Locus 596

Sequence ID 3L_DroMel_CAF1
Location 1,713,577 – 1,713,682
Length 105
Max. P 0.997137
window906 window907

overview

Window 6

Location 1,713,577 – 1,713,682
Length 105
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 71.34
Mean single sequence MFE -33.23
Consensus MFE -19.56
Energy contribution -21.96
Covariance contribution 2.40
Combinations/Pair 1.19
Mean z-score -1.78
Structure conservation index 0.59
SVM decision value 1.05
SVM RNA-class probability 0.907458
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1713577 105 + 23771897
--------CUGUGACAGCUGGAAGCUUCAGCAGCAAUCUGGAAACUGGAAAGAAUCCACAAGAUGCGGGUUUCCAGGGAGCGAGGUGCUGGUCGCAGGGGGUCGAUGAAAGAG
--------((((((((((.....))).(((((((..((((((((((.(.....(((.....))).).))))))))))..))....))))))))))))................ ( -37.10)
>DroSec_CAF1 13688 95 + 1
--------CUCUGACAGCUGGAAGCUUCCGCAGCAAUCUGGAAACUGGAAAGAAUCCACAAGAUACGGGUUUCCAGGGGACGAGGUGGUG----------GUCGAUGAAAGAG
--------((((..((..(((..(((.((...(...(((((((((((((.....))).(.......)))))))))))...)..)).))).----------.))).))..)))) ( -26.00)
>DroEre_CAF1 14192 102 + 1
--------CUCUGACAGCUGGAAGCUUCCGCAGCA-UCUGAAAACUGGAAAGAAUCCAGAAGAUGCGGGCUUCCAGGGAGGGAGGUGGUG--UGCAGGAGGUCGAUAAAAGAG
--------((((...........((((((((((((-(((.....(((((.....))))).))))))..((((((......))))))....--))).)))))).......)))) ( -33.57)
>DroYak_CAF1 13844 111 + 1
UGUUUCUACUCUGACAGCUGGAAGCUUCCGCAGCAAUCUGGAAACUGGAAAGAAUCCAGAAGAUGCGGGCUUCCAGGAAGAGAGGUAGGG--CGCAGGGGGUCGAUGAAAGAG
((((((((((((.....((((((((..(((((....((((((..((....))..))))))...)))))))))))))....))).))))))--.)))................. ( -39.70)
>DroAna_CAF1 13422 103 + 1
UGUAGAUACGAGGGCAGCUGGAAGCUUCCGUCGUG-UCUGAUGAUGAAAAUAAAUGCUGACGAUGCGGGU-GCCAGGGGUAUACUU-UUAUUC-------CCCAGUGAAAGAG
..(((((((((.((.(((.....))).)).)))))-))))..........((..(((.......)))..)-)...((((.(((...-.))).)-------))).......... ( -29.80)
>consensus
________CUCUGACAGCUGGAAGCUUCCGCAGCAAUCUGGAAACUGGAAAGAAUCCAGAAGAUGCGGGUUUCCAGGGAGAGAGGUGGUG__CGCAGG_GGUCGAUGAAAGAG
.................((((((((..(((((....((((((..((....))..))))))...)))))))))))))..................................... (-19.56 = -21.96 +   2.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,713,577 – 1,713,682
Length 105
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 71.34
Mean single sequence MFE -28.06
Consensus MFE -14.06
Energy contribution -15.50
Covariance contribution 1.44
Combinations/Pair 1.17
Mean z-score -2.49
Structure conservation index 0.50
SVM decision value 2.80
SVM RNA-class probability 0.997137
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1713577 105 - 23771897
CUCUUUCAUCGACCCCCUGCGACCAGCACCUCGCUCCCUGGAAACCCGCAUCUUGUGGAUUCUUUCCAGUUUCCAGAUUGCUGCUGAAGCUUCCAGCUGUCACAG--------
................(((.((((((((....((...((((((((((((.....))))..........))))))))...))))))).(((.....)))))).)))-------- ( -29.30)
>DroSec_CAF1 13688 95 - 1
CUCUUUCAUCGAC----------CACCACCUCGUCCCCUGGAAACCCGUAUCUUGUGGAUUCUUUCCAGUUUCCAGAUUGCUGCGGAAGCUUCCAGCUGUCAGAG--------
((((..((..(((----------.........)))..((((((..(((((.(.(.((((..((....))..)))).)..).)))))....)))))).))..))))-------- ( -22.10)
>DroEre_CAF1 14192 102 - 1
CUCUUUUAUCGACCUCCUGCA--CACCACCUCCCUCCCUGGAAGCCCGCAUCUUCUGGAUUCUUUCCAGUUUUCAGA-UGCUGCGGAAGCUUCCAGCUGUCAGAG--------
................(((.(--((............(((((((((((((.(.((((((..((....))..))))))-.).)))))..)))))))).))))))..-------- ( -30.52)
>DroYak_CAF1 13844 111 - 1
CUCUUUCAUCGACCCCCUGCG--CCCUACCUCUCUUCCUGGAAGCCCGCAUCUUCUGGAUUCUUUCCAGUUUCCAGAUUGCUGCGGAAGCUUCCAGCUGUCAGAGUAGAAACA
.....................--..((((.(((....(((((((((((((.(.((((((..((....))..))))))..).)))))..)))))))).....)))))))..... ( -36.70)
>DroAna_CAF1 13422 103 - 1
CUCUUUCACUGGG-------GAAUAA-AAGUAUACCCCUGGC-ACCCGCAUCGUCAGCAUUUAUUUUCAUCAUCAGA-CACGACGGAAGCUUCCAGCUGCCCUCGUAUCUACA
..........(((-------(.(((.-...))).))))((((-.........))))..................(((-.((((.((.(((.....))).)).)))).)))... ( -21.70)
>consensus
CUCUUUCAUCGACC_CCUGCG__CACCACCUCGCUCCCUGGAAACCCGCAUCUUCUGGAUUCUUUCCAGUUUCCAGAUUGCUGCGGAAGCUUCCAGCUGUCAGAG________
.....................................((((((..(((((...((((((..(......)..))))))....)))))....))))))................. (-14.06 = -15.50 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:10 2006