Locus 5128

Sequence ID 2R_DroMel_CAF1
Location 16,691,070 – 16,691,189
Length 119
Max. P 0.998912
window8199 window8200

overview

Window 9

Location 16,691,070 – 16,691,189
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.66
Mean single sequence MFE -27.88
Consensus MFE -26.52
Energy contribution -26.68
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -2.08
Structure conservation index 0.95
SVM decision value 3.28
SVM RNA-class probability 0.998912
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16691070 119 + 20766785
GAAAGCCCCCAAAUAGAAAUAAAAUCGCUGCACCUUGACAGACGUGUCUGUGUGCAUCGCGAUUUCUAAUCACUCGCAAGACUUUCUUCCACAAA-AAGUGAGCAGAAAAGAGCCCACAA
(((((..........((....((((((((((((....(((((....))))))))))..)))))))....))..((....))))))).........-..(((.((........)).))).. ( -29.90)
>DroSec_CAF1 12314 120 + 1
GAAAGCCCCCAAACAGAAAUAAAAUCGCUGCACCUGCACAGACGUGUCUGUGUGCAUCGCGAUUUCUAAUCACUCGCAAGACUUUCUUCCACAAAAAAGUGAGCAGAAAAGAGCCCACAA
(((((..........((....((((((((((....(((((((....))))))))))..)))))))....))..((....)))))))............(((.((........)).))).. ( -30.20)
>DroSim_CAF1 12313 120 + 1
GAAAGCCCCCAAACAGAAAUAAAAUCGCUGCACCUGCACAGACGUGUCUGUGUGCAUCGCGAUUUCUAAUCACUCGCAAGACUUUCUUCCACAAAAAAGUGAGCAGAAAAGAGCCCACAA
(((((..........((....((((((((((....(((((((....))))))))))..)))))))....))..((....)))))))............(((.((........)).))).. ( -30.20)
>DroEre_CAF1 12693 119 + 1
GAAAGCCCCCAAAUAGAAAUAAAAUUGCUGCACCUGCACAGACGUGUCUGUGUGCAUCGCGAUUUCUAAUCACUCUCAAGACUUUCUUCCACAAA-AAGUGACCAGAAAAGAGCCCACAA
.............(((((((.....(((.((((..((((....))))..))))))).....)))))))....((((......(((((..(((...-..)))...)))))))))....... ( -23.60)
>DroYak_CAF1 12706 119 + 1
GAAAGCCUCCAAAUAGAAAUAAAAUUGCUGCACCUGCACAGACGUGUCUGUGUGCAUCGCGAUUUCUAAUCACUCGCAAGACUUUCUUCCACAAA-AAGUGACCAGAAAAGAGCCCACAA
(((((........(((((((.....(((.((((..((((....))))..))))))).....))))))).....((....)))))))...(((...-..)))................... ( -25.50)
>consensus
GAAAGCCCCCAAAUAGAAAUAAAAUCGCUGCACCUGCACAGACGUGUCUGUGUGCAUCGCGAUUUCUAAUCACUCGCAAGACUUUCUUCCACAAA_AAGUGAGCAGAAAAGAGCCCACAA
(((((..........((....((((((((((((....(((((....))))))))))..)))))))....))..((....)))))))............(((.((........)).))).. (-26.52 = -26.68 +   0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,691,070 – 16,691,189
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.66
Mean single sequence MFE -38.40
Consensus MFE -35.40
Energy contribution -36.00
Covariance contribution 0.60
Combinations/Pair 1.05
Mean z-score -2.15
Structure conservation index 0.92
SVM decision value 3.07
SVM RNA-class probability 0.998327
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16691070 119 - 20766785
UUGUGGGCUCUUUUCUGCUCACUU-UUUGUGGAAGAAAGUCUUGCGAGUGAUUAGAAAUCGCGAUGCACACAGACACGUCUGUCAAGGUGCAGCGAUUUUAUUUCUAUUUGGGGGCUUUC
..((((((........))))))..-.........(((((((((.(((((((...((((((((..((((((((((....)))))....)))))))))))))...)).)))))))))))))) ( -41.90)
>DroSec_CAF1 12314 120 - 1
UUGUGGGCUCUUUUCUGCUCACUUUUUUGUGGAAGAAAGUCUUGCGAGUGAUUAGAAAUCGCGAUGCACACAGACACGUCUGUGCAGGUGCAGCGAUUUUAUUUCUGUUUGGGGGCUUUC
..((((((........))))))............(((((((((.(((..((...((((((((..((((((((((....)))))....)))))))))))))...))...)))))))))))) ( -39.30)
>DroSim_CAF1 12313 120 - 1
UUGUGGGCUCUUUUCUGCUCACUUUUUUGUGGAAGAAAGUCUUGCGAGUGAUUAGAAAUCGCGAUGCACACAGACACGUCUGUGCAGGUGCAGCGAUUUUAUUUCUGUUUGGGGGCUUUC
..((((((........))))))............(((((((((.(((..((...((((((((..((((((((((....)))))....)))))))))))))...))...)))))))))))) ( -39.30)
>DroEre_CAF1 12693 119 - 1
UUGUGGGCUCUUUUCUGGUCACUU-UUUGUGGAAGAAAGUCUUGAGAGUGAUUAGAAAUCGCGAUGCACACAGACACGUCUGUGCAGGUGCAGCAAUUUUAUUUCUAUUUGGGGGCUUUC
....((((((((((((((((((((-((...(((......))).)))))))))))))))..((..((((((((((....)))))....))))))).................))))))).. ( -37.60)
>DroYak_CAF1 12706 119 - 1
UUGUGGGCUCUUUUCUGGUCACUU-UUUGUGGAAGAAAGUCUUGCGAGUGAUUAGAAAUCGCGAUGCACACAGACACGUCUGUGCAGGUGCAGCAAUUUUAUUUCUAUUUGGAGGCUUUC
....((.(((((((((((((((((-.....(.(((.....))).))))))))))))))..((..((((((((((....)))))....)))))))................)))).))... ( -33.90)
>consensus
UUGUGGGCUCUUUUCUGCUCACUU_UUUGUGGAAGAAAGUCUUGCGAGUGAUUAGAAAUCGCGAUGCACACAGACACGUCUGUGCAGGUGCAGCGAUUUUAUUUCUAUUUGGGGGCUUUC
..((((((........))))))............(((((((((.(((((((...((((((((..((((((((((....)))))....)))))))))))))...)).)))))))))))))) (-35.40 = -36.00 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:15 2006