Locus 3587

Sequence ID 2R_DroMel_CAF1
Location 11,938,710 – 11,938,824
Length 114
Max. P 0.977921
window5845 window5846 window5847

overview

Window 5

Location 11,938,710 – 11,938,805
Length 95
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.42
Mean single sequence MFE -38.75
Consensus MFE -34.15
Energy contribution -33.74
Covariance contribution -0.42
Combinations/Pair 1.10
Mean z-score -3.09
Structure conservation index 0.88
SVM decision value 1.80
SVM RNA-class probability 0.977921
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11938710 95 + 20766785
CAUACACAUGAGCA----------GAUGAGUUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCCUGGCUUACUGGGCGU
........(((((.----------.....)))))(((((.(((((.((((((..(((((((.............)))))))..))))))))..))).)))))... ( -39.22)
>DroSec_CAF1 40218 95 + 1
CAUACACAUGAGCA----------GAUGAGUUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCCUGGCUUACUGGGCGU
........(((((.----------.....)))))(((((.(((((.((((((..(((((((.............)))))))..))))))))..))).)))))... ( -39.22)
>DroSim_CAF1 38075 95 + 1
CAUACACAUGAGCA----------GAUGAGUUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCCUGGCUUACUGGGCGU
........(((((.----------.....)))))(((((.(((((.((((((..(((((((.............)))))))..))))))))..))).)))))... ( -39.22)
>DroEre_CAF1 37504 105 + 1
CACACACAUGAGCACAUGUACAUACAUGGGUUCACUCAGAGAGGGAGGCACGUGCGUACACUUUGUGCGUAAUUGUGUGCGUGCGUGCCAUGGCUUACUGGGCGU
........(((((.(((((....))))).)))))(((((.(((...((((((..(((((((..(.......)..)))))))..))))))....))).)))))... ( -44.30)
>DroYak_CAF1 39071 88 + 1
-----------------AUACACACAUGAGUUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAGGCGUAAUUGUGUGCGUGCGUGCCCUGGCUUACUGGGCGU
-----------------...............(.(((((.(((((.((((((..(((((((.............)))))))..))))))))..))).))))).). ( -35.42)
>DroAna_CAF1 64138 84 + 1
-------ACACACA----------AAGGA----AUUCUGGGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCUUGGCUUACGGGGCGU
-------.......----------.....----.(((((..((.((((((((..(((((((.............)))))))..))))))))..))..)))))... ( -35.12)
>consensus
CAUACACAUGAGCA__________GAUGAGUUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCCUGGCUUACUGGGCGU
..................................(((((.(((...((((((..(((((((.............)))))))..))))))....))).)))))... (-34.15 = -33.74 +  -0.42)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,938,710 – 11,938,805
Length 95
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 82.42
Mean single sequence MFE -26.26
Consensus MFE -22.10
Energy contribution -22.65
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.31
Structure conservation index 0.84
SVM decision value 0.04
SVM RNA-class probability 0.552871
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11938710 95 - 20766785
ACGCCCAGUAAGCCAGGGCACGCACGCACACAAUUACGCAUAAAGUGUACGCACGUGCCUCCCUCUCUGAGUGAACUCAUC----------UGCUCAUGUGUAUG
((((..((((.....(((((((..((.((((.............)))).))..))))))).......((((....))))..----------))))...))))... ( -26.22)
>DroSec_CAF1 40218 95 - 1
ACGCCCAGUAAGCCAGGGCACGCACGCACACAAUUACGCAUAAAGUGUACGCACGUGCCUCCCUCUCUGAGUGAACUCAUC----------UGCUCAUGUGUAUG
((((..((((.....(((((((..((.((((.............)))).))..))))))).......((((....))))..----------))))...))))... ( -26.22)
>DroSim_CAF1 38075 95 - 1
ACGCCCAGUAAGCCAGGGCACGCACGCACACAAUUACGCAUAAAGUGUACGCACGUGCCUCCCUCUCUGAGUGAACUCAUC----------UGCUCAUGUGUAUG
((((..((((.....(((((((..((.((((.............)))).))..))))))).......((((....))))..----------))))...))))... ( -26.22)
>DroEre_CAF1 37504 105 - 1
ACGCCCAGUAAGCCAUGGCACGCACGCACACAAUUACGCACAAAGUGUACGCACGUGCCUCCCUCUCUGAGUGAACCCAUGUAUGUACAUGUGCUCAUGUGUGUG
.......((..((....))..)).((((((((.....(((((...((((((.(((((..((.(((...))).))...))))).)))))))))))...)))))))) ( -32.10)
>DroYak_CAF1 39071 88 - 1
ACGCCCAGUAAGCCAGGGCACGCACGCACACAAUUACGCCUAAAGUGUACGCACGUGCCUCCCUCUCUGAGUGAACUCAUGUGUGUAU-----------------
..((((.........))))((((((((((.....(((((.....))))).....)))).........((((....)))).))))))..----------------- ( -28.10)
>DroAna_CAF1 64138 84 - 1
ACGCCCCGUAAGCCAAGGCACGCACGCACACAAUUACGCAUAAAGUGUACGCACGUGCCUCCCUCCCAGAAU----UCCUU----------UGUGUGU-------
((((..(....)...(((((((..((.((((.............)))).))..)))))))............----.....----------.))))..------- ( -18.72)
>consensus
ACGCCCAGUAAGCCAGGGCACGCACGCACACAAUUACGCAUAAAGUGUACGCACGUGCCUCCCUCUCUGAGUGAACUCAUC__________UGCUCAUGUGUAUG
.(((.(((..((...(((((((..((.((((.............)))).))..)))))))..))..))).)))................................ (-22.10 = -22.65 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,938,730 – 11,938,824
Length 94
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 85.66
Mean single sequence MFE -39.75
Consensus MFE -34.47
Energy contribution -35.05
Covariance contribution 0.58
Combinations/Pair 1.04
Mean z-score -2.75
Structure conservation index 0.87
SVM decision value 1.65
SVM RNA-class probability 0.969878
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11938730 94 + 20766785
UUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCC-----UGGCUUACUGGGCGUAUGCGUGAUGUUCGAGCCU
....(((...)))((.((((((..(((((((.............)))))))..)))))))-----)(((((...((((((.......))))))))))). ( -38.32)
>DroPse_CAF1 45189 94 + 1
-----UAGAAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCCAGCCACGGCGCACUGGGCGUAUGCGUGAUGUCGAGGCCU
-----.........(.((((((..(((((((.............)))))))..))))))).(((.((((((((...((....))))).))))).))).. ( -40.92)
>DroEre_CAF1 37534 94 + 1
UUCACUCAGAGAGGGAGGCACGUGCGUACACUUUGUGCGUAAUUGUGUGCGUGCGUGCCA-----UGGCUUACUGGGCGUAUGCGUGAUGUUCGAGCCU
(((.(((...))))))((((((..(((((((..(.......)..)))))))..)))))).-----.(((((...((((((.......))))))))))). ( -39.00)
>DroYak_CAF1 39084 94 + 1
UUCACUCAGAGAGGGAGGCACGUGCGUACACUUUAGGCGUAAUUGUGUGCGUGCGUGCCC-----UGGCUUACUGGGCGUAUGCGUGAUGUUCGAGCCU
....(((...)))((.((((((..(((((((.............)))))))..)))))))-----)(((((...((((((.......))))))))))). ( -38.32)
>DroAna_CAF1 64150 91 + 1
---AUUCUGGGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCU-----UGGCUUACGGGGCGUAUGCGUGAUGUUAGGGCCU
---...........((((((((..(((((((.............)))))))..)))))))-----)((((((((..(((....)))..)))..))))). ( -40.82)
>DroPer_CAF1 45679 94 + 1
-----UAGAAGAGAGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCCAGCCACGGCGCACUGGGCGUAUGCGUGAUGUCGAGGCCU
-----.........(.((((((..(((((((.............)))))))..))))))).(((.((((((((...((....))))).))))).))).. ( -41.12)
>consensus
___ACUCAGAGAGGGAGGCACGUGCGUACACUUUAUGCGUAAUUGUGUGCGUGCGUGCCC_____UGGCUUACUGGGCGUAUGCGUGAUGUUCGAGCCU
................((((((..(((((((.............)))))))..)))))).......(((((((...(((....)))...))..))))). (-34.47 = -35.05 +   0.58)

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 10:59:19 2006