Locus 1502

Sequence ID 2R_DroMel_CAF1
Location 5,698,105 – 5,698,204
Length 99
Max. P 0.808634
window2545 window2546

overview

Window 5

Location 5,698,105 – 5,698,204
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.58
Mean single sequence MFE -32.58
Consensus MFE -18.90
Energy contribution -18.90
Covariance contribution 0.00
Combinations/Pair 1.26
Mean z-score -1.97
Structure conservation index 0.58
SVM decision value 0.64
SVM RNA-class probability 0.808634
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5698105 99 + 20766785
UUGUCUUUGCGUGUAUAUAGCACCCUGUUUAUGACAGGGUGUGUCUCAGCUGA-----------CGG-------GGCUGC---AAGAAAGGCAAGGCGCCGCACAAAUUAAAAGCGAAAA
((((((((.(.((((....((((((((((...))))))))))(((((......-----------.))-------))))))---).))))))))).....(((...........))).... ( -31.80)
>DroSim_CAF1 28485 99 + 1
UUUUCUUCACGUGUACGUAGCACCCUGUUUAAGACAGGGUGUGUCUCAGUUGA-----------CGG-------CGCUGC---AAGAAAGUCAAGGCGCCGCACAAAUUAAAAGCGAAAA
..........((((.....((((((((((...))))))))))(((......))-----------)((-------((((((---......))...))))))))))................ ( -33.60)
>DroEre_CAF1 26492 99 + 1
UUUUCUUCGCGUGUAUGUAGCACCCUGUUUAUGACAGGGUGUGUCUUAGUUGG-----------CGG-------GACUGU---AAGAAAGGCAAAGCGGCGCACAAAUUAAAAGCGAAAA
.....(((((((((.(((.((((((((((...))))))))))(((((.....(-----------((.-------...)))---....)))))...)))..)))).........))))).. ( -29.50)
>DroYak_CAF1 26978 99 + 1
UUUUUUUCGUAUGUAUGUAGCACCCUGUUUAUGACAGGGUGUGUCUCAGUUGA-----------CGG-------GCCUGC---AAGAAGGGCAAAGCGGCGCACAAAUUAAAAGCGAAAA
...(((((((.....((..((((((((((...))))))))))....))((((.-----------...-------((((..---.....))))....)))).............))))))) ( -31.20)
>DroAna_CAF1 28096 119 + 1
-UAUUUGCCAGUGUAAUCAGUACCCUGUUUAUGACAGGGUGUGUCUCAGCUGAGUCCCAAUGGGCGGCGACAUGGGCGGCGAAAAGGGGGGCAUUGCAGCACACAAAUUAAAAGCGAAAA
-..(((((.............((((((((...))))))))((((....((((.(((((..(...((.((.......)).))...)..)))))....)))))))).........))))).. ( -36.80)
>consensus
UUUUCUUCGCGUGUAUGUAGCACCCUGUUUAUGACAGGGUGUGUCUCAGUUGA___________CGG_______GGCUGC___AAGAAAGGCAAAGCGGCGCACAAAUUAAAAGCGAAAA
..........((((.....((((((((((...))))))))))(((((((((.......................))))).........))))........))))................ (-18.90 = -18.90 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,698,105 – 5,698,204
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.58
Mean single sequence MFE -27.42
Consensus MFE -13.82
Energy contribution -14.66
Covariance contribution 0.84
Combinations/Pair 1.12
Mean z-score -1.90
Structure conservation index 0.50
SVM decision value 0.13
SVM RNA-class probability 0.598436
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5698105 99 - 20766785
UUUUCGCUUUUAAUUUGUGCGGCGCCUUGCCUUUCUU---GCAGCC-------CCG-----------UCAGCUGAGACACACCCUGUCAUAAACAGGGUGCUAUAUACACGCAAAGACAA
.............((((((.((.((..(((.......---))))).-------))(-----------((......))).((((((((.....)))))))).........))))))..... ( -25.10)
>DroSim_CAF1 28485 99 - 1
UUUUCGCUUUUAAUUUGUGCGGCGCCUUGACUUUCUU---GCAGCG-------CCG-----------UCAACUGAGACACACCCUGUCUUAAACAGGGUGCUACGUACACGUGAAGAAAA
(((((((........((((((((((..((.(......---))))))-------))(-----------((......))).((((((((.....))))))))....))))).)))))))... ( -33.10)
>DroEre_CAF1 26492 99 - 1
UUUUCGCUUUUAAUUUGUGCGCCGCUUUGCCUUUCUU---ACAGUC-------CCG-----------CCAACUAAGACACACCCUGUCAUAAACAGGGUGCUACAUACACGCGAAGAAAA
((((((((((((..(((.(((..(((.((.......)---).))).-------.))-----------)))).)))))..((((((((.....))))))))..........)))))))... ( -26.10)
>DroYak_CAF1 26978 99 - 1
UUUUCGCUUUUAAUUUGUGCGCCGCUUUGCCCUUCUU---GCAGGC-------CCG-----------UCAACUGAGACACACCCUGUCAUAAACAGGGUGCUACAUACAUACGAAAAAAA
((((((............(.(((((............---)).)))-------.)(-----------((......))).((((((((.....))))))))...........))))))... ( -24.40)
>DroAna_CAF1 28096 119 - 1
UUUUCGCUUUUAAUUUGUGUGCUGCAAUGCCCCCCUUUUCGCCGCCCAUGUCGCCGCCCAUUGGGACUCAGCUGAGACACACCCUGUCAUAAACAGGGUACUGAUUACACUGGCAAAUA-
.....(((..(((((.((((((......))..(((.....((.((.......)).)).....))).(((....)))))))(((((((.....)))))))...)))))....))).....- ( -28.40)
>consensus
UUUUCGCUUUUAAUUUGUGCGCCGCCUUGCCUUUCUU___GCAGCC_______CCG___________UCAACUGAGACACACCCUGUCAUAAACAGGGUGCUACAUACACGCGAAGAAAA
(((((((.........((.....))......................................................((((((((.....))))))))..........)))))))... (-13.82 = -14.66 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:20 2006