Locus 764

Sequence ID 2R_DroMel_CAF1
Location 3,700,890 – 3,701,077
Length 187
Max. P 0.743242
window1327 window1328 window1329

overview

Window 7

Location 3,700,890 – 3,701,006
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 68.13
Mean single sequence MFE -34.93
Consensus MFE -12.92
Energy contribution -12.48
Covariance contribution -0.44
Combinations/Pair 1.29
Mean z-score -1.86
Structure conservation index 0.37
SVM decision value 0.46
SVM RNA-class probability 0.743242
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3700890 116 + 20766785
GUUUGUAAUGAACUUGCAACGGUGUGCUGCCUCUUGGCUGCGGCAACCACUGUGGGCUGUGUGGCAGCAAUGAGU---GGUUAA-AAUGAAGUGCAUUGUAGUGCUUCACUAAUAUCAAA
..((((((.....)))))).(((((((.(((....))).))...(((((((....((((.....))))....)))---))))..-..(((((..(......)..)))))...)))))... ( -37.30)
>DroPse_CAF1 26095 95 + 1
GUUUGUAAUGAACUUGCAACAGAAUGGUGGCAGUACUCGGUGGCAGCCACCAUGGAA-UUGUGAAUGGAGUACGCCUCAGGCGAAACUGAGGCUAA------------------------
....(((......(..(((....((((((((.((........)).))))))))....-)))..)......)))(((((((......)))))))...------------------------ ( -34.30)
>DroSec_CAF1 24373 116 + 1
GUUUGUAAUGAACUUGCAACGGUGUGCUGCCUCUUGGCUGCGGCAACCACUGUGGGCUGUGUGGCAGCAAUGAGU---GGGUAA-AAUGAAGAGCAUUGUAGUGCUUCACUAAAAUCAAA
..((((((.....)))))).((((((((..(((...(((((.(((.((.....))....))).)))))...))).---.)))).-......((((((....))))))))))......... ( -34.40)
>DroEre_CAF1 20881 116 + 1
GUUUGUAAUGAACUUGCAACGGUGUGCUGCCUCUUGGCUGCGGCAACCACUGUGGGCAGUGUGGCAGAAACAAGC---GGGCAA-AAUGAAGUGAAUUGUAGUGCUCCACUAAUAUCAAA
((((((..((.((((((.((((((.((.(((....))).))(....)))))))..)))).))..))...))))))---(((((.-.(..(......)..)..))).))............ ( -34.40)
>DroYak_CAF1 22037 116 + 1
GUUUGUAAUGAACUUGCAACGGUGUGCUGCCUCUUGGCUGCGGCAACCACUGUGGGCAGCGUGGCAGAAACUAGU---GGGCAA-AAUGAAGUACAUUGUAGUGCUUUAAUAACUUCAGA
........((((.((((.(((((...(((((.((((.(..(((......)))..).))).).)))))..))).))---..))))-..((((((((......)))))))).....)))).. ( -36.00)
>DroPer_CAF1 24820 95 + 1
GUUUGUAAUGAACUUGCAACAGAAUGGUGGCAGUACUCGGUGGCAGCCACCAUGGAA-UUGUGAAUGGAAUACGCCUCAGGCGAAACUGAGGCUAA------------------------
((((.....))))(..(((....((((((((.((........)).))))))))....-)))..).........(((((((......)))))))...------------------------ ( -33.20)
>consensus
GUUUGUAAUGAACUUGCAACGGUGUGCUGCCUCUUGGCUGCGGCAACCACUGUGGGC_GUGUGGCAGAAAUAAGC___GGGCAA_AAUGAAGUGAAUUGUAGUGCUUCACUAA_AUCAAA
((((.....))))((((..(((....))).......(((((.(((.((.....))....))).)))))............)))).................................... (-12.92 = -12.48 +  -0.44) 

alignment

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secondary structure

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dotplot

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Window 8

Location 3,700,890 – 3,701,006
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 68.13
Mean single sequence MFE -28.46
Consensus MFE -6.86
Energy contribution -7.53
Covariance contribution 0.67
Combinations/Pair 1.23
Mean z-score -2.07
Structure conservation index 0.24
SVM decision value 0.03
SVM RNA-class probability 0.547017
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3700890 116 - 20766785
UUUGAUAUUAGUGAAGCACUACAAUGCACUUCAUU-UUAACC---ACUCAUUGCUGCCACACAGCCCACAGUGGUUGCCGCAGCCAAGAGGCAGCACACCGUUGCAAGUUCAUUACAAAC
((((....(((((...))))).((((.((((....-......---.(((...(((((....(((((......)))))..)))))...)))(((((.....))))))))).)))).)))). ( -29.50)
>DroPse_CAF1 26095 95 - 1
------------------------UUAGCCUCAGUUUCGCCUGAGGCGUACUCCAUUCACAA-UUCCAUGGUGGCUGCCACCGAGUACUGCCACCAUUCUGUUGCAAGUUCAUUACAAAC
------------------------...(((((((......)))))))(((....(((..(((-(...(((((((((((......)))..))))))))...))))..)))....))).... ( -30.30)
>DroSec_CAF1 24373 116 - 1
UUUGAUUUUAGUGAAGCACUACAAUGCUCUUCAUU-UUACCC---ACUCAUUGCUGCCACACAGCCCACAGUGGUUGCCGCAGCCAAGAGGCAGCACACCGUUGCAAGUUCAUUACAAAC
........((((((((((......)))........-......---.(((...(((((....(((((......)))))..)))))...)))(((((.....)))))...)))))))..... ( -28.40)
>DroEre_CAF1 20881 116 - 1
UUUGAUAUUAGUGGAGCACUACAAUUCACUUCAUU-UUGCCC---GCUUGUUUCUGCCACACUGCCCACAGUGGUUGCCGCAGCCAAGAGGCAGCACACCGUUGCAAGUUCAUUACAAAC
...((.((.(((((.(((.................-.)))))---))).)).))(((..(((((....)))))((((((.(......).))))))........))).............. ( -26.87)
>DroYak_CAF1 22037 116 - 1
UCUGAAGUUAUUAAAGCACUACAAUGUACUUCAUU-UUGCCC---ACUAGUUUCUGCCACGCUGCCCACAGUGGUUGCCGCAGCCAAGAGGCAGCACACCGUUGCAAGUUCAUUACAAAC
..((((((((((..........)))).)))))).(-((((..---....((....))...((((((.....((((((...))))))...))))))........)))))............ ( -24.70)
>DroPer_CAF1 24820 95 - 1
------------------------UUAGCCUCAGUUUCGCCUGAGGCGUAUUCCAUUCACAA-UUCCAUGGUGGCUGCCACCGAGUACUGCCACCAUUCUGUUGCAAGUUCAUUACAAAC
------------------------...(((((((......)))))))(((....(((..(((-(...(((((((((((......)))..))))))))...))))..)))....))).... ( -31.00)
>consensus
UUUGAU_UUAGUGAAGCACUACAAUGCACUUCAUU_UUGCCC___ACUUAUUCCUGCCACAC_GCCCACAGUGGUUGCCGCAGCCAAGAGGCAGCACACCGUUGCAAGUUCAUUACAAAC
...............................................................((..((.(((((((((..........)))))).))).)).))............... ( -6.86 =  -7.53 +   0.67) 

alignment

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secondary structure

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dotplot

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Window 9

Location 3,700,967 – 3,701,077
Length 110
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 75.57
Mean single sequence MFE -19.27
Consensus MFE -11.89
Energy contribution -11.57
Covariance contribution -0.32
Combinations/Pair 1.20
Mean z-score -1.66
Structure conservation index 0.62
SVM decision value 0.43
SVM RNA-class probability 0.734944
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3700967 110 - 20766785
ACUCUUUAUUAAUU---------CUGUGCUCAACUAGUGAGUUUACUAAUGUCCUACUUAAUAAGUGCAACAAAUGUUCAUUUGAUAUUAGUGAAGCACUACAAUGCACUUCAUUUUAA
..............---------..((((.....(((((..((((((((((((.........(((((.(((....)))))))))))))))))))).)))))....)))).......... ( -25.30)
>DroSec_CAF1 24450 110 - 1
ACUCUUUAUUAAUU---------CUAUGCUCAACUAGUGAAUUUACUAAUGACCUCCUUAAUAGGUGCGACAAAUGUUUAUUUGAUUUUAGUGAAGCACUACAAUGCUCUUCAUUUUAC
..............---------....((.....(((((..((((((((..((((.......))))....(((((....)))))...)))))))).)))))....))............ ( -15.80)
>DroEre_CAF1 20958 104 - 1
------------UUAAUUGUAUACUCUGUUCAACUAGUGAUUUUACUAAUGACC---UUAAUAAUAGUAACAAAUGUUCUUUUGAUAUUAGUGGAGCACUACAAUUCACUUCAUUUUGC
------------..(((((((.....(((((.(((((((...((((((......---.......))))))((((......)))).))))))).))))).)))))))............. ( -16.72)
>consensus
ACUCUUUAUUAAUU_________CUAUGCUCAACUAGUGAAUUUACUAAUGACCU_CUUAAUAAGUGCAACAAAUGUUCAUUUGAUAUUAGUGAAGCACUACAAUGCACUUCAUUUUAC
...........................((.....(((((...(((((((((..........((((((.(((....))))))))).)))))))))..)))))....))............ (-11.89 = -11.57 +  -0.32) 

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 09:46:34 2006