Locus 4866

Sequence ID 3R_DroMel_CAF1
Location 12,804,616 – 12,804,772
Length 156
Max. P 0.681397
window7969 window7970

overview

Window 9

Location 12,804,616 – 12,804,736
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.83
Mean single sequence MFE -42.00
Consensus MFE -26.54
Energy contribution -26.85
Covariance contribution 0.31
Combinations/Pair 1.48
Mean z-score -1.53
Structure conservation index 0.63
SVM decision value 0.31
SVM RNA-class probability 0.681397
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12804616 120 - 27905053
CAUACCCCGGAGCUAACGUGGGAGCGUGUCCGUUCUCAAGUGGAUCACAUCAGGUGGCCGGACGGCAGGAUGAUCAUUUUGCUCGCCGAGGGAAGACUGGUGAAUUUGUCCUGUUCCACC
........(((((..((.((((((((....)))))))).))((.((((.....))))))((((((((((((....)))))))(((((.((......)))))))...))))).)))))... ( -42.80)
>DroVir_CAF1 219245 120 - 1
CAUACACCGGAGUUAACUUGGGAGCGAGUGCGCUCGCAGGUGGAACAUAUUACUUGGCCAGACGGCAAGAUGAUCAUUCUCCUAGCUGAAGGACGUUUGGUCAAUCUGUCGUGUUCCACC
......((.(((....))).)).(((((....))))).((((((((((((...(((((((((((.......((....))((((......)))))))))))))))...)).)))))))))) ( -48.60)
>DroGri_CAF1 304962 120 - 1
CACACACCGGAGAUGACUUGGCAGCAUGUACGCUCUCAAGUCGAUCACAUUAUUUGGCCCGACGGCAAGAUGAUCAUCCUGCUGGCCGAGGGACGUUUGGUUAAUCUGUCCUGCUCCACC
........((((.((((((((.(((......))).))))))))..........((((((....((((.(((....))).))))))))))((((((..(.....)..)))))).))))... ( -40.20)
>DroWil_CAF1 248111 120 - 1
CACACUCCGGAGCUUGUCUGGGAACGAGUACGUUCUCAGGUAGAUCACAUUAUUUGGCCAGAUGGCAAAAUGAUUAUCCUGCUUGCCGAGGGUAGACUAGUCAAUCUUUCCUGUUCAACC
.......((((((.(..(((((((((....)))))))))..)(((...(((((((.(((....))).))))))).)))..)))..)))((((.(((........))).))))........ ( -33.10)
>DroMoj_CAF1 223432 120 - 1
CACACGCCGGAGUUGACCUGGCAGCGAGUGCGCUCCCAGGUGGAUCACAUUAUUUGGCCUGACGGCAAGAUGAUCAUUCUCCUGGCCGAAGGACGUUUGGUAAAUCUGUCCUGCUCCACC
.....(((((((((.((((((.((((....)))).)))))).))....(((((((.(((....))).)))))))....)))).)))...((((((..(.....)..))))))........ ( -41.80)
>DroAna_CAF1 168190 120 - 1
CAUACGCCGGAAUUGACUUGGGAACGAGUUCGCUCCCAGGUUGACCACAUCAUCUGGCCCGACGGCAGGAUGAUUAUCCUUCUGGCAGAAGGUAGGUUGGUGAAUCUCUCUUGCUCCACA
.....((((((((..((((((((.((....)).))))))))..)....(((((((.(((....))).))))))).....)))))))....((((((..((.....))..))))))..... ( -45.50)
>consensus
CACACACCGGAGUUGACUUGGGAGCGAGUACGCUCUCAGGUGGAUCACAUUAUUUGGCCAGACGGCAAGAUGAUCAUCCUGCUGGCCGAAGGAAGUUUGGUCAAUCUGUCCUGCUCCACC
........(((((..(((((((((((....))))))))))).......(((((((.(((....))).)))))))...............((((((..(.....)..)))))))))))... (-26.54 = -26.85 +   0.31)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,804,656 – 12,804,772
Length 116
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 83.25
Mean single sequence MFE -36.52
Consensus MFE -29.80
Energy contribution -29.97
Covariance contribution 0.17
Combinations/Pair 1.23
Mean z-score -1.33
Structure conservation index 0.82
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12804656 116 - 27905053
---UAUCAAAAGGUUUUUAACCCACUUUAGAAUGGCUUGCAUACCCCGGAGCUAACGUGGGAGCGUGUCCGUUCUCAAGUGGAUCACAUCAGGUGGCCGGACGGCAGGAUGAUCAUUUU
---........(((.......((((((.((((((((.(((...(((((.......)).))).))).).))))))).))))))....((((.....(((....)))..)))))))..... ( -36.40)
>DroSec_CAF1 179506 116 - 1
---UAUCAAUAGGUUUUUAACACACUUUAGAAUGGCUUGCAUACCCCGGAGCUCACGUGGGAGCGUGUGCGUUCCCAAGUGGACCACAUCAGGUGGCCGGACGGCAGGAUGAUCAUUUU
---.........................((((((((((((.....((((...((((.((((((((....)))))))).)))).((((.....))))))))...)))))....))))))) ( -37.40)
>DroSim_CAF1 181438 116 - 1
---UAUCAAAAGGUUUUUAACCCACUUUAGAAUGGCUUGCAUACCCCGGAGCUAACGUGGGAGCGUGUCCGUUCCCAAGUGGACCACAUCAGGUGGCCGGACGGCAGGAUGAUCAUUUU
---........(((.....)))......((((((((((((.....((((..(((...((((((((....))))))))..))).((((.....))))))))...)))))....))))))) ( -35.20)
>DroEre_CAF1 188155 116 - 1
---UAUUAAACUGAUCUUAAACCCUAUCAGAAUGGCUUGCAUACACCGGAACUAACGUGGGAGCGUGUCCGUUCCCAAGUGGACCACAUCAGGUGGCCGGAUGGCAGGAUGAUCAUUUU
---........(((((......((.........))(((((.....((((..(((...((((((((....))))))))..))).((((.....))))))))...)))))..))))).... ( -36.90)
>DroYak_CAF1 178890 116 - 1
---UACUAAAACGAGUUUCAUCCAUUUCAGAAUGGACUGCAUACCCCGGAGCUAACGUGGGAGCGUGUCCGUUCCCAAGUGGACCACAUCAGGUGGCCGGACGGCAGGAUGAUCAUUUU
---.........((...((.((((((....))))))((((.....((((..(((...((((((((....))))))))..))).((((.....))))))))...))))))...))..... ( -39.40)
>DroAna_CAF1 168230 116 - 1
UCCUUUCAAAUCUUAUU---UCCCUUACAGAACAGCCUGCAUACGCCGGAAUUGACUUGGGAACGAGUUCGCUCCCAGGUUGACCACAUCAUCUGGCCCGACGGCAGGAUGAUUAUCCU
.................---............((.(((((....((((((...(((((((((.((....)).)))))))))((.....)).))))))......))))).))........ ( -33.80)
>consensus
___UAUCAAAAGGUUUUUAACCCACUUCAGAAUGGCUUGCAUACCCCGGAGCUAACGUGGGAGCGUGUCCGUUCCCAAGUGGACCACAUCAGGUGGCCGGACGGCAGGAUGAUCAUUUU
............................((((((((((((.....((((..(((...((((((((....))))))))..))).((((.....))))))))...)))))....))))))) (-29.80 = -29.97 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:45 2006