Locus 1815

Sequence ID 2R_DroMel_CAF1
Location 6,790,325 – 6,790,431
Length 106
Max. P 0.975201
window3012 window3013

overview

Window 2

Location 6,790,325 – 6,790,431
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 69.75
Mean single sequence MFE -34.75
Consensus MFE -15.99
Energy contribution -15.63
Covariance contribution -0.36
Combinations/Pair 1.27
Mean z-score -1.79
Structure conservation index 0.46
SVM decision value 0.70
SVM RNA-class probability 0.827379
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6790325 106 + 20766785
---------UCUCCCCUCG-UUGGUGGGAUGGUGGUGUUAGUGGGGAGGGGUAGG--GGUUCUCCACCG-CAACAAAUUGAUAUAAUUUGUGUGGAAA-AUACCAUGGCAGCGCGCCAAG
---------((((.((...-..)).))))(((((((....((((((((((.....--..)))))).(((-((.(((((((...))))))))))))...-...))))....)).))))).. ( -35.60)
>DroSec_CAF1 40444 93 + 1
---------UCUCCCCUCG-UCGGUGGGAAUG----------GGGGAGGGCGGU---GG--CUCCAUCG-CAACAAAUUGAUAUAAUUUGUGUGGAAA-AUACCAAGGCAGCGGGCCAAG
---------((((((((..-((.....))..)----------)))))))(((((---(.--...)))))-).((((((((...)))))))).(((...-...))).(((.....)))... ( -33.70)
>DroSim_CAF1 49391 93 + 1
---------UCUCCCCUCG-UAGGUGGGAAUG----------GGGGAGGGCGAU---GG--CUCCACCG-CAACAAAUUGAUAUAAUUUGUGUGGAAA-AUACCAUGGCAGCGGGCCAAG
---------.((((((.((-(........)))----------))))))(((..(---(.--...))(((-(.((((((((...))))))))((((...-...))))....)))))))... ( -32.70)
>DroEre_CAF1 48169 101 + 1
---------UCUCCCCUCU-UCAGCGGGAUUAGGAUG-----GGGGAGGGGGAGGGGGG--CUCCGCCG-CAACAAAUUGAUAUAAUUUGUGUGGAAA-AUACCAUGGCAGCGGGCCAAG
---------((((((((((-((..(........)...-----))))).)))))))..((--(.((((.(-(.((((((((...))))))))((((...-...)))).)).)))))))... ( -40.30)
>DroYak_CAF1 48339 89 + 1
---------UAUCCCCUCG-UCAGCGGGUU-----------------GGGGGCGGGGGG--CUCCACCG-CAACAAAUUGAUAUAAUUUGUGUGGAAA-AUACCUUGGCAGGGGGCCAAG
---------..((((((.(-((((.((...-----------------.(((((.....)--)))).(((-((.(((((((...))))))))))))...-...)))))))))))))..... ( -35.60)
>DroPer_CAF1 38295 104 + 1
GAACGACAUUGUCUUCUCGGCCAGCCUGAAC-------------GGAGAACAGC---GGGCCUGUAGAGCCUACAAAUUGAUAUAAUUUGCUUCUUCCUCAACGCUGGCACGGGGCCAAA
....(((...))).(((((((((((.(((..-------------((((((....---(((((....).)))).(((((((...))))))).)))))).)))..)))))).)))))..... ( -30.60)
>consensus
_________UCUCCCCUCG_UCAGCGGGAAUG__________GGGGAGGGCGAG___GG__CUCCACCG_CAACAAAUUGAUAUAAUUUGUGUGGAAA_AUACCAUGGCAGCGGGCCAAG
.............(((((...........................)))))............(((((.....((((((((...))))))))))))).........((((.....)))).. (-15.99 = -15.63 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 3

Location 6,790,325 – 6,790,431
Length 106
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 69.75
Mean single sequence MFE -30.28
Consensus MFE -13.27
Energy contribution -14.08
Covariance contribution 0.81
Combinations/Pair 1.14
Mean z-score -2.22
Structure conservation index 0.44
SVM decision value 1.74
SVM RNA-class probability 0.975201
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6790325 106 - 20766785
CUUGGCGCGCUGCCAUGGUAU-UUUCCACACAAAUUAUAUCAAUUUGUUG-CGGUGGAGAACC--CCUACCCCUCCCCACUAACACCACCAUCCCACCAA-CGAGGGGAGA---------
..((((.....)))).((..(-((((((((((((((.....)))))))..-..))))))))..--)).....((((((......................-...)))))).--------- ( -29.81)
>DroSec_CAF1 40444 93 - 1
CUUGGCCCGCUGCCUUGGUAU-UUUCCACACAAAUUAUAUCAAUUUGUUG-CGAUGGAG--CC---ACCGCCCUCCCC----------CAUUCCCACCGA-CGAGGGGAGA---------
..(((((((.(((..(((...-...))).(((((((.....))))))).)-)).))).)--))---).....((((((----------...((.....))-...)))))).--------- ( -27.70)
>DroSim_CAF1 49391 93 - 1
CUUGGCCCGCUGCCAUGGUAU-UUUCCACACAAAUUAUAUCAAUUUGUUG-CGGUGGAG--CC---AUCGCCCUCCCC----------CAUUCCCACCUA-CGAGGGGAGA---------
..(((((((((((..(((...-...))).(((((((.....))))))).)-)))))).)--))---).....((((((----------(...........-.).)))))).--------- ( -33.50)
>DroEre_CAF1 48169 101 - 1
CUUGGCCCGCUGCCAUGGUAU-UUUCCACACAAAUUAUAUCAAUUUGUUG-CGGCGGAG--CCCCCCUCCCCCUCCCC-----CAUCCUAAUCCCGCUGA-AGAGGGGAGA---------
...((((((((((..(((...-...))).(((((((.....))))))).)-)))))).)--)).........((((((-----(.((...........))-.).)))))).--------- ( -34.50)
>DroYak_CAF1 48339 89 - 1
CUUGGCCCCCUGCCAAGGUAU-UUUCCACACAAAUUAUAUCAAUUUGUUG-CGGUGGAG--CCCCCCGCCCCC-----------------AACCCGCUGA-CGAGGGGAUA---------
((((((.....))))))....-...............((((..(((((((-((((((.(--(.....))..))-----------------)..)))).))-))))..))))--------- ( -25.70)
>DroPer_CAF1 38295 104 - 1
UUUGGCCCCGUGCCAGCGUUGAGGAAGAAGCAAAUUAUAUCAAUUUGUAGGCUCUACAGGCCC---GCUGUUCUCC-------------GUUCAGGCUGGCCGAGAAGACAAUGUCGUUC
(((((((....(((((((..(((((...(((....((((......))))((((.....)))).---))).))))))-------------)))..))).)))))))..(((...))).... ( -30.50)
>consensus
CUUGGCCCGCUGCCAUGGUAU_UUUCCACACAAAUUAUAUCAAUUUGUUG_CGGUGGAG__CC___CUCCCCCUCCCC__________CAAUCCCACCGA_CGAGGGGAGA_________
..((((.....)))).........((((((((((((.....))))))).....)))))............(((((...........................)))))............. (-13.27 = -14.08 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:48 2006