Locus 9649

Sequence ID 3R_DroMel_CAF1
Location 25,517,489 – 25,517,585
Length 96
Max. P 0.991632
window15425 window15426

overview

Window 5

Location 25,517,489 – 25,517,585
Length 96
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 66.95
Mean single sequence MFE -28.30
Consensus MFE -17.25
Energy contribution -16.70
Covariance contribution -0.55
Combinations/Pair 1.20
Mean z-score -1.71
Structure conservation index 0.61
SVM decision value 2.28
SVM RNA-class probability 0.991632
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25517489 96 + 27905053
CAGCUGGAAAUGAAAAGCAAGUGGCGAUGUGCCACAACCUAAGGUAGAAACUUUAGUUUUUCAAAAACAGGGGCCUGGGAA--UUUUAGAUAUCCCCC---------------------
...(((....((((((((..(((((.....)))))....((((((....))))))))))))))....)))......((((.--.........))))..--------------------- ( -25.80)
>DroPse_CAF1 12332 113 + 1
CAACUGGAAAUGAAAAGCAAGUGGCAAUAUGCCAAAAGCCAAAGGA-AAACUUUGGCCUG--GAGAGCAG---ACUAGGCCCCUACUUCAUACCCAGCCGCAACCCCCGCUAUCUCUUU
...((((..(((((..((...((((.....))))...)).((((..-...))))((((((--(.......---.))))))).....)))))..))))..((.......))......... ( -29.50)
>DroPer_CAF1 12100 113 + 1
CAACUGGAAUUGAAAAGCAAGUGGCAAUAUGCCAAAAGCCAAAGGA-AAACUUUGGCCUG--GAGAGCAG---ACUAGGCCCCUGCUUCAUACCCAUCCGCCACCCCCGCUCUCUCUUU
...............(((..(((((......(((...(((((((..-...))))))).))--).((((((---.........))))))...........)))))....)))........ ( -29.60)
>consensus
CAACUGGAAAUGAAAAGCAAGUGGCAAUAUGCCAAAAGCCAAAGGA_AAACUUUGGCCUG__GAGAGCAG___ACUAGGCCCCUACUUCAUACCCACCCGC_ACCCCCGCU_UCUCUUU
...((((..............((((.....))))...(((((((......))))))).................))))......................................... (-17.25 = -16.70 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 25,517,489 – 25,517,585
Length 96
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 66.95
Mean single sequence MFE -35.00
Consensus MFE -18.96
Energy contribution -20.63
Covariance contribution 1.67
Combinations/Pair 1.17
Mean z-score -1.85
Structure conservation index 0.54
SVM decision value 1.63
SVM RNA-class probability 0.968674
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25517489 96 - 27905053
---------------------GGGGGAUAUCUAAAA--UUCCCAGGCCCCUGUUUUUGAAAAACUAAAGUUUCUACCUUAGGUUGUGGCACAUCGCCACUUGCUUUUCAUUUCCAGCUG
---------------------.((((((.......)--)))))......(((....((((((.((((.((....)).))))((.(((((.....)))))..))))))))....)))... ( -23.40)
>DroPse_CAF1 12332 113 - 1
AAAGAGAUAGCGGGGGUUGCGGCUGGGUAUGAAGUAGGGGCCUAGU---CUGCUCUC--CAGGCCAAAGUUU-UCCUUUGGCUUUUGGCAUAUUGCCACUUGCUUUUCAUUUCCAGUUG
...((((.((((((((..((((((((((...........)))))).---))))...)--)(((((((((...-..))))))))).((((.....))))))))))))))........... ( -41.10)
>DroPer_CAF1 12100 113 - 1
AAAGAGAGAGCGGGGGUGGCGGAUGGGUAUGAAGCAGGGGCCUAGU---CUGCUCUC--CAGGCCAAAGUUU-UCCUUUGGCUUUUGGCAUAUUGCCACUUGCUUUUCAAUUCCAGUUG
...((((.((((((((.(((((((((((.((...))...))))).)---)))))..)--)(((((((((...-..))))))))).((((.....))))))))))))))........... ( -40.50)
>consensus
AAAGAGA_AGCGGGGGU_GCGGAUGGGUAUGAAGAAGGGGCCUAGU___CUGCUCUC__CAGGCCAAAGUUU_UCCUUUGGCUUUUGGCAUAUUGCCACUUGCUUUUCAUUUCCAGUUG
........................(((...((((((((......................(((((((((......))))))))).((((.....)))))))))))).....)))..... (-18.96 = -20.63 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:39:07 2006