Locus 8039

Sequence ID 3L_DroMel_CAF1
Location 21,169,863 – 21,170,013
Length 150
Max. P 0.616672
window13135 window13136

overview

Window 5

Location 21,169,863 – 21,169,979
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 92.24
Mean single sequence MFE -40.93
Consensus MFE -36.97
Energy contribution -36.70
Covariance contribution -0.27
Combinations/Pair 1.06
Mean z-score -1.72
Structure conservation index 0.90
SVM decision value 0.17
SVM RNA-class probability 0.616672
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21169863 116 + 23771897
UGUCGCAUGUUGCUGCCGUGCUACGCAUGCGUGCCUCGCAGCAACAUCGCCAGCGACGCGAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUG
.(((((((((((((((...((.(((....)))))...)))))))))).....)))))...((((.((((.(((.....(((((((.....)).)))))......))))))))))). ( -41.80)
>DroSec_CAF1 40820 116 + 1
UGUCGCAUGUUGCUGCCGUGCUACGCAUGCGUGCCCCGCAGCAACAUCGCCGGCGACGCGAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUG
.((((.((((((((((.(.((.(((....))))).).)))))))))))(((((((..(((..(.....)..)))....(((((((.....)).)))))..)).))))).))).... ( -43.70)
>DroEre_CAF1 36765 105 + 1
UGUCGCAUGUUGCUGCCGUGCUACGCAUGCGUGCCCCGCGGCAACAUC-----------GAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUG
(((((.((((((((((.(.((.(((....))))).).)))))))))))-----------)).))(((((.(((.....(((((((.....)).)))))......)))))))).... ( -37.30)
>consensus
UGUCGCAUGUUGCUGCCGUGCUACGCAUGCGUGCCCCGCAGCAACAUCGCC_GCGACGCGAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUG
....((.(((((((((.(.((.(((....))))).).)))))))))((((.......)))))).(((((.(((.....(((((((.....)).)))))......)))))))).... (-36.97 = -36.70 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,169,900 – 21,170,013
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 91.45
Mean single sequence MFE -37.93
Consensus MFE -29.25
Energy contribution -29.20
Covariance contribution -0.05
Combinations/Pair 1.03
Mean z-score -2.32
Structure conservation index 0.77
SVM decision value 0.11
SVM RNA-class probability 0.590595
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21169900 113 + 23771897
GCAGCAACAUCGCCAGCGACGCGAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUGCCGCCGAUUGCGUCUGUAGUUGUCCCUCUAUUUA
((.(((((((((((.(((..(((..(.....)..)))....(((((((.....)).)))))..)))..))).)))))))).))(((((((....)))))))............ ( -36.10)
>DroSec_CAF1 40857 113 + 1
GCAGCAACAUCGCCGGCGACGCGAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUGCCGCCGAUUGCGGCUGCAGUUGUCCCUCUAUUUA
((.(((((((((((((((..(((..(.....)..)))....(((((((.....)).)))))..)).))))).)))))))).))(((((((....)))))))............ ( -41.70)
>DroEre_CAF1 36802 102 + 1
GCGGCAACAUC-----------GAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUGCCGCCGAUUGCGGCUGCAGUUGUCCCUCUAUUUA
(((((((((((-----------((....))...(((.....(((((((.....)).)))))......)))..)))))))))))(((((((....)))))))............ ( -36.00)
>consensus
GCAGCAACAUCGCC_GCGACGCGAGCAAUCUGUCCGCCAAUUACAACGAAACUCGUUUGUAUCCGCCCGGUAGAUGUUGCCGCCGAUUGCGGCUGCAGUUGUCCCUCUAUUUA
((.(((((.((((.......))))...(((((.(((.....(((((((.....)).)))))......))))))))))))).))(((((((....)))))))............ (-29.25 = -29.20 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:35 2006