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	14.4	0.7	0.0006	0.036	1	23	333	355
2	10.2	5.8	0.013	0.78	1	23	362	384
3	4.4	2.2	0.96	58	1	23	389	411
4	11.5	1.9	0.0053	0.31	1	23	416	439
5	10.1	0.8	0.015	0.89	1	23	443	466
6	9.5	0.1	0.022	1.3	3	21	480	498
7	6.3	0.6	0.23	14	2	23	555	577
8	11.7	0.6	0.0045	0.27	2	20	593	611
9	17.0	2.6	9.5e-05	0.0057	1	23	620	642
10	17.0	2.1	9.5e-05	0.0057	3	23	651	671
11	16.4	1.8	0.00014	0.0084	1	23	677	700

  Alignments for each domain:
  == domain 1  score: 14.4 bits;  conditional E-value: 0.0006
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    +kC++C k F + + + +H+ +H
  KWMTBOMO06134 333 FKCDECFKGFQDADAYSSHMTRH 355
                    8*********************9 PP

  == domain 2  score: 10.2 bits;  conditional E-value: 0.013
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++C +C   F++++ L++H+  H
  KWMTBOMO06134 362 HQCLVCRIYFRNQHALRKHMTAH 384
                    79******************985 PP

  == domain 3  score: 4.4 bits;  conditional E-value: 0.96
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    + C+ C+ + +++   + H r H
  KWMTBOMO06134 389 FSCKQCPFVTNHRQTARLHERWH 411
                    89*****************9998 PP

  == domain 4  score: 11.5 bits;  conditional E-value: 0.0053
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    y+Cp+C++ F     ++ H+r+ H
  KWMTBOMO06134 416 YRCPHCPEEFVKFTTYMGHLRIkH 439
                    9********************999 PP

  == domain 5  score: 10.1 bits;  conditional E-value: 0.015
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    ++C+ Cg++F +    + H +  H
  KWMTBOMO06134 443 FVCELCGYCFVSAKGIMLHKQLkH 466
                    89***************9999888 PP

  == domain 6  score: 9.5 bits;  conditional E-value: 0.022
                    ETTTTEEESSHHHHHHHHH CS
        zf-C2H2   3 CpdCgksFkrksnLkrHir 21 
                    C+ C+ +F +++ + rH+ 
  KWMTBOMO06134 480 CEQCDVRFVSPDAYDRHMI 498
                    *****************96 PP

  == domain 7  score: 6.3 bits;  conditional E-value: 0.23
                    EETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHirt.H 23 
                    +C+ Cg    ++  + +H r+ H
  KWMTBOMO06134 555 PCEQCGLQLDDPRAYHKHFRRmH 577
                    6********************99 PP

  == domain 8  score: 11.7 bits;  conditional E-value: 0.0045
                    EETTTTEEESSHHHHHHHH CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHi 20 
                     C++Cg++F ++ +L+ H+
  KWMTBOMO06134 593 MCEVCGRMFQSQALLNDHR 611
                    6*****************6 PP

  == domain 9  score: 17.0 bits;  conditional E-value: 9.5e-05
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    +kC++C+k+F+ +  L++H+r+H
  KWMTBOMO06134 620 FKCEVCDKTFRMRQRLMTHRRVH 642
                    8*********************9 PP

  == domain 10  score: 17.0 bits;  conditional E-value: 9.5e-05
                    ETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   3 CpdCgksFkrksnLkrHirtH 23 
                    C  Cgk F+++sn +rH+ +H
  KWMTBOMO06134 651 CALCGKHFSSQSNRQRHMFIH 671
                    999***************998 PP

  == domain 11  score: 16.4 bits;  conditional E-value: 0.00014
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    ykC+ Cgk Fk+ s+ ++Hi   H
  KWMTBOMO06134 677 YKCEMCGKGFKHTSEKRAHITYvH 700
                    9*******************8877 PP