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	9.0	0.1	0.032	1.9	1	20	117	136
2	14.3	0.9	0.00069	0.041	1	23	176	198
3	10.0	0.4	0.015	0.9	3	20	230	247
4	9.5	1.7	0.023	1.4	2	21	483	502
5	10.6	0.2	0.0099	0.59	3	21	532	550
6	3.1	0.1	2.4	1.4e+02	2	23	579	600
7	11.0	1.5	0.0075	0.45	1	23	606	628
8	6.2	1.4	0.26	15	1	23	667	690
9	6.2	0.6	0.24	15	3	20	728	745

  Alignments for each domain:
  == domain 1  score: 9.0 bits;  conditional E-value: 0.032
                    EEETTTTEEESSHHHHHHHH CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHi 20 
                    y C+ Cg ++++ s L++H+
  KWMTBOMO01701 117 YICNPCGIRYSSLSTLQAHQ 136
                    78999**************8 PP

  == domain 2  score: 14.3 bits;  conditional E-value: 0.00069
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    y C+ C++s   k +L+rH+r+H
  KWMTBOMO01701 176 YACTLCSYSADKKVSLNRHMRMH 198
                    88********************9 PP

  == domain 3  score: 10.0 bits;  conditional E-value: 0.015
                    ETTTTEEESSHHHHHHHH CS
        zf-C2H2   3 CpdCgksFkrksnLkrHi 20 
                    C+dC+ +F++   +++H 
  KWMTBOMO01701 230 CTDCDIRFSSTKTYRAHK 247
                    *****************6 PP

  == domain 4  score: 9.5 bits;  conditional E-value: 0.023
                    EETTTTEEESSHHHHHHHHH CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHir 21 
                    kC++C+ +F+  +n+++H +
  KWMTBOMO01701 483 KCKECNIVFCMYENYRVHKQ 502
                    8*****************86 PP

  == domain 5  score: 10.6 bits;  conditional E-value: 0.0099
                    ETTTTEEESSHHHHHHHHH CS
        zf-C2H2   3 CpdCgksFkrksnLkrHir 21 
                    C  Cg  F++ +nL++H++
  KWMTBOMO01701 532 CLACGIHFSSLDNLTTHQS 550
                    888**************96 PP

  == domain 6  score: 3.1 bits;  conditional E-value: 2.4
                    EETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHirtH 23 
                    kCp C+ + ++    +rH+  H
  KWMTBOMO01701 579 KCPCCDVVSPTAAAAQRHMEAH 600
                    7999***************887 PP

  == domain 7  score: 11.0 bits;  conditional E-value: 0.0075
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++C++C ++ ++   +++Hir+H
  KWMTBOMO01701 606 FRCTICRYRGNTLRGMRTHIRMH 628
                    89********************9 PP

  == domain 8  score: 6.2 bits;  conditional E-value: 0.26
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    ++C+ C ++ + + n +rH r  H
  KWMTBOMO01701 667 HRCSSCAYTSTYRGNVVRHARLvH 690
                    79*******************999 PP

  == domain 9  score: 6.2 bits;  conditional E-value: 0.24
                    ETTTTEEESSHHHHHHHH CS
        zf-C2H2   3 CpdCgksFkrksnLkrHi 20 
                    C+ C+ sFk    +k+H 
  KWMTBOMO01701 728 CKSCDISFKYVNTYKAHK 745
                    ****************96 PP