Locus 2925

Sequence ID 2R_DroMel_CAF1
Location 10,146,716 – 10,146,841
Length 125
Max. P 0.982919
window4822 window4823

overview

Window 2

Location 10,146,716 – 10,146,816
Length 100
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 77.50
Mean single sequence MFE -19.79
Consensus MFE -15.52
Energy contribution -15.96
Covariance contribution 0.44
Combinations/Pair 1.07
Mean z-score -2.11
Structure conservation index 0.78
SVM decision value 1.93
SVM RNA-class probability 0.982919
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10146716 100 - 20766785
GCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCAUCCUUCCCACACCUUCCCACACC------UUCACAUCCU-----GCACC-------U
((.......(((((((.....((((.((((....)))).))))))))))).......)).........................------..........-----.....-------. ( -19.64)
>DroSec_CAF1 7005 90 - 1
GCCUUUUGUUUGCACAUUAAAUGGUAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCCUCCAUCCC----------ACACC------UCCACAUCCU-----GCACC-------U
((.......(((((((.....(((..((((....))))..)))))))))).......))..........----------.....------..........-----.....-------. ( -18.64)
>DroSim_CAF1 2188 90 - 1
GCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCCUCCAUCCC----------ACACC------UCCACAUCCU-----GCACC-------U
((.......(((((((.....((((.((((....)))).))))))))))).......))..........----------.....------..........-----.....-------. ( -19.64)
>DroYak_CAF1 2239 96 - 1
GCCUUUUGUUUGCACAUUAAAUGGCAUUCGCUAGCCACCGCCAUGUGCAAUUGUCCUGGCACUUUUCCC----------ACUCCUCAUACUCCUCAUACU-----CAACC-------U
(((......((((((((....((((........)))).....)))))))).......))).........----------.....................-----.....-------. ( -20.12)
>DroAna_CAF1 2117 103 - 1
GCCUUUUGUUUGCACAUUAAAUGGCAUUG-CCCGCCAGCGCCAUGUGCAAUUGUCCUGCCGGCUUUGCU----------ACCUCUU----UCUUUAUCCUUUUUGGCACCCACACCAG
(((......((((((((....((((....-...)))).....))))))))..(((.....)))......----------.......----..............)))........... ( -20.90)
>consensus
GCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCAUCCUUCCC__________ACACC______UCCACAUCCU_____GCACC_______U
.........(((((((.....((((.((((....)))).))))))))))).................................................................... (-15.52 = -15.96 +   0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 10,146,738 – 10,146,841
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 86.02
Mean single sequence MFE -23.67
Consensus MFE -19.95
Energy contribution -20.07
Covariance contribution 0.11
Combinations/Pair 1.17
Mean z-score -1.99
Structure conservation index 0.84
SVM decision value 0.60
SVM RNA-class probability 0.795087
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10146738 103 - 20766785
GUAACGAUUGCAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCAUCCUUCCCACACCUUCC
((((((((((((......(((.((((.....)))).)))......(((((.((((....)))).))))).)))))))))..)))................... ( -25.20)
>DroSec_CAF1 7026 94 - 1
UUUCCGAUUGCAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGUAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCCUCCAUCCC---------
....((((((((......(((.((((.....)))).)))......((((..((((....))))..)))).))))))))................--------- ( -22.40)
>DroSim_CAF1 2209 94 - 1
UUUCCGAUUGCAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCCUCCAUCCC---------
....((((((((......(((.((((.....)))).)))......(((((.((((....)))).))))).))))))))................--------- ( -23.40)
>DroEre_CAF1 7582 91 - 1
---CCGAUUGCAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGGCACCCUGCCC---------
---.((((((((......(((.((((.....)))).)))......(((((.((((....)))).))))).))))))))....(((.....))).--------- ( -27.10)
>DroYak_CAF1 2266 91 - 1
---CCGAUUGCAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGCAUUCGCUAGCCACCGCCAUGUGCAAUUGUCCUGGCACUUUUCCC---------
---..(.((((((....))).))))(((......((((((((....((((........)))).....)))))))).......))).........--------- ( -21.92)
>DroAna_CAF1 2152 93 - 1
GAUAUGGCUGUAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGCAUUG-CCCGCCAGCGCCAUGUGCAAUUGUCCUGCCGGCUUUGCU---------
.(((((((.((.......(((.((((.....)))).))).......((((....-...)))))))))))))((((..(((.....))).)))).--------- ( -22.00)
>consensus
_UUCCGAUUGCAAUUUUUUGUCAACGCCUUUUGUUUGCACAUUAAAUGGCAUUGGCUAGCCAGCGCCAUGUGCAAUUGUCCUGCCAUCCUUCCC_________
....((((((((......(((.((((.....)))).)))......(((((.((((....)))).))))).))))))))......................... (-19.95 = -20.07 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:53 2006