Locus 4432

Sequence ID 3R_DroMel_CAF1
Location 11,701,478 – 11,701,573
Length 95
Max. P 0.969843
window7241 window7242

overview

Window 1

Location 11,701,478 – 11,701,573
Length 95
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 68.39
Mean single sequence MFE -38.70
Consensus MFE -15.84
Energy contribution -16.57
Covariance contribution 0.73
Combinations/Pair 1.25
Mean z-score -2.22
Structure conservation index 0.41
SVM decision value 1.65
SVM RNA-class probability 0.969843
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11701478 95 + 27905053
ACGCCCGCAUCCGAAUCCGAAUCCAAAUCGGAUU-CGCAGGCAGGCGG----UCGUCGGCGAUUCC-GCCGCUCAAGUUGAACGCAGCAGUCGGCGGCGGC
.((((.((...(((((((((.......)))))))-))...)).))))(----(((....)))).((-((((((...((((....))))....)))))))). ( -45.80)
>DroSec_CAF1 37630 77 + 1
ACGCCCGCAUCCGAAUCCGAAUCCAAAUCGGAUU-CGAA----GGCGG----UCGUCGCCGAUUCC-GCCGCUCAA----------GCAGUCGGCGG----
(((.((((...(((((((((.......)))))))-))..----.))))----.)))((((((((..-((.......----------)))))))))).---- ( -36.20)
>DroSim_CAF1 40456 81 + 1
ACGCCCGCAUCCGAAUCCGAAUCCAAAUCGGAUU-CGAA----GGCGG----UCGUCGUCGAUUCC-GCCGCUCAA----------GCAGUCGGCGGCGGC
(((.((((...(((((((((.......)))))))-))..----.))))----.)))........((-((((((...----------......)))))))). ( -38.20)
>DroEre_CAF1 38575 81 + 1
ACGCCCGCAUCCGA------AUCCAAAUCGGAUU-CGCA----GGCGC----UCGUCGGCGAUUCC-GCCGCUGAAGUCGGACGCAGCCGUCGGCGG----
.((((.((...(((------((((.....)))))-))..----(((..----.((((((((....)-)))((....))..))))..))))).)))).---- ( -35.80)
>DroYak_CAF1 38470 90 + 1
ACGUCCGCAUCCGAAUCCGAAUCCAAGUCGGAUU-CGCA----GGCGGUCGGUCGUCGGCGAUUCC-GCCGCUGAAGUCGGACGCAGCCGUCGGCG-----
.((.((((...(((((((((.......)))))))-))..----.)))).))((((.((((...(((-(.(......).))))....)))).)))).----- ( -44.90)
>DroAna_CAF1 39023 76 + 1
ACGGGCGAUUCGGAGGCAGCGCCCGACGACGAUGCCGCU----GCCGA----CUGUGGGCGGCUACGGCUGCUA-----------------CGACGGCGAC
.((((((...(....)...)))))).............(----((((.----.(((((.((((....)))))))-----------------)).))))).. ( -31.30)
>consensus
ACGCCCGCAUCCGAAUCCGAAUCCAAAUCGGAUU_CGCA____GGCGG____UCGUCGGCGAUUCC_GCCGCUCAA__________GCAGUCGGCGG____
.((((.((((((((.............))))))..........(((((....(((....)))......)))))................)).))))..... (-15.84 = -16.57 +   0.73)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,701,478 – 11,701,573
Length 95
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 68.39
Mean single sequence MFE -40.43
Consensus MFE -12.03
Energy contribution -13.04
Covariance contribution 1.00
Combinations/Pair 1.18
Mean z-score -2.23
Structure conservation index 0.30
SVM decision value 0.90
SVM RNA-class probability 0.876982
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11701478 95 - 27905053
GCCGCCGCCGACUGCUGCGUUCAACUUGAGCGGC-GGAAUCGCCGACGA----CCGCCUGCCUGCG-AAUCCGAUUUGGAUUCGGAUUCGGAUGCGGGCGU
..((.((.((((((((((...........)))))-))..))).)).)).----.(((((((.(.((-(((((((.......))))))))).).))))))). ( -45.60)
>DroSec_CAF1 37630 77 - 1
----CCGCCGACUGC----------UUGAGCGGC-GGAAUCGGCGACGA----CCGCC----UUCG-AAUCCGAUUUGGAUUCGGAUUCGGAUGCGGGCGU
----.((((((((((----------(.....)))-))..))))))(((.----((((.----((((-(((((((.......))))))))))).)))).))) ( -42.90)
>DroSim_CAF1 40456 81 - 1
GCCGCCGCCGACUGC----------UUGAGCGGC-GGAAUCGACGACGA----CCGCC----UUCG-AAUCCGAUUUGGAUUCGGAUUCGGAUGCGGGCGU
.((((((((((....----------))).)))))-))........(((.----((((.----((((-(((((((.......))))))))))).)))).))) ( -43.70)
>DroEre_CAF1 38575 81 - 1
----CCGCCGACGGCUGCGUCCGACUUCAGCGGC-GGAAUCGCCGACGA----GCGCC----UGCG-AAUCCGAUUUGGAU------UCGGAUGCGGGCGU
----......(((.((((((((((.(((((...(-(((.((((.(.(..----..).)----.)))-).))))..))))).------)))))))))).))) ( -38.90)
>DroYak_CAF1 38470 90 - 1
-----CGCCGACGGCUGCGUCCGACUUCAGCGGC-GGAAUCGCCGACGACCGACCGCC----UGCG-AAUCCGACUUGGAUUCGGAUUCGGAUGCGGACGU
-----.....(((.((((((((((.(((.(((((-((..(((........))))))))----.))(-(((((.....))))))))).)))))))))).))) ( -43.30)
>DroAna_CAF1 39023 76 - 1
GUCGCCGUCG-----------------UAGCAGCCGUAGCCGCCCACAG----UCGGC----AGCGGCAUCGUCGUCGGGCGCUGCCUCCGAAUCGCCCGU
.....((.((-----------------.....(((((.(((((.....)----.))))----.)))))..)).)).((((((.(........).)))))). ( -28.20)
>consensus
____CCGCCGACUGC__________UUGAGCGGC_GGAAUCGCCGACGA____CCGCC____UGCG_AAUCCGAUUUGGAUUCGGAUUCGGAUGCGGGCGU
.....((((....................((((......(((....)))....))))...........((((((.............))))))...)))). (-12.03 = -13.04 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:04 2006