Locus 70

Sequence ID 2L_DroMel_CAF1
Location 253,594 – 253,754
Length 160
Max. P 0.848744
window109 window110

overview

Window 9

Location 253,594 – 253,714
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.61
Mean single sequence MFE -44.03
Consensus MFE -21.13
Energy contribution -20.22
Covariance contribution -0.91
Combinations/Pair 1.39
Mean z-score -2.62
Structure conservation index 0.48
SVM decision value 0.78
SVM RNA-class probability 0.848744
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 253594 120 - 22407834
AACUACAUUAAGAAUGUGCGCCAGCACAUCAAGAUUCCAAUGCUUGCCAACGGAAACAUCCUGGCCCUGGACGACGUUCAUCGUUGUCUGACUGAAACAGGAGUCGAUGGUGUAAUGAGC
...(((((((.((.(((((....)))))))..((((((.......((((..(((....)))))))...((((((((.....))))))))..........))))))..)))))))...... ( -39.20)
>DroPse_CAF1 64224 120 - 1
AGUUACAUACAGGAGGUGCGAAAGCACCUGAAAAUACCCAUGUUCGCCAAUGGCAAUAUACUGGGACUGGAGGAUGUCCACCGGUGUCUGGACGAGACGGGCGUGGAUGGUGUGAUGACU
((((((((((...((((((....))))))........(((((((((((...)))......(..(((((((.((....)).))))).))..).......))))))))...))))).))))) ( -49.30)
>DroGri_CAF1 57970 120 - 1
AGUUAUAUUAAAGAUGUGCGCGAGCACAUUAAGAUACCCAUGCUUGCCAAUGGCAAUAUAUUGGGCGUGGAGGAUGUGCAUCGUUGUCUGACGGAGACGGGGGUCGAUGGUGUCAUGACU
((((((......(((((((....))))))).......((((((...((((((......)))))))))))).......(((((((((.((..((....))..)).))))))))).)))))) ( -46.50)
>DroEre_CAF1 47385 120 - 1
AACUACAUCAAGAGUGUGCGGCAGCACAUCAAGAUUCCAAUGCUUGCCAACGGAAACAUCCUGGGCCUGGAGGACGUACACCGUUGCCUGGCGGAAACGGGAGUCGAUGGCGUAAUGAGC
.((..((((..((.(((((....)))))))..((((((...(((.(.((((((..((.((((........)))).))...)))))).).)))(....).))))))))))..))....... ( -41.80)
>DroYak_CAF1 48893 120 - 1
AACUACAUUAAGAGUGUGCGGCAGCACGUCAAGAUUCCAAUGCUGGCCAACGGAAACAUCCUGGGCCUGGAGGACGUACACCGUUGCCUGGCCGAAACGGGAGUCGAUGGCGUAAUGAGC
.....(((((.....((((....))))((((.((((((.....(((((...(((....))).((((.(((.(......).)))..))))))))).....))))))..)))).)))))... ( -41.10)
>DroPer_CAF1 65043 120 - 1
AGUUACAUACAGGAGGUGCGACAGCACCUGAAAAUACCCAUGUUCGCCAAUGGCAAUAUACUGGGACUGGAGGAUGUCCACCGGUGUCUGGACGAGACGGGCGUGGAUGGUGUGAUGACU
((((((((((...((((((....))))))........(((((((((((...)))......(..(((((((.((....)).))))).))..).......))))))))...))))).))))) ( -46.30)
>consensus
AACUACAUUAAGAAUGUGCGACAGCACAUCAAGAUACCAAUGCUUGCCAACGGAAACAUACUGGGCCUGGAGGACGUACACCGUUGUCUGGCCGAAACGGGAGUCGAUGGUGUAAUGACC
.............((((((....)))))).................(((.(((.......)))....)))....((((((((((((((((.......))))...)))))))).))))... (-21.13 = -20.22 +  -0.91)

alignment

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secondary structure

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dotplot

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Window 0

Location 253,634 – 253,754
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.50
Mean single sequence MFE -41.43
Consensus MFE -27.91
Energy contribution -26.63
Covariance contribution -1.27
Combinations/Pair 1.45
Mean z-score -1.84
Structure conservation index 0.67
SVM decision value 0.41
SVM RNA-class probability 0.726620
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 253634 120 - 22407834
CAGAGAGCAGAAGGGUCCGCUGACCGGGGUGGCUAAUUGGAACUACAUUAAGAAUGUGCGCCAGCACAUCAAGAUUCCAAUGCUUGCCAACGGAAACAUCCUGGCCCUGGACGACGUUCA
....((((......(((((..(.((((((((((..(((((((((......)).((((((....)))))).....)))))))....)))...(....)))))))))..)))))...)))). ( -40.40)
>DroPse_CAF1 64264 120 - 1
CAGAGAGCAGAAGGGACCCCUGACAGGUGUGGCCGAUUGGAGUUACAUACAGGAGGUGCGAAAGCACCUGAAAAUACCCAUGUUCGCCAAUGGCAAUAUACUGGGACUGGAGGAUGUCCA
(((.(((((...(((...((((....((((((((.....).))))))).))))((((((....)))))).......))).)))))(((...)))......)))((((........)))). ( -46.80)
>DroGri_CAF1 58010 120 - 1
ACGUGAGCAGAAGGGUCCACUUACCGGCAUAGCCGAUUGGAGUUAUAUUAAAGAUGUGCGCGAGCACAUUAAGAUACCCAUGCUUGCCAAUGGCAAUAUAUUGGGCGUGGAGGAUGUGCA
..(((..(......)..)))......(((((.((..................(((((((....))))))).......((((((...((((((......)))))))))))).)).))))). ( -38.40)
>DroEre_CAF1 47425 120 - 1
CAGAGAGCAGAAGGGUCCGCUGACCGGGGUGGCCAAUUGGAACUACAUCAAGAGUGUGCGGCAGCACAUCAAGAUUCCAAUGCUUGCCAACGGAAACAUCCUGGGCCUGGAGGACGUACA
..............((((.(((.((((((((((..((((((.....(((..((.(((((....)))))))..)))))))))....)))...(....))))))))...))).))))..... ( -38.80)
>DroYak_CAF1 48933 120 - 1
GAGAGAGCAGAAGGGUCCACUGACCGGGGUGGCCGAUUGGAACUACAUUAAGAGUGUGCGGCAGCACGUCAAGAUUCCAAUGCUGGCCAACGGAAACAUCCUGGGCCUGGAGGACGUACA
..............((((.(((.(((((((((((((((((((((......)).((((((....))))).)....)))))))..)))))...(....))))))))...))).))))..... ( -40.20)
>DroPer_CAF1 65083 120 - 1
CAGAGAGCAGAAGGGGCCCCUGACAGGUGUGGCCGAUUGGAGUUACAUACAGGAGGUGCGACAGCACCUGAAAAUACCCAUGUUCGCCAAUGGCAAUAUACUGGGACUGGAGGAUGUCCA
(((.(((((...(((...((((....((((((((.....).))))))).))))((((((....)))))).......))).)))))(((...)))......)))((((........)))). ( -44.00)
>consensus
CAGAGAGCAGAAGGGUCCACUGACCGGGGUGGCCGAUUGGAACUACAUUAAGAAUGUGCGACAGCACAUCAAGAUACCAAUGCUUGCCAACGGAAACAUACUGGGCCUGGAGGACGUACA
..............((((.((..((((((((.(((.((((..((......)).((((((....)))))).................)))))))...))))))))....)).))))..... (-27.91 = -26.63 +  -1.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:01 2006