Locus 9810

Sequence ID 3R_DroMel_CAF1
Location 26,076,967 – 26,077,104
Length 137
Max. P 0.980083
window15670 window15671 window15672

overview

Window 0

Location 26,076,967 – 26,077,064
Length 97
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 83.78
Mean single sequence MFE -33.48
Consensus MFE -21.91
Energy contribution -22.22
Covariance contribution 0.31
Combinations/Pair 1.29
Mean z-score -2.62
Structure conservation index 0.65
SVM decision value 0.24
SVM RNA-class probability 0.647330
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26076967 97 + 27905053
GGCCAACCAAAUCGGUCAGGAUGCUUCCGAUUUCGGUAAUGAAUUAGGCCAAGAGGUCAUCCAAUAUGGCCAAGAAGCUGCCAACAGCGGCUUGAAG
(((((((((((((((..((....)).))))))).))).........((((....))))........)))))...(((((((.....))))))).... ( -34.90)
>DroSec_CAF1 68671 97 + 1
GGCCAACGAAAUCGGUCAGGAUGCCUCCGCUUUCGGUAAUGAAUUAGGCCAAGAGGUCAUCCAAUAUGGCCAAGACGCCGCCAAAAGUGGCGUGAAG
(((((.((....))....(((((((((.(((((((....))))...)))...)))).)))))....)))))...(((((((.....))))))).... ( -38.50)
>DroSim_CAF1 69806 97 + 1
GGCCAACGAAAUCGGUCAGGAUGCCUCCGCUUUCGGUAAUGAAUUAGGCCAAGAGGUCACCCAAUAUGGCCAAGAAGCCGCCAAAAGCGGCGUGAAG
(((((.(((((.(((..(((...)))))).)))))...........((((....))))........))))).....(((((.....)))))...... ( -34.10)
>DroEre_CAF1 73216 97 + 1
GGCCAACCAAAUCGGUCAGGAUGCCUCCACUUUCGGCAAUGAACUAGGCCAAGAGGUCAUUCAAUAUGGCCAAGAAGCCGCUAAAAGCGGCUUGAAG
((((((((.....)))..(((((((((....((.(((..........))))))))).)))))....)))))...(((((((.....))))))).... ( -35.30)
>DroWil_CAF1 93020 95 + 1
--CCAACAAUAUCGGUGAAGAUGCCUCAAUUUUUGGCAAUGAACUGGGUGAAGCUGGCACUCAAUUUGGUCAAGACAUAUCGAACAGUGCCAUCAAA
--....((...(((((..(..((((.........)))).)..))))).))..(.(((((((...((((((........)))))).))))))).)... ( -23.00)
>DroYak_CAF1 71368 97 + 1
GGCCAACGAAAUCGGUCAGGAUGCCUCCUCUUUCGGCAAUGAAUUGGGCCAAGAGGUCAUUCAAUAUGGCCAAGAAGCCGCUAACAGCGGCCUGAAG
(((((.((....))....(((((...((((((..(((..........))))))))).)))))....))))).....(((((.....)))))...... ( -35.10)
>consensus
GGCCAACGAAAUCGGUCAGGAUGCCUCCGCUUUCGGCAAUGAAUUAGGCCAAGAGGUCAUCCAAUAUGGCCAAGAAGCCGCCAAAAGCGGCGUGAAG
(((((..........(((...((((.........)))).)))....((((....))))........))))).....(((((.....)))))...... (-21.91 = -22.22 +   0.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 26,076,984 – 26,077,104
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.17
Mean single sequence MFE -32.76
Consensus MFE -29.12
Energy contribution -28.80
Covariance contribution -0.32
Combinations/Pair 1.22
Mean z-score -1.60
Structure conservation index 0.89
SVM decision value 0.71
SVM RNA-class probability 0.828482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26076984 120 + 27905053
AGGAUGCUUCCGAUUUCGGUAAUGAAUUAGGCCAAGAGGUCAUCCAAUAUGGCCAAGAAGCUGCCAACAGCGGCUUGAAGUACGGAGAAGCAGCGGUAAGAAUUAACAAAUCUGAGGGAU
....(((((((((((((............(((((...((....))....)))))...(((((((.....)))))))))))).))))..))))............................ ( -32.60)
>DroSec_CAF1 68688 120 + 1
AGGAUGCCUCCGCUUUCGGUAAUGAAUUAGGCCAAGAGGUCAUCCAAUAUGGCCAAGACGCCGCCAAAAGUGGCGUGAAGUACGGAGAAGCAGCAGUAAGAUUAAAAAAAUACAAAGGAA
....((((((((.((((............(((((...((....))....)))))...(((((((.....)))))))))))..)))))..)))............................ ( -32.20)
>DroSim_CAF1 69823 119 + 1
AGGAUGCCUCCGCUUUCGGUAAUGAAUUAGGCCAAGAGGUCACCCAAUAUGGCCAAGAAGCCGCCAAAAGCGGCGUGAAGUACGGAGAAGCAGCAGUAAGAAUUAAAAAAU-CUAAGGAA
....((((((((.(((((...........(((((...((....))....))))).....(((((.....))))).)))))..)))))..)))...................-........ ( -30.50)
>DroEre_CAF1 73233 120 + 1
AGGAUGCCUCCACUUUCGGCAAUGAACUAGGCCAAGAGGUCAUUCAAUAUGGCCAAGAAGCCGCUAAAAGCGGCUUGAAGUAUGGAGAAGCAGCCGUAAGUAUUUCAAAAUCUAAGGGAA
.((.((((((((.(((((((..........)))....((((((.....))))))...(((((((.....)))))))))))..)))))..))).))......................... ( -36.70)
>DroYak_CAF1 71385 120 + 1
AGGAUGCCUCCUCUUUCGGCAAUGAAUUGGGCCAAGAGGUCAUUCAAUAUGGCCAAGAAGCCGCUAACAGCGGCCUGAAGUAUGGAGAAGCAGCGGUAAGUAUUUGAAAAUCUAGGGAAA
.((((((((((..(((((((..(((((..((((....))))))))).....))).....(((((.....)))))..))))...))))..)).((.....))........))))....... ( -31.80)
>consensus
AGGAUGCCUCCGCUUUCGGUAAUGAAUUAGGCCAAGAGGUCAUCCAAUAUGGCCAAGAAGCCGCCAAAAGCGGCGUGAAGUACGGAGAAGCAGCAGUAAGAAUUAAAAAAUCUAAGGGAA
....((((((((..((((((..........)))....((((((.....))))))...(((((((.....))))))))))...)))))..)))............................ (-29.12 = -28.80 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 2

Location 26,076,984 – 26,077,104
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -32.10
Consensus MFE -26.96
Energy contribution -28.00
Covariance contribution 1.04
Combinations/Pair 1.12
Mean z-score -2.21
Structure conservation index 0.84
SVM decision value 1.85
SVM RNA-class probability 0.980083
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26076984 120 - 27905053
AUCCCUCAGAUUUGUUAAUUCUUACCGCUGCUUCUCCGUACUUCAAGCCGCUGUUGGCAGCUUCUUGGCCAUAUUGGAUGACCUCUUGGCCUAAUUCAUUACCGAAAUCGGAAGCAUCCU
............................((((..((((...((((((..((((....))))..)))(((((....((....))...)))))............)))..)))))))).... ( -27.10)
>DroSec_CAF1 68688 120 - 1
UUCCUUUGUAUUUUUUUAAUCUUACUGCUGCUUCUCCGUACUUCACGCCACUUUUGGCGGCGUCUUGGCCAUAUUGGAUGACCUCUUGGCCUAAUUCAUUACCGAAAGCGGAGGCAUCCU
............................(((..((((((..((((((((.(.....).)))))...(((((....((....))...)))))............))).))))))))).... ( -30.50)
>DroSim_CAF1 69823 119 - 1
UUCCUUAG-AUUUUUUAAUUCUUACUGCUGCUUCUCCGUACUUCACGCCGCUUUUGGCGGCUUCUUGGCCAUAUUGGGUGACCUCUUGGCCUAAUUCAUUACCGAAAGCGGAGGCAUCCU
........-...................(((..((((((..(((..(((((.....))))).....(((((....((....))...)))))............))).))))))))).... ( -37.20)
>DroEre_CAF1 73233 120 - 1
UUCCCUUAGAUUUUGAAAUACUUACGGCUGCUUCUCCAUACUUCAAGCCGCUUUUAGCGGCUUCUUGGCCAUAUUGAAUGACCUCUUGGCCUAGUUCAUUGCCGAAAGUGGAGGCAUCCU
.........................((.(((..((((((.....(((((((.....))))))).(((((.....(((((..((....))....)))))..)))))..))))))))).)). ( -35.10)
>DroYak_CAF1 71385 120 - 1
UUUCCCUAGAUUUUCAAAUACUUACCGCUGCUUCUCCAUACUUCAGGCCGCUGUUAGCGGCUUCUUGGCCAUAUUGAAUGACCUCUUGGCCCAAUUCAUUGCCGAAAGAGGAGGCAUCCU
............................((((((..(.......(((((((.....))))))).(((((.....(((((..((....))....)))))..)))))..)..)))))).... ( -30.60)
>consensus
UUCCCUUAGAUUUUUUAAUUCUUACCGCUGCUUCUCCGUACUUCAAGCCGCUUUUGGCGGCUUCUUGGCCAUAUUGGAUGACCUCUUGGCCUAAUUCAUUACCGAAAGCGGAGGCAUCCU
............................(((..((((((..((((((((((.....)))))))...(((((....((....))...)))))............))).))))))))).... (-26.96 = -28.00 +   1.04)

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 13:42:46 2006