Locus 1088

Sequence ID 2R_DroMel_CAF1
Location 4,381,646 – 4,381,752
Length 106
Max. P 0.860416
window1925 window1926

overview

Window 5

Location 4,381,646 – 4,381,752
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.47
Mean single sequence MFE -30.83
Consensus MFE -23.43
Energy contribution -23.63
Covariance contribution 0.20
Combinations/Pair 1.34
Mean z-score -1.81
Structure conservation index 0.76
SVM decision value 0.83
SVM RNA-class probability 0.860416
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4381646 106 + 20766785
----------ACCUCUAUAGGACGAUUAUCUCGCUGGGAUACUACAUAACCAUGGACAAGCCACCAGCACGCAUUCGCCCAGUGCGCCUGCCCAACGAGAUCUUCAUGCAGGGCAA
----------.(((....)))..((..((((((.((((..............(((.....))).(((..((((((.....)))))).))))))).))))))..)).(((...))). ( -28.00)
>DroVir_CAF1 61924 110 + 1
------CUCCCGCUUUGCAGAACCAUUAUUUCGUUGGGCUACUAUAUAACCAUGGAUAAGCCGCCGGCACGCAUACGUCCCGUCCGCCUGCCCAACGAGAUAUUCAUGCAAGCCAA
------.....((((.((((((....(((((((((((((..((((......))))....((.(.(((.(((....))).))).).))..)))))))))))))))).)))))))... ( -38.20)
>DroGri_CAF1 8945 106 + 1
----------CUCUUUGCAGGACAAUCAUUUCGUUGGGUUAUUAUAUAACGAUGGAUAAGCCACCGGCACGUAUACGCCCCGUGCGGCUGCCCAACGAGAUAUUCAUGCAGGCCAA
----------...((((((.((.....((((((((((((..((((......))))...((((.((((..((....))..))).).))))))))))))))))..)).)))))).... ( -33.30)
>DroMoj_CAF1 4089 107 + 1
---------UCCAUUUCCAGAACUAUCAUCUCUUUGGGCUACUAUAUAACCAUGGAUAAGCCACCAGCACGCAUACGACCCGUGCGCCUGCCCAACGAGAUAUUUAUGCAGGCCAA
---------.......((.((....))(((((.((((((.............(((........)))(((((.........)))))....)))))).))))).........)).... ( -24.90)
>DroAna_CAF1 8380 106 + 1
----------CCUUUCGCAGGACAAUCAUUUCCCUGGGCUACUACAUAACCAUGGACAAGCCGCCAGCCCGCAUUCGUCCAGUGCGCCUACCCAACGAGAUCUUCAUGCAGGGCAA
----------.......((((...........))))((((....(((....)))....))))....((((((((((((...(((....)))...)))).......)))).)))).. ( -24.01)
>DroPer_CAF1 23483 116 + 1
GCUUUAUUUCCCCCCCGCAGGACAAUCAUUUCGUUGGGCUACUACAUAACCAUGGAUAAGCCACCCGCCCGCAUUCGUCCGGUGCGUCUGCCCAACGAGAUCUUCAUGCAGGGCAA
............(((.(((.((.....((((((((((((.............(((.....)))..((((((........))).)))...))))))))))))..)).))).)))... ( -36.60)
>consensus
__________CCCUUUGCAGGACAAUCAUUUCGUUGGGCUACUACAUAACCAUGGAUAAGCCACCAGCACGCAUACGUCCCGUGCGCCUGCCCAACGAGAUAUUCAUGCAGGCCAA
.............(((((((((.....((((((((((((.............(((.....)))......(((((.......)))))...)))))))))))).))).)))))).... (-23.43 = -23.63 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 6

Location 4,381,646 – 4,381,752
Length 106
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 80.47
Mean single sequence MFE -38.13
Consensus MFE -24.02
Energy contribution -24.17
Covariance contribution 0.14
Combinations/Pair 1.40
Mean z-score -1.49
Structure conservation index 0.63
SVM decision value 0.03
SVM RNA-class probability 0.547127
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4381646 106 - 20766785
UUGCCCUGCAUGAAGAUCUCGUUGGGCAGGCGCACUGGGCGAAUGCGUGCUGGUGGCUUGUCCAUGGUUAUGUAGUAUCCCAGCGAGAUAAUCGUCCUAUAGAGGU----------
..((((((.((((..((((((((((((((((.(((..((((....))).)..))))))))))))(((............))))))))))..))))....))).)))---------- ( -39.60)
>DroVir_CAF1 61924 110 - 1
UUGGCUUGCAUGAAUAUCUCGUUGGGCAGGCGGACGGGACGUAUGCGUGCCGGCGGCUUAUCCAUGGUUAUAUAGUAGCCCAACGAAAUAAUGGUUCUGCAAAGCGGGAG------
((.(((((((.((((...(((((((((((((.(.(((.(((....))).))).).))))..(....)..........))))))))).......))))))).)))).))..------ ( -41.00)
>DroGri_CAF1 8945 106 - 1
UUGGCCUGCAUGAAUAUCUCGUUGGGCAGCCGCACGGGGCGUAUACGUGCCGGUGGCUUAUCCAUCGUUAUAUAAUAACCCAACGAAAUGAUUGUCCUGCAAAGAG----------
......((((.((..((((((((((..((((((.(((.(((....))).)))))))))........(((((...))))))))))))...)))..)).)))).....---------- ( -37.30)
>DroMoj_CAF1 4089 107 - 1
UUGGCCUGCAUAAAUAUCUCGUUGGGCAGGCGCACGGGUCGUAUGCGUGCUGGUGGCUUAUCCAUGGUUAUAUAGUAGCCCAAAGAGAUGAUAGUUCUGGAAAUGGA---------
....((........((((((.((((((..(((((((.((...)).)))))..((((((.......))))))...)).)))))).))))))........)).......--------- ( -30.69)
>DroAna_CAF1 8380 106 - 1
UUGCCCUGCAUGAAGAUCUCGUUGGGUAGGCGCACUGGACGAAUGCGGGCUGGCGGCUUGUCCAUGGUUAUGUAGUAGCCCAGGGAAAUGAUUGUCCUGCGAAAGG----------
((((((...((((.....)))).)))))).((((..((((((...(((((.....)))))(((..((((((...))))))...))).....)))))))))).....---------- ( -33.20)
>DroPer_CAF1 23483 116 - 1
UUGCCCUGCAUGAAGAUCUCGUUGGGCAGACGCACCGGACGAAUGCGGGCGGGUGGCUUAUCCAUGGUUAUGUAGUAGCCCAACGAAAUGAUUGUCCUGCGGGGGGGAAAUAAAGC
((.(((((((.((.(((((((((((((...(((.(((........)))))).((((((.......))))))......)))))))))...)))).)).))))))).))......... ( -47.00)
>consensus
UUGCCCUGCAUGAAGAUCUCGUUGGGCAGGCGCACGGGACGAAUGCGUGCUGGUGGCUUAUCCAUGGUUAUAUAGUAGCCCAACGAAAUGAUUGUCCUGCAAAGGG__________
......((((.((.(((((((((((((((.(((.(((..((....))..)))))).))...(....)..........)))))))))...)))).)).))))............... (-24.02 = -24.17 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:12 2006