Locus 6787

Sequence ID	2L_DroMel_CAF1
Location	18,968,062 – 18,968,255
Length	193
Max. P	0.738686

overview

Window 1

Location	18,968,062 – 18,968,175
Length	113
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	78.32
Mean single sequence MFE	-33.63
Consensus MFE	-22.89
Energy contribution	-22.95
Covariance contribution	0.06
Combinations/Pair	1.18
Mean z-score	-1.38
Structure conservation index	0.68
SVM decision value	0.44
SVM RNA-class probability	0.738686
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18968062 113 - 22407834
GCCCCAUCGCCGGGCGCUACUAGUAGCUUGGCCAUUGCCAAGAUGAUCGCAGACAAGAUCGAGAAUGAGUUCUCUAUCGGCAAGUGAUGCCUCUAUCCCAAAUAAUGU-AACCA--
((((.......))))((((....))))..(((..(((((.....((((........))))(((((....)))))....))))).....))).................-.....-- ( -31.10)
>DroGri_CAF1 1439 104 - 1
GCUCCGUCGCCAGGCGCCACCAGCAGCUUGGCCAUUGCCAAGAUGAUUGCGGACAAGAUCGAGACGGAGUUCUCCAUUGGCAAGGC------------CAAGUAAGAUUAGCUCAA
(((..(((((..((.....)).)).((((((((.(((((((..(((((........)))))....(((....))).))))))))))------------)))))..))).))).... ( -36.60)
>DroSec_CAF1 650 113 - 1
GCCCCAUCGCCGGGCGCUACUAGUAGCUUGGCCAUUGCAAAGAUGAUCGCAGACAAGAUCGAGAAUGAGUUCUCUAUCGGCAAGUGAUGCCUUUAUCUCAAAUAAUGU-AACCA--
((((.......))))((((....)))).(((.(((((...((((((..........(((.(((((....))))).)))((((.....)))).))))))....))))).-..)))-- ( -30.00)
>DroEre_CAF1 631 113 - 1
GCUCCAUCACCGGGCGCUACUAGUAGCUUGGCCAUUGCCAAGAUGAUCGCAGACAAGAUCGAGACUGAGUUCUCUAUCGGCAAGUGAUGCUAAUGUCCCAAACUUUAU-AAGCA--
(((.((((((..(((((((....))))...))).(((((.....((((........))))((((......))))....))))))))))).(((.((.....)).))).-.))).-- ( -30.60)
>DroYak_CAF1 499 113 - 1
GCCCCAUCACCUGGCGCGACUAGCAGCUUGGCCAUUGCCAAGAUGAUCGCAGACAAGAUCGAGACCGAGUUCUCUAUCGGCAAGUGAUGUCAAUAUCCCAAACAAUAU-AAGCA--
((..((((((.((.(((((....((.((((((....)))))).)).))))......(((.((((......)))).)))).)).))))))...((((........))))-..)).-- ( -32.70)
>DroMoj_CAF1 1141 102 - 1
GCGCCAUCGCCGGGCGCAACGAGCAGCUUGGCCAUUGCCAAGAUGAUCGCCGACAAGAUCGAAACGGAGUUUGCCAUUGGCAAGGC------------CAACUAGUUCCAAUUG--
(((((.......)))))...((((((.((((((.(((((((..(((((........)))))....((......)).))))))))))------------))))).))))......-- ( -40.80)
>consensus
GCCCCAUCGCCGGGCGCUACUAGCAGCUUGGCCAUUGCCAAGAUGAUCGCAGACAAGAUCGAGACUGAGUUCUCUAUCGGCAAGUGAUGCC__UAUCCCAAAUAAUAU_AACCA__
........(((((((((.....)).)))))))..(((((.....((((........))))((((......))))....)))))................................. (-22.89 = -22.95 +   0.06)

alignment

secondary structure

dotplot

Window 2

Location	18,968,135 – 18,968,255
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.11
Mean single sequence MFE	-48.75
Consensus MFE	-36.53
Energy contribution	-35.53
Covariance contribution	-0.99
Combinations/Pair	1.55
Mean z-score	-1.26
Structure conservation index	0.75
SVM decision value	0.11
SVM RNA-class probability	0.586783
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18968135 120 - 22407834
GCAAUCUGGUGGACGAUUUUGUUUUCGAUCGCGGACAAGGAUCGGGAGCGCUAGCCAAGCGAGUGCUUCACUGCAGAAACGCCCCAUCGCCGGGCGCUACUAGUAGCUUGGCCAUUGCCA
(((((..(((((.((.((((((...(((((.(......))))))((((((((.((...)).))))))))...)))))).))..)))))(((((((((.....)).))))))).))))).. ( -45.80)
>DroVir_CAF1 904 120 - 1
GUAAUCUGGUCGAUGACUUCGUCUUUGAUCGCGGCGAGGGCAGCGGACCGCUGGCCAAACGUGUGCUCCAUUGCCGCAAUGCACCGUCGCCGGGCGCGACGAGCAGCCUGGCCAUUGCCA
(..(((.((.(((.....))).))..)))..)(((((((.(((((...))))).))..(((.((((..............))))))).(((((((((.....)).)))))))..))))). ( -49.84)
>DroGri_CAF1 1503 120 - 1
GUAAUCUUGUCGAUGAUUUCGUCUUUGAUCGAGGCGAGGGCAGCGGAGCGCUGGCCAAACAGGUGCUCCACUGUCGCAAUGCUCCGUCGCCAGGCGCCACCAGCAGCUUGGCCAUUGCCA
.....((((((..(((((........))))).))))))(((((.(((((((((......)).))))))).)))))((((((.......(((((((((.....)).))))))))))))).. ( -51.01)
>DroWil_CAF1 956 120 - 1
GCAAUCUGGUUGAUGAUUUCGUCUUCGAUCGCGGCGAGGGUGAGGGAGCAUUGGCGAAACAAGUUCUUCAUUGCCGUAAUGCUCCAUCGCCGGGUGCUACAAGUAGUUUGGCCAUAGCCA
((.(((.((..((((....)))).))))).))(((...(((((.(((((((((((((.............)))))..)))))))).))))).(((((((....))))...)))...))). ( -43.52)
>DroMoj_CAF1 1203 120 - 1
GCAAUCUGGUCGAUGAUUUCGUCUUUGAUCGUGGCGAGGGCAGCGGGGCGCUGGCCAAGCGGGUGCUCCAUUGCCGCAACGCGCCAUCGCCGGGCGCAACGAGCAGCUUGGCCAUUGCCA
(((((..((((((.(((...))).))))))((((((.((((((.((((((((.((...)).)))))))).))))).)....)))))).(((((((((.....)).))))))).))))).. ( -55.60)
>DroAna_CAF1 739 120 - 1
GCAACCUGGUGGAUGACUUUGUCUUCGAUCGCGGAGAGGGUUCGGGAGCACUGGCCAAGAGGGUGCUUCAUUGCCGAAAUGCUCCGUCGCCAGGUGCCACGAGCAGCUUGGCCAUUGCAA
(((((((((((((.(((...))).))....((((((....((((((((((((..(...)..))))))).....)))))...))))))))))))))((((.(.....).))))...))).. ( -46.70)
>consensus
GCAAUCUGGUCGAUGAUUUCGUCUUCGAUCGCGGCGAGGGCAGCGGAGCGCUGGCCAAACGGGUGCUCCAUUGCCGCAAUGCUCCAUCGCCGGGCGCCACGAGCAGCUUGGCCAUUGCCA
(((((..((((((.(((...))).))))))(((.....(((((.((((((((.(.....).)))))))).)))))....)))......(((((((((.....)).))))))).))))).. (-36.53 = -35.53 +  -0.99)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:53 2006