PIMA Multiple Sequence Alignment Results

Maximal Linkage Clustering

pat-ML ((gi|404390| 808.00 gi|730305|) 646.00 gi|895868)



Page 1.1
                 1            15 16           30 31           45 46           60 61           75 76           90 
    1 pat-ML     --------------- -------jjohrXiV QPNFQXDKFLGRWdS AGLASNSSWfpEKKA XLXMCKiVVAPjjkG GfNLTSTFLRKNQCE     68
    2 gi|404390| --------------- -------APEAQVSV QPNFQPDKFLGRWFS AGLASNSSWLQEKKA ALSMCKSVVAPAADG GFNLTSTFLRKNQCE     68
    3 gi|730305| MATHHTLWMGLALLG VLGDLQAAPEAQVSV QPNFQQDKFLGRWFS AGLASNSSWLREKKA ALSMCKSVVAPATDG GLNLTSTFLRKNQCE     90
    4 gi|895868  MAALRMLWMGLVLLG LLGFPQTPAQGHDTV QPNFQQDKFLGRWYS AGLASNSSWFREKKA VLYMCKTVVAPSTEG GLNLTSTFLRKNQCE     90


Page 2.1
                 91          105 106         120 121         135 136         150 151         165 166         180 
    1 pat-ML     TnXMcLQPhXjXGrY iYrSPHXGSXeSVSV VEjlYDrYALLdSpG iKGPGoDFRMATLYS RTQTXnXELKEKFTj FXKAQGfTEkrIVFL    158
    2 gi|404390| TRTMLLQPGDSLGSY SYRSPHWGSTYSVSV VETDYDHYALLYSQG SKGPGEDFRMATLYS RTQTPRAELKEKFTA FCKAQGFTEDSIVFL    158
    3 gi|730305| TRTMLLQPAGSLGSY SYRSPHWGSTYSVSV VETDYDQYALLYSQG SKGPGEDFRMATLYS RTQTPRAELKEKFTA FCKAQGFTEDTIVFL    180
    4 gi|895868  TKIMVLQPAGAPGHY TYSSPHSGSIHSVSV VEANYDEYALLFSRG TKGPGQDFRMATLYS RTQTLKDELKEKFTT FSKAQGLTEEDIVFL    180


Page 3.1
                 181         195 196         210 211         225 226         240 241         255 256         270 
    1 pat-ML     PQjDKCcrE-    167
    2 gi|404390| PQTDKCMTEQ    168
    3 gi|730305| PQTDKCMTEQ    190
    4 gi|895868  PQPDKCIQE-    189

Sequential Branching Clustering

pat-SB ((gi|404390| 808.00 gi|730305|) 646.00 gi|895868)



Page 1.1
                 1            15 16           30 31           45 46           60 61           75 76           90 
    1 pat-SB     --------------- -------jjohrXiV QPNFQXDKFLGRWdS AGLASNSSWfpEKKA XLXMCKiVVAPjjkG GfNLTSTFLRKNQCE     68
    2 gi|404390| --------------- -------APEAQVSV QPNFQPDKFLGRWFS AGLASNSSWLQEKKA ALSMCKSVVAPAADG GFNLTSTFLRKNQCE     68
    3 gi|730305| MATHHTLWMGLALLG VLGDLQAAPEAQVSV QPNFQQDKFLGRWFS AGLASNSSWLREKKA ALSMCKSVVAPATDG GLNLTSTFLRKNQCE     90
    4 gi|895868  MAALRMLWMGLVLLG LLGFPQTPAQGHDTV QPNFQQDKFLGRWYS AGLASNSSWFREKKA VLYMCKTVVAPSTEG GLNLTSTFLRKNQCE     90


Page 2.1
                 91          105 106         120 121         135 136         150 151         165 166         180 
    1 pat-SB     TnXMcLQPhXjXGrY iYrSPHXGSXeSVSV VEjlYDrYALLdSpG iKGPGoDFRMATLYS RTQTXnXELKEKFTj FXKAQGfTEkrIVFL    158
    2 gi|404390| TRTMLLQPGDSLGSY SYRSPHWGSTYSVSV VETDYDHYALLYSQG SKGPGEDFRMATLYS RTQTPRAELKEKFTA FCKAQGFTEDSIVFL    158
    3 gi|730305| TRTMLLQPAGSLGSY SYRSPHWGSTYSVSV VETDYDQYALLYSQG SKGPGEDFRMATLYS RTQTPRAELKEKFTA FCKAQGFTEDTIVFL    180
    4 gi|895868  TKIMVLQPAGAPGHY TYSSPHSGSIHSVSV VEANYDEYALLFSRG TKGPGQDFRMATLYS RTQTLKDELKEKFTT FSKAQGLTEEDIVFL    180


Page 3.1
                 181         195 196         210 211         225 226         240 241         255 256         270 
    1 pat-SB     PQjDKCcrE-    167
    2 gi|404390| PQTDKCMTEQ    168
    3 gi|730305| PQTDKCMTEQ    190
    4 gi|895868  PQPDKCIQE-    189

Maximal Linkage Alignment Data (Fasta format)

>pat-ML
----------------------jjohrXiVQPNFQXDKFLGRWdSAGLAS
NSSWfpEKKAXLXMCKiVVAPjjkGGfNLTSTFLRKNQCETnXMcLQPhX
jXGrYiYrSPHXGSXeSVSVVEjlYDrYALLdSpGiKGPGoDFRMATLYS
RTQTXnXELKEKFTjFXKAQGfTEkrIVFLPQjDKCcrE-

>gi|404390|
----------------------APEAQVSVQPNFQPDKFLGRWFSAGLAS
NSSWLQEKKAALSMCKSVVAPAADGGFNLTSTFLRKNQCETRTMLLQPGD
SLGSYSYRSPHWGSTYSVSVVETDYDHYALLYSQGSKGPGEDFRMATLYS
RTQTPRAELKEKFTAFCKAQGFTEDSIVFLPQTDKCMTEQ
>gi|730305|
MATHHTLWMGLALLGVLGDLQAAPEAQVSVQPNFQQDKFLGRWFSAGLAS
NSSWLREKKAALSMCKSVVAPATDGGLNLTSTFLRKNQCETRTMLLQPAG
SLGSYSYRSPHWGSTYSVSVVETDYDQYALLYSQGSKGPGEDFRMATLYS
RTQTPRAELKEKFTAFCKAQGFTEDTIVFLPQTDKCMTEQ
>gi|895868
MAALRMLWMGLVLLGLLGFPQTPAQGHDTVQPNFQQDKFLGRWYSAGLAS
NSSWFREKKAVLYMCKTVVAPSTEGGLNLTSTFLRKNQCETKIMVLQPAG
APGHYTYSSPHSGSIHSVSVVEANYDEYALLFSRGTKGPGQDFRMATLYS
RTQTLKDELKEKFTTFSKAQGLTEEDIVFLPQPDKCIQE-

Sequential Branching Alignment Data (Fasta format)

>pat-SB
----------------------jjohrXiVQPNFQXDKFLGRWdSAGLAS
NSSWfpEKKAXLXMCKiVVAPjjkGGfNLTSTFLRKNQCETnXMcLQPhX
jXGrYiYrSPHXGSXeSVSVVEjlYDrYALLdSpGiKGPGoDFRMATLYS
RTQTXnXELKEKFTjFXKAQGfTEkrIVFLPQjDKCcrE-

>gi|404390|
----------------------APEAQVSVQPNFQPDKFLGRWFSAGLAS
NSSWLQEKKAALSMCKSVVAPAADGGFNLTSTFLRKNQCETRTMLLQPGD
SLGSYSYRSPHWGSTYSVSVVETDYDHYALLYSQGSKGPGEDFRMATLYS
RTQTPRAELKEKFTAFCKAQGFTEDSIVFLPQTDKCMTEQ
>gi|730305|
MATHHTLWMGLALLGVLGDLQAAPEAQVSVQPNFQQDKFLGRWFSAGLAS
NSSWLREKKAALSMCKSVVAPATDGGLNLTSTFLRKNQCETRTMLLQPAG
SLGSYSYRSPHWGSTYSVSVVETDYDQYALLYSQGSKGPGEDFRMATLYS
RTQTPRAELKEKFTAFCKAQGFTEDTIVFLPQTDKCMTEQ
>gi|895868
MAALRMLWMGLVLLGLLGFPQTPAQGHDTVQPNFQQDKFLGRWYSAGLAS
NSSWFREKKAVLYMCKTVVAPSTEGGLNLTSTFLRKNQCETKIMVLQPAG
APGHYTYSSPHSGSIHSVSVVEANYDEYALLFSRGTKGPGQDFRMATLYS
RTQTLKDELKEKFTTFSKAQGLTEEDIVFLPQPDKCIQE-

To prepare a publishable output of this alignment, try the BOXSHADE server.
Copy the alignment output (highlighted in green) and choose 'other' for Input sequence format.

Kim C. Worley and Michael P. McLeod, Human Genome Sequencing Center, Baylor College of Medicine
Email