Locus 2795

Sequence ID 2L_DroMel_CAF1
Location 7,929,909 – 7,930,037
Length 128
Max. P 0.999722
window4438 window4439 window4440 window4441

overview

Window 8

Location 7,929,909 – 7,930,001
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 92.86
Mean single sequence MFE -30.32
Consensus MFE -28.08
Energy contribution -28.56
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.93
SVM decision value 3.64
SVM RNA-class probability 0.999481
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7929909 92 + 22407834
GAGUCGCGUCCGUCCGUGUCAUUGUCAUAGCAAGCAAACAAGCGGAGUAGCUGGCUUUGCCUAGCAACUGCCACUUGGAGUGCCACUCAAAA
((((.((((((....((....((((....))))....))(((.(((((.((((((...))).))).))).)).)))))).))).)))).... ( -29.10)
>DroSec_CAF1 101872 88 + 1
GAGUCGCGU----CCGUGUCAUUGUCAUAGCAAACAAACAAGCGGAGUAGCUGGCUUUGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAA
((((.(((.----.(.(((..((((....)))))))..((((.((((((((((((...))).))))))).)).)))))..))).)))).... ( -31.40)
>DroSim_CAF1 101840 88 + 1
GAGUCGCGU----CCGUGUCAUUGUCAUAGCAAGCAAACAAGCGGAGUAGCUGGCUUUGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAA
((((.(((.----.(.(((..((((....)))))))..((((.((((((((((((...))).))))))).)).)))))..))).)))).... ( -31.70)
>DroEre_CAF1 103293 87 + 1
GAGUCGCGU----CCGUGCCAUUGUCAAAGCA-GCAAGCAAGCGGAGUAGCUGGCUUAGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAA
((((.(((.----.(.(((...(((....)))-)))..((((.((((((((((((...))).))))))).)).)))))..))).)))).... ( -31.50)
>DroYak_CAF1 105264 88 + 1
GAGUCGCGU----CCGUGUCAUUGUCAUAGCAAGCAAACAAGCGGAGUAGCUGGCUUUGCAUUGCUACUGCCACUUGUUCUGCCACUCAAAA
((((.((..----...(((..((((....)))))))((((((.((((((((..((...))...)))))).)).))))))..)).)))).... ( -27.90)
>consensus
GAGUCGCGU____CCGUGUCAUUGUCAUAGCAAGCAAACAAGCGGAGUAGCUGGCUUUGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAA
((((.((.........(((..((((....)))))))..((((.((((((((((((...))).))))))).)).))))....)).)))).... (-28.08 = -28.56 +   0.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,929,909 – 7,930,001
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 92.86
Mean single sequence MFE -33.40
Consensus MFE -29.22
Energy contribution -30.46
Covariance contribution 1.24
Combinations/Pair 1.03
Mean z-score -2.69
Structure conservation index 0.87
SVM decision value 3.74
SVM RNA-class probability 0.999574
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7929909 92 - 22407834
UUUUGAGUGGCACUCCAAGUGGCAGUUGCUAGGCAAAGCCAGCUACUCCGCUUGUUUGCUUGCUAUGACAAUGACACGGACGGACGCGACUC
....((((.((..(((((((((.(((.(((.(((...)))))).)))))))))(((((..((.(((....))).)))))))))).)).)))) ( -31.20)
>DroSec_CAF1 101872 88 - 1
UUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCAAAGCCAGCUACUCCGCUUGUUUGUUUGCUAUGACAAUGACACGG----ACGCGACUC
..(((.((((((((((((((((.(((((((.(((...)))))))))))))))))...)))))))))..)))........----......... ( -35.80)
>DroSim_CAF1 101840 88 - 1
UUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCAAAGCCAGCUACUCCGCUUGUUUGCUUGCUAUGACAAUGACACGG----ACGCGACUC
....(((((((((((.((((((.(((((((.(((...)))))))))))))))))))))))................((.----...)))))) ( -33.60)
>DroEre_CAF1 103293 87 - 1
UUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCUAAGCCAGCUACUCCGCUUGCUUGC-UGCUUUGACAAUGGCACGG----ACGCGACUC
....((((.((....(((((((.(((((((.(((...))))))))))))))))).(((.-((((........)))))))----..)).)))) ( -36.10)
>DroYak_CAF1 105264 88 - 1
UUUUGAGUGGCAGAACAAGUGGCAGUAGCAAUGCAAAGCCAGCUACUCCGCUUGUUUGCUUGCUAUGACAAUGACACGG----ACGCGACUC
....((((.((.((((((((((.((((((...((...))..)))))))))))))))).....(..((.......))..)----..)).)))) ( -30.30)
>consensus
UUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCAAAGCCAGCUACUCCGCUUGUUUGCUUGCUAUGACAAUGACACGG____ACGCGACUC
....((((((((((.(((((((.(((((((.(((...)))))))))))))))))))))))..............(.((......)).))))) (-29.22 = -30.46 +   1.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,929,946 – 7,930,037
Length 91
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 89.39
Mean single sequence MFE -30.87
Consensus MFE -24.46
Energy contribution -24.94
Covariance contribution 0.48
Combinations/Pair 1.04
Mean z-score -1.71
Structure conservation index 0.79
SVM decision value 0.59
SVM RNA-class probability 0.791854
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7929946 91 + 22407834
ACAAGCGGAGUAGCUGGCUUUGCCUAGCAACUGCCACUUGGAGUGCCACUCAAAAUCAGAUCCCGACUUGAGACCAGUGAUCCG--GGGAAGA
.((((.(((((.((((((...))).))).))).)).))))(((.....))).........(((((.................))--))).... ( -25.23)
>DroSec_CAF1 101905 92 + 1
ACAAGCGGAGUAGCUGGCUUUGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAAUCAGAACCCGACUUGAGACCAGAGUUUCGGG-GGGAGA
.((((.((((((((((((...))).))))))).)).)))).((((...........)))).(((..((((((((....))))))))-)))... ( -34.00)
>DroSim_CAF1 101873 93 + 1
ACAAGCGGAGUAGCUGGCUUUGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAAUCAGAACCCGACUUGAGACCAGAGUUUCUGGGGGAAGA
.((((.((((((((((((...))).))))))).)).)))).(((.((.(((((..((.......)).))))).((((.....)))).)).))) ( -34.30)
>DroEre_CAF1 103325 91 + 1
GCAAGCGGAGUAGCUGGCUUAGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAAUCAGAUCCCGACUUGAGACCAGAGUUCCG--GGGGACA
.((((.((((((((((((...))).))))))).)).))))((((.((((((....((((........)))).....))))...)--).)))). ( -34.60)
>DroYak_CAF1 105297 91 + 1
ACAAGCGGAGUAGCUGGCUUUGCAUUGCUACUGCCACUUGUUCUGCCACUCAAAAUCAGAUCCCGACUUGAGACCAGAGUUCCG--GAGCCCU
(((((.((((((((..((...))...)))))).)).)))))((((..((((....((((........)))).....))))..))--))..... ( -26.20)
>consensus
ACAAGCGGAGUAGCUGGCUUUGCCUAGCUACUGCCACUUGGUCUGCCACUCAAAAUCAGAUCCCGACUUGAGACCAGAGUUCCG__GGGAAGA
.((((.((((((((((((...))).))))))).)).)))).((((...(((((..((.......)).)))))..))))............... (-24.46 = -24.94 +   0.48)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,929,946 – 7,930,037
Length 91
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 89.39
Mean single sequence MFE -35.22
Consensus MFE -32.06
Energy contribution -32.54
Covariance contribution 0.48
Combinations/Pair 1.03
Mean z-score -2.67
Structure conservation index 0.91
SVM decision value 3.95
SVM RNA-class probability 0.999722
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7929946 91 - 22407834
UCUUCCC--CGGAUCACUGGUCUCAAGUCGGGAUCUGAUUUUGAGUGGCACUCCAAGUGGCAGUUGCUAGGCAAAGCCAGCUACUCCGCUUGU
.......--((((((.((((.(....))))))))))).....(((.....)))(((((((.(((.(((.(((...)))))).)))))))))). ( -31.50)
>DroSec_CAF1 101905 92 - 1
UCUCCC-CCCGAAACUCUGGUCUCAAGUCGGGUUCUGAUUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCAAAGCCAGCUACUCCGCUUGU
......-........((((.(((((((((((...)))).)))))).).)))).(((((((.(((((((.(((...))))))))))))))))). ( -35.60)
>DroSim_CAF1 101873 93 - 1
UCUUCCCCCAGAAACUCUGGUCUCAAGUCGGGUUCUGAUUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCAAAGCCAGCUACUCCGCUUGU
(((.((.((((.....)))).((((((((((...)))).)))))).)).))).(((((((.(((((((.(((...))))))))))))))))). ( -38.70)
>DroEre_CAF1 103325 91 - 1
UGUCCCC--CGGAACUCUGGUCUCAAGUCGGGAUCUGAUUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCUAAGCCAGCUACUCCGCUUGC
((((.(.--(((((.((.((((((.....)))))).))))))).).))))...(((((((.(((((((.(((...))))))))))))))))). ( -37.90)
>DroYak_CAF1 105297 91 - 1
AGGGCUC--CGGAACUCUGGUCUCAAGUCGGGAUCUGAUUUUGAGUGGCAGAACAAGUGGCAGUAGCAAUGCAAAGCCAGCUACUCCGCUUGU
...((((--(((....)))).((((((((((...)))).)))))).)))...((((((((.((((((...((...))..)))))))))))))) ( -32.40)
>consensus
UCUCCCC__CGGAACUCUGGUCUCAAGUCGGGAUCUGAUUUUGAGUGGCAGACCAAGUGGCAGUAGCUAGGCAAAGCCAGCUACUCCGCUUGU
...............((((.(((((((((((...)))).)))))).).)))).(((((((.(((((((.(((...))))))))))))))))). (-32.06 = -32.54 +   0.48)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:24 2006