Locus 4485

Sequence ID 2L_DroMel_CAF1
Location 12,847,249 – 12,847,403
Length 154
Max. P 0.706894
window7052 window7053

overview

Window 2

Location 12,847,249 – 12,847,340
Length 91
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 77.92
Mean single sequence MFE -21.32
Consensus MFE -17.20
Energy contribution -17.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.02
Structure conservation index 0.81
SVM decision value 0.37
SVM RNA-class probability 0.706894
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12847249 91 + 22407834
CCGUGA----------GUGUGUUCGUAUGUGUGCGU-GUGU-----UGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
.(....----------).(((((..(((..((((((-....-----..))))))...)))..)))))((((((((....(((((....))))).....)))))))). ( -22.70)
>DroGri_CAF1 45830 90 + 1
CUGUCUCUUUCUAGCC------------GUGUGUGUGAUGU-----CGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
..((((...(((((((------------.(((..((.((..-----.....(((...(((....)))...)))..)).))..))).).))))))))))......... ( -20.60)
>DroEre_CAF1 33661 91 + 1
CCGUGA----------GUGUGUGUGUGAGUGUGCGU-GUGU-----CGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
.((...----------(..((..(......)..)).-.)..-----)).........(((....)))((((((((....(((((....))))).....)))))))). ( -22.10)
>DroYak_CAF1 28870 85 + 1
CCGUGA----------GUGUAUGUGU------GUGU-GUGU-----CGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
.((...----------(..(((....------))).-.)..-----)).........(((....)))((((((((....(((((....))))).....)))))))). ( -19.40)
>DroAna_CAF1 52147 92 + 1
CACUAG----------GUGUG----GGAGUGUGCUG-GUGUUGGUGCGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
((((((----------(..(.----...)..).)))-)))(((((((...)))))))(((....)))((((((((....(((((....))))).....)))))))). ( -24.40)
>DroPer_CAF1 48872 73 + 1
------------------------GG----CUGUGU-GCGU-----CGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
------------------------.(----(.....-))..-----...........(((....)))((((((((....(((((....))))).....)))))))). ( -18.70)
>consensus
CCGUGA__________GUGUG___GU__GUGUGCGU_GUGU_____CGAUGUAUUAAGUGGAAACACCUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGA
.........................................................(((....)))((((((((....(((((....))))).....)))))))). (-17.20 = -17.20 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 12,847,300 – 12,847,403
Length 103
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.95
Mean single sequence MFE -25.65
Consensus MFE -14.30
Energy contribution -14.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.56
SVM decision value 0.20
SVM RNA-class probability 0.629561
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12847300 103 + 22407834
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCUGACAUUAACAUGAAUAUGUAUG--AC---------UGCAGUUGUGCGAGUAUGUGUGUGUCCUA
((((((((....(((((....))))).....))))))))...........(((((..(((((....((((..--((---------....))..))))..)))))..)))))... ( -26.80)
>DroVir_CAF1 28247 98 + 1
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCUGACAUUAACAUGAAUAUGUAUUAGUGUGACAGCACUGCAGCUAUCC------GA----------
........(((((((.(((...............(((.......)))((((((((((((((....))))..))))))..)))).))))))))))..------..---------- ( -24.40)
>DroPse_CAF1 33352 91 + 1
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCUGACAUUAACAUGAAUAUCUAUGUGUC---------UGUGGCAGUGCAAUU--------------
((((((((....(((((....))))).....)))))))).....(((((((.(((..(((((......)))))...---------.))).)))))))...-------------- ( -28.00)
>DroMoj_CAF1 59433 104 + 1
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCCGACAUUAACAUGAAUAUGUAUUAGUGUGACGGUACUGCAGCUAUCAGUGUGCGU----------
((((((((....(((((....))))).....))))))))....(((((((.((((((((((....))))..))))))((..((......))..)).).))))))---------- ( -25.40)
>DroAna_CAF1 52199 87 + 1
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCUGACAUUAACAUGAAUAUGUAUG--AC---------UGCAGCUGUG------------UGU----
((((((((....(((((....))))).....))))))))...(((((((((.(((((((((....)))).))--).---------)))))).)))------------)).---- ( -21.30)
>DroPer_CAF1 48905 91 + 1
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCUGACAUUAACAUGAAUAUCUAUGUGUC---------UGUGGCAGUGCAAUU--------------
((((((((....(((((....))))).....)))))))).....(((((((.(((..(((((......)))))...---------.))).)))))))...-------------- ( -28.00)
>consensus
CUUGUAAAAUGGCUGACAGGUGUUAGAAGACUUUGCAAGAUUUAUGCGCUGACAUUAACAUGAAUAUGUAUG_GUC_________UGCAGCUGUGC_A_U______________
((((((((....(((((....))))).....))))))))(((((((............)))))))................................................. (-14.30 = -14.30 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:55 2006