Locus 5692

Sequence ID 2L_DroMel_CAF1
Location 16,182,004 – 16,182,133
Length 129
Max. P 0.983192
window9019 window9020

overview

Window 9

Location 16,182,004 – 16,182,111
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.39
Mean single sequence MFE -20.70
Consensus MFE -17.72
Energy contribution -17.72
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.91
Structure conservation index 0.86
SVM decision value 1.94
SVM RNA-class probability 0.983192
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16182004 107 + 22407834
CA--AACUUU-----UACUCAA-UCCCCG-AACAUUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAU---AAU
..--......-----.......-......-.....((((((((((.(((((....)))))((((((..((..((((......))))...))-.)))))))))).))))))....---... ( -20.00)
>DroVir_CAF1 147491 108 + 1
CA--AAAAUU-----UACUCAAAUCCCCG-AACAUUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGCGCAAAAAUGCUGCA-AUUGCAAC---AAC
..--......-----..............-...................(((((.(..(((((((..(((..((((......))))...)))..)))))))..).-)))))...---... ( -21.80)
>DroGri_CAF1 110031 105 + 1
CA----AAUU-----UACUCAA-UCCCCG-AACAUUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAAUAAUGGUAAGCGCAAAAAUGCUGCA-AUUGCAAC---AAC
..----....-----.......-......-...................(((((.(..(((((((..(((..((((......))))...)))..)))))))..).-)))))...---... ( -21.80)
>DroWil_CAF1 142630 111 + 1
AAUCAACUUUUACUUUACUCAA-UCCCAAAAACAUUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUA---AUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAU---AA-
......................-............((((((((((.(((((....)))))((((((..((..((((...---))))...))-.)))))))))).))))))....---..- ( -18.70)
>DroYak_CAF1 107324 107 + 1
CA--AACUUU-----UACUCAA-UCCCCG-AACAAUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAU---AAU
..--......-----.......-......-.....((((((((((.(((((....)))))((((((..((..((((......))))...))-.)))))))))).))))))....---... ( -20.10)
>DroMoj_CAF1 166190 111 + 1
CA--AAAAUU-----UACUCAAUUCCCCG-AACAUUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGCGCAAAAAUGCUGCA-AUUGCAACAACAAC
..--......-----..............-...................(((((.(..(((((((..(((..((((......))))...)))..)))))))..).-)))))......... ( -21.80)
>consensus
CA__AAAAUU_____UACUCAA_UCCCCG_AACAUUAAUUUCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC_CAAAAAUGCUGCA_AUUGCAAC___AAC
.................................................((((..(..(((((((...((..((((......))))...))...)))))))..)...))))......... (-17.72 = -17.72 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,182,035 – 16,182,133
Length 98
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 81.55
Mean single sequence MFE -22.20
Consensus MFE -18.00
Energy contribution -18.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.97
Structure conservation index 0.81
SVM decision value 1.61
SVM RNA-class probability 0.967482
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16182035 98 + 22407834
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAUAAUAAAA-UUAAAAC---------AAAU-----AAAAACA
.........(((((.(..((((((((..((..((((......))))...))-.))))))))..)..)))))..........-.......---------....-----....... ( -19.80)
>DroVir_CAF1 147523 104 + 1
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGCGCAAAAAUGCUGCA-AUUGCAACAACUA---CAGCAACAACUGCAACAAUU-----GCAA-UU
...((((..(((((.(..(((((((..(((..((((......))))...)))..)))))))..).-)))))........---..(((.....))).....))-----))..-.. ( -28.10)
>DroGri_CAF1 110060 102 + 1
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAAUAAUGGUAAGCGCAAAAAUGCUGCA-AUUGCAACAACUA---CUGCAACAACAGCAAAAA-------GCAA-UU
...((....(((((.(..(((((((..(((..((((......))))...)))..)))))))..).-)))))........---.(((.......)))....-------))..-.. ( -25.90)
>DroSec_CAF1 99037 97 + 1
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAUAAUAA-A-UUAAAAC---------AAAU-----AAAAACA
.........(((((.(..((((((((..((..((((......))))...))-.))))))))..)..)))))........-.-.......---------....-----....... ( -19.80)
>DroAna_CAF1 96339 95 + 1
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAUAAUAAAAAUUAAAA-------------A-----CAAAACG
.........(((((.(..((((((((..((..((((......))))...))-.))))))))..)..))))).................-------------.-----....... ( -19.80)
>DroPer_CAF1 135377 103 + 1
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC-CUAAAAUGCUGCAAAUUGCAAUAAUAAAA-UUAAAUC---------AAACAACCAAAAAACA
.........(((((.(..((((((((..((..((((......))))...))-.))))))))..)..)))))..........-.......---------................ ( -19.80)
>consensus
UCAGCAACCGCAAUCGUGGUAUUUUAUUGCAUCCAUAUAACAAUGGUAAGC_CUAAAAUGCUGCAAAUUGCAAUAAUAA_A_UUAAAAC_________AAAU_____AAAAACA
.........(((((.(..(((((((...((..((((......))))...))...)))))))..)..)))))........................................... (-18.00 = -18.00 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:21 2006