)))).(((....)))..))))))...... (-21.27 = -20.72 +  -0.55)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,636,020 – 15,636,114
Length 94
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 81.93
Mean single sequence MFE -28.15
Consensus MFE -23.13
Energy contribution -21.72
Covariance contribution -1.41
Combinations/Pair 1.23
Mean z-score -2.80
Structure conservation index 0.82
SVM decision value 1.38
SVM RNA-class probability 0.948421
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15636020 94 - 22407834
C---UGCUCGCAUUGCGUAUACGCCACGUUGCUCGCACCGUUGAUUAAGUCGCUCGUUCUCCGUGCUUAAUCAAUUAUGCGACGUUUGCAAAUUCAC---------
.---(((..(((..(((....))).....)))(((((..((((((((((.(((.........)))))))))))))..))))).....))).......--------- ( -27.40)
>DroVir_CAF1 193199 101 - 1
U---UGCUCGCAUUGCGUAUACGCCACGUGGCACGCAC--UUGAUUAAGUCAUUCGUUUUCAAUGUUUAAUCAAUUAUGCAAUGCUUGCAAAUUCACAAGCUUGCC
(---(((..((((((((((...(((....)))......--(((((((((.((((.......))))))))))))).))))))))))..))))............... ( -31.30)
>DroGri_CAF1 153906 104 - 1
UUGUUGUUCGCAUUGCGUAUACGCCACGUGGCACGCAC--UUGAUUAAGUCAUUCGAUUUCAAUGUUUAAUCAAUUAUGCGACGUUUGCAAAUUUGCCAGUCCGUC
.........(((..((((....(((....))).((((.--(((((((((.((((.(....))))))))))))))...)))))))).)))................. ( -26.00)
>DroSim_CAF1 136366 94 - 1
C---UGCUCGCAUUGCGUAUACGCCACGUUGCUCGCACCGUUGAUUAAGUCGCUCGUUCUCCGUGCUUAAUCAAUUAUGCGACGUUUGCAAAUUCAC---------
.---(((..(((..(((....))).....)))(((((..((((((((((.(((.........)))))))))))))..))))).....))).......--------- ( -27.40)
>DroEre_CAF1 140047 94 - 1
C---UGCUCGCAUUGCGUAUACGCCACGUUGCUCGCACCGUUGAUUAAGUCGCUCGUUCGCCGUGCUUAAUCAAUUAUGCGACGUUUGCAAAUUCAC---------
.---(((..(((..(((....))).....)))(((((..(((((((((((.((......))...)))))))))))..))))).....))).......--------- ( -27.40)
>DroMoj_CAF1 189834 90 - 1
G---CGCUCGCAUUGCGUAUACGCCACGUGGCACACAC--UUGAUUAAGUCAUUCGAUUUGAAUGUUUAAUCAAUUAUGCAACGCUUGCAAAUGC-----------
.---.((..((.(((((((...(((....)))......--(((((((((.(((((.....)))))))))))))).))))))).))..))......----------- ( -29.40)
>consensus
C___UGCUCGCAUUGCGUAUACGCCACGUGGCACGCAC__UUGAUUAAGUCACUCGUUCUCAAUGCUUAAUCAAUUAUGCGACGUUUGCAAAUUCAC_________
....(((..((.(((((((...((......))........(((((((((.(((.........)))))))))))).))))))).))..)))................ (-23.13 = -21.72 +  -1.41)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:09 2006