Locus 537

Sequence ID 2R_DroMel_CAF1
Location 2,836,282 – 2,836,380
Length 98
Max. P 0.961123
window1004 window1005

overview

Window 4

Location 2,836,282 – 2,836,380
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.29
Mean single sequence MFE -36.13
Consensus MFE -21.55
Energy contribution -21.97
Covariance contribution 0.42
Combinations/Pair 1.29
Mean z-score -2.34
Structure conservation index 0.60
SVM decision value 0.86
SVM RNA-class probability 0.869183
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2836282 98 + 20766785
AAGCC-CCAUCCAUGACCAGGAAUCCUA-GAUCCGUGGAUCCGGGUAUC-CGACACGGCGUGGCGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..(((-((((((.((....(((..((..-((((....))))..))..))-)..)).)).)))).))).............(((((.........))))).. ( -30.10)
>DroPse_CAF1 2983 96 + 1
AAGCCCCAGGCCAUGCCCGGGGAUGCU-----CAGGUGCACUGUCUCCCCGGACGUGGGCUCGAGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..((((.((.(((((.(((((((.(..-----(((.....))).)))))))).))))).)).).))).............(((((.........))))).. ( -38.50)
>DroSec_CAF1 3782 99 + 1
AAGCCCCCAUCCAUGACCAGGAACCCGA-GAUCCGGGGAUCCGGGCAUC-CGACACGGGGUGGCGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..(((.((((((.......(((.((((.-((((....))))))))..))-)......)))))).))).............(((((.........))))).. ( -36.62)
>DroSim_CAF1 1902 100 + 1
AAGCCCCCAUCCAUGACCAGGAACCCGC-GAUCUGGGGAUCCGGGUAUCCCGACACGGGGUGGCGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..(((.((((((.......((((((((.-((((....))))))))).))).......)))))).))).............(((((.........))))).. ( -37.04)
>DroYak_CAF1 1887 99 + 1
AAGCC-CCAUCCAUGCCCAGGAAUCCGGGGACCCAGGAGUCCGGGGAUC-CGACAUGGGAUGGCGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..(((-((((((((((((.(((.(((((....)).))).))).)))...-...))).)))))).))).............(((((.........))))).. ( -36.00)
>DroPer_CAF1 9744 96 + 1
AAGCCCCAGGCCAUGCCCGGGGAUGCU-----CAGGUGCACUGUCUCCCCGGACGUGGGCUCGAGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..((((.((.(((((.(((((((.(..-----(((.....))).)))))))).))))).)).).))).............(((((.........))))).. ( -38.50)
>consensus
AAGCCCCCAUCCAUGACCAGGAAUCCG__GAUCCGGGGAUCCGGGUAUC_CGACACGGGGUGGCGGCAUUAAUAAAUGUUGCAUUGGAAAUUUAGAUGCUU
..(((.((((((........((((((...((((....)))).)))).))........)))))).))).............(((((.........))))).. (-21.55 = -21.97 +   0.42)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,836,282 – 2,836,380
Length 98
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.29
Mean single sequence MFE -37.47
Consensus MFE -19.42
Energy contribution -19.53
Covariance contribution 0.12
Combinations/Pair 1.24
Mean z-score -3.31
Structure conservation index 0.52
SVM decision value 1.52
SVM RNA-class probability 0.961123
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2836282 98 - 20766785
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCGCCACGCCGUGUCG-GAUACCCGGAUCCACGGAUC-UAGGAUUCCUGGUCAUGGAUGG-GGCUU
..((((...........)))).............(((.(((..((((((((-((..((..((((....))))-..))..))).)).))))).)))-))).. ( -31.20)
>DroPse_CAF1 2983 96 - 1
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCUCGAGCCCACGUCCGGGGAGACAGUGCACCUG-----AGCAUCCCCGGGCAUGGCCUGGGGCUU
..((((...........)))).............((((((.(((...(((((((((..(((.....)))-----....)))))))))..))).)))))).. ( -37.30)
>DroSec_CAF1 3782 99 - 1
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCGCCACCCCGUGUCG-GAUGCCCGGAUCCCCGGAUC-UCGGGUUCCUGGUCAUGGAUGGGGGCUU
..((((...........)))).............(((.(((..((((((((-(..(((((((((....))))-.)))))..)))).))))).))).))).. ( -39.70)
>DroSim_CAF1 1902 100 - 1
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCGCCACCCCGUGUCGGGAUACCCGGAUCCCCAGAUC-GCGGGUUCCUGGUCAUGGAUGGGGGCUU
..((((...........)))).............(((.(((..(((((((((((.(((((((((....))))-.))))))))))).))))).))).))).. ( -41.30)
>DroYak_CAF1 1887 99 - 1
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCGCCAUCCCAUGUCG-GAUCCCCGGACUCCUGGGUCCCCGGAUUCCUGGGCAUGGAUGG-GGCUU
..((((...........)))).............(((.((((((.((((((-(((((..(((((....)))))..))))))...)))))))))))-))).. ( -38.00)
>DroPer_CAF1 9744 96 - 1
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCUCGAGCCCACGUCCGGGGAGACAGUGCACCUG-----AGCAUCCCCGGGCAUGGCCUGGGGCUU
..((((...........)))).............((((((.(((...(((((((((..(((.....)))-----....)))))))))..))).)))))).. ( -37.30)
>consensus
AAGCAUCUAAAUUUCCAAUGCAACAUUUAUUAAUGCCGCCACCCCAUGUCG_GAUACCCGGAUCCCCGGAUC__AGGAUUCCUGGGCAUGGAUGGGGGCUU
..((((...........)))).............(((.((...((((((((.((..((..((((....))))...))..)).))).)))))..)).))).. (-19.42 = -19.53 +   0.12)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:12 2006