a2m2html output for file tmp.a2m

Citations (SAM, SAM-T99, HMMs)

R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting remote protein homologies, Bioinformatics 14(10):846-856, 1999.
A. Krogh et al., Hidden Markov models in computational biology: Applications to protein modeling, JMB 235:1501-1531, Feb 1994.

Sequence numbers correspond to the following labels:

- T0126 Olfactory marker protein, mouse
- gi|6981304|ref|NP_036748.1|_1:163 olfactory marker protein (Rattus norvegicus)
- gi|129096|sp|P08523|OMP_RAT OLFACTORY MARKER PROTEIN (OLFACTORY NEURONAL SPECIFIC PROTEIN) (Rattus norvegicus)
- gi|205852|gb|AAA03054.1| (M26926) olfactory marker protein [Rattus norvegicus] (Rattus norvegicus)
- gi|6754936|ref|NP_035140.1|_1:163 olfactory marker protein (Mus musculus)
- gi|627924|pir||B54261 olfactory marker protein - mouse (Mus musculus)
- gi|493517|gb|AAA18415.1| (U02557) olfactory marker protein [Mus musculus] (Mus musculus)
- gi|520741|gb|AAA20486.1| (U01213) olfactory marker protein [Mus musculus] (Mus musculus)
- gi|92567|pir||A27450_2:162 olfactory marker protein - rat (Rattus norvegicus)
- gi|205850|gb|AAA41757.1| (M15644) olfactory neuronal specific protein [Rattus norvegicus] (Rattus norvegicus)
- gi|5453828|ref|NP_006180.1|_1:163 olfactory marker protein (Homo sapiens)
- gi|1352639|sp|P47874|OMP_HUMAN OLFACTORY MARKER PROTEIN (OLFACTORY NEURONAL SPECIFIC PROTEIN) (Homo sapiens)
- gi|520740|gb|AAA20485.1| (U01212) olfactory marker protein [Homo sapiens] (Homo sapiens)
- gi|627558|pir||A54261_1:163 olfactory marker protein - human (Homo sapiens)
- gi|3582107|emb|CAA09447.1|_3:156 (AJ010979) XOMP2 olfactory marker protein [Xenopus laevis] (Xenopus laevis)
- gi|3582105|emb|CAA09446.1|_4:156 (AJ010978) XOMP1 olfactory marker protein [Xenopus laevis] (Xenopus laevis)

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MAEDGPQKQQLEMPLVLDQDLTQQMRLRVESLKQRGEKKQDGEKLIRPAESVYRLDFIQQQKLQF
   2 MAEDGPQKQQLDMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLRPAESVYRLDFIQQQKLQF
   3 MAEDGPQKQQLEMPLVLDQDLTQQMRLRVESLKQRGEKKQDGEKLIRPAESVYRLDFIQQQKLQF
   4 --EDGPQKQQLDMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLRPAESVYRLDFIQQQKLQF
   5 MAEDRPQQPQLDMPLVLDQGLTRQMRLRVESLKQRGEKRQDGEKLLQPAESVYRLNFTQQQRLQF
   6 MAEDRPQQPQLDMPLVLDQGLTRQMRLRVERLKQRGEKRQDGEKLLQPEESVYRLNFTQQQRLQF
   7 -----PETSEMELPFNEDTQLTKCMRIRVQTLQQKNGKPQEGEMLLRANDYIYRLDF-PKQKLRF
   8 ------ETSEMELPFIEDTQLTKCMRIRVQTLQQKNAKPQEGEMLLRANEYIYRVDF-SKQKLRF


         70        80        90       100       110       120       130
         |         |         |         |         |         |         |
   1 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   2 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   3 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   4 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   5 ERWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPTAIFWRKEDSDAIDWNEADALEFGERLS
   6 ERWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPTAIFWRKEDSDAIDWNEADALEFGERLS
   7 LWWKVHLKTPGKVMITGTSQHWTPDLTNLMTRQLLEPSAVFYKKDAKDKVECNEADAQEFGERIA
   8 LWWKVHLKSPGKVMITGTSQHWTPDLTNLMTRQLLEPSAVFYKKDANDEVECNEADAQEFGERIA


             140       150       160   
              |         |         |   
   1 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   2 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   3 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   4 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   5 DLAKIRKVMYFLVTFGEGVEPANLKASVVFNQL
   6 DLAKIRKVMYFLVTFGEGVEPANLKASVVFNQL
   7 ELAKIRKVMYFVFTFLDGADPSTVEYSIGF---
   8 ELAKIRKVMYFVITFLDGADPATIECSIGF---