Locus 6702

Sequence ID 2L_DroMel_CAF1
Location 18,731,217 – 18,731,377
Length 160
Max. P 0.979587
window10699 window10700 window10701

overview

Window 9

Location 18,731,217 – 18,731,337
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.17
Mean single sequence MFE -24.14
Consensus MFE -21.42
Energy contribution -21.82
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.89
SVM decision value 1.84
SVM RNA-class probability 0.979587
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18731217 120 + 22407834
ACGCAAAUACACAAGCAAAGUGCCCCUGUUAAAUGGCUAAAUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACGACAGUUUAGCCGAAUAAACAGUUUGAUAAAUU
...((((..(((.......)))...(((((...(((((((((...(((((((((...((......))....))))))))).(....)....)))))))))....)))))))))....... ( -25.30)
>DroSec_CAF1 23845 120 + 1
ACUCAAAUACACAUGCAAAGUGCCGCUGUUAAAUGGCUAAAUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUU
..((((...(((.......)))..((((((...(((((.......(((((((((...((......))....))))))))).(((.......))).)))))....))))))))))...... ( -25.10)
>DroSim_CAF1 22335 120 + 1
ACGCAAAUACACAUGCAAAGUGCCGCUGUUAAAUGGCUAAAUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUU
..(((........)))........((((((...(((((.......(((((((((...((......))....))))))))).(((.......))).)))))....)))))).......... ( -25.00)
>DroEre_CAF1 24073 120 + 1
ACGCAAAUACACAUGCAAAGUGCCGCUGUUAAAUGACUGAAUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUU
..((......(((.((........)))))....((((((......(((((((((...((......))....))))))))).(....)..)))))).))(((((.....)))))....... ( -20.10)
>DroYak_CAF1 24029 120 + 1
ACGCAAAUACACAUGCAAUGUGCCGCUGUUAAAUGGCUGAAUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUU
...(((...(((((...)))))..((((((...(((((.......(((((((((...((......))....))))))))).(((.......))).)))))....)))))))))....... ( -25.20)
>consensus
ACGCAAAUACACAUGCAAAGUGCCGCUGUUAAAUGGCUAAAUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUU
...(((...(((.......)))..((((((...(((((.......(((((((((...((......))....)))))))))....(((....))).)))))....)))))))))....... (-21.42 = -21.82 +   0.40)

alignment

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secondary structure

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Window 0

Location 18,731,217 – 18,731,337
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.17
Mean single sequence MFE -25.40
Consensus MFE -23.98
Energy contribution -24.02
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.11
Structure conservation index 0.94
SVM decision value -0.02
SVM RNA-class probability 0.522795
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18731217 120 - 22407834
AAUUUAUCAAACUGUUUAUUCGGCUAAACUGUCGUUGUCUCGUUUAGUUAAAAGGUAUAAGCCAUAAACUAAACGUUUAUUUAGCCAUUUAACAGGGGCACUUUGCUUGUGUAUUUGCGU
...........(((((.....((((((((....)))....(((((((((....(((....)))...)))))))))......)))))....)))))..(((...(((....)))..))).. ( -26.60)
>DroSec_CAF1 23845 120 - 1
AAUUUAUCAAACUGUUUAUUCGGCUUAACUGUUGUUGUCUCGUUUAGUUAAAAGGUAUAAGCCAUAAACUAAACGUUUAUUUAGCCAUUUAACAGCGGCACUUUGCAUGUGUAUUUGAGU
......((((((((((.....((((((((....))))...(((((((((....(((....)))...))))))))).......))))....)))))..((((.......)))).))))).. ( -27.10)
>DroSim_CAF1 22335 120 - 1
AAUUUAUCAAACUGUUUAUUCGGCUUAACUGUUGUUGUCUCGUUUAGUUAAAAGGUAUAAGCCAUAAACUAAACGUUUAUUUAGCCAUUUAACAGCGGCACUUUGCAUGUGUAUUUGCGU
...........(((((.....((((((((....))))...(((((((((....(((....)))...))))))))).......))))....)))))..(((...(((....)))..))).. ( -24.90)
>DroEre_CAF1 24073 120 - 1
AAUUUAUCAAACUGUUUAUUCGGCUUAACUGUUGUUGUCUCGUUUAGUUAAAAGGUAUAAGCCAUAAACUAAACGUUUAUUCAGUCAUUUAACAGCGGCACUUUGCAUGUGUAUUUGCGU
..........((((..((..(((..((((....))))..))((((((((....(((....)))...)))))))))..))..)))).........(((((((.......))))...))).. ( -22.80)
>DroYak_CAF1 24029 120 - 1
AAUUUAUCAAACUGUUUAUUCGGCUUAACUGUUGUUGUCUCGUUUAGUUAAAAGGUAUAAGCCAUAAACUAAACGUUUAUUCAGCCAUUUAACAGCGGCACAUUGCAUGUGUAUUUGCGU
.......(((((((((.....((((((((....))))...(((((((((....(((....)))...))))))))).......))))....)))))..((((((...)))))).))))... ( -25.60)
>consensus
AAUUUAUCAAACUGUUUAUUCGGCUUAACUGUUGUUGUCUCGUUUAGUUAAAAGGUAUAAGCCAUAAACUAAACGUUUAUUUAGCCAUUUAACAGCGGCACUUUGCAUGUGUAUUUGCGU
.......(((((((((.....((((((((....))))...(((((((((....(((....)))...))))))))).......))))....)))))..((((.......)))).))))... (-23.98 = -24.02 +   0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,731,257 – 18,731,377
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.93
Mean single sequence MFE -19.07
Consensus MFE -18.10
Energy contribution -18.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.29
Structure conservation index 0.95
SVM decision value 0.86
SVM RNA-class probability 0.868091
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18731257 120 + 22407834
AUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACGACAGUUUAGCCGAAUAAACAGUUUGAUAAAUUUAUGCGAGCUGCGACAAAAAAAAAAAACGGAAAAAUAAAU
.....(((((((((...((......))....)))))))))......((.((((((.(((((((.....)))))(((....)))))))))))))........................... ( -19.90)
>DroSec_CAF1 23885 116 + 1
AUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUUUAUGCGAGCUGCGACAAAA----AAAACGGAAAAAUGAAU
.....(((((((((...((......))....))))))))).........((......(((......((((((((((....))).)))))))........----....))).....))... ( -18.87)
>DroSim_CAF1 22375 118 + 1
AUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUUUAUGCGAGCUGCGACAAAAA--AAAAACGGAAAAAUAAAU
.....(((((((((...((......))....)))))))))...........(((.(((((.(((((............))))).)).)))..))).....--.................. ( -18.70)
>DroEre_CAF1 24113 114 + 1
AUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUUUAUGCGAGCUGCGACAAA------AAACGAAAAAAUAAAU
.....(((((((((...((......))....)))))))))...........(((.(((((.(((((............))))).)).)))..)))...------................ ( -18.70)
>DroYak_CAF1 24069 114 + 1
AUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUUUAUGCGAGCUGCGACAAA------AAACGGAAAAAUAAAU
.....(((((((((...((......))....))))))))).................(((......((((((((((....))).))))))).......------...))).......... ( -19.19)
>consensus
AUAAACGUUUAGUUUAUGGCUUAUACCUUUUAACUAAACGAGACAACAACAGUUAAGCCGAAUAAACAGUUUGAUAAAUUUAUGCGAGCUGCGACAAAA____AAAACGGAAAAAUAAAU
.....(((((((((...((......))....)))))))))..........................((((((((((....))).)))))))............................. (-18.10 = -18.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:55 2006