Locus 184

Sequence ID 4_DroMel_CAF1
Location 1,110,794 – 1,110,954
Length 160
Max. P 0.998281
window297 window298 window299

overview

Window 7

Location 1,110,794 – 1,110,914
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.33
Mean single sequence MFE -31.42
Consensus MFE -23.62
Energy contribution -23.62
Covariance contribution -0.00
Combinations/Pair 1.13
Mean z-score -1.66
Structure conservation index 0.75
SVM decision value 0.19
SVM RNA-class probability 0.627998
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1110794 120 - 1281640
UGUUAAUUGACCUUUUUGGGACUGACACUCCCCUAAGGGUCAAUAUAGCUAAAUGAUCGAGUCAGCUACGUGUAUGGGUAUGGGAAUAAAUGUGUUCGUUUAGGCCAUCUGCUUUCUUUC
.((((((((((((((..((((.......))))..)))))))))).)))).........(((..(((..((((......))))((..((((((....))))))..))....)))..))).. ( -32.60)
>DroSec_CAF1 23871 120 - 1
UGUUAAUUGACCUUUUUGGGACUGACACUUCCUUAAGGGUCAAUAUAGCCAUAUGAUCGAGUCAGCUACGUGUAUGGGUAUAGGAAUAAAUGUGUUCGUUUAGCCCAUCUGCUUUCUUUC
......(((((((((..((((.......))))..)))))))))((((.((((((...((((....)).)).)))))).))))((..((((((....))))))..)).............. ( -32.90)
>DroSim_CAF1 11523 119 - 1
UGUUAAUUGACCUUUUUGGGACUGACACUUC-UUAAGGGUCAAUAUAGCCAUAUGAUCGAGUCAGCUACGUGUAUGGGUAUAGGAAUAAAUGUGUUCGUUUAGCCCAUCUGCUUUCUUUC
......(((((((((..(((........)))-..)))))))))((((.((((((...((((....)).)).)))))).))))((..((((((....))))))..)).............. ( -29.40)
>DroEre_CAF1 24101 120 - 1
UGUUAAUUGACCUUUUUGGGACCAUCACUCCCCUAAGGGUCAAUAUAGCUAAAUGAACGAGUCAGCUACGUACAUGAGUAUGGGAAUAAAUGUGUUCGCUUAGACCAUCUGCUUUAUUUU
.((((((((((((((..((((.......))))..)))))))))).)))).((((((((((((((((..(((((....))))).(((((....))))))))..)))..)).).))))))). ( -32.20)
>DroYak_CAF1 15371 116 - 1
UGUUAAUUGACCUUUUUGGAACCAUCACUCCCCUAAGGGUCAAUAUAGCAAAAUGAACGA----GCUACGUACAUGGGUAUGAGAAGAAAUGUGUUCGUUUAGACCAUCUGCUUUAUUUU
(((((((((((((((..(((........)))...)))))))))).)))))...(((((((----((..(((((....)))))...(....)..))))))))).................. ( -30.00)
>consensus
UGUUAAUUGACCUUUUUGGGACUGACACUCCCCUAAGGGUCAAUAUAGCCAAAUGAUCGAGUCAGCUACGUGUAUGGGUAUGGGAAUAAAUGUGUUCGUUUAGACCAUCUGCUUUCUUUC
.((((((((((((((..((((.......))))..)))))))))).))))....................(((.((((....(.(((((....))))).).....)))).)))........ (-23.62 = -23.62 +  -0.00)

alignment

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secondary structure

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Window 8

Location 1,110,834 – 1,110,954
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.83
Mean single sequence MFE -34.50
Consensus MFE -25.90
Energy contribution -26.26
Covariance contribution 0.36
Combinations/Pair 1.15
Mean z-score -1.73
Structure conservation index 0.75
SVM decision value 0.29
SVM RNA-class probability 0.669919
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1110834 120 + 1281640
UACCCAUACACGUAGCUGACUCGAUCAUUUAGCUAUAUUGACCCUUAGGGGAGUGUCAGUCCCAAAAAGGUCAAUUAACAACAGGUGAAUAAGUGCUAGCAACCACGUUUGCGCGGGUUA
.((((...(((((((((((.........))))))))(((((((.((..((((.......))))..)).))))))).........))).....((((.(((......))).)))))))).. ( -37.10)
>DroSec_CAF1 23911 120 + 1
UACCCAUACACGUAGCUGACUCGAUCAUAUGGCUAUAUUGACCCUUAAGGAAGUGUCAGUCCCAAAAAGGUCAAUUAACAACAGGUGAAAAAGUGCUAGGGCGCACGUUUGCGCGGGUUA
.((((.....(.((((..(((...((((.((.....(((((((.....(((........)))......)))))))......)).))))...))))))).)(((((....))))))))).. ( -34.40)
>DroSim_CAF1 11563 119 + 1
UACCCAUACACGUAGCUGACUCGAUCAUAUGGCUAUAUUGACCCUUAA-GAAGUGUCAGUCCCAAAAAGGUCAAUUAACAACAGGUGAAAAAGUGCUAGCACGCACGUUUGCGCGCGUUA
.........((((.((.(((....((((.((.....(((((((.....-...................)))))))......)).))))....((((......))))))).))..)))).. ( -24.36)
>DroEre_CAF1 24141 120 + 1
UACUCAUGUACGUAGCUGACUCGUUCAUUUAGCUAUAUUGACCCUUAGGGGAGUGAUGGUCCCAAAAAGGUCAAUUAACAACAGGUGAAUGAGUGCUAGCAAACACGUUUGCGCGGGUUC
.((((.......((((..((((((((((((......(((((((.((..((((.......))))..)).))))))).......))))))))))))))))(((((....)))))..)))).. ( -39.62)
>DroYak_CAF1 15411 116 + 1
UACCCAUGUACGUAGC----UCGUUCAUUUUGCUAUAUUGACCCUUAGGGGAGUGAUGGUUCCAAAAAGGUCAAUUAACAACAGGUGAAUGAGUGCUAGCAAACACGUUUGCGCGGGUUC
.((((.........((----((((((((((......(((((((......((((......)))).....))))))).......))))))))))))((..(((((....))))))))))).. ( -37.02)
>consensus
UACCCAUACACGUAGCUGACUCGAUCAUUUAGCUAUAUUGACCCUUAGGGGAGUGUCAGUCCCAAAAAGGUCAAUUAACAACAGGUGAAUAAGUGCUAGCAAACACGUUUGCGCGGGUUA
.((((...(((((((((.............))))))(((((((.((..((((.(...).))))..)).))))))).........))).....((((.(((......))).)))))))).. (-25.90 = -26.26 +   0.36)

alignment

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secondary structure

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dotplot

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Window 9

Location 1,110,834 – 1,110,954
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.83
Mean single sequence MFE -38.86
Consensus MFE -31.30
Energy contribution -31.94
Covariance contribution 0.64
Combinations/Pair 1.12
Mean z-score -3.23
Structure conservation index 0.81
SVM decision value 3.05
SVM RNA-class probability 0.998281
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1110834 120 - 1281640
UAACCCGCGCAAACGUGGUUGCUAGCACUUAUUCACCUGUUGUUAAUUGACCUUUUUGGGACUGACACUCCCCUAAGGGUCAAUAUAGCUAAAUGAUCGAGUCAGCUACGUGUAUGGGUA
..(((((..(..(((((((((.....((((..(((...(((((..((((((((((..((((.......))))..)))))))))))))))....)))..))))))))))))))..))))). ( -44.40)
>DroSec_CAF1 23911 120 - 1
UAACCCGCGCAAACGUGCGCCCUAGCACUUUUUCACCUGUUGUUAAUUGACCUUUUUGGGACUGACACUUCCUUAAGGGUCAAUAUAGCCAUAUGAUCGAGUCAGCUACGUGUAUGGGUA
..(((((((((....)))))..((((((((..(((..(((.((((((((((((((..((((.......))))..)))))))))).)))).))))))..))))..)))).......)))). ( -40.20)
>DroSim_CAF1 11563 119 - 1
UAACGCGCGCAAACGUGCGUGCUAGCACUUUUUCACCUGUUGUUAAUUGACCUUUUUGGGACUGACACUUC-UUAAGGGUCAAUAUAGCCAUAUGAUCGAGUCAGCUACGUGUAUGGGUA
..(((((((((....)))))))((((((((..(((..(((.((((((((((((((..(((........)))-..)))))))))).)))).))))))..))))..)))).))......... ( -34.70)
>DroEre_CAF1 24141 120 - 1
GAACCCGCGCAAACGUGUUUGCUAGCACUCAUUCACCUGUUGUUAAUUGACCUUUUUGGGACCAUCACUCCCCUAAGGGUCAAUAUAGCUAAAUGAACGAGUCAGCUACGUACAUGAGUA
.............(((((.((.((((((((.((((...(((((..((((((((((..((((.......))))..)))))))))))))))....)))).))))..)))))).))))).... ( -38.00)
>DroYak_CAF1 15411 116 - 1
GAACCCGCGCAAACGUGUUUGCUAGCACUCAUUCACCUGUUGUUAAUUGACCUUUUUGGAACCAUCACUCCCCUAAGGGUCAAUAUAGCAAAAUGAACGA----GCUACGUACAUGGGUA
..(((((((((((....)))))..)).(((.((((....((((((((((((((((..(((........)))...)))))))))).))))))..)))).))----)..........)))). ( -37.00)
>consensus
UAACCCGCGCAAACGUGCUUGCUAGCACUUAUUCACCUGUUGUUAAUUGACCUUUUUGGGACUGACACUCCCCUAAGGGUCAAUAUAGCCAAAUGAUCGAGUCAGCUACGUGUAUGGGUA
..((((((((....)))).(((((((((((..(((...(((((..((((((((((..((((.......))))..)))))))))))))))....)))..))))..)))).)))...)))). (-31.30 = -31.94 +   0.64)

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 09:38:36 2006