Locus 8421

Sequence ID 3R_DroMel_CAF1
Location 22,447,066 – 22,447,176
Length 110
Max. P 0.892199
window13560 window13561

overview

Window 0

Location 22,447,066 – 22,447,176
Length 110
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 74.41
Mean single sequence MFE -27.02
Consensus MFE -14.99
Energy contribution -14.93
Covariance contribution -0.05
Combinations/Pair 1.20
Mean z-score -1.85
Structure conservation index 0.55
SVM decision value 0.97
SVM RNA-class probability 0.892199
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22447066 110 + 27905053
AUAUUCUAGACGAAUGAAUAAUAUAGCAUUCAUUAUC-UA-CCUUUUAUACCGCCAACGCGAC-GACGUUUAAAAUUAGACUAGAAAAUCUAGUC-AAU-UGAGCCGUCUAGUCA--
.....((((((((((((((........)))))))...-..-..........(((....)))..-...((((((.....((((((.....))))))-..)-))))))))))))...-- ( -25.50)
>DroVir_CAF1 144425 113 + 1
-UGUUCUUUUAGAAUGCUAGCCAUGUC-UAUAUAAACUUA-GCUUUUAUACCGCCAACGCGGCCAGCGACUAUAAUUAGACCAGUUGAUCUAGCCGCAU-UAAACCGUCGCGCUCUC
-.((((.....))))(((((.((.(((-((..........-(((......((((....))))..))).........)))))....))..)))))(((..-.........)))..... ( -19.21)
>DroPse_CAF1 101706 110 + 1
CUGUUCUAAUAGAAUGCGGGAUGUAUC-UUUAUUAAC-UA-GCUUUUAUACCGCCAACGCGAA-GACGGUUAAAAUUAGACCAGAAAAUCUGGUCGAAU-UGAGCCGUCGCAUAG--
......(((((((((((.....)))).-))))))).(-((-((........(((....)))..-(((((((..((((.((((((.....)))))).)))-).))))))))).)))-- ( -31.60)
>DroWil_CAF1 86938 108 + 1
CGAUUCUAUUAGAAUGAC-AACAAGUUGCUCAUUAGC-AAUGCUUUUAUACCGCCAACGCGAU-GGCUGCUAAAAUUAGACCAGUCUAUCUGGUCGAAU-UAAACUGUCGCA-----
..((((.....))))(((-(....((((((....)))-)))...........((((......)-)))......((((.((((((.....)))))).)))-)....))))...----- ( -25.20)
>DroAna_CAF1 90633 110 + 1
GUGUUCUAUAAGAAUGCUGCCUGUAUC-UUUAUUAAC-UA-GCUUUUAUACCGCCAACGCGAC-GACGCUUUAAAUUAGACUAGAAAAUCUAGUC-GAUUUGAGCCGUCGAAUCG--
(((((.(((((((..((((...(((..-..)))....-))-))))))))).....)))))..(-((((.((((((((.((((((.....))))))-)))))))).))))).....-- ( -29.00)
>DroPer_CAF1 102384 110 + 1
CUGUUCUAAUAGAAUGCGGGAUGUAUC-UUUAUUAAC-UA-GCUUUUAUACCGCCAACGCGAA-GACGGUUAAAAUUAGACCAGAAAAUCUGGUCGAAU-UGAGCCGUCGCAUAG--
......(((((((((((.....)))).-))))))).(-((-((........(((....)))..-(((((((..((((.((((((.....)))))).)))-).))))))))).)))-- ( -31.60)
>consensus
CUGUUCUAUUAGAAUGCGGGAUAUAUC_UUUAUUAAC_UA_GCUUUUAUACCGCCAACGCGAC_GACGGUUAAAAUUAGACCAGAAAAUCUAGUCGAAU_UGAGCCGUCGCAUAG__
..((((.....))))....................................(((....)))...((((......(((.((((((.....)))))).)))......))))........ (-14.99 = -14.93 +  -0.05)

alignment

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secondary structure

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dotplot

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Window 1

Location 22,447,066 – 22,447,176
Length 110
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 74.41
Mean single sequence MFE -28.36
Consensus MFE -15.22
Energy contribution -15.42
Covariance contribution 0.20
Combinations/Pair 1.33
Mean z-score -1.65
Structure conservation index 0.54
SVM decision value 0.30
SVM RNA-class probability 0.679915
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22447066 110 - 27905053
--UGACUAGACGGCUCA-AUU-GACUAGAUUUUCUAGUCUAAUUUUAAACGUC-GUCGCGUUGGCGGUAUAAAAGG-UA-GAUAAUGAAUGCUAUAUUAUUCAUUCGUCUAGAAUAU
--...((((((((((..-...-((((((.....))))))...(((((..((((-(......)))))...)))))))-).-...((((((((......)))))))))))))))..... ( -29.50)
>DroVir_CAF1 144425 113 - 1
GAGAGCGCGACGGUUUA-AUGCGGCUAGAUCAACUGGUCUAAUUAUAGUCGCUGGCCGCGUUGGCGGUAUAAAAGC-UAAGUUUAUAUA-GACAUGGCUAGCAUUCUAAAAGAACA-
.((((.((.((.(((.(-((((((((((....((((.........))))..)))))))))))))).)).....(((-((.((((....)-))).))))).)).)))).........- ( -35.30)
>DroPse_CAF1 101706 110 - 1
--CUAUGCGACGGCUCA-AUUCGACCAGAUUUUCUGGUCUAAUUUUAACCGUC-UUCGCGUUGGCGGUAUAAAAGC-UA-GUUAAUAAA-GAUACAUCCCGCAUUCUAUUAGAACAG
--..(((((((((...(-(((.((((((.....)))))).))))....)))))-.((..(((((((((......))-).-))))))...-))........))))............. ( -27.00)
>DroWil_CAF1 86938 108 - 1
-----UGCGACAGUUUA-AUUCGACCAGAUAGACUGGUCUAAUUUUAGCAGCC-AUCGCGUUGGCGGUAUAAAAGCAUU-GCUAAUGAGCAACUUGUU-GUCAUUCUAAUAGAAUCG
-----.(((((((((..-.(((((((((.....)))))).....(((((((((-(......)))).((......))..)-))))).))).))).))))-)).((((.....)))).. ( -27.90)
>DroAna_CAF1 90633 110 - 1
--CGAUUCGACGGCUCAAAUC-GACUAGAUUUUCUAGUCUAAUUUAAAGCGUC-GUCGCGUUGGCGGUAUAAAAGC-UA-GUUAAUAAA-GAUACAGGCAGCAUUCUUAUAGAACAC
--.(.(((((((((.(((((.-((((((.....))))))..))))...).)))-)))..((((.(.((((......-..-.........-.)))).).)))).........)))).. ( -23.47)
>DroPer_CAF1 102384 110 - 1
--CUAUGCGACGGCUCA-AUUCGACCAGAUUUUCUGGUCUAAUUUUAACCGUC-UUCGCGUUGGCGGUAUAAAAGC-UA-GUUAAUAAA-GAUACAUCCCGCAUUCUAUUAGAACAG
--..(((((((((...(-(((.((((((.....)))))).))))....)))))-.((..(((((((((......))-).-))))))...-))........))))............. ( -27.00)
>consensus
__CGAUGCGACGGCUCA_AUUCGACCAGAUUUUCUGGUCUAAUUUUAACCGUC_GUCGCGUUGGCGGUAUAAAAGC_UA_GUUAAUAAA_GAUACAUCCAGCAUUCUAAUAGAACAG
........(((((.....(((.((((((.....)))))).))).....)))))..((((....)))).................................................. (-15.22 = -15.42 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:06 2006