Locus 8618

Sequence ID 3R_DroMel_CAF1
Location 23,026,966 – 23,027,062
Length 96
Max. P 0.882584
window13850 window13851

overview

Window 0

Location 23,026,966 – 23,027,062
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.13
Mean single sequence MFE -33.80
Consensus MFE -22.77
Energy contribution -22.77
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.67
SVM decision value 0.79
SVM RNA-class probability 0.850385
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23026966 96 + 27905053
-------CCUUGUGUUUCCUUUUCGCUUUCGUGCCCAGUUC-----GCGG-----A----CUUGGC---GCAACAUUUCAACCUGCCACUGCGGUGGCAGCAUUGAUGGGCGUAUACAUG
-------...(((((........((((...(((((.((((.-----...)-----)----)).)))---))..((((.....(((((((....)))))))....)))))))).))))).. ( -33.60)
>DroVir_CAF1 34986 90 + 1
-----------------GCUUUUCGCUUUCGUGCCCAGUCC-----GC-A----AACUCCCUUCGG---GCAACAUUUCAACCUGCCACUGCGGUGGCAGCAUUGAUGGGCGUAUACAUG
-----------------((.....))......(((((((((-----(.-(----(......)))))---))......((((.(((((((....)))))))..)))))))))......... ( -30.50)
>DroGri_CAF1 38592 105 + 1
---------------CUGAUUUUCGCUUUCGUGCCCAGUGCCGUCCGCGGAGUGGACUCCCUUCGGGGAGCAACAUUUCAACCUGCCACUGCGGUGGCAGCAUUGAUGGGCGUAUACAUG
---------------.................(((((.(((.((((((...))))))((((....))))))).....((((.(((((((....)))))))..)))))))))......... ( -42.50)
>DroWil_CAF1 35717 103 + 1
GACUUUGGCUUGGG-UUCCUUUUCGCUUUCGUGCCCAGUCU-----GCAA----AA----GUUGGC---GCAACAUUUCAACCUGCCACUGUGGUGGCAGCAUUGAUGGGCGUAUACAUG
((((((.(((((((-(................))))))...-----)).)----))----))).((---((..((((.....(((((((....)))))))....)))).))))....... ( -31.99)
>DroMoj_CAF1 38342 92 + 1
-----------------ACAUUUCGCUUUCGUGCCCAGACC----CGCGA----AACUCCCUUCGG---GCAACAUUUCAACCUGCCACUGCGGUGGCAGCAUUGAUGGGCGUAUACAUG
-----------------...............(((((...(----(.(((----(......)))))---).......((((.(((((((....)))))))..)))))))))......... ( -28.20)
>DroPer_CAF1 31686 96 + 1
-------CCUUGUGUUUCCAUUUCGCUUUCGUGCCCAGUCC-----GCGG-----A----CUUGGC---GCAACAUUUCAACCUGCCACUGCGGUGGCAGCAUUGAUGGGCGUAUACAUG
-------...(((((.((((((..((....(((((.((((.-----...)-----)----)).)))---))............((((((....))))))))...))))))...))))).. ( -36.00)
>consensus
_______________UUCCUUUUCGCUUUCGUGCCCAGUCC_____GCGA____AA____CUUCGC___GCAACAUUUCAACCUGCCACUGCGGUGGCAGCAUUGAUGGGCGUAUACAUG
................................(((((.........((.....................))......((((.(((((((....)))))))..)))))))))......... (-22.77 = -22.77 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 23,026,966 – 23,027,062
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.13
Mean single sequence MFE -33.27
Consensus MFE -23.15
Energy contribution -23.15
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.70
SVM decision value 0.92
SVM RNA-class probability 0.882584
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23026966 96 - 27905053
CAUGUAUACGCCCAUCAAUGCUGCCACCGCAGUGGCAGGUUGAAAUGUUGC---GCCAAG----U-----CCGC-----GAACUGGGCACGAAAGCGAAAAGGAAACACAAGG-------
..(((....((((((((((.(((((((....))))))))))))....((((---(.....----.-----.)))-----))..))))).(....)......(....))))...------- ( -31.80)
>DroVir_CAF1 34986 90 - 1
CAUGUAUACGCCCAUCAAUGCUGCCACCGCAGUGGCAGGUUGAAAUGUUGC---CCGAAGGGAGUU----U-GC-----GGACUGGGCACGAAAGCGAAAAGC-----------------
.........((((((((((.(((((((....))))))))))))..(((.((---((....)).)).----.-))-----)...))))).(....)........----------------- ( -31.50)
>DroGri_CAF1 38592 105 - 1
CAUGUAUACGCCCAUCAAUGCUGCCACCGCAGUGGCAGGUUGAAAUGUUGCUCCCCGAAGGGAGUCCACUCCGCGGACGGCACUGGGCACGAAAGCGAAAAUCAG---------------
.........((((((((((.(((((((....)))))))))))).....((((..(((...((((....)))).)))..)))).))))).(....)..........--------------- ( -40.10)
>DroWil_CAF1 35717 103 - 1
CAUGUAUACGCCCAUCAAUGCUGCCACCACAGUGGCAGGUUGAAAUGUUGC---GCCAAC----UU----UUGC-----AGACUGGGCACGAAAGCGAAAAGGAA-CCCAAGCCAAAGUC
.........((((((((((.(((((((....))))))))))))....((((---(.....----..----.)))-----))..))))).(....)......((..-......))...... ( -29.40)
>DroMoj_CAF1 38342 92 - 1
CAUGUAUACGCCCAUCAAUGCUGCCACCGCAGUGGCAGGUUGAAAUGUUGC---CCGAAGGGAGUU----UCGCG----GGUCUGGGCACGAAAGCGAAAUGU-----------------
.........((((((((((.(((((((....))))))))))))......((---(((.........----...))----))).))))).(....)........----------------- ( -31.80)
>DroPer_CAF1 31686 96 - 1
CAUGUAUACGCCCAUCAAUGCUGCCACCGCAGUGGCAGGUUGAAAUGUUGC---GCCAAG----U-----CCGC-----GGACUGGGCACGAAAGCGAAAUGGAAACACAAGG-------
..(((...(((...(((((.(((((((....))))))))))))....(((.---(((.((----(-----(...-----.)))).))).)))..)))....(....))))...------- ( -35.00)
>consensus
CAUGUAUACGCCCAUCAAUGCUGCCACCGCAGUGGCAGGUUGAAAUGUUGC___CCCAAG____UU____CCGC_____GGACUGGGCACGAAAGCGAAAAGGAA_______________
.........((((((((((.(((((((....))))))))))))...(........)...........................))))).(....)......................... (-23.15 = -23.15 +   0.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:39 2006