Locus 7788

Sequence ID 2L_DroMel_CAF1
Location 21,950,539 – 21,950,629
Length 90
Max. P 0.886652
window12487 window12488

overview

Window 7

Location 21,950,539 – 21,950,629
Length 90
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 74.18
Mean single sequence MFE -26.10
Consensus MFE -9.73
Energy contribution -9.35
Covariance contribution -0.39
Combinations/Pair 1.31
Mean z-score -2.33
Structure conservation index 0.37
SVM decision value 0.94
SVM RNA-class probability 0.886652
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21950539 90 + 22407834
UAAUUUAUUGUUGCUGUAUUGUCGACUCUCACGGGCGCACACAUUCAC------------GCACGG--------GCUCGUAUC--GCGAGCAUGUGUGUGACAUUUUUAAUA
.....(((((..(.(((..(((((.(((....))))).)))....(((------------(((((.--------(((((....--.))))).))))))))))).)..))))) ( -27.20)
>DroPse_CAF1 15095 93 + 1
UAAUUUAUUGUUGCUGUAUUGUCGACUCGCACACACACACAGAUAUAC----ACACACCCAUGCAC--------CC-------AUGUGUGUGUGUGUGUGACAUUUUUAUUA
.........(((((......).))))(((((((((((((((.((....----.((......))...--------..-------)).)))))))))))))))........... ( -27.40)
>DroSec_CAF1 522 89 + 1
UAAUUUAUUGUUGCUGUAUUGUCGACUCUCACGGGCGCACACAUUCAC------------GCUCG---------GCUCGUAUC--GCGAGCAUGUGUGUGACAUUUUUAAUA
...................((((.((.(.((((((((..........)------------)))))---------(((((....--.))))).)).).))))))......... ( -22.70)
>DroSim_CAF1 3759 89 + 1
UAAUUUAUUGUUGCUGUAUUGUCGACUCUCACGGGCGCACACAUUCAC------------GCCCG---------GCUCGUAUC--GCGAGCAUGUGUGUGACAUUUUUAAUA
...................((((.((.(.((((((((..........)------------)))))---------(((((....--.))))).)).).))))))......... ( -25.70)
>DroEre_CAF1 2490 98 + 1
UAAUUUAUUGUUGCUGUAUUGUCGACUCUCGUGGGCACACACACUCAC------------ACAUGCGAGCACACAUACGUAUC--GCGAGCAUGUGUGUGACAUUUUUAUUA
........(((..((((..((((.((....)).)))).))).....((------------((((((..((..((....))...--))..)))))))))..)))......... ( -25.80)
>DroAna_CAF1 6677 102 + 1
UAAUUUAUUGUUGCUGUAUUGUCGACAUACACACACUCGCACACUCGCCGAUACAGACCCAUACGG--------UCACGUAUU--CUGUGCAUGUGUGUGACAUUUUUAUUA
........((((((......).)))))..(((((((..(((((......(((((.((((.....))--------))..)))))--.)))))..)))))))............ ( -27.80)
>consensus
UAAUUUAUUGUUGCUGUAUUGUCGACUCUCACGGGCGCACACAUUCAC____________ACACG_________GCUCGUAUC__GCGAGCAUGUGUGUGACAUUUUUAAUA
.........(((((......).)))).........(((((((((((.........................................)))..))))))))............ ( -9.73 =  -9.35 +  -0.39)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,950,539 – 21,950,629
Length 90
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 74.18
Mean single sequence MFE -26.77
Consensus MFE -7.82
Energy contribution -8.88
Covariance contribution 1.06
Combinations/Pair 1.29
Mean z-score -2.58
Structure conservation index 0.29
SVM decision value 0.88
SVM RNA-class probability 0.872757
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21950539 90 - 22407834
UAUUAAAAAUGUCACACACAUGCUCGC--GAUACGAGC--------CCGUGC------------GUGAAUGUGUGCGCCCGUGAGAGUCGACAAUACAGCAACAAUAAAUUA
.........((((.(((((((..((((--(.((((...--------.)))))------------))))))))))).((.(....).)).))))................... ( -24.20)
>DroPse_CAF1 15095 93 - 1
UAAUAAAAAUGUCACACACACACACACAU-------GG--------GUGCAUGGGUGUGU----GUAUAUCUGUGUGUGUGUGCGAGUCGACAAUACAGCAACAAUAAAUUA
.........((((((.(.(((((((((((-------((--------((((((......))----))..))))))))))))))).).)).))))................... ( -30.70)
>DroSec_CAF1 522 89 - 1
UAUUAAAAAUGUCACACACAUGCUCGC--GAUACGAGC---------CGAGC------------GUGAAUGUGUGCGCCCGUGAGAGUCGACAAUACAGCAACAAUAAAUUA
.........((((((((((((((((((--.......).---------)))))------------)))..)))))..((.(....).)).))))................... ( -23.30)
>DroSim_CAF1 3759 89 - 1
UAUUAAAAAUGUCACACACAUGCUCGC--GAUACGAGC---------CGGGC------------GUGAAUGUGUGCGCCCGUGAGAGUCGACAAUACAGCAACAAUAAAUUA
.........((((((.(((..(((((.--....)))))---------.((((------------((........)))))))))...)).))))................... ( -25.40)
>DroEre_CAF1 2490 98 - 1
UAAUAAAAAUGUCACACACAUGCUCGC--GAUACGUAUGUGUGCUCGCAUGU------------GUGAGUGUGUGUGCCCACGAGAGUCGACAAUACAGCAACAAUAAAUUA
.........((((.(((((((((((((--(.....((((((....)))))))------------)))))))))))))...((....)).))))................... ( -29.40)
>DroAna_CAF1 6677 102 - 1
UAAUAAAAAUGUCACACACAUGCACAG--AAUACGUGA--------CCGUAUGGGUCUGUAUCGGCGAGUGUGCGAGUGUGUGUAUGUCGACAAUACAGCAACAAUAAAUUA
.........(((((((.((((((((.(--(.((((.((--------((.....)))))))))).(((....)))..)))))))).))).))))................... ( -27.60)
>consensus
UAAUAAAAAUGUCACACACAUGCUCGC__GAUACGAGC_________CGUGC____________GUGAAUGUGUGCGCCCGUGAGAGUCGACAAUACAGCAACAAUAAAUUA
.........((((.((((((((((((.......)))))..............................)))))))....(....)....))))................... ( -7.82 =  -8.88 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:55 2006