Locus 4691

Sequence ID 2R_DroMel_CAF1
Location 15,362,553 – 15,362,646
Length 93
Max. P 0.963803
window7552 window7553

overview

Window 2

Location 15,362,553 – 15,362,646
Length 93
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 79.42
Mean single sequence MFE -19.56
Consensus MFE -11.65
Energy contribution -11.40
Covariance contribution -0.25
Combinations/Pair 1.06
Mean z-score -1.55
Structure conservation index 0.60
SVM decision value 0.00
SVM RNA-class probability 0.535763
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15362553 93 + 20766785
-CG----------CUGCUUUGCUUUGCUGCAC--ACCAA--AAAUUUAUGUUUAUUGGCGUUUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCGUUU-UUGU------GUUGC---
-.(----------(......))...((.((((--(((((--((((....)))).))))((((.((((.((((..((....))..))))))))))))...-.)))------)).))--- ( -19.50)
>DroVir_CAF1 217978 100 + 1
-UG-------GGUCUGCUUUGCUUUGCUGCAC--AC-GA--AAAUUUAUGUUUAUUGACGUUUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCUUUUUU-CU----CUGCUGCUCU
-.(-------(((..((........(((((((--(.-..--(((((((...((.(((((....))))).))......)))))))..)))).))))......-..----..)).)))). ( -20.17)
>DroGri_CAF1 190470 95 + 1
-----------CUUGGCUUUGCUUUGCUGCACAUAC-GA--AAAUUUAUGUUUAUUGACGUCUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCUUUUUC-GA----CU----CGCU
-----------...(((..(((......)))....(-((--(((...(((((....)))))((((((.((((..((....))..))))))))))..)))))-).----..----.))) ( -19.10)
>DroMoj_CAF1 230798 91 + 1
-CU-------GGUCUGCUUUGCUUUGCUGCAC--AC-GA--AAAUUUAUGUUUAUUGACGUUUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCUUUUUUUCU--------------
-..-------...............(((((((--(.-..--(((((((...((.(((((....))))).))......)))))))..)))).)))).........-------------- ( -15.50)
>DroAna_CAF1 141409 109 + 1
-CAGU---GUGGUUUGCUUUGCUUUGCUGCAC--ACAAAAAAAAUUUAUGUUUAUUGGCGUUUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCAGUUUUUGUUUAUUUGCUGC---
-..((---(..((..((...))...))..)))--((((...(((((((.((..((((...........))))..)).))))))).))))..((((((...........)))))).--- ( -21.00)
>DroPer_CAF1 155014 103 + 1
UCGGUGACGUAGUUUGCUUUGCUUUGCUGCAC--ACCAA--AAAUUUAUGUUUAUUGGCGUUUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCGUUUUCUGU------UU--C---
..((((..(((((..((...))...))))).)--)))..--...............((((((.((((.((((..((....))..))))))))))))))......------..--.--- ( -22.10)
>consensus
_CG_______GGUCUGCUUUGCUUUGCUGCAC__AC_AA__AAAUUUAUGUUUAUUGACGUUUGUCAACAAUUUAUUUAAAUUUAUUGUGACAGCUUUUUUUGU______G___C___
.........................(((((((.........((((..((.....(((((....)))))..))..)))).........))).))))....................... (-11.65 = -11.40 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,362,553 – 15,362,646
Length 93
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 79.42
Mean single sequence MFE -19.26
Consensus MFE -10.90
Energy contribution -10.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.88
Structure conservation index 0.57
SVM decision value 1.56
SVM RNA-class probability 0.963803
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15362553 93 - 20766785
---GCAAC------ACAA-AAACGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAAACGCCAAUAAACAUAAAUUU--UUGGU--GUGCAGCAAAGCAAAGCAG----------CG-
---.....------....-...((((((.......(((((....)))))((((....(((((((.............--)))))--)).))))........))))----------))- ( -19.32)
>DroVir_CAF1 217978 100 - 1
AGAGCAGCAG----AG-AAAAAAGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAAACGUCAAUAAACAUAAAUUU--UC-GU--GUGCAGCAAAGCAAAGCAGACC-------CA-
..........----..-......((((.((((..(((((((......((((((((....))))))))...)))))))--..-.)--)))))))...............-------..- ( -21.10)
>DroGri_CAF1 190470 95 - 1
AGCG----AG----UC-GAAAAAGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAGACGUCAAUAAACAUAAAUUU--UC-GUAUGUGCAGCAAAGCAAAGCCAAG-----------
....----..----..-......((((.((((..(((((((......((((((((....))))))))...)))))))--..-...))))))))..............----------- ( -18.60)
>DroMoj_CAF1 230798 91 - 1
--------------AGAAAAAAAGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAAACGUCAAUAAACAUAAAUUU--UC-GU--GUGCAGCAAAGCAAAGCAGACC-------AG-
--------------.........((((.((((..(((((((......((((((((....))))))))...)))))))--..-.)--)))))))...............-------..- ( -21.10)
>DroAna_CAF1 141409 109 - 1
---GCAGCAAAUAAACAAAAACUGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAAACGCCAAUAAACAUAAAUUUUUUUUGU--GUGCAGCAAAGCAAAGCAAACCAC---ACUG-
---.(((...............(((((((((((.(((((((......((((((........))))))...)))))))...))))--).))))))..((...)).......---.)))- ( -18.10)
>DroPer_CAF1 155014 103 - 1
---G--AA------ACAGAAAACGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAAACGCCAAUAAACAUAAAUUU--UUGGU--GUGCAGCAAAGCAAAGCAAACUACGUCACCGA
---(--(.------..((.....(((((..((((((.((.....)).))))))....(((((((.............--)))))--)))))))...((...))...))...))..... ( -17.32)
>consensus
___G___C______ACAAAAAAAGCUGUCACAAUAAAUUUAAAUAAAUUGUUGACAAACGCCAAUAAACAUAAAUUU__UC_GU__GUGCAGCAAAGCAAAGCAAACC_______CG_
.......................((((.(((...(((((((......((((((........))))))...))))))).........)))))))......................... (-10.90 = -10.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:58 2006