Locus 1303

Sequence ID 2R_DroMel_CAF1
Location 5,064,415 – 5,064,515
Length 100
Max. P 0.833970
window2265 window2266

overview

Window 5

Location 5,064,415 – 5,064,515
Length 100
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 79.62
Mean single sequence MFE -21.37
Consensus MFE -13.10
Energy contribution -13.82
Covariance contribution 0.72
Combinations/Pair 1.20
Mean z-score -2.00
Structure conservation index 0.61
SVM decision value 0.73
SVM RNA-class probability 0.833970
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5064415 100 + 20766785
AGCCAGCAACAACA-----------AAUGUGUGUCAGCGACAAAGCAGCACACACACUCGCGCACACUGACUGGCGCACAUAUAAA---ACGUUUAUAUACAGC-ACCAAAAGCU
.(((((((......-----------..((((((((.((......)).).)))))))...........)).)))))((..((((((.---....))))))...))-.......... ( -21.81)
>DroSec_CAF1 7253 100 + 1
AACCAGCAACAACA-----------AAUGUGUGUCAGCGACAAAGCAGCACACACACUCGCGCACACGGACUGGCGCACAUAUAAA---ACGUUUAUAUACAGC-AUCGAAAGCU
....(((.......-----------..((((((((.((......)).).))))))).((((((.((.....))))))..((((((.---....)))))).....-...))..))) ( -22.00)
>DroSim_CAF1 7381 100 + 1
AACCAGCAACAACA-----------AAUGUGUGUCAGCGACAAAGCUGCACACACACUCGCGCACACGGACUGGCGCACAUAUAAA---ACGUUUAUAUACAGC-ACCGAAAGCU
....(((.......-----------..(((((((((((......)))).))))))).((((((.((.....))))))..((((((.---....)))))).....-...))..))) ( -27.30)
>DroEre_CAF1 7451 100 + 1
AACCAGCAACAACA-----------AAUGUGUGUCAGCGACAAAGCAGCACUCACACUCGCGCACACGGACUGACGCACAUAUACA---ACGUUUAUAUACAGC-ACAGAAAGCU
.....((.......-----------.(((((((((((.......((.((..........)))).......))))))))))).....---..((......)).))-.......... ( -20.44)
>DroMoj_CAF1 9314 114 + 1
GAGCAACAGCAACAACCACAAAUUGAAUGUGUGUCAACGACAAAACUACACCAAUACACACGCACACAUACA-GCAUACAUACACAUUCUCUCUUAUGUACGAUUGUAAAGAGCU
.(((....((..(((.......)))...((((((.....................)))))))).....((((-((.((((((............)))))).).)))))....))) ( -15.30)
>consensus
AACCAGCAACAACA___________AAUGUGUGUCAGCGACAAAGCAGCACACACACUCGCGCACACGGACUGGCGCACAUAUAAA___ACGUUUAUAUACAGC_ACCGAAAGCU
..........................(((((((((((.......((.((..........)))).......))))))))))).................................. (-13.10 = -13.82 +   0.72)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,064,415 – 5,064,515
Length 100
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 79.62
Mean single sequence MFE -31.52
Consensus MFE -16.20
Energy contribution -15.84
Covariance contribution -0.36
Combinations/Pair 1.40
Mean z-score -1.91
Structure conservation index 0.51
SVM decision value 0.07
SVM RNA-class probability 0.566243
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5064415 100 - 20766785
AGCUUUUGGU-GCUGUAUAUAAACGU---UUUAUAUGUGCGCCAGUCAGUGUGCGCGAGUGUGUGUGCUGCUUUGUCGCUGACACACAUU-----------UGUUGUUGCUGGCU
......((((-((...((((((....---.))))))..))))))(((((((...((((((((((((.(.((......)).))))))))))-----------)))...))))))). ( -38.10)
>DroSec_CAF1 7253 100 - 1
AGCUUUCGAU-GCUGUAUAUAAACGU---UUUAUAUGUGCGCCAGUCCGUGUGCGCGAGUGUGUGUGCUGCUUUGUCGCUGACACACAUU-----------UGUUGUUGCUGGUU
(((.......-)))(((((((.....---....)))))))((((((......((((((((((((((.(.((......)).))))))))))-----------)).))).)))))). ( -30.50)
>DroSim_CAF1 7381 100 - 1
AGCUUUCGGU-GCUGUAUAUAAACGU---UUUAUAUGUGCGCCAGUCCGUGUGCGCGAGUGUGUGUGCAGCUUUGUCGCUGACACACAUU-----------UGUUGUUGCUGGUU
.......(((-((...((((((....---.))))))..)))))...(((...((((((((((((((.((((......)))))))))))))-----------)).)))...))).. ( -35.80)
>DroEre_CAF1 7451 100 - 1
AGCUUUCUGU-GCUGUAUAUAAACGU---UGUAUAUGUGCGUCAGUCCGUGUGCGCGAGUGUGAGUGCUGCUUUGUCGCUGACACACAUU-----------UGUUGUUGCUGGUU
(((.......-)))(((.((((((((---.(((((((..(....)..)))))))))).((((.(((((......).)))).))))...))-----------)))...)))..... ( -26.00)
>DroMoj_CAF1 9314 114 - 1
AGCUCUUUACAAUCGUACAUAAGAGAGAAUGUGUAUGUAUGC-UGUAUGUGUGCGUGUGUAUUGGUGUAGUUUUGUCGUUGACACACAUUCAAUUUGUGGUUGUUGCUGUUGCUC
(((.....(((((((((((((........)))))))((((((-.....))))))((((((..((..(......)..))...))))))...........)))))).)))....... ( -27.20)
>consensus
AGCUUUCGGU_GCUGUAUAUAAACGU___UUUAUAUGUGCGCCAGUCCGUGUGCGCGAGUGUGUGUGCUGCUUUGUCGCUGACACACAUU___________UGUUGUUGCUGGUU
..............(((((((............)))))))((((((......((....))((((((((.((......)).).)))))))...................)))))). (-16.20 = -15.84 +  -0.36)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:44 2006