Locus 3574

Sequence ID 2L_DroMel_CAF1
Location 10,426,053 – 10,426,163
Length 110
Max. P 0.932768
window5650 window5651

overview

Window 0

Location 10,426,053 – 10,426,163
Length 110
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 80.10
Mean single sequence MFE -25.99
Consensus MFE -16.59
Energy contribution -17.03
Covariance contribution 0.45
Combinations/Pair 1.12
Mean z-score -1.46
Structure conservation index 0.64
SVM decision value 0.09
SVM RNA-class probability 0.579569
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10426053 110 + 22407834
CGCGAGUCCUGCAGCACGAUUCGCACCCGAUAAUUCAGGUGCUGAAUCAUUUUGUUGUUCUUGCCGAUCGUCUGAAAUAAAGGAAUUCAAAGGAUUUAAUUGUGAAAUAC
((((((((((((((((.((((((((((.((....)).))))).)))))....)))))).......((...(((........)))..))..)))))....)))))...... ( -29.90)
>DroSim_CAF1 2299 110 + 1
CGCGAAUCCUGCAGCACGAUUCGCACCCGAUAAUUCAGGUGCUGAAUCAUUUUGUUGUUCUUGCCGAUCGUCUGCAAAAAAGGAGUUCACAGGAUUAAAUUGUGAAAUAC
......((((((((((.((((((((((.((....)).))))).)))))....))))))..((((.(.....).))))...)))).(((((((.......))))))).... ( -32.50)
>DroEre_CAF1 2315 110 + 1
CGCGAGUCCUGUAGCACGAUUCGCACCCGAUAAUUCAGGUGCUGAAUCAUUUUGUUGUUCUUGCCGAUCGUCUGAAAUAAAGGAGUUCAAGGGAUUUAAUCGUGAAAUAC
((((((((((..(((..((((((((((.((....)).))))).))))).(((((((..((..((.....))..)))))))))..)))...)))))....)))))...... ( -29.90)
>DroYak_CAF1 2270 110 + 1
CGCGAGUCCUGAAGCACGAUUCGCACCCGAUAAUUCAGGUGCUGAAUCAUUUUGUUGUUCUUGCCGAUUGUCUAAAACAAAGAAAUACAAAGGAUUUAAUUGUGAAAUAC
((((((((((.......((((((((((.((....)).))))).)))))...((((..(((((.................)))))..)))))))))....)))))...... ( -27.93)
>DroMoj_CAF1 2652 94 + 1
CUUGAAUCCUGCAGAACAAUCCGCACCCGAUAGUUCAGGUGCUGAAUCAUUUUAUUAUUCUUGCCAAUAGUCUAAAAAAAAAAAAA--A--------------AAAUAGA
...((.....((((((......(((((.((....)).)))))((((....))))...))).)))......))..............--.--------------....... ( -12.60)
>DroAna_CAF1 2216 92 + 1
CGAGAGUCCUGGAGAACGAUUCGCACCCGAUAAUUCAGGUGCUGAAUCAUUUUGUUGUUCUUUCCGAUAGUCUGAAAUAAA------------------UGGUGAAAUAU
.(((((..(.(.((((.((((((((((.((....)).))))).))))).)))).).)..))))).................------------------........... ( -23.10)
>consensus
CGCGAGUCCUGCAGCACGAUUCGCACCCGAUAAUUCAGGUGCUGAAUCAUUUUGUUGUUCUUGCCGAUCGUCUGAAAUAAAGGAAUUCAAAGGAUUUAAUUGUGAAAUAC
.(((((...........((((((((((.((....)).))))).)))))...........))))).............................................. (-16.59 = -17.03 +   0.45)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,426,053 – 10,426,163
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.10
Mean single sequence MFE -27.53
Consensus MFE -21.36
Energy contribution -20.83
Covariance contribution -0.53
Combinations/Pair 1.25
Mean z-score -2.19
Structure conservation index 0.78
SVM decision value 1.22
SVM RNA-class probability 0.932768
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10426053 110 - 22407834
GUAUUUCACAAUUAAAUCCUUUGAAUUCCUUUAUUUCAGACGAUCGGCAAGAACAACAAAAUGAUUCAGCACCUGAAUUAUCGGGUGCGAAUCGUGCUGCAGGACUCGCG
...............(((.((((((.........)))))).)))..((.((..(..((..(((((((.((((((((....)))))))))))))))..))..)..)).)). ( -30.10)
>DroSim_CAF1 2299 110 - 1
GUAUUUCACAAUUUAAUCCUGUGAACUCCUUUUUUGCAGACGAUCGGCAAGAACAACAAAAUGAUUCAGCACCUGAAUUAUCGGGUGCGAAUCGUGCUGCAGGAUUCGCG
....................(((((.(((((((((((.(.....).)))))))...((..(((((((.((((((((....)))))))))))))))..)).))))))))). ( -36.00)
>DroEre_CAF1 2315 110 - 1
GUAUUUCACGAUUAAAUCCCUUGAACUCCUUUAUUUCAGACGAUCGGCAAGAACAACAAAAUGAUUCAGCACCUGAAUUAUCGGGUGCGAAUCGUGCUACAGGACUCGCG
........(((((........((((....))))........)))))((.((..(......(((((((.((((((((....)))))))))))))))......)..)).)). ( -27.19)
>DroYak_CAF1 2270 110 - 1
GUAUUUCACAAUUAAAUCCUUUGUAUUUCUUUGUUUUAGACAAUCGGCAAGAACAACAAAAUGAUUCAGCACCUGAAUUAUCGGGUGCGAAUCGUGCUUCAGGACUCGCG
................((((((((..(((((.(((..........))))))))..)))))(((((((.((((((((....)))))))))))))))......)))...... ( -27.70)
>DroMoj_CAF1 2652 94 - 1
UCUAUUU--------------U--UUUUUUUUUUUUUAGACUAUUGGCAAGAAUAAUAAAAUGAUUCAGCACCUGAACUAUCGGGUGCGGAUUGUUCUGCAGGAUUCAAG
.......--------------.--......................(((.(((((((...........((((((((....))))))))..)))))))))).......... ( -20.52)
>DroAna_CAF1 2216 92 - 1
AUAUUUCACCA------------------UUUAUUUCAGACUAUCGGAAAGAACAACAAAAUGAUUCAGCACCUGAAUUAUCGGGUGCGAAUCGUUCUCCAGGACUCUCG
........((.------------------....((((.(.....).)))).........((((((((.((((((((....)))))))))))))))).....))....... ( -23.70)
>consensus
GUAUUUCACAAUUAAAUCCUUUGAAUUCCUUUAUUUCAGACGAUCGGCAAGAACAACAAAAUGAUUCAGCACCUGAAUUAUCGGGUGCGAAUCGUGCUGCAGGACUCGCG
..............................................((.((..(......(((((((.((((((((....)))))))))))))))......)..)).)). (-21.36 = -20.83 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:00 2006