Locus 4648

Sequence ID 2R_DroMel_CAF1
Location 15,176,287 – 15,176,385
Length 98
Max. P 0.977441
window7476 window7477

overview

Window 6

Location 15,176,287 – 15,176,385
Length 98
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.33
Mean single sequence MFE -23.99
Consensus MFE -14.36
Energy contribution -14.53
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.72
Structure conservation index 0.60
SVM decision value 1.79
SVM RNA-class probability 0.977441
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15176287 98 + 20766785
UUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUCG---CUU-AAUC------G----AAAC---C----UUUCUUUGAAAAAGAGACCAUACCGACAUUCGCCAUUCAAUUUUAAA
((((((((......(((((((.((((...(((..((((---...-...)------)----))..---.----..((((.....)))))))...)))))))))))......)))))))). ( -22.40)
>DroVir_CAF1 4974 100 + 1
UUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUUA---UAUAGAUA--A--UG----GUAU---A----UUG-UUUGAAAAAGCGACCAUACCGACAAUCGCCAUUUAAUUUUAAA
(((((((((.....(((.(((.((((...(((.((((.---..((((((--(--((----...)---)----)))-))))..)))).)))...))))))).))).....))))))))). ( -24.50)
>DroPse_CAF1 11510 95 + 1
CUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUCG---CUU-GAUC------G----GAAC---C----CU---GGUAAAAAGCGACCAAACCGACAAUCGCCAUUUAAUUUUAAA
.((((((((.....(((.(((.((((.........(((---(((-.(((------(----(...---.----))---)))...))))))....))))))).))).....)))))))).. ( -24.02)
>DroGri_CAF1 3066 103 + 1
UUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUUA---UAUAUAUUGUAUAUA----GAGU---U----UAG-GUUC-AAAAGCGACCAUACCGACAAUCGCCAUUUAAUUUUAAA
(((((((((.....(((.(((.((((...(((((((((---(((((...)))))))----))))---.----...-((..-....)))))...))))))).))).....))))))))). ( -26.00)
>DroWil_CAF1 36701 111 + 1
UUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUUCUUAUUA-GAUU------GGCAAAAACAAACAAGAUUU-UUGGAAAAAGAGACUAUACCGACAAUCGCCAUUCAAUUUUAAA
((((((((......(((.(((.((((.(((((.(..(((....)-))..------).(((((((......).)))-)))........))))).))))))).)))......)))))))). ( -24.40)
>DroAna_CAF1 2694 102 + 1
UUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUCG---CUU-GUUG------G----UAAC---CAAUUUUUUUGUGAAAAAGCGACCAUACCGACAAUCGCCAUUCAAUUUUAAA
((((((((......(((.(((.((((...(((.(((((---(..-((((------(----...)---))))......))))...)).)))...))))))).)))......)))))))). ( -22.60)
>consensus
UUAAAAUUAUAGCACGAGUGUUCGGUCUAGUCACUUCG___CUU_GAUC______G____GAAC___C____UUU_UUUGAAAAAGCGACCAUACCGACAAUCGCCAUUCAAUUUUAAA
((((((((......(((.(((.((((...(((.(((...............................................))).)))...))))))).)))......)))))))). (-14.36 = -14.53 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,176,287 – 15,176,385
Length 98
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 78.33
Mean single sequence MFE -28.72
Consensus MFE -25.87
Energy contribution -25.43
Covariance contribution -0.44
Combinations/Pair 1.13
Mean z-score -3.55
Structure conservation index 0.90
SVM decision value 1.64
SVM RNA-class probability 0.969476
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15176287 98 - 20766785
UUUAAAAUUGAAUGGCGAAUGUCGGUAUGGUCUCUUUUUCAAAGAAA----G---GUUU----C------GAUU-AAG---CGAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAA
.(((((((((....((((.(((((((.(((((((((((.....))))----)---)(((----(------(...-...---))))).))))).)))).))).))))....))))))))) ( -27.30)
>DroVir_CAF1 4974 100 - 1
UUUAAAAUUAAAUGGCGAUUGUCGGUAUGGUCGCUUUUUCAAA-CAA----U---AUAC----CA--U--UAUCUAUA---UAAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAA
.(((((((((....((((.(((((((.((((((((((......-..(----(---(((.----..--.--....))))---))))))))))).)))).))).))))....))))))))) ( -28.10)
>DroPse_CAF1 11510 95 - 1
UUUAAAAUUAAAUGGCGAUUGUCGGUUUGGUCGCUUUUUACC---AG----G---GUUC----C------GAUC-AAG---CGAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAG
..((((((((....((((.((((((((((((((((((.....---.(----(---...)----)------....-...---.))))))))))))))).))).))))....)))))))). ( -32.44)
>DroGri_CAF1 3066 103 - 1
UUUAAAAUUAAAUGGCGAUUGUCGGUAUGGUCGCUUUU-GAAC-CUA----A---ACUC----UAUAUACAAUAUAUA---UAAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAA
.(((((((((....((((.(((((((.(((((((((..-((..-...----.---..))----((((((.....))))---))))))))))).)))).))).))))....))))))))) ( -28.30)
>DroWil_CAF1 36701 111 - 1
UUUAAAAUUGAAUGGCGAUUGUCGGUAUAGUCUCUUUUUCCAA-AAAUCUUGUUUGUUUUUGCC------AAUC-UAAUAAGAAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAA
.(((((((((....((((.(((((((.(((((.((((((.(((-((((.......)))))))..------....-.....)))))).))))).)))).))).))))....))))))))) ( -27.50)
>DroAna_CAF1 2694 102 - 1
UUUAAAAUUGAAUGGCGAUUGUCGGUAUGGUCGCUUUUUCACAAAAAAAUUG---GUUA----C------CAAC-AAG---CGAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAA
.(((((((((....((((.(((((((.((((((((((....(((.....)))---(((.----.------....-.))---))))))))))).)))).))).))))....))))))))) ( -28.70)
>consensus
UUUAAAAUUAAAUGGCGAUUGUCGGUAUGGUCGCUUUUUCAAA_AAA____G___GUUC____C______AAUC_AAA___CAAAGUGACUAGACCGAACACUCGUGCUAUAAUUUUAA
.(((((((((....((((.(((((((.((((((((((.............................................)))))))))).)))).))).))))....))))))))) (-25.87 = -25.43 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:43 2006