Locus 7676

Sequence ID 3R_DroMel_CAF1
Location 20,582,875 – 20,582,995
Length 120
Max. P 0.620289
window12382 window12383

overview

Window 2

Location 20,582,875 – 20,582,995
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 85.44
Mean single sequence MFE -53.13
Consensus MFE -40.51
Energy contribution -39.43
Covariance contribution -1.08
Combinations/Pair 1.35
Mean z-score -2.20
Structure conservation index 0.76
SVM decision value 0.18
SVM RNA-class probability 0.620289
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20582875 120 + 27905053
AAGUUUCAUGCGGCGGCCACGGUGCUCCAGAAAUGGUGGCGCCGUCACUGGCUGCACGUUGUUAUCCAGCGUCGCAUUCGCCACAAAGAGCUUAUGCGUCGCCACCGGGCCGCUACUGUC
.........(..(((((((((((((((((....))).))))))))...((((.((((((((.....)))))).((((..((........))..)))))).))))...))))))..).... ( -52.50)
>DroPse_CAF1 7783 120 + 1
AAGUUCCACGCGGCUGCCACGGUUCUCCAGAAAUGGUGGCGUCGCCGUUGGCUGCGCGUUGUCAUCCAGCGUCGCAUACGCCACAAGGAGUUGAUGCGUCGCCACCGGGCAGCCACUGUC
...........(((((((.((((...(((....))).((((.(((.((..(((((((((((.....))))).))).....((....)))))..))))).)))))))))))))))...... ( -56.30)
>DroEre_CAF1 7383 120 + 1
AAGUUCCAUGCAGCGGCCACGGUGCUUCAGAAAUGGUGGCGCCGUCGCUGGCUGCACGUUAUCAUCCAGCGGCGCAUCCGCCACAAGGAGCUUAUGCGUCGCCACCGGGCCGCUACUGUC
...........(((((((.(((((...((....))(((((((.((((((((.((........)).))))))))((.(((.......)))))....)))))))))))))))))))...... ( -56.10)
>DroYak_CAF1 7345 120 + 1
AAGUUCCAUGCGGCGGCCACGGUGCUACAGAAAUGGUGGCGCCGUCGCUGGCUGCACGUUGUCAUCCAGCGGCGCAUCCGCCACAAGGAGCUAAUGCGUCGCCACCGGGCCGCUACUGUC
......((.(..((((((.(((((...((....))(((((((.((((((((.(((.....).)).))))))))((.(((.......)))))....))))))))))))))))))..))).. ( -57.70)
>DroAna_CAF1 8216 120 + 1
AAAUUCCAUGCAGCCGCAGCUGUACUCCAGAAGUGGUGGCGCAAGCGUUGGCUCCAUGUCGUCAUUCAGCGUCGCAUCCGUCAAAAGGAACUCAUGCGCCGGCACAGGGCAGCCACUGUG
.....((.((((((....))))))........(((.(((((((.(((...(((..(((....)))..)))..))).(((.......))).....))))))).))).))((((...)))). ( -40.10)
>DroPer_CAF1 7764 120 + 1
AAGUUCCACGCGGCUGCCACGGUUCUCCAGAAGUGGUGGCGUCGCCGUUGGCUGCGCGUUGUCAUCCAGCGUCGCAUACGCCAAAAGGAGUUGAUGCGUCGCCACCGGGCAGCCACUGUC
...........(((((((..((....)).....((((((((.(((.((..(((((((((((.....))))).))).....((....)))))..))))).)))))))))))))))...... ( -56.10)
>consensus
AAGUUCCAUGCGGCGGCCACGGUGCUCCAGAAAUGGUGGCGCCGUCGCUGGCUGCACGUUGUCAUCCAGCGUCGCAUCCGCCACAAGGAGCUGAUGCGUCGCCACCGGGCAGCCACUGUC
...........(((((((.((((..........((((((((.(((.((.....))))).))))).)))(((.(((((..((........))..))))).))).)))))))))))...... (-40.51 = -39.43 +  -1.08)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 20,582,875 – 20,582,995
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.44
Mean single sequence MFE -51.84
Consensus MFE -43.01
Energy contribution -43.57
Covariance contribution 0.56
Combinations/Pair 1.19
Mean z-score -1.65
Structure conservation index 0.83
SVM decision value 0.12
SVM RNA-class probability 0.593615
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20582875 120 - 27905053
GACAGUAGCGGCCCGGUGGCGACGCAUAAGCUCUUUGUGGCGAAUGCGACGCUGGAUAACAACGUGCAGCCAGUGACGGCGCCACCAUUUCUGGAGCACCGUGGCCGCCGCAUGAAACUU
..(((..((((((((((((((.(((((..(((......)))..))))).((((((...((...))....))))))....)))))))......((....))).))))))..).))...... ( -50.50)
>DroPse_CAF1 7783 120 - 1
GACAGUGGCUGCCCGGUGGCGACGCAUCAACUCCUUGUGGCGUAUGCGACGCUGGAUGACAACGCGCAGCCAACGGCGACGCCACCAUUUCUGGAGAACCGUGGCAGCCGCGUGGAACUU
..((((((((((((((((....).......((((..(((((((.((((.((.((.....)).))))))(((...))).))))))).......)))).)))).))))))))).))...... ( -55.00)
>DroEre_CAF1 7383 120 - 1
GACAGUAGCGGCCCGGUGGCGACGCAUAAGCUCCUUGUGGCGGAUGCGCCGCUGGAUGAUAACGUGCAGCCAGCGACGGCGCCACCAUUUCUGAAGCACCGUGGCCGCUGCAUGGAACUU
..((((((((((((((((.(((.((....))))...((((((..(((((.((((.(((....))).))))..))).)).))))))..........)))))).))))))))).))...... ( -55.20)
>DroYak_CAF1 7345 120 - 1
GACAGUAGCGGCCCGGUGGCGACGCAUUAGCUCCUUGUGGCGGAUGCGCCGCUGGAUGACAACGUGCAGCCAGCGACGGCGCCACCAUUUCUGUAGCACCGUGGCCGCCGCAUGGAACUU
..(((..((((((((.((((..(((.((..((((..((((((....)))))).))).)..)).)))..)))).))((((.((.((.......)).)).))))))))))..).))...... ( -53.00)
>DroAna_CAF1 8216 120 - 1
CACAGUGGCUGCCCUGUGCCGGCGCAUGAGUUCCUUUUGACGGAUGCGACGCUGAAUGACGACAUGGAGCCAACGCUUGCGCCACCACUUCUGGAGUACAGCUGCGGCUGCAUGGAAUUU
..(((..(((((.((((((.((((((.....(((.......))).(((..(((..(((....)))..)))...))).)))))).(((....))).))))))..)))))..).))...... ( -44.20)
>DroPer_CAF1 7764 120 - 1
GACAGUGGCUGCCCGGUGGCGACGCAUCAACUCCUUUUGGCGUAUGCGACGCUGGAUGACAACGCGCAGCCAACGGCGACGCCACCACUUCUGGAGAACCGUGGCAGCCGCGUGGAACUU
..(((((((((((((((((((.(((...........(((((...((((.((.((.....)).)))))))))))..))).)))))))......((....))).))))))))).))...... ( -53.12)
>consensus
GACAGUAGCGGCCCGGUGGCGACGCAUAAGCUCCUUGUGGCGGAUGCGACGCUGGAUGACAACGUGCAGCCAACGACGGCGCCACCAUUUCUGGAGCACCGUGGCCGCCGCAUGGAACUU
..(((((((((((((((((((.(((((..(((......)))..)))))..((((.(((....))).)))).........)))).(((....)))...)))).))))))))).))...... (-43.01 = -43.57 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:44 2006