Locus 1946

Sequence ID 2R_DroMel_CAF1
Location 7,344,022 – 7,344,142
Length 120
Max. P 0.543640
window3215 window3216

overview

Window 5

Location 7,344,022 – 7,344,142
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.17
Mean single sequence MFE -52.23
Consensus MFE -28.50
Energy contribution -29.87
Covariance contribution 1.37
Combinations/Pair 1.27
Mean z-score -2.30
Structure conservation index 0.55
SVM decision value -0.01
SVM RNA-class probability 0.526248
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7344022 120 + 20766785
UGGCCCGAAGUGCGGACCAAAUCCACGAGGCAUCAUGCCAUGCGGAGGUGGAUGCAUAAAGUGAUGCGGAGGCGGCGGUGGGCGCCCCGCAAACGGAUGUCCCAUGGGCACACCAUUCGA
..(((((..(((((..(((..(((.((.(((.....))).)).)))..))).)))))...((..(((((.((((.(....).))))))))).))((.....)).)))))........... ( -50.80)
>DroSec_CAF1 139628 120 + 1
UGGCCCGAAGUGCGGACCAAAUCCACGUGGCAUCAUGCCAUGCGGAGGUGGAUGCAUAAAGUGAUGCGGGGGCGGCGGUGGGCGCCCCGCAAACGGGUGUCCCAUGGACACACCAUUCGA
.....(((((((((..(((..(((.((((((.....)))))).)))..))).)))))...((..(((((((.((.(....).))))))))).))((((((((...)))))).)).)))). ( -59.50)
>DroEre_CAF1 139577 120 + 1
UGGCCCAAAGGGCGGACCAAAUCCACGGGGCAUCAUGCCGUGCGGAGGCGGAUGCAUAAAGUGAUGCGGAGGCGGCGGUGGACGCCCCGCAAACGGAUGUCCCAUGGGCACACCAUUCGA
..(((((..(((((..((.....(((...(((((.((((.......))))))))).....))).(((((.((((........)))))))))...)).)))))..)))))........... ( -53.00)
>DroYak_CAF1 144104 120 + 1
UGGCCCAAAGGGCAGACCAAAUCCACGGGGCAUCAUGCCAUGCGGAGGUGGAUGCAUAAAGUGAUGCGGAGGCGGCGGUGGACGCCCCGCAAACGGAUGUCCCAUGGGCACACCAUUCGA
..(((((..(((((..(((..(((.((.(((.....))).)).)))..))).........((..(((((.((((........))))))))).))...)))))..)))))........... ( -51.50)
>DroAna_CAF1 133209 120 + 1
UGGUGCAAAAGGAGGACCAAAUCCUCUCGUCAUCAUUCCAUGCGGCAUCGGUGGGAGAAAAUGAUGCGGUGGUGGCGGUGGACGCGCCCCAAAAGGAUGACCCAUUGGCACUCCAUUAGA
.(((((....((((((.....)))))).((((((.......((.((((((...........)))))).))((.(((((....).)))))).....))))))......)))))........ ( -40.20)
>DroPer_CAF1 105803 117 + 1
UAGCCCAAAGGGCGGAGGAAAUCCCCGAGGCAUCAUGCCGUGCGGGGGCG---GCAUGAAGUGAUGUGGCGGCUGCGCGGGAUGCCUUCCAAAUGGAAGUCCCAUCGGAUGCCCAUUGGG
...(((((.(((((((.....)))((((((((((...((((((((..((.---((((......)))).))..))))))))))))))((((....))))......))))..)))).))))) ( -58.40)
>consensus
UGGCCCAAAGGGCGGACCAAAUCCACGAGGCAUCAUGCCAUGCGGAGGCGGAUGCAUAAAGUGAUGCGGAGGCGGCGGUGGACGCCCCGCAAACGGAUGUCCCAUGGGCACACCAUUCGA
..(((((....(.((((...((((.....(((((((...(((((........)))))...)))))))((.((((.(....).))))))......))))))))).)))))........... (-28.50 = -29.87 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 7,344,022 – 7,344,142
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.17
Mean single sequence MFE -48.15
Consensus MFE -26.96
Energy contribution -29.22
Covariance contribution 2.26
Combinations/Pair 1.21
Mean z-score -2.24
Structure conservation index 0.56
SVM decision value 0.02
SVM RNA-class probability 0.543640
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7344022 120 - 20766785
UCGAAUGGUGUGCCCAUGGGACAUCCGUUUGCGGGGCGCCCACCGCCGCCUCCGCAUCACUUUAUGCAUCCACCUCCGCAUGGCAUGAUGCCUCGUGGAUUUGGUCCGCACUUCGGGCCA
..(((((((((.((....))))).))))))((((((((........)))).))))...................(((((..(((.....)))..)))))..(((((((.....))))))) ( -46.80)
>DroSec_CAF1 139628 120 - 1
UCGAAUGGUGUGUCCAUGGGACACCCGUUUGCGGGGCGCCCACCGCCGCCCCCGCAUCACUUUAUGCAUCCACCUCCGCAUGGCAUGAUGCCACGUGGAUUUGGUCCGCACUUCGGGCCA
.(((((((.((((((...))))))))))))).((((((........)))))).((((......)))).......(((((.((((.....)))).)))))..(((((((.....))))))) ( -54.70)
>DroEre_CAF1 139577 120 - 1
UCGAAUGGUGUGCCCAUGGGACAUCCGUUUGCGGGGCGUCCACCGCCGCCUCCGCAUCACUUUAUGCAUCCGCCUCCGCACGGCAUGAUGCCCCGUGGAUUUGGUCCGCCCUUUGGGCCA
........((.(((((.(((....(((((..(((((((((....((((.....((((......))))....((....)).))))..)))))))))..)))..))....)))..))))))) ( -51.30)
>DroYak_CAF1 144104 120 - 1
UCGAAUGGUGUGCCCAUGGGACAUCCGUUUGCGGGGCGUCCACCGCCGCCUCCGCAUCACUUUAUGCAUCCACCUCCGCAUGGCAUGAUGCCCCGUGGAUUUGGUCUGCCCUUUGGGCCA
........((.(((((.(((....(((((..(((((((((....(((((....))........((((..........)))))))..)))))))))..)))..))....)))..))))))) ( -48.50)
>DroAna_CAF1 133209 120 - 1
UCUAAUGGAGUGCCAAUGGGUCAUCCUUUUGGGGCGCGUCCACCGCCACCACCGCAUCAUUUUCUCCCACCGAUGCCGCAUGGAAUGAUGACGAGAGGAUUUGGUCCUCCUUUUGCACCA
......((((..((((......((((((((((((((.(....))))).))).((((((((....(((...((....))...))))))))).)))))))))))))..)))).......... ( -37.60)
>DroPer_CAF1 105803 117 - 1
CCCAAUGGGCAUCCGAUGGGACUUCCAUUUGGAAGGCAUCCCGCGCAGCCGCCACAUCACUUCAUGC---CGCCCCCGCACGGCAUGAUGCCUCGGGGAUUUCCUCCGCCCUUUGGGCUA
(((((.((((..((((.(((((((((....)))))...))))((((....)).........((((((---((........)))))))).)).))))(((.....))))))).)))))... ( -50.00)
>consensus
UCGAAUGGUGUGCCCAUGGGACAUCCGUUUGCGGGGCGUCCACCGCCGCCUCCGCAUCACUUUAUGCAUCCACCUCCGCAUGGCAUGAUGCCCCGUGGAUUUGGUCCGCCCUUUGGGCCA
..((((((.(((((....)).)))))))))((((((((........)))).))))....................((((..(((.....)))..))))...(((((((.....))))))) (-26.96 = -29.22 +   2.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:00 2006