Locus 821

Sequence ID 3R_DroMel_CAF1
Location 2,822,413 – 2,822,506
Length 93
Max. P 0.959814
window1306 window1307

overview

Window 6

Location 2,822,413 – 2,822,506
Length 93
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 83.13
Mean single sequence MFE -23.67
Consensus MFE -19.56
Energy contribution -19.58
Covariance contribution 0.03
Combinations/Pair 1.05
Mean z-score -3.22
Structure conservation index 0.83
SVM decision value 1.51
SVM RNA-class probability 0.959814
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2822413 93 + 27905053
GAGUUUAUGAUUUUGUCAGCUGUGUAACAUUUCCAGCUGAUAAAAUCAAUAAAUUAUGAGAAAAUAAUUUCAU--UUGAUGCCAUCUAUUUGAUU--------
.(((((((((((((((((((((.(........))))))))))))))).)))))))((((((......))))))--....................-------- ( -25.50)
>DroVir_CAF1 156248 96 + 1
GAGUUUAUGAUUUUGUCAGCUGUGAAACAUUUCCAGCUGAUUAAAUCGAUAAAUUAUGAGAAUAUAAUAACAU--CUGAUGACAAAAAUUG----GUAAA-AU
.((((((((((((.((((((((.(((....))))))))))).))))).)))))))..................--(..((.......))..----)....-.. ( -22.60)
>DroGri_CAF1 154151 96 + 1
GAGUUUAUGAUUUUGUCAGCUGUGAAACAUUUCCAGCUGAUUAAAUCGAUAAAUUAUGUGCAAAUAAUGUCAU--UUGAUGAUUAAAAUUG----GUCGA-AU
.((((((((((((.((((((((.(((....))))))))))).))))).)))))))................((--(((((.(.......).----)))))-)) ( -25.70)
>DroSim_CAF1 102216 93 + 1
GAGUUUAUGAUUUUGUCAGCUGCGUAACAUUUCCAGCUGAUUAAAUCGAUAAAUUAUGAGAAAAUAAUUUCAU--UUGAUGCCAACUAUUUGAUU--------
.((((((((((((.((((((((.(........))))))))).))))).)))))))((((((......))))))--....................-------- ( -21.90)
>DroYak_CAF1 100944 93 + 1
GAGUAUAUGAUUUUGUCAGCUGUGUAACAUUUCCAGCUGAUUAAAUCGAUAAAUUAUGAGAAAAUAAUUUCAU--UUGAUGCCAACAAUUUGAUU--------
(.((((.((((((.((((((((.(........))))))))).)))))).......((((((......))))))--...)))))............-------- ( -20.60)
>DroMoj_CAF1 162605 99 + 1
GAGUUUAUGAUUUUGUCAGCUGUGAAACAUUUCCGGCUGAUUAAAUCGAUAAAUUAUGAGCAAAUAAUAUCAUUGCUGAUGGCAAAAAUUG----UUAAAAAC
.((((((((((((.((((((((.(((....))))))))))).))))).))))))).(.(((((.........))))).)(((((.....))----)))..... ( -25.70)
>consensus
GAGUUUAUGAUUUUGUCAGCUGUGAAACAUUUCCAGCUGAUUAAAUCGAUAAAUUAUGAGAAAAUAAUUUCAU__UUGAUGCCAAAAAUUG____________
.((((((((((((.((((((((.(........))))))))).))))).)))))))................................................ (-19.56 = -19.58 +   0.03)

alignment

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secondary structure

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dotplot

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Window 7

Location 2,822,413 – 2,822,506
Length 93
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 83.13
Mean single sequence MFE -17.72
Consensus MFE -14.18
Energy contribution -14.52
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.80
SVM decision value 1.05
SVM RNA-class probability 0.906862
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2822413 93 - 27905053
--------AAUCAAAUAGAUGGCAUCAA--AUGAAAUUAUUUUCUCAUAAUUUAUUGAUUUUAUCAGCUGGAAAUGUUACACAGCUGACAAAAUCAUAAACUC
--------....................--...(((((((......)))))))..(((((((.(((((((...........))))))).)))))))....... ( -18.40)
>DroVir_CAF1 156248 96 - 1
AU-UUUAC----CAAUUUUUGUCAUCAG--AUGUUAUUAUAUUCUCAUAAUUUAUCGAUUUAAUCAGCUGGAAAUGUUUCACAGCUGACAAAAUCAUAAACUC
..-.....----...............(--(((..(((((......))))).))))(((((..((((((((((....))).)))))))..)))))........ ( -19.50)
>DroGri_CAF1 154151 96 - 1
AU-UCGAC----CAAUUUUAAUCAUCAA--AUGACAUUAUUUGCACAUAAUUUAUCGAUUUAAUCAGCUGGAAAUGUUUCACAGCUGACAAAAUCAUAAACUC
..-.....----.............(((--(((....)))))).......(((((.(((((..((((((((((....))).)))))))..))))))))))... ( -18.50)
>DroSim_CAF1 102216 93 - 1
--------AAUCAAAUAGUUGGCAUCAA--AUGAAAUUAUUUUCUCAUAAUUUAUCGAUUUAAUCAGCUGGAAAUGUUACGCAGCUGACAAAAUCAUAAACUC
--------....((((((((..(((...--))).))))))))........(((((.(((((..((((((((........).)))))))..))))))))))... ( -17.60)
>DroYak_CAF1 100944 93 - 1
--------AAUCAAAUUGUUGGCAUCAA--AUGAAAUUAUUUUCUCAUAAUUUAUCGAUUUAAUCAGCUGGAAAUGUUACACAGCUGACAAAAUCAUAUACUC
--------....(((((((.((....((--(((....))))).)).)))))))...(((((..(((((((...........)))))))..)))))........ ( -16.50)
>DroMoj_CAF1 162605 99 - 1
GUUUUUAA----CAAUUUUUGCCAUCAGCAAUGAUAUUAUUUGCUCAUAAUUUAUCGAUUUAAUCAGCCGGAAAUGUUUCACAGCUGACAAAAUCAUAAACUC
........----...........((((....))))...............(((((.(((((..(((((.((((....))).).)))))..))))))))))... ( -15.80)
>consensus
____________AAAUUGUUGGCAUCAA__AUGAAAUUAUUUUCUCAUAAUUUAUCGAUUUAAUCAGCUGGAAAUGUUACACAGCUGACAAAAUCAUAAACUC
..................................................(((((.(((((..(((((((...........)))))))..))))))))))... (-14.18 = -14.52 +   0.33)

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 09:52:58 2006