Locus 4937

Sequence ID 3R_DroMel_CAF1
Location 12,986,354 – 12,986,482
Length 128
Max. P 0.643519
window8079 window8080

overview

Window 9

Location 12,986,354 – 12,986,465
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.91
Mean single sequence MFE -20.87
Consensus MFE -11.63
Energy contribution -11.63
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.56
SVM decision value 0.20
SVM RNA-class probability 0.629528
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12986354 111 - 27905053
---ACACAUACUCACAAUUCAUUUU-GAAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGAAGGCA----AAGUCUGCGUAUGCCACCACCAAACAACAAC
---...(((((....((((((((..-...))))))))..((((((((...))))-.((((((........)))))).)))).(((----.....)))))))).................. ( -17.70)
>DroPse_CAF1 14392 102 - 1
---ACACACACCCACAAUUCAUUUU-CAAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGAAGGCA----GCGCCGGGGCACG---------AAUAAAAAC
---.......(((((((((((((..-...)))))).))))..((((((.....(-(((((((........))))).)))...)))----)))..))).....---------......... ( -24.40)
>DroWil_CAF1 7599 100 - 1
CACACACAUAUACACAAUUCAUUUUCCAAAAUGAAUUUGUUCCGCUGUAACGGCCCAUAAAUGCAUUUAAAUUUAUUGGAAUGCG----AG----------------ACCAAAAAAAAAA
...............(((((((((....))))))))).((..(((........((.((((((........)))))).))...)))----..----------------))........... ( -14.70)
>DroMoj_CAF1 5761 99 - 1
---AA--ACAUGCACAAUUCAUUUU-CGAAAUGAAUUUGUUCCGCUGUAAGGGC-CAUAAAUGCAUUUAAAUUUAUUGGAAUGCA----CGACAGCAGCAG----------UAUAAGAAG
---..--((.(((((((((((((..-...)))))).))))...(((((..(..(-(((((((........))))).)))..)...----..))))).))))----------)........ ( -20.40)
>DroAna_CAF1 6777 105 - 1
---ACACAUACUCACAAUUCAUUUU-CGAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGAAGGCAGCCUGAGUCUGCGUAAAC----------CAACAAC
---((.((.(((((.((((((((..-...))))))))......(((((.....(-(((((((........))))).)))...))))).))))).)).))....----------....... ( -23.60)
>DroPer_CAF1 80323 102 - 1
---GCACACACCCACAAUUCAUUUU-CAAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGAAGGCA----GCGCCGGGGCACG---------AAUAAAAAC
---.......(((((((((((((..-...)))))).))))..((((((.....(-(((((((........))))).)))...)))----)))..))).....---------......... ( -24.40)
>consensus
___ACACACACCCACAAUUCAUUUU_CAAAAUGAAUUUGUUCCGCUGUAACGGC_CAUAAAUGCAUUUAAAUUUAUUGGAAGGCA____GAGCCGGCGCACG_________AAUAAAAAC
............((.(((((((((....)))))))))))(((((((.....)))..((((((........)))))).))))....................................... (-11.63 = -11.63 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,986,390 – 12,986,482
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.24
Mean single sequence MFE -14.79
Consensus MFE -10.13
Energy contribution -10.13
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.07
Structure conservation index 0.69
SVM decision value 0.23
SVM RNA-class probability 0.643519
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12986390 92 - 27905053
--------AGCAUGCAGAAGG--------------AAAA----ACACAUACUCACAAUUCAUUUU-GAAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGA
--------....(((((..((--------------((..----.........((.((((((((..-...)))))))))))))).)))))....(-(((((((........))))).))). ( -15.00)
>DroVir_CAF1 6614 96 - 1
--------CAUGUGGAUAAAA--AAAUAAA-----AAUA----AA--ACAUACACAAUUCAUUUU-CCAAAUGAAUUUGUUCCGCUGUAAGGGC-CAUAAAUGCAU-UAAAUUUAUUGGA
--------...(((((.....--.......-----....----..--....(((.((((((((..-...))))))))))))))))........(-(((((((....-...))))).))). ( -13.24)
>DroPse_CAF1 14419 106 - 1
--------AACAUCCCGAAAAAAAACCAGGCCCCGCACC----ACACACACCCACAAUUCAUUUU-CAAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGA
--------.................(((((((..(((.(----....(((.....((((((((..-...)))))))))))...).)))...)))-)((((((........))))))))). ( -16.30)
>DroWil_CAF1 7619 106 - 1
CUAUGAGAAAGAUGAAAAAAA--------------AAAAACACACACAUAUACACAAUUCAUUUUCCAAAAUGAAUUUGUUCCGCUGUAACGGCCCAUAAAUGCAUUUAAAUUUAUUGGA
.....................--------------................(((.(((((((((....)))))))))))).(((......)))((.((((((........)))))).)). ( -12.70)
>DroMoj_CAF1 5787 88 - 1
--------UACGUGAAUAAAA--AA------------------AA--ACAUGCACAAUUCAUUUU-CGAAAUGAAUUUGUUCCGCUGUAAGGGC-CAUAAAUGCAUUUAAAUUUAUUGGA
--------....(.((((((.--..------------------..--..(((((.((((((((..-...))))))))((..((.......))..-))....))))).....)))))).). ( -12.80)
>DroPer_CAF1 80350 104 - 1
--------AACAUCCCGAAAA-AAACCAGGCCCC-CACC----GCACACACCCACAAUUCAUUUU-CAAAAUGAAUUUGUUCCGCUGUAACGGC-CAUAAAUGCAUUUAAAUUUAUUGGA
--------.............-...(((((((..-.((.----((..(((.....((((((((..-...)))))))))))...)).))...)))-)((((((........))))))))). ( -18.70)
>consensus
________AACAUGCAGAAAA__AA__________AAAA____ACACACACACACAAUUCAUUUU_CAAAAUGAAUUUGUUCCGCUGUAACGGC_CAUAAAUGCAUUUAAAUUUAUUGGA
.....................................................(((((((((((....))))))).))))((((((.....)))..((((((........)))))).))) (-10.13 = -10.13 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:29 2006