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	2.3	0.4	4.5	2.7e+02	2	23	6	27
2	19.9	1.5	1.1e-05	0.00067	2	23	1088	1109
3	14.4	2.3	0.0006	0.036	1	23	1115	1137
4	13.6	5.6	0.0011	0.068	2	23	1144	1165
5	6.6	0.2	0.19	11	5	23	1179	1197
6	8.6	2.3	0.044	2.6	2	23	1203	1225
7	6.8	0.2	0.16	9.9	2	23	1235	1255
8	18.4	0.8	3.4e-05	0.0021	1	20	1261	1280
9	17.0	1.2	9.3e-05	0.0056	1	23	1291	1313
10	13.2	7.3	0.0015	0.088	1	23	1319	1341
11	19.4	2.3	1.6e-05	0.00094	1	23	1347	1371
12	13.7	3.5	0.0011	0.064	1	23	1377	1399

  Alignments for each domain:
  == domain 1  score: 2.3 bits;  conditional E-value: 4.5
                   EETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2  2 kCpdCgksFkrksnLkrHirtH 23
                   +Cp+C+    +  +L++H+ tH
  KWMTBOMO03231  6 QCPVCTLYLHNGMSLESHLDTH 27
                   7*****9999999*****9999 PP

  == domain 2  score: 19.9 bits;  conditional E-value: 1.1e-05
                     EETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    2 kCpdCgksFkrksnLkrHirtH 23  
                     +C  Cgk+F r+ nL  Hi+tH
  KWMTBOMO03231 1088 ECMTCGKCFYRRANLALHIKTH 1109
                     6********************9 PP

  == domain 3  score: 14.4 bits;  conditional E-value: 0.0006
                     EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    1 ykCpdCgksFkrksnLkrHirtH 23  
                     ykC++C k+F ++  L+ H ++H
  KWMTBOMO03231 1115 YKCDVCEKRFITRQKLTEHHNIH 1137
                     9*******************999 PP

  == domain 4  score: 13.6 bits;  conditional E-value: 0.0011
                     EETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    2 kCpdCgksFkrksnLkrHirtH 23  
                     kC++C+++Fkr sn+ +H+ +H
  KWMTBOMO03231 1144 KCTHCDETFKRYSNMLQHRDRH 1165
                     8*******************96 PP

  == domain 5  score: 6.6 bits;  conditional E-value: 0.19
                     TTTEEESSHHHHHHHHHCC CS
        zf-C2H2    5 dCgksFkrksnLkrHirtH 23  
                     +Cg +F ++  L+ H+ tH
  KWMTBOMO03231 1179 ECGLVFASRARLRWHRETH 1197
                     6****************99 PP

  == domain 6  score: 8.6 bits;  conditional E-value: 0.044
                     EETTTTEEESSHHHHHHHHHC.C CS
        zf-C2H2    2 kCpdCgksFkrksnLkrHirt.H 23  
                      C  C+ +F +  +L+rH+r+ H
  KWMTBOMO03231 1203 ACALCSDKFVHAASLTRHLRRtH 1225
                     699******************99 PP

  == domain 7  score: 6.8 bits;  conditional E-value: 0.16
                     EETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    2 kCpdCgksFkrksnLkrHirtH 23  
                     +Cp+C++ +  + nL++H++tH
  KWMTBOMO03231 1235 PCPVCKQLY-IRTNLRAHMQTH 1255
                     599999999.999********9 PP

  == domain 8  score: 18.4 bits;  conditional E-value: 3.4e-05
                     EEETTTTEEESSHHHHHHHH CS
        zf-C2H2    1 ykCpdCgksFkrksnLkrHi 20  
                     ++C +C+ksF++k nLk H+
  KWMTBOMO03231 1261 FPCVICNKSFTTKWNLKLHR 1280
                     89*****************7 PP

  == domain 9  score: 17.0 bits;  conditional E-value: 9.3e-05
                     EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    1 ykCpdCgksFkrksnLkrHirtH 23  
                     +kC+ C+  F r+s++++H++ H
  KWMTBOMO03231 1291 FKCHLCKGAFIRQSEYVSHMNAH 1313
                     8*******************998 PP

  == domain 10  score: 13.2 bits;  conditional E-value: 0.0015
                     EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    1 ykCpdCgksFkrksnLkrHirtH 23  
                     y+C++Cg +F rk+n +rH r H
  KWMTBOMO03231 1319 YTCNYCGCKFIRKYNCQRHVREH 1341
                     9********************99 PP

  == domain 11  score: 19.4 bits;  conditional E-value: 1.6e-05
                     EEET..TTTEEESSHHHHHHHHHCC CS
        zf-C2H2    1 ykCp..dCgksFkrksnLkrHirtH 23  
                     ++C+  +CgksF r++ L  H+++H
  KWMTBOMO03231 1347 FVCKvqECGKSFHRSYYLSEHMKVH 1371
                     89*********************99 PP

  == domain 12  score: 13.7 bits;  conditional E-value: 0.0011
                     EEETTTTEEESSHHHHHHHHHCC CS
        zf-C2H2    1 ykCpdCgksFkrksnLkrHirtH 23  
                     + C++Cgk+ ++ksn ++Hi++H
  KWMTBOMO03231 1377 FACNICGKTSSNKSNHNKHIKIH 1399
                     78********************6 PP