Locus 6197

Sequence ID 2L_DroMel_CAF1
Location 17,283,228 – 17,283,318
Length 90
Max. P 0.996914
window9899 window9900

overview

Window 9

Location 17,283,228 – 17,283,318
Length 90
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.50
Mean single sequence MFE -25.76
Consensus MFE -15.64
Energy contribution -16.88
Covariance contribution 1.24
Combinations/Pair 1.07
Mean z-score -2.44
Structure conservation index 0.61
SVM decision value 2.27
SVM RNA-class probability 0.991522
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17283228 90 + 22407834
AAAUGGAAUGGGUGGACCACCUGGUGGUCCAAACGGAA------------------------------UGGGACCAGGCAACUGGCAAGGCAAUAACAAUUGGGGAAAUGGAAAUAAUGG
........((..((((((((...))))))))..))...------------------------------...(.((((....)))))....((((....)))).................. ( -23.60)
>DroSec_CAF1 122330 87 + 1
AAAUGGAAUGGGUGGACCACCCGGUGGUCCAAACGGAA------------------------------UGGGACCAGGCAACUGGCAAGGCAAUAGCAAU---GGAAAUGGAAAUAAUGG
........((..((((((((...))))))))..))...------------------------------.....((((....))))((..((....))..)---)................ ( -24.60)
>DroSim_CAF1 126137 87 + 1
AAAUGGAAUGGGUGGACCACCCGGUGGUCCAAACGGAA------------------------------UGGGACCAGGCAACUGGCAAGGCAAUAACAAU---GGAAACGGAAAUAAUGG
........((..((((((((...))))))))..))...------------------------------...(.((((....))))).............(---(....)).......... ( -24.90)
>DroEre_CAF1 121502 120 + 1
AAAUGGAAUGGGUGGACCACCCGGCAGGCCAAAUGGAAUGGGUGGACCACCUGGUGGUCCAAACGGAAUGGGACCAGGCAACUGGCAAGGAAAUAACAAUUGGGGAAAUGGAAAUAAUGG
...((((.(((((((.(((((((.....((....))..))))))).)))))))....))))..........(.((((....))))).................................. ( -38.80)
>DroYak_CAF1 123752 78 + 1
UAACGGAAUGGGUGGACCACCUGGUGGUCCAAACGGAA------------------------------UGGGAUCGGGC------------AAUAACAAUUGGGGGAAUGGAAAUAAUGG
...((...((..((((((((...))))))))..))...------------------------------))........(------------(((....)))).................. ( -16.90)
>consensus
AAAUGGAAUGGGUGGACCACCCGGUGGUCCAAACGGAA______________________________UGGGACCAGGCAACUGGCAAGGCAAUAACAAUUGGGGAAAUGGAAAUAAUGG
........((..((((((((...))))))))..))......................................((((....))))................................... (-15.64 = -16.88 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,283,228 – 17,283,318
Length 90
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.50
Mean single sequence MFE -20.64
Consensus MFE -12.58
Energy contribution -13.46
Covariance contribution 0.88
Combinations/Pair 1.15
Mean z-score -2.66
Structure conservation index 0.61
SVM decision value 2.77
SVM RNA-class probability 0.996914
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17283228 90 - 22407834
CCAUUAUUUCCAUUUCCCCAAUUGUUAUUGCCUUGCCAGUUGCCUGGUCCCA------------------------------UUCCGUUUGGACCACCAGGUGGUCCACCCAUUCCAUUU
..................................(((((....)))))....------------------------------....(..((((((((...))))))))..)......... ( -18.50)
>DroSec_CAF1 122330 87 - 1
CCAUUAUUUCCAUUUCC---AUUGCUAUUGCCUUGCCAGUUGCCUGGUCCCA------------------------------UUCCGUUUGGACCACCGGGUGGUCCACCCAUUCCAUUU
.................---...((....))...(((((....)))))....------------------------------....(..((((((((...))))))))..)......... ( -19.10)
>DroSim_CAF1 126137 87 - 1
CCAUUAUUUCCGUUUCC---AUUGUUAUUGCCUUGCCAGUUGCCUGGUCCCA------------------------------UUCCGUUUGGACCACCGGGUGGUCCACCCAUUCCAUUU
.................---..............(((((....)))))....------------------------------....(..((((((((...))))))))..)......... ( -18.50)
>DroEre_CAF1 121502 120 - 1
CCAUUAUUUCCAUUUCCCCAAUUGUUAUUUCCUUGCCAGUUGCCUGGUCCCAUUCCGUUUGGACCACCAGGUGGUCCACCCAUUCCAUUUGGCCUGCCGGGUGGUCCACCCAUUCCAUUU
..................((((((.((......)).))))))..((((((.(......).))))))...(((((.((((((...((....))......)))))).))))).......... ( -33.80)
>DroYak_CAF1 123752 78 - 1
CCAUUAUUUCCAUUCCCCCAAUUGUUAUU------------GCCCGAUCCCA------------------------------UUCCGUUUGGACCACCAGGUGGUCCACCCAUUCCGUUA
.............................------------...........------------------------------....(..((((((((...))))))))..)......... ( -13.30)
>consensus
CCAUUAUUUCCAUUUCCCCAAUUGUUAUUGCCUUGCCAGUUGCCUGGUCCCA______________________________UUCCGUUUGGACCACCGGGUGGUCCACCCAUUCCAUUU
..................................(((((....))))).........................................((((((((...))))))))............ (-12.58 = -13.46 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:55 2006