Locus 6393

Sequence ID X_DroMel_CAF1
Location 16,037,397 – 16,037,507
Length 110
Max. P 0.915042
window10434 window10435

overview

Window 4

Location 16,037,397 – 16,037,507
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Mean single sequence MFE -33.70
Consensus MFE -21.47
Energy contribution -21.80
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.64
SVM decision value 0.61
SVM RNA-class probability 0.798605
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16037397 110 + 22224390
AUGUGUUAAUUGCACUUGGCAGUGUUUUUCCUGAAAAGUGAUCCUUUUGGCCUCUC-----GGCCAUUUGUCCCUUUGGCCAGAUGAUGUAUAGCAGAUAAAACGGCACUGCCGC-----
..((((.....))))..(((((((((((..(((....((((((..(((((((....-----((.(....).))....))))))).))).)))..)))..)))...))))))))..----- ( -33.60)
>DroEre_CAF1 104976 97 + 1
AUGUGUUAAUUGCACUUGGCAGUGUUUUUCCUGAAAAGCGAUCCUUUUGGC---------------------CCUUUGGCCAGAUGAGGUCU--CAGAUAAAACGCCACCGCCGCCAACA
..((((.....))))..(((.(((((((..((((.....(((((.((((((---------------------(....))))))).).)))))--)))..)))))))....)))....... ( -31.10)
>DroYak_CAF1 87717 116 + 1
AUGUGUUAAUUGCACUUGGCUGUGUUUUUCCUGAAAAGUGAUCCUUUUGGCCUCUCCGGCCAGCCAUUUGUCCCUUUGGCCAGAUGAGGUAU-CCAGAUAAAACGGCACUGCCGCCA---
..((((.....)))).((((...(((((..((((((((.....))))).(((((((.((((((............)))))).)).)))))..-.)))..)))))(((...)))))))--- ( -36.40)
>consensus
AUGUGUUAAUUGCACUUGGCAGUGUUUUUCCUGAAAAGUGAUCCUUUUGGCCUCUC______GCCAUUUGUCCCUUUGGCCAGAUGAGGUAU__CAGAUAAAACGGCACUGCCGCCA___
..((((.....))))..(((.(((((((..(((........((..(((((((.........................))))))).)).......)))..)))))...)).)))....... (-21.47 = -21.80 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,037,397 – 16,037,507
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -33.95
Consensus MFE -21.72
Energy contribution -22.28
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.64
SVM decision value 1.10
SVM RNA-class probability 0.915042
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16037397 110 - 22224390
-----GCGGCAGUGCCGUUUUAUCUGCUAUACAUCAUCUGGCCAAAGGGACAAAUGGCC-----GAGAGGCCAAAAGGAUCACUUUUCAGGAAAAACACUGCCAAGUGCAAUUAACACAU
-----..(((((((...((((.((((......(((...((.((....)).))..(((((-----....)))))....))).......)))))))).)))))))..(((.......))).. ( -31.32)
>DroEre_CAF1 104976 97 - 1
UGUUGGCGGCGGUGGCGUUUUAUCUG--AGACCUCAUCUGGCCAAAGG---------------------GCCAAAAGGAUCGCUUUUCAGGAAAAACACUGCCAAGUGCAAUUAACACAU
((((((..(((.(((((((((.((((--((((((....(((((....)---------------------))))..)))......))))))).)))))...))))..)))..))))))... ( -31.20)
>DroYak_CAF1 87717 116 - 1
---UGGCGGCAGUGCCGUUUUAUCUGG-AUACCUCAUCUGGCCAAAGGGACAAAUGGCUGGCCGGAGAGGCCAAAAGGAUCACUUUUCAGGAAAAACACAGCCAAGUGCAAUUAACACAU
---(((((((...)))(((((.(((((-(..((((.((((((((..............))))))))))))((....)).......)))))).)))))...)))).(((.......))).. ( -39.34)
>consensus
___UGGCGGCAGUGCCGUUUUAUCUG__AUACCUCAUCUGGCCAAAGGGACAAAUGGC______GAGAGGCCAAAAGGAUCACUUUUCAGGAAAAACACUGCCAAGUGCAAUUAACACAU
.......(((((((...((((.((((.............((((.........................))))(((((.....))))))))))))).)))))))..(((.......))).. (-21.72 = -22.28 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:33 2006