Locus 2373

Sequence ID 2R_DroMel_CAF1
Location 8,610,174 – 8,610,325
Length 151
Max. P 0.974622
window3922 window3923

overview

Window 2

Location 8,610,174 – 8,610,292
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.14
Mean single sequence MFE -30.02
Consensus MFE -25.62
Energy contribution -26.02
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.85
SVM decision value 1.73
SVM RNA-class probability 0.974622
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8610174 118 - 20766785
GGCCAUGAUGGGUGUGACCUGCACA--GGGCAAUUGAUUUAAAUUAAAAUUUAAAUGGAAAUCAAUUAAUUCGGAUUGCCAGUGAUUUUAAUUGAAAUUCGUAUUCUACGGCCAAAAACU
((((.((....((((.....)))).--...))((.(((((.((((((((((....(((.((((..........)))).)))..)))))))))).))))).)).......))))....... ( -26.60)
>DroSec_CAF1 11078 118 - 1
GGCCAUGGUGGGUGUGACCUGCACA--GGGCAAUUGAUUUAAAUUAAAAUUUAAAUGGAAAUCAAUUAAUUCGGAUUGCCAGUGAUUUUAAUUGAAAUUCGUAUUCUACGGCCAAAAACU
((((.(((..((.....))..).))--(((..((.(((((.((((((((((....(((.((((..........)))).)))..)))))))))).))))).))..)))..))))....... ( -28.80)
>DroSim_CAF1 7928 118 - 1
GGCCAUGGAGGGUGUGACCUGCACA--GGGCAAUUGAUUUAAAUUAAAAUUUAAAUGGAAAUCAAUUAAUUCGGAUUGCCAGUGAUUUUAAUUGAAAUUCGUAUUCUACGGCCAAAAACU
((((.(((((.((((.....)))).--.....((.(((((.((((((((((....(((.((((..........)))).)))..)))))))))).))))).)).))))).))))....... ( -29.30)
>DroEre_CAF1 10382 118 - 1
GGCCAUGGAGGGCGUGACCUGCACA--GGGCAAUUGAUUUAAAUUAAAAUUUAAAUGGAAAUCAAUUAAUUCGGAUUGCCAGUGAUUUUAAUUGAAAUUCGAAUGGUACGGCCAAAAACU
((((.((.(((......))).))..--(..((((((((((..(((........)))..))))))))).(((((((((..((((.......)))).))))))))).)..)))))....... ( -33.10)
>DroYak_CAF1 5672 120 - 1
GGCCAUGGAGGGUGUGACCUGCACACGGGGCAAUUGAUUUAAAUUAAAAUUUAAAUGGAAAUCAAUUAAUUCGGAUUGCCAGUGAUUUUAAUUGAAAUUCGUAUUCUACGGCCAAAAACU
((((.(((((.(((((.....)))))(((..(((((((((..(((........)))..)))))))))..)))(((((..((((.......)))).)))))...))))).))))....... ( -32.30)
>consensus
GGCCAUGGAGGGUGUGACCUGCACA__GGGCAAUUGAUUUAAAUUAAAAUUUAAAUGGAAAUCAAUUAAUUCGGAUUGCCAGUGAUUUUAAUUGAAAUUCGUAUUCUACGGCCAAAAACU
((((.((.(((......))).))........(((((((((..(((........)))..)))))))))....((((((..((((.......)))).))))))........))))....... (-25.62 = -26.02 +   0.40)

alignment

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secondary structure

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dotplot

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Window 3

Location 8,610,214 – 8,610,325
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.66
Mean single sequence MFE -21.90
Consensus MFE -15.60
Energy contribution -15.80
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.71
SVM decision value 0.08
SVM RNA-class probability 0.575151
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8610214 111 + 20766785
GGCAAUCCGAAUUAAUUGAUUUCCAUUUAAAUUUUAAUUUAAAUCAAUUGCCC--UGUGCAGGUCACACCCAUCAUGGCCACAAAGACAAUCGCCAUCCACCGCCCUCA-------AACU
(((.....((..((((((((((..(((........)))..)))))))))).((--(....))).........))(((((.............))))).....)))....-------.... ( -17.32)
>DroSec_CAF1 11118 111 + 1
GGCAAUCCGAAUUAAUUGAUUUCCAUUUAAAUUUUAAUUUAAAUCAAUUGCCC--UGUGCAGGUCACACCCACCAUGGCCACAAAGACAAGCGCCGGUCAUCGCCCUCA-------AACC
(((.........((((((((((..(((........)))..)))))))))).((--.((((..(((....((.....)).......)))..)))).)).....)))....-------.... ( -21.90)
>DroSim_CAF1 7968 111 + 1
GGCAAUCCGAAUUAAUUGAUUUCCAUUUAAAUUUUAAUUUAAAUCAAUUGCCC--UGUGCAGGUCACACCCUCCAUGGCCACAAAGACAAGCGCCGGGCAUCGCCCUCA-------AACC
(((..........(((((((((..(((........)))..)))))))))((((--.((((..(((....((.....)).......)))..)))).))))...)))....-------.... ( -28.80)
>DroEre_CAF1 10422 118 + 1
GGCAAUCCGAAUUAAUUGAUUUCCAUUUAAAUUUUAAUUUAAAUCAAUUGCCC--UGUGCAGGUCACGCCCUCCAUGGCCACAAAGACAAUCGCCUGGCAACUCCCCCAAUCCCCAAACC
(((..........(((((((((..(((........)))..)))))))))(((.--((.(.(((......)))))).))).............)))(((........)))........... ( -19.20)
>DroYak_CAF1 5712 113 + 1
GGCAAUCCGAAUUAAUUGAUUUCCAUUUAAAUUUUAAUUUAAAUCAAUUGCCCCGUGUGCAGGUCACACCCUCCAUGGCCACAAAGACAAUCGCAUGGCCACUCCCCCA-------AACC
(((.((.(((..((((((((((..(((........)))..))))))))))..(((((.(.(((......)))))))))............))).)).))).........-------.... ( -22.30)
>consensus
GGCAAUCCGAAUUAAUUGAUUUCCAUUUAAAUUUUAAUUUAAAUCAAUUGCCC__UGUGCAGGUCACACCCUCCAUGGCCACAAAGACAAUCGCCGGGCAACGCCCUCA_______AACC
(((.........((((((((((..(((........)))..))))))))))...........(((((.........)))))............)))......................... (-15.60 = -15.80 +   0.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:22 2006