HMM length of domain: 23 aa

c-Evalue (conditional Evalue): It is an attempt to measure the statistical significance of each domain, given that we’ve already decided that the target sequence is a true homolog. It is the expected number of additional domains we’d find with a domain score this big in the set of sequences reported in the top hits list, if those sequences consisted only of random nonhomologous sequence outside the region that sufficed to define them as homologs.
i-Evalue (independent Evalue): The significance of the sequence in the whole database search, if this were the only domain we had identified. 
Domain annotation for each sequence:
#	score	bias	c-Evalue	i-Evalue	hmmfrom	hmm to	alifrom	ali to
--	-----	----	--------	--------	-------	------	-------	------
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
1	20.9	0.3	5.4e-06	0.00032	1	23	6	28
2	23.0	1.2	1.1e-06	6.8e-05	1	23	37	59
3	19.1	0.5	2.1e-05	0.0012	3	23	67	87
4	6.9	12.4	0.15	8.9	1	23	93	115
5	29.5	1.5	9.6e-09	5.8e-07	1	23	121	143
6	21.6	1.7	3.3e-06	0.0002	1	23	149	171
7	22.2	0.8	2.1e-06	0.00013	1	23	177	198
8	5.7	4.1	0.35	21	1	23	204	226
9	22.4	3.1	1.7e-06	0.0001	1	23	232	254

  Alignments for each domain:
  == domain 1  score: 20.9 bits;  conditional E-value: 5.4e-06
                   EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2  1 ykCpdCgksFkrksnLkrHirtH 23
                   y C+ Cgk+F   + L+rH r+H
  KWMTBOMO07397  6 YSCETCGKPFAELYALRRHSRVH 28
                   89*******************99 PP

  == domain 2  score: 23.0 bits;  conditional E-value: 1.1e-06
                   EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2  1 ykCpdCgksFkrksnLkrHirtH 23
                   ykC+ C+k+++++s L +H ++H
  KWMTBOMO07397 37 YKCHLCDKRYSDSSALAAHVQRH 59
                   9*********************9 PP

  == domain 3  score: 19.1 bits;  conditional E-value: 2.1e-05
                   ETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2  3 CpdCgksFkrksnLkrHirtH 23
                   C+ Cgk F++  +L +H+r+H
  KWMTBOMO07397 67 CDTCGKGFPSARLLASHRRVH 87
                   ********************9 PP

  == domain 4  score: 6.9 bits;  conditional E-value: 0.15
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    + C +C+k+F++ s+ ++H rtH
  KWMTBOMO07397  93 HACRYCHKRFRHESSRNTHHRTH 115
                    56********************9 PP

  == domain 5  score: 29.5 bits;  conditional E-value: 9.6e-09
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++C+ C+k+F ++snL++H+rtH
  KWMTBOMO07397 121 FVCSQCPKTFIQSSNLRQHMRTH 143
                    89********************9 PP

  == domain 6  score: 21.6 bits;  conditional E-value: 3.3e-06
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++C++Cg sF+++s Lk+H r+H
  KWMTBOMO07397 149 HTCKVCGNSFSSSSTLKAHERVH 171
                    79*******************99 PP

  == domain 7  score: 22.2 bits;  conditional E-value: 2.1e-06
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    y+C++Cgk+F ++ nL++H+ tH
  KWMTBOMO07397 177 YQCNVCGKRF-SRMNLRAHMATH 198
                    9*********.***********9 PP

  == domain 8  score: 5.7 bits;  conditional E-value: 0.35
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++C++C+k+F     L+ H r+H
  KWMTBOMO07397 204 HECSVCHKRFLYLTRLRDHARVH 226
                    78*******************99 PP

  == domain 9  score: 22.4 bits;  conditional E-value: 1.7e-06
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++C+ C + F++ks+L+rH ++H
  KWMTBOMO07397 232 FVCENCQQAFPTKSHLVRHVKSH 254
                    89********************6 PP