Locus 2855

Sequence ID 2L_DroMel_CAF1
Location 8,178,128 – 8,178,288
Length 160
Max. P 0.900428
window4540 window4541

overview

Window 0

Location 8,178,128 – 8,178,248
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.94
Mean single sequence MFE -44.05
Consensus MFE -33.11
Energy contribution -32.00
Covariance contribution -1.11
Combinations/Pair 1.35
Mean z-score -3.26
Structure conservation index 0.75
SVM decision value 1.01
SVM RNA-class probability 0.900428
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8178128 120 + 22407834
UCUUCAAGAACUUCAAGGAUGUCUUCUGGCGCUUCCUGGAGCUGCACAUCAUGAAGGCUGUGUAUAUCGCAGCCUUCGUGUGCAGUGUCAGCGAAGUCUGCGUACUGCACAUUAUCUUUG
.............((((((((((....)))((((((((..(((((((((...((((((((((.....)))))))))))))))))))..))).))))).(((.....)))....))))))) ( -49.60)
>DroVir_CAF1 21764 120 + 1
UAUUCAAGCGUUUCAAGACCGUCUUCUGGCGCUUCCUGGAGCUGCACAUCAUGAAGGCCGUUUAUAUAGCGGCCUUCGUGUGCAGCGUCAGCGAAGUAUGCGUCCUGCACAUUGUCUUUG
..............(((((.(((....)))((((((((..(((((((((...((((((((((.....)))))))))))))))))))..))).))))).(((.....)))....))))).. ( -51.60)
>DroGri_CAF1 24166 120 + 1
UCUUCAAGAGAUUCAAGACCGUCUUUUGGCGCUUCCUCGAGCUGCACAUCAUGAAGGCCGUUUACAUCGCCGCCUUCGUCUGCAGCGUCAGCGAAGUUUGUGUCCUGCACAUUGUCUUUG
...(((((((((........))))))))).(((((((.((((((((....((((((((.((.......)).)))))))).)))))).)))).))))).((((.....))))......... ( -38.30)
>DroWil_CAF1 5788 120 + 1
UAUUCAAGAAUUUCAAAGAUGUCUUCUGGCGUUUUCUUGAGCUGCAUAUUAUGAAGGCUGUCUAUUUGGCAGCUUUUAUCUGCAGUGUCAGUGAGGUUUGUGUCCUCCAUAUUUUUUUCG
...(((((((.......((((((....)))))))))))))((((((....((((((((((((.....)))))))))))).))))))....(.((((.......)))))............ ( -38.01)
>DroMoj_CAF1 21773 120 + 1
UAUUCAAGCGCUUCAAGACCGUCUUCUGGCGCUUCCUCGAGCUGCACAUCAUGAAGGCCGUCUACAUAGCCGCCUUCGUGUGCAGCGUGAGCGAGGUCUGUGUGCUGCACAUCAUCUUUG
......(((((....((((((((....)))...((((((.(((((((((...((((((.((.......)).))))))))))))))).)))).)))))))..))))).............. ( -48.50)
>DroAna_CAF1 5024 120 + 1
UAUUCAAGAACUUCAAGGAUGUCUUUUGGCGCUUCCUGGAGCUGCACAUCAUGAAGGCCGUCUACAUAGCCGCCUUUGUCUGCAGUGUCAGCGAGGUGUGUGUCCUGCACAUCGUCUUCG
...............((((((.......((((((((((..((((((....(..(((((.((.......)).)))))..).))))))..))).)))))))(((.....)))..)))))).. ( -38.30)
>consensus
UAUUCAAGAACUUCAAGAACGUCUUCUGGCGCUUCCUGGAGCUGCACAUCAUGAAGGCCGUCUACAUAGCCGCCUUCGUCUGCAGCGUCAGCGAAGUCUGUGUCCUGCACAUUGUCUUUG
..............((((..(((....)))(((((((((.((((((....((((((((.(((.....))).)))))))).)))))).)))).))))).((((.....))))...)))).. (-33.11 = -32.00 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 8,178,168 – 8,178,288
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.72
Mean single sequence MFE -49.65
Consensus MFE -36.70
Energy contribution -37.62
Covariance contribution 0.92
Combinations/Pair 1.29
Mean z-score -2.60
Structure conservation index 0.74
SVM decision value 0.62
SVM RNA-class probability 0.802820
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8178168 120 + 22407834
GCUGCACAUCAUGAAGGCUGUGUAUAUCGCAGCCUUCGUGUGCAGUGUCAGCGAAGUCUGCGUACUGCACAUUAUCUUUGUGGGUUUCUGUGUGCUGGGCGCCACCUCGCGGAAGGCCGU
(((((((((...((((((((((.....)))))))))))))))))))....((((.((..((((...((((((.((((....))))....))))))...)))).)).))))((....)).. ( -55.20)
>DroVir_CAF1 21804 120 + 1
GCUGCACAUCAUGAAGGCCGUUUAUAUAGCGGCCUUCGUGUGCAGCGUCAGCGAAGUAUGCGUCCUGCACAUUGUCUUUGUGGGCUUCUGUGUGCUAGGCGCCACCUCUCGCAAGGCUGU
(((((((((...((((((((((.....)))))))))))))))))))(((.((((((...(((((..((((((.((((....))))....))))))..)))))...)).))))..)))... ( -60.80)
>DroGri_CAF1 24206 120 + 1
GCUGCACAUCAUGAAGGCCGUUUACAUCGCCGCCUUCGUCUGCAGCGUCAGCGAAGUUUGUGUCCUGCACAUUGUCUUUGUCGGCUUCUGUGUGCUAGGCGCCACAUCACGUAAGGCCGU
((((((....((((((((.((.......)).)))))))).))))))....((((((..((((.....))))....))))))((((...((((.((.....))))))...(....))))). ( -42.20)
>DroWil_CAF1 5828 120 + 1
GCUGCAUAUUAUGAAGGCUGUCUAUUUGGCAGCUUUUAUCUGCAGUGUCAGUGAGGUUUGUGUCCUCCAUAUUUUUUUCGUCGGCUUCUGUGUGCUGGGAGCCACCUCAAGGAAGGGCGU
((((((....((((((((((((.....)))))))))))).)))))).((..((((((.((((.....))))...........(((((((.......)))))))))))))..))....... ( -43.90)
>DroMoj_CAF1 21813 120 + 1
GCUGCACAUCAUGAAGGCCGUCUACAUAGCCGCCUUCGUGUGCAGCGUGAGCGAGGUCUGUGUGCUGCACAUCAUCUUUGUGGGCUUCUGUGUGCUGGGCGCGACGUCGAGGAAGUCGGU
(((((((((...((((((.((.......)).))))))))))))))).....(((.(((.((((.(.((((((..(((....))).....)))))).).))))))).)))........... ( -47.50)
>DroAna_CAF1 5064 120 + 1
GCUGCACAUCAUGAAGGCCGUCUACAUAGCCGCCUUUGUCUGCAGUGUCAGCGAGGUGUGUGUCCUGCACAUCGUCUUCGUGGGCUUCUGCGUGCUGGGCGCCACGUCGCGCAAGGCCAU
((((((....(..(((((.((.......)).)))))..).))))))(((.((((.(((.((((((.((((..((....))...((....)))))).))))))))).))))....)))... ( -48.30)
>consensus
GCUGCACAUCAUGAAGGCCGUCUACAUAGCCGCCUUCGUCUGCAGCGUCAGCGAAGUCUGUGUCCUGCACAUUGUCUUUGUGGGCUUCUGUGUGCUGGGCGCCACCUCGCGGAAGGCCGU
((((((....((((((((.(((.....))).)))))))).))))))....((((.((..((((((.((((((.(((......)))....)))))).)))))).)).)))).......... (-36.70 = -37.62 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:00 2006