Locus 6993

Sequence ID	3R_DroMel_CAF1
Location	18,446,429 – 18,446,549
Length	120
Max. P	0.767756

overview

Window 5

Location	18,446,429 – 18,446,549
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.83
Mean single sequence MFE	-42.13
Consensus MFE	-27.13
Energy contribution	-26.69
Covariance contribution	-0.44
Combinations/Pair	1.40
Mean z-score	-2.22
Structure conservation index	0.64
SVM decision value	0.52
SVM RNA-class probability	0.767756
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18446429 120 + 27905053
CUGGCGCGCACCUUGCGCAGCUUUGAUACAGCUGCGCUGAGAUUCUCCUUGUUUUUCAGAAAAUCAGGCAAGUCGAAGUUGAUUUCGGUGCCACGCUGAUCCUCCAGUCGUGCCAGCUGU
((((((((((((..((((((((.......))))))))...((((..(((.(((((....))))).)))..))))((((....)))))))))...((((......)))).))))))).... ( -46.30)
>DroVir_CAF1 8373 120 + 1
UUGGCGCGCACCUUCCGCAACUUGGAGGCAGCCGCAUUGAGAUUCUCUUUGUUUUUGAGAAAGUCGGGCAAAUCAAAGUUGAUCUCUGUGCCGCGCUGGUCCUCCAGGCGCGCCAAUUGU
(((((((((.......))..(((((((((((((((((.((((((..(((((..((((.(.....)...)))).)))))..)))))).))).)).))))..)))))))).))))))).... ( -51.90)
>DroGri_CAF1 8174 120 + 1
UUGGCGCGCACUUUGCGCAACUUGGAUGCGGCCGCAUUGAGAUUCUCCUUGUUCUUAAGAAAGUCGGGCAGAUCAAAGUUAAUCUCUGUGCCGCGCUGAUCCUCUAGGCGUGCCAACUGU
(((((((((.....))((.....((((.(((((((((.((((((..(.(((.(((...(.....)....))).))).)..)))))).))).)).)))))))).....))))))))).... ( -41.20)
>DroWil_CAF1 3106 120 + 1
UUAGCGCGCACCUUUCGUAGCUUUGAGGCAGCUGCAUUCAGGUUCUCCUUGUUCUUUAAGAAAUCUGGCAAAUCAAAGUUAAUCUCUGUGCCACGUUGAUCUUCUAGGCGUGCCAACUGU
...((((((((((...((((((.......))))))....))))..........((..(((((((.(((((...((.((.....)).))))))).)))..))))..))))))))....... ( -30.30)
>DroMoj_CAF1 6405 120 + 1
UUGGCGCGCACCUUGCGUAAUUUGGAGGCAGCCGCAUUGAGAUUCUCUUUGUUCUUCAAAAAAUCGGGCAAAUCAAAAUUAAUCUCCGUGCCCCGUUGAUCCUCCAGGCGCGCCAGCUGU
(((((((((((.....))...(((((((((((.((((.((((((...(((((((...........)))))))........)))))).))))...))))..)))))))))))))))).... ( -41.50)
>DroAna_CAF1 2644 120 + 1
UUGGCUCGCACCUUUCUCAGUUUGGAAACCGCAGCGCUGAGAUUCUCCUUGUUCUUAAGGAAAUCCGGCAGAUCAAAGUUGAUCUCAGUGCCGCGCUGAUCCUCCAGCCGCGCCUGCUGA
(..((.(((...(((((......)))))..((.(((((((((((..(.(((.(((...((....))...))).))).)..))))))))))).))((((......)))).)))...))..) ( -41.60)
>consensus
UUGGCGCGCACCUUGCGCAACUUGGAGGCAGCCGCAUUGAGAUUCUCCUUGUUCUUAAGAAAAUCGGGCAAAUCAAAGUUAAUCUCUGUGCCGCGCUGAUCCUCCAGGCGCGCCAACUGU
(((((((((............(((((..((((.((((.((((((..(.(((.(((..............))).))).)..)))))).))))...))))....)))))))))))))).... (-27.13 = -26.69 +  -0.44)

alignment

secondary structure

dotplot

Window 6

Location	18,446,429 – 18,446,549
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.83
Mean single sequence MFE	-42.67
Consensus MFE	-22.28
Energy contribution	-23.28
Covariance contribution	1.00
Combinations/Pair	1.42
Mean z-score	-2.52
Structure conservation index	0.52
SVM decision value	0.17
SVM RNA-class probability	0.616986
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18446429 120 - 27905053
ACAGCUGGCACGACUGGAGGAUCAGCGUGGCACCGAAAUCAACUUCGACUUGCCUGAUUUUCUGAAAAACAAGGAGAAUCUCAGCGCAGCUGUAUCAAAGCUGCGCAAGGUGCGCGCCAG
....((((((((.(((......)))))).((((((((......))).........((((((((.........))))))))...((((((((.......))))))))..)))))..))))) ( -45.90)
>DroVir_CAF1 8373 120 - 1
ACAAUUGGCGCGCCUGGAGGACCAGCGCGGCACAGAGAUCAACUUUGAUUUGCCCGACUUUCUCAAAAACAAAGAGAAUCUCAAUGCGGCUGCCUCCAAGUUGCGGAAGGUGCGCGCCAA
....(((((((((.((((((..(((((((((((((((.....)))))...)))).((..(((((.........)))))..))...)).)))))))))).....(....)..))))))))) ( -49.60)
>DroGri_CAF1 8174 120 - 1
ACAGUUGGCACGCCUAGAGGAUCAGCGCGGCACAGAGAUUAACUUUGAUCUGCCCGACUUUCUUAAGAACAAGGAGAAUCUCAAUGCGGCCGCAUCCAAGUUGCGCAAAGUGCGCGCCAA
....(((((.........((((..((((.(((..((((((..(((((.(((..............))).)))))..))))))..))).).))))))).....((((.....))))))))) ( -41.24)
>DroWil_CAF1 3106 120 - 1
ACAGUUGGCACGCCUAGAAGAUCAACGUGGCACAGAGAUUAACUUUGAUUUGCCAGAUUUCUUAAAGAACAAGGAGAACCUGAAUGCAGCUGCCUCAAAGCUACGAAAGGUGCGCGCUAA
....(((((.(((((..((((......((((((((((.....)))))...)))))....))))..))..........((((...((.((((.......)))).))..))))))).))))) ( -30.20)
>DroMoj_CAF1 6405 120 - 1
ACAGCUGGCGCGCCUGGAGGAUCAACGGGGCACGGAGAUUAAUUUUGAUUUGCCCGAUUUUUUGAAGAACAAAGAGAAUCUCAAUGCGGCUGCCUCCAAAUUACGCAAGGUGCGCGCCAA
.....((((((((.((((((.....(((((((.(..((......))..).)))))((((((((.........))))))))......))....)))))).....(....)..)))))))). ( -43.90)
>DroAna_CAF1 2644 120 - 1
UCAGCAGGCGCGGCUGGAGGAUCAGCGCGGCACUGAGAUCAACUUUGAUCUGCCGGAUUUCCUUAAGAACAAGGAGAAUCUCAGCGCUGCGGUUUCCAAACUGAGAAAGGUGCGAGCCAA
...((....))((((.(.(((..(.((((((.(((((((...(((((.(((...((....))...))).)))))...))))))).)))))).).)))..(((......))).).)))).. ( -45.20)
>consensus
ACAGCUGGCACGCCUGGAGGAUCAGCGCGGCACAGAGAUCAACUUUGAUUUGCCCGAUUUUCUGAAGAACAAGGAGAAUCUCAAUGCGGCUGCCUCCAAGCUGCGCAAGGUGCGCGCCAA
....(((((.(((((.((((.((....(((((....((((......)))))))))....((((........)))))).))))..(((((((.......)))))))...)).))).))))) (-22.28 = -23.28 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:01 2006