Locus 847

Sequence ID 2R_DroMel_CAF1
Location 3,969,210 – 3,969,450
Length 240
Max. P 0.664756
window1469 window1470

overview

Window 9

Location 3,969,210 – 3,969,330
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.72
Mean single sequence MFE -37.27
Consensus MFE -15.74
Energy contribution -16.13
Covariance contribution 0.39
Combinations/Pair 1.43
Mean z-score -2.26
Structure conservation index 0.42
SVM decision value 0.25
SVM RNA-class probability 0.651294
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3969210 120 + 20766785
CCGAUCGUAUGAACCAGUCGCACUCGUCACUGGUGUGGUUGGGCACAAAGUCCAGAAUGAUUUUGAUGUCCAGCUCUUUGGCGCGCGCAAGCAGGGCCUCGAAAUCCUCCAUUGUGCCGA
............((((((.((....)).))))))..((((((((((((((((......))))))).)))))))))..(((((((((....))((((........)))).....))))))) ( -44.10)
>DroVir_CAF1 21465 120 + 1
CAGAGCGUAUAAACCAGUCGCACUCAUCAGACGAGUGGUUGGGCACAAAGUCCAAAAUGAUUUUGAUGUCCAGCUGCUUGGCGCGCUCUAACAACUUUUCAAAGUCCUCCAUGUUGCCAA
.(((((((........(((..........)))(((..(((((((((((((((......))))))).))))))))..)))...)))))))..((((.................)))).... ( -39.53)
>DroGri_CAF1 16069 120 + 1
CCGAUCGGAUGAACCAAUCGCACUCAUCACUCGAGUGAUUUGGCACAAAGUCCAAAAUAAUUUUAAUAUUCAUCUGGUUGGCUUUCUGCACAAGUGCCUCGAAAUCAGACAUGGUGCCAA
(((((((((((((((((...(((((.......)))))..))))...(((((........)))))....)))))))))))))......((((..(((.((.(....))).))).))))... ( -32.70)
>DroWil_CAF1 17808 120 + 1
CCGAACGGAUAAACCAAUCACACUCAUCACUAGUGUGAUUAGGCACAAAGUCCAAAAUGAUUUUGAUAUCCAAUUGCUUGGCACGCGCCACCAAAGCAUCAAAAUCUUCCAUGGUGCCAA
......(((((..(((((((((((.......))))))))).))..(((((((......))))))).)))))..(((..((((....)))).))).((((((..........))))))... ( -33.70)
>DroMoj_CAF1 22325 120 + 1
CCGAGCGAAUGAACCAAUCGCACUCAUCGGACGAAUGAUUUGGCACAAAGUCCAGGAUGAUUUUGAUGUUCAGCUGAUUGGCGCGCGCCAGCAAUUUAUCAAAGUCCUCCAUGGUGCCAA
((((((((.((...)).)))).....)))).........((((((......((((((.((((((((((....(((....(((....))))))....)))))))))).))).))))))))) ( -37.50)
>DroAna_CAF1 15144 120 + 1
CGGAUCUGAUAAACCAGUCGCACUCAUCGCUAGUGUGGUUGGGCACAAAAUCAAGGAUAAUCUUGAUGUCCAGUUCCUUGGCGCGGGCCACUAGUUUCUCAAAGUCCUCCAUGGUGCCGA
.(((.(((.....(((..((((((.......))))))..))).......((((((......))))))...))).)))((((((((((..(((..........)))..)))...))))))) ( -36.10)
>consensus
CCGAUCGGAUAAACCAAUCGCACUCAUCACUCGAGUGAUUGGGCACAAAGUCCAAAAUGAUUUUGAUGUCCAGCUGCUUGGCGCGCGCCACCAAUGCCUCAAAAUCCUCCAUGGUGCCAA
......(((((........((.((.(((((....))))).)))).(((((((......))))))).)))))......(((((((.............................))))))) (-15.74 = -16.13 +   0.39)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 3,969,330 – 3,969,450
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.44
Mean single sequence MFE -35.12
Consensus MFE -21.34
Energy contribution -20.82
Covariance contribution -0.52
Combinations/Pair 1.46
Mean z-score -1.67
Structure conservation index 0.61
SVM decision value 0.28
SVM RNA-class probability 0.664756
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3969330 120 - 20766785
AACAGCUGCCUUACCUAAAGGAAAUUGGCAUCACAGCCACCUGGCUUUCCCCGAUCUUCACCUCACCCAUGGCUGAUUUCGGCUACGAUGUGGCUGAUCUUAAGGGUAUUGAUCCCAUAU
..(((((.((((.....))))......(((((..((((....))))....((((...(((((........)).)))..))))....)))))))))).......(((.......))).... ( -33.80)
>DroVir_CAF1 21585 120 - 1
AACAGCUGGCCUAUCUGAAAGAGAUCGGUACUACAGCCACUUGGCUGUCGCCGAUUUUCACCUCGCCCAUGGCAGACUUUGGCUAUGAUGUGGCCGAUUUCUACGACAUUGACCCACUCU
....((((((.....((((...(((((((...((((((....)))))).)))))))))))....)))...)))(((..((((((((...))))))))..))).................. ( -37.50)
>DroGri_CAF1 16189 120 - 1
AACAGCUGGCAUAUCUGAAAGAGAUUGGCAUCACAGCCACUUGGCUAUCGCCGAUUUUCACGUCGCCCAUGGCGGACUUUGGCUAUGAUGUGGCCAAUUUCUAUGAAAUUGAUCCGGUCU
....(((((((..((....((((((((((((((.(((((.(((((....))))).......((((((...))).)))..))))).))))...))))))))))..))...))..))))).. ( -39.90)
>DroWil_CAF1 17928 120 - 1
AACAGUUGGCUUAUCUAAAGGAAAUUGGUAUCACUGCCACCUGGCUUUCACCCAUUUUCACCUCACCCAUGGCUGACUUUGGCUAUGAUGUGGCCAAUUUGACAGAAAUCGAUCCACUUU
...(((((((.........((((((.(((......(((....)))....))).))))))....(((.(((((((......)))))))..))))))))))..................... ( -30.20)
>DroMoj_CAF1 22445 120 - 1
AGCAGCUGAGCUAUCUGAAAGAGAUUGGCGUGACGGCCACUUGGCUCUCGCCGAUUUUCACAUCUCCGAUGGCAGACUUUGGCUAUGAUGUGGCUGAUUUUUACAACAUCGACCCAAUGU
.........((((((.((..((((((((((.((..(((....))))).))))))))))......)).))))))..((.((((...((((((..............))))))..)))).)) ( -34.64)
>DroAna_CAF1 15264 120 - 1
AGCAGUUGCCGUAUCUUAAGGAAAUCGGCAUUACUGCAACCUGGCUGUCCCCCAUCUUCACCUCGCCCAUGGCUGACUUUGGCUACGAUGUGGCCGAUCUCAAGAACAUUGACCCAAUCU
.((((((((((..((.....))...)))))..)))))....(((..(((.....((((......(((...))).((..((((((((...))))))))..)))))).....)))))).... ( -34.70)
>consensus
AACAGCUGGCCUAUCUGAAAGAAAUUGGCAUCACAGCCACCUGGCUGUCGCCGAUUUUCACCUCGCCCAUGGCUGACUUUGGCUAUGAUGUGGCCGAUUUCAACGACAUUGACCCAAUCU
....((((............(((((((((.....((((....))))...)))))))))...........))))(((..((((((((...))))))))..))).................. (-21.34 = -20.82 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:50 2006