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	12.0	1.4	0.0035	0.21	1	23	278	300
2	13.9	0.9	0.00086	0.052	2	23	308	329
3	10.3	1.1	0.012	0.74	1	23	333	355
4	13.7	2.7	0.001	0.062	1	23	360	383
5	5.3	0.1	0.5	30	1	23	387	410
6	9.2	0.1	0.029	1.7	3	21	423	441
7	12.2	1.8	0.0031	0.19	3	23	456	476
8	3.8	1.7	1.5	88	2	23	497	519
9	16.5	1.8	0.00014	0.0081	1	23	530	552
10	18.3	0.9	3.7e-05	0.0022	1	23	558	580
11	9.5	3.3	0.023	1.4	1	21	586	606
12	24.9	0.2	2.9e-07	1.7e-05	1	23	614	637

  Alignments for each domain:
  == domain 1  score: 12.0 bits;  conditional E-value: 0.0035
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    ykC  C k F + +  ++H ++H
  KWMTBOMO12727 278 YKCQLCYKGFIDTEAWRHHVSKH 300
                    9********************99 PP

  == domain 2  score: 13.9 bits;  conditional E-value: 0.00086
                    EETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHirtH 23 
                    +Cp+C+ +F +k ++++H + H
  KWMTBOMO12727 308 ECPVCKFRFENKRQFQKHASNH 329
                    6*****************9998 PP

  == domain 3  score: 10.3 bits;  conditional E-value: 0.012
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    y C++C+ +  +  + k+H+r H
  KWMTBOMO12727 333 YACNYCDHVSATTTQAKQHQRWH 355
                    88*******************99 PP

  == domain 4  score: 13.7 bits;  conditional E-value: 0.001
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    ykC +C+++ + + ++ +H r+ H
  KWMTBOMO12727 360 YKCQHCDEVSTKWTSYLSHVRMkH 383
                    9********************999 PP

  == domain 5  score: 5.3 bits;  conditional E-value: 0.5
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    + C+ Cg sF ++  L  H  + H
  KWMTBOMO12727 387 FICGACGSSFVSRLGLAMHKTMmH 410
                    78****************988877 PP

  == domain 6  score: 9.2 bits;  conditional E-value: 0.029
                    ETTTTEEESSHHHHHHHHH CS
        zf-C2H2   3 CpdCgksFkrksnLkrHir 21 
                    C +C+  F + + +krH+ 
  KWMTBOMO12727 423 CAECDVQFASLEAYKRHMV 441
                    9****************96 PP

  == domain 7  score: 12.2 bits;  conditional E-value: 0.0031
                    ETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   3 CpdCgksFkrksnLkrHirtH 23 
                    C +Cg++F + ++L++H r+H
  KWMTBOMO12727 456 CRVCGETFGSGHELRAHARRH 476
                    99******************6 PP

  == domain 8  score: 3.8 bits;  conditional E-value: 1.5
                    EETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   2 kCpdCgksFkrksnLkrHirt.H 23 
                    kC+ C++   +  ++ +H r+ H
  KWMTBOMO12727 497 KCDQCSQEVHSAREYWNHFRRtH 519
                    8*******************999 PP

  == domain 9  score: 16.5 bits;  conditional E-value: 0.00014
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    + C++CgksF+ +  L+ H rtH
  KWMTBOMO12727 530 HICDVCGKSFRGNAFLTYHKRTH 552
                    67********************9 PP

  == domain 10  score: 18.3 bits;  conditional E-value: 3.7e-05
                    EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirtH 23 
                    +kC+ Cgk F ++ nL  H ++H
  KWMTBOMO12727 558 FKCETCGKAFHNPGNLYMHEKIH 580
                    8******************9999 PP

  == domain 11  score: 9.5 bits;  conditional E-value: 0.023
                    EEETTTTEEESSHHHHHHHHH CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHir 21 
                    y C++C k Fk k  L rH r
  KWMTBOMO12727 586 YSCSVCFKAFKGKGGLSRHFR 606
                    89*****************77 PP

  == domain 12  score: 24.9 bits;  conditional E-value: 2.9e-07
                    EEETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2   1 ykCpdCgksFkrksnLkrHirt.H 23 
                    y C++Cgk F+++ +Lk+H rt H
  KWMTBOMO12727 614 YDCEICGKAFSQSNSLKVHVRTvH 637
                    89********************99 PP