Locus 5280

Sequence ID 2L_DroMel_CAF1
Location 14,890,376 – 14,890,487
Length 111
Max. P 0.997923
window8399 window8400

overview

Window 9

Location 14,890,376 – 14,890,487
Length 111
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 91.40
Mean single sequence MFE -25.21
Consensus MFE -24.16
Energy contribution -24.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.96
SVM decision value 2.90
SVM RNA-class probability 0.997650
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14890376 111 + 22407834
ACUGCAGUAACUUUGCGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGCAAAGCCCGCUGCCAGUUCGCCACA---UCUCCUCUUCG
((((((((..((((((((.......((((....)))).((((.(((.................))).)))).))))))))...)))).))))........---........... ( -26.23)
>DroSim_CAF1 47767 111 + 1
ACUGCAGUAACUUUGCGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGCAAAGCCCGCUGCCAGUUCGCCACA---UCUCCUCCUCG
((((((((..((((((((.......((((....)))).((((.(((.................))).)))).))))))))...)))).))))........---........... ( -26.23)
>DroEre_CAF1 47590 110 + 1
ACUGCAGUAACUUUGCGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGCAAAGCCCGCUACCAGUUCGCCACA---UCUCCUCCA-G
((((.(((..((((((((.......((((....)))).((((.(((.................))).)))).))))))))...)))..))))........---.........-. ( -21.53)
>DroYak_CAF1 47359 110 + 1
ACUGCAGUAACUUUGCGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGCAAAGCCCGCUGCCAGUUCGCCACA---UCUCCUUCU-G
((((((((..((((((((.......((((....)))).((((.(((.................))).)))).))))))))...)))).))))........---.........-. ( -26.23)
>DroAna_CAF1 50512 108 + 1
ACUGCAGUAACUUUACGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGAAAAGCUCGCUGCCAGUGUUCUUC-----CUCCUGCU-U
((((((((.................((((....))))..((((...........(((((((...........))))))))))))))).)))).......-----........-. ( -22.20)
>DroPer_CAF1 87466 113 + 1
ACUGCAGUAACUUUGCGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGCAAAGCUCGCUGGCAGUUCGCUCCUCGGUGGCCUUUC-C
(((((((..(((((((((.......((((....)))).((((.(((.................))).)))).)))))))).)..)).)))))(((((....)))))......-. ( -28.83)
>consensus
ACUGCAGUAACUUUGCGCCAUAAAAUAGGAUUUCCUACUGAGCCUAUUCACAACUUUUCGCAUUAGACUUAAGCGCAAAGCCCGCUGCCAGUUCGCCACA___UCUCCUCCU_G
((((((((..((((((((.......((((....)))).((((.(((.................))).)))).))))))))...)))).))))...................... (-24.16 = -24.50 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,890,376 – 14,890,487
Length 111
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 91.40
Mean single sequence MFE -33.37
Consensus MFE -32.78
Energy contribution -32.58
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.98
SVM decision value 2.96
SVM RNA-class probability 0.997923
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14890376 111 - 22407834
CGAAGAGGAGA---UGUGGCGAACUGGCAGCGGGCUUUGCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGCAAAGUUACUGCAGU
...........---........((((.(((..(((((((((((..((((((..((((....))))...)))))).((((((....))))))....))))))))))).))))))) ( -33.80)
>DroSim_CAF1 47767 111 - 1
CGAGGAGGAGA---UGUGGCGAACUGGCAGCGGGCUUUGCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGCAAAGUUACUGCAGU
...........---........((((.(((..(((((((((((..((((((..((((....))))...)))))).((((((....))))))....))))))))))).))))))) ( -33.80)
>DroEre_CAF1 47590 110 - 1
C-UGGAGGAGA---UGUGGCGAACUGGUAGCGGGCUUUGCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGCAAAGUUACUGCAGU
(-((.((....---(((.((......)).)))(((((((((((..((((((..((((....))))...)))))).((((((....))))))....))))))))))).)).))). ( -33.40)
>DroYak_CAF1 47359 110 - 1
C-AGAAGGAGA---UGUGGCGAACUGGCAGCGGGCUUUGCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGCAAAGUUACUGCAGU
.-.........---........((((.(((..(((((((((((..((((((..((((....))))...)))))).((((((....))))))....))))))))))).))))))) ( -33.80)
>DroAna_CAF1 50512 108 - 1
A-AGCAGGAG-----GAAGAACACUGGCAGCGAGCUUUUCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGUAAAGUUACUGCAGU
.-.((((.((-----((....(((((((.((.((((((((((...........))))))))))))......)).)))).)....))))......((((.....))))))))... ( -30.80)
>DroPer_CAF1 87466 113 - 1
G-GAAAGGCCACCGAGGAGCGAACUGCCAGCGAGCUUUGCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGCAAAGUUACUGCAGU
(-(.....))............(((((.((..(((((((((((..((((((..((((....))))...)))))).((((((....))))))....))))))))))).))))))) ( -34.60)
>consensus
C_AGGAGGAGA___UGUGGCGAACUGGCAGCGGGCUUUGCGCUUAAGUCUAAUGCGAAAAGUUGUGAAUAGGCUCAGUAGGAAAUCCUAUUUUAUGGCGCAAAGUUACUGCAGU
......................((((.(((..(((((((((((..((((((..((((....))))...)))))).((((((....))))))....))))))))))).))))))) (-32.78 = -32.58 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:25 2006