Locus 5119

Sequence ID	2R_DroMel_CAF1
Location	16,652,697 – 16,652,796
Length	99
Max. P	0.979674

overview

Window 4

Location	16,652,697 – 16,652,796
Length	99
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	79.06
Mean single sequence MFE	-42.78
Consensus MFE	-30.58
Energy contribution	-29.36
Covariance contribution	-1.22
Combinations/Pair	1.50
Mean z-score	-3.00
Structure conservation index	0.71
SVM decision value	1.78
SVM RNA-class probability	0.976886
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16652697 99 + 20766785
UACUGUGACGGCGUCAGCGCUGGCGACG------ACUCAACGGACGUGAUCAUGAAGUGUCCGCCGCCAGCGACGUCUCCGUCACAGGUCUAUCUCAACGUGAUG
..(((((((((.(.(..(((((((((..------..))..((((((...........))))))..)))))))..).).)))))))))...((((.......)))) ( -40.50)
>DroVir_CAF1 1301 99 + 1
UACGGCGAGGGCGUCAGUGCUGGCGA------GGACUCUACAGAUGUUAUCAUGAAGUGCCCGCCGCCAGCAACGUCGCCUUCGCAGGUUUACCUCAACGUGAUA
(((((((((((((.(..((((((((.------((.(.((.(((((...))).)).)).).))..))))))))..).)))))))))(((....)))...))))... ( -46.10)
>DroGri_CAF1 1650 105 + 1
UAUGGCGAGGGUGUCACUGCUGGCGAUGAGGAGAACACAACGGAUGCCAUCAUGAAGUGUCCGCUGCCAGCGACGUCACCCUCCCAGGUUUAUCUCAACGUCAUC
..(((.(((((((.(..((((((((.((.(.....).)).(((((((.........))))))).))))))))..).))))))))))................... ( -38.60)
>DroMoj_CAF1 1321 102 + 1
UACGGUGAGGGCGUCACUGCUGGCGAUGA---GAACACCACAGAUGCGAUCAUGAAGUGCCCGUUGCCAGCAACGUCGCCCUCACAGGUCUACCUCAAUGUGAUC
(((((((((((((.(..(((((((((((.---(..(((..(((((...))).))..))).))))))))))))..).)))))))))(((....)))...))))... ( -43.70)
>DroAna_CAF1 1271 99 + 1
UACAGCGACGGUGUCACCGCUGGCGACG------ACGCCACAGAUGUGGUGAUGAAAUGUCCGCCGCCAGCGACGUCGCCGUCGCAAGUCUAUCUCAAUGUGGUG
....(((((((((.(..((((((((.((------.((((((....))))))..((....)))).))))))))..).))))))))).................... ( -46.60)
>DroPer_CAF1 2640 99 + 1
UACUGCGAUGGCGUCAGUGCUGGGGAUG------ACACUACAGAUGUAAUUAUGAAGUGUCCGCCGCCAGCAACGUCCCCAUCGCAGGUCUAUCUCAACGUCGUG
..(((((((((.(.(..((((((((..(------(((((.((..........)).))))))..)).))))))..).).))))))))).................. ( -41.20)
>consensus
UACGGCGAGGGCGUCACUGCUGGCGAUG______ACACAACAGAUGUGAUCAUGAAGUGUCCGCCGCCAGCAACGUCGCCCUCGCAGGUCUAUCUCAACGUGAUG
....(((((((((.(..((((((((.......................................))))))))..).))))))))).................... (-30.58 = -29.36 +  -1.22)

alignment

secondary structure

dotplot

Window 5

Location	16,652,697 – 16,652,796
Length	99
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	79.06
Mean single sequence MFE	-43.18
Consensus MFE	-28.05
Energy contribution	-27.36
Covariance contribution	-0.69
Combinations/Pair	1.30
Mean z-score	-3.02
Structure conservation index	0.65
SVM decision value	1.84
SVM RNA-class probability	0.979674
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16652697 99 - 20766785
CAUCACGUUGAGAUAGACCUGUGACGGAGACGUCGCUGGCGGCGGACACUUCAUGAUCACGUCCGUUGAGU------CGUCGCCAGCGCUGACGCCGUCACAGUA
..................(((((((((.(.((.(((((((((((...((((.(((........))).))))------))))))))))).)).).))))))))).. ( -43.70)
>DroVir_CAF1 1301 99 - 1
UAUCACGUUGAGGUAAACCUGCGAAGGCGACGUUGCUGGCGGCGGGCACUUCAUGAUAACAUCUGUAGAGUCC------UCGCCAGCACUGACGCCCUCGCCGUA
....(((...(((....)))((((.((((.((.(((((((((.((((.((.((.(((...))))).)).))))------))))))))).)).)))).))))))). ( -43.80)
>DroGri_CAF1 1650 105 - 1
GAUGACGUUGAGAUAAACCUGGGAGGGUGACGUCGCUGGCAGCGGACACUUCAUGAUGGCAUCCGUUGUGUUCUCCUCAUCGCCAGCAGUGACACCCUCGCCAUA
......(((......))).((((((((((.((..((((((.(.(((.....((..((((...))))..))...))).)...))))))..)).))))))).))).. ( -40.30)
>DroMoj_CAF1 1321 102 - 1
GAUCACAUUGAGGUAGACCUGUGAGGGCGACGUUGCUGGCAACGGGCACUUCAUGAUCGCAUCUGUGGUGUUC---UCAUCGCCAGCAGUGACGCCCUCACCGUA
....((....(((....)))(((((((((.((((((((((...(((((((.((.(((...))))).)))))))---.....)))))))))).))))))))).)). ( -44.90)
>DroAna_CAF1 1271 99 - 1
CACCACAUUGAGAUAGACUUGCGACGGCGACGUCGCUGGCGGCGGACAUUUCAUCACCACAUCUGUGGCGU------CGUCGCCAGCGGUGACACCGUCGCUGUA
................((..(((((((.(.(..((((((((((((.........(.((((....)))).))------)))))))))))..).).))))))).)). ( -45.60)
>DroPer_CAF1 2640 99 - 1
CACGACGUUGAGAUAGACCUGCGAUGGGGACGUUGCUGGCGGCGGACACUUCAUAAUUACAUCUGUAGUGU------CAUCCCCAGCACUGACGCCAUCGCAGUA
..................(((((((((.(.((.((((((.((..((((((.((..........)).)))))------)..)))))))).)).).))))))))).. ( -40.80)
>consensus
CAUCACGUUGAGAUAGACCUGCGACGGCGACGUCGCUGGCGGCGGACACUUCAUGAUCACAUCUGUAGUGU______CAUCGCCAGCACUGACGCCCUCGCCGUA
....................(((((((.(.((.(((((((((((((...............)))))..............)))))))).)).).))))))).... (-28.05 = -27.36 +  -0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:00 2006