Locus 615

Sequence ID 3L_DroMel_CAF1
Location 1,791,836 – 1,791,938
Length 102
Max. P 0.921798
window946 window947

overview

Window 6

Location 1,791,836 – 1,791,938
Length 102
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.22
Mean single sequence MFE -38.49
Consensus MFE -24.29
Energy contribution -23.35
Covariance contribution -0.94
Combinations/Pair 1.35
Mean z-score -2.22
Structure conservation index 0.63
SVM decision value 1.14
SVM RNA-class probability 0.921798
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1791836 102 + 23771897
AAAUGUGAGCCGUG-UCGGUGGAACUGGGUGGAGUUGGGCAGGGCCAGCACAUGGCGAUAAGGCUGCGGUUCCUAACCCAGUUUCCGCCGACUAAUCCGCACA-----
...((((......(-(((((((((((((((((((..((((...((((.....))))......))).)..))))..)))))).)))))))))).......))))----- ( -46.22)
>DroSec_CAF1 7305 102 + 1
AAAUGCGAGCCGUG-UCGGUGGAACUGGGUGGAGUUGGGCAGGGCCAGCACAUGCCGAUAAGGCUGCGGUUCCUAACCCAGUUUCCGCCGACUAAUCCGCACA-----
...((((.(....(-(((((((((((((((((((((((......))))).((.(((.....)))))....)))..)))))).))))))))))....)))))..----- ( -47.60)
>DroSim_CAF1 7323 102 + 1
AAAUGCGAGCCGUG-UCGGUGGAACUGGGUGGAGUUGGGCAGGGCCAGCACAUGCCGAUAAGGCUGCGGUUCCUAACCCAGUUUCCGCCGACUAAUCCGCACG-----
...((((.(....(-(((((((((((((((((((((((......))))).((.(((.....)))))....)))..)))))).))))))))))....)))))..----- ( -47.60)
>DroEre_CAF1 7516 103 + 1
AAAUGCGAGCCGUA-UAGGUAGAACUGGGUGGAGUUGGGCAGGGCCAGCAUAUAGCGAUAAGGCUUCGGUUCCUAACCCAGUUUCCGCCGACUAAACCACUCCA----
..(((((...))))-).(((.(((((((((((((..((....((((.((.....)).....))))))..))))..)))))))))..)))...............---- ( -30.40)
>DroYak_CAF1 7582 107 + 1
AAAUGUGAGCCGUG-UCGGUAGAACUGGGUGGAGUUGGGCAGGGCCAGCACAUAGCGAUAAGGCUUCGUUUCCUAACCCAGUUUCCGCCGACUAAUCCACUCCAAUCC
...((.(((..(.(-(((((.(((((((((((((((((......)))))....(((((.......))))))))..)))))))))..))))))....)..))))).... ( -38.10)
>DroPer_CAF1 7093 91 + 1
AAAAAUGAGAAACGAUCUUCAGAACUGGGUGGAGUUUGAUU---CCAAUACA----GAUACGAG--UAGAUCCCAACCCAGUUUCAAUCCAAUCUCCCGC--------
......((((...(((.....(((((((((((..(((.(((---(.......----.....)))--))))..)).)))))))))..)))...))))....-------- ( -21.00)
>consensus
AAAUGCGAGCCGUG_UCGGUAGAACUGGGUGGAGUUGGGCAGGGCCAGCACAUGGCGAUAAGGCUGCGGUUCCUAACCCAGUUUCCGCCGACUAAUCCGCACA_____
....(((.((((....)))).(((((((((((((((((......)))))......((.........))..)))..))))))))).))).................... (-24.29 = -23.35 +  -0.94)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,791,836 – 1,791,938
Length 102
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 79.22
Mean single sequence MFE -35.92
Consensus MFE -22.10
Energy contribution -22.30
Covariance contribution 0.20
Combinations/Pair 1.29
Mean z-score -1.76
Structure conservation index 0.62
SVM decision value 0.49
SVM RNA-class probability 0.756059
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1791836 102 - 23771897
-----UGUGCGGAUUAGUCGGCGGAAACUGGGUUAGGAACCGCAGCCUUAUCGCCAUGUGCUGGCCCUGCCCAACUCCACCCAGUUCCACCGA-CACGGCUCACAUUU
-----((((.((....(((((.((((.((((((..(((...((((.......((((.....)))).)))).....))))))))))))).))))-)....))))))... ( -38.00)
>DroSec_CAF1 7305 102 - 1
-----UGUGCGGAUUAGUCGGCGGAAACUGGGUUAGGAACCGCAGCCUUAUCGGCAUGUGCUGGCCCUGCCCAACUCCACCCAGUUCCACCGA-CACGGCUCGCAUUU
-----.(((((..((.(((((.((((.((((((..(((..(((((((.....))).))))..(((...)))....))))))))))))).))))-)..))..))))).. ( -43.70)
>DroSim_CAF1 7323 102 - 1
-----CGUGCGGAUUAGUCGGCGGAAACUGGGUUAGGAACCGCAGCCUUAUCGGCAUGUGCUGGCCCUGCCCAACUCCACCCAGUUCCACCGA-CACGGCUCGCAUUU
-----.(((((..((.(((((.((((.((((((..(((..(((((((.....))).))))..(((...)))....))))))))))))).))))-)..))..))))).. ( -43.80)
>DroEre_CAF1 7516 103 - 1
----UGGAGUGGUUUAGUCGGCGGAAACUGGGUUAGGAACCGAAGCCUUAUCGCUAUAUGCUGGCCCUGCCCAACUCCACCCAGUUCUACCUA-UACGGCUCGCAUUU
----..((((.((.((...((..(((.((((((..(((.....(((......))).......(((...)))....))))))))))))..))))-.)).))))...... ( -29.10)
>DroYak_CAF1 7582 107 - 1
GGAUUGGAGUGGAUUAGUCGGCGGAAACUGGGUUAGGAAACGAAGCCUUAUCGCUAUGUGCUGGCCCUGCCCAACUCCACCCAGUUCUACCGA-CACGGCUCACAUUU
(((((((.(((((......((((....).(((((((...(((.(((......))).))).))))))).)))....))))))))))))..(((.-..)))......... ( -37.20)
>DroPer_CAF1 7093 91 - 1
--------GCGGGAGAUUGGAUUGAAACUGGGUUGGGAUCUA--CUCGUAUC----UGUAUUGG---AAUCAAACUCCACCCAGUUCUGAAGAUCGUUUCUCAUUUUU
--------..(((((((..((((..((((((((.(((...((--(.......----.)))(((.---...))).))).)))))))).....)))))))))))...... ( -23.70)
>consensus
_____GGUGCGGAUUAGUCGGCGGAAACUGGGUUAGGAACCGCAGCCUUAUCGCCAUGUGCUGGCCCUGCCCAACUCCACCCAGUUCCACCGA_CACGGCUCACAUUU
........(((..((..((((.((((.((((((..(((.....(((.............)))(((...)))....))))))))))))).))))....))..))).... (-22.10 = -22.30 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:50 2006