Locus 7760

Sequence ID 2L_DroMel_CAF1
Location 21,894,675 – 21,894,808
Length 133
Max. P 0.979890
window12445 window12446

overview

Window 5

Location 21,894,675 – 21,894,771
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.50
Mean single sequence MFE -34.48
Consensus MFE -16.10
Energy contribution -16.93
Covariance contribution 0.83
Combinations/Pair 1.20
Mean z-score -1.82
Structure conservation index 0.47
SVM decision value 0.49
SVM RNA-class probability 0.756641
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21894675 96 + 22407834
UUCU--CUCC-GACGA---GA-AGGCGUGGC-----------------UGUGGGACAGCUUCAAGAUGGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCCAAAGGUAUCCUCUCCA
.(((--(...-...))---))-(((((..((-----------------(((((.....((((......)))).)))))))..)))))..((.(((((((.(......).))))))).)). ( -36.60)
>DroSec_CAF1 184510 96 + 1
UUCU--AUCC-AACGA---CA-AGGCGUGGC-----------------UGUGGGACAGCUUCAAGAUUGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCUAAAGGGAUCCUCUCCA
....--....-.....---..-(((((..((-----------------(((((.....(((((....))))).)))))))..)))))..((.((((((..(......)..)))))).)). ( -34.70)
>DroSim_CAF1 128241 96 + 1
UUCU--AUCC-GACGA---CA-AGGCGUGGC-----------------UGUGGGACAGCUUCAAGAUUGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCUGAAGGGAUCCUCUUCA
...(--((((-.(((.---..-...))).((-----------------((((((.((((((((....)))))((....)).)))))))))))..))))).....((((((...)))))). ( -32.10)
>DroEre_CAF1 148487 96 + 1
UUUU--AUCC-GACGA---GA-AAUUCUCUU-----------------UGUGGGAAGGCUUCAAGAUGCAAGGCUACAGCACUGCCUAUGGCGAGGAUAACGCCAAAGGGAUCCUCUCCG
....--.(((-.((((---((-.....)).)-----------------))).)))..((........)).((((.........))))..((.((((((..(......)..)))))).)). ( -28.20)
>DroYak_CAF1 142103 96 + 1
UUCU--UUCG-GACGA---GA-AAGACUGGU-----------------UGUGGGACAUCUUCAAGAUGGAAGGCUACAGCACCGCCUAUGGUGAGGAUAACGCCAAAGGGAUCCUCUUCC
.(((--(((.-.....---))-))))...((-----------------(((((..((((.....)))).....)))))))((((....))))((((((..(......)..)))))).... ( -29.10)
>DroAna_CAF1 128676 117 + 1
GGCAGAACCCAGAGGAUGAAAGUGGCGAGGCUAAAGGUCCCCAUUUCCUUUGGGAGAAGUUCAAAGCCGCAGGCUACAAAACUGCCUACGGAGAGGAUACGGCCCAGAG---CUUUGCCG
(((....(((((((((....(((((.(.(((.....)))))))))))))))))).(((((((....(((.((((.........)))).)))...((.......)).)))---))))))). ( -46.20)
>consensus
UUCU__AUCC_GACGA___GA_AGGCGUGGC_________________UGUGGGACAGCUUCAAGAUGGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCCAAAGGGAUCCUCUCCA
.................................................(((((....((((......))))((....))....)))))((.((((((..(......)..)))))).)). (-16.10 = -16.93 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,894,699 – 21,894,808
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.51
Mean single sequence MFE -36.68
Consensus MFE -23.66
Energy contribution -23.55
Covariance contribution -0.11
Combinations/Pair 1.30
Mean z-score -2.30
Structure conservation index 0.64
SVM decision value 1.85
SVM RNA-class probability 0.979890
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21894699 109 + 22407834
--------UGUGGGACAGCUUCAAGAUGGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCCAAAGGUAUCCUCUCCAAUAGGAACGG-GGAUAAAGAGCUUCCCA--AAAGUCCAGU
--------.(((((.(((((((......))))((....)).))))))))((.(((((((.(......).))))))).))....(((...(-(((.........)))).--....)))... ( -37.90)
>DroSec_CAF1 184534 109 + 1
--------UGUGGGACAGCUUCAAGAUUGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCUAAAGGGAUCCUCUCCAGUAGGAACGG-GGACAAAGAGCUUCCCA--AAAUUCCAGU
--------.(((((.((((((((....)))))((....)).))))))))((.((((((..(......)..)))))).))....((((..(-(((.........)))).--...))))... ( -38.60)
>DroSim_CAF1 128265 109 + 1
--------UGUGGGACAGCUUCAAGAUUGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCUGAAGGGAUCCUCUUCAGUAGGAACGG-GGACAAAGAGCUUCCCA--AAAUUCCAGU
--------.(((((.((((((((....)))))((....)).))))))))((.((((((..(......)..)))))).))....((((..(-(((.........)))).--...))))... ( -35.40)
>DroEre_CAF1 148511 109 + 1
--------UGUGGGAAGGCUUCAAGAUGCAAGGCUACAGCACUGCCUAUGGCGAGGAUAACGCCAAAGGGAUCCUCUCCGGAAGGAACGG-GGACGAAGAGCUGCCCA--AAAAUAAAGU
--------..((((..(((((.........))))).((((.((.(((.(((((.......))))).)))..((((((((....)))..))-)))...)).))))))))--.......... ( -37.70)
>DroYak_CAF1 142127 109 + 1
--------UGUGGGACAUCUUCAAGAUGGAAGGCUACAGCACCGCCUAUGGUGAGGAUAACGCCAAAGGGAUCCUCUUCCGUAGAAAUGG-GCACAAAGAGCUUCCCA--AAAAUAAAGU
--------..(((((((((.....))))...((((...((.(((.((((((.((((((..(......)..))))))..))))))...)))-))......)))))))))--.......... ( -36.20)
>DroAna_CAF1 128716 114 + 1
CCAUUUCCUUUGGGAGAAGUUCAAAGCCGCAGGCUACAAAACUGCCUACGGAGAGGAUACGGCCCAGAG---CUUUGCCGACAGGACUGAAAGGUGGAGAUUUGCCAGGGAAUUUCC---
......(((.(.((..((((((....(((.((((.........)))).)))...((.......)).)))---)))..)).).)))(((....)))((((((((......))))))))--- ( -34.30)
>consensus
________UGUGGGACAGCUUCAAGAUGGAAGGCUACAGCACUGCCUACGGUGAGGAUAACGCCAAAGGGAUCCUCUCCAGUAGGAACGG_GGACAAAGAGCUUCCCA__AAAUUCCAGU
..........(((((.(((((.........((((.........))))..((.((((((..(......)..)))))).))...................))))))))))............ (-23.66 = -23.55 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:17 2006