Locus 4353

Sequence ID 2R_DroMel_CAF1
Location 14,322,576 – 14,322,692
Length 116
Max. P 0.982164
window6968 window6969

overview

Window 8

Location 14,322,576 – 14,322,692
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.32
Mean single sequence MFE -24.02
Consensus MFE -12.18
Energy contribution -14.40
Covariance contribution 2.22
Combinations/Pair 1.20
Mean z-score -2.23
Structure conservation index 0.51
SVM decision value 1.91
SVM RNA-class probability 0.982164
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14322576 116 + 20766785
AUAAAGACG----UUGAGGUUGAUCACCUGGUAACUUCUGUUUACAUGAGCUAAUUCUACAUGUAUUCUACAUGUAUAUGCAGCUUACACUGUACAAGAUUUCUCCACAACGAUCUCUAC
....(((((----(((((((.....))))((.....(((...((((((((((.....((((((((...)))))))).....))))))...))))..))).....)).))))).))).... ( -28.70)
>DroSec_CAF1 51638 105 + 1
AUAAAGACG----UUGAGGUUGAUCACCUAGUAACUUCUGUUUACAUGGGCUAAUUCUAC-----------AUGUAUAUGUAGCUUACACCAUACAUGACAUCUCUACAACGAUCUCAAA
.........----(((((((((....(((((((((....).)))).)))).........(-----------((((((.((((...))))..)))))))............))))))))). ( -23.10)
>DroSim_CAF1 53645 116 + 1
AUAAAGACG----UUGAGGUUGAUCACCUAGUAACUUCUGUUUACAUGAGCUAAUUCUACAUGUAUUCUACAUGUAUAUGUAGCUUACACCAUACAAGACAUCUCUACAACGAUCUCAAA
.........----(((((((((........(((((....).)))).(((((((....((((((((...))))))))....))))))).......................))))))))). ( -26.70)
>DroEre_CAF1 52373 100 + 1
AUAAAGACAUUGGUUAAGGUUGAUCGCUCA-------------------GCGAAUUCUACAUGUAAUCUACAUGUCAAUGUAAUCUACACCCUACAAU-UUUCUCUACGACGAUCUCUGU
......((((((......(((((....)))-------------------)).......(((((((...))))))))))))).................-..................... ( -14.40)
>DroYak_CAF1 53209 120 + 1
AUGUAGACAUUGGUUGUGGUUGAUCACCUAGCAACUUAUACUUACAUAAGCUAAUUCUACAUGUAAUCUACAUGUGUAUGUAGCUUACACUCUACAAGACUUCUAUACGGCAAACUCUAU
.((((((.((.(((((((((.....)))..)))))).)).......(((((((....((((((((...))))))))....)))))))...))))))........................ ( -27.20)
>consensus
AUAAAGACG____UUGAGGUUGAUCACCUAGUAACUUCUGUUUACAUGAGCUAAUUCUACAUGUAAUCUACAUGUAUAUGUAGCUUACACCAUACAAGACUUCUCUACAACGAUCUCUAA
...............(((((((........((((.......)))).(((((((....(((((((.....)))))))....))))))).......................)))))))... (-12.18 = -14.40 +   2.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,322,576 – 14,322,692
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.32
Mean single sequence MFE -27.08
Consensus MFE -11.30
Energy contribution -12.44
Covariance contribution 1.14
Combinations/Pair 1.19
Mean z-score -1.73
Structure conservation index 0.42
SVM decision value 0.05
SVM RNA-class probability 0.558200
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14322576 116 - 20766785
GUAGAGAUCGUUGUGGAGAAAUCUUGUACAGUGUAAGCUGCAUAUACAUGUAGAAUACAUGUAGAAUUAGCUCAUGUAAACAGAAGUUACCAGGUGAUCAACCUCAA----CGUCUUUAU
(((((((.((((((((.((..(((..((((.((..(((((....((((((((...))))))))....)))))))))))...)))..)).)))(((.....))).)))----))))))))) ( -33.70)
>DroSec_CAF1 51638 105 - 1
UUUGAGAUCGUUGUAGAGAUGUCAUGUAUGGUGUAAGCUACAUAUACAU-----------GUAGAAUUAGCCCAUGUAAACAGAAGUUACUAGGUGAUCAACCUCAA----CGUCUUUAU
...((((.((((((((.(((.((.(((((((.((...((((((....))-----------)))).....))))))....))))).))).)))(((.....))).)))----))))))... ( -23.70)
>DroSim_CAF1 53645 116 - 1
UUUGAGAUCGUUGUAGAGAUGUCUUGUAUGGUGUAAGCUACAUAUACAUGUAGAAUACAUGUAGAAUUAGCUCAUGUAAACAGAAGUUACUAGGUGAUCAACCUCAA----CGUCUUUAU
...((((.((((((((.(((.(((.((...(..(.(((((....((((((((...))))))))....))))).)..)..))))).))).)))(((.....))).)))----))))))... ( -29.40)
>DroEre_CAF1 52373 100 - 1
ACAGAGAUCGUCGUAGAGAAA-AUUGUAGGGUGUAGAUUACAUUGACAUGUAGAUUACAUGUAGAAUUCGC-------------------UGAGCGAUCAACCUUAACCAAUGUCUUUAU
............(((((((..-((((((((((((((.((((((....)))))).)))).....((..((((-------------------...)))))).))))))..)))).))))))) ( -20.80)
>DroYak_CAF1 53209 120 - 1
AUAGAGUUUGCCGUAUAGAAGUCUUGUAGAGUGUAAGCUACAUACACAUGUAGAUUACAUGUAGAAUUAGCUUAUGUAAGUAUAAGUUGCUAGGUGAUCAACCACAACCAAUGUCUACAU
..(((.(((........))).)))(((((((..(((((((.....(((((((...))))))).....)))))))..)........((((...(((.....))).)))).....)))))). ( -27.80)
>consensus
AUAGAGAUCGUUGUAGAGAAGUCUUGUAGGGUGUAAGCUACAUAUACAUGUAGAAUACAUGUAGAAUUAGCUCAUGUAAACAGAAGUUACUAGGUGAUCAACCUCAA____CGUCUUUAU
............(((((((.................((((....(((((((.....)))))))....)))).....................(((.....)))..........))))))) (-11.30 = -12.44 +   1.14)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:38 2006