Locus 5714

Sequence ID 3R_DroMel_CAF1
Location 14,935,179 – 14,935,295
Length 116
Max. P 0.965846
window9351 window9352

overview

Window 1

Location 14,935,179 – 14,935,295
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.47
Mean single sequence MFE -30.32
Consensus MFE -26.32
Energy contribution -26.72
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.87
SVM decision value 0.80
SVM RNA-class probability 0.854562
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14935179 116 + 27905053
AUUACCCUCCCCGUGAGCUCUUGACUUGCCACCAAUUUUUUUUUGACAAAUUAAUUGUGCGGCUAAGCGGCCAUUAAAUAUGGCCAACUGUAUUGCACUGGUUAUUGGCCCGGA----CC
..........(((.(.(((..(((((.(((.((((((..(((.....)))..))))).).))).....((((((.....))))))..............)))))..))))))).----.. ( -30.70)
>DroSec_CAF1 66628 115 + 1
AUUACCCUCCCCGUGAGCUCUUGACUUGCCACCAAUUUU-UUUUGACAAAUUAAUUGUGCGGCUAAGCGGCCAUUAAAUAUGGCCAACUGAAUUGCACUGGUUAUUGGCCCGGA----CC
..........(((.(.(((..(((((.(((.((((((..-(((....)))..))))).).))).....((((((.....))))))..............)))))..))))))).----.. ( -30.70)
>DroSim_CAF1 63705 115 + 1
AUUACCCUCCCCGUGAGCUCUUGACUUGCCACCAAUUUU-UUUUGACAAAUUAAUUGUGCGGCUAAGCGGCCAUUAAAUAUGGCCAACUGAAUUGCACUGGUUAUUGGCCCGGA----CC
..........(((.(.(((..(((((.(((.((((((..-(((....)))..))))).).))).....((((((.....))))))..............)))))..))))))).----.. ( -30.70)
>DroEre_CAF1 61591 117 + 1
AUUACCCUCCCCGUGAGCUCUUGACUUGCCACCAAUUU---UUUGACAAAUUAAUUGUGCGGCUAAGCGGCCAUUAAAUAUGGCCAACUGAAUUGCACUGGUUAUUGGCCCGGGCCGUCC
.........((((.(.(((..(((((.(((.((((((.---.((....))..))))).).))).....((((((.....))))))..............)))))..))))))))...... ( -33.70)
>DroYak_CAF1 68439 114 + 1
ACUACCCUCCCCGUGAACUCUUGACUUGCCACCAAUUU--UUUUGACAAAUUAAUUGUGCGGCUAAGCGGCCAUUAAAUAUGGCCAACUGAAUUGCACUGGUUAUUGGCCCGUC----CC
......................(((..((((.(((...--..)))......(((((((((((...((.((((((.....))))))..))...)))))).))))).))))..)))----.. ( -25.80)
>consensus
AUUACCCUCCCCGUGAGCUCUUGACUUGCCACCAAUUUU_UUUUGACAAAUUAAUUGUGCGGCUAAGCGGCCAUUAAAUAUGGCCAACUGAAUUGCACUGGUUAUUGGCCCGGA____CC
..........(((.(.(((..(((((.(((.((((((...............))))).).))).....((((((.....))))))..............)))))..)))))))....... (-26.32 = -26.72 +   0.40)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,935,179 – 14,935,295
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.47
Mean single sequence MFE -34.18
Consensus MFE -31.50
Energy contribution -31.90
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.92
SVM decision value 1.59
SVM RNA-class probability 0.965846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14935179 116 - 27905053
GG----UCCGGGCCAAUAACCAGUGCAAUACAGUUGGCCAUAUUUAAUGGCCGCUUAGCCGCACAAUUAAUUUGUCAAAAAAAAAUUGGUGGCAAGUCAAGAGCUCACGGGGAGGGUAAU
((----(....)))....(((..(.(.....((((((((((.....))))))((((.(((((.(((((..(((.....)))..))))))))))))))....))))....).)..)))... ( -32.90)
>DroSec_CAF1 66628 115 - 1
GG----UCCGGGCCAAUAACCAGUGCAAUUCAGUUGGCCAUAUUUAAUGGCCGCUUAGCCGCACAAUUAAUUUGUCAAAA-AAAAUUGGUGGCAAGUCAAGAGCUCACGGGGAGGGUAAU
((----(....))).....((.(((...(((....((((((.....))))))((((.(((((.(((((..(((....)))-..))))))))))))))...)))..))).))......... ( -33.30)
>DroSim_CAF1 63705 115 - 1
GG----UCCGGGCCAAUAACCAGUGCAAUUCAGUUGGCCAUAUUUAAUGGCCGCUUAGCCGCACAAUUAAUUUGUCAAAA-AAAAUUGGUGGCAAGUCAAGAGCUCACGGGGAGGGUAAU
((----(....))).....((.(((...(((....((((((.....))))))((((.(((((.(((((..(((....)))-..))))))))))))))...)))..))).))......... ( -33.30)
>DroEre_CAF1 61591 117 - 1
GGACGGCCCGGGCCAAUAACCAGUGCAAUUCAGUUGGCCAUAUUUAAUGGCCGCUUAGCCGCACAAUUAAUUUGUCAAA---AAAUUGGUGGCAAGUCAAGAGCUCACGGGGAGGGUAAU
.....((((((........)).(((...(((....((((((.....))))))((((.(((((.(((((...........---.))))))))))))))...)))..))).....))))... ( -35.00)
>DroYak_CAF1 68439 114 - 1
GG----GACGGGCCAAUAACCAGUGCAAUUCAGUUGGCCAUAUUUAAUGGCCGCUUAGCCGCACAAUUAAUUUGUCAAAA--AAAUUGGUGGCAAGUCAAGAGUUCACGGGGAGGGUAGU
..----.((..(((.....((.(((.(((((....((((((.....))))))((((.(((((.(((((..(((.....))--)))))))))))))))...)))))))).))...))).)) ( -36.40)
>consensus
GG____UCCGGGCCAAUAACCAGUGCAAUUCAGUUGGCCAUAUUUAAUGGCCGCUUAGCCGCACAAUUAAUUUGUCAAAA_AAAAUUGGUGGCAAGUCAAGAGCUCACGGGGAGGGUAAU
...........(((.....((.(((...(((....((((((.....))))))((((.(((((.(((((..(((....)))...))))))))))))))...)))..))).))...)))... (-31.50 = -31.90 +   0.40)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:39 2006