Locus 6690

Sequence ID 3L_DroMel_CAF1
Location 17,819,362 – 17,819,482
Length 120
Max. P 0.834982
window10888 window10889

overview

Window 8

Location 17,819,362 – 17,819,482
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.39
Mean single sequence MFE -39.67
Consensus MFE -22.42
Energy contribution -22.95
Covariance contribution 0.53
Combinations/Pair 1.33
Mean z-score -2.02
Structure conservation index 0.57
SVM decision value 0.28
SVM RNA-class probability 0.665263
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17819362 120 + 23771897
GCAAUGGCCAGGGAAAAAAGUAUGGUCACCACGAAGGCAAACAGAUCCGGAUAGGCACCCAUUCCCUCGAUGUUGAGGGGCAUGUGGGUGCCCAGGAAACUGCUCAUCGGAUUGCCGCAA
((..((((((............)))))).......((((.....((((((...((((((((((((((((....)))))))...)))))))))(((....)))....)))))))))))).. ( -52.40)
>DroPse_CAF1 1449 120 + 1
GCAAUGGCCAACGAGAACAGUAUGGUGACCACAAAGGCGAACAGAUCCGGAUAGGCACCCAGACCCUGUAUAUUAAUGGGCAUAUGGGUGCCCAGAAAGCUGCUCAUUGGGUUCCCACAA
....(((((((.(((..((((...((..((.....))...))...........((((((((..(((...........)))....))))))))......))))))).))))....)))... ( -32.90)
>DroEre_CAF1 1582 120 + 1
GCAAUGGCCAGGGAAAAAAGUAUGGUUACCACGAAGGCAAACAGAUCCGGAUAGGCACUCAUUCCCUCAAUAUUGAGGGGCAUGUGGGUGCCCAGGAAACUACUCAUCGGAUUGCCGCAA
((..((((((............)))))).......((((.....((((((...((((((((((((((((....)))))))...))))))))).((....)).....)))))))))))).. ( -45.70)
>DroWil_CAF1 3963 120 + 1
GCUAUGCCCCAGGAGAAUAAUAUCGUGACGAUAAAUGCAAACAAAUCUGGAUACGCACUCAAGCCCUGGACAUUAAUGGGCAAAUGUGUGCCCAGGAAAUCACGCAUGGCAUAACCGCAA
((((((((.((.((........)).)).......((((.......(((((.((((((.....((((...........))))...)))))).))))).......))))))))))...)).. ( -33.24)
>DroAna_CAF1 1449 120 + 1
GCGAUGGCAAGGGAGAAGAGAAUGGUCACCACGAAGGCAAAGAGAUCCGGAUAGGCGCCCAUGCCCUCAAUGUUGAUGGGUAGGUGGGUGCCCAGAAAGGUGCUCAUCGGAUUGCCGCAU
..(.((((((....((........(((........)))...(((..((.....((((((((((((((((....))).))))..)))))))))......))..))).))...))))))).. ( -40.90)
>DroPer_CAF1 1464 120 + 1
GCAAUGGCCAACGAGAACAGUAUGGUGACCACAAAGGCGAACAGAUCCGGAUAGGCACCCAGACCCUGUAUAUUAAUGGGCAUAUGGGUGCCCAGAAAGCUGCUCAUUGGGUUCCCACAA
....(((((((.(((..((((...((..((.....))...))...........((((((((..(((...........)))....))))))))......))))))).))))....)))... ( -32.90)
>consensus
GCAAUGGCCAAGGAGAAAAGUAUGGUGACCACAAAGGCAAACAGAUCCGGAUAGGCACCCAUACCCUCAAUAUUAAUGGGCAUAUGGGUGCCCAGAAAACUGCUCAUCGGAUUGCCGCAA
......................((((..((.....))......(((((((...((((((((..(((...........)))....))))))))(((....)))....)))))))))))... (-22.42 = -22.95 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,819,362 – 17,819,482
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.39
Mean single sequence MFE -39.86
Consensus MFE -25.58
Energy contribution -25.58
Covariance contribution 0.00
Combinations/Pair 1.27
Mean z-score -2.05
Structure conservation index 0.64
SVM decision value 0.73
SVM RNA-class probability 0.834982
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17819362 120 - 23771897
UUGCGGCAAUCCGAUGAGCAGUUUCCUGGGCACCCACAUGCCCCUCAACAUCGAGGGAAUGGGUGCCUAUCCGGAUCUGUUUGCCUUCGUGGUGACCAUACUUUUUUCCCUGGCCAUUGC
....(((((........((((..(((((((((((((.....(((((......)))))..))))))))))...))).)))))))))...(..(((.(((............))).)))..) ( -44.10)
>DroPse_CAF1 1449 120 - 1
UUGUGGGAACCCAAUGAGCAGCUUUCUGGGCACCCAUAUGCCCAUUAAUAUACAGGGUCUGGGUGCCUAUCCGGAUCUGUUCGCCUUUGUGGUCACCAUACUGUUCUCGUUGGCCAUUGC
.(((((..(((((((((((((..(((((((((((((...((((...........)))).))))))))))...))).)))))))...))).)))..))))).((..(.....)..)).... ( -43.10)
>DroEre_CAF1 1582 120 - 1
UUGCGGCAAUCCGAUGAGUAGUUUCCUGGGCACCCACAUGCCCCUCAAUAUUGAGGGAAUGAGUGCCUAUCCGGAUCUGUUUGCCUUCGUGGUAACCAUACUUUUUUCCCUGGCCAUUGC
....(((.....((.(((((...((((((((((...(((..((((((....)))))).))).)))))))...)))..((.(((((.....))))).)))))))...))....)))..... ( -38.20)
>DroWil_CAF1 3963 120 - 1
UUGCGGUUAUGCCAUGCGUGAUUUCCUGGGCACACAUUUGCCCAUUAAUGUCCAGGGCUUGAGUGCGUAUCCAGAUUUGUUUGCAUUUAUCGUCACGAUAUUAUUCUCCUGGGGCAUAGC
.....(((((((((((((.......((((..((.(((((((((...........))))..))))).))..)))).......))))).(((((...)))))............)))))))) ( -35.94)
>DroAna_CAF1 1449 120 - 1
AUGCGGCAAUCCGAUGAGCACCUUUCUGGGCACCCACCUACCCAUCAACAUUGAGGGCAUGGGCGCCUAUCCGGAUCUCUUUGCCUUCGUGGUGACCAUUCUCUUCUCCCUUGCCAUCGC
....(((((((((..(((.....)))(((((.((((....(((.(((....))))))..)))).)))))..)))).....(..((.....))..)...............)))))..... ( -34.70)
>DroPer_CAF1 1464 120 - 1
UUGUGGGAACCCAAUGAGCAGCUUUCUGGGCACCCAUAUGCCCAUUAAUAUACAGGGUCUGGGUGCCUAUCCGGAUCUGUUCGCCUUUGUGGUCACCAUACUGUUCUCGUUGGCCAUUGC
.(((((..(((((((((((((..(((((((((((((...((((...........)))).))))))))))...))).)))))))...))).)))..))))).((..(.....)..)).... ( -43.10)
>consensus
UUGCGGCAAUCCGAUGAGCAGCUUCCUGGGCACCCACAUGCCCAUCAAUAUACAGGGAAUGGGUGCCUAUCCGGAUCUGUUUGCCUUCGUGGUCACCAUACUGUUCUCCCUGGCCAUUGC
....((..((((((.((((((..(((((((((((((....(((...........)))..))))))))))...))).))))))....))).)))..))....................... (-25.58 = -25.58 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:42 2006