Locus 8263

Sequence ID 3R_DroMel_CAF1
Location 22,117,534 – 22,117,627
Length 93
Max. P 0.842315
window13324 window13325

overview

Window 4

Location 22,117,534 – 22,117,627
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 78.25
Mean single sequence MFE -23.15
Consensus MFE -10.72
Energy contribution -12.12
Covariance contribution 1.39
Combinations/Pair 1.38
Mean z-score -2.08
Structure conservation index 0.46
SVM decision value 0.07
SVM RNA-class probability 0.569648
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22117534 93 + 27905053
GCAUGUGUGCGA--GUGUGGGUGCCAGGGUGUGCGUGUGUUUUCGCAUUUGUAAUUGUAUUUGUGUAUUUGAUUGUCAUCAGUUUAAUACUCACA
(((....(((((--(((((((.((((.(.....).)).)).))))))))))))..)))...((.(((((.(((((....))))).))))).)).. ( -25.30)
>DroPse_CAF1 72670 92 + 1
CCAUGUGUGCAUCUUUGUGGAUGUUU-UGUGUG--UGUGUUUUCGCAUUUGUAAUUGUAUUUGUGUAUUUGAUUGUCAUCAGCUUAAUACACACA
........((((((....))))))..-..((((--((((((...((...(((((((((((....))))..))))).))...))..)))))))))) ( -20.80)
>DroGri_CAF1 50919 93 + 1
CUGGGCGUACAUCAGAGUUAGUGU--AUGUGUAUGUGUGUGUCCACAUUUGUAAUUGUAUUUGUGUAUUUGAUUGUCAUCAGUUUGAUACACACA
.((.((((((((........))))--)))).))((((((((((((((..((......))..)))).....(((((....))))).)))))))))) ( -26.00)
>DroYak_CAF1 40022 93 + 1
GCAUGUGUGCGA--GUGUGGGUGCCGGGGUGUGCGUGUGUUUUCGCAUCUGUAAUUGUAUUUGUGUAUUUGAUUGUCAUCAGUUUAAUACUCACA
(((...((((((--.((..(((((..(((..(....)..)))..)))))..)).)))))).)))(((((.(((((....))))).)))))..... ( -24.60)
>DroMoj_CAF1 112448 79 + 1
CUGGGUGU--------------GU--GUGUGUGUGCGUAUGUCCACAUUUGUAAUUGUGUUUGUGUAUUUGAUUGUCAUCUGUUUGAUACACACA
..(((..(--------------((--((......)))))..)))((((........)))).((((((((.(((........))).)))))))).. ( -17.00)
>DroPer_CAF1 74615 94 + 1
CCAUGUGUGCAUCUUUGUGGAUGUUU-UGUGUGUGUGUGUUUUCGCUUUUGUAAUUGUAUUUGUGUAUUUGAUUGUCAUCAGCUUAAUACACACA
.((((...((((((....))))))..-))))((((((((((...(((..(((((((((((....))))..))))).))..)))..)))))))))) ( -25.20)
>consensus
CCAUGUGUGCAU__GUGUGGGUGU__GUGUGUGUGUGUGUUUUCGCAUUUGUAAUUGUAUUUGUGUAUUUGAUUGUCAUCAGUUUAAUACACACA
......(((((....((..(((((..(((..(....)..)))..)))))..))..))))).((((((((.(((((....))))).)))))))).. (-10.72 = -12.12 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 5

Location 22,117,534 – 22,117,627
Length 93
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 78.25
Mean single sequence MFE -13.93
Consensus MFE -6.53
Energy contribution -7.67
Covariance contribution 1.14
Combinations/Pair 1.12
Mean z-score -2.40
Structure conservation index 0.47
SVM decision value 0.76
SVM RNA-class probability 0.842315
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22117534 93 - 27905053
UGUGAGUAUUAAACUGAUGACAAUCAAAUACACAAAUACAAUUACAAAUGCGAAAACACACGCACACCCUGGCACCCACAC--UCGCACACAUGC
(((((((.......((((....))))......................((((........))))...............))--)))))....... ( -14.10)
>DroPse_CAF1 72670 92 - 1
UGUGUGUAUUAAGCUGAUGACAAUCAAAUACACAAAUACAAUUACAAAUGCGAAAACACA--CACACA-AAACAUCCACAAAGAUGCACACAUGG
((((((((((....((((....))))......................((.(......).--))....-.............))))))))))... ( -12.90)
>DroGri_CAF1 50919 93 - 1
UGUGUGUAUCAAACUGAUGACAAUCAAAUACACAAAUACAAUUACAAAUGUGGACACACACAUACACAU--ACACUAACUCUGAUGUACGCCCAG
.((((((((((...((((....)))).....................(((((......)))))......--..........)))))))))).... ( -15.80)
>DroYak_CAF1 40022 93 - 1
UGUGAGUAUUAAACUGAUGACAAUCAAAUACACAAAUACAAUUACAGAUGCGAAAACACACGCACACCCCGGCACCCACAC--UCGCACACAUGC
(((((((.......((((....))))......................((((........))))...............))--)))))....... ( -14.10)
>DroMoj_CAF1 112448 79 - 1
UGUGUGUAUCAAACAGAUGACAAUCAAAUACACAAACACAAUUACAAAUGUGGACAUACGCACACACAC--AC--------------ACACCCAG
(((((((((......(((....)))...........((((........))))...))))))))).....--..--------------........ ( -14.30)
>DroPer_CAF1 74615 94 - 1
UGUGUGUAUUAAGCUGAUGACAAUCAAAUACACAAAUACAAUUACAAAAGCGAAAACACACACACACA-AAACAUCCACAAAGAUGCACACAUGG
((((((((((....((((....)))).......................(.(......).).......-.............))))))))))... ( -12.40)
>consensus
UGUGUGUAUUAAACUGAUGACAAUCAAAUACACAAAUACAAUUACAAAUGCGAAAACACACACACACAC__ACACCCACAC__AUGCACACAUGG
..((((((((....((((....))))))))))))..............((((........))))............................... ( -6.53 =  -7.67 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:13 2006