Locus 2045

Sequence ID 2R_DroMel_CAF1
Location 7,712,981 – 7,713,129
Length 148
Max. P 0.777784
window3388 window3389

overview

Window 8

Location 7,712,981 – 7,713,098
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.92
Mean single sequence MFE -39.47
Consensus MFE -21.50
Energy contribution -21.72
Covariance contribution 0.23
Combinations/Pair 1.38
Mean z-score -2.07
Structure conservation index 0.54
SVM decision value 0.55
SVM RNA-class probability 0.777784
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7712981 117 + 20766785
GCAGCUGGUGAGGAAAACACUGGUCACAUUCUGCACGAUCUGCACUUUGGACUCAGCAUUGUCCAGCAGCAUGGCCAAUAGCAGGUGCUGUUGGCCAUCCAGUUUCACGCUUGAGGA
((.((((.((.((......((((((.((...((((.....))))...))))).))).....)))).))))((((((((((((....))))))))))))..........))....... ( -42.50)
>DroVir_CAF1 3475 117 + 1
GCAGCUGGUCAGGAAGACGCUGGUUACAUUCUGCACUAUUUGGAUCUUGGACUCAGCAUUGUCCAGCAACAUGGCCAGUAACAAAUGCUGUUGUCCGUCCAGCUGCACAUGUGAUGG
((((((((...(((....((((((..(((..(((.((....))....(((((........))))))))..)))))))))((((.....)))).)))..))))))))........... ( -40.40)
>DroGri_CAF1 3247 117 + 1
GCAGCUGGUGAGGAAAACGCUCGUCACAUUCUGCACAAUUUGUAUCUUGGACUCGGCAUUAUCCAGCAGCAUCGCGAGCAACAGAUGCUGCUGUCCAUCCAGCUGCACUUCACACGA
((((((((...(((....(((.(((.((...((((.....))))...)))))..)))......((((((((((..........)))))))))))))..))))))))........... ( -46.10)
>DroWil_CAF1 3135 117 + 1
GCAACUUGUUAGAAAAACACUCGUUACAUUUUGGACAAUUUGAAUUUUUGACUCUGCAUUGUCCAACAGCAUGGCCAGCAAUAGAUGUUGCUGCCCAUCCAGUUGUACCUCCCACGA
(((((((((..((.......))...)))..(((((((((..((.........))...)))))))))..(.((((.(((((((....))))))).)))).)))))))........... ( -28.50)
>DroMoj_CAF1 3284 117 + 1
GCAGCUGGUGAGGAAGACGCUCGUUACGUUCUGGACAAUUUGUAUCUUGGACUCGGCAUUGUCGAGUAGCAUGGCCAGUAACAGAUGCUGUUGUCCAUCCAACUGCACCUCCGAUGG
((((.((((((.((......)).))))....((((((((..((((((...(((.(((..(((......)))..))))))...)))))).))))))))..)).)))).((......)) ( -38.70)
>DroAna_CAF1 2993 117 + 1
ACAGCUGGUGAGAAACACGCUUGUGACAUUUUGGACUAUUUGGAUCUUGGACUCGGCAUUGUCCAGGAGCAUGGCCAAAAGCAGAUGCUGCUGUCCGUCCAACUUAACAGCGGACGG
(((((..(((.....)))((.(.((...((((((.((((.....((((((((........))))))))..)))))))))).)).).)).)))))((((((...........)))))) ( -40.60)
>consensus
GCAGCUGGUGAGGAAAACGCUCGUUACAUUCUGCACAAUUUGGAUCUUGGACUCGGCAUUGUCCAGCAGCAUGGCCAGUAACAGAUGCUGCUGUCCAUCCAGCUGCACAUCCGACGA
((((((((...(((((((....)))...))))...............(((((.(((((((........((...))........)))))))..))))).))))))))........... (-21.50 = -21.72 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 7,713,021 – 7,713,129
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 76.54
Mean single sequence MFE -34.90
Consensus MFE -12.97
Energy contribution -13.59
Covariance contribution 0.62
Combinations/Pair 1.36
Mean z-score -2.22
Structure conservation index 0.37
SVM decision value 0.03
SVM RNA-class probability 0.550950
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7713021 108 + 20766785
UGCACUUUGGACUCAGCAUUGUCCAGCAGCAUGGCCAAUAGCAGGUGCUGUUGGCCAUCCAGUUUCACGCUUGAGGAAUCGACAUUCUUAUCCACCUCCAUUGCAUCG
((((...((((((((((..((.....))(.((((((((((((....)))))))))))).)........)).))))((((....)))).........)))).))))... ( -35.50)
>DroVir_CAF1 3515 108 + 1
UGGAUCUUGGACUCAGCAUUGUCCAGCAACAUGGCCAGUAACAAAUGCUGUUGUCCGUCCAGCUGCACAUGUGAUGGAUCGCCAUCCGUGUCCACUUCCAUGGCAUCC
(((((...((((.((((((((((((......)))......)).)))))))..)))))))))..(((.((((..(((((.(((.....))))))).)..)))))))... ( -35.00)
>DroGri_CAF1 3287 105 + 1
UGUAUCUUGGACUCGGCAUUAUCCAGCAGCAUCGCGAGCAACAGAUGCUGCUGUCCAUCCAGCUGCACUUCACACGACUCUCCAC---UGUCCACGUCCAUGGCAUCC
(((....(((((.((((......((((((((((..........))))))))))........))))..........(((.......---.)))...)))))..)))... ( -31.14)
>DroYak_CAF1 3047 108 + 1
UGCACCUUGGACUCUGCAUUGUCCAGCAGCAUGGCCAAUAGCAGGUGCUGCUGGCCAUCCAACUUCACGCAUGAGGAAUCGAUGUCUUCAUCAACCUCCAUUGCAUCG
.((...((((((........))))))..))(((((((.((((....)))).)))))))..........(((.((((....((((....))))..))))...))).... ( -36.40)
>DroMoj_CAF1 3324 108 + 1
UGUAUCUUGGACUCGGCAUUGUCGAGUAGCAUGGCCAGUAACAGAUGCUGUUGUCCAUCCAACUGCACCUCCGAUGGAUCGCCUUGCUGGUCCACAUCCAUGGCAUCU
(((....((((((((((...)))))))....((((((((((..(((((.((((......)))).)).((......)))))...))))))).)))...)))..)))... ( -33.90)
>DroAna_CAF1 3033 108 + 1
UGGAUCUUGGACUCGGCAUUGUCCAGGAGCAUGGCCAAAAGCAGAUGCUGCUGUCCGUCCAACUUAACAGCGGACGGAUCGGUAUCCUCAUCUAUCUCCAUCGCAUCA
....((((((((........))))))))((((((.........(((((((..((((((((...........)))))))))))))))...........)))).)).... ( -37.45)
>consensus
UGCAUCUUGGACUCGGCAUUGUCCAGCAGCAUGGCCAAUAACAGAUGCUGCUGUCCAUCCAACUGCACAUCUGACGAAUCGCCAUCCUUAUCCACCUCCAUGGCAUCC
(((...((((((........))))))..)))............(((((.((((......)))).........((((..................))))....))))). (-12.97 = -13.59 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:49 2006