Locus 6610

Sequence ID 2L_DroMel_CAF1
Location 18,585,370 – 18,585,467
Length 97
Max. P 0.882505
window10550 window10551

overview

Window 0

Location 18,585,370 – 18,585,467
Length 97
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 88.65
Mean single sequence MFE -29.55
Consensus MFE -24.09
Energy contribution -24.07
Covariance contribution -0.03
Combinations/Pair 1.18
Mean z-score -2.61
Structure conservation index 0.82
SVM decision value 0.83
SVM RNA-class probability 0.862622
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18585370 97 + 22407834
GUCCUGUC--------UGUAAGUCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCAACGAGGAAGAGGAGCUGGCAGAAAAAAAAAUGCAGGACACU
((((((((--------(((.(((((..((((.(((((.......))))).))))(((...(....).)))....))).)).))))..........)))))))... ( -29.10)
>DroSec_CAF1 61782 95 + 1
GUCCUGUC--------UGUGAGUCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCAACGAGGAAGAGGAGCUGGCAGAAA--AAAAUGCAGGACACU
((((((((--------(((.(((((..((((.(((((.......))))).))))(((...(....).)))....))).)).))))...--.....)))))))... ( -31.40)
>DroSim_CAF1 62680 95 + 1
GUCCUGUC--------UGUGAGUCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCAACGAGGAAGAGGAGCUGGCAGAAA--AAAAUGCAGGACACU
((((((((--------(((.(((((..((((.(((((.......))))).))))(((...(....).)))....))).)).))))...--.....)))))))... ( -31.40)
>DroEre_CAF1 61410 91 + 1
GUCCUGUC--------UGUGAGUCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCCACGGGGAAGAGGAGCUGGCA---A---AAAUGCAGGACACU
(((((((.--------(((.(((((...((..(((((.......))))).(((((.....)))))...))....))).)).)))---.---....)))))))... ( -29.40)
>DroYak_CAF1 62267 100 + 1
GUCCUGUCUGCGAGUCUGUGAGUCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCCACGAGGAAGAGGAGCUGGUA---A--AAAAUGCAGGACUCU
(((((((.(((.(((((((((.(((((.........)))))....)))).(((((.....))))).........))).)).)))---.--.....)))))))... ( -30.10)
>DroAna_CAF1 56749 97 + 1
GUCCUGUC--------UGUGAGCCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCAAUGAGGAAGAGGCGCCGGCGAAAAGGAAAACGCCAAACAGU
.......(--------(((..((((..((((.(((((.......))))).))))(((.((....)).)))...))))...((((..........))))..)))). ( -25.90)
>consensus
GUCCUGUC________UGUGAGUCUGAGCCAAGUAAUCAGAAUAAUUACAUGGCCCUAAUGGCAACGAGGAAGAGGAGCUGGCAGAAA__AAAAUGCAGGACACU
(((((((.........(((.(((((..((((.(((((.......))))).))))(((...(....).)))....)).))).)))...........)))))))... (-24.09 = -24.07 +  -0.03)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,585,370 – 18,585,467
Length 97
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 88.65
Mean single sequence MFE -26.77
Consensus MFE -22.21
Energy contribution -22.27
Covariance contribution 0.06
Combinations/Pair 1.09
Mean z-score -2.47
Structure conservation index 0.83
SVM decision value 0.92
SVM RNA-class probability 0.882505
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18585370 97 - 22407834
AGUGUCCUGCAUUUUUUUUUCUGCCAGCUCCUCUUCCUCGUUGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGACUUACA--------GACAGGAC
...(((((((...........((.((((...........)))).))...((((((.((((((.....)))))).)))))).........--------).)))))) ( -25.80)
>DroSec_CAF1 61782 95 - 1
AGUGUCCUGCAUUUU--UUUCUGCCAGCUCCUCUUCCUCGUUGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGACUCACA--------GACAGGAC
...(((((((.....--....((.((((...........)))).))...((((((.((((((.....)))))).)))))).........--------).)))))) ( -25.80)
>DroSim_CAF1 62680 95 - 1
AGUGUCCUGCAUUUU--UUUCUGCCAGCUCCUCUUCCUCGUUGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGACUCACA--------GACAGGAC
...(((((((.....--....((.((((...........)))).))...((((((.((((((.....)))))).)))))).........--------).)))))) ( -25.80)
>DroEre_CAF1 61410 91 - 1
AGUGUCCUGCAUUU---U---UGCCAGCUCCUCUUCCCCGUGGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGACUCACA--------GACAGGAC
...(((((((....---.---.((((..............)))).....((((((.((((((.....)))))).)))))).........--------).)))))) ( -26.84)
>DroYak_CAF1 62267 100 - 1
AGAGUCCUGCAUUUU--U---UACCAGCUCCUCUUCCUCGUGGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGACUCACAGACUCGCAGACAGGAC
...(((((((.....--.---.....((..(........)..)).....((((((.((((((.....)))))).)))))).................).)))))) ( -25.90)
>DroAna_CAF1 56749 97 - 1
ACUGUUUGGCGUUUUCCUUUUCGCCGGCGCCUCUUCCUCAUUGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGGCUCACA--------GACAGGAC
.((((((((((((..(......)..))))))...........(((....((((((.((((((.....)))))).)))))).)))....)--------)))))... ( -30.50)
>consensus
AGUGUCCUGCAUUUU__UUUCUGCCAGCUCCUCUUCCUCGUUGCCAUUAGGGCCAUGUAAUUAUUCUGAUUACUUGGCUCAGACUCACA________GACAGGAC
...(((((((................((..(........)..)).....((((((.((((((.....)))))).)))))).................).)))))) (-22.21 = -22.27 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:32 2006