Locus 5021

Sequence ID 3R_DroMel_CAF1
Location 13,236,111 – 13,236,231
Length 120
Max. P 0.778790
window8206 window8207

overview

Window 6

Location 13,236,111 – 13,236,231
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.08
Mean single sequence MFE -31.70
Consensus MFE -24.12
Energy contribution -24.28
Covariance contribution 0.16
Combinations/Pair 1.16
Mean z-score -1.68
Structure conservation index 0.76
SVM decision value 0.28
SVM RNA-class probability 0.666823
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13236111 120 + 27905053
AAUGCCAUUUUGGACACGGGAACAUCACUGGUUCUGGUGCCGCAACAAACAUAUCAUAACCUGCUGAAUACCCUAUCAGCUAAGCUACAAAAUGGUUAUUUUGUGGUGGCAUGCAAAAGU
.(((((((...((.(((.(((((.......))))).)))))........((((..((((((.(((((........))))).............))))))..)))))))))))........ ( -35.94)
>DroSec_CAF1 264879 120 + 1
AAUGCGAUAUUGGACACGGGAACAUCACUGGUUCUGGUGCCCCAACAAACAUAUCAUAACCUGCUGAAUACUUUAUCAGCUAAGCUAGAAAAUGGUUAUUUUGUGGUGACAUGCAAAAGU
..((((...((((.(((.(((((.......))))).)))..))))....((((..((((((.(((((........))))).............))))))..))))......))))..... ( -30.44)
>DroSim_CAF1 250272 120 + 1
AAUGCGAUUUUGGACACGGGAACAUCACUGGUUCUGGUGCCCCAACAAACAUAUCAUAACCUGCUGAAUACCCUAUCAGCUAAGCUACAAAAUGGUUAUUUUGUGGUGGCAUGCAAAAGU
..((((...((((.(((.(((((.......))))).)))..))))..............((.(((((........)))))...((((((((((....))))))))))))..))))..... ( -32.20)
>DroEre_CAF1 254438 120 + 1
AAUGCCAUCUUGGACACAGGAACAUCGCUGGUCCUGGUGCCCCAACAAACAUACCACAACUUGCUGAAUACCCUAUCAGCUAGGCAACAAAAUGGUUAUUUUGUGGUGACUUGCAGAAGU
..(((((((..((((.((((.....).))))))).))))............((((((((...(((((........)))))..(....)............))))))))....)))..... ( -31.50)
>DroYak_CAF1 265295 120 + 1
AAUGCCAUCCUGGACACGGGCACAUCACUGGUUCUUGUGCCGCAACAAACAUACCAAAACCUGUUGAAUGCCUUAUCAGCAAAGUUACAAAAUGGUUAUUCUGUGGUGACAUGCAGAAGU
...(((((..(((((...((((((...........))))))....................((((((........))))))..))).))..)))))..(((((((....)..)))))).. ( -28.40)
>consensus
AAUGCCAUCUUGGACACGGGAACAUCACUGGUUCUGGUGCCCCAACAAACAUAUCAUAACCUGCUGAAUACCCUAUCAGCUAAGCUACAAAAUGGUUAUUUUGUGGUGACAUGCAAAAGU
..(((......((.(((.(((((.......))))).)))))..........((((((((...(((((........)))))..(((((.....)))))...))))))))....)))..... (-24.12 = -24.28 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,236,111 – 13,236,231
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.08
Mean single sequence MFE -33.92
Consensus MFE -26.58
Energy contribution -27.90
Covariance contribution 1.32
Combinations/Pair 1.13
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.55
SVM RNA-class probability 0.778790
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13236111 120 - 27905053
ACUUUUGCAUGCCACCACAAAAUAACCAUUUUGUAGCUUAGCUGAUAGGGUAUUCAGCAGGUUAUGAUAUGUUUGUUGCGGCACCAGAACCAGUGAUGUUCCCGUGUCCAAAAUGGCAUU
........((((((......(((((.(((.(..((((((.(((((........)))))))))))..).))).)))))(.(((((..((((.(....)))))..))))))....)))))). ( -35.20)
>DroSec_CAF1 264879 120 - 1
ACUUUUGCAUGUCACCACAAAAUAACCAUUUUCUAGCUUAGCUGAUAAAGUAUUCAGCAGGUUAUGAUAUGUUUGUUGGGGCACCAGAACCAGUGAUGUUCCCGUGUCCAAUAUCGCAUU
.....(((............(((((.(((.((.((((((.(((((........))))))))))).)).))).))))).((((((..((((.(....)))))..))))))......))).. ( -31.70)
>DroSim_CAF1 250272 120 - 1
ACUUUUGCAUGCCACCACAAAAUAACCAUUUUGUAGCUUAGCUGAUAGGGUAUUCAGCAGGUUAUGAUAUGUUUGUUGGGGCACCAGAACCAGUGAUGUUCCCGUGUCCAAAAUCGCAUU
.....(((............(((((.(((.(..((((((.(((((........)))))))))))..).))).))))).((((((..((((.(....)))))..))))))......))).. ( -34.60)
>DroEre_CAF1 254438 120 - 1
ACUUCUGCAAGUCACCACAAAAUAACCAUUUUGUUGCCUAGCUGAUAGGGUAUUCAGCAAGUUGUGGUAUGUUUGUUGGGGCACCAGGACCAGCGAUGUUCCUGUGUCCAAGAUGGCAUU
.....(((..(((.(.(((((...((((((((((((((((.....)))).....)))))))..)))))...))))).)((((((.((((.((....)).))))))))))..))).))).. ( -36.90)
>DroYak_CAF1 265295 120 - 1
ACUUCUGCAUGUCACCACAGAAUAACCAUUUUGUAACUUUGCUGAUAAGGCAUUCAACAGGUUUUGGUAUGUUUGUUGCGGCACAAGAACCAGUGAUGUGCCCGUGUCCAGGAUGGCAUU
......(((((((((.(((((((....)))))))..((((((((...((((((((((......)))).))))))....))))).))).....)))))))))..(((((......))))). ( -31.20)
>consensus
ACUUUUGCAUGUCACCACAAAAUAACCAUUUUGUAGCUUAGCUGAUAGGGUAUUCAGCAGGUUAUGAUAUGUUUGUUGGGGCACCAGAACCAGUGAUGUUCCCGUGUCCAAAAUGGCAUU
........((((((......(((((.(((.(((((((((.(((((........)))))))))))))).))).))))).((((((..((((.(....)))))..))))))....)))))). (-26.58 = -27.90 +   1.32)

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 11:44:29 2006