Locus 771

Sequence ID X_DroMel_CAF1
Location 2,142,858 – 2,142,954
Length 96
Max. P 0.937996
window1251 window1252

overview

Window 1

Location 2,142,858 – 2,142,954
Length 96
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 63.21
Mean single sequence MFE -21.33
Consensus MFE -8.62
Energy contribution -8.40
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -2.59
Structure conservation index 0.40
SVM decision value 1.29
SVM RNA-class probability 0.937996
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2142858 96 + 22224390
AAAUAUGCAAGCGCACCACACAAAAUGCUCGAUAACAACCGAAGUAAUCGAUCUAUGCAAAAAUGCAUAUCUGAGCGAUGUGAUUGUGUAUCUCAG-
..........(((((...((((...((((((((.((.......)).)))....((((((....))))))...))))).))))..))))).......- ( -21.20)
>DroEre_CAF1 24192 87 + 1
AAAUAUGCAAG-------CACAAAACGCUCGAUAACAAUCGGCGUAAUCGAUGUAUGCAAAAAUGCAUAAUGUGA---UGUGAUUGUAGAUUGUGGA
.(((.(((((.-------(((...((((.((((....)))))))).((((...((((((....))))))...)))---)))).))))).)))..... ( -25.30)
>DroYak_CAF1 24139 75 + 1
------AACAG-------CAAGAAUAGCGCGAUAGCAAUUGACGUAAUCGAUCUAUGCAAAAAUGCAUAGCUUGC------CAAUG--CAUUUUGG-
------....(-------((((....(((((((....)))).))).......(((((((....))))))))))))------(((..--....))).- ( -17.50)
>consensus
AAAUAUGCAAG_______CACAAAAAGCUCGAUAACAAUCGACGUAAUCGAUCUAUGCAAAAAUGCAUAACUUGA___UGUGAUUGU_CAUUUUGG_
.............................((((.((.......)).))))...((((((....))))))............................ ( -8.62 =  -8.40 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,142,858 – 2,142,954
Length 96
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 63.21
Mean single sequence MFE -21.63
Consensus MFE -8.22
Energy contribution -8.67
Covariance contribution 0.45
Combinations/Pair 1.24
Mean z-score -2.68
Structure conservation index 0.38
SVM decision value 0.88
SVM RNA-class probability 0.872728
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2142858 96 - 22224390
-CUGAGAUACACAAUCACAUCGCUCAGAUAUGCAUUUUUGCAUAGAUCGAUUACUUCGGUUGUUAUCGAGCAUUUUGUGUGGUGCGCUUGCAUAUUU
-...(((((..(((.(.((((((.((((((((((....))))))(.(((((.((....))....))))).)..)))).)))))).).)))..))))) ( -27.10)
>DroEre_CAF1 24192 87 - 1
UCCACAAUCUACAAUCACA---UCACAUUAUGCAUUUUUGCAUACAUCGAUUACGCCGAUUGUUAUCGAGCGUUUUGUG-------CUUGCAUAUUU
...........(((.((((---......((((((....))))))........((((((((....)))).))))..))))-------.)))....... ( -19.00)
>DroYak_CAF1 24139 75 - 1
-CCAAAAUG--CAUUG------GCAAGCUAUGCAUUUUUGCAUAGAUCGAUUACGUCAAUUGCUAUCGCGCUAUUCUUG-------CUGUU------
-.......(--(..((------((((.(((((((....)))))))...(((...)))..))))))..))((.......)-------)....------ ( -18.80)
>consensus
_CCAAAAUA_ACAAUCACA___CCAAGAUAUGCAUUUUUGCAUAGAUCGAUUACGUCGAUUGUUAUCGAGCAUUUUGUG_______CUUGCAUAUUU
.......................((((.((((((....))))))..(((((.((.......)).)))))......)))).................. ( -8.22 =  -8.67 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:26 2006