Locus 5446

Sequence ID 3L_DroMel_CAF1
Location 14,918,440 – 14,918,542
Length 102
Max. P 0.728594
window8615 window8616

overview

Window 5

Location 14,918,440 – 14,918,542
Length 102
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 83.57
Mean single sequence MFE -31.92
Consensus MFE -24.37
Energy contribution -25.23
Covariance contribution 0.86
Combinations/Pair 1.08
Mean z-score -1.85
Structure conservation index 0.76
SVM decision value 0.27
SVM RNA-class probability 0.661443
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14918440 102 + 23771897
GGUUGCUGAGAUCUGGCUGAAGGAUCGUUGGGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAUAGCAUGUUAGCCAGAUCCAUAGAGCGUU-----UGGAAAAA---
.(((.(((.(((((((((........(((((..(....).)))))..........(((((((.....))))))))))))))))..))))))...-----........--- ( -31.30)
>DroSec_CAF1 100683 102 + 1
GGAUGCUGAGAUCUGGCUGAAGGAUCGUUGGGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAUAGCAUGUUAGCCAUAUCCACAGAGCGUU-----CGGAAAAA---
(((((((..(((((.......))))).((((((..((((((.((((((.((((......))))....)).)))).))))))))).)))))))))-----).......--- ( -32.10)
>DroSim_CAF1 97901 102 + 1
AGUUGCUGAGAUCUGGCUGAAGGAUCGUUGGGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAUAGCAUGUUAGCCAGAUCCACAGAGCGUU-----CGGAAAAA---
.(((.(((.(((((((((........(((((..(....).)))))..........(((((((.....))))))))))))))))..))))))...-----........--- ( -33.40)
>DroEre_CAF1 95965 105 + 1
GGAUGCUGAGAUCUGGCUGAAGGAUCGUUGGGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAAGGCAUGUUAGCCAGAUCCAUAGGCCGCU-----UGAAAAAAAUA
((....((.(((((((((........(((((..(....).)))))..........(((((((.....))))))))))))))))))....))...-----........... ( -32.40)
>DroYak_CAF1 95505 102 + 1
GGAUGCUGAGAUCUGGCUAAAGGAUCGUUGGGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAAGGCAUGCUAGCCAGAUCCAUAGACAGCU-----UGGAAAAA---
....((((.((((((((((.......(((((..(....).))))).(((.((..(((....)))...)).)))))))))))))......)))).-----........--- ( -34.00)
>DroAna_CAF1 87819 99 + 1
-----CAGAUAUCUGGCCAAGAUCCAGUUGAGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAGGACAUGUUAGCCAGAUUCAGAGAUCCCUGAUCCCGGGG------
-----..((.(((((((......((.((((.(.(....).))))).(....).))((((((((...)))))))).)))))))))......(((((....)))))------ ( -28.30)
>consensus
GGAUGCUGAGAUCUGGCUGAAGGAUCGUUGGGACUUAUGGCCAACAGCAAGCAGGGACAUGUUCAUAGCAUGUUAGCCAGAUCCAUAGAGCGCU_____CGGAAAAA___
.....(((.(((((((((........(((((..(....).)))))..........(((((((.....))))))))))))))))..)))...................... (-24.37 = -25.23 +   0.86)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,918,440 – 14,918,542
Length 102
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 83.57
Mean single sequence MFE -27.32
Consensus MFE -22.07
Energy contribution -21.98
Covariance contribution -0.08
Combinations/Pair 1.15
Mean z-score -1.83
Structure conservation index 0.81
SVM decision value 0.42
SVM RNA-class probability 0.728594
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14918440 102 - 23771897
---UUUUUCCA-----AACGCUCUAUGGAUCUGGCUAACAUGCUAUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCCCAACGAUCCUUCAGCCAGAUCUCAGCAACC
---........-----...(((....((((((((((.(((((.......)))))..........((((((.........)))))).......)))))))))).))).... ( -26.90)
>DroSec_CAF1 100683 102 - 1
---UUUUUCCG-----AACGCUCUGUGGAUAUGGCUAACAUGCUAUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCCCAACGAUCCUUCAGCCAGAUCUCAGCAUCC
---........-----...(((.((.((((((((((((((.((...................))))))))))))..))))))..((((.........))))..))).... ( -24.81)
>DroSim_CAF1 97901 102 - 1
---UUUUUCCG-----AACGCUCUGUGGAUCUGGCUAACAUGCUAUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCCCAACGAUCCUUCAGCCAGAUCUCAGCAACU
---........-----...(((....((((((((((.(((((.......)))))..........((((((.........)))))).......)))))))))).))).... ( -26.90)
>DroEre_CAF1 95965 105 - 1
UAUUUUUUUCA-----AGCGGCCUAUGGAUCUGGCUAACAUGCCUUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCCCAACGAUCCUUCAGCCAGAUCUCAGCAUCC
...........-----.(((((....((((((((((((((.((...................)))))))))))...((....)))))))....))).(....).)).... ( -25.51)
>DroYak_CAF1 95505 102 - 1
---UUUUUCCA-----AGCUGUCUAUGGAUCUGGCUAGCAUGCCUUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCCCAACGAUCCUUUAGCCAGAUCUCAGCAUCC
---........-----.((((.....((((((((((((((.((...((.....))...)).)))((((((.........))))))......))))))))))))))).... ( -32.10)
>DroAna_CAF1 87819 99 - 1
------CCCCGGGAUCAGGGAUCUCUGAAUCUGGCUAACAUGUCCUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCUCAACUGGAUCUUGGCCAGAUAUCUG-----
------..(((((.(((((....))))).)))))...((((((.....))))))............(((((((...((((.....))))..))))))).......----- ( -27.70)
>consensus
___UUUUUCCA_____AACGCUCUAUGGAUCUGGCUAACAUGCCAUGAACAUGUCCCUGCUUGCUGUUGGCCAUAAGUCCCAACGAUCCUUCAGCCAGAUCUCAGCAUCC
..........................((((((((((.(((((.......)))))...........(((((.........)))))........))))))))))........ (-22.07 = -21.98 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:32 2006