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:

- T0088
- gi|1146336|gb|AAA85086.1|_23:178 (L43374) adhesin 20K [Escherichia coli] (Escherichia coli)
- gi|2121123|pir||I55123_23:178 fimbrial lectin, N-acetyl-D-glucosamine specific - Escherichia coli (Escherichia coli)
- gi|871816|gb|AAA69514.1| (L33969) fimbrial lectin [Escherichia coli] (Escherichia coli)
- gi|4335916|gb|AAD17515.1|_23:178 (AF055312) F17G adhesin subunit precursor [Escherichia coli] (Escherichia coli)
- gi|4335914|gb|AAD17514.1|_23:178 (AF055311) F17G adhesin subunit precursor [Escherichia coli] (Escherichia coli)
- gi|4335912|gb|AAD17513.1|_23:178 (AF055310) F17G adhesin subunit precursor [Escherichia coli] (Escherichia coli)
- gi|1232061|gb|AAA92621.1|_23:179 (L77091) adhesin [Escherichia coli] (Escherichia coli)
- gi|4335918|gb|AAD17516.1|_23:179 (AF055313) F17G adhesin subunit precursor [Escherichia coli] (Escherichia coli)
- gi|2121054|pir||I41205_23:178 adhesin - Escherichia coli (Escherichia coli)
- gi|290430|gb|AAA23736.1| (L14319) adhesin [Escherichia coli] (Escherichia coli)
- gi|95825|pir||A42359_23:179 fimbrial adhesin F17-G precursor - Escherichia coli (Escherichia coli)
- gi|2465785|gb|AAC45722.1| (AF022140) F17a-G precursor [Escherichia coli] (Escherichia coli)

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 AVSFIGSTENDVGPSQGSYSSTHAMDNLPFVYNTGYNIGYQNANVWRISGGFCVGLDGKVDLPVV
   2 AVSFIGSTENDVGPSQGSYSSTHAMDNLPFVYNTGYNIGYQNANVWRISGGFCVGLDGKVDLPVV
   3 AVSFIGSTENDVGPSQGSYSSTHAMDNLPFVYNTGYNIGYQNANVWRISGGFCVGLDGKVDLPVV
   4 AVSFIGSTENDVGPSQGSYSSTHAMDNLPFVYNTGHNIGYQNANVWRISGGFCVGLDGKVDLPVV
   5 AVSFIGSTENDVGPSQSSYSRTHAMDNLPFVYNTGYNIGYQNANVWRISGGFCVGLDGKVDLPVV
   6 AVSFIGSTENDVGPSQGSYSRTHAMDNLPFVYNTGYNIGYQNANVWRISNGFCVGLDGKVDLPVV
   7 AVSFIGSTENDVGPSPGSYSRTHAMDNLPFVYNTGNNIGYQNANVWRISKGFCVGLDGKVDLPVV
   8 AVSFIGSTENDVGPSPGSYSRTHAMDNLPFVYNTGNNIGYQNANVWRISKGFCVGLDGKVDLPVV
   9 VVSFIGSTENDVGPSQGSYSSTHAMDNLPFVYNTGYNIGYQNANVWRIGGGFCVGLDGKVDLPVV
  10 AVSFIGSTENDVGPSLGSYSRTHAMDNLPFVYDTRNKIGYQNANVWHISKGFCVGLDGKVDLPVV


         70        80        90       100       110        120       13
         |         |         |         |         |          |         
   1 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVG.NYVSTQGLSVHVRPVIL
   2 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVG.NYVSTQGLSVHVRPVIL
   3 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVG.NYVSTQGLSVHVRPVIL
   4 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVG.NYVSTQGLSVHVRPVIL
   5 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVG.NYVSTQGLSVHVRPVIL
   6 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVG.NYASTQGLSVHVRPVIL
   7 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWCVGaNTASTQGLSVRVTPVIL
   8 GSLDGQSIYGLTEEVGLLIWMGDTKYSRGTAMSGNSWENVFSGWCVGaNTASTQGLSVRVTPVIL
   9 GSLDGQSIYGLTEEVGLLIWMGDTNYSRGTAMSGNSWENVFSGWSVG.NYLSTQGLSVHVRPVIL
  10 GSLDGQSIYGLTEEVGLLIWMGDTKYSRGTAMSGNSWENVFSGWCVGaNTASTQGLSVRVTPVIL


      0       140       150      
     |         |         |      
   1 KRNSSAQYSVQKTSIGSIRMRPYNGSS
   2 KRNSSAQYSVQKTSIGSIRMRPYNGSS
   3 KRNSSAQYSVQKTSIGSIRMRPYNGSS
   4 KRNSSAQYSVQKTSIGSIRMRPYNGSS
   5 KRNSSAQYSVQKTSIGSIRMRPYNGSS
   6 KRNSSAQYSVQKTSIGSIRMRPYNGSS
   7 KRNSSARYSVQKTSIGSIRMRPYNGSS
   8 KRNSSARYSVQKTSIGSIRMRPYNGSS
   9 KRNSSAQYSVQKTSIGSIRMRPYNGSS
  10 KRNSSARYSVQKTSIGSIRMRPYNGSS