Locus 4981

Sequence ID 3R_DroMel_CAF1
Location 13,114,806 – 13,114,898
Length 92
Max. P 0.994112
window8144 window8145

overview

Window 4

Location 13,114,806 – 13,114,898
Length 92
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 67.28
Mean single sequence MFE -32.15
Consensus MFE -11.31
Energy contribution -13.53
Covariance contribution 2.22
Combinations/Pair 1.24
Mean z-score -2.78
Structure conservation index 0.35
SVM decision value 2.45
SVM RNA-class probability 0.994112
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13114806 92 + 27905053
AUGGACACUCAC-UCACAUCAG-AGCCUCGU---C-GCUUGUCCCGGACUCCGUAGUCGGUAUUUUGUAUUCCGUACUACGUAGUCCGU---GUUCCGUGU
((((((((....-........(-(((.....---.-)))).....(((((.(((((((((.((.....)).))).)))))).)))))))---).))))).. ( -31.70)
>DroVir_CAF1 131732 82 + 1
AUAGAUGCAGAC-ACAUUCUGA---CCG--UAUUCUGGCCAUGCCUGCCGUCGUACACGGG---C------UGAGAC---G-UGGCCGUAACGGAUCGUGU
...(((.((((.-....)))).---(((--(....((((((((((.(((..((....))))---)------.).).)---)-))))))..))))))).... ( -26.60)
>DroSec_CAF1 145212 92 + 1
AUGGACACUCAC-UCACAUCGA-AGCCCCCU---C-GCUUGUUCCGGACUCCGUAGUCGGUAUUUUGUAUUCCGUACUACGUAGUCCGU---GUUCCGUGU
((((((((....-........(-(((.....---.-)))).....(((((.(((((((((.((.....)).))).)))))).)))))))---).))))).. ( -31.40)
>DroSim_CAF1 129995 92 + 1
AUGGACACUCAC-UCACAUCGA-AGCCCCCU---C-GCUUGUUCCGGACUCCGUAGUCGGUAUUUUGUAUUCCGUACUACGUAGUCCGU---GUUCCGUGU
((((((((....-........(-(((.....---.-)))).....(((((.(((((((((.((.....)).))).)))))).)))))))---).))))).. ( -31.40)
>DroEre_CAF1 135434 92 + 1
ACGGACACUCAC-UCACAUCGA-UGCCACGU---C-GCUUGUUCCGGACUCCGUAGUCGGUAUUUUGUAUUCCGUACUACGUAGUCCGU---GUUCCGUGU
((((((((....-..(((.(((-((...)))---)-)..)))...(((((.(((((((((.((.....)).))).)))))).)))))))---).))))).. ( -34.70)
>DroAna_CAF1 135286 87 + 1
AGGGACAGACCCAUCACAGGGACUGGCCUGU---U-GGUCGCACCGGAUUCCGUGCUCCGAACUCUGCGAGCCGGAC-------UCCAU---GUUCCGUGU
.((((((((((....(((((......)))))---.-)))).....(((.((((.((((((.....)).)))))))).-------))).)---))))).... ( -37.10)
>consensus
AUGGACACUCAC_UCACAUCGA_AGCCCCGU___C_GCUUGUUCCGGACUCCGUAGUCGGUAUUUUGUAUUCCGUACUACGUAGUCCGU___GUUCCGUGU
............................................((((((.(((((((((.((.....)).))).)))))).))))))............. (-11.31 = -13.53 +   2.22)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 13,114,806 – 13,114,898
Length 92
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 67.28
Mean single sequence MFE -31.82
Consensus MFE -12.09
Energy contribution -14.40
Covariance contribution 2.31
Combinations/Pair 1.24
Mean z-score -2.37
Structure conservation index 0.38
SVM decision value 1.87
SVM RNA-class probability 0.980749
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13114806 92 - 27905053
ACACGGAAC---ACGGACUACGUAGUACGGAAUACAAAAUACCGACUACGGAGUCCGGGACAAGC-G---ACGAGGCU-CUGAUGUGA-GUGAGUGUCCAU
.........---.((((((.((((((.(((.((.....)).))))))))).))))))(((((..(-.---.....(((-(......))-)))..))))).. ( -33.40)
>DroVir_CAF1 131732 82 - 1
ACACGAUCCGUUACGGCCA-C---GUCUCA------G---CCCGUGUACGACGGCAGGCAUGGCCAGAAUA--CGG---UCAGAAUGU-GUCUGCAUCUAU
....((.((((...(((((-.---((((..------(---((((....))..))))))).))))).....)--)))---))(((.(((-....)))))).. ( -25.80)
>DroSec_CAF1 145212 92 - 1
ACACGGAAC---ACGGACUACGUAGUACGGAAUACAAAAUACCGACUACGGAGUCCGGAACAAGC-G---AGGGGGCU-UCGAUGUGA-GUGAGUGUCCAU
....(((.(---(((((((.((((((.(((.((.....)).))))))))).)))))....((..(-(---(((...))-)))...)).-....)))))).. ( -32.70)
>DroSim_CAF1 129995 92 - 1
ACACGGAAC---ACGGACUACGUAGUACGGAAUACAAAAUACCGACUACGGAGUCCGGAACAAGC-G---AGGGGGCU-UCGAUGUGA-GUGAGUGUCCAU
....(((.(---(((((((.((((((.(((.((.....)).))))))))).)))))....((..(-(---(((...))-)))...)).-....)))))).. ( -32.70)
>DroEre_CAF1 135434 92 - 1
ACACGGAAC---ACGGACUACGUAGUACGGAAUACAAAAUACCGACUACGGAGUCCGGAACAAGC-G---ACGUGGCA-UCGAUGUGA-GUGAGUGUCCGU
..(((((.(---(((((((.((((((.(((.((.....)).))))))))).)))))....((.((-(---.((.....-.)).)))..-.)).)))))))) ( -33.50)
>DroAna_CAF1 135286 87 - 1
ACACGGAAC---AUGGA-------GUCCGGCUCGCAGAGUUCGGAGCACGGAAUCCGGUGCGACC-A---ACAGGCCAGUCCCUGUGAUGGGUCUGUCCCU
....((.((---(((((-------.((((((((..........)))).)))).))))....((((-.---(((((......)))))....))))))).)). ( -32.80)
>consensus
ACACGGAAC___ACGGACUACGUAGUACGGAAUACAAAAUACCGACUACGGAGUCCGGAACAAGC_G___ACGGGGCU_UCGAUGUGA_GUGAGUGUCCAU
.............((((((.((((((.(((.((.....)).))))))))).))))))............................................ (-12.09 = -14.40 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:30 2006