Locus 941

Sequence ID 2R_DroMel_CAF1
Location 4,073,800 – 4,073,920
Length 120
Max. P 0.894548
window1678 window1679

overview

Window 8

Location 4,073,800 – 4,073,920
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.17
Mean single sequence MFE -25.10
Consensus MFE -19.70
Energy contribution -20.10
Covariance contribution 0.40
Combinations/Pair 1.08
Mean z-score -1.99
Structure conservation index 0.78
SVM decision value 0.98
SVM RNA-class probability 0.894548
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4073800 120 + 20766785
AAACAUGGCAAAAUAAUUUAACCUUUCUUUUUAUUUUGGCAAGAACAAAUGCCAAACCACAAAAGUGGAUUUUACUUGCAGCAACCGGCUGAUAAUGCCGAUGGAAAAGCAAAGCCACAA
.....(((((((((....................(((((((........)))))))((((....)))))))))..((((..(...((((.......))))...)....)))).))))... ( -28.60)
>DroSec_CAF1 56484 120 + 1
AAACAUGGCAAAAUAAUUCAACCUUCCUUUUUACUUUGGCAAGAACAAAUGCCAAACCACAAAAGUGGAUUUUACUUGCAGCAAGCGGCUGAUAAUGCAGAUGAAAAAACAAAGCCACAA
.....((((.........................(((((((........)))))))((((....)))).(((((.(((((.((......))....))))).))))).......))))... ( -25.20)
>DroSim_CAF1 64703 120 + 1
AAACAUGGCAAAAUAAUUCAACCUUCCGUUUUAUUUUGGCAAGAACAAAUGCCAAGCCACAAAAGUGGAUUUUACUUGCAGCAAGCGGCUGAUAAUGCAGAUGGAAAAACAAAGCCACAA
.....((((.((....)).....((((((((((((((((((........)))))).((((....))))..........((((.....))))..)))).)))))))).......))))... ( -25.40)
>DroEre_CAF1 57939 119 + 1
GAACAUGGCGAAAUAAUUUAACCUUCUUUUUUAUUUGGGCAAGAACAAAUACCAAGCCACAAAAGUGGAUUUUACUUGCAGCA-GCGCCUGAUAAUGCAGAUGGGAAAACGAAGCCACAA
.....((((.......(((..((.(((...(((.(..(((................((((....)))).........((....-)))))..))))...))).))..)))....))))... ( -24.00)
>DroYak_CAF1 60840 120 + 1
AAACAUGGCAAAAUAAUUGAACGUUCUUUUUUAUUUUGGCAAGUACAAAUACCAAGCCACAAAAGUGGAUUUUACUUACAGCAAGCGGCUGAUAAUGCAGAUGGAAAAACAAAGCCACAA
..((.((.((((((((..((......))..)))))))).)).)).......(((..((((....))))..........((((.....))))..........)))................ ( -22.30)
>consensus
AAACAUGGCAAAAUAAUUCAACCUUCCUUUUUAUUUUGGCAAGAACAAAUGCCAAGCCACAAAAGUGGAUUUUACUUGCAGCAAGCGGCUGAUAAUGCAGAUGGAAAAACAAAGCCACAA
.....(((((((((....................(((((((........)))))))((((....))))))))).....((((.....))))......................))))... (-19.70 = -20.10 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,073,800 – 4,073,920
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.17
Mean single sequence MFE -30.13
Consensus MFE -22.14
Energy contribution -22.66
Covariance contribution 0.52
Combinations/Pair 1.16
Mean z-score -2.09
Structure conservation index 0.73
SVM decision value 0.34
SVM RNA-class probability 0.695295
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4073800 120 - 20766785
UUGUGGCUUUGCUUUUCCAUCGGCAUUAUCAGCCGGUUGCUGCAAGUAAAAUCCACUUUUGUGGUUUGGCAUUUGUUCUUGCCAAAAUAAAAAGAAAGGUUAAAUUAUUUUGCCAUGUUU
..(((((...(((((((.((((((.......))))))...............((((....))))(((((((........))))))).......)))))))...........))))).... ( -31.74)
>DroSec_CAF1 56484 120 - 1
UUGUGGCUUUGUUUUUUCAUCUGCAUUAUCAGCCGCUUGCUGCAAGUAAAAUCCACUUUUGUGGUUUGGCAUUUGUUCUUGCCAAAGUAAAAAGGAAGGUUGAAUUAUUUUGCCAUGUUU
..(((((..(((..........)))...((((((.(((..(((.........((((....))))(((((((........))))))))))..)))...))))))........))))).... ( -31.90)
>DroSim_CAF1 64703 120 - 1
UUGUGGCUUUGUUUUUCCAUCUGCAUUAUCAGCCGCUUGCUGCAAGUAAAAUCCACUUUUGUGGCUUGGCAUUUGUUCUUGCCAAAAUAAAACGGAAGGUUGAAUUAUUUUGCCAUGUUU
..(((((...((((..((.((((..((((((((.....))))..........((((....)))).((((((........)))))).))))..)))).))..))))......))))).... ( -30.60)
>DroEre_CAF1 57939 119 - 1
UUGUGGCUUCGUUUUCCCAUCUGCAUUAUCAGGCGC-UGCUGCAAGUAAAAUCCACUUUUGUGGCUUGGUAUUUGUUCUUGCCCAAAUAAAAAAGAAGGUUAAAUUAUUUCGCCAUGUUC
..(((((...((((..((.(((...((((..((.((-....(((((((.((.((((....)))).))..)))))))....))))..))))...))).))..))))......))))).... ( -30.60)
>DroYak_CAF1 60840 120 - 1
UUGUGGCUUUGUUUUUCCAUCUGCAUUAUCAGCCGCUUGCUGUAAGUAAAAUCCACUUUUGUGGCUUGGUAUUUGUACUUGCCAAAAUAAAAAAGAACGUUCAAUUAUUUUGCCAUGUUU
..(((((((((((((..((..((((.((((((((((.......((((.......))))..))))).)))))..))))..))..))))))))...((....)).........))))).... ( -25.80)
>consensus
UUGUGGCUUUGUUUUUCCAUCUGCAUUAUCAGCCGCUUGCUGCAAGUAAAAUCCACUUUUGUGGCUUGGCAUUUGUUCUUGCCAAAAUAAAAAGGAAGGUUAAAUUAUUUUGCCAUGUUU
..(((((...((((..((.(((...((((((((.....))))..........((((....)))).((((((........)))))).))))...))).))..))))......))))).... (-22.14 = -22.66 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:16 2006