Locus 3704

Sequence ID 3L_DroMel_CAF1
Location 10,769,578 – 10,769,681
Length 103
Max. P 0.815421
window5787

overview

Window 7

Location 10,769,578 – 10,769,681
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.58
Mean single sequence MFE -30.65
Consensus MFE -25.19
Energy contribution -25.58
Covariance contribution 0.39
Combinations/Pair 1.07
Mean z-score -2.28
Structure conservation index 0.82
SVM decision value 0.66
SVM RNA-class probability 0.815421
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10769578 103 + 23771897
GCUCAUUUCGCACAAGACUUUCAAAUGGCUAAGACAC-AAAC-----UCAAAGUGAGGUAAAGCCAAAACG----U----UAACUUGGCCAUUGGCGAUCUUUGCAGUGAGCUUCGA---
(((((((..(((.((((......((((((((((.(((-....-----.....))).((.....))......----.----...)))))))))).....)))))))))))))).....--- ( -31.20)
>DroSec_CAF1 103221 103 + 1
GCUCAUUUCGCACAAGACUUUCAAAUGGCUAAGACACCAAAC-----UCAAAGUGAGGUAAAGCCA-AACG----U----UAACUUGGCCAUUGGCGAUCUUUGCAGUGAGCUUCGA---
(((((((..(((.((((......((((((((((.(((.....-----.....))).((.....)).-....----.----...)))))))))).....)))))))))))))).....--- ( -30.60)
>DroSim_CAF1 106115 103 + 1
GCUCAUUUCGCACAAGACUUUCAAAUGGCUAAGACACCAAAC-----UCAAAGUGAGGUAAAGCCA-AACG----U----UAACUUGGCCAUUGGCGAUCUUUGCAGUGAGCUUCGA---
(((((((..(((.((((......((((((((((.(((.....-----.....))).((.....)).-....----.----...)))))))))).....)))))))))))))).....--- ( -30.60)
>DroEre_CAF1 108110 105 + 1
GCUCAUUUCGCACAAGACUUUCAAAUGGCUAAGACAC-AAAC-----UCAAAGUGAGGUAAAGCCA-AACG----U----UAACUUGGCCAUUGGCGAUCUUUGCAGUGAGCUUCGAGGU
(((((((..(((.((((......((((((((((.(((-....-----.....))).((.....)).-....----.----...)))))))))).....))))))))))))))........ ( -31.20)
>DroYak_CAF1 119410 105 + 1
GCUCAUUUCGCACAAGACUUUCAAAUGGCUAAGACAC-CAGC-----UCAAAGUGAGGUAAAGCCA-AACG----U----UAACUUGGCCAUUGGCGAUCUUUGCAGUGAGCUUCGAAAU
(((((((..(((.((((......((((((((((.(((-....-----.....))).((.....)).-....----.----...)))))))))).....))))))))))))))........ ( -30.70)
>DroAna_CAF1 104238 116 + 1
GCUCUUUUCGCACAAGACUUUCAAAUGGCUAAAAGCUCAAACUGAUCUCCAACUGAAGCAGAGCCA-GGCCAAAGCAAAAAGACUUGGCCAUUGGCGAUCUUUGCAGCGGACUCUGA---
((.....((((.(((..........(((((....(((((...((.....))..)).)))..)))))-((((((..(.....)..)))))).))))))).....))............--- ( -29.60)
>consensus
GCUCAUUUCGCACAAGACUUUCAAAUGGCUAAGACAC_AAAC_____UCAAAGUGAGGUAAAGCCA_AACG____U____UAACUUGGCCAUUGGCGAUCUUUGCAGUGAGCUUCGA___
(((((((..(((.((((......((((((((((..............((.....))(((...)))..................)))))))))).....))))))))))))))........ (-25.19 = -25.58 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:45 2006