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	14.5	0.2	0.00059	0.035	1	23	183	206
2	5.9	0.6	0.3	18	1	23	212	234
3	6.9	3.4	0.15	8.9	1	23	238	261
4	8.7	0.9	0.041	2.4	3	22	295	314
5	16.0	1.4	0.0002	0.012	1	23	329	351
6	13.9	1.5	0.00092	0.055	3	22	363	382
7	10.0	1.7	0.016	0.94	1	23	423	445
8	8.1	0.9	0.061	3.7	2	22	454	474
9	15.6	0.4	0.00026	0.016	1	23	486	509
10	17.0	4.3	9.6e-05	0.0057	1	23	515	538
11	11.5	3.6	0.0052	0.31	3	23	547	568
12	9.8	5.5	0.017	1	1	23	574	597

  Alignments for each domain:
  == domain 1  score: 14.5 bits;  conditional E-value: 0.00059
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    +kC++C + F+++++L+ H  + H
  KWMTBOMO06196 183 FKCEKCVEAFPNQEDLNDHNLKkH 206
                    8******************88877 PP

  == domain 2  score: 5.9 bits;  conditional E-value: 0.3
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    + C +C   F +   L  H ++H
  KWMTBOMO06196 212 FSCLVCECYFGTAAALSYHANKH 234
                    89*******************99 PP

  == domain 3  score: 6.9 bits;  conditional E-value: 0.15
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    y+C  C  +F +ks   +H  + H
  KWMTBOMO06196 238 YQCRSCRTRFGTKSKVLSHHAReH 261
                    9******************99988 PP

  == domain 4  score: 8.7 bits;  conditional E-value: 0.041
                    ETTTTEEESSHHHHHHHHHC CS
        zf-C2H2   3 CpdCgksFkrksnLkrHirt 22 
                    C  C+++F++   +k+H+++
  KWMTBOMO06196 295 CVPCNRTFSSIATFKQHMKM 314
                    666***************96 PP

  == domain 5  score: 16.0 bits;  conditional E-value: 0.0002
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    y C++C k+F+   +L++H+ tH
  KWMTBOMO06196 329 YSCEICEKKFRWTTSLRKHMETH 351
                    89********************9 PP

  == domain 6  score: 13.9 bits;  conditional E-value: 0.00092
                    ETTTTEEESSHHHHHHHHHC CS
        zf-C2H2   3 CpdCgksFkrksnLkrHirt 22 
                    C+ C  sF+++ nL++H +t
  KWMTBOMO06196 363 CESCRLSFTTSANLRKHVKT 382
                    99***************987 PP

  == domain 7  score: 10.0 bits;  conditional E-value: 0.016
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ++Cp+C+k+F  + nL rH+++H
  KWMTBOMO06196 423 HYCPECDKKFLWRGNLLRHLKSH 445
                    68*******************99 PP

  == domain 8  score: 8.1 bits;  conditional E-value: 0.061
                    EETTTTEEESSHHHHHHHHHC CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHirt 22 
                    +C  C+++F++   +k+H+++
  KWMTBOMO06196 454 VCVPCNRKFSSIATFKQHMKM 474
                    5777***************96 PP

  == domain 9  score: 15.6 bits;  conditional E-value: 0.00026
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    y C+dCg +F +k  Lk Hi+  H
  KWMTBOMO06196 486 YMCSDCGNKFVNKTRLKDHINWeH 509
                    89******************9888 PP

  == domain 10  score: 17.0 bits;  conditional E-value: 9.6e-05
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    ++C+dC+k+Fk++ +L  H+++ H
  KWMTBOMO06196 515 HRCSDCKKVFKTRTSLYLHRQMvH 538
                    79******************9988 PP

  == domain 11  score: 11.5 bits;  conditional E-value: 0.0052
                    ETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   3 CpdCgksFkrksnLkrHirt.H 23 
                    C++Cgk+F+++  L  Hi   H
  KWMTBOMO06196 547 CDHCGKRFPSQARLHYHITAlH 568
                    *****************98766 PP

  == domain 12  score: 9.8 bits;  conditional E-value: 0.017
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    ykC+ C+ +F+  s L+rH rt H
  KWMTBOMO06196 574 YKCTTCSARFSWHSCLTRHVRTiH 597
                    9*********************99 PP