Locus 1221

Sequence ID 3R_DroMel_CAF1
Location 3,689,956 – 3,690,072
Length 116
Max. P 0.526310
window1997

overview

Window 7

Location 3,689,956 – 3,690,072
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.03
Mean single sequence MFE -43.75
Consensus MFE -27.33
Energy contribution -27.38
Covariance contribution 0.06
Combinations/Pair 1.29
Mean z-score -1.37
Structure conservation index 0.62
SVM decision value -0.01
SVM RNA-class probability 0.526310
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3689956 116 + 27905053
GAGGGAAA----AAGCGGGGAACUACUCACUUUUAAGGACCUUCUUGGGGCUGCCCUUUUGAGGACUGCCCUUCUGAGGCGAUCCGUGCCUGGACAAGGCGGUCUUCUUGGGACUUCCUC
(((((.((----(((.(((......))).))))).....)))))..((((..((((....((((((((((..(((.(((((.....))))))))...))))))))))..))).)..)))) ( -45.40)
>DroVir_CAF1 62818 120 + 1
CACUUAAAGCUUUAAUUGGCAACUACUCACUUUUAAGGACCUUCUUGGGGCUGCCCUUUUGGGGGCUGCCCUUUUGCGGCGAGCCAUGACGCGAGAGGGCCGUCUUCUUGGGACUGCCAC
................(((((...............((.((((((((((((.(((((....))))).))))......((....))......))))))))))((((.....))))))))). ( -45.00)
>DroPse_CAF1 51775 116 + 1
GAGGCAAA----AAAAGGAUGGCUACUCACAUUUGAGAACCUUCUUGGGACUGCCCUUUUGGGGGCUGCCUUUCUGGGGCGAUCCAUGCCUGGAAAGGGCUGUCUUCUUGGGGCUACCCC
........----..(((((.((...((((....))))..)))))))(((...(((((...((((((.((((((.(.(((((.....))))).).)))))).))))))..)))))..))). ( -44.20)
>DroGri_CAF1 20196 120 + 1
UACAAAGGACCGAAAUUGGCAACUACUCACAUUUGAGGACCUUUUUGGGGCUGCCCUUCUGGGGGCUGCCCUUCUGAGGCGAACCGUGACGCGAAAGUGCCGUCUUCUUGGGACUUCCAC
....(((..(((((..((((......((((.((((....((((...(((((.(((((....))))).)))))...))))))))..)))).((....))))))..)))..))..))).... ( -43.40)
>DroMoj_CAF1 68092 120 + 1
UACGUAAUAAAUAGAUUGGCAACUACUUACUUUUGAGGACCUUCUUGGGACUGCCCUUCUGGGGGCUGCCCUUCUGCGGCGAACCGUGACGCGAGAGAGCCGUCUUCUUGGGGCUGCCGC
............(((..((((..............((..((.....))..))(((((....)))))))))..)))((((((..(((.(((((......).))))....)))..).))))) ( -40.30)
>DroPer_CAF1 57208 116 + 1
GAGGCAAA----AAAAGGAUGGCUACUCACAUUUGAGAACCUUCUUGGGACUGCCCUUUUGGGGGCUGCCUUUCUGGGGCGAUCCAUGCCUGGAAAGGGCUGUCUUCUUGGGGCUACCCC
........----..(((((.((...((((....))))..)))))))(((...(((((...((((((.((((((.(.(((((.....))))).).)))))).))))))..)))))..))). ( -44.20)
>consensus
GACGCAAA____AAAUGGGCAACUACUCACAUUUGAGGACCUUCUUGGGACUGCCCUUUUGGGGGCUGCCCUUCUGAGGCGAUCCAUGACGCGAAAGGGCCGUCUUCUUGGGACUACCAC
................(((((....((((....))))..(((....(((((.((((((((..((..((((.......))))..)).......)))))))).)))))...)))..))))). (-27.33 = -27.38 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:59 2006