Locus 2497

Sequence ID 3L_DroMel_CAF1
Location 7,012,010 – 7,012,116
Length 106
Max. P 0.964764
window3874 window3875

overview

Window 4

Location 7,012,010 – 7,012,116
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.58
Mean single sequence MFE -54.35
Consensus MFE -42.40
Energy contribution -42.52
Covariance contribution 0.11
Combinations/Pair 1.08
Mean z-score -3.40
Structure conservation index 0.78
SVM decision value 1.57
SVM RNA-class probability 0.964764
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7012010 106 + 23771897
GAAGGGCGAGCCAGGCGUCGACGGGCUGCCCGGAGUCAUGGGUCCGCCGGGACCACCGGGCCCGCCUGGUUUGCCCGAGAAUUACGAUGUAAGUAUUCCA--------------AUGGAA
...((((((((((((((.(..((((...))))..).)..(((((((..(....)..))))))))))))))))))))(.((((.((.......))))))).--------------...... ( -52.70)
>DroVir_CAF1 51896 114 + 1
GAAGGGCGAGCCAGGCGUCGACGGCAUGCCCGGAGUGAUGGGUCCGCCCGGACCUCCGGGCCCGCCUGGCUUGCCGGAGAGCUAUGAUGUGAGUACAAC------UUUAAUUCUAUUCAA
....((((((((((((((.....))..((((((((...((((....))))...))))))))..)))))))))))).........(((...((((.....------....))))...))). ( -55.10)
>DroGri_CAF1 45763 114 + 1
GAAGGGCGAGCCAGGCGUUGACGGCAUGCCCGGCGUCAUGGGUCCACCAGGACCUGCGGGCCCGCCUGGCUUGCCAGAGAGCUACGAUGUAAGUACACC------UUUAAUUCGAUUUAC
(((.((((((((((((..(((((.(......).))))).((((((..(((...))).))))))))))))))))))((((...(((.......)))...)------)))..)))....... ( -50.30)
>DroMoj_CAF1 45307 114 + 1
GAAGGGCGAGCCAGGCGUCGACGGCAUGCCCGGAGUGAUGGGUCCACCCGGACCCCCGGGCCCGCCUGGCUUGCCAGAGAGCUAUGAUGUGAGUACAAG------UUGAAUUCGUUUUAA
....((((((((((((((.....))..((((((......((((((....))))))))))))..)))))))))))).........(((..(((((.(...------..).)))))..))). ( -54.00)
>DroAna_CAF1 43393 120 + 1
GAAGGGCGAGCCAGGCGUCGACGGUAUGCCCGGGGUCGUGGGUCCGCCGGGACCACCGGGCCCGCCUGGUUUGCCCGAGAAUUACGAUGUAAGUAUUCCGAAUAUUUUAAUUCUAUUUAA
...((((((((((((((....)((...((((((((((.(((.....))).)))).))))))))))))))))))))).(((((((.(((((..(.....)..))))).)))))))...... ( -61.10)
>DroPer_CAF1 46605 119 + 1
GAAGGGCGAGCCAGGCGUCGAUGGUCUGCCCGGAGUCGCGGGUCCACCGGGACCAGCAGGCCCGCCUGGUUUGCCAGAGAACUACGAUGUAAGUAUCCUUCAAGAUAU-AACCUAUUUAA
(((((((((((((((((.....(((((((...(.(((.(((.....))).)))).))))))))))))))))))))..........((((....)))))))).......-........... ( -52.90)
>consensus
GAAGGGCGAGCCAGGCGUCGACGGCAUGCCCGGAGUCAUGGGUCCACCGGGACCACCGGGCCCGCCUGGCUUGCCAGAGAACUACGAUGUAAGUACACC______UUUAAUUCUAUUUAA
....(((((((((((((....)((...((((((.......(((((....))))).))))))))))))))))))))............................................. (-42.40 = -42.52 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,012,010 – 7,012,116
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.58
Mean single sequence MFE -44.93
Consensus MFE -35.10
Energy contribution -34.88
Covariance contribution -0.22
Combinations/Pair 1.13
Mean z-score -1.90
Structure conservation index 0.78
SVM decision value 0.92
SVM RNA-class probability 0.881507
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7012010 106 - 23771897
UUCCAU--------------UGGAAUACUUACAUCGUAAUUCUCGGGCAAACCAGGCGGGCCCGGUGGUCCCGGCGGACCCAUGACUCCGGGCAGCCCGUCGACGCCUGGCUCGCCCUUC
......--------------.(((((((.......)).))))).((((...(((((((((((....)))))((((((.(((........)))....))))))..))))))...))))... ( -42.20)
>DroVir_CAF1 51896 114 - 1
UUGAAUAGAAUUAAA------GUUGUACUCACAUCAUAGCUCUCCGGCAAGCCAGGCGGGCCCGGAGGUCCGGGCGGACCCAUCACUCCGGGCAUGCCGUCGACGCCUGGCUCGCCCUUC
.(((.((.(((....------))).)).)))..............(((.(((((((((.((((((((....(((....)))....))))))))..........))))))))).))).... ( -48.50)
>DroGri_CAF1 45763 114 - 1
GUAAAUCGAAUUAAA------GGUGUACUUACAUCGUAGCUCUCUGGCAAGCCAGGCGGGCCCGCAGGUCCUGGUGGACCCAUGACGCCGGGCAUGCCGUCAACGCCUGGCUCGCCCUUC
...............------(((((....)))))..........(((.((((((((((((..(((.(.(((((((.........)))))))).))).)))..))))))))).))).... ( -45.20)
>DroMoj_CAF1 45307 114 - 1
UUAAAACGAAUUCAA------CUUGUACUCACAUCAUAGCUCUCUGGCAAGCCAGGCGGGCCCGGGGGUCCGGGUGGACCCAUCACUCCGGGCAUGCCGUCGACGCCUGGCUCGCCCUUC
...............------........................(((.(((((((((.((((((((((((....))))))......))))))..........))))))))).))).... ( -46.40)
>DroAna_CAF1 43393 120 - 1
UUAAAUAGAAUUAAAAUAUUCGGAAUACUUACAUCGUAAUUCUCGGGCAAACCAGGCGGGCCCGGUGGUCCCGGCGGACCCACGACCCCGGGCAUACCGUCGACGCCUGGCUCGCCCUUC
.......((((......))))(((.(((.......))).)))..((((...(((((((....(((((..(((((.((........)))))))..)))))....)))))))...))))... ( -46.00)
>DroPer_CAF1 46605 119 - 1
UUAAAUAGGUU-AUAUCUUGAAGGAUACUUACAUCGUAGUUCUCUGGCAAACCAGGCGGGCCUGCUGGUCCCGGUGGACCCGCGACUCCGGGCAGACCAUCGACGCCUGGCUCGCCCUUC
......(((..-.(((..(((((....))).))..)))..)))..(((...(((((((((((....)))))((((((.((((......))))....))))))..))))))...))).... ( -41.30)
>consensus
UUAAAUAGAAUUAAA______GGUAUACUUACAUCGUAGCUCUCUGGCAAACCAGGCGGGCCCGGUGGUCCCGGCGGACCCAUGACUCCGGGCAUGCCGUCGACGCCUGGCUCGCCCUUC
.............................................(((...(((((((((((....)))))((((((.(((........)))....))))))..))))))...))).... (-35.10 = -34.88 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:08 2006