Locus 6183

Sequence ID 2L_DroMel_CAF1
Location 17,241,005 – 17,241,102
Length 97
Max. P 0.992430
window9881 window9882

overview

Window 1

Location 17,241,005 – 17,241,102
Length 97
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 72.77
Mean single sequence MFE -24.60
Consensus MFE -7.71
Energy contribution -8.24
Covariance contribution 0.53
Combinations/Pair 1.29
Mean z-score -3.06
Structure conservation index 0.31
SVM decision value 2.33
SVM RNA-class probability 0.992430
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17241005 97 + 22407834
AAAGAUGAAAGGCCCCAAGAGAUGAAAGAAACUUCAUCGC-GAUUGGGGCACACAAUAACGCAGCGACAUGUGUGUGUGUGAGUGUGUGCGAACAUUU
...........(((((((..((((((......))))))..-..)))))))(((((...(((((......))))).)))))((((((......)))))) ( -34.90)
>DroPse_CAF1 148380 90 + 1
AAAGAUGAAACGUGGCA-AAGUUGAAAGAAAUUCCACGAAAAAAUGGAGGGGAAAAAAAGCCUCGAAUAAAA------A-AAAGAUGUGUGAAUAUUU
..........(((((.(-(..((....))..)))))))..........((((........))))........------.-..((((((....)))))) ( -13.60)
>DroSec_CAF1 84107 79 + 1
AAAGAUGAAAGGCCCCACGAGAUGAAAGAAACUUCAUCGC-GAUUGGGGCACACAAUAACGC------------------GUGUGUGUGCGAACAUUU
..(((((....((((((((.((((((......)))))).)-)..))))))(((((.......------------------.))))).......))))) ( -26.00)
>DroSim_CAF1 86971 79 + 1
AAAGAUGAAAGGCCCCACGAGAUGAAAGAAACUUCAUCGC-GAUUGGGGCACACAAUAACGC------------------GUGUGUGUGCGAACAUUU
..(((((....((((((((.((((((......)))))).)-)..))))))(((((.......------------------.))))).......))))) ( -26.00)
>DroEre_CAF1 83646 89 + 1
AAAGAUGAAAGGCCCCAGGAGAUGAAAGAAACUUCUGCAC-AAU-GGGGCACACAAUAAUACACGUAUGUGU------G-GUGUGUGUGCGAGCAUUU
..(((((.....(((((((((.(......).))))))...-...-)))(((((((....(((((....))))------)-...)))))))...))))) ( -26.20)
>DroYak_CAF1 84792 89 + 1
AAAGAUGAAAGGCCCCAAGAGAUGAAAGAAACUUCAGCAC-GAUUGGAGCGAACAAUAACGCAGAGAUAUGC--------GUGUGUGUGCGAGCAUUU
..(((((...(((.((((..(.((((......))))...)-..)))).))..(((...(((((......)))--------))...))).)...))))) ( -20.90)
>consensus
AAAGAUGAAAGGCCCCAAGAGAUGAAAGAAACUUCAUCAC_GAUUGGGGCACACAAUAACGCA___AUAUG_________GUGUGUGUGCGAACAUUU
...........((((((.....((((......))))........))))))..................................((((....)))).. ( -7.71 =  -8.24 +   0.53)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,241,005 – 17,241,102
Length 97
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 72.77
Mean single sequence MFE -19.30
Consensus MFE -7.59
Energy contribution -8.20
Covariance contribution 0.61
Combinations/Pair 1.27
Mean z-score -2.29
Structure conservation index 0.39
SVM decision value 1.26
SVM RNA-class probability 0.937627
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17241005 97 - 22407834
AAAUGUUCGCACACACUCACACACACACAUGUCGCUGCGUUAUUGUGUGCCCCAAUC-GCGAUGAAGUUUCUUUCAUCUCUUGGGGCCUUUCAUCUUU
........(((((((.(.((.(((((....)).).)).)).).)))))))(((((..-(.(((((((....))))))).))))))............. ( -23.70)
>DroPse_CAF1 148380 90 - 1
AAAUAUUCACACAUCUUU-U------UUUUAUUCGAGGCUUUUUUUCCCCUCCAUUUUUUCGUGGAAUUUCUUUCAACUU-UGCCACGUUUCAUCUUU
..................-.------........((((..........))))........(((((...............-..))))).......... (  -8.03)
>DroSec_CAF1 84107 79 - 1
AAAUGUUCGCACACACAC------------------GCGUUAUUGUGUGCCCCAAUC-GCGAUGAAGUUUCUUUCAUCUCGUGGGGCCUUUCAUCUUU
............(((((.------------------.......)))))((((((..(-(.(((((((....))))))).))))))))........... ( -23.20)
>DroSim_CAF1 86971 79 - 1
AAAUGUUCGCACACACAC------------------GCGUUAUUGUGUGCCCCAAUC-GCGAUGAAGUUUCUUUCAUCUCGUGGGGCCUUUCAUCUUU
............(((((.------------------.......)))))((((((..(-(.(((((((....))))))).))))))))........... ( -23.20)
>DroEre_CAF1 83646 89 - 1
AAAUGCUCGCACACACAC-C------ACACAUACGUGUAUUAUUGUGUGCCCC-AUU-GUGCAGAAGUUUCUUUCAUCUCCUGGGGCCUUUCAUCUUU
....(((((((((((...-.------((((....)))).....)))))))...-...-...(((.((..........)).)))))))........... ( -19.90)
>DroYak_CAF1 84792 89 - 1
AAAUGCUCGCACACACAC--------GCAUAUCUCUGCGUUAUUGUUCGCUCCAAUC-GUGCUGAAGUUUCUUUCAUCUCUUGGGGCCUUUCAUCUUU
........(.(((...((--------(((......)))))...))).)(((((((..-(.(.(((((....))))).).))))))))........... ( -17.80)
>consensus
AAAUGUUCGCACACACAC_________CAUAU___UGCGUUAUUGUGUGCCCCAAUC_GCGAUGAAGUUUCUUUCAUCUCGUGGGGCCUUUCAUCUUU
................................................((((((........(((((....))))).....))))))........... ( -7.59 =  -8.20 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:36 2006