Locus 6054

Sequence ID 2R_DroMel_CAF1
Location 19,054,430 – 19,054,520
Length 90
Max. P 0.967123
window9700 window9701

overview

Window 0

Location 19,054,430 – 19,054,520
Length 90
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 90.86
Mean single sequence MFE -21.38
Consensus MFE -15.57
Energy contribution -15.82
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 0.73
SVM decision value 0.56
SVM RNA-class probability 0.781228
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19054430 90 + 20766785
--AAAACAGGCAAUAGCUAACGAAUUGCGAAUUGCAACUGCCAUGGCAAUUGCAAUCGCAUCGACUGGCUGACACCUCAAGGCAAAGAAUGC
--.....(((...((((((.(((..(((((.((((((.(((....))).))))))))))))))..))))))...)))....(((.....))) ( -28.50)
>DroSec_CAF1 1478 83 + 1
--AAAACAGGCAAUAGCUAACGAA-------UUGCAACUGCCAUGGCAAUUGCAAUCGCAUCGACUGGCUGACACCUCAAGGCAAAGAACGC
--.....(((...((((((.((((-------((((((.(((....))).)))))))....)))..))))))...)))............... ( -21.00)
>DroSim_CAF1 1198 83 + 1
--AAAACAGGCAAUAGCUAACGAA-------UUGCAACUGCCAUGGCAAUUGCAAUCGCAUCGACUGGCUGACACCUCAAGGCAAAGAACGC
--.....(((...((((((.((((-------((((((.(((....))).)))))))....)))..))))))...)))............... ( -21.00)
>DroEre_CAF1 1611 84 + 1
AAAAAACAAGCAAUAGCUAACAAA--------UGCAACUGCAAUUGCAAUUGCAAUCGCAUCGACUGGCUGACACCUCAAGGCAAAGAACUC
.............((((((....(--------(((...((((((....))))))...))))....))))))...((....)).......... ( -15.00)
>consensus
__AAAACAGGCAAUAGCUAACGAA_______UUGCAACUGCCAUGGCAAUUGCAAUCGCAUCGACUGGCUGACACCUCAAGGCAAAGAACGC
.......(((...((((((.............(((((.(((....))).))))).(((...))).))))))...)))............... (-15.57 = -15.82 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,054,430 – 19,054,520
Length 90
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 90.86
Mean single sequence MFE -28.57
Consensus MFE -22.96
Energy contribution -22.89
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -2.98
Structure conservation index 0.80
SVM decision value 1.61
SVM RNA-class probability 0.967123
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19054430 90 - 20766785
GCAUUCUUUGCCUUGAGGUGUCAGCCAGUCGAUGCGAUUGCAAUUGCCAUGGCAGUUGCAAUUCGCAAUUCGUUAGCUAUUGCCUGUUUU--
(((.....)))....(((((..(((.((.((((((((((((((((((....)))))))))).)))))..))))).)))..))))).....-- ( -34.80)
>DroSec_CAF1 1478 83 - 1
GCGUUCUUUGCCUUGAGGUGUCAGCCAGUCGAUGCGAUUGCAAUUGCCAUGGCAGUUGCAA-------UUCGUUAGCUAUUGCCUGUUUU--
.........(((....)))..(((.((((.(..((((((((((((((....))))))))))-------.))))...).)))).)))....-- ( -27.40)
>DroSim_CAF1 1198 83 - 1
GCGUUCUUUGCCUUGAGGUGUCAGCCAGUCGAUGCGAUUGCAAUUGCCAUGGCAGUUGCAA-------UUCGUUAGCUAUUGCCUGUUUU--
.........(((....)))..(((.((((.(..((((((((((((((....))))))))))-------.))))...).)))).)))....-- ( -27.40)
>DroEre_CAF1 1611 84 - 1
GAGUUCUUUGCCUUGAGGUGUCAGCCAGUCGAUGCGAUUGCAAUUGCAAUUGCAGUUGCA--------UUUGUUAGCUAUUGCUUGUUUUUU
((((.....(((....)))...(((.((..((((((((((((((....))))))))))))--------))..)).)))...))))....... ( -24.70)
>consensus
GCGUUCUUUGCCUUGAGGUGUCAGCCAGUCGAUGCGAUUGCAAUUGCCAUGGCAGUUGCAA_______UUCGUUAGCUAUUGCCUGUUUU__
(((.....)))....(((((..(((.((.(((.....((((((((((....))))))))))........))))).)))..)))))....... (-22.96 = -22.89 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:23 2006