Locus 5683

Sequence ID 3R_DroMel_CAF1
Location 14,907,610 – 14,907,714
Length 104
Max. P 0.848683
window9290 window9291

overview

Window 0

Location 14,907,610 – 14,907,714
Length 104
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 80.74
Mean single sequence MFE -28.64
Consensus MFE -17.16
Energy contribution -17.28
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -2.01
Structure conservation index 0.60
SVM decision value 0.51
SVM RNA-class probability 0.763006
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14907610 104 + 27905053
AUGGCCAAGUGGGGAUCUGCUUGCCUCCCAGCU-CACAUACCUGUGGUGGUGGCGGCGCGUCUUAUUAGAAUUUAUGA-UUCCCAUCU---------UUUUCUUUUUUGCUUUCU
..((..(((((((((((.(((((((.((..((.-((((....)))))))).))))).)).(((....)))......))-)))))).))---------)..))............. ( -28.80)
>DroSim_CAF1 34896 113 + 1
AUGGCCAAGUGGGGAUCUGCUUGCCUCCCAGCU-CACAUACCUGUGGUGGUGGCGGCGCGUCUUAUUAGAAUUUAUGA-UUCCCAUCUAUUUUUUCUUUUUUUUUUUUGCUUUCU
........(((((((((.(((((((.((..((.-((((....)))))))).))))).)).(((....)))......))-)))))))............................. ( -28.50)
>DroEre_CAF1 34363 94 + 1
AUGGCCAAGUGGGGAUCUGCUUGCCUCCCAGCU-CACAUACCUGUGG---UGGCGGCGCGUCUUAUUAGAAUUUAUGA-UCCCCAUCU----------------UUCUGCUUUCU
..(((.(((((((((((.(((((((.(((((..-.......))).))---.))))).)).(((....)))......))-)))))).))----------------)...))).... ( -31.60)
>DroYak_CAF1 41274 94 + 1
AUGGCCAAGUGGGGAUCUGCUUGCCUCCCAGCU-CACAUACCUGUGG---UGGCGGCGCGUCUUAUUAGAAUUUAUGA-UCCCCAUCU----------------UUUUGCUUUCU
..(((.(((((((((((.(((((((.(((((..-.......))).))---.))))).)).(((....)))......))-)))))).))----------------)...))).... ( -31.60)
>DroAna_CAF1 32893 87 + 1
AUGGCACAGUGG-AAUCAGCCU-CGUAUAGGCUAUAUAUACCUGUGG---UGGCGGCGCGUCUUAUUAGAAUUUAUGAGUUGCCAUCU----------------UUUU-------
....(((((((.-....(((((-.....))))).....)).)))))(---(((((((.(((((....))).....)).))))))))..----------------....------- ( -22.70)
>consensus
AUGGCCAAGUGGGGAUCUGCUUGCCUCCCAGCU_CACAUACCUGUGG___UGGCGGCGCGUCUUAUUAGAAUUUAUGA_UUCCCAUCU________________UUUUGCUUUCU
........(((((((((.(((((((.(((((..........))).))....))))).)).(((....)))......)).)))))))............................. (-17.16 = -17.28 +   0.12)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,907,610 – 14,907,714
Length 104
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 80.74
Mean single sequence MFE -26.58
Consensus MFE -14.42
Energy contribution -14.74
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -2.28
Structure conservation index 0.54
SVM decision value 0.78
SVM RNA-class probability 0.848683
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14907610 104 - 27905053
AGAAAGCAAAAAAGAAAA---------AGAUGGGAA-UCAUAAAUUCUAAUAAGACGCGCCGCCACCACCACAGGUAUGUG-AGCUGGGAGGCAAGCAGAUCCCCACUUGGCCAU
.................(---------((.((((.(-((......(((....))).((...(((.((((((((....))))-.).)))..)))..)).))).)))))))...... ( -25.20)
>DroSim_CAF1 34896 113 - 1
AGAAAGCAAAAAAAAAAAAGAAAAAAUAGAUGGGAA-UCAUAAAUUCUAAUAAGACGCGCCGCCACCACCACAGGUAUGUG-AGCUGGGAGGCAAGCAGAUCCCCACUUGGCCAU
..........................(((.((((.(-((......(((....))).((...(((.((((((((....))))-.).)))..)))..)).))).)))).)))..... ( -23.80)
>DroEre_CAF1 34363 94 - 1
AGAAAGCAGAA----------------AGAUGGGGA-UCAUAAAUUCUAAUAAGACGCGCCGCCA---CCACAGGUAUGUG-AGCUGGGAGGCAAGCAGAUCCCCACUUGGCCAU
.....((...(----------------((.((((((-((......(((....))).(((((.(((---(((((....))))-.).)))..)))..)).))))))))))).))... ( -33.10)
>DroYak_CAF1 41274 94 - 1
AGAAAGCAAAA----------------AGAUGGGGA-UCAUAAAUUCUAAUAAGACGCGCCGCCA---CCACAGGUAUGUG-AGCUGGGAGGCAAGCAGAUCCCCACUUGGCCAU
.....((...(----------------((.((((((-((......(((....))).(((((.(((---(((((....))))-.).)))..)))..)).))))))))))).))... ( -33.10)
>DroAna_CAF1 32893 87 - 1
-------AAAA----------------AGAUGGCAACUCAUAAAUUCUAAUAAGACGCGCCGCCA---CCACAGGUAUAUAUAGCCUAUACG-AGGCUGAUU-CCACUGUGCCAU
-------....----------------..((((((..........................(((.---.....))).....((((((.....-))))))...-......)))))) ( -17.70)
>consensus
AGAAAGCAAAA________________AGAUGGGAA_UCAUAAAUUCUAAUAAGACGCGCCGCCA___CCACAGGUAUGUG_AGCUGGGAGGCAAGCAGAUCCCCACUUGGCCAU
..............................((((((.((...............(((..((............))..)))...(((........))).))))))))......... (-14.42 = -14.74 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:39 2006