Locus 4605

Sequence ID 2L_DroMel_CAF1
Location 13,185,646 – 13,185,766
Length 120
Max. P 0.898281
window7266 window7267

overview

Window 6

Location 13,185,646 – 13,185,766
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.45
Mean single sequence MFE -44.10
Consensus MFE -27.93
Energy contribution -29.97
Covariance contribution 2.03
Combinations/Pair 1.19
Mean z-score -1.47
Structure conservation index 0.63
SVM decision value 0.15
SVM RNA-class probability 0.606175
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13185646 120 + 22407834
CCUGCAUCACAGGAGCAACGGUUGAGGUCAGCGAAGUGGUCUCCACGGGAUUUAUGCGAAGCAUUUGGUAUGGUGCUUCGCCCUCCUUCUGCAACUCAUGCAGUGUGCUACCAUCUCGCU
((((.....))))(((....((((....))))((..((((...(((((((.....((((((((((......))))))))))..)))).(((((.....))))).)))..))))..))))) ( -42.90)
>DroVir_CAF1 6439 105 + 1
UCU-----------GCAACG----UCGUCAAUGUCGACUCGUCGACUGGAUUGAGAUGCACCAUCUGAUGUGGUGAUCCGUCUUCGGUGAGCAGCUCGUGCAGCGUGCUACCAUCUUGCU
...-----------((((((----((.((((((((((....)))))...)))))))))((((((.....))))))..........(((.(((((((.....))).)))))))...)))). ( -32.90)
>DroSec_CAF1 6106 115 + 1
-----AUCGCAGGAGCAACGGAAGAGGUCAGCGAAGUACUCUCCACCGGGUUGAGGCGAAGCAUUUGGUAGGGUGCUUCGCCCUCCUUCUGCAGCUCAUGCAGUGUGCUACCAUCUCGCU
-----...(((.((((..(((((((((...(((((((((((((((....(((.......)))...))).))))))))))))))).))))))..)))).)))((((...........)))) ( -46.50)
>DroSim_CAF1 6081 115 + 1
-----AUCGCAGGAGCAACGGAUGAGGUCAGCGAAGUGGUCUCCACCGGAUUUAGGCGAAGCAUUUGGUAGGGUGCUUCGCCCUCCUUCUGCAGCUCAUGCAGUGUGCUACCAUCUCGCU
-----...(((((((...(((..(((..((......))..)))..)))......((((((((((((....))))))))))))...)))))))(((.(((...))).)))........... ( -43.80)
>DroEre_CAF1 6202 120 + 1
GCUGUAUCGCAGCAGUAACGGAGGAGGCCAGCGAAGUGGUCUCCACGGGAUUUAGGCGAAGCAUUUGGUAGGGUGCUUCGCCCUCCUUCUGCAGCUCAUGAAGAGUGCUACCAUCUCGCU
((((.....)))).........((((((((......)))))))).((((((...((((((((((((....))))))))))))........(((.(((.....))))))....)))))).. ( -49.60)
>DroYak_CAF1 6182 120 + 1
CCUGCAUCGCAGGUGCAACGGAGGAGGUCAGCGAAGUGGUCUCCACGGGAUUUAGGCGAAGCAUUUGGUAGGGUGCUUCGCCCUCCUUCUGCAGCUCAUGGAGAGUGCUACCAUCGCGCU
.((.(((.(.((.((((..(((((((.........((((...))))........((((((((((((....))))))))))))))))))))))).)))))).))(((((.......))))) ( -48.90)
>consensus
_CU__AUCGCAGGAGCAACGGAGGAGGUCAGCGAAGUGGUCUCCACGGGAUUUAGGCGAAGCAUUUGGUAGGGUGCUUCGCCCUCCUUCUGCAGCUCAUGCAGUGUGCUACCAUCUCGCU
.............................(((((.(((((...(((.(((....(((((((((((......))))))))))).)))..(((((.....))))).)))..))))).))))) (-27.93 = -29.97 +   2.03)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 7

Location 13,185,646 – 13,185,766
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.45
Mean single sequence MFE -43.32
Consensus MFE -26.80
Energy contribution -29.80
Covariance contribution 3.00
Combinations/Pair 1.19
Mean z-score -2.18
Structure conservation index 0.62
SVM decision value 1.00
SVM RNA-class probability 0.898281
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13185646 120 - 22407834
AGCGAGAUGGUAGCACACUGCAUGAGUUGCAGAAGGAGGGCGAAGCACCAUACCAAAUGCUUCGCAUAAAUCCCGUGGAGACCACUUCGCUGACCUCAACCGUUGCUCCUGUGAUGCAGG
((((((.((((..(((.(((((.....)))))..(((..((((((((..........)))))))).....))).)))...)))).))))))..(((....(((..(....)..))).))) ( -43.40)
>DroVir_CAF1 6439 105 - 1
AGCAAGAUGGUAGCACGCUGCACGAGCUGCUCACCGAAGACGGAUCACCACAUCAGAUGGUGCAUCUCAAUCCAGUCGACGAGUCGACAUUGACGA----CGUUGC-----------AGA
.((....((((((((.(((.....))))))).))))..(((((((((((((....).))))).)))(((((...(((((....))))))))))...----))))))-----------... ( -33.00)
>DroSec_CAF1 6106 115 - 1
AGCGAGAUGGUAGCACACUGCAUGAGCUGCAGAAGGAGGGCGAAGCACCCUACCAAAUGCUUCGCCUCAACCCGGUGGAGAGUACUUCGCUGACCUCUUCCGUUGCUCCUGCGAU-----
.((.........))....((((.((((.((.((((..((((((((((..........)))))))))......((((((((....)))))))).)..)))).)).)))).))))..----- ( -44.30)
>DroSim_CAF1 6081 115 - 1
AGCGAGAUGGUAGCACACUGCAUGAGCUGCAGAAGGAGGGCGAAGCACCCUACCAAAUGCUUCGCCUAAAUCCGGUGGAGACCACUUCGCUGACCUCAUCCGUUGCUCCUGCGAU-----
((((((.((((..(((.(((((.....)))))..(((((((((((((..........))))))))))...))).)))...)))).))))))..........(((((....)))))----- ( -45.30)
>DroEre_CAF1 6202 120 - 1
AGCGAGAUGGUAGCACUCUUCAUGAGCUGCAGAAGGAGGGCGAAGCACCCUACCAAAUGCUUCGCCUAAAUCCCGUGGAGACCACUUCGCUGGCCUCCUCCGUUACUGCUGCGAUACAGC
.((...((.(((((((((.....))).....(.((((((((((((((..........))))))))).....((.((((((....)))))).)).))))).).....)))))).))...)) ( -43.80)
>DroYak_CAF1 6182 120 - 1
AGCGCGAUGGUAGCACUCUCCAUGAGCUGCAGAAGGAGGGCGAAGCACCCUACCAAAUGCUUCGCCUAAAUCCCGUGGAGACCACUUCGCUGACCUCCUCCGUUGCACCUGCGAUGCAGG
...(((((((..((((((.....))).)))...((((((((((((((..........)))))))))........((((((....))))))....)))))))))))).(((((...))))) ( -50.10)
>consensus
AGCGAGAUGGUAGCACACUGCAUGAGCUGCAGAAGGAGGGCGAAGCACCCUACCAAAUGCUUCGCCUAAAUCCCGUGGAGACCACUUCGCUGACCUCAUCCGUUGCUCCUGCGAU__AG_
((((((.((((..(((.(((((.....)))))..(((((((((((((..........))))))))))...))).)))...)))).))))))..........(((((....)))))..... (-26.80 = -29.80 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:20 2006