Locus 7035

Sequence ID 2L_DroMel_CAF1
Location 19,643,595 – 19,643,699
Length 104
Max. P 0.703307
window11224 window11225

overview

Window 4

Location 19,643,595 – 19,643,699
Length 104
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 80.76
Mean single sequence MFE -25.98
Consensus MFE -18.51
Energy contribution -19.22
Covariance contribution 0.71
Combinations/Pair 1.07
Mean z-score -1.21
Structure conservation index 0.71
SVM decision value 0.02
SVM RNA-class probability 0.545127
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19643595 104 + 22407834
UUU-------UUUUUGGCAAGAUAUUGCUCGACAGAUGAGGAGACAGAGUCACGUUACUUGCAGGUGUUGCAAGUGUUGCAGGUGUUGCAGGUGCAAUCUAUCCAAAAAAA
.((-------(((((((..((((..(((......(((..(....)...))).....((((((((...(((((.....)))))...)))))))))))))))..))))))))) ( -28.50)
>DroSec_CAF1 86785 99 + 1
UU----------UUUGGCAAGAUAUUGCUCGACAGGUGAGGAGACAGAGUCACGUUACUUGCAGGUGUUGCAAGUGUUGCAGGUGUUGCAGGUGCAAUCUAUCCAAA--AA
.(----------(((((..((((...((..(.(((((((.(.(((...))).).))))))))..))..((((..(((.((....)).)))..))))))))..)))))--). ( -28.90)
>DroSim_CAF1 64900 99 + 1
UU----------UUUGGCAAGAUAUUGCUCGACAGGUGAGGAGACAGAGUCACGUUACUUGCAGGUGUUGCAAGUGUUGCAGGUGUUGCAGGUGCAAUCUAUCCAAA--AA
.(----------(((((..((((...((..(.(((((((.(.(((...))).).))))))))..))..((((..(((.((....)).)))..))))))))..)))))--). ( -28.90)
>DroEre_CAF1 62870 80 + 1
U-----------UUUGGCAAGAUAUUGCUCGACAGGUGAGGAGACAGAGUCACGUUACUUGCAGG------------------UGUUGCAGGUGCAAUCUAUCCAAA--AA
(-----------(((((..((((...((..(.(((((((.(.(((...))).).))))))))..)------------------)..(((....)))))))..)))))--). ( -22.00)
>DroYak_CAF1 62527 80 + 1
U-----------UUUGGCAAGAUAUUGCUCGACAGGUGAGGAGACAGAGUCACGUUACUUGCAGG------------------UGUUGCAGGUGCAAUCUAUCCAAA--AA
(-----------(((((..((((...((..(.(((((((.(.(((...))).).))))))))..)------------------)..(((....)))))))..)))))--). ( -22.00)
>DroAna_CAF1 64256 91 + 1
UCAGCUACAGCUUCAGUCAAGAUAUUGCUCGGCAGGUGAGGAGACAGAGUCACGUUACUUGCAGG------------------UGUUGCAGGUGCAAUCUAUCCAGG--GC
..(((....)))..............((((.((((((((.(.(((...))).).)))))))).((------------------.(((((....)))))....)).))--)) ( -25.60)
>consensus
UU__________UUUGGCAAGAUAUUGCUCGACAGGUGAGGAGACAGAGUCACGUUACUUGCAGG__________________UGUUGCAGGUGCAAUCUAUCCAAA__AA
............(((((..((((..(((.......(((((....)....))))...((((((((...(((((.....)))))...)))))))))))))))..))))).... (-18.51 = -19.22 +   0.71)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,643,595 – 19,643,699
Length 104
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 80.76
Mean single sequence MFE -21.62
Consensus MFE -12.98
Energy contribution -13.70
Covariance contribution 0.72
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.60
SVM decision value 0.36
SVM RNA-class probability 0.703307
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19643595 104 - 22407834
UUUUUUUGGAUAGAUUGCACCUGCAACACCUGCAACACUUGCAACACCUGCAAGUAACGUGACUCUGUCUCCUCAUCUGUCGAGCAAUAUCUUGCCAAAAA-------AAA
((((((((((((((...(((.((((.....))))..(((((((.....)))))))...)))..))))))..............((((....))))))))))-------)). ( -27.40)
>DroSec_CAF1 86785 99 - 1
UU--UUUGGAUAGAUUGCACCUGCAACACCUGCAACACUUGCAACACCUGCAAGUAACGUGACUCUGUCUCCUCACCUGUCGAGCAAUAUCUUGCCAAA----------AA
.(--((((((((((...(((.((((.....))))..(((((((.....)))))))...)))..))))))..............((((....))))))))----------). ( -24.90)
>DroSim_CAF1 64900 99 - 1
UU--UUUGGAUAGAUUGCACCUGCAACACCUGCAACACUUGCAACACCUGCAAGUAACGUGACUCUGUCUCCUCACCUGUCGAGCAAUAUCUUGCCAAA----------AA
.(--((((((((((...(((.((((.....))))..(((((((.....)))))))...)))..))))))..............((((....))))))))----------). ( -24.90)
>DroEre_CAF1 62870 80 - 1
UU--UUUGGAUAGAUUGCACCUGCAACA------------------CCUGCAAGUAACGUGACUCUGUCUCCUCACCUGUCGAGCAAUAUCUUGCCAAA-----------A
.(--(((((..(((((((((.((((...------------------..)))).))....((((..((......))...)))).)))..))))..)))))-----------) ( -17.20)
>DroYak_CAF1 62527 80 - 1
UU--UUUGGAUAGAUUGCACCUGCAACA------------------CCUGCAAGUAACGUGACUCUGUCUCCUCACCUGUCGAGCAAUAUCUUGCCAAA-----------A
.(--(((((..(((((((((.((((...------------------..)))).))....((((..((......))...)))).)))..))))..)))))-----------) ( -17.20)
>DroAna_CAF1 64256 91 - 1
GC--CCUGGAUAGAUUGCACCUGCAACA------------------CCUGCAAGUAACGUGACUCUGUCUCCUCACCUGCCGAGCAAUAUCUUGACUGAAGCUGUAGCUGA
..--...((((((((..(((.((((...------------------..)))).))...)..).)))))))..(((.((((..(((....((......)).))))))).))) ( -18.10)
>consensus
UU__UUUGGAUAGAUUGCACCUGCAACA__________________CCUGCAAGUAACGUGACUCUGUCUCCUCACCUGUCGAGCAAUAUCUUGCCAAA__________AA
.....((((..(((((((((.((((.....((((.....)))).....)))).))....((((..((......))...)))).)))..))))..))))............. (-12.98 = -13.70 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:49 2006