Locus 5785

Sequence ID X_DroMel_CAF1
Location 15,015,672 – 15,015,807
Length 135
Max. P 0.678686
window9388 window9389

overview

Window 8

Location 15,015,672 – 15,015,780
Length 108
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 77.83
Mean single sequence MFE -33.08
Consensus MFE -14.14
Energy contribution -16.50
Covariance contribution 2.36
Combinations/Pair 1.19
Mean z-score -1.87
Structure conservation index 0.43
SVM decision value -0.01
SVM RNA-class probability 0.526187
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15015672 108 + 22224390
AAAUUAACUGUCAUUCCUGGGGCCAACUGUACAUAGACAGUAUGUUCUUUUAUCCGGGACUCCUUAGCCA--UUUGG-CU-GAGCUAAUUGGUUACGCCUCGUGUGGCGCUU
....(((((.....(((((((..(((((((......))))).))..)......))))))...(((((((.--...))-))-)))......)))))((((......))))... ( -32.00)
>DroPse_CAF1 40243 91 + 1
--GACGACUAUCAUUCCUGGGUCCGACUGUACUUGCCACUUGUGCUCUU----CCACGACU----GGCCUUUCCUGGUCUGGGGCUAAUU-----------GUGUGGCGUCU
--((((.(((.(((...(((.(((((((......((((.(((((.....----.))))).)----))).......)))).))).)))...-----------)))))))))). ( -29.72)
>DroSec_CAF1 33267 108 + 1
AAAUGAAUUGUCAUUCCUGGGGCCAACUGUACACAGACAGUAUGUUCUUUUAUCCAGGACUCCUUAGCCA--UUUGG-CU-GAGCUAAUUGGUUACGCCUCGUGUGACGCUU
.........(((((...((((((..(((((......)))))............((((.....(((((((.--...))-))-)))....))))....)))))).))))).... ( -32.50)
>DroEre_CAF1 34255 107 + 1
AAAUGAACUGUCAUUCCUGGGGCCAACUGUACCCGG-CAGUAUGUUCUUUUAUCCAGGACUUCUUAGCCA--UUUGG-CU-GAGCUAAUUGGUUACGCCUCGUGUGGCGCUU
.........(((((...((((((..(((((.....)-))))............((((.....(((((((.--...))-))-)))....))))....)))))).))))).... ( -32.00)
>DroYak_CAF1 34268 108 + 1
AAAUGAACUGUCAUUGGUGGGGCCAACUGUACCCGGACAGUAUGUUCUUUUAUCCGGGAAUCCUUAGCCA--UUUGG-CU-GAGCUAAUUGGUUACGCCUCGUGUGGCGCUU
.........(((((.((((..(((((.....((((((.((.........)).))))))....(((((((.--...))-))-)))....)))))..))))....))))).... ( -39.20)
>consensus
AAAUGAACUGUCAUUCCUGGGGCCAACUGUACACGGACAGUAUGUUCUUUUAUCCAGGACUCCUUAGCCA__UUUGG_CU_GAGCUAAUUGGUUACGCCUCGUGUGGCGCUU
.........(((((...((((((..(((((......)))))............((((..(((...((((......)).)).)))....))))....)))))).))))).... (-14.14 = -16.50 +   2.36)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,015,712 – 15,015,807
Length 95
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 82.30
Mean single sequence MFE -26.46
Consensus MFE -17.22
Energy contribution -18.42
Covariance contribution 1.20
Combinations/Pair 1.14
Mean z-score -1.86
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.678686
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15015712 95 - 22224390
UGUGGGACAUCGCCGUCUAAGCUGAUUAAGCGCCACACGAGGCGUAACCAAUUAGCUC-AG-CCAAA--UGGCUAAGGAGUCCCGGAUAAAAGAACAUA
..((((((....((.....((((((((..(((((......)))))....)))))))).-((-((...--.))))..)).)))))).............. ( -32.10)
>DroSec_CAF1 33307 95 - 1
UGUGGGACAUCGCCGUCUAAGCUGAUUAAGCGUCACACGAGGCGUAACCAAUUAGCUC-AG-CCAAA--UGGCUAAGGAGUCCUGGAUAAAAGAACAUA
...(((((....((.....((((((((..(((((......)))))....)))))))).-((-((...--.))))..)).)))))............... ( -26.70)
>DroEre_CAF1 34294 95 - 1
UGUGGGACAUCGCCGUCUAAGCUGAUUAAGCGCCACACGAGGCGUAACCAAUUAGCUC-AG-CCAAA--UGGCUAAGAAGUCCUGGAUAAAAGAACAUA
...(((((.((........((((((((..(((((......)))))....)))))))).-((-((...--.))))..)).)))))............... ( -29.60)
>DroYak_CAF1 34308 95 - 1
UGUGGGACAUCGCCGUCUAAGCUGAUUAAGCGCCACACGAGGCGUAACCAAUUAGCUC-AG-CCAAA--UGGCUAAGGAUUCCCGGAUAAAAGAACAUA
..(((((.(((........((((((((..(((((......)))))....)))))))).-((-((...--.))))...)))))))).............. ( -29.20)
>DroPer_CAF1 40875 82 - 1
UGGACGACAUCGCUGUCUAAGCUGAUUAGACGCCACAC-----------AAUUAGCCCCAGACCAGGAAAGGCC----AGCCGAGC--ACAAGAGCACA
.((.(......((.((((((.....)))))))).....-----------.....(((((......))...))).----.)))..((--......))... ( -14.70)
>consensus
UGUGGGACAUCGCCGUCUAAGCUGAUUAAGCGCCACACGAGGCGUAACCAAUUAGCUC_AG_CCAAA__UGGCUAAGGAGUCCCGGAUAAAAGAACAUA
...(((((............(((((((..(((((......)))))....)))))))...((.((......)))).....)))))............... (-17.22 = -18.42 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:21 2006