Locus 590

Sequence ID	2R_DroMel_CAF1
Location	3,013,884 – 3,013,993
Length	109
Max. P	0.930021

overview

Window 8

Location	3,013,884 – 3,013,993
Length	109
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	75.60
Mean single sequence MFE	-30.92
Consensus MFE	-21.80
Energy contribution	-22.56
Covariance contribution	0.76
Combinations/Pair	1.41
Mean z-score	-1.21
Structure conservation index	0.71
SVM decision value	0.63
SVM RNA-class probability	0.806597
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3013884 109 + 20766785
------AUAUGUACUUUAACUUCAUCCAUCU--CGUAGCAUAACGACAUCCACCUGCAGAUCACCGCCGAUCUACUGCGGGUGAGCGCCGAUGAUCUGCGCCGGUGGCUUUUGAUGC
------....................(((((--(((......))))...((((((((((((((.((.((.((.((.....)))).)).)).)))))))))..))))).....)))). ( -31.50)
>DroVir_CAF1 5616 98 + 1
------UUAUUUAUU-----AUG------CU--UUUAGCAAAACGAUCUGCACCUGCAAGUAACUGGAGAUUUGCUGAAGAUAAAUGCUGAUGAUUUGCGACGCUGGCUAUUGAUGC
------.....((((-----(.(------((--....(((((.(.(((.(((...((((((........))))))..........))).)))).)))))......)))...))))). ( -16.42)
>DroSec_CAF1 5258 109 + 1
------AUAUAUACUUUAACUUCAUCCAUCU--CGUAGCAUAACGACAUCCACCUGCAGAUCACCGGCGAUCUACUGCGGGUGAGCGCCGAUGAUCUGCGCCGGUGGCUUUUGAUGC
------....................(((((--(((......))))...((((((((((((((.(((((.((.((.....)))).))))).)))))))))..))))).....)))). ( -38.60)
>DroSim_CAF1 3581 109 + 1
------AUAUAUACUUUAACUUUAUCCAUCU--UGUAGCAUAACGACAUCCACCUGCAGAUCACCGGCGAUCUACUGCGGGUGAGCGCCGAUGAUUUGCGCCGGUGGCUUUUGAUGC
------....................(((((--(((......))))...((((((((((((((.(((((.((.((.....)))).))))).)))))))))..))))).....)))). ( -33.90)
>DroEre_CAF1 5269 115 + 1
AUACGUAUAUAUAUAUUAAUAUCAUCCACCU--CGUAGCAUAACGACAUCCACCUGCAGAUCACCGGCGAUCUACUGCGGGUGAGCGCUGAGGAUCUGCGCCGGUGGCUUUUGAUGC
...................(((((.((((((--(((......)))).........(((((((..(((((.((.((.....)))).)))))..)))))))...)))))....))))). ( -37.10)
>DroPer_CAF1 5785 102 + 1
------------AAUUGAAUUUU---CCUCUUGUGCAGCACAACGAUAUUCACCUGCAAAUCACUGGGGACCUGCUGCGGGUGAAAACAGAAGAUCUGCGUCGCUGGCUUGUAAUGC
------------...........---.......((((((.((.((((.((((((((((...((..(....).)).))))))))))..(((.....))).)))).)))).)))).... ( -28.00)
>consensus
______AUAUAUACUUUAACUUCAUCCAUCU__CGUAGCAUAACGACAUCCACCUGCAGAUCACCGGCGAUCUACUGCGGGUGAGCGCCGAUGAUCUGCGCCGGUGGCUUUUGAUGC
.....................................((((........((((((((((((((.(((((((((.....))))...))))).)))))))))..)))))......)))) (-21.80 = -22.56 +   0.76)

alignment

secondary structure

dotplot

Window 9

Location	3,013,884 – 3,013,993
Length	109
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	75.60
Mean single sequence MFE	-33.73
Consensus MFE	-20.28
Energy contribution	-21.12
Covariance contribution	0.84
Combinations/Pair	1.32
Mean z-score	-1.89
Structure conservation index	0.60
SVM decision value	1.20
SVM RNA-class probability	0.930021
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3013884 109 - 20766785
GCAUCAAAAGCCACCGGCGCAGAUCAUCGGCGCUCACCCGCAGUAGAUCGGCGGUGAUCUGCAGGUGGAUGUCGUUAUGCUACG--AGAUGGAUGAAGUUAAAGUACAUAU------
.((((.....(((((...(((((((((((.((.((((.....)).)).)).))))))))))).)))))((.((((......)))--).)).))))................------ ( -41.70)
>DroVir_CAF1 5616 98 - 1
GCAUCAAUAGCCAGCGUCGCAAAUCAUCAGCAUUUAUCUUCAGCAAAUCUCCAGUUACUUGCAGGUGCAGAUCGUUUUGCUAAA--AG------CAU-----AAUAAAUAA------
.............((...(((((.((((.((((((.......((((............)))))))))).))).).)))))....--.)------)..-----.........------ ( -13.21)
>DroSec_CAF1 5258 109 - 1
GCAUCAAAAGCCACCGGCGCAGAUCAUCGGCGCUCACCCGCAGUAGAUCGCCGGUGAUCUGCAGGUGGAUGUCGUUAUGCUACG--AGAUGGAUGAAGUUAAAGUAUAUAU------
.((((.....(((((...((((((((((((((.((((.....)).)).)))))))))))))).)))))((.((((......)))--).)).))))................------ ( -46.30)
>DroSim_CAF1 3581 109 - 1
GCAUCAAAAGCCACCGGCGCAAAUCAUCGGCGCUCACCCGCAGUAGAUCGCCGGUGAUCUGCAGGUGGAUGUCGUUAUGCUACA--AGAUGGAUAAAGUUAAAGUAUAUAU------
.((((.....(((((...(((.((((((((((.((((.....)).)).)))))))))).))).))))).(((.(.....).)))--.))))....................------ ( -36.40)
>DroEre_CAF1 5269 115 - 1
GCAUCAAAAGCCACCGGCGCAGAUCCUCAGCGCUCACCCGCAGUAGAUCGCCGGUGAUCUGCAGGUGGAUGUCGUUAUGCUACG--AGGUGGAUGAUAUUAAUAUAUAUAUACGUAU
..((((....((((((((((.(.....).)))))((.((((.((((((((....))))))))..)))).))((((......)))--)))))).)))).................... ( -36.60)
>DroPer_CAF1 5785 102 - 1
GCAUUACAAGCCAGCGACGCAGAUCUUCUGUUUUCACCCGCAGCAGGUCCCCAGUGAUUUGCAGGUGAAUAUCGUUGUGCUGCACAAGAGG---AAAAUUCAAUU------------
........(((((((((.((((.....)))).((((((....(((((((......))))))).))))))..)))))).)))......(((.---....)))....------------ ( -28.20)
>consensus
GCAUCAAAAGCCACCGGCGCAGAUCAUCGGCGCUCACCCGCAGUAGAUCGCCGGUGAUCUGCAGGUGGAUGUCGUUAUGCUACA__AGAUGGAUGAAGUUAAAGUAUAUAU______
((((......((((((((((.........)))))........((((((((....)))))))).)))))........))))..................................... (-20.28 = -21.12 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:16 2006