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ohmmfetch |
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% ohmmfetch ../ohmmindex-keep/myhmms 7LES_DROME/1799-1891 Extract HMM from a database HMMER hidden markov model output file [outfile.ohmmfetch]: |
Go to the input files for this example
Go to the output files for this example
Extract HMM from a database
Version: EMBOSS:6.4.0.0
Standard (Mandatory) qualifiers:
[-database] string Database name (Any string)
[-name] string Entry name (Any string)
[-outfile] outfile [*.ohmmfetch] HMMER hidden markov model
output file
Additional (Optional) qualifiers: (none)
Advanced (Unprompted) qualifiers: (none)
Associated qualifiers:
"-outfile" associated qualifiers
-odirectory3 string Output directory
General qualifiers:
-auto boolean Turn off prompts
-stdout boolean Write first file to standard output
-filter boolean Read first file from standard input, write
first file to standard output
-options boolean Prompt for standard and additional values
-debug boolean Write debug output to program.dbg
-verbose boolean Report some/full command line options
-help boolean Report command line options and exit. More
information on associated and general
qualifiers can be found with -help -verbose
-warning boolean Report warnings
-error boolean Report errors
-fatal boolean Report fatal errors
-die boolean Report dying program messages
-version boolean Report version number and exit
|
| Qualifier | Type | Description | Allowed values | Default |
|---|---|---|---|---|
| Standard (Mandatory) qualifiers | ||||
| [-database] (Parameter 1) |
string | Database name | Any string | |
| [-name] (Parameter 2) |
string | Entry name | Any string | |
| [-outfile] (Parameter 3) |
outfile | HMMER hidden markov model output file | Output file | <*>.ohmmfetch |
| Additional (Optional) qualifiers | ||||
| (none) | ||||
| Advanced (Unprompted) qualifiers | ||||
| (none) | ||||
| Associated qualifiers | ||||
| "-outfile" associated outfile qualifiers | ||||
| -odirectory3 -odirectory_outfile |
string | Output directory | Any string | |
| General qualifiers | ||||
| -auto | boolean | Turn off prompts | Boolean value Yes/No | N |
| -stdout | boolean | Write first file to standard output | Boolean value Yes/No | N |
| -filter | boolean | Read first file from standard input, write first file to standard output | Boolean value Yes/No | N |
| -options | boolean | Prompt for standard and additional values | Boolean value Yes/No | N |
| -debug | boolean | Write debug output to program.dbg | Boolean value Yes/No | N |
| -verbose | boolean | Report some/full command line options | Boolean value Yes/No | Y |
| -help | boolean | Report command line options and exit. More information on associated and general qualifiers can be found with -help -verbose | Boolean value Yes/No | N |
| -warning | boolean | Report warnings | Boolean value Yes/No | Y |
| -error | boolean | Report errors | Boolean value Yes/No | Y |
| -fatal | boolean | Report fatal errors | Boolean value Yes/No | Y |
| -die | boolean | Report dying program messages | Boolean value Yes/No | Y |
| -version | boolean | Report version number and exit | Boolean value Yes/No | N |
HMMER2.0
NAME 7LES_DROME/1799-1891
ACC
DESC
LENG 85
ALPH Amino
RF yes
CS yes
MAP yes
COM ohmmbuild ../../data/hmm/fn3.slx -sf selex fn3.hmm
COM ohmmcalibrate myhmms -seed 1079460101
NSEQ 109
DATE Fri Jul 15 12:00:00 2011
CKSUM 8440
XT -8455 -4 0 * -8455 -4 0 *
NULT -4 -8455
NULE 595 -1558 85 338 -294 453 -1158 197 249 902 -1085 -142 -21 -313 45 531 201 384 -1998 -644
EVD -7.722639 0.628102
HMM A C D E F G H I K L M N P Q R S T V W Y
m->m m->i m->d i->m i->i d->m d->d b->m m->e
-13 * -6769
1 -1712 -4227 -5498 -865 -4208 -2901 -1274 -566 -2467 395 -3420 -4836 3619 -1858 -4835 -1203 -1345 -131 -4660 -1520 1
P -150 -501 232 46 -382 399 104 -628 211 -461 -722 274 395 44 95 358 118 -368 -296 -251
P -151 -3421 -12973 -19 -6286 -701 -1378 -1013 -7392
2 -626 -5402 1665 -881 -5720 541 -3570 -5469 -3152 -906 -4492 -539 1858 -1555 -2021 1928 -595 -1313 -5587 -1487 3
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -9 -11931 -12973 -894 -1115 -701 -1378 -7406 -7384
3 1982 -5408 -2052 103 -5729 -1682 -3568 -5480 246 -3106 -4497 -1099 2207 785 -341 -15 -969 -591 -5592 -1728 4
P -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
P -9 -11931 -12973 -894 -1115 -701 -1378 -7406 -7375
4 -1926 -4682 -2749 -6731 -4830 -6496 -5599 -144 -6364 -1674 -3977 -6224 3833 -6035 -1363 -5637 -2263 1172 -5463 -5108 5
P -148 -501 232 42 -382 397 104 -620 209 -460 -713 274 394 44 98 358 116 -371 -296 -251
P -133 -3608 -12999 -21 -6130 -701 -1378 -7406 -7366
5 -1312 -699 -1390 365 -156 656 -278 -5500 196 -1273 -1315 -1810 -383 1165 1059 988 1349 -1727 -330 -1786 7
R -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
R -23 -11957 -6753 -894 -1115 -701 -1378 -7406 -7358
6 -952 -5420 1492 -589 -2060 995 -241 -588 -1239 -1246 -4509 2702 -765 546 117 -1666 -1058 -5042 -5603 -1781 8
N -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
N -9 -11943 -12986 -894 -1115 -373 -2136 -7406 -7349
7 -1910 -4186 -1403 -683 554 -5930 -4807 398 -5685 2189 658 -5576 664 -5305 -5486 -5017 -4309 1814 -4661 -4323 9
F -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
F -31 -11957 -6051 -894 -1115 -701 -1378 -7406 -7340
8 -1843 -858 -1320 -329 -1890 -1639 2015 -1004 837 -3190 -4500 -528 -5007 1351 1283 933 1453 118 -5594 -4912 10
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -9 -11935 -12977 -894 -1115 -288 -2468 -7406 -7331
9 1390 190 -6595 -5959 1799 -625 -4670 917 -2544 -64 -175 -5444 -2246 -521 -2424 -1906 -2445 2071 -270 -4193 11
V -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
V -10 -11957 -12999 -894 -1115 -701 -1378 -7406 -7322
10 -1212 -976 -129 110 -5720 -2845 -164 383 351 -777 230 -1215 -2266 -366 198 1223 1864 -91 -385 -1640 12
R -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
[Part of this file has been deleted for brevity]
V -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
V -17 -11290 -12332 -894 -1115 -701 -1378 -7171 -6443
57 -2038 -3436 -5943 -5308 -1145 -5154 -4025 2255 423 1498 1203 -4797 -1707 -478 -1267 -2117 -3548 1450 -3893 -931 75
L -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
L -18 -11291 -12333 -894 -1115 -701 -1378 -7171 -6426
58 622 -4802 1764 1486 -5123 -4302 -2961 -1060 334 -4818 -3891 -420 -4396 1293 1148 487 -3268 -1087 -4985 -429 76
D -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
D -102 -11291 -4156 -894 -1115 -701 -1378 -7171 -6409
59 1265 -231 -1498 1351 -5045 -262 -355 -4796 922 -1073 -3813 778 -4318 877 -34 53 386 -2030 289 -4225 77
Q -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
Q -18 -11207 -12249 -894 -1115 -160 -3250 -7171 -6392
60 -684 813 -5723 -473 532 -2124 -3981 -2958 -121 2114 2840 -1421 -5174 -4409 -926 -4196 -1685 -376 -3915 497 78
K -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
K -18 -11291 -12333 -894 -1115 -701 -1378 -7171 -6375
61 -1812 -4803 1626 -749 -515 -1133 -415 -4875 -1294 -4819 -3892 3181 -793 1470 -1377 -246 -3268 -4425 -4986 -193 79
E -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
E -18 -11291 -12333 -894 -1115 -701 -1378 -7171 -6358
62 -1812 -4808 -1465 33 -1509 2998 1583 -4879 122 -4823 -3897 972 -4400 -1078 -3055 -1613 -682 -4429 -4991 -1114 80
H -149 -500 232 43 -378 398 105 -627 212 -466 -721 275 393 45 98 359 117 -367 -295 -250
H -98 -4229 -12334 -49 -4901 -701 -1378 -7171 -6340
63 -676 -4701 -742 -1422 825 -589 -545 255 1702 -2571 812 -2986 -4424 796 418 -221 1302 -1179 -4912 1028 82
R -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
R -19 -11292 -12334 -894 -1115 -701 -1378 -7171 -6322
64 -3341 -4695 350 1378 -1551 -1973 -2998 477 1265 78 273 -1163 21 504 -1507 -1108 282 114 -19 473 83
L -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
L -19 -11292 -12334 -894 -1115 -701 -1378 -7171 -6304
65 -3605 -3444 -949 -2090 2356 -1177 -4010 1410 -1703 1341 -404 -1673 -747 -4487 -4679 -2139 -1048 1197 -3900 411 84
D -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
D -19 -11292 -12334 -894 -1115 -701 -1378 -7171 -6285
66 -655 -539 1179 279 -1324 1202 -2962 -1895 147 -682 1298 1427 -2056 608 756 -1119 -1893 -4419 -4982 140 85
G -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
G -19 -11292 -12335 -894 -1115 -701 -1378 -7171 -6267
67 -1814 -4814 166 -2636 -5135 2921 -568 -4885 -1333 -2415 -3903 1495 -4406 -312 -619 602 -1672 -4436 -4997 -4314 86
R -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
R -20 -11293 -12335 -894 -1115 -701 -1378 -7171 -6248
68 -3329 1217 -624 -797 -1594 -4303 1580 -4872 2069 -2414 -3890 617 -4396 283 2449 -560 -267 -2067 -4984 -1334 87
V -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
V -20 -11293 -12335 -894 -1115 -701 -1378 -7171 -6229
69 108 566 -1460 747 -1608 -4306 -2965 -30 1407 -2607 -3878 346 1033 -336 863 -1038 745 617 -4975 -4296 88
I -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
I -20 -11293 -12335 -894 -1115 -701 -1378 -7171 -6209
70 -1318 -3465 -283 -172 -3423 -2053 -3974 1957 -4721 1761 1425 -4678 -1762 -4391 -1578 -1974 -1561 1341 -3918 -3570 89
D -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
D -20 -11293 -12336 -894 -1115 -701 -1378 -7171 -6190
71 -1165 -4790 -240 -275 -5105 -4306 1035 -2009 1665 -395 707 -1334 -218 -188 1891 -1077 -383 404 110 348 90
P -149 -500 233 43 -381 398 106 -626 210 -464 -720 275 394 45 96 359 117 -369 -294 -249
P -43 -6001 -12336 -150 -3342 -701 -1378 -7171 -6170
72 -1929 1218 -1535 -1647 -3990 -4677 -3410 1725 207 -1481 -3117 -3608 -810 -1118 -743 -1942 428 2687 -4324 -3869 92
K * * * * * * * * * * * * * * * * * * * *
K * * * * * * * -7171 0
//
|
HMMER2.0
NAME 7LES_DROME/1799-1891
ACC
DESC
LENG 85
ALPH Amino
RF yes
CS yes
MAP yes
COM ohmmbuild ../../data/hmm/fn3.slx -sf selex fn3.hmm
COM ohmmcalibrate myhmms -seed 1079460101
NSEQ 109
DATE Fri Jul 15 12:00:00 2011
CKSUM 8440
XT -8455 -4 0 * -8455 -4 0 *
NULT -4 -8455
NULE 595 -1558 85 338 -294 453 -1158 197 249 902 -1085 -142 -21 -313 45 531 201 384 -1998 -644
EVD -7.722639 0.628102
HMM A C D E F G H I K L M N P Q R S T V W Y
m->m m->i m->d i->m i->i d->m d->d b->m m->e
-13 * -6769
1 -1712 -4227 -5498 -865 -4208 -2901 -1274 -566 -2467 395 -3420 -4836 3619 -1858 -4835 -1203 -1345 -131 -4660 -1520 1
P -150 -501 232 46 -382 399 104 -628 211 -461 -722 274 395 44 95 358 118 -368 -296 -251
P -151 -3421 -12973 -19 -6286 -701 -1378 -1013 -7392
2 -626 -5402 1665 -881 -5720 541 -3570 -5469 -3152 -906 -4492 -539 1858 -1555 -2021 1928 -595 -1313 -5587 -1487 3
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -9 -11931 -12973 -894 -1115 -701 -1378 -7406 -7384
3 1982 -5408 -2052 103 -5729 -1682 -3568 -5480 246 -3106 -4497 -1099 2207 785 -341 -15 -969 -591 -5592 -1728 4
P -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
P -9 -11931 -12973 -894 -1115 -701 -1378 -7406 -7375
4 -1926 -4682 -2749 -6731 -4830 -6496 -5599 -144 -6364 -1674 -3977 -6224 3833 -6035 -1363 -5637 -2263 1172 -5463 -5108 5
P -148 -501 232 42 -382 397 104 -620 209 -460 -713 274 394 44 98 358 116 -371 -296 -251
P -133 -3608 -12999 -21 -6130 -701 -1378 -7406 -7366
5 -1312 -699 -1390 365 -156 656 -278 -5500 196 -1273 -1315 -1810 -383 1165 1059 988 1349 -1727 -330 -1786 7
R -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
R -23 -11957 -6753 -894 -1115 -701 -1378 -7406 -7358
6 -952 -5420 1492 -589 -2060 995 -241 -588 -1239 -1246 -4509 2702 -765 546 117 -1666 -1058 -5042 -5603 -1781 8
N -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
N -9 -11943 -12986 -894 -1115 -373 -2136 -7406 -7349
7 -1910 -4186 -1403 -683 554 -5930 -4807 398 -5685 2189 658 -5576 664 -5305 -5486 -5017 -4309 1814 -4661 -4323 9
F -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
F -31 -11957 -6051 -894 -1115 -701 -1378 -7406 -7340
8 -1843 -858 -1320 -329 -1890 -1639 2015 -1004 837 -3190 -4500 -528 -5007 1351 1283 933 1453 118 -5594 -4912 10
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -9 -11935 -12977 -894 -1115 -288 -2468 -7406 -7331
9 1390 190 -6595 -5959 1799 -625 -4670 917 -2544 -64 -175 -5444 -2246 -521 -2424 -1906 -2445 2071 -270 -4193 11
V -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
V -10 -11957 -12999 -894 -1115 -701 -1378 -7406 -7322
10 -1212 -976 -129 110 -5720 -2845 -164 383 351 -777 230 -1215 -2266 -366 198 1223 1864 -91 -385 -1640 12
R -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
[Part of this file has been deleted for brevity]
Y -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
Y -15 -11962 -13004 -894 -1115 -701 -1378 -7406 -6644
70 -1827 -5418 -2102 1225 -1065 -2710 630 -696 193 -993 -1227 1015 -5031 784 -68 445 1395 673 -5606 -199 99
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -15 -11962 -13005 -894 -1115 -701 -1378 -7406 -6629
71 -1785 -589 -6706 -6075 2739 -2734 -4797 1908 -5675 95 263 -5564 -5962 -5299 -5478 -5006 -4295 2092 -4657 643 100
L -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
L -15 -11963 -13005 -894 -1115 -701 -1378 -7406 -6615
72 -1787 144 -783 -139 -5753 -2709 -260 -1568 913 -5448 -373 39 -5027 1175 2142 801 910 -1336 1128 173 101
W -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
W -15 -11963 -13005 -894 -1115 -701 -1378 -7406 -6600
73 -1872 -5834 -9025 -8676 -1056 -8881 -8673 1755 -8630 359 -1237 -8541 -8490 -8319 -8674 -8265 -6337 3280 -7727 -7464 102
V -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
V -15 -11963 -13005 -894 -1115 -701 -1378 -7406 -6585
74 327 -924 -2319 -1494 -173 -4998 230 316 472 -1019 -4344 -1099 -5088 1874 1193 -1265 439 611 -5469 1668 103
Q -149 -500 233 43 -381 398 105 -626 210 -462 -721 275 394 45 96 359 117 -369 -295 -250
Q -57 -5757 -6631 -86 -4119 -701 -1378 -7406 -6570
75 3012 -4666 -7117 -2715 -5019 -382 -5509 -2260 -6298 -1487 -4254 -5905 -6197 -5917 -6115 536 1246 -967 -5505 -5179 105
A -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
A -16 -11949 -12991 -894 -1115 -357 -2190 -7406 -6555
76 -902 -714 -6363 -469 -141 -5764 290 585 -447 281 -993 -5334 -5816 439 1001 -1825 -1361 2268 -4558 1019 106
H -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
H -16 -11963 -13006 -894 -1115 -701 -1378 -7406 -6539
77 -2376 -795 187 -2095 -5752 -2675 -955 -1144 135 -3116 -4521 2792 -767 -1566 -777 1498 1246 -2809 -5615 251 107
A -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
A -29 -11964 -6762 -894 -1115 -701 -1378 -7406 -6524
78 337 -737 928 157 -2106 1805 -240 -2485 -205 -5436 -4509 308 -2438 892 51 -133 409 -284 -5604 -4921 108
T -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
T -16 -11950 -12993 -894 -1115 -373 -2135 -7406 -6508
79 751 -879 627 278 -2228 932 413 207 367 -1700 -291 502 -2136 495 118 -1224 -556 59 -5609 -760 109
P -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
P -762 -11964 -1325 -894 -1115 -701 -1378 -7406 -6492
80 -1113 -4530 -1626 -702 -1338 3243 -3172 -4385 -2856 -2220 -3677 -1218 -4564 -2783 -3335 -609 475 -4087 -4819 473 110
T -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
T -17 -11219 -12261 -894 -1115 -5668 -29 -7406 -6476
81 -600 -4713 431 610 884 76 -2903 6 -110 -558 -3805 1201 -1380 295 -67 -446 -669 -524 1772 765 111
K -150 -491 229 46 -379 400 102 -630 209 -464 -724 274 390 44 95 360 120 -367 -282 -247
K -462 -1929 -12261 -574 -1607 -3943 -97 -7406 -6459
82 -5380 -6068 -5956 -5195 -7389 3194 -752 -6800 -1418 -2482 -5840 -5064 -706 -4120 -1351 1839 -5345 -6386 -6418 -6291 116
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -17 -11264 -12306 -894 -1115 -270 -2549 -7406 -6443
83 55 -5343 -399 930 -1066 -48 1295 -2492 90 -1643 1044 -891 1912 1116 368 -1154 -891 -1051 -5526 -1841 117
N -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
N -17 -11871 -12913 -894 -1115 -101 -3893 -7406 -6426
84 90 -5310 -3879 1738 8 -1225 -3636 -1523 -271 -615 -1216 -1875 1773 -1639 653 -366 -193 -4902 2379 453 118
S -149 -500 233 43 -381 399 106 -626 210 -466 -720 275 394 45 96 359 117 -369 -294 -249
S -17 -11965 -13007 -894 -1115 -701 -1378 -7406 -6409
85 -1223 -5446 -3828 -1467 -5768 -863 -152 -2326 -1293 -5461 -4537 -3588 -2253 -1611 -424 3277 371 -5069 -5628 -4949 119
S * * * * * * * * * * * * * * * * * * * *
S * * * * * * * -7406 0
//
|
| Program name | Description |
|---|---|
| ehmmalign | Align sequences to an HMM profile |
| ehmmbuild | Build a profile HMM from an alignment |
| ehmmcalibrate | Calibrate HMM search statistics |
| ehmmconvert | Convert between profile HMM file formats |
| ehmmemit | Generate sequences from a profile HMM |
| ehmmfetch | Retrieve an HMM from an HMM database |
| ehmmindex | Create a binary SSI index for an HMM database |
| ehmmpfam | Search one or more sequences against an HMM database |
| ehmmsearch | Search a sequence database with a profile HMM |
| libgen | Generate discriminating elements from alignments |
| ohmmalign | Align sequences with an HMM |
| ohmmbuild | Build HMM |
| ohmmcalibrate | Calibrate a hidden Markov model |
| ohmmconvert | Convert between HMM formats |
| ohmmemit | Extract HMM sequences |
| ohmmindex | Index an HMM database |
| ohmmpfam | Align single sequence with an HMM |
| ohmmsearch | Search sequence database with an HMM |
Please report all bugs to the EMBOSS bug team (emboss-bug © emboss.open-bio.org) not to the original author.