Locus 917

Sequence ID 3L_DroMel_CAF1
Location 2,776,890 – 2,776,985
Length 95
Max. P 0.913616
window1411 window1412

overview

Window 1

Location 2,776,890 – 2,776,985
Length 95
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 76.57
Mean single sequence MFE -40.08
Consensus MFE -24.58
Energy contribution -27.22
Covariance contribution 2.64
Combinations/Pair 1.21
Mean z-score -1.87
Structure conservation index 0.61
SVM decision value 1.09
SVM RNA-class probability 0.913616
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2776890 95 + 23771897
AUUUUAUUUGGCUGC---------GGAGGACCAAGUAAGCCAGGCUCGGUCUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------((((((((..((..(((.((((.((.((.....(((.....)))..)).)).)))).))).)))))))))).)))))... ( -41.30)
>DroVir_CAF1 12827 91 + 1
AUUUUGUUUGGUUGUCCGCCCGGCGGUGGCGGCAAUAGACCCGGCUCCGUCUUGAUAUAUUGCCCGUGAUAGUCCUGACCGC-UG-------CCCGGCG-----
.........((....))(((.((((((((.(((((((((..((....))..))....)))))))((.(.....).)).))))-))-------)).))).----- ( -30.10)
>DroSec_CAF1 22205 95 + 1
AUUUUAUUUGGCUGU---------GGAGGACCAAGUAAGCCGGGCUCGGUCUUGAUGUACUGCGAAUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------((((((((..((..((((((((.((.((..................)).)).)))))))).)))))))))).)))))... ( -43.17)
>DroEre_CAF1 23830 95 + 1
AUUUUGUUGGGCUGC---------GGAGGACCCAGUAAACCGGGCUCGGUCUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------(((((((((.....((((((((.((.((.....(((.....)))..)).)).)))))))).).)))))))).)))))... ( -47.60)
>DroYak_CAF1 21468 95 + 1
AUUUUGUUCGGCUGC---------GGAGGACCAAGUAAACCGGGCUCCGUUUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((---------((((((((..((..((((((((.......(((.(((.....)))...)))..)))))))).)))))))))).)))))... ( -41.70)
>DroAna_CAF1 12850 87 + 1
AUUUUGUUGGGCUGC---------GGCGGCCCCAGCAGGCCCGGCUCGGUCUUGAUGUACUGACCGUGGUAUUCUUGGCCGGG-----AUGCACCGGCGGC---
...(((((((((((.---------..))).))))))))((((((.((((((.....).)))))))).))).......(((((.-----.....)))))...--- ( -36.60)
>consensus
AUUUUGUUUGGCUGC_________GGAGGACCAAGUAAACCGGGCUCGGUCUUGAUGUACUGCGAGUGAUAGUCCUGGCCCGGUGGCGGUCCUCCGGCGGCAUG
..........(((((.........((((((((......((((((((.((.((.....(((.....)))..)).)).))))))))...)))))))).)))))... (-24.58 = -27.22 +   2.64) 

alignment

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secondary structure

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dotplot

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Window 2

Location 2,776,890 – 2,776,985
Length 95
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 76.57
Mean single sequence MFE -32.52
Consensus MFE -17.11
Energy contribution -17.95
Covariance contribution 0.84
Combinations/Pair 1.29
Mean z-score -1.89
Structure conservation index 0.53
SVM decision value 0.50
SVM RNA-class probability 0.761941
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2776890 95 - 23771897
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAGACCGAGCCUGGCUUACUUGGUCCUCC---------GCAGCCAAAUAAAAU
...((.((.(((((((((.....((((((((.......((((..((........))))))))))))))...)))))))))---------)).)).......... ( -35.01)
>DroVir_CAF1 12827 91 - 1
-----CGCCGGG-------CA-GCGGUCAGGACUAUCACGGGCAAUAUAUCAAGACGGAGCCGGGUCUAUUGCCGCCACCGCCGGGCGGACAACCAAACAAAAU
-----((((.((-------(.-(.(((..(........).(((((((.(((....((....))))).)))))))))).).))).))))................ ( -29.40)
>DroSec_CAF1 22205 95 - 1
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCAUUCGCAGUACAUCAAGACCGAGCCCGGCUUACUUGGUCCUCC---------ACAGCCAAAUAAAAU
...((.(..(((((((((...((((((..((.((..................)).))..))))))......)))))))))---------.).)).......... ( -31.37)
>DroEre_CAF1 23830 95 - 1
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAGACCGAGCCCGGUUUACUGGGUCCUCC---------GCAGCCCAACAAAAU
...((.((.((((((((...(((((((..((.((..................)).))..)))))))......))))))))---------)).)).......... ( -35.87)
>DroYak_CAF1 21468 95 - 1
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAAACGGAGCCCGGUUUACUUGGUCCUCC---------GCAGCCGAACAAAAU
...((.((.(((((((((..((((((((((........))....((........)).).))))))).....)))))))))---------)).)).......... ( -33.40)
>DroAna_CAF1 12850 87 - 1
---GCCGCCGGUGCAU-----CCCGGCCAAGAAUACCACGGUCAGUACAUCAAGACCGAGCCGGGCCUGCUGGGGCCGCC---------GCAGCCCAACAAAAU
---((.(((((.....-----.)))))...........(((((..........))))).)).((((.(((.((.....))---------)))))))........ ( -30.10)
>consensus
CAUGCCGCCGGAGGACCGCCACCGGGCCAGGACUAUCACUCGCAGUACAUCAAGACCGAGCCCGGCUUACUGGGUCCUCC_________GCAGCCAAACAAAAU
.........((((((((....((((((...(.....)............((......)))))))).......))))))))........................ (-17.11 = -17.95 +   0.84) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:23 2006