Locus 7069

Sequence ID 3L_DroMel_CAF1
Location 19,134,925 – 19,135,042
Length 117
Max. P 0.940074
window11457 window11458

overview

Window 7

Location 19,134,925 – 19,135,018
Length 93
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.64
Mean single sequence MFE -32.88
Consensus MFE -21.88
Energy contribution -22.80
Covariance contribution 0.92
Combinations/Pair 1.14
Mean z-score -1.66
Structure conservation index 0.67
SVM decision value 0.01
SVM RNA-class probability 0.539693
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19134925 93 - 23771897
GGGAUAUGCCAGUCAGGCGAU------UUCGAGGCGGGAAACUGAUCUCCAAAAGGGGUG-AGAAAACUCUGGGGAAAUGCACAACUCGGCCUAGUGGAU--------------------
........(((.(.((((...------..((((.(((....))).((((((....((((.-.....)))))))))).........))))))))).)))..-------------------- ( -27.80)
>DroSec_CAF1 22352 111 - 1
GGGAUAUGCCAGCCAGUCGAG------UUCGAGGCGGGAAACCGAUCUCCAAAAGGGGGG-AGAAGCCUCUGGGAAAAUGCACGACUCUUCCGAAUGGAU--AACACUUUGAGAAAAUUA
((......))....(((((.(------((((((((((....))..(((((........))-))).))))).))......)).))))).(((((((((...--..)).)))).)))..... ( -30.00)
>DroSim_CAF1 23273 117 - 1
GGGAUAUGCCAGCCAGUCGAGUUCGAGUUCGAGGCGGGAAACCGAUCUCCAAAAGGGGGG-AGAAGCCUCUGGGAAAAUGCACAACUCGGCCGAAUGGAU--AACACUUUGAGAAAAUUA
....(((.(((..(.((((((((((..((((((((((....))..(((((........))-))).)))))...)))..))...)))))))).)..)))))--)................. ( -36.50)
>DroEre_CAF1 15870 112 - 1
GGGAUAUGCCAGCCAGUCGAG------UUCGGGGCGGGAAACCGAUCUCCGAAAGGGGG--AGAAAACUCUGGGGAAAUGAACAACUCGGCCGAAUGGAUAUAACACUUUGAGAAAAUUA
(..((((.(((..(.((((((------((((((((((....))).(((((....)))))--......))))).(........))))))))).)..)))))))..)............... ( -37.10)
>DroYak_CAF1 20507 112 - 1
GGGAUAUGCCAGCCAGUCGAG------UUCGAGGCGGGAAACCGAUCUCCAAACGGGGGGAAGAAAACUCUGGGGAAAUAACCAACUCGGCCGAAUGGAU--AACACUUUGAGAAAAUUU
....(((.(((..(.((((((------((.(((.(((....))).(((((......)))))......))).((........)))))))))).)..)))))--)................. ( -33.00)
>consensus
GGGAUAUGCCAGCCAGUCGAG______UUCGAGGCGGGAAACCGAUCUCCAAAAGGGGGG_AGAAAACUCUGGGGAAAUGCACAACUCGGCCGAAUGGAU__AACACUUUGAGAAAAUUA
........(((..(.((((((.........(((((((....))).)))).....(((((.......)))))..............)))))).)..)))...................... (-21.88 = -22.80 +   0.92)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,134,945 – 19,135,042
Length 97
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 90.98
Mean single sequence MFE -31.06
Consensus MFE -27.16
Energy contribution -27.36
Covariance contribution 0.20
Combinations/Pair 1.16
Mean z-score -1.64
Structure conservation index 0.87
SVM decision value 1.28
SVM RNA-class probability 0.940074
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19134945 97 - 23771897
UCAGUAGCGGGAGAUCCGUAUAAUGGGAUAUGCCAGUCAGGCGAU------UUCGAGGCGGGAAACUGAUCUCCAAAAGGGGUG-AGAAAACUCUGGGGAAAUG
(((((..(....).(((((....((..((.((((.....))))))------..))..)))))..)))))((((((....((((.-.....)))))))))).... ( -28.40)
>DroSec_CAF1 22390 97 - 1
UCAGUUGCGGGAGAUCCGUAUAAUGGGAUAUGCCAGCCAGUCGAG------UUCGAGGCGGGAAACCGAUCUCCAAAAGGGGGG-AGAAGCCUCUGGGAAAAUG
((..((((.((..((((........))))...)).).)))..)).------...(((((((....))..(((((........))-))).))))).......... ( -31.60)
>DroSim_CAF1 23311 103 - 1
UCAGUUGCGGGAGAUCCGUAUAAUGGGAUAUGCCAGCCAGUCGAGUUCGAGUUCGAGGCGGGAAACCGAUCUCCAAAAGGGGGG-AGAAGCCUCUGGGAAAAUG
........((.(.((((........)))).).))..(((.(((....)))....(((((((....))..(((((........))-))).))))))))....... ( -33.60)
>DroEre_CAF1 15910 96 - 1
UCAGUUGCGGGAGAUCCGUAUAAUGGGAUAUGCCAGCCAGUCGAG------UUCGGGGCGGGAAACCGAUCUCCGAAAGGGGG--AGAAAACUCUGGGGAAAUG
((..((((.((..((((........))))...)).).)))..)).------((((((((((....))).(((((....)))))--......)))))))...... ( -31.20)
>DroYak_CAF1 20545 98 - 1
UCAGUUGCGGGAGAUCCGUAUAAUGGGAUAUGCCAGCCAGUCGAG------UUCGAGGCGGGAAACCGAUCUCCAAACGGGGGGAAGAAAACUCUGGGGAAAUA
.........(((((((.......(((......)))(((..(((..------..))))))((....)))))))))...(.((((........)))).)....... ( -30.50)
>consensus
UCAGUUGCGGGAGAUCCGUAUAAUGGGAUAUGCCAGCCAGUCGAG______UUCGAGGCGGGAAACCGAUCUCCAAAAGGGGGG_AGAAAACUCUGGGGAAAUG
.........(((((((.......(((......)))(((..(((((......))))))))((....)))))))))....(((((.......)))))......... (-27.16 = -27.36 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:51 2006